CID Bio-Science CI-340 Operation Manual

Table of Contents

Introduction ................................................................................................................................................... 1

Infrared Gas Analysis (IRGA) ................................................................................................................ 1

Dispersive and Non-Dispersive IRGA .................................................................................................... 2

Photosynthesis Measurement Using IRGA............................................................................................. 2

Technical Information ................................................................................................................................... 3

Main Components of Gas Exchange Systems ........................................................................................ 4

Highlights of CI-340 ............................................................................................................................... 4

General Operating Instructions ...................................................................................................................... 7

Using the Keypad .................................................................................................................................... 7

File Menu ................................................................................................................................................ 8

Installation of the Battery ........................................................................................................................ 9

Interpretation of Parameters .................................................................................................................. 11

System Setup and Calibration ..................................................................................................................... 12

Calendar and Time Setup ...................................................................................................................... 13

Leaf/Air Temperature Sensor ............................................................................................................... 13

Atmospheric Pressure ........................................................................................................................... 13

Flow Rate .............................................................................................................................................. 14

CO2 and H2O General Overview ......................................................................................................... 15

CO2 Zero and CO2 Span Procedure ..................................................................................................... 17

H2O Zero and H2O Span Procedure .................................................................................................... 18

Data Transfer ............................................................................................................................................... 19

Downloading Data ................................................................................................................................ 20

Updating Software ................................................................................................................................ 21

Example of a Data File ......................................................................................................................... 22

Photosynthesis, Transpiration and Stomatal Conductance .......................................................................... 23

Taking Measurements ........................................................................................................................... 23

Closed and Open Systems ..................................................................................................................... 26

Terminology: ............................................................................................................................................... 28

Absolute, Differential and Continuous Mode ....................................................................................... 28

Photosynthesis ...................................................................................................................................... 28

Photosynthetic Active Radiation (PAR) ............................................................................................... 29

Transpiration ......................................................................................................................................... 29

Stomatal Conductance .......................................................................................................................... 30

Open and Closed Systems ..................................................................................................................... 30

Calibrating ............................................................................................................................................ 34

DATA DISPLAY SCREENS...................................................................................................................... 36

GRAPH MODE ........................................................................................................................................... 36

CARE OF THE CI-340 ............................................................................................................................... 37

LEAF CHAMBER CARE AND USE .................................................................................................. 38

RECHARGING .................................................................................................................................... 41

EQUATIONS .............................................................................................................................................. 44

TROUBLESHOOTING .............................................................................................................................. 46

SYSTEM SPECIFICATIONS..................................................................................................................... 48

CO2 Analyzer: ...................................................................................................................................... 48

H2O Analyzer ....................................................................................................................................... 48

PAR Sensor ........................................................................................................................................... 49

Chamber Temperature Measurement .................................................................................................... 49

Leaf Temperature Measurement ........................................................................................................... 49

POWER PACK ..................................................................................................................................... 50

ACCESSORY CONTROL PORT AND CABLE ....................................................................................... 51

TROUBLESHOOTING .............................................................................................................................. 52

Technical Support ................................................................................................................................. 52

Customer Service .................................................................................................................................. 52

FAQs ..................................................................................................................................................... 52

APPENDIX A ............................................................................................................................................. 53

CI-510CS TEMPERATURE CONTROL MODULE .......................................................................... 53

APPENDIX B .............................................................................................................................................. 58

CI-301LA LIGHT ATTACHMENT .................................................................................................... 58

APPENDIX C .............................................................................................................................................. 61

CI-301AD ADJUSTABLE H2O AND CO2 CONTROL MODULE .................................................. 61

APPENDIX D ............................................................................................................................................. 66

CI-301SR SOIL RESPIRATION CHAMBER ..................................................................................... 66

APPENDIX E .............................................................................................................................................. 68

CANOPY CHAMBER ASSEMBLY INSTRUCTIONS ..................................................................... 68

APPENDIX F .............................................................................................................................................. 73

CI-510CF CHLOROPHYLL FLUORESCENCE MODULE .............................................................. 73

Warranty Information .................................................................................................................................. 76

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Introduction

The CI-340 Hand-held Photosynthesis System is the smallest, fastest and highly accurate infrared gas
analyzer available for both field and laboratory photosynthesis measurements. The CI-340 is
lightweight and utilizes a compact solid-state design concept in which the entire system (display,
keypad, computer, data memory, CO2/H2O gas analyzer, flow control system and battery) is contained
in a single, hand-held durable case. Measurements of photosynthesis, transpiration, stomatal
conductance and internal CO2 can be taken with minimal sample degradation because the chamber is
connected directly to the CO2/H2O differential gas analyzer. The short distance between the analyzer
and the leaf chamber decreases the possibility of leaks, water vapor change, or temperature change,
therefore keeping the integrity of the sample high. The unit is designed to perform several
measurements, such as photosynthesis and transpiration rates and stomatal conductance, as well as
measure the absolute and differential CO2 concentrations of a leaf or plant. The unit can also be
calibrated easily by the user to ensure quality measurements and data, which can be easily transferred
to a computer using the included USB connector. The functions of the CI-340 are described in further
detail in Table 1 and the following sections.

Table 1: Several different functions of the CI-340 with descriptions of each measurement.

Function

Description

Photosynthesis Rate

Rate at which a known area of leaf assimilates CO2 over time

Transpiration Rate

Rate at which water vapor accumulates on a leaf over time

Stomatal Conductance

Overall water loss of the leaf, determined using transpiration

rate and leaf surface temperature

Absolute Mode

Measures CO2 concentration (ppm) from a single source (intake

of the instrument)

Calibration

Allows user to check or adjust unit to known standards,

increasing data quality

Data Transfer

Transfers saved data files from unit to a computer

Infrared Gas Analysis (IRGA)

Infrared gas analysis (IRGA) measures heteroatomic trace gases based on the absorption wavelength of
infrared (IR) light as it passes through an air sample. Heteroatomic gas molecules consist of two or
more different atoms (e.g. CO2, H2O, NH3, CO, NO, N2O). Monatomic gas molecules consist of a single
atom (e.g. O2, N2) and do not absorb IR radiation or interfere with determining the concentration of
heteroatomic gases using infrared light. Carbon dioxide (CO2) strongly absorbs intermediate infrared
wavelengths. Infrared gas analyzers (IRGAs) measure the reduction in the transmission of infrared
wavelengths caused by the presence of a gas between the radiation source and a detector. The
measured reduction in transmission is a function of the concentration of the gas. IRGAs are commonly
used to measure carbon dioxide and water concentrations, as well as photosynthesis. There are two
main types of IRGA, dispersive and non-dispersive, which differ according to the specificity of the gas
type that is being measured.

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Dispersive and Non-Dispersive IRGA

Infrared gas analyzers can be either dispersive or non-dispersive. Dispersive infrared analyzers
sequentially apply monochromatic radiation, which determines the concentration of various gas
species in a complex mixture of gases. In contrast, non-dispersive analyzers assay the concentration of
a particular species of gas.

Non-dispersive analyzers are commonly used for photosynthesis measurements and function by using
broad-spectrum infrared radiation, made selective for CO2 by the use of filters in the optical path.
Typically, detectors designed for CO2 exhibit cross-sensitivity to the absorption spectrum of water
vapor. Although filters can minimize this interference, it is necessary to correct the apparent CO2
concentration if there is significant water vapor in the airstream at the intake of the analyzer.
Alternatively, water vapor may be condensed or chemically removed just before the airstream enters
the analyzer.

Photosynthesis Measurement Using IRGA

Photosynthesis is the process by which higher plants transform sunlight into chemical energy. During
this process, plants produce carbohydrates from carbon dioxide and water. This occurs in the presence
of chlorophyll by converting light energy to chemical energy. Measuring photosynthesis is important in
comparing and understanding productivity and biomass accumulation at the leaf, plant and community
(canopy) level as well as in quantifying plant response to environmental stresses and variables, such as
light and temperature.

Most photosynthesis meters are based on the concept of gas exchange on the leaf and typically measure
carbon dioxide and water vapor concentrations. The uptake of CO2 and the release of H2O both use the
stomata as their pathway; therefore most photosynthesis measurements include an estimation of
photosynthetic rate (CO2 uptake) and transpiration rate, as well as stomatal conductance.

Carbon dioxide uptake is measured using an IRGA by comparing the CO2 concentration of gas passing
into a chamber surrounding a leaf/plant and the CO2 leaving the chamber. The CO2 concentration of the
gas initially passing into the chamber is measured, and then the gas is pumped through the chamber at
a known flow rate. The concentration in the effluent gas from the chamber is measured using the IRGA
and the difference between this and the input gas is used to measure photosynthetic rate (or
respiration rate if a greater CO2 concentration is measured in the effluent gas stream).

Net photosynthesis (Pn) can be determined using the IRGA measurements of the change in CO2. IRGAs
can also be used to measure environmental responses and photosynthetic capacity and determine
other parameters, such as instantaneous gas flux measurements, gas exchange over time (such as for
diurnal cycles), photosynthesis-light response curves, photosynthesis-temperature response curves
and photosynthesis-CO2 response curves.

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Technical Information

The CI-340 is a highly technologically advanced photosynthesis system. It contains a pump along with a
mass airflow sensor. A built-in microprocessor regulates the airflow rate, which is set by the user.
Specifically, the CI-340 is a non-dispersive IRGA in which the infrared light is shone through the gas in
the sampling chamber and then focused on a detector. The energy received at the detector is the total
energy entering the system minus the energy absorbed by the CO2 in the sampling chamber. A
technical diagram (Figure 1) illustrates a flow chart for this instrument. An illustration of the CI-340
can be found in Figure 2.

The measurement process starts with the gas or air sample passing a solid-state CO2 analyzer. The
output of the analyzer is amplified, sampled by an analog-to-digital (A-D) converter, and sent to the
microprocessor. The processor averages these readings and corrects them for any non-linearity
present in the analyzer. A relative value of CO2 concentration is continually updated by the
microprocessor. Each reading reflects a sample being taken every second during a specified time
period. This can be determined by setting the time interval. The rate at which samples are saved in

memory is determined by the “sampling rate” or the time interval input at the beginning of each

measurement session. If you listen carefully during analysis, you can hear the valves switching from
reading the “in” values to the “out” values and the sample number or count will increase by one.

Inlet

Outlet

Figure 1: The pathway of airflow through the CI-340 during measurement. The top figure illustrates

the valve placement and air flow during an “in” reading and the lower figure illustrates the valve
placement and air flow during and “out” reading.

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When initially performing a measurement, the CI-340 takes gas from the inlet or intake where air is
coming in through a filter. This air is moved through the pump and then next through the flow sensor
where the flow rate is regulated. After that, because the device is measuring in, inlet gas is directed
through the analyzer and then enters into the leaf chamber. The gas leaves the leaf chamber and is
directly exhausted.

The CI-340 will measure the “in” for approximately 20 seconds plus the number of seconds entered for
the time interval. The extra 20 seconds allows the machine to clean out any residual gases that are in
the analyzer and to let the analyzer stabilize. Every time something is changed on the CI-340, the

stability is disturbed and the machine should be allowed a few seconds to stabilize. Once the “in” is

measured, all the valves switch to other position. Now the inlet gas goes straight to the leaf chamber,
and the output of the leaf chamber now goes to the analyzer to be measured before it gets exhausted.
Figure 1 illustrates the pathways of air flow through the CI-340 during both “in” and “out”
measurements.

CAUTION: When attaching a pressurized gas source to the external inlet, use a three-way fitting

(which is provided with each instrument) to allow excess gas to escape. Excess pressure may blow
out internal fittings and tubing, or damage the pump. Do not use a three-way fitting for non­pressurized gas sources.

Main Components of Gas Exchange Systems

There are several main components making up the CI-340. Each of these components needs to be
functioning properly in order for the combined operation of all the components to produce stable and
accurate photosynthetic measurements. Components include the gas exchange or leaf chamber, the
infrared gas analyzer, the pump and mass airflow sensor, and the flow sensor or meter. Other basic
components include filters, gas lines, the display (LCD) screen, the keypad, and the power source or
battery. The CI-340 utilizes a built-in microprocessor to regulate the airflow rate, which is determined
by the user in the range of 0.2 lpm to 1.01 lpm, with the default setting at 0.3 lpm.

Several things can affect the performance and accuracy of photosynthesis measurement systems, such
as leaf chamber architecture and leaf chamber seal quality. The CI-340 has various leaf chamber
attachments for use with different leaf types and whole plants. The leaf chambers are made from
materials which have a low adsorption of water and CO2 in order to provide tight seals and accurate
readings. A common problem with infrared gas analyzers is poor discrimination between CO2 and H2O
(water vapor) because both gasses absorb energy at similar wavelengths. This problem is relieved by
using a desiccant to dry the gas sample to a stable (constant) water vapor content before reaching the
analyzer. The CI-340 also allows precise control of temperature, CO2 concentration, humidity and light
when taking measurements through use of the accessories. The CI-340 also includes computer
software programs giving the user instant access to data in the field. This allows the user to detect and
correct any errors during the measurement.

Highlights of CI-340

The CI-340 is the most sensitive and most stable hand-held IRGA photosynthesis system. It is also
small and very light-weight. The CI-340 is easy to calibrate, remains stable longer after calibration and
warms up faster than previous IRGA models. This is because the CI-340 incorporates a single IRGA to
perform both intake and outtake measurements. Using a single IRGA to measure (versus two or more),

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gives the users less drift in measurements because the equations are based on differentials. With fewer
components involved, there are fewer errors and less instrument drift.

The CI-340 can measure chlorophyll fluorescence and photosynthesis simultaneously, has modular
attachments for light and temperature control, CO2/H2O supply and chlorophyll fluorescence, as well as
addition attachment capabilities for soil respiration and plant canopy photosynthesis measurements.

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Figure 2: Parts of the CI-340

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General Operating Instructions

This section will familiarize you with start-up procedures and guide you on how to move from one
function to another. Specific instructions for each separate function will be found under their individual
heading in the main body of the manual.

For greatest accuracy, the instrument should be turned on 30 minutes prior to any calibrations to allow
it to be fully warmed up. Measurements can be made about 3 minutes after the displayed CO2 value
starts to drop from its maximum.

1. The instrument needs to warm up awhile before it is used to measure. The warm up is

measured from the time the instrument is powered on (it does not matter if it is measuring or

not). A warm up of about 4 minutes would be the minimum time to get measurements and

about 20 minutes for more precise measurements.

2. It is best to put the leaf into the chamber before you start the measurement so the leaf has time

to acclimate to the leaf chamber conditions and the instrument has time to react to the changes

the leaf causes. The "Working" display is a period that the instrument uses to stabilize

itself. The actual measurement starts when the display changes from "Working".

3. Variations in the CO

2

readings or Pn readings can often be caused by changes in the air stream
going into the instrument. The CO2 content of the stream must be very stable. Some
researchers use a long tube to get the intake away from human activity. Some use compressed
air (with a pressure regulator and a T in the hose). Some use a volume buffer (a 2 liter bottle or
larger with the hose from the instrument drawing air from inside that is vented to allow outside
air in) that will average out CO2 changes over time. If the experiments are done near a road
with vehicles, it is difficult to get stable CO2 readings. If you do not have a source of compressed
air, you may try putting several volume buffers in series (the instrument draws from the first
bottle that draws from the second which then draws from the third which is vented) The
instrument is sensitive enough to detect fires that are hundreds of meters away if they are
upwind.

4. The flow rate can be reduced when the photosynthesis is minimal. Try 0.3 lpm for most

situations and 0.25 lpm if the readings are low.

Using the Keypad

The keypad for the CI-340 consists of 20 keys to enter commands and data. Figure 3-1 illustrates the
keypad. Pressing a key makes a “beeping” sound. A key should be pressed individually each time a
command or letter is asked for. Refer to the TROUBLESHOOTING chapter if problems occur.

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Figure 3: CI-340 Keypad

These characters are not usable: [ +,-,(,*,/,) ]

File Menu

The CI-340 has a file system that allows a great range of data to be stored internally. It has been
designed to emulate the familiar DOS of personal computers. Note that this menu will not be accessible

when there are no files stored in memory; the message “no files” on the top display line will be briefly

displayed when this situation occurs.

 To use the File Menu or check if any files are stored, press the key when

“ENTER file menu” is displayed.

 Press the key to access the “file menu” when the instrument is first turned

on.

 Use the and keys to view all stored files. Pressing the key will

exit this menu.

Enter File menu 13:05:49

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Files are stored in chronological order, with the names and data affiliated accordingly. Up to 1200 files
or 4 MB of data are allowed for storage. Be sure to transfer important data before deleting it from the
CI-340. Refer to the DATA TRANSFER section for related information.

 Press the + key (for the letter “D”) to delete the last file saved, or

+ key (for the letter “Y”) to delete all files saved.

 The shift and keys will have to be pressed again to confirm erasure of all

files. Deleting a file removes it permanently!

Installation of the Battery

The CI-340 is dependent upon a properly charged power source for efficient and reliable
measurements and calculations. The included battery/battery eliminator is designed to provide the
necessary power. The system is designed to operate from 7.2V rechargeable Li-Ion batteries. Check
with the nearest representative or manufacturer if the included system does not include one or more of
the above items.

If the rechargeable battery should ever fail to charge properly, please recycle it. Many waste processing
systems do not allow Li-Ion batteries to be simply thrown in the trash. Refer to the RECHARGING
chapter for further information on how to take care of the battery and for how to power the CI-340 in
the lab without using the Li-ion battery.

Proper installation of the battery is as follows:

 Align the contacts of the battery with the contacts of the CI-340 (Figure 4).
 Line up the battery so that it is about 7 mm “off” its final position within the battery mounts

in the direction shown in Figure 4.

 Press the battery toward the contacts and slide in the direction shown (Figure 4) until

firmly in place. By pressing the battery toward the contacts, the CI-340 will make necessary
connections with the battery and the battery will be in the correct position.

 To remove the battery, slide it in the opposite direction that is shown in Figure 4.

Note: The CI-340 should only be used in low RF ambient areas. Do not use near radio/TV
transmitting antennas or near electrical arc welders.

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Figure 4: Battery installation: Press the battery toward the contacts.

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Interpretation of Parameters

CO2 (in)

The amount of CO2 (in ppm) at the inlet of the analyzer

CO2 (out)

The amount of CO2 (in ppm) at the outlet of the leaf chamber

CO2 (dif)

The difference between the CO2 in and CO2 out values.

H2O (in)

The amount of H2O (in kPa) at the inlet of the analyzer

H2O (out)

The amount of H2O (in kPa) at the outlet of the leaf chamber

H2O (dif)

The difference between the H2O in and H2O out values.

PAR

Photosynthesis Active Radiation in terms of цmol/m2/s

FLOW

The set flow rate of the analyzer (in lpm)

W

Mass flow rate in terms of mol/m2/s

T (air)

Temperature of the ambient air (in °C) in the leaf chamber. This requires the temperature
sensor to be installed for meaningful results.

ATM

Atmospheric pressure (in kPa)

Pn

Net photosynthesis rate in terms of цmol/m2/s

InTCO2

Internal CO2 цmol/mol

T (leaf)

Temperature of the leaf as measured by infrared temperature sensor (in °C)

C

Leaf Stomatal conductance mmol/m2/s

Internal T

Temperature of the analyzer environment (in °C)

E

Transpiration Rate mmol/m2/s

“EXIT to quit”

Aborts current operating function to the default menu

“ENTER file menu”

Allows the user to enter the file menu system:

“SHIFT 2 (D) = del”
Command to delete an existing file; press +

“EXIT file menu”

Returns to the default menu

“Y = delete ALL”
Command to delete all existing files; press + . This must be confirmed

before the instrument will erase all the files.

“Date”

Current running date

“Time”

Current running time

“START/ENTER to go”
Reminds the user that pressing will start the measurement process.

“ENTER to select”
Notifies the user to press to perform the listed functions:

“Change clock”

Allows the user to change the time and date settings

“Calibrate CO2”

Allows the user to calibrate the zero and span for CO2 measurements.

“Calibrate H2O”

Allows the user to calibrate the zero and span for H2O measurements using external
sources

“Calibrate Temp”

Allows the user to set the TSCAL1 and TSCAL2 parameters of the temperature sensor.
“Calibrate Flow”

Allows the user to calibrate the flow meter to external standards.

“Calibrate ATM Pr”

Precisely adjusts atmospheric pressure (in kPa)

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System Setup and Calibration

The system is shipped from the factory calibrated for immediate use. The user can perform most
system calibrations if necessary.

To start the CI-340, press . After a brief warm-up time, the instrument will display the basic
display as follows:

Fri 12 Mar 2004 16:06:38

CI-340 version 5.004

©Copyright CID Inc., 1997 - 2004

All rights reserved.

The following screens are accessed in order by pressing the arrow keys, to move up and to
move down:

ENTER to select Calibrate Temp.

ENTER to select Calibrate Flow

ENTER to select Calibrate ATM Pr

ENTER->file menu

Starting Screen: Fri 12 Mar 2004 16:06:38

START/ENTER to go 16:06:38

ENTER to select Change clock

ENTER to select Calibrate CO2

ENTER to select Calibrate H2O

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Calendar and Time Setup

The purpose of these functions is to provide the user current information of local date and time. This
method can be extremely useful to further establish when measurement data are collected or saved, or
simply another form of time keeping. The factory-calibrated date and time are the default values.

ENTER to select Change clock

To change the date and time:

 Scroll to choose “Change clock” under the “ENTER to select” function (press the key twice

from the initial display). The time function will be the first selection.

 Use the or keys followed by the or keys to adjust and move to the hour,

minute and second of choice.

 With the time function set, the date function will follow. Once again, use the or keys

followed by the or keys to adjust and move to the month, day and year of choice.

 Press the key to save your selection and continue. Note that at any point of this setup,
 Pressing the key will suspend any further actions and return to the screen display above.

Leaf/Air Temperature Sensor

Suggested Calibration Schedule: None.

This function sets the calibration values for a given leaf/air temperature sensor. The included
temperature sensor has been initially tested and calibrated by the manufacturer.

ENTER to select Calibrate Temp

No further calibration is allowed.

Atmospheric Pressure

The CI-340 pressure sensor is capable of measuring absolute atmospheric pressure. This value is used
in calibrations for Photosynthesis, Transpiration and Stomatal Conductance values. The sensor is
calibrated at the factory, and normally does not need to be recalibrated.

ENTER to select Calibrate ATM Pr

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To change the atmospheric pressure (ATM) value:

 Scroll to choose the “Calibrate ATM Pr” under the “ENTER to select” function.

 Enter the desired ATM value in K Pa. Press to accept the entered value or to abort

the process, and continue to another step.

Flow Rate

The CI-340 is capable of maintaining a steady airflow once the unit begins taking measurements. After
the initial warm-up time (one minute), the instrument will generate the entered flow rate to regulate
the accuracy of the measurements. The instrument is capable of automatically controlling the flow rate
from 0.2 ~ 0.999 lpm. Flow rates of 0.3 lpm give increased accuracy to photosynthesis measurements
unless very active leaves are being measured.

Figure 5: Flow meter setup to measure flow rate.

The flow meter is calibrated by the manufacturer but can be calibrated again by the user. Suggested
calibration schedule is once every six months. Scroll to choose the “Calibrate flow rate” under the
“ENTER to select” function.

ENTER to select Calibrate flow rate

The instrument will briefly run through stabilizing steps and then ask the user to adjust the flow, using

the keys for major changes or the keys for minor changes, over steps from .2 to
1 lpm. For calibration, the flow MUST be measured by the calibrated external flow meter at the port on
the end of the instrument where the leaf chamber plugs in (upper left part as you read the keypad). For
this calibration, the flow rate is measured at the input to the leaf chamber (see figure 5-0). A well­calibrated flow meter with little backpressure should be used as the standard. If for any reason an error

was made during the calibration procedure pressing the key will also return back to the
beginning of the flow calibration procedure without saving any changes made. Once the calibration

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procedure is competed, in a few moments the instrument will reset and return back to the above screen
display.

CO2 and H2O General Overview

H2O and CO2 Zero should be calibrated every week, unless there are very significant changes in
ambient conditions or the relative humidity values seem erroneous. The H2O Span should be
calibrated annually, and with heavy use every six months. CO2 Span should take place once every six
months. Set Zero is a one point calibration, set Span is a two point calibration.

Calibrating the H2O Span can be done with ambient air using a hygrometer to measure humidity and a
thermometer to measure temperature. These values are entered into the DOS program to calculate the
kPa to enter into the instrument. H2O levels of air are not as easily affected as CO2 concentrations,
therefore as long as the temperature and humidity of the gas being fed through the instrument are
known, the H2O Span can be correctly calibrated. The calibration will be as accurate as the sensors
used to determine the humidity/temperature of the gas.

NOTE: For greater changes in ambient temperatures between sample measurements, it may be

necessary to recalibrate to CO2 “zero setting” at each temperature (i.e. O°C sample and 40°C sample).

This instrument allows calibration with a range of CO2 from 200 to 1000 ppm, and H2O from 1 to 7.5
kPa.

ENTER to select Calibrate CO

2

To change the calibration of CO2, scroll to choose the “Calibrate CO2” under the “ENTER to select”
function. While the instrument stabilizes to the setup state, it will first ask if you want to calibrate zero.

Start to set zero, else Exit

Press the key to calibrate the zero or press the key to skip the calibrate zero function.

Use 0 ppm CO2 gas Press START/ENTER

Connect dry nitrogen or soda lime and allow the zero ppm CO2 gas (dry nitrogen or soda lime) to flow

for approximately one minute (three minutes for soda lime) prior to pressing the key to flush the
system completely. Always use a “T” connector. A small amount of flow out of the one-meter tube
ensures a sufficient quantity of gas is flowing to the system (see Figure 6) in the gas line when
supplying gas from a low-pressure regulator in order to avoid excessive flow through the system.
Alternately, use soda lime connected between the intake and exhaust with the small plastic tube where
the chamber usually goes to form a closed loop. (See Figure 7)

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Figure 6: Configuration using compressed gas.

After the system zero is established, use a gas with known concentration of CO2 to calibrate span.
Use the key to skip the “calibrate the span” setting.

Use known CO2

Press the key to proceed.
Enter the concentration of CO2 in ppm at the following display:

Concentration ?
__ ppm

The known concentration should flow for approximately one minute.

Press to save your selection. The system will then return to the following screen display and
reset:

ENTER to select Calibrate CO2

H2O calibration follows similar procedures. Dry nitrogen gas or silicon gel (Figure 8) can be used for the
H2O zero, and a known partial pressure of H2O is used for the known H2O. A “DOS” program is provided
to convert relative humidity and temperature to kPa partial pressure. Run RH2KPA.EXE under DOS or in
a DOS window on a PC. Windows XP will automatically launch a DOS window if you double click on the
file name in Windows Explorer.

NOTE: H2O span setting should be checked once every six months. It be checked often by conducting a

photosynthesis test with the “loop back” tube in place of a leaf chamber and sampling a known
humidity of the atmosphere.

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Figure 7: Configuration using Soda Lime for CO2 Zero calibration.

Figure 8: Configuration using Silica Gel for H2O calibration

CO2 Zero and CO2 Span Procedure

Tools required: CI-340, Soda Lime external conditioning tube, filter, hose barbs, a CO2 standard gas
ranging from 200-1000 ppm, a t-junction, and a flow regulator.

1. Power on the instrument

2. Connect the soda lime tube, filter and green loop-back tube (Fig.1&2) (for Control Modules: set the
AD CO2 and H2O to zero)

3. Use the up/down arrow to navigate to “Calibrate CO2”

4. Press start/enter

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5. Instrument will display “Warming Up” and then begin counting down. Wait.

6. Once counted down, the instrument will display “START to set Zero, else EXIT”

a. Press start/enter to set the CO2 zero

b. “Use 0 ppm CO2 gas, Press START/ENTER”

c. Press start/enter

d. “Setting 0 in 60 Seconds” will display and the instrument will count down

At this point, the CO2 concentration of the gas passing the analyzer is taken as 0 ppm and the sensor is

calibrated to read this level as 0. Therefore, if the gas is not 0 ppm or hasn’t been allowed enough time

to run through and completely clear the system, the calibration can skew the instrument further.

7. After the CO2 zero is set, the instrument will display “Use known CO2 gas, Press START/ENTER”

8. To only calibrate the CO2 zero, press EXIT and you are done. To continue on and calibrate the CO2
span, hit start/enter.

9. If you pressed start/enter: connect a standard CO2 gas with a known concentration (Fig.3) and press
start/enter

a. The unit will display “Concentration: ? ppm” Enter the CO2 concentration of the standard gas

you are using (acceptable ranges: 200-1000 ppm CO2)

b. Press start/enter

c. The instrument will count down from 60 seconds and set the CO2 span

d. Press start/enter to save

10. The display will return to the original “ENTER to select Calibrate CO2” screen

To verify a successful calibration, take a reading of a known gas. The instrument should read with an
accuracy of < ±2%.

H2O Zero and H2O Span Procedure

Tools required: CI-340, Silica gel external conditioning tube, filter, hose barbs, a H20 standard of known
partial pressure, a t-junction, and a flow regulator.

1. Power on the instrument

2. Connect the silica gel to the instrument.

3. Use the up/down arrow to navigate the menu to Calibrate H2O

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4. Press Start/Enter
a. Instrument will display “exit to quit”
b. “START to set Zero, else EXIT”

i. If the silica gel is connected and has been flowing for several minutes, press

START.

ii. “Use 0 kPa H2O, Press START/ENTER”

1. Press START/ENTER and instrument will count down from 60 seconds

and set the H2O zero.

2. At this point, the H2O concentration of the gas passing the analyzer is

taken as 0 ppm and the sensor is calibrated to read this level as 0.

Therefore, if the gas isn’t 0 ppm or hasn’t been allowed enough time to

run through and completely clear the system, the calibration can skew
the instrument further.

5. After the H2O zero is set, the instrument will display “Use known H2O gas, Press

START/ENTER’

6. If you wish to calibrate the H2O Span, hit start/enter. If you only wish to calibrate the H2O zero,

press EXIT

7. To calibrate the H2O span, connect a gas with a known concentration of H2O (*see general

overview).

a. Press Start/Enter
b. The unit will display “H2O pressure: ? x.xxx kPA”

i. Enter the known partial pressure of the H2O gas in kPA. This can be calculated

from the relative humidity and temperature.

ii. CID provides a DOS program that will convert RH and Temperature to kPA. This

can be downloaded on the Distributor’s website in the CI-340 software page.

iii. Download “A program to convert RH and temperature to kPa vapor pressure:

Download rh2kpa.exe V1.2.1.0 31kB”

iv. Use the program to get the kPa to enter into the instrument.

c. Enter the H2O pressure of the known standard gas from 1.0-7.5 kPA.

i. Hit Start/Enter

ii. Instrument will count down from 60 seconds and set the H2O span.

iii. Press Start/Enter to save and the display will return to the “ENTER to select

Calibrate H2O”.

Data Transfer

The CI-340 automatically saves data files with a memory capacity of 4 megabytes; older versions have a
memory capacity of 2 MB. The memory of the CI-340 during normal use will suffice for approximately

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one month, while intensive data gathering (gathering data as fast as possible in absolute or continuous
mode) will fill the memory after about 8 hours. Data transfer to a personal computer or laptop is quick
and easy and can be done in the field or after measurements have been taken. New models are
supplied with an easy to use USB connector and software, while older models may have an RS-232
connector and may require software updates available on the CID website at www.cid-inc.com.
Transferred files are saved as .cvs (comma separated values) and can be read in excel or other
spreadsheet programs for data manipulation. For a more in-depth look at downloading the initial
software, installing the CI-340 data transfer program and initiating data transfer see the Transferring
Data manual found on the CI-340 product page on the CID website.

Downloading Data

One of the conveniences of this reliable data-collecting instrument is its portability. The CI-340 is
almost a small user-friendly computer that can be operated almost anywhere in the field. However,
data analysis and presentation can best be done on an external (desktop or laptop) computer.

To download data to an external computer, attach the CI-340 USAB Cable to both the CI-340 and the
computer’s USB port.

Downloading files from the CI-340 to the personal computer is accomplished with a Windows program,
C340DF.exe. It would be recommended that a separate directory exist for any of the CI-340 program
files or data to be stored. Create a directory that can be recognizable or remembered for continuous
usage; for instance, the path C:\CI-340\ could be named to store and locate all related CI-340 files and
data. Refer to the computer manual(s) regarding setting up directory/paths for the current operating
system (such as in Windows). To install the software on your computer, run setup.exe on the disk. You
can use Windows Explorer to send a shortcut to your desktop, if desired.

 Run the C340DF.EXE program
 Turn on the CI-340
 Select File, then Open to transfer a file to the computer
 A longer file will take longer to start displaying data.
 You can select File then Save to save the data. The default extension is .dat.

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Updating Software

The operation of the CI-340 is controlled by internal software code. The CI-340 is capable of updating
its software code without removing the cover. When updating becomes necessary, the manufacturer
will provide the software code (under warranty) to best operate the instrument. The web address is

https://www.cid-inc.com/support/CI-340/software/. The file DL.exe automatically downloads code

programs. Be sure that these files are in the same directory as other CI-340 program files.

It is the best to copy all the software files provided on the disk to their own directory on the hard drive
before executing DL.exe. Connect the CI-340 USB cable. Run the DL.exe. program to download code from
the computer. Make certain that the the power is on to the CI-340. If the power does not stay on, then

press and hold the key on the CI-340 (a constant ‘beep’ sound may or may not be heard). Select
File, Open and highlight the code file (CI_340.S19), and press ENTER on the computer to start the
update. After approximately 10 ~ 15 seconds, the instrument will display DLC, you can stop pressing

the key. The download of new code will take about 2 minutes. The computer screen will confirm
that the procedure has been completed and the CI-340 will turn itself off.

Press the key and the new software code is active.

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Example of a Data File

Internal T

Flow

Pressure

PAR

T

air

T

leaf

CO

2in

CO

2out

H2Oin

H2O

out

W

27.5

0.3

100.09

2175

31.1

32.8

344.9

333.0

1.09

1.10

3.12

27.5

0.3

100.09

2011

31.2

32.9

339.9

328.2

1.23

1.25

2.78

27.5

0.3

100.09

2230

31.2

33.1

365.7

337.9

1.20

1.23

2.66

Pn E C

RHin

RHout

intCO2

Year

Month

Date

H

Min

S

12.5

3.12

3.27

35.1

37.2

325.0

03 8 3 6 59

38

13.1

2.78

2.16

35.4

36.9

310.5

03 8 3 6 59

48

21.6

2.66

1.54

35.3

37

310.0

03 8 3 6 59

58

Where:

Internal T:

Internal temperature for the
instrument

Flow:

Flow rate

Pressure:

Atmospheric pressure

PAR:

Photosynthesis Active

Radiation

T

air

:

Air temp.

T

leaf

:

Leaf temp.

CO

2in

:

Inlet CO2

CO

2out

:

Outlet CO2

H2Oin:

Inlet water pressure

H2O

out

Outlet water pressure

W:

Mass flow rate

Pn:

Net photosynthesis rate

E:

Transpiration rate

C:

Stomatal conductance rate

RHin:

inlet relative humidity

RHout:

Outlet relative humidity

int CO2

Internal CO2 concentration

Year:

Current year

Month:

Current month

Date

Current date

H, min and s:

Time experiments conducted

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Photosynthesis, Transpiration and Stomatal Conductance

Photosynthesis is the formation of carbohydrates from CO2 and a source of hydrogen (as water) in the
chlorophyll-containing tissues of plants exposed to light. The rate at which photosynthesis occurs is
determined by measuring the rate at which a known leaf area assimilates the CO2 concentration in a
given time.

It is known that transpiration is the primary determinant of leaf energy balance and plant water status.
The rate of transpiration is determined by the accumulation of water vapor flux per one-sided leaf area
in a given time.

Stomatal conductance is the water loss of a leaf. Conductance can be considered in parallel or series. It
can be obtained by measuring the transpiration and leaf surface temperature (°C), and applying the
calculation for Equation 4 found in the EQUATIONS chapter.

The CI-340 is designed so that measurements can incorporate both absolute and differential readings
simultaneously. This instrument can also be configured to operate both open and closed systems. It is
important that the CI-340 uses the manufacturer’s current software.

Taking Measurements

Now, with all the necessary setup/calibrations completed, the CI-340 is ready to begin its
measurements. With any experiment, coding or naming a set of data points/values would help
characterize that particular group for computational requirements. This instrument is designed to do
such by allowing for a file name and time intervals prior to any measurements or data collected.

With the system powered on and at rest, press the key. The instrument will display:

File name: ?

This filename would be similar to a DOS-format and limited to 12 characters (including the decimal

point). For example, to save a data set as “group 1”, the filename “GROUP1” could be used. Use any

recognizable filename including any necessary extension (i.e., “GROUP1.C50”) format other than using

DOS executable extension (such as .EXE, .BAT, .COM, etc.). Note that pressing the and keys
will not ask for a file name to be entered, and measured data will not be saved.

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Sequential measurements using identical operating parameters can be performed if the base name
ends in a number (i.e. group1) and the default file name is selected for subsequent measurements
(group2, group3,...). Do not type in the default name, just press ENTER when the default name is
displayed. The instrument will then utilize all the same operating parameters as the last measurement.

The CI-340 utilizes a shift key feature to accommodate many functions it has to offer.

 To register alpha-characters (such as A, H, R, etc.), use a sequence of the key followed by

the respective key to obtain the letter.

 Pressing the key once accesses the first letter of the keys, twice does the second, and three

times, the third. No key pressed in this sequence accesses the number values.

o Note that the symbols (+, -, etc.) in the keys are not recognized if naming a file, and in

turn will show up as the respective number key.

 Press the key to continue to the time interval setup.
 The key can be used as a backspace key and the can be used to clear the SHIFT

count if the key was accidentally pushed.

For example, the filename “GROUP1.C50” can be entered as follows:

Press key after a file name is entered.

The time interval entry follows the entry of the filename step:

Time interval ?

___ (sec)

The analyzer’s sampling rate is then averaged by the interval input. The instrument’s sampling rate is

approximately once a second. The CI-340 will only recognize integer divisions (1 ~ 32768 seconds).

The instrument will not register letters of symbols. Pressing the key saves the resulting filename

and time interval, respectively. Note that entering a file name twice will display “duplicate name” on the

screen, and a different file name should be entered. Using 0 for the interval will require the user to

press the key each time a measurement is to be saved.

Control CS, AD, or LA?

CS=1, AD=2, LA=4, CS+AD+LA=7...

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If the CI-301CS is used, enter number “1”. If the CI-301AD is used, enter number “2”. If the CI-301LA is
used, enter number “4”. If both the CI-301CS and the CI-301AD are used, enter number “3”. If both the
CI-301CS and the CI-301LA are used, enter number “5”. If the CI-301AD and the CI-301LA are used,
enter number “6”. If all the three accessories are used, enter number “7”. To operate the CI-340 without

any accessories, enter number “0”, or just press key. If one or more accessories are to be used,

you will be asked to enter one or all of following parameters:

Desired Temperature? (Deg C)

___

Desired CO2 Concentration? (ppm)

___

Desired Relative Humidity? (%)

___

Desired PAR? (mmol/m2/s)

___

For each question, enter a number and press key. Refer to the appendices for detailed
information.

At this point, an area of the leaf sample will be asked for. Enter the area (in cm2). It has been designed
so that areas too large or small will severely affect necessary calculations for photosynthesis,
transmission or stomatal conductance rates. The allotted range is .001 ~ 10,000 cm2. If the leaf you are
using fully covers the leaf chamber window, enter the area of the window. Table 7-1 and 7-2 at the end
of this chapter list the window sizes of all the leaf chambers CID, Inc. manufactures.

Flow rate? (lpm)

___

Enter the intended flow rate (in lpm). The pump and flow sensor have been designed to operate under
controlled specifications. Use a flow rate between 0.1 and 1 lpm. But if the CI-301AD is used, the flow

rate should be < 0.5 lpm.

Finally, the CI-340 will ask whether an open or closed system measurement will be conducted. The

default entry is for the open system (press to use the default). Press “C” to select the closed
system measurement or “O” for open system. The closed system function will ask for the chamber
volume (in liters). Refer to Table 7-2 for closed system chamber information. Closed system
measurements can be terminated when a certain change in time ( T) or change in CO2 ( CO2) has been

measured, or the key can be pressed. Press “T” for T or press “C” for CO

2.

The system will
then ask for the length of time or the change in CO2 required for the measurement. Also, refer to the
CLOSED AND OPEN SYSTEMS section for further elaboration of measuring procedures.

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The instrument will be stabilizing for several seconds. Then data output will be displayed. Use the
arrow keys on the keypad to scroll up and down to view all the data.

Closed and Open Systems

The CI-340 promotes a portable solution to the concept behind open and closed systems. A closed
system environment can measure the CO2 concentration in the chamber over a given period of time. An
open system environment can measure CO2 concentration in the chamber by a steady air stream flow.
At any rate (0.2 to 1.0 lpm), this instrument provides another practical method to determine
photosynthesis, transpiration, and stomatal conductance.

The physical distinction between the two systems is with the accessory tubing attachment (Figure 9).
The open system utilizes a steady stream of fresh air; the closed system recirculates the air within the
analyzer environment. Figure 10 illustrates further the CI-340’s closed and open system flow chart.

Figure 9. The CI-340 accessory tubing attachment.

Note: The tubing accessory should not be kinked or restricted during operation. A replacement

tube can be used; it should be of vinyl or polyurethane material and approximately 5” long. Tygon

B-44-3 is normally used because it does not absorb much moisture.

Figure 10 (top). Tubing schematic for a closed system. (bottom). Tubing schematic for an open system.
A supplied filter should be connected between the inlet and the tubing.

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The closed system recirculates the air in the system; the open system sends a constant flow of external
air into the system. There are five available sizes of leaf chambers to conduct experiments for the open
system method (Table 2). Generally, the manufacturer recommends choosing a chamber large enough
to contain the leaf environment (i.e., using a leaf larger than the chamber area would produce
inaccurate results).

Determine the best size chamber (Table 2) for the measurements to be taken. Proceed to insert and
attach the leaf chamber to the CI-340. Refer to the LEAF CHAMBER — CARE AND USE chapter for

proper applications of the leaf chamber(s). Then press the or and key(s) to begin the
measurement process.

Table 2: Open system chamber sizes.

Chamber Types

Window Size (W x L mm)

Window Area (cm2)

Square

25 x 25

6.25

Narrow Rectangular

65 x 10

6.5

Wide Rectangular

55 x 20

11

Small Cylindrical

25 x 90

22.5

Large Cylindrical

50 x 70

35

The closed system environment deals with chambers of variable volume. Each individual chamber is
designed to interchange with the CI-340; however, they serve different sizes of the plant element. There
are four available sizes of leaf chambers to conduct experiments for the closed system method (Table 7-

2).

When using the closed system, refer to Table 7-2 for such related values. Also, refer to the LEAF CHAMBER
—CARE AND USE chapter for proper applications of the leaf chamber. Press the or and

key(s) to begin the measurement process. The duration of collecting measurements is dependent upon the
needs of the user.

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Table 7-2. Closed system chamber sizes:

Chamber Types

Size (W x L x H mm)

Volume (liter)

1/4 Liter

104 x 33 x 73

0.2505

1/2 Liter

89 x 66 x 86

0.5052

1 Liter

112 x 91 x 99

1.0090

4 Liter

180 x 130 x 170

3.9780

Terminology:

Absolute, Differential and Continuous Mode

The CI-340 can perform measurements in absolute, differential or continuous mode. In
absolute mode, the absolute CO2/H2O concentration from a single source, the inlet of the CI-340, is
measured. This is compared against an absolute CO2 calibration. Differential IRGA mode compares the
measurement of CO2 and H2O before the leaf chamber to the measurement of CO2 and H2O after the leaf
chamber. In differential mode, the CI-340 acquires absolute measurements both from the chamber
environment and the instrument intake. Almost all commercial plant IRGA systems are of the
differential type, because they provide more reliable measurements. The CI-340 is capable of obtaining
absolute (single channel absolute, S) and differential (photosynthesis, P) measurements, as well as
continuous measurements (continuous photosynthesis, C). In continuous mode, the gas concentration
is measured once from the inlet and then continuously measured from the outlet of the leaf chamber.
In order to accurately use continuous mode, the initial measurement from the inlet needs to be very
stable, but this mode allows for very quick, repeated measurements.

Photosynthesis

Photosynthesis is the process by which plants (and photoautotrophs) generate carbohydrates
and O2 from CO2, H20 (water) and sunlight or light energy (Figure 2). This process occurs in the
chloroplasts or chlorophyll-containing tissues of the plant leaves and stem. The rate at which
photosynthesis is occurring is determined by measuring the rate at which a known leaf area assimilates
CO2 over a given period of time.

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Figure 2: Photosynthesis occurs in chloroplasts in leaves, converting carbon dioxide and water to glucose using energy
from sunlight.

Photosynthetic Active Radiation (PAR)

Photosynthetically or photosynthetic active radiation (PAR) is the range of wavelengths of solar
radiation that photosynthetic organisms are able to use for photosynthesis. Only about 44% of the total
electromagnetic energy reaching the earth has the correct wavelengths for use by plants and of that
only 0.5% - 3% is used for photosynthesis. Solar radiation from 400 to 700 nanometers is within the
spectral range (wavelength) for photosynthetic organisms. This range is often referred to as
photosynthetically active radiation or PAR. This spectral range is very similar to the range of light
visible by the human eye (390-750 nm). The CI-340 measures PAR with silicon diode sensors mounted
near the leaf chamber. The sensor measurement is cosine corrected.

Using PAR as a measure of radiant power is important in evaluating the effect of light on plant
growth. The photosynthetic response correlates better with the number of photons than with energy.
This is expected because photosynthesis is a photochemical conversion where each molecule is
activated by the absorption of one photon in the primary photochemical process. PAR is defined in
terms of photon (quantum) flux, specifically, the number of moles of photons in the radiant energy
between 400 nm and 700 nm. One mole of photons is 6.0222 x 1023 photons (Avagadro’s Number).

Transpiration

Transpiration is the evaporation of water from plants, mainly occurring on the leaves when the
stomata are open and thus allowing the passage of CO2 and O2 during photosynthesis and respiration.
Transpiration also can occur in the stem, flowers and roots of plants. Leaf transpiration occurring
through stomata can be thought of as a necessary metabolic "cost" as the stomata open to allow the
diffusion of CO2 for photosynthesis. Transpiration also enables the mass flow of mineral nutrients and
water from the roots to the shoots of the plant, as well as regulating the plant’s temperature.

Transpiration is the primary determinant of leaf energy balance and plant water status. The
rate of transpiration is determined by the accumulation of water vapor flux per one-sided leaf area in a
given time and therefore is directly related to the degree of stomatal opening, and to the evaporative
demand of the atmosphere surrounding the leaf (see equation section in this manual). There are

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several factors that affect the rate of transpiration, including the size of the plant, light intensity,
temperature, humidity, wind speed, and soil water content.

As light intensity increases, transpiration rate also increases. Plants transpire more rapidly in
the light than in the dark because light stimulates the opening of stomata and increases the
temperature of the leaf. Transpiration rate increases with temperature. This is because water
evaporates faster at higher temperatures. As humidity decreases, the transpiration rate increases and
water dissipates from leaf more quickly. This is because the rate of diffusion of any substance increases
as the difference in concentration of the substances in the two regions increases. Wind affects
transpiration by affecting the humidity of the air surrounding the leaf. When there is no breeze, the air
surrounding a leaf becomes increasingly humid thus reducing the rate of transpiration. When a breeze
is present, the humid air is carried away and replaced by drier air, increasing the rate of diffusion and
transpiration. Soil water content affects transpiration rate as water is continually replaced in the plant
by drawing water from the soil using the roots. A plant cannot continue to transpire rapidly if its water
loss is not made up by replacement from the soil. When absorption of water by the roots fails to keep
up with the rate of transpiration, a loss of tugor occurs, and the stomata close, immediately reducing
the rate of transpiration, as well as the rate of photosynthesis.

Stomatal Conductance

Stomatal conductance is water loss by a leaf and is directly related to the size of the stomatal
aperture or opening. Higher evaporation rates or a high transpiration rate for a plant indicate that the
stomatal conductance will also be high. Other factors influencing stomatal conductance include
humidity, light intensity and temperature.

Stomatal apertures (Figure 3) will typically vary in response to changes in light intensity,
saturation deficit of ambient water vapor and soil moisture availability. As stomatal aperture size
changes, rates of photosynthesis and transpiration will vary because the pore (or stomata) size will
provide a corresponding resistance to the diffusion of CO2 into and H2O out of the leaf. The inverse of
this resistance can be calculated as the conductance of these two gases across a leaf surface.
Conductance can be considered in parallel or in series. It is obtained by measuring the transpiration
and leaf surface temperature (°C), and applying the equation.

Figure 3: Stomata surrounded by guard cells, showing a closed stomata and an open stomata.

Open and Closed Systems

The term closed or open is used in the sense of whether or not the atmosphere of the leaf­enclosing chamber is renewed during the measurement. The CI-340 supports both open and closed
system modes of operation. Early photosynthesis analyzers supported only closed system
measurements, but today most systems are open systems. Open systems provide a faster measurement
and greater control over very small or mole fraction measurements. Open systems are also known as
differential systems, while closed systems are known as depletion systems.

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In open systems, ambient air is taken in through the intake on the instrument. The ambient air
is then added into the leaf chamber after having the mole fraction or concentration of CO2 and H2O
measured (Figure 4). The air is measured again after passing over the leaf surface at a known flow rate,
and the photosynthesis rate is calculated according to equation found in the Equations section of the
manual as are the transpiration rate and stomatal conductance.

In a closed system, the air is not renewed during the measurement. The closed system mode
recirculates air within the analyzer environment and leaf chamber, as seen the upper portion of Figure

4. The CO2 concentration in the chamber is decreased by leaf photosynthetic activity, while the H2O
concentration increases. The change in CO2 and H2O concentrations per unit of time are correlated with
net photosynthesis (assimilation) and transpiration, respectively.

The leaf chambers for closed system measurements are specially designed to help calculate the
volume of air inside the chamber (versus the area of leaf surface needed for open system calculations).

Figure 4: The top illustrates a closed system set up, with tubing connecting the intake and exhaust. The bottom
illustrates an open system set up, with a filter attached to the intake and the exhaust remaining free allowing air to be
renewed in the leaf chamber during measurement.

There are several different leaf chambers available for use with leaves and plants, as seen in
Figure 5. Each individual chamber is designed to interchange with the CI-340; however, they serve
different sizes of the plant element. There are five available sizes of leaf chambers to conduct
experiments for the open system method (Table 2). The closed system environment deals with
chambers of variable volume. There are four available sizes of leaf chambers to conduct experiments
for the closed system method (Table 3).

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Figure 5: Various different leaf chambers for the CI-340 and the soil respiration chamber.

Table 2: Open system chamber sizes and areas.

Chamber Type

Window Size (W x L
mm)

Window Area
(cm2)

CI-301-:

Square

25 x 25

6.25

LC-1

Narrow Rectangular

65 x 10

6.25

LC-3

Wide Rectangular

55 x 20

11

LC-2

Small Cylindrical

25 x 90

22.5

LC-4

Large Cylindrical

50 x 70

35

LC-5

Table 3: Closed system chamber sizes and volumes.

Chamber Type

Size (W x L x H mm)

Volume (liter)

CI-301-:

1/4 Liter

104 x 33 x 73

0.2505

LC-7

1/2 Liter

89 x 66 x 86

0.5052

LC-8

1 Liter

112 x 91 x 99

1.0090

LC-9

4 Liter

180 x 130 x 170

3.9780

LC-10

Canopy attachment

Determined by user

-

CC

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Measuring Conifer Needles Using the CI-340:

The CI-340 does not have specific conifer or needle chambers as opposed to chambers for broadleaves. The type of
chamber selected for measuring conifers will depend on the plant type (average needle length and other characteristics).
The LC-4 and LC-5 small and large cylinder chambers, respectively, are recommended for measuring small
leaves/leaflets or needles still attached to the branch. Both chambers are specially designed with an opening that
provides for a branch to fit into the chamber (and extend through it) while still sealing. The orange section of the seal is
double-lined, approximately 7 mm thick, and has small slits allowing it to expand and accommodate the shoot going
through the chamber.

To CI-340

LC-4 Small Cylinder Chamber Specifications:

• Window size (width x length): 25 mm x 90 mm

• Window area: 22.5 cm2

• Diameter of chamber: 2 cm

• Maximum diameter of branch: 0.5 cm

• Maximum diameter of branch and needles: 2 cm

LC-5 Large Cylinder Chamber Specifications:

• Window size (width x length): 50 mm x 70 mm

• Window area: 35 cm2

• Diameter of chamber: 5.5 cm

• Maximum diameter of branch: 1 cm

• Maximum diameter of branch and needles: 5.5 cm

The LC-1, LC-2, and LC-3 chambers may also be suitable for gathering measurements from conifer needles. However,
these chambers do not allow for an entire branch to pass through the chamber. If the plant has characteristically long
needles (longer then the LARGEST side of a plant chamber) then the needle or needles can be manipulated to extend
across the chamber and be sealed on both sides. Several needles can be lined up next to each other to increase the leaf
area being measured inside the chamber. It may be easiest to remove the needles to be measured from the plant, but if
this is not an option then using the branch and cylinder-type chamber would most likely be best.

Chamber Type

Window Size (W x L mm)

Window Area (cm2)

LC-1: Square

25 x 25

6.25

LC-2: Narrow Rectangle

65 x 10

6.5

LC-3: Wide Rectangle

55 x 20

11

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Estimating Leaf Area:

If the window of the chamber is fully covered by plant leaf/needle then enter the designated leaf area for that chamber in
the CI-340. If the window is not fully covered, estimate the percentage that is covered and enter that leaf area into the
CI-340. If the branch of the plant is inside the chamber (LC-4 or LC-5) the branch does not usually need to be included
in the estimated leaf area. If using individual needles and LC-1, 2, or LC-3 make sure that the needles extends across the
leaf chamber and is sealed on both sides. Do not let the needle/leaf touch the bottom of the chamber as this will disrupt
the circulation of air in the chamber.

To CI-340

The image above illustrates three needles extending all the way across a narrow rectangle leaf chamber. The leaf area
will need to be estimated visually by determining the percent of the window that is covered by the needles (green area).
In the example above, the three needles cover about half (50%) of the window on the upper surface of the leaf chamber.
Next, apply this percentage to the size of the entire window area (6.5 cm2). The leaf area entered into the CI-340 should
be approximately 3.25 cm2.

Selecting the right chamber depends on the type of plant you are dealing with. If you would like to describe it to me,
together we can determine which would be the best leaf chamber for your research needs.

Calibrating

As components age and equipment undergoes changes in temperature or sustains mechanical
stress, critical performance gradually degrades. This process is called drift. When this happens, test
results become unreliable and design or production quality suffers. Although drift cannot be
eliminated, it can be detected and contained through the process of routine calibration. Calibration
serves to standardize equipment by determining the deviation from a standard, so as to set correction
factors precisely. Calibration increases production yields, optimizes resources, assures consistency
and ensures readings are compatible with those made elsewhere.
There are several important terms to be considered when understanding both why calibration
is necessary and the difference between just data and good, quality, (reproducible) data. Many terms
are closely linked, such as calibration and traceability.

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• Calibration is the comparison between measurements, one of known magnitude or

correctness, made or set with one device and another measurement made in as similar a way as

possible with a second device.

1

• Traceability is the unbroken chain of comparisons relating an instrument’s measurements to a

known standard. An instrument’s bias, precision and accuracy can be determined if an

instrument is calibrated to a traceable standard.

• Precision (or reproducibility or repeatability) is the degree to which repeated

measurements under unchanged conditions show the same results.

• Accuracy is the degree of closeness of measurements of a large quantity to its actual or true

value. In other words, accuracy is how many times the same measurement conditions produced

the exact same measurement over a large number of samples.

• Bias is non-random or directed effects caused by a factor or factors unrelated to the

independent variables.

• Error is the random variability, or the amount of deviation from a standard or specification. It

is also important to consider error when calibrating.

• Resolution refers to the smallest change in a measured value that the instrument can detect, or

the ability of the instrument to read in fine increments (small increases or decreases in possible

values of measurements).

• Reliability of measurements is sought after calibrating the instrument. Reliable measurements

are accurate and repeatable, as well as traceable.

The CI-340 has been engineered to ensure maximum reliability as well as ease of instrument
use in the field. The resolution of infrared gas analyzers is directly related to the length of the infrared
gas analyzer chamber. The longer the tube to the chamber is, the finer the resolution. In order to help
the CI-340 produce repeatable measurements, a single IRGA tube next to the leaf chamber is used to
measure CO2 levels in the air before and after the leaf chamber. This increases repeatability because
with only one infrared sensor and a single light source, drift of the electronic components in the
machine is reduced (versus having multiple sensors and light sources which would all drift
independently of each other). Also, drift on humidity sensors has been reduced, providing high
repeatability in water content measurements by using laser trimmed humidity sensors.
There are five calibrations that can be done to increase the reliability and repeatability of the
CI-340. These include resetting the calendar and time of the instrument, recalibrating the leaf/air
temperature sensor (done only at CID), resetting the atmospheric pressure (done by user),
recalibrating the flow rate (done by user with flow meter), and recalibrating the CO2 and H2O
concentration settings (done by user with gases of known concentrations). Please refer to later sections
for detailed instructions on how to calibrate the CI-340.

1

The device with the known or assigned correctness is known as the standard, while the second device is the unit under
test or test instrument. Typically standards with which calibrations are set on come from several national and
international standards organizations, such as the International Organization for Standardization (ISO), International
Calibration Standards (ICS), National Institute of Standards and Technology (NIST) and the American National
Standards Institute (ANSI).

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DATA DISPLAY SCREENS

Numeric data is displayed during the measurements. The different screens can be accessed by
pressing the arrow keys, to move up and to move down:

Starting Screen:

CO2 in

CO2 out
CO

2

dif

Pn

PAR

ATM

Flow

W

Tair

Tleaf

Flourescence

Count

Screen 2:

H2O in

H2O out

H2O dif

E

RHin

RHout

Tair

Tleaf

IntCO2

C

Exit to quit

InternalT

GRAPH MODE

The data display can be switched between graphic mode and alpha/numeric mode by pressing “G”

(shift, 3). The upper 1/8th of the graph will be erased when switching between modes (a memory
limitation with the current hardware). It is best used for large sample data.

With the use of the CI-510LA (CI-301LA), the response curve of photosynthesis vs. light can be seen
by pressing “L” when measuring photosynthesis (that is shift, shift, shift 4). The CI-340 will ask for
the number of steps for light response and then will direct the CI-510LA to increase the light intensity
from very low to very high in that number of steps. Make sure the intensity knob on the CI-510LA is
turned all the way counterclockwise (see Appendix B). Only the CI-510LA ordered with CI-340 can
be automatically controlled by the CI-340 to generate the light response curve.

The response curve of photosynthesis vs. CO2 can be seen by pressing “C” (shift, shift, shift, 1) when
measuring photosynthesis. The CI-340 will then ask what step size to make the CO2 adjustments, and
then it will direct the CI-510AD (CI-301AD) to slowly step from the lower limit to the upper limit,

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using approximately the specified step size. Make sure the CO2 knob is turned all the way counter­clockwise. Only the CI-510AD ordered with the CI-340 can be automatically controlled by the CI­340 to generate the CO2 response curve.

The response curve of photosynthesis vs. air temperature can be seen by pressing “T” (shift, shift, 7)

when measuring photosynthesis. The instrument will ask for the number of steps for the temperature
response curve, and then will direct the CI-510CS (CI-301CS) Temperature Controller to start at a
low temperature and increase the air temperature in the leaf chamber to a high temperature in that
number of steps. Make sure the temperature control knob is turned all the way counterclockwise.
Only the CI-510CS ordered with the CI-340 can be automatically controlled by the CI-340 to
generate the temperature response curve.

Pressing “EXIT” while in the graph mode can stop the response curve. This will return the display to

the alpha/numeric mode and stop any further changes to the controlled parameters. It will also erase
the graph.

The tick marks at the left of the screen while in graph mode represent 5 µmolm-2s-1.

CARE OF THE CI-340

This instrument is designed for portable or stationary use. Whether it is used in the field or on a
tripod, the CI-340 is versatile and lightweight, as well as accurate and user-friendly. The
manufacturer would like to give you a few suggestions to help you take care of your instrument.

• Although the instrument can operate while in motion, avoid any unnecessary movement, and

avoid subjecting the instrument to drastic shock. Due to the lightweight design, the CI-340
represents features that are sensitive to the given precautions.

• Do not allow water or excessive moisture to get into the instrument. The CI-340 can measure air

with high humidity, but it is highly recommended to avoid such circumstances. In addition, if
used in the field environment, please avoid extremely dusty conditions. Always use the external
filter provided.

• Operate the instrument using ideal temperature settings. Manufacturer testing shows that

operating the CI-340 under extreme temperatures (below 5°C or above 45°C) will affect its
performance.

• When not in use, store the instrument in a cool and dry location. Preferably, place the CI-340

back in the carrying case in an ambient or reasonably cool room.

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• Do not open or break the seal on the instrument. Under any conditions that require attention

internally, immediately contact the nearest representative or manufacturer to assist you.

LEAF CHAMBER CARE AND USE

The leaf chambers are designed to be interchangeable with the CI-340. Any of the closed or open
system chambers can be used with ease and reliability. The leaf chambers should receive the same
care and attention as is recommended for the CI-340.

When attaching a chamber (see Figure 9-1) to the instrument, check that the O-rings (black, rubbery
rings) are in place on the connecting tubes of the chamber. Although the O-rings are not permanently
fixed on the tubes, they play an important part of assuring a better seal to the interconnecting CI-340.
A chamber without O-rings on the tubes may demonstrate leakage at the CI-340 connection.

To attach the chamber to the CI-340, carefully slide the tubes on the chamber into the “head” end of
the instrument, aligning the locking screw (from the CI-340) with the mating hole in the chamber.
Turn the locking screw to fasten the chamber to the CI-340, without over-tightening. This assures a
good lock and maximizes contact area for electrical connection between the chamber and the
instrument. The instrument may be kept on; however, do not start measurements without first
attaching a chamber.

Furthermore, the IR Temperature sensor and PAR sensor should be inserted into their respective
locations on the chamber (see Figure 9-2). Check that the IR Temperature sensor is plugged securely
(without bending the tiny wire by the sensor lens) and the PAR sensor is firmly slid in to acquire ideal
measurement conditions. Connect the IR Temperature sensor and PAR sensor plugs into their
respective locations on the “head” end of the CI-340. The IR Temperature sensor should be handled
with great care.

With the chamber attached to the CI-340, and the IR Temperature sensor and PAR sensor inserted,
the leaf chamber is ready for use. Place the sample between the seals of the chamber. Now, gently
close the chamber; it will lock into place on the sample. Once sampling is completed, push the release
head forward to open the chamber. For LC-4, 5, 7-10, the release head is located on the latch piece of
the chamber. For LC-1-3, the release head is located on the topside. To disassemble, simply reverse
the steps followed to assemble the unit

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Figure 9-1.llustration of a leaf chamber: CI-301LC-2, Wide Rectangular Chamber for an open system.
We recommend working in temperature ranges between 5 and 45 ºC for greatest precision. Be sure

both sensors are connected to the leaf chamber prior to using. The PAR sensor is extremely sensitive
to even subtle changes in the light environment.

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Figure 9-2. Connecting a leaf chamber to the CI-340.

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RECHARGING

The CI-340 includes a 7.2V, 3.7Ah Li-ion battery. This battery pack is common among equipment
that utilizes portability (primarily video camcorders). When the battery is fully charged, it will last
for approximately five hours of continuous use. Optional batteries can be used with more operational
time available.

Any one of the following conditions will affect the power supply and the operation of the instrument:

• Batteries are tested and fully charged when they leave the manufacturer, but they discharge

during shipping and transport.

• When the battery voltage is below 5.6V, the message “Low Battery” will appear on the screen.

This indication signals an approximate five minutes of use remaining before the instrument shuts
down.

• When operating the instrument at colder temperatures (below 5oC), the battery will diminish in

performance.

Batteries should be fully recharged as soon as possible after use. Storing in a discharged state can
ruin the battery. The batteries should be stored in a cool and dry place, fully charged. Check with the
warranty, manufacturer, or the nearest representative for support if the battery has been damaged or
tampered with.

Rechargeable batteries should be recycled after their useful life. Visit www.rbrc.org for more
information on recycling.

TO POWER YOUR CI-340 FROM A LAB POWER SOCKET

Figure 10-1. Charger/adapter, power cable and DC

coupler connections.

1. Connect the DC coupler to the CI-340. Align the front end of the DC coupler with the guides on

the back of the CI-340, then press and slide the DC coupler into the CI-340 to set it in place.

2. Connect the power cable to the charger/adapter.

3. Plug the power cable into a lab power socket.

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4. Connect the DC coupler to the charger/adapter’s DC terminal.

TO DISCONNECT THE CHARGER/ADAPTER

1. Turn the CI-340 off and detach the DC coupler.

2. Disconnect the DC coupler from the charger/adapter.

3. Unplug the charger/adapter and disconnect the power cable from the charger/adapter.

TO CHARGE THE Li-ion BATTERY

Figure 10-2. Attach the Li-ion Battery to the charger/adapter.
Note: Make sure that the DC coupler is not connected to the charger/adapter. The Li-ion Battery will

not charge if the DC coupler is connected to the charger/adapter.

1. Connect the power cable to the charger/adapter. (See Figure 10-2.)

2. Plug the power cable into a lab power socket.

3. Attach the Li-ion Battery to the charger/adapter.

• Align the front end of the Li-ion Battery with the guides on the charger/adapter, then press and

slide the Li-ion Battery into the charger/adapter to set it in place.

• The red charge indicator will flash while the Li-ion Battery is charging. Single flashes indicate

that the Li-ion Battery is charged less that 50%. Double flashes indicate that it is 50-75% charged.
Triple flashes indicate that it is more than 75% charged. The indicator shines steady when the
Li-ion Battery is fully charged.

4. Remove the Li-ion Battery.

5. Unplug the charger/adapter and disconnect the power cable from the charger/adapter.

NOTES

• If the charger/adapter does not seem to be working, this may be because its safety circuit has been

activated. Unplug the charger/adapter, wait a few minutes, and plug it in again.

• The charge indicator does not light up when the DC coupler is connected.

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• If the adapter is used next to a TV, it may cause the TV to emit noise – move the charger/adapter

away from the TV or the aerial cable.

• Never unplug the charger/adapter during use or disconnect the DC coupler from the

charger/adapter when the DC coupler is being used.

• Be sure to unplug the charger/adapter when you have finished using it.

• Battery charging will stop if you connect the DC coupler to the charger/adapter, but it will resume

as soon as you disconnect it.

• The charger/adapter can be used with a power supply between 100 and 240 V AC. Contact your

Canon Service Center for information about plug adapters for overseas use.

• To prevent equipment breakdowns and excessive heating, do not connect this charger/adapter to

voltage converters used by travelers, or special power sources such as on aircraft, ships or DC to
AC inverters, etc.

• Use only specified CI-340 products with this charger/adapter.

• Do not disassemble the charger/adapter (or DC coupler), and do not expose it to water, shock or

vibration, or to direct sunlight. Avoid exposure to high temperatures, such as a closed car in hot
weather, and do not leave it near heat-radiating equipment, such as a stove or heater.

BATTERY CHARGER SPECIFICATIONS

Power supply:

100 to 240 V AC, 50/60Hz

Power consumption:

24 W

Rated output:
(Nominal)

Adapter mode: 7.2 V, 2.0 A DC
Charge mode: 8.4 V, 1.5 A DC

Operating temperature range:

0 – 40oC (32 – 104 oF)

Dimensions:

75 x 51 x 99 mm (3 x 2 x 3

7/8

in.)

Weight:

215g (7

5/8

oz.)

Weight: Weight and dimensions are approximate. Errors and omissions excepted. Subject to change without notice.

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EQUATIONS

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TROUBLESHOOTING

If for some reason the instrument is not performing as you expect, please follow these troubleshooting
procedures. If these procedures do not solve the problem, contact the manufacturer or nearest
representative.

Display does not come on . . .

• Check the battery connection. Make sure the battery is properly inserted.

• Dead battery. Battery needs to be replaced or recharged.

• Too much direct light on the display. Pivot or ‘shadow’ the display area such that direct

light does not “blank” out the screen. Excessive glare may be the obvious problem

• Make sure the accessory cable (if plugged into the CI-340) is in the “OFF” position,

towards the instrument, or simply unplug the cable connector. The switch should only be
in the “ON” position, away from the instrument, when downloading codes from a
computer.

Display does not come on after continuous operation...

• Check the battery connection. Make sure the battery is properly inserted.

• Press the EXIT or STOP key to stop any on-going function, or...

• Press the OFF key to automatically shut off the power, or...

• Remove the battery, then re-insert.

Display flickers, then goes out . . .

• Low battery. Battery needs to be replaced or recharged.

• Check the battery connection. The battery may not be completely installed.

Keys on the keypad do not respond effectively . . .

• Apply firm pressure to and hold the key(s) until the beep is heard. Multiple keys pressed

(simultaneously) may result in unintentional signal(s) to the microprocessor.

• Be sure to press the requested key(s) necessary for information to be processed. Any key,

when the unit is powered on, will produce a “beep” sound.

Keypad sound (“beep”) does not respond effectively . . .

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• Make sure to press the key(s) firmly and hold until the “beep” sounds. When the

instrument is busy performing a task, it may not respond immediately to a pressed key.

• Check to see that the key sequence(s) are valid. Randomness does not guarantee a proper

operational instrument.

CO2, H2O readings dramatically fluctuate or deteriorate during measurements . .

• Check for proper tube, chamber connections. A good secure fit obtains and promotes

more accurate measurements and results.

• Make sure the chamber head is closed properly. The measuring environment should be

appropriately sealed by the chamber head so that the intended sample is analyzed
accurately.

• The sample(s) may not be a good source.

• Ambient, internal operating temperatures may be too extreme. Check with the instrument

accessory specifications for ideal operating conditions.

Analyzer displays zero values for CO2, H2O concentrations . . .

• Check for proper calibration(s). Using a Di-nitrogen (N2) source for both the CO2 and

H2O concentration is highly recommended for the 0-ppm source. Using a 300- or 600­ppm source is highly recommended for the known source of CO2; a known source
between 1 ~ 7.5 kPa of water vapor pressure is required.

• The sample(s) may not be a good source.

If at the end of setting photosynthesis parameters, the “Exit to Quit” screen remains on longer

than 30 seconds, it is possible that the flow calibration is not calibrated properly.

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SYSTEM SPECIFICATIONS

CO2 Analyzer:

Sensor: Low power Non-Dispersive Infrared Gas Analyzer. No sensitivity to motion
Chopping frequency: 1 Hz
Source life: 5000 hours
Sensor response time: 35 seconds
Repeatability: ± 0.1ppm (short term)
Sample cell: 100 mm × 10.2 mm (3.94”L × 0.40” Dia)
Warm-up time: Approximately 3 minutes
Accuracy: < ± 2% up to 2000 ppm
Resolution: 0.1 ppm.
Power supply: 7.2 VDC, 4400 mAh for 5 hours continuous use, extended hours of use with additional

batteries. AC Adapter / Battery Charger supplied
Power consumption: 2.5 watts (sample pump in operation)
Pump flow rate: 100 ~ 1000 cm2 / min
Mass flow meter Accuracy: 2%
Display: LCD 40 x 6 characters or 320 x 64 pixel
Data output: PC link cable, RS232 or USB (with adapter)
Data storage: 4 MB internal FLASH RAM
Operation temperature: 0 to 45ºC, 0 - 90% RH non-condensing
Dimensions: 44 cm x 5.5 cm x 5 cm
Weight: 1.5 Kg., (3 lb.) (with battery)
Standard range: 0 to 2000 ppm (Standard) - 0 to 3000 ppm (Optional)

H2O Analyzer

Sensor Type: Humidity Sensitive Capacitor
Stability: Stable Analyzer for Accurate H20 Measurements
Measuring Range: 0 to 100% RH
Resolution: 0.1%
Accuracy: ±2% at 10% RH, ±3.5% at 95% RH
Sensor response time: 15 seconds

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Typical Signal: The sensor electronics typically puts out a 0.5V signal for 50% RH, which is
amplified to 2.34V and measured with a 16bit ADC.

PAR Sensor

Sensor Type: Filtered GaAsP photodiode
Range: 0 ~ 2500 µmol m

-2 s-1

Accuracy: ±5 µmol 0-2500 µmol / m2 / sec
Response: 400 ~ 700 nm

Chamber Temperature Measurement

Type: Thermocouple
Range: -15 ~ 50°C
Accuracy: ± 0.1°C
Display: LCD 40x6 characters 320x64 pixel

Leaf Temperature Measurement

Sensor Type: Infrared
Range: -10 ~ 50°C
Accuracy: ± 0.3°C

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POWER PACK

The CI-340 Battery Pack is necessary to operate the modules to control light, temperature, CO2
concentration, humidity level and chlorophyll fluorescence measurement. CI-340 Battery Pack (Figure
14-1) includes two rechargeable batteries, AC power supply charger (Figure 14-2), carrying bag, and
cable connections for optional modules.

If you have all four modules, the power cable should be plugged in during operation (Figure 14-3). If
you do not have all four modules, there will be foam spacers in the unfilled spaces in the bag.

Two hours are needed to charge the battery. You do not need to discharge the battery before recharging.

IMPORTANT: Be sure to charge the battery every day when you are using it. Never let the battery power
run completely out. Doing so may damage the battery.

Figure 14-1. Plug in power cables to run the Figure 14-2. 230V/115V AC Power Supply
modules after connecting the batteries. Charger

Figure 14-3. Modular bag with four modules.

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ACCESSORY CONTROL PORT AND CABLE

Figure 14-4. CI-340 Accessory Control Port.

The colored jacks on the accessory control cable (Figure 14-5) indicate the accessory / module to plug
into. The red plug goes to the CI-510CS, the blue to the CI-301LA, green to the CI-510CF, and the
yellow plug to the CI-301AD.

Figure 14-5. Accessory Control Cable with color indicating jacks.

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TROUBLESHOOTING

Technical Support

If you have a question about the CI-340features and functions, first look in the CI-340 Instruction
Manual. If you cannot find the answer, you can access troubleshooting information and the CI-340
Product Support Forum at:

https://www.cid-inc.com/support/CI-340/

Questions can also be directed to a Technical Support Representative located in your country. CID Bio­Science, Inc. is committed to provide customers with high quality, timely technical support. Technical
support representatives are to answer your technical questions by phone or by e-mail at support@cid-

inc.com. Please use the serial number of your instrument as the subject line of the email.

CID Bio-Science, Inc.’s contact information:

CID Bio-Science, Inc.

1554 NE 3rd Ave

Camas, WA 98607 USA

Phone: [phone] (U.S. and Canada)

360-833-8835

Fax: [phone]

Internet: http://www.cid-inc.com

E-mail: [e-mail]

Customer Service

Customer Service Representatives answer questions about specifications and pricing, and sell all of the
CID Bio-Science, Inc. products. Customers sometimes find that they need CID Bio-Science, Inc. to
upgrade, recalibrate or repair their system. In order for CID Bio-Science, Inc. to offer these services, the
customer must first contact us and obtain a Return Merchandise Authorization (RMA) number. Please
contact a customer service representative for specific instructions when returning a product.

FAQs

If there are any questions about the CI-340, please check the Frequently Asked Questions located on the
support page at http://www.cid-inc.com/support

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APPENDIX A

CI-510CS TEMPERATURE CONTROL MODULE

The CI-510CS Temperature Control Module consists of two components (see Figure A-1 and A-2): A
controller and Temperature Control Attachment. The CI-510CS allows you to increase or decrease
the temperature ±25°C from ambient temperature.

CAUTION: Avoid any obstruction or contact with the fan guards, especially small objects and
fingers.

Figure A-1: The front panel of the CI-510CS Temperature Control Module Controller

Figure A-2. Temperature Control Attachment, Electrical connector and Hoses.

Figure A-3. Water connection tubing / hose

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FILLING RESERVOIR

Attach one of the hoses from the Temperature Control Attachment to the “OUT” fitting (Figure A-4).
There is no polarity; it does not matter which hose is used. A water connection kit is provided in a
plastic bag. The water connection hose (Figure A-3) is connected to the “IN” fitting. This connection
hose can be used to prime the assembled unit with water (distilled water should be used) by inserting
it into a water bath (a large bowl, bucket, sink, etc.). The remaining water connection hose (Figure A-

3) attaches to the other hose connection on the Temperature Control Attachment (Figure A-4).
Turn the power on and observe the flow of water so that water steadily exits the other hose

connection (from the Temperature Control Attachment). Once a steady flow of water has been
established (air bubbles should not be noticed within the hoses), turn the power off momentarily,
detach the water connection hose and connect the free-end hose from the Temperature Control
Attachment into the “IN” fitting on the controller. Make sure the hoses are not bent or twisted. It is
advisable to remove all moisture on the Controller panel (especially around the electrical connector).

The Temperature Control Attachment is connected to the Controller marked “COOLING UNIT” with

an electrical five-pin connector (Figure A-5).

CAUTION: Do not run the Controller without connecting the supply hose to a filled water
reservoir. Otherwise, this could result in overheating and a possible malfunction of the pump.

Figure A-4 Tube configuration for filling the CI-510CS reservoir.

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Figure A-5

EMPTYING RESERVOIR

Care for the CI-510CS Temperature Control System as you would any other sensitive
instrument. The water in the hose needs to be completely drained after your experiment is
finished. Empty the reservoir, by leaving the “IN” port on the controller panel open to air.

Connect one hose from the Temperature Control Attachment to the “OUT” port on the controller

module. Connect the water connection tube to the other hose from the Temperature Control
Attachment and insert it in a container (Figure A-6). Turn on the controller module and allow it
to empty. It may be necessary to rotate the unit from side to side to get all excess water out of
the reservoir. Store the components so that the hoses are not crushed or twisted. This permits
the water to flow freely throughout the hoses for future usage.

Figure A-6 Configuration for emptying reservoir.

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OPERATING TEMPERATURE CONTROL MODULE

The CI-510CS Temperature Control Module is to be used with an Open System leaf chamber.
Before connecting the Temperature Control Attachment to your chamber, moisten the two
surfaces (improving thermal contact), which will be touching. You may do this by applying a
few drops of water to each surface. Align the two small screws on the Temperature Control
Attachment with the threaded holes on the chamber bottom and tighten, using the Allen wrench
provided. (see Figure A-7). The Infrared Leaf Temperature sensor should be inserted into the
respective hole on the chamber bottom.

Figure A-7. Illustration of Leaf Chamber, Allen wrench and Temperature Control Attachment.

A 12V battery supply outlet is provided for the CI-510CS. Remove all moisture on the Controller
panel. Plug the power connector to the jack marked 12V DC on the panel (Figure A-7).

WARNING: Only the provided power source can be used for the CI-510CS. Using other power
sources or power adapters may damage the CI-340 and the module. This will void the warranty.

Figure A-8. Configuration for the CI-510CS Temperature Control Module.

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To operate the CI-510CS, turn the power on. Temperature can be adjusted to a cooler or

warmer state with the “Temperature” knob. You can vary the setting according to the readout of

your CI-340 Photosynthesis System.

There is a “Remote Input” socket on the Controller panel. This can be used by remote control for

the purpose of automatically adjusting the system. The temperature control knob will set the
minimum temperature for remote control, so set the knob on the controller panel
counterclockwise (all the way cold) for remote control.

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APPENDIX B

CI-301LA LIGHT ATTACHMENT

The CI-301LA Light Attachment works with the flat, Open System chambers supplied by the
manufacturer. It can be used indoors or outdoors as an alternative to sunlight and an intensity­controlled light source. The light emitted covers the photosynthesis wave band.

Figure B-1. Lamp Control Unit and Lamp.

To mount the CI-301LA (see Figure B-2), loosen the securing foot, place the lamp over the
chamber, and screw in the foot against the chamber. The knob on the control unit allows you to
manually adjust the light intensity, which ranges from 0 to 2,000 mmol m-2s-1. Note that the
light is equipped with cooling fans, which have exhaust vents (along the sides), and intake vents
(on the bottom). Keep these vents clear at all times during use to avoid overheating.

Refer to A-1 in APPENDIX A to connect the power supply into the 12V connector on the control
unit front panel.

An Accessories cable (one end with an eight pin connector, the other end with four plugs)
should be used in order to have the CI-301LA controlled by the CI-340 instrument. Connect the
eight-pin connector of the Accessory control cable to the Accessory control Port (see Figure 2-

2) on the end of the CI-340. Insert the plug with blue color band into the External Control jack
on the CI-301LA control unit (A-4 in APPENDIX A).

Note: Turn the power off to the CI-301LA when attaching cables.

In order to allow the CI-340 instrument to control the CI-301LA, turn the intensity control knob
counter clockwise all the way down. Keep the knob in that position during the operation. The
CI-301LA lamp illuminates when it is working.

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A small cable with a plug connected to the lamp is the PAR sensing output. Make sure that the
lamp covers the chamber window area so the PAR intensity emitted from the lamp or the
external PAR sensor can be utilized. It is recommended that if the cable plugs into the CI-340,
the external PAR sensor should not be plugged in.

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REMINDER: The CI-301LA Light Attachment intake and exhaust vents must remain unobstructed during use to avoid overheating
and possible damage to the light source. Do not place the lamp exhaust vents face down

Figure B-2. Configuration for the CI-301LA Light Attachment.

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APPENDIX C

CI-301AD ADJUSTABLE H2O AND CO2 CONTROL MODULE

GENERAL DESCRIPTION

The CI-301AD provides a gas source with a CO2 concentration adjustable from approximately 0
to 2000 ppm at flow rates up to 0.5 lpm. The unit also allows adjustment of the gas humidity
level from approximately 5% relative humidity to 20-30% above ambient humidity levels up to
95%. The CI-301AD uses a CO2 cartridge and soda lime to regulate CO2 levels, and silica gel and
water to control humidity.

Figure C-1. Illustration of CI-301AD Adjustable H2O and CO2 Control Module.

OPERATING INSTRUCTIONS
Adding Consumables

Before operating the CI-301AD, the proper consumable materials must be loaded. For full
operation (control of CO2 and humidity), the unit requires a CO2 cartridge, soda lime (CO2
absorbent), silica gel (desiccant) and water. The soda lime, silica gel and water must be placed
in the correct tubes.

NOTE: When it is not desired to use the humidity control feature, it is unnecessary to add
silica gel or water. In this case, the H2O control knob should be in its minimum (fully
counterclockwise) position to conserve power.

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To remove a chemical or water tube, gently pull each end off the coupler tubes. Make sure that
the two O-rings on each coupler tube remain in place.

The CI-301AD is shipped with fresh soda lime and silica gel in their appropriate tubes. If it
should become necessary to open a tube, hold it in both hands and use the thumbs to push the
cap off. The cotton balls should be replaced each time the tubes are refilled. Refer to the
REPLACING CONSUMABLE section for instructions on replacing the filters. When filling the
tubes, gently tap the bottom against a firm surface several times to help the material settle.
Replace the top cap making sure there is sufficient room in the tube. Press firmly to seal in
place, and twist if necessary to seat the O-rings. Replace the tube in the proper position on the
CI-301AD.

To fill the water tube, remove the top cap in the same manner. The caps will come off along with
an internal assembly. This assembly deflects water bubbles from entering the system during
operation. You will notice a scribed line on the center of the tube. Add water to this line. Under
no circumstances should you fill the water tube above this line. Doing so may cause liquid to
emerge from the output under certain operating conditions creating potential damage to the
connected gas analyzer. Replace the top cap firmly, and place the tubes back in the correct
position on the CI-301AD. The water tube should be emptied if the unit is not used for more

than one or two days.

CONNECTION TO POWER AND THE ANYLIZER

The CI-301AD requires 12V DC for operation. Refer to A-4 and figure A-7 to connect the power
supply to the connector marked “12V DC” on the CI-301AD controller unit front panel. Remove
all moisture on the controller panel. Plug the power connector to the jack marked “12V DC” on
the panel.

Before operation, connect the “OUT” port on the CI-301AD to the “INTAKE” port on the CI-340
(see Figure C-1). Adjust both control knobs to their minimum (fully counterclockwise)
positions.

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Figure C-1: Configuration for the CI-301AD Adjustable Humidity and CO2 Control Module.

OPERATION

NOTE: The CI-301AD does not supply gas under pressure to the output. This is because

constant flow must be established inside the unit to maintain stability; unused gas is exhausted
inside the case. Gas must be drawn from the output by the analyzer or an external pump. When
connected to the CI-340 CO2 gas analyzer, the pumps inside the Analyzer will draw the gas from
the CI-301AD into the analyzer system. An external pump may be required if using a different
analyzer.

Do not attempt to draw more than 0.5 LPM (liter per minute) from the CI-301AD output.
Doing so may result in ambient air being drawn into the system, causing inaccurate results.

The CI-301AD must be fully upright to operate (with the control panel facing upwards). This is
necessary for two reasons. First, the soda lime and silica gel cartridges operate most efficiently
in a fully upright position. Second, if the unit were to tip too far in operation, liquid might enter
the system and be pumped to the analyzer, causing potential damage. If the unit is to be carried
while in operation, care should be taken to avoid tipping or shaking. This may cause power
fluctuations, which could temporarily affect stability.

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To begin operation, turn the power on. This should be done 5 to 10 minutes before the system
is to be used, allowing time for the flow to stabilize. It may take about 5 to 10 minutes to purge
the system thoroughly. Set the CO2 fully on during this time. The fastest way to purge the CO2
chamber the first time it is used after standing for a long period of time is to turn the CO2 fully
on, then turn the CO2 fully off several times. This will cause ambient air that is trapped in the
chamber to be replaced with pure CO

2.

Turn the H2O knob to adjust the relative humidity. This must be done before adjusting the CO2
level, since changes will affect the CO2 concentration. The desiccant used to control humidity
absorbs CO2 gas.

Turn the CO2 knob to adjust the CO2 level. There is a slight delay before stabilization occurs It
will generally take a minute or so to fully stabilize (assuming the CO2 chamber has been
previously filled with CO2, or 2 to 10 minutes if it has not been filled with CO2).

To enable the CI-340 instrument to control the CO2 / H2O levels remotely, the accessory cable
must be connected to the CI-340 and the yellow color-coded plug must be inserted into the
remote control jack of the CI-301AD. Turn the CO2 knob fully counterclockwise and the H2O
knob fully clockwise.

REPLACING THE CONSUMABLES

The CI-301AD requires periodic replacement of the CO2, soda lime, silica gel, water, and filters.
All materials should be available locally through chemical or laboratory supply dealers, or they
may be ordered from CID, Inc.

Soda Lime

The soda lime should last for 8 to 24 hours of operation under most circumstances. Actual
operating time will depend upon ambient CO2 levels. The soda lime supplied is an indicating
variety: it will turn slightly blue as it becomes exhausted.

The output of the CI-301AD may become unstable and show an increase in the CO2 level as the
soda lime reaches exhaustion. When this happens, replace the soda lime.

Use the same procedure described under Operating Instructions – “Adding Consumable” to
refill the soda lime tube. Replace the filters (see Filters section below). Remember to gently tap
the tube to help settle the material. Keep all containers of fresh soda lime tightly sealed to
prevent absorption of ambient CO2.

Silica Gel

The silica gel should last from four to eight hours of operation under most circumstances.
Actual operating time will depend on ambient humidity levels. The silica gel supplied is a
beaded, dust-minimizing material of an indicating variety. The fresh material is dark blue and

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turns yellow as it nears exhaustion. The relative humidity of the output of the CI-301AD will
increase as the silica gel becomes exhausted. When this happens, replace the silica gel.

Use the same procedure described under Operating Instructions-Adding Consumable to refill
the silica gel tube. Replace the cotton ball filters (see Filters section below). Remember to gently
tap the tube to help settle the material. Keep all containers of fresh silica gel tightly sealed to
prevent absorption of ambient moisture.

The used silica gel may be discarded or dried in an oven. If the material is dried, it should be
placed in a sealed container before cooling. Note that the indicator incorporated into the

silica gel may not function properly after this process, even though the silica gel itself may
be dry.

Water

Water should be added if the level falls significantly. Change the water if it becomes cloudy or
contaminated in any way. Empty the water tube if the CI-301AD is not used for more than one
or two days.

CO2 Cartridge

Screw the CO2 cartridge into the regulator. Set the regulator to 6 psi. The cartridge may seem
to be tight before it is punctured, so make sure to tighten until there is pressure indicated on
the meter. The regulator must be set to “LO” to get a reading on the meter.

Filters

The cotton ball filters located at each end of the soda lime and silica gel tubes become clogged
with fine particles and must be replaced. These filters should be replaced each time the
chemicals are changed.

It is extremely important that the filters be kept clean at all times. The first indication of a
clogged filter will be instability in the output of the CI-301AD. This may be followed by a
reduction in the available flow.

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APPENDIX D

CI-301SR SOIL RESPIRATION CHAMBER

The CI-301SR Soil Respiration chamber allows easy measurements of soil respiration using the
Closed System mode of the CI-340.

Connect the CI-301SR (see Figure D-1) to the CI-340 in the Closed System configuration (refer
to the CLOSED SYSTEM section if you need further assistance). Insert the PAR sensor firmly into
its respective slot on top of the soil respiration chamber (refer to the LEAF CHAMBER - CARE
AND USE section). The IR Temperature sensor must be used to detect soil temperatures. Plug
its cable into the CI-340, then into the respective hole on top of the chamber.

Now, place the CI-301SR on the area of soil that you wish to measure with the open end of the
cylinder downwards. Rotate the chamber slightly to ensure that the cylinder is seated into the
surface of the soil; a good seal is important to obtain accurate readings. If you need PAR
readings, check so that the PAR sensor is under direct sunlight.

Soil respiration results will be shown as the photosynthesis reading. Note that the readings will
be displayed in negative values.

Clean the CI-301SR after use. A soft, dry cloth will usually suffice, but water and mild detergent
may be used, if necessary. Never immerse the chamber in water or pour water into the
cylinder. The chamber contains electronic components, which can be damaged by liquids.

Setup Procedures

• Create file

• Time Interval – Sampling Time

• Photosynthesis Mode P

• Zero for no accessory units

• Leaf area = soil area = 73.4 cm²

• Recommended flow rate 0.5 lpm

• Chamber volume is 0.634 liters with soil at the edge of chamber

• Chamber volume is 0.580 liters with edge 1 cm. into soil

• Time or CO

2

End (Time is the length to run measurement; CO

2

is the concentration level to

end measurement). Enter T or C

• Enter time value or CO

2

concentration value

• Measurement begins

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Figure D-1. Configuration for the CI-301SR Soil Respiration Chamber

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APPENDIX E

CANOPY CHAMBER ASSEMBLY INSTRUCTIONS

The Canopy Chamber Attachment is another feature of Closed System measurements. This
attachment is designed to be used with the canopy chamber enclosures measuring canopy
photosynthesis. The enclosures could be of varying sizes, all of which the user can determine.
The following conditions represent the kinds of enclosures that are acceptable:

• Materials that are not light-reflected, gas-permeable, light-impenetrable (such as plastic

bags, acrylic shells, most glass canopies)

• Larger than the manufacturer’s LC-10 chamber (4-liter volume)

• Larger than the measuring sample environment

For accurate installation of this attachment (see Figure E-1), the chamber enclosure must
accommodate for an (circular) opening (approximately 65 mm (2-1/2”)) on one of the sides. An
additional slot can be made for the PAR sensor on the enclosure for accurate measurements of
ambient light intensity. Canopy Chamber Attachment ‘A’ has a position for the PAR sensor
placement; however, this position will not always provide reliable measurements of ambient
light intensity.

To prepare for measurements, align Attachment ‘A’ and Attachment ‘B’ with the seals facing the
enclosure. With this alignment, the tubes (in Attachment ‘A’) should slide into the respective
holes in Attachment ‘B’. Secure the entire Canopy Chamber Attachment onto the enclosure by
tightening the thumbscrews from Attachment ‘B’.

NOTE: When using the IR Temperature sensor, be sure that the 65mm diameter opening is
clear of any obstruction from within the enclosure. This is to ensure accurate leaf
temperature measurements.

Now, attach the Canopy Chamber Attachment to the CI-340 by gently sliding the exposed tubes
into the holes and tightening the locking screw of the CI-340. Place the IR Temperature sensor

firmly into the opening located on Attachment ‘A’. Plug the IR Temperature sensor connector

into its CI-340 port. Finally, insert the PAR sensor into the slot of Attachment ‘A’ or in the
enclosure opening. If the chamber enclosure is made of flexible material, a tripod is suggested
for an appropriate support of the CI-340.

Plant Canopy Chamber Accessory

Plant canopy chamber measurements have a unique advantage because variation within
individual leaf measurements is minimized and an accurate picture of whole plant photosynthesis can
be seen. These differences are caused by the heterogeneous distribution of leaves within the plant
canopy, due to uneven distribution of radiation, humidity and heat.

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Whole canopy photosynthetic rate (Pn) measurement can be used to quantify integral plant
responses to the environment, as well as for determining the final yield of a crop. While many factors
affect the photosynthetic rate of plants, the CO2 differential is most accurately established by taking into
account the characteristics of individual plants and the environment they are in for each and every
photosynthesis measurement task. Comparison between plant canopy photosynthesis measurements
and individual leaf measurements can lead to conclusions on sun and shade leaf productivity, as well as
whole plant gas exchange.

Analyzing the CO2 differential over an entire plant (or plants) can provide researchers with
information concerning entire plant processes, the contribution of shaded leaves to overall
photosynthesis rates, how overall plant productivity or yield relates to canopy photosynthesis or
canopy light interception. The USDA has researched the effects of drought and kaolin-coating on the
leaves of trees, comparing the overall photosynthesis rates of kaolin-coated and uncoated trees. It was
determined that kaolin-coated trees had higher photosynthesis rates, and therefore were more tolerant
of the drought conditions. Other studies into leaf area index and how differing leaf morphologies affect
canopy photosynthesis and plant productivity have also incorporated plant canopy chambers for
photosynthesis measurements.

The CI-340 canopy chamber attachment is designed to be used with various size enclosures,
depending on size of plant or study area. The canopy chamber is a closed system, and air is not
renewed inside of the chamber during analysis. Extremely large chambers have several limitations in
the field such as that leaf temperature, wind patterns and evapotranspiration may not reflect natural
environmental conditions. Also, controlling the temperature of large sun-exposed chambers can be
difficult in the field. However, many of these limitations do not affect small chambers as significantly.

Assembly Instructions

To accurately install the canopy chamber attachment, an air-tight chamber must be formed

around the plant, but light must not be obstructed. The following conditions represent enclosures that

are acceptable:

• Materials that are not light-reflected, gas-permeable, light-impenetrable (such as plastic bags,

acrylic shells, most glass canopies)

• Larger than the manufacturer’s largest close system leaf chamber (CI-301LC-10 chamber: 4-

liter volume)

• Larger than the measuring sample environment

Flexible Chamber Wall

When using a bag or flexible material for the canopy chamber, it is recommended to cut a small
hole (about 65 mm diameter) to help facilitate the chamber attachment. Cut the hole in the side or
bottom of the bag. Line up the “inside” canopy chamber attachment piece (the thinner piece with the
thumb screws) with the hole cut in the bag. The bag should be completely inside the seal, but plastic
should NOT cover any of the holes. Plastic should also be kept away from the screws as they are
tightened. Attach the “outside” canopy chamber attachment piece (the thicker, larger piece) to the
thinner piece using the thumb screws. Make sure that the bag is tight between the seals and there are
no air leaks. Plastic should be free of the inlet and outlet connectors to the analyzer, as well as the clear
of the hole for the IR temperature sensor to ensure accurate leaf temperature measurements. Once the

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bag is lined up, and the two pieces connected, tighten the thumb screws making sure the bag is firmly in
position between the seals.

If the chosen method was to cut a hole in the side of a plastic bag, after the canopy chamber
attachment has been put on the bag, place the plant inside the bag. Close the open end of the bag by
twisting it tightly and wrapping a rubber band around it. Other methods work as well; just make sure
that the bag is air tight so that the system is closed.

Rigid Chamber Wall

For long term or laboratory studies, a rigid canopy chamber enclosure of glass or plastic may be
constructed. The same regulations apply as to using a plastic bag; a circular hole approximately 65 mm
needs to be cut on one side to allow the canopy chamber attachment to be properly installed. Typically,
a box type chamber is designed to be opened from the top or on a side where the user may reach the
“inside” canopy chamber attachment piece.

If a rigid chamber enclosure is made, an additional slot can be made for the PAR sensor on the

enclosure for accurate measurements of ambient light intensity. The “outside” canopy chamber

attachment piece has a position for the PAR sensor, but this position will not always provide reliable
measurements.

To prepare for measurements, align “inside” and “outside” canopy attachment pieces with the seals
facing the enclosure wall. With this alignment, the tubes from the “outside” piece should slide into the
respective holes in the “inside” piece. Secure the entire canopy chamber attachment onto the enclosure
by tightening the thumbscrews on the “inside” piece.

Attaching Chamber to the CI-340

Once the “inside” and “outside” pieces are securely attached to the canopy chamber and the

chamber is sealed air-tight, attach the canopy chamber attachment to the CI-340 analyzer. Similar to
attaching leaf chambers, gently slide the exposed tubes on the “outside” attachment piece into the holes
on the CI-340 and tighten the locking screw on the CI-340. Place the IR Temperature sensor firmly into

the opening located on “outside” attachment piece. Plug the IR Temperature sensor connector into the

proper port on the CI-340. Finally, insert the PAR sensor into the slot on the “outside” attachment piece
or in the specially made hole on the rigid enclosure wall. If the chamber enclosure is made of flexible
material, a tripod is suggested for appropriate support of the CI-340. The tripod should be positioned
after the canopy chamber attachment has been completely set up and attached to the CI-340 analyzer.

How to Measure:

After the canopy chamber is connected to the CI-340 analyzer, including connecting the IR
temperature sensor and PAR sensor, attach a tube connecting the intake and exhaust of the analyzer so
that the machine is set up for a close system measurement.

• Turn on the device and wait for the normal power up sequence.

• Enter the appropriate filename.

• Enter an appropriate time interval in seconds.

• When prompted to choose P, S, or C, select P allowing the analyzer to run in differential mode

(and later allows the user to select a closed system type measurement).

• When using the canopy chamber attachment, typically no accessories are used, so select the

default of 0.

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• When prompted to enter the leaf area, choose the default as this will not matter once closed

system is chosen.

• The flow rate should be doubled or increased from the default of 0.3 lpm to 0.6 lpm. When

using the canopy chamber, only the single fan in the analyzer controls air flow, since there is no

separately powered fan in the canopy chamber attachment like in leaf chambers.

• Choose “C” for closed system.

• Enter the volume of your chamber in liters.

• Choose the length of time (in seconds) to allow the analyzer to run or choose a change in CO2

concentration to end at.

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Figure E-1. Configuration for the Canopy Chamber Attachment. A rigid-wall plant canopy chamber, attaching to the CI-340. The PAR sensor

can either be attached to the canopy chamber accessory or can be mounted separately on the top of rigid chambers in order to most

accurately reflect light levels.

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APPENDIX F

CI-510CF CHLOROPHYLL FLUORESCENCE MODULE

The CI-510CF is a host operated modulated chlorophyll fluorescence measurement
module. This module performs two functions: generated chlorophyll fluorescence trace
data, and individual pulse (calculated) data. From this, complex kinetic tests can be
performed and analyzed.

CONNECTING THE CI-510CF TO THE CI-340

CI-510CF Chlorophyll Fluorescence Module comes with a ‘Y’ shaped fiber optic cable.
To connect the CI-510CF Chlorophyll Fluorescence Module, screw on the two
connectors on the ‘Y’ end of the cable into the holes on the face of the CI-510CF
Chlorophyll Fluorescence Module. Then insert the other end of the cable to the hole on
the side of the chamber. See the graph on the next page for the details. Insert a power
plug into the 12V DC jack on the CI-510CF module. An Accessory control cable (one
end with an eight-pin connector and another end with four plugs) is used for
communication between the CI-340 instrument and the CI-510CF module. Connect the
eight-pin connector of the Accessory control cable to the Accessory control Port (see
Figure 2-2) on the end of the CI-340. Insert the plug with green color band into the
RS232 jack on the CI-510CF control unit.

Always make sure to plug in the electrical connector before plugging in the RS232
cable plug.

CI-340 FLUORESCENCE SATURATION PULSE MEASUREMENT

With the CI-340 and CI-510CF cabled together and with the fiber optic inserted in the
leaf chamber, activate the CI-340 Fluorescence Saturation Pulse Measurement by typing:

“SHIFT SHIFT SHIFT 2”

on the keypad, which is the letter “F” (for fluorescence). The CI-340 will ask for a
filename to save the data under and a pulse length from 0.8 to 3 seconds. The default
saturation pulse length is 1 second. Then the CI-340 will proceed to take the
measurement.

Use the C340DF.exe utility to down load the file to a PC and view the stored file in an
appropriate spreadsheet.

The Fluorescence numbers are generated at a 16 Hz rate and represent the chlorophyll
fluorescence in A/D (Analog to Digital Converter) counts. The last three entries in the
table are:

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Low Fluorescence value:

Fo - dark, Fs - ambient

High Fluorescence value:

Fm dark, Fms - ambient

Ratio of DHL:H:

Fv/Fm - dark, Y - ambient

The Ratio is the only value that is not in A/D counts. It should be interpreted as 0.xxx
where xxx is the number displayed in the table. For example: if the number displayed is
99, the ratio is 0.099.

The default saturation pulse length is 1 second.

Figure F-1. CI-510CF CHLOROPHYLL FLUORESCENCE MODULE

SPECIFICATIONS:

Power:

10 to 30 VDC, 75mA (175mA during
saturation pulse)

Fuse:

0.5A FB 3AG

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A/D converter:

2000 counts

Measured parameters:

Chlorophyll fluorescence trace data Fo, Fm,
Fv//Fm
(dark adapted) Fs, Fms, Y (ambient
illumination)

Modulated light intensity:

0.25 uE at 12 mm

Saturation light intensity:

3,000 uE at 12 mm

Modulation frequency:

8 Hz to 80 Hz

Fiber optic probe:

bifurcated light guide

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Warranty Information

Seller's Warranty and Liability:

CID Bio-Science warrants new equipment of its own manufacturing against
defective workmanship and materials for a period of one year from date of sale. The
results of ordinary wear and tear, neglect, misuse, accident and excessive
deterioration due to corrosion from any cause is not to be considered a defect.
CID Bio-Science’s liability for repairing or replacing defective parts during the
warranty period is contingent on examination by a CID Bio-Science authorized
representative. Felix Instruments liability will not extend beyond repairing or
replacing parts from the factory where they were originally manufactured. Repair or
alteration by an unauthorized technician voids warranty.
Material and equipment which is not manufactured by CID Bio-Science is to be
covered only by the warranty of its manufacturer. CID Bio-Science will not be liable
to the Buyer for loss, damage, or injury to persons or to property by the use of
equipment manufactured by other companies.
Buyer accepts the terms of warranty through use of this instrument and any
accessory equipment. There are no understandings, representations, or warranties
of any kind, express, implied, statutory, or otherwise (including, but without
limitation, the implied warranties of merchantability and fitness for a particular
purpose), not expressly set forth herein.
All instrument repairs or replacement covered under warranty require a Returned
Material Authorization (RMA) number. Please contact CID Bio-Science technical
support department at [e-mail] to obtain an RMA number before
shipping instrument to CID Bio-Science, Inc.

Buyer is responsible for shipping charges to CID Bio-Science headquarters:

1554 NE 3rd Ave.
Camas, WA 98607
USA

CID Bio-Science is responsible for return shipping charges on repairs and/or
replacement covered by warranty.