Dataset: Series 3B: A-pulse computed photochemical measurements

Name: Series 3B: Supplemental experiments on Thalassiosira pseudonana (CCMP1014) cultures determining the optimal aquapen actinic light pulse (A-pulse) setting: computed values including min and max fluorescence
Published: 2018-10-29
Keywords: biota, oceans

Cite This Dataset

Temporal Extent: 2018-07-03 - 2018-07-06

Project:

Collaborative Research: Effects of multiple stressors on Marine Phytoplankton (Stressors on Marine Phytoplankton)

Principal Investigator:

Uta Passow (University of California-Santa Barbara, UCSB-MSI)

Co-Principal Investigator:

Edward Laws (Louisiana State University College of the Coast and Environment, LSU-CC&E [formerly SC&E])

Scientist:

Nigel D'Souza (University of California-Santa Barbara, UCSB-MSI)

Contact:

Nigel D'Souza (University of California-Santa Barbara, UCSB-MSI)

BCO-DMO Data Manager:

Nancy Copley (Woods Hole Oceanographic Institution, WHOI BCO-DMO)

Version:

Version Date:

2018-10-29

Restricted:

Release Date:

2019-07-01

Validated:

Yes

Current State:

Final no updates expected

Series 3B: Supplemental experiments on Thalassiosira pseudonana (CCMP1014) cultures determining the optimal aquapen actinic light pulse (A-pulse) setting: computed values including min and max fluorescence

Abstract:

Series 3B: Supplemental experiments on Thalassiosira pseudonana (CCMP1014) cultures determining the optimal aquapen actinic light pulse (A-pulse) setting for NPQ1 protocols of the AquaPen for assessment of non-photochemical quenching in Thalassiosira pseudonana CCMP 1014 cultures grown at different light environments. Computed values include min and max fluorescence in dark-adapted state, quantum yield of the Photosystem II, non-photochemical chlorophyll fluorescence quenching and the coefficient of photochemical quenching (an estimate of open PSII reaction centers during these corresponding measurements).

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Description

Experiments were conducted to determine the optimal actinic light pulse (A-pulse) setting for NPQ1 protocols of the AquaPen for assessment of non-photochemical quenching in Thalassiosira pseudonana CCMP 1014 cultures grown at different light environments.

Computed values include min and max fluorescence in dark-adapted state, quantum yield of the Photosystem II, non-photochemical chlorophyll fluorescence quenching and the coefficient of photochemical quenching (an estimate of open PSII reaction centers during these corresponding measurements).

Methods & Sampling

Experiments were conducted in the lab at the University of California Santa Barbara to determine the optimal actinic light pulse (A-pulse) setting for NPQ1 protocols of the AquaPen for assessment of non-photochemical quenching in Thalassiosira pseudonana CCMP 1014 cultures grown at different light environments. TP1014 stock cultures were maintained in artificial sea water (Kester et. al 1967), enriched as with f/2 media (Guillard 1975). For the experiment, 5 ml of the TP1014 stock cultures was inoculated into 75 ml of ASW in four tubes. The tubes were incubated in a Multicultivator MC-1000 OD unit (Qubit Systems), at 25°C and light intensities of 200, 400, 600 and 800 µmol photons·m-2·sec-1 respectively, set at a 12:12 day:night cycle for four days. All samples were bubbled with air at 60 ml·min-1 through a 0.2 µm stainless steel carbonating stones. Samples were collected from each tube after three days and analyzed used for assessment of photochemistry using the Aquapen-C AP-C 100 (Photon Systems Instruments). Three ml samples were placed in the dark at 25°C for a minimum of 30 minutes prior to measuring photochemistry. The NPQ1 protocol on the instrument was used for assessment of non-photochemical quenching in samples. The NPQ1 protocol administers 5 light pulses over 60 seconds during actinic light exposure, followed by 3 light pulses over 88 seconds during recovery in the dark. Blue light (455 nm) was used as actinic light in these experiments. Baseline measurements were made at f-pulse settings of 0.03 μmol · m-2 · s-1, Saturating pulses were set at 2100 μmol · m-2 · s-1, and actinic light pulses (for the NPQ1 protocol only) were set at 100, 200, 300, 400, 500, 600, 700, and 800 µmol photons·m-2·sec-1 respectively for each sample.

Data Processing Description

BCO-DMO Processing Notes:
- added conventional header with dataset name, PI name, version date
- modified parameter names to conform with BCO-DMO naming conventions

Data Files

File
3B_Apulse_test_computed_trans.csv (Comma Separated Values (.csv), 6.26 KB) MD5:ec828ab1b1179e14f6f29baf333f26dc Primary data file for dataset ID 748978

More Information about this dataset

Funding Sources

Funding Source	Award Number
NSF Division of Ocean Sciences	OCE-1538602

Deployments

None available yet

Instruments

Cell Cultivator

Supplied Name: Multicultivator MC-1000 OD (Qubit Systems)

Supplied Description:

Used for incubation of TP1014 cultures.

Instrument Type

Generic Name: Cell Cultivator

Generic Description:

An instrument used for the purpose of culturing small cells such as algae or bacteria. May provide temperature and light control and bubbled gas introduction.

Fluorometer

Supplied Name: Aquapen-C AP-C 100 (Photon Systems Instruments)

Supplied Description:

Used to measure fluorescence.

A hand-held cuvette version of the FluorPen fluorometer equipped with a blue and red LED emitter. Blue excitation light (455 nm) is intended for chlorophyll excitation, i.e., for measuring chlorophyll fluorescence in algal cultures. Red-orange excitation light (620 nm) is intended for excitation through phycobilins and is suitable for measuring in cyanobacteria.

Instrument Type

Generic Name: Fluorometer

Community Identifier: http://vocab.nerc.ac.uk/collection/L05/current/113/

Generic Description:

A fluorometer or fluorimeter is a device used to measure parameters of fluorescence: its intensity and wavelength distribution of emission spectrum after excitation by a certain spectrum of light. The instrument is designed to measure the amount of stimulated electromagnetic radiation produced by pulses of electromagnetic radiation emitted into a water sample or in situ.

Parameters

Date and time formats are described in python strftime() syntax.

Supplied Name	Supplied description	Supplied Units	Standard Name
treatment	treatment identifier of T.pseudonana; formated as Tn_Apm where 'n' is light intensity during the culture growth in micromole photons/meter^2/second and a A-pulse setting of 'm' in micromol photons/meter^2/second	unitless	treatment
Fo	minimum fluorescence in dark-adapted state.	RFU (Relative Fluorscence Units)	fluor
Fm	the maximum fluorescence in dark-adapted state; measured during the first saturation flash after dark adaptation	RFU (Relative Fluorscence Units)	fluor
Fp	the fluorescence in the peak of fast Kautsky induction	RFU (Relative Fluorscence Units)	fluor
Fm_L1	The first measurement of the maximum fluorescence following exposure to actinic light for 7 seconds (L1 indicates the first measurement in the "light" phase)	RFU (Relative Fluorscence Units)	fluor
Fm_L2	The second measurement of the maximum fluorescence following exposure to actinic light for another 12 seconds (L2 indicates the second measurement in the "light" phase)	RFU (Relative Fluorscence Units)	fluor
Fm_L3	The third measurement of the maximum fluorescence following exposure to actinic light for another 12 seconds (L3 indicates the third measurement in the "light" phase)	RFU (Relative Fluorscence Units)	fluor
Fm_L4	The fourth measurement of the maximum fluorescence following exposure to actinic light for another 12 seconds (L4 indicates the fourth measurement in the "light" phase)	RFU (Relative Fluorscence Units)	fluor
Fm_Lss	The fifth measurement of the maximum fluorescence following exposure to actinic light for another 12 seconds (Lss indicates the fifth and final measurement in the "light" phase; represents a "steady state" or ss)	RFU (Relative Fluorscence Units)	fluor
NPQ_L1	The first measurement of the non photochemical chlorophyll fluorscence quenching following exposure to actinic light for 7 seconds (L1 indicates the first measurement in the "light" phase)	unitless	no_bcodmo_term
NPQ_L2	The second measurement of the non photochemical chlorophyll fluorscence quenching following exposure to actinic light for another 12 seconds (L2 indicates the second measurement in the "light" phase)	unitless	no_bcodmo_term
NPQ_L3	The third measurement of the non photochemical chlorophyll fluorscence quenching following exposure to actinic light for another 12 seconds (L3 indicates the third measurement in the "light" phase)	unitless	no_bcodmo_term
NPQ_L4	The fourth measurement of the non photochemical chlorophyll fluorscence quenching following exposure to actinic light for another 12 seconds (L4 indicates the fourth measurement in the "light" phase)	unitless	no_bcodmo_term
NPQ_Lss	The fifth measurement of the non photochemical chlorophyll fluorscence quenching following exposure to actinic light for another 12 seconds (Lss indicates the fifth and final measurement in the "light" phase; represents a "steady state" or ss)	unitless	no_bcodmo_term
NPQ_D1	The first measurement of the non photochemical chlorophyll fluorscence quenching 11 seconds into the dark or recovery phase (D1 indicates the first measurement in the "dark" phase)	unitless	no_bcodmo_term
NPQ_D2	The second measurement of the non photochemical chlorophyll fluorscence quenching after another 26 seconds into the dark or recovery phase (D2 indicates the second measurement in the "dark" phase)	unitless	no_bcodmo_term
NPQ_D3	The third and final measurement of the non photochemical chlorophyll fluorscence quenching after another 26 seconds into the dark or recovery phase (D3 indicates the third and final measurement in the "dark" phase	unitless	no_bcodmo_term
Qp_L1	The first measurement of the coefficient of photochemical quenching following exposure to actinic light for 7 seconds (L1 indicates the first measurement in the "light" phase)	unitless	no_bcodmo_term
Qp_L2	The second measurement of the coefficient of photochemical quenching following exposure to actinic light for another 12 seconds (L2 indicates the second measurement in the "light" phase)	unitless	no_bcodmo_term
Qp_L3	The third measurement of the coefficient of photochemical quenching following exposure to actinic light for another 12 seconds (L3 indicates the third measurement in the "light" phase)	unitless	no_bcodmo_term
Qp_L4	The fourth measurement of the coefficient of photochemical quenching following exposure to actinic light for another 12 seconds (L4 indicates the fourth measurement in the "light" phase)	unitless	no_bcodmo_term
Qp_Lss	The fifth measurement of the coefficient of photochemical quenching following exposure to actinic light for another 12 seconds (Lss indicates the fifth and final measurement in the "light" phase; represents a "steady state" or ss)	unitless	no_bcodmo_term
Qp_D1	The first measurement of the coefficient of photochemical quenching 11 seconds into the dark or recovery phase (D1 indicates the first measurement in the "darkt" phase)	unitless	no_bcodmo_term
Qp_D2	The second measurement of the coefficient of photochemical quenching after another 26 seconds into the dark or recovery phase (D2 indicates the second measurement in the "dark" phase)	unitless	no_bcodmo_term
Qp_D3	The third and final measurement of the coefficient of photochemical quenching after another 26 seconds into the dark or recovery phase (D3 indicates the third and final measurement in the "dark" phase	unitless	no_bcodmo_term
Rfd	the chlorophyll fluorescence decrease ratio	unitless	no_bcodmo_term
Fm_D1	The first measurement of the maximum fluorescence 11 seconds into the dark or recovery phase (D1 indicates the first measurement in the "darkt" phase)	RFU (Relative Fluorscence Units)	fluor
Fm_D2	The second measurement of the maximum fluorescence after another 26 seconds into the dark or recovery phase (D2 indicates the second measurement in the "dark" phase)	RFU (Relative Fluorscence Units)	fluor
Fm_D3	The third and final measurement of the maximum fluorescence after another 26 seconds into the dark or recovery phase (D3 indicates the third and final measurement in the "dark" phase	RFU (Relative Fluorscence Units)	fluor
QY_max	The maximum Quantum yield. A measure of the Photosystem II efficiency. In a dark-adapted sample this is equivalent to Fv/Fm. In a light-adapted sample it is equivalent to Fv’/Fm’.	unitless	no_bcodmo_term
QY_L1	The first measurement of the effective quantum yield of phorosystem II following exposure to actinic light for 7 seconds (L1 indicates the first measurement in the "light" phase)	unitless	no_bcodmo_term
QY_L2	The second measurement of the effective quantum yield of phorosystem II following exposure to actinic light for another 12 seconds (L2 indicates the second measurement in the "light" phase)	unitless	no_bcodmo_term
QY_L3	The third measurement of the effective quantum yield of phorosystem II following exposure to actinic light for another 12 seconds (L3 indicates the third measurement in the "light" phase)	unitless	no_bcodmo_term
QY_L4	The fourth measurement of the effective quantum yield of phorosystem II following exposure to actinic light for another 12 seconds (L4 indicates the fourth measurement in the "light" phase)	unitless	no_bcodmo_term
QY_Lss	The fifth measurement of the effective quantum yield of phorosystem II following exposure to actinic light for another 12 seconds (Lss indicates the fifth and final measurement in the "light" phase; represents a "steady state" or ss)	unitless	no_bcodmo_term
QY_D1	The first measurement of the effective quantum yield of phorosystem II 11 seconds into the dark or recovery phase (D1 indicates the first measurement in the "darkt" phase)	unitless	no_bcodmo_term
QY_D2	The second measurement of the effective quantum yield of phorosystem II after another 26 seconds into the dark or recovery phase (D2 indicates the second measurement in the "dark" phase)	unitless	no_bcodmo_term
QY_D3	The third and final measurement of the effective quantum yield of phorosystem II after another 26 seconds into the dark or recovery phase (D3 indicates the third and final measurement in the "dark" phase	unitless	no_bcodmo_term

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Dataset: Series 3B: A-pulse computed photochemical measurements