LI-COR LI-600 Instruction Manual
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LI-COR LI-600 Instruction Manual

Porometer/fluorometer
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  • Page 1 Using the Ll-600 Porometer/Fluorometer Instruction Manual...
  • Page 2 Using the LI-600 Porometer/Fluorometer Instruction Manual LI-COR Biosciences 4647 Superior Street Lincoln, Nebraska 68504 Phone: +1-402-467-3576 Toll free: 800-447-3576 (U.S. and Canada) envsales@licor.com Regional Offices LI-COR Biosciences GmbH Siemensstraße 25A 61352 Bad Homburg Germany Phone: +49 (0) 6172 17 17 771 envsales-gmbh@licor.com...
  • Page 3 LIMITED TO THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE. LI-COR shall not be held liable for errors con- tained herein or for incidental or consequential damages in connection with the furnishing, performance, or use of this material.
  • Page 4 Notes on Safety This LI-COR product has been designed to be safe when oper- ated in the manner described in this manual. The safety of this product cannot be assured if the product is used in any other way than is specified in this manual. The product is intended to be used by qualified personnel.
  • Page 5 CE Marking: This product is a CE-marked product. For conformity inform- ation, contact LI-COR Support at envsupport@licor.com. Out- side of the U.S., contact your local sales office or distributor. California Proposition 65 Warning WARNING: This product contains chemicals known to the State of California to cause cancer and birth defects or other reproductive harm.

  • Page 6: Table Of Contents

    Derivation of equations Fluorometer Dark-adapted vs light-adapted measurements Section 2. Initial setup Charging considerations Powering on and off the LI-600 Using the universal charging adapter Battery warnings and disposal Section 3. Using the LI-600 menus Navigation keys & enter button...
  • Page 7 Measurement techniques Taking measurements Taking a measurement Using the barcode scanner Viewing measurement data on the LI-600 Section 5. Configuring computer software Connecting the LI-600 with the computer software Connection Overview screen Explore LI-600 Toolbar Home Screen Offline Mode 5-16...
  • Page 8 Instrument will not automatically log a measurement The display layout is blank The computer software displays a warning message when connecting the LI-600 The computer software displays a warning message when updating the firmware The new RH sensor serial number has not updated...
  • Page 9 Boundary layer conductance 10-5 Implementation of equations in the LI-600 10-5 Matching RH sensors 10-7 Flow sensors 10-7 Infrared temperature sensor 10-8 PAR sensor 10-8 Additional calculations for porometry 10-8 User calibration procedures 10-9 Fluorometer 10-11 Implementation on the LI-600...

  • Page 10: Section 1. Introduction

    It delivers precise, high- throughput stress evaluations over the same leaf area and quickly surveys plants under ambient conditions. This section describes what the LI-600 is, including its com- ponents, accessories kit, and optional fluorometer upgrade kit.

  • Page 11: Components

    LI-600 Porometer/Fluorometer Instruction Manual Components The LI-600 is comprised of the following major com- ponents. Aperture. (0.75 cm diameter) The active measurement site that surrounds the leaf gasket. Aperture clamp. Closes onto the leaf for secure meas- urements. Barcode scanner. Scans barcodes to help organize measurement data.

  • Page 12: Accessories Kit

    USB port. Connects the instrument to the computer or uni- versal charging adapter via micro-USB cable. Accessories kit The LI-600 includes a standard accessories kit, which has the following accessories and replacement parts for your instrument. Table 1-1. Accessories kit for the LI-600. Additional accessories can be purchased separately.

  • Page 13: Overview Of The Theory

    Overview of the theory Here we provide a brief summary of the operating pri- ciples of the LI-600 porometer and fluorometer. The full equation summary is provided in Theory of operation on page 10-1.

  • Page 14: Derivation Of Equations

    Section 1. Introduction Figure 1-1. The cuvette has relative humidity (RH) sensors that measure the air stream before and after it interacts with the leaf. Flow rates are measured before and after the cuvette, and leaf temperature is measured in the cuvette. Derivation of equations The mass balance of water vapor in an open system at steady-state is given by...
  • Page 15 (g ) is the one-sided stomatal conductance to water vapor, and (g ) is the one-sided boundary layer con- ductance, both in (mol H Boundary layer conductance in the LI-600 cuvette is a function of the flow rate (equation 10-10).

  • Page 16: Fluorometer

    Photosynthesis System fluorometer (Genty et al., 1989, Pfundel et al., 2013). Actinic light is not provided by the LI-600 fluorometer but rather by ambient light, which could be natural sun- light or any number of artificial light sources. The two LEDs are both modulated at a constant frequency and provide both the measuring beam and saturating flash.

  • Page 17: Dark-Adapted Vs Light-Adapted Measurements

    (250 to 750 kHz). Dark-adapted vs light-adapted measurements Unlike previous LI-COR fluorometers, where the actinic light is controlled by the fluorometer, here the actinic light source is provided by external sources unknown to the instrument. The instrument cannot know if a given measurement being made is on a dark-adapted leaf or not.

  • Page 18: Section 2. Initial Setup

    1 Amp at 5 VDC. The LI-600 can be charged when powered on or off. When preparing to use the LI-600 for the first time, charge the bat- tery to 100% capacity. Charging with the instrument powered off and using the universal charging adapter takes approximately 3.5 hours.

  • Page 19: Powering On And Off The

    0 to 45° C. If the pack reaches a temperature out- side this range, it will automatically stop charging. Powering on and off the LI-600 To power on the LI-600, press and hold the enter button on the instrument. To power off the LI-600, navigate to the Advanced Set- tings screen (see Advanced Settings screen on page 3-5) and...
  • Page 20 Section 2. Initial setup Caution: Lithium ion batteries may cause envir- onmental damage or damage to human health if they are disposed of improperly. Do not dispose of the batteries in unsorted municipal waste or an incinerator. Many localities have battery recyc- ling facilities that will accept lithium ion bat- teries.

  • Page 22: Section 3. Using The Li-600 Menus

    Select Configuration screen The Select Configuration screen displays a list of con- figurations that are loaded onto the LI-600. Up to four con- figurations can be uploaded to the LI-600. This screen appears after powering on the instrument and is also access-...

  • Page 23: Highlighted Configuration Details Screen

    LI-600 Porometer/Fluorometer Instruction Manual option, the LI-600 will beep twice to indicate that no con- figuration is selected and to select an existing con- figuration from the list. Configurations can be created on the computer soft- ware only, not on the LI-600 (see Creating a new con- figuration on page 6-1).

  • Page 24: Logged Screen And Flash Complete Screen

    8-panel layout and automatically appear on this screen after taking a measurement. The Logged screen appears when the fluorometer is disabled, and the LI-600 beeps once when the measurement is complete. The Flash Com- plete screen appears when the fluorometer is enabled, and the LI-600 beeps twice and flashes when the measurement is complete.

  • Page 25: Scan Barcode Screen

    LI-600 Porometer/Fluorometer Instruction Manual to Log screen; they do not need to be entered after taking a measurement. If unaltered, the previous data labels will be used in the following measurements. Select a number data label to enter the desired value using the up and down navigation keys.

  • Page 26: Advanced Settings Screen

    Match, Instrument Settings, and Warning(s) options. This screen appears after pressing the left navigation key on the Select Configuration screen. Select Power Down to power off the LI-600. Select Match to match the RH sensors to the envir- onment; it will beep once when complete.

  • Page 28: Section 4. Measurements

    Attach and use the wrist strap. To protect the LI-600, attach the wrist strap to the instru- ment and adjust it to your wrist size. Use the wrist strap at all times (or risk being the "person who dropped it").

  • Page 29: Measurement Techniques

    LI-600 Porometer/Fluorometer Instruction Manual Measurement techniques The LI-600 can take a measurement on both the top and bottom of the leaf. It can also take light- and dark-adapted measurements. For any measurement, please adhere to the following techniques. Maintain the original orientation of the leaf.

  • Page 30: Taking Measurements

    Do not cover up the four sets of vents on the instru- ment when taking measurements. Taking measurements This section describes how to take measurements and use the barcode scanner with the LI-600 in Auto Mode and Manual Mode. Taking a measurement The LI-600 can function solely as a porometer (LI-600P) and as both a porometer and fluorometer (LI-600PF).
  • Page 31 Logged screen will appear. If the fluorometer is enabled, the LI-600 will beep twice and flash when the measurement is complete, and the Flash Complete screen will appear. Press down on the lever to unclamp the instrument from the leaf.
  • Page 32 LI-600 logs the data point. This is based on monitoring changes over time to both the computed sto- matal conductance (g ) and/or the de-modulated fluor- escence signal (F) when using the fluorometer.

  • Page 33: Using The Barcode Scanner

    LI- 600 beeps. Using the barcode scanner The LI-600 has an onboard barcode scanner. To enable the barcode scanner for a given configuration, open the com- puter software and click the Configuration Management menu.

  • Page 34: Viewing Measurement Data On The

    Before taking a measurement, first select your con- figuration on the Select Configuration screen. Match. If this is your first measurement, allow the LI-600 to match. Select the barcode data label. Navigate to the Press enter to edit highlighted values screen and select the barcode data label.

  • Page 36: Section 5. Configuring Computer Software

    Connecting the LI-600 with the computer software The following tutorial describes the basic steps to take when turning on the LI-600 and connecting to the computer soft- ware. Install the computer software. The computer software is used to create and upload con- figurations to the instrument and download data from the instrument.

  • Page 37: Connection Overview Screen

    The Connection Overview screen displays the computer software startup screen, including the firmware and com- puter software versions. From here, you can proceed with or without a connected LI-600 or safely eject a connected instrument. On the Connection Overview screen, you will receive one of the following prompts upon starting the computer soft- ware.
  • Page 38 Section 5. Configuring computer software LI-600 connected!: An LI-600 is powered on and has been discovered by the computer software via USB. If multiple instruments are connected, the first connected is auto- matically chosen by the computer software. Click Explore LI-600 to access the Configuration Man- agement, Data Management, Live View, and Connection Overview menus.

  • Page 39: Explore

    LI-600 Porometer/Fluorometer Instruction Manual menus and options that are available when no LI-600 is connected. Explore LI-600 This section describes the available computer software menus and subsequent options when selecting Explore LI- 600 with a connected instrument. Toolbar The Toolbar includes a drop-down menu in the upper lefthand corner and four buttons in the upper righthand corner of the computer software screen.
  • Page 40 LI-COR website. Download Factory Calibrations: Downloads a fact- ory calibration file from the LI-COR website to the computer. Change RH Sensor Serial Number: (when RH is selected) Allows you to input a different RH sensor...
  • Page 41 Level. Home Screen: This button takes you to the home screen. Safely Eject Instrument: This button safely powers down and ejects the LI-600 from the computer software. View Help: This button opens the LI-COR sup- port website. Battery Level: This button displays the battery...

  • Page 42: Home Screen

    Section 5. Configuring computer software Home Screen The Home screen includes the Configuration Man- agement, Data Management, Live View, and Connection Overview menus. Configuration Management...
  • Page 43 LI-600 Configurations In LI-600 Configurations, there is a list of configurations that are loaded onto the connected LI-600. This section is titled according to the connected instrument’s serial num- ber and organizes the data by Slot, Name, Author, Last Updated, and ID.
  • Page 44 Sort the con- figurations by selecting New, Name, Author, Last Updated, or ID. New indicates a configuration that has not been uploaded to an LI-600 since its creation or most recent edit. To sort by ascending or descending, click twice.
  • Page 45 Click Delete on the confirmation prompt to complete. Data Management The Data Management menu includes two data lists: Data on LI-600, or data files stored on the instrument, and Local Files, or data files stored on the computer software and local computer. Data on LI-600...
  • Page 46 Section 5. Configuring computer software Data on LI-600 lists the date of the last data download. This section is titled according to the instrument’s serial number. It is recommended to clear data from the LI-600 after each download. Otherwise, data from previous down- loads are redownloaded with new data and occupy space on the hard drive.
  • Page 47 Local Files list. Click Delete on the confirmation prompt to com- plete. Live View The Live View menu allows you to live stream data from the LI-600 and is recommended for educational settings and teaching purposes. 5-12...
  • Page 48 Section 5. Configuring computer software Figure 5-1. Prior to taking a measurement in Live View, match and allow the graphs to stabilize. 5-13...
  • Page 49 LI-600 Porometer/Fluorometer Instruction Manual Figure 5-2. Live data for each selected variable in graph format is displayed in Live View, allowing you to view and log live data while taking measurements. To set up your parameters, select the desired Layouts option (1, 2, or 4) in the upper lefthand corner.
  • Page 50 LI-600 in the Data Management menu at any given time. If you navigate away from the Live View menu, sixty minutes of live data are automatically saved.

  • Page 51: Offline Mode

    Connection Overview The Connection Overview menu allows you to return to the computer software startup screen. From here, you can proceed with or without a connected LI-600 or safely eject a connected instrument. Offline Mode This section describes the available computer software menus and subsequent options when selecting Offline Mode with or without a connected instrument.
  • Page 52 Connection Overview menus. Buttons The two buttons on the Toolbar include the Home Screen and View Help. Home Screen: This button takes you to the home screen. View Help: This button opens the LI-COR sup- port website. 5-17...

  • Page 53: Home Screen

    LI-600 Porometer/Fluorometer Instruction Manual Home Screen The Home screen includes the Configuration Man- agement, Data Management, and Connection Overview menus. Configuration Management 5-18...
  • Page 54 Sort the con- figurations by selecting New, Name, Author, Last Updated, or ID. New indicates a configuration that has not been uploaded to an LI-600 since its creation or most recent edit. To sort by ascending or descending, click twice.
  • Page 55 LI-600 Porometer/Fluorometer Instruction Manual Export To File: This button downloads the con- figuration to the computer’s local file system. Delete Configuration: This button removes the configuration from the Local Configurations list. Click Delete on the confirmation prompt to complete. Data Management...
  • Page 56 Delete on the confirmation prompt to com- plete. Connection Overview The Connection Overview menu allows you to return to the computer software startup screen. From here, you can proceed with or without a connected LI-600 or safely eject a connected instrument. 5-21...
  • Page 57 5-22...

  • Page 58: Section 6. Creating A New Configuration

    This section describes how to create a new configuration with the LI-600 computer software. A new configuration can be created with or without a connected LI-600. Because the Connection Overview screen is accessible without a con- nected LI-600, you can create a configuration without con-...

  • Page 59: Data Labels

    LI-600 Porometer/Fluorometer Instruction Manual meter Options box if desired; fluorometer-only options are hidden if unchecked. Data Labels In Data Labels, you can create a data label or organ- izational list for future measurements. Each configuration can have three data labels.

  • Page 60: Automode Setup

    Section 6. Creating a new configuration Select List to add up to three subsections (e.g., Corn, Tobacco, Beans) by clicking the plus button; drag and drop the subsections to change their order of appearance on the instrument display. Select Barcode to enable the barcode scanner for the given configuration.
  • Page 61 Custom, you can set Stability Limit, Slope Limit, and Period (1, 2, or 4 seconds). (See Table 6-1 on the facing page.) The LI-600 retains up to 4 seconds of 1 Hz data to cal- culate stability criteria where X is either g or F and t is the time for a given measurement (i.e., t = 0 is the most...

  • Page 62: Remarks

    Section 6. Creating a new configuration Table 6-1. Automode Setup variable options. Stability Limit Slope Limit Period Preset Fast 0.005 Medium 0.001 Custom user specified user spe- 1, 2, or cified Remarks In Remarks, you can create an optional comment (e.g., Poor Clamp) that can be added to a measurement on the Next Step screen.

  • Page 63: Measurement Settings

    LI-600 Porometer/Fluorometer Instruction Manual Measurement Settings In Measurement Settings, you can select values for Flow, Match Frequency, Flash (fluorometer-only option), Fluor- escence Constants (fluorometer-only option), and Mod- ulation (fluorometer-only option). If the Dark Adapted box is checked or the Rectangular or Multiphase Flash options are selected, values in the Flash and Modulation automatically set to default.

  • Page 64: Display Layout

    Rate. Integrated Modulation Intensity is auto- matically calculated. Display Layout In Display Layout, you can customize the layout and vari- ables that are visible on the LI-600 display. Select a 2- or 8- panel layout for the Logged screen or the Flash Complete...

  • Page 65: Preview

    LI-600 Porometer/Fluorometer Instruction Manual screen. To change variables, click inside the variable box then select the desired variable from the list. Not all vari- able boxes need to be filled; click CLEAR from the list to leave a variable box blank. Click Clear All to remove all variables from the layout and Default to reset the layout.
  • Page 66 Section 6. Creating a new configuration add it to the LI-600. Up to four configurations can be uploaded to the instrument. A red error notice appears if required information is not complete; fill out this information to save the con-...
  • Page 67 6-10...

  • Page 68: Section 7. Data Files

    Section 7. Data files This section describes how to transfer and view data files from the LI-600. Data file components In the Data Management menu, data files are listed under Local Files. A data file is a collection of measurements that have 9 identical parameters.
  • Page 69 LI-600 Porometer/Fluorometer Instruction Manual Data labels Variables Match time and date Flash ID, type, and intensity Instrument serial number Porometer serial number Fluorometer serial number Firmware version Configuration last updated date Several components may not have data if they were not specified in the configuration (i.e., remark, data labels) or...

  • Page 70: Downloading Data From The

    Downloading data from the LI-600 To download data from the LI-600 to the computer soft- ware, connect the instrument to your local computer via USB then open the computer software. Click the Data Management menu.
  • Page 71 Then click Clear on the confirmation prompt to clear all data off the instrument or Cancel. Clearing removes all data from the LI-600, not your computer. It is recommended that you clear the instrument after each session. Otherwise, data from previous sessions are redownloaded with new data and occupy space on the hard drive.

  • Page 72: Downloading Data From The Computer Software

    Section 7. Data files Downloading data from the computer software To download data from the computer software, select the desired data files under Local Files. Click Export Selec- ted Files to download the selected data files to the com- puter’s local file system. Check the Export Flash Files box to download the selected data files' raw flash files with the data files.

  • Page 74: Section 8. Troubleshooting

    Troubleshooting This section describes how to identify potential issues with the LI-600 and any warnings that may appear on the instru- ment display. If you cannot find a solution in this section, contact your local distributor or LI-COR technical support for additional help.

  • Page 75: Instrument Will Not Automatically Log A Measurement

    The computer software displays a warning message when connecting the LI-600 If the computer software displays a warning message when connecting the LI-600, the firmware version or com- puter software version may require updates.
  • Page 76 Section 8. Troubleshooting Your application software is currently at version...": An updated version of the LI-600 computer software is avail- able for download. Click CLICK HERE to download! to update the computer software and proceed to the LI-600 connected! screen.

  • Page 77: The Computer Software Displays A Warning Message When Updating The Firmware

    USB, but it was disconnected while updating the firmware. Power cycle the LI-600 by powering it down then on again, click Reattempt Identification, or reinstall the firmware. The new RH sensor serial number has not...

  • Page 78: The Rh Values And Sample Rh Are High

    The RH values and sample RH are high If the RH values on the display are 95% or above, water may have entered the cuvette (see Cleaning the LI-600 on page 9-1). If the sample RH (RH Sample) value on the dis- play is 95% or above, clamp onto a stable object and flush the instrument’s system until the sample RH value drops...

  • Page 79: Low Memory

    Blower off The Blower Off warning appears when the blower is off. To turn the blower on, power on the LI-600 and select a configuration; the blower should automatically turn on. If the warning persists, power on the LI-600 then connect it to a computer via USB.

  • Page 80: Section 9. Maintenance

    Storing the LI-600 The following are basic steps to take when storing the LI-600 in order to best prepare it for future use. Power down and store it in the carrying case when not in use;...
  • Page 81 LI-600 Porometer/Fluorometer Instruction Manual Clean the IRT sensor. Regularly check that the IRT sensor is clean. Use foam swabs and isopropyl alcohol (IPA) to carefully clean the IRT sensor. Clean the fluorometer. Regularly check that the fluorometer is clean. Use foam swabs, a microfiber cloth, and IPA to carefully clean the fluorometer optics.

  • Page 82: Removing The Instrument Head Shells

    Section 9. Maintenance Water can damage the cuvette and the flow path. If the leaf you plan to measure has water or condensation on it, gently and thoroughly dry the top and bottom of the leaf. If water enters the cuvette, disassemble the instrument and remove the water using a foam swab.

  • Page 83: Removing And Inserting A Battery

    The following tutorial describes the steps to take when removing and inserting a battery. Removing and inserting a battery is an infrequent oper- ation for the LI-600 and only required when the battery no longer functions properly. Prepare the LI-600.
  • Page 84 Section 9. Maintenance Remove the shells. Remove the shells on the instrument head. Set the shells safely aside (see Removing the instrument head shells on page 9-3). Unplug the battery connector. On the right side of the instrument head, locate the cable clip.

  • Page 85: Replacing The Air Intake Filter

    Replacing the air intake filter The air intake filter serves to remove solid particles from air before it is drawn through the LI-600 porometry system. The following tutorial describes the steps to take when replacing the air intake filter.

  • Page 86: Calibrating The Sensors

    This section describes the process of setting the available parameters for each sensor. To view user calibration coefficients and change the user- adjustable parameters, connect the LI-600 to the computer software. In the drop-down menu on the Toolbar, select Instrument Calibration. (For sensor equations, see Theory of operation on page 10-1)

  • Page 87: Rh Sensors

    LI-600 Porometer/Fluorometer Instruction Manual RH sensors RH sensor parameters include Zero, or the sensor’s response to dry air, and Span, or the sensor’s response to a known dew point or H O mole fraction. Using the LI-600 pump The following tutorial describes the steps to take when dry- ing the RH sensors using the internal pump and zero kit.
  • Page 88 O buf- fer material, as oils on the skin and scratches can reduce its buffering efficacy. Alternatively, turn the LI-600 over a container to col- lect the H O buffer material. Figure 9-7. Remove the buffer material using gloves or tweezers.
  • Page 89 To seal the leaf aperture, clamp on a plastic bag or sim- ilar material. Open Instrument Calibration. Power on the LI-600. Connect it to a computer via USB then open the computer software. Click the drop- down menu on the Toolbar then select Instrument Cal- ibration.
  • Page 90 Prepare the LI-600. Power on the instrument. Open Instrument Calibration. Connect the LI-600 to a computer via USB then open the computer software. Click the drop-down menu on the Toolbar then select Instrument Calibration. Power off the pump.
  • Page 91 LI-600 Porometer/Fluorometer Instruction Manual Figure 9-9. Remove the leaf clamp. Attach the calibration clamp. Gently but firmly attach the calibration clamp. The cal- ibration clamp is equipped with a 10-32 hose barb for tube connection (P/N 9960-327). Attach the air tank.
  • Page 92 Section 9. Maintenance Figure 9-10. Attach a tank of ultrapure dry air to the cal- ibration clamp. Figure 9-11. Visual representation of an attached air tank. Dry the RH sensors. Deliver an airstream across the RH sensors for 30 minutes to 1 hour. Do not allow maximum airflow to exceed 0.25 LPM.
  • Page 93 Using a user-supplied air- stream on page 9-11. If delivering airflow across the sensors via the LI-600 pump only, see Using the LI-600 pump on page 9-8. If the resulting RH is <1% and trending down after several minutes, the zero does not require resetting.
  • Page 94 RH sensors. Prepare the LI-600. Power on the instrument. Open Instrument Calibration. Connect the LI-600 to a computer via USB then open the computer software. Click the drop-down menu on the Toolbar then select Instrument Calibration. Set the H O input.

  • Page 95: Flow Sensors

    No disassembly is required to reset the flow sensors. Open Instrument Calibration. Connect the LI-600 to a computer via USB then open the computer software. Click the drop-down menu on the Toolbar then select Instrument Calibration.

  • Page 96: Fluorescence Detector

    The following tutorial describes the steps to take when resetting the fluorescence detector. Open Instrument Calibration. Connect the LI-600 to a computer via USB then open the computer software. Click the drop-down menu on the Toolbar then select Instrument Calibration.
  • Page 97 LI-600 will continue logging data using the previous RH sensor serial number. Open Factory Calibration. Connect the LI-600 to a computer via USB then open the computer software. In Explore the LI-600, select the drop-down menu on the Toolbar then select About Instrument.

  • Page 98: Section 10. Theory Of Operation

    Section 10. Theory of operation The LI-600 is equipped to measure two different aspects of leaf photosynthesis. The porometer uses a mass balance for water vapor flux from the leaf to compute stomatal con- ductance. The fluorometer uses optical techniques to probe the quantum yield of photosystem II.

  • Page 99: Derivation Of Equations

    LI-600 Porometer/Fluorometer Instruction Manual Figure 10-1. The cuvette has relative humidity (RH) sensors that measure the air stream before and after it interacts with the leaf. Flow rates are measured before and after the cuvette, and leaf temperature is measured in the cuvette.
  • Page 100 (mol H Boundary layer conductance in the LI-600 cuvette is a function of the flow rate (equation 10-10). The actual measurements for water vapor being made in the LI-600 are done using relative humidity sensors on the 10-3...
  • Page 101 (kPa) with x is 'cham','ref' or 'leaf', rh is the relative humidity (%) meas- ured by the LI-600 sensors and T (°C) is the temperature read by a thermistor in the block adjacent to the RH sensors.

  • Page 102: Boundary Layer Conductance

    × -6.755E-5 + 0.0292302 × flow 10-10 where flow is the cuvette flow rate in (µmol s Implementation of equations in the LI-600 The equations implemented in the LI-600 are shown below. Sensor calculations The following equations convert the sensor read-out in volts to the appropriate units.
  • Page 103 LI-600 Porometer/Fluorometer Instruction Manual function. The sample RH sensor also must be corrected for a match offset, as shown in Additional calculations for poro- metry on page 10-8. We will use the terminology of RH and RH to indicate sensors before the cuvette (reference) and sensors after the cuvette (sample).

  • Page 104: Matching Rh Sensors

    Section 10. Theory of operation Matching RH sensors The above equations describe calculations for the RH sensors. Any offset between the two sensors must be accounted for by matching them. 10-15 10-16 Flow sensors Converting flow sensor voltage to a flow rate (µmol s requires 4 factory-determined coefficients and a zero and span setting for each flow sensor.

  • Page 105: Infrared Temperature Sensor

    LI-600 Porometer/Fluorometer Instruction Manual Infrared temperature sensor Leaf temperature (°C) is computed as a function of the ref- erence temperature and the IRT sensor response 10-19 where V is the voltage from the IRT target, T is the ref- leaf...

  • Page 106: User Calibration Procedures

    Section 10. Theory of operation 10-27 10-28 10-29 = flow × -6.755E-5 + 0.0292302 × flow 10-30 10-31 10-32 User calibration procedures Users can adjust calibrations for the flow sensors (zero only) and the RH sensors (zero and 1-point span). RH sensor zero Re-setting the zero set-point on an RH sensor will alter the offset parameter for a given sensor (b...
  • Page 107 The software will accept either unit and convert to the correct relative humidity at the sensor using equations 10-7, 10-21, and 10-25, with Press coming from the LI-600 pres- sure sensor and T coming from the LI-600 reference ther- mistor.

  • Page 108: Fluorometer

    LI-6800 Portable Photosynthesis System fluorometer (Genty et al., 1989, Pfundel et al., 2013). Actinic light is not provided by the LI-600 fluorometer but rather by ambient light which could be natural sun- 10-11...

  • Page 109: Implementation On The

    Fre- quencies for steady-state measurements will be very low (4 to 8 Hz), while frequencies during the flash will be much higher (250 to 750 kHz). Implementation on the LI-600 The LI-600 calculates parameters as described. 10-12...

  • Page 110: Calculating Light Intensity From Led Calibration Coefficients

    Section 10. Theory of operation Calculating light intensity from LED calibration coefficients Each LED has two calibration coefficients: a DAC set point (DAC ) and a parameter relating DAC setting to light intensity (Q ). The peak intensity of each LED is calx calculated from these coefficients: 10-37a...

  • Page 111: Dark-Adapted Vs Light-Adapted Measurements

    LI-600 Porometer/Fluorometer Instruction Manual Dark-adapted vs light-adapted measurements Unlike previous LI-COR fluorometers, where the actinic light is controlled by the fluorometer, here the actinic light source is provided by external sources unknown to the instrument. The instrument cannot know if a given measurement being made is on a dark-adapted leaf or not.
  • Page 112 A rectangular flash delivers a user-selectable flash intensity (µmol m ) for a user-selectable amount of time (ms). The LI-600 converts that to a frequency during the flash using the factory calibration value. Multiphase flash The LI-600 can perform multiphase flashes for conditions where it is difficult to fully saturate with rectangular flashes (Loriaux et al, 2013).

  • Page 113: Logged Variables

    PAR sensor (equation 10-20), abs and PS2/1 are constants given by the user in the configuration. Logged Variables The LI-600 logs variables in two basic groups: one for poro- metry, and one for fluorometry. Porometry group The porometry group includes variables in Table 10-2 below.
  • Page 114 Section 10. Theory of operation Table 10-2. Variables logged in the porometry group. (...- continued) Description Label Units Equation −1 Sample H H2O_s mmol mol 10-26 mole fraction −1 Leaf H O mole H2O_leaf mmol mol 10-27 fraction Laef Area leaf_area 10-17...

  • Page 115: Fluorometry Group

    LI-600 Porometer/Fluorometer Instruction Manual Fluorometry group The fluorometry group includes variables in Table 10-3 below. Table 10-3. Variables logged in the fluorometry group. Description Label Units Equation FlashID flashID NA Minimum Fluor- Section 10. on escence in Dark page 10-1 Maximum Fluor- Section 10.
  • Page 116 Section 10. Theory of operation Loriaux SD, et al. (2013). Closing in on maximum yield of chlorophyll fluorescence using a single multiphase flash of sub-saturating intensity. Plant Cell Environ. 36:1755-1770. Pfündel, E.E. et al., 2013. Deriving fluorometer-specific values of relative PSI fluorescence intensity from quenching of F0 fluorescence in leaves of Arabidopsis thaliana and Zea mays.
  • Page 117 10-20...

  • Page 118: Section 11. Specifications

    Section 11. Specifications General Measurement time: Porometer: 5 to 15 seconds typically, depending on species, leaf surface characteristics, and leaf conditions Fluorometer: 1 second Operating conditions: Temperature: 0 to 50 °C Pressure: 50 to 110 kPa Humidity: 0 to 85%; non-condensing Weight: 0.68 kg (porometer only);...

  • Page 119: Porometer

    LI-600 Porometer/Fluorometer Instruction Manual Universal charging adapter: Input: 90 to 264 VAC; 50 to 60 Hz Output: 5 VDC; 1 Amp Configuration Software: Windows® and macOS® applications Data files: Plain text data compatible with any spread- sheet application or data analysis program Output: .CSV format...

  • Page 120: Fluorometer

    Section 11. Specifications mmol mol mmol mol samp leaf mmol mol Fluorometer Flash types: User configurable Rectangular and Multi- phase Flash™ (MPF) Measuring light peak wavelength: 625 nm Measuring light peak intensity: 0 to 10,000 µmol m Flash intensity: 0 to 7500 µmol m LED Risk Group: Exempt group in acc.
  • Page 121 11-4...

  • Page 122: Appendix A. Warranty

    The defects are called to the attention of LI-COR, Inc. in Lin- coln, Nebraska, in writing within one year after the shipping date of the instrument.
  • Page 123 LI-600 Porometer/Fluorometer Instruction Manual No-charge repair parts may be sent at LI-COR, Inc.'s sole dis- cretion to the purchaser for installation by purchaser. LI-COR, Inc.'s liability is limited to repair or replace any part of the instrument without charge if LI-COR, Inc.'s exam- ination disclosed that part to have been defective in material or workmanship.
  • Page 124 LI-COR’s Warranty still apply. DISTRIBUTOR or the DISTRIBUTOR's customers may ship the instruments directly to LI-COR if they are unable to repair the instrument themselves even though the DISTRIBUTOR has been approved for making such repairs and has agreed with the customer to make such repairs as covered by this limited warranty.

  • Page 126: Appendix B. Index

    Appendix B. Index accessories kit 1-3 air intake filter 9-6 aperture 1-2, 4-2 clamp 1-2, 1-3, 4-2, 4-4 barcode 1-2, 4-4, 4-6 calibration 10-9 carrying case 4-1 configuration creating 6-1 preview 6-8 dark-adapted 6-7 theory of operation 1-8, 10-14 data files 7-1 components 7-1...
  • Page 127 LI-600 Porometer/Fluorometer Instruction Manual downloading computer 7-5 instrument 7-3 flash files 7-2 data label 3-3, 4-3, 6-2 barcode 3-4 list 3-4, 6-3 number 3-4, 6-2 display 1-2 display layout 6-7 flash 6-7 flow 6-6 theory of operation 10-7 fluorescence constants 6-7...
  • Page 128 Appendix B. Index preparation 4-1 settings 6-6 taking 4-3 techniques 4-2 menu advanced settings 2-2, 3-5 clamp to leaf 3-1, 3-2, 3-3, 4-3 flash complete 3-3, 3-3, 3-4, 4-4 logged 3-3, 3-3, 3-4, 4-4 next step 3-1, 3-3, 3-4, 4-4 press enter to edit highlighed values 3-3, 3-4 press enter to log 3-1, 3-2, 3-3, 4-3 scan barcode 3-4...
  • Page 129 LI-600 Porometer/Fluorometer Instruction Manual software 5-1 computer interface 1-1 configuration management 5-7, 5-18, 6-1 connection overview 5-2, 5-16, 5-21 data management 5-10, 5-20 device interface 3-1 explore LI-600 5-4 home screen 5-7, 5-18 installation 5-1 live view 5-12 offline mode 5-16...
  • Page 130 Appendix B. Index port 1-3 port protector 4-1 user interface enter button 3-1 navigation keys 3-1 wrist strap 1-3, 4-1...
  • Page 133 Regional Offices LI-COR Biosciences GmbH Siemensstraße 25A 61352 Bad Homburg Germany Phone: +49 (0) 6172 17 17 771 envsales-gmbh@licor.com LI-COR Biosciences UK Ltd. St. John’s Innovation Centre Cowley Road Cambridge CB4 0WS United Kingdom Phone: +44 (0) 1223 422102 envsales-UK@licor.com LI-COR Distributor Network: www.licor.com/env/distributors...

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