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Front. Mar. Sci., 14 June 2019
Sec. Ocean Observation
Volume 6 - 2019 |

Improving the Accuracy of Single Turnover Active Fluorometry (STAF) for the Estimation of Phytoplankton Primary Productivity (PhytoPP)

  • 1Department of Chemical Engineering, Imperial College London, London, United Kingdom
  • 2School of Biological Sciences, University of Essex, Colchester, United Kingdom
  • 3Chelsea Technologies Ltd., West Molesey, United Kingdom

Photosystem II (PSII) photochemistry is the ultimate source of reducing power for phytoplankton primary productivity (PhytoPP). Single turnover active chlorophyll fluorometry (STAF) provides a non-intrusive method that has the potential to measure PhytoPP on much wider spatiotemporal scales than is possible with more direct methods such as 14C fixation or O2 evolved through water oxidation. Application of a STAF-derived absorption coefficient for PSII light-harvesting (aLHII) provides a method for estimating PSII photochemical flux on a unit volume basis (JVPII). Within this study, we assess potential errors in the calculation of JVPII arising from sources other than photochemically active PSII complexes (baseline fluorescence) and the package effect. Although our data show that such errors can be significant, we identify fluorescence-based correction procedures that can be used to minimize their impact. For baseline fluorescence, the correction incorporates an assumed consensus PSII photochemical efficiency for dark-adapted material. The error generated by the package effect can be minimized through the ratio of variable fluorescence measured within narrow wavebands centered at 730 nm, where the re-absorption of PSII fluorescence emission is minimal, and at 680 nm, where re-absorption of PSII fluorescence emission is maximal. We conclude that, with incorporation of these corrective steps, STAF can provide a reliable estimate of JVPII and, if used in conjunction with simultaneous satellite measurements of ocean color, could take us significantly closer to achieving the objective of obtaining reliable autonomous estimates of PhytoPP.


Phytoplankton contribute approximately half the photosynthesis on the planet (Field et al., 1998), thus forming the base of marine food webs. Reliable assessment of Phytoplankton Primary Productivity (PhytoPP) is crucial to an understanding of the global carbon and oxygen cycles and oceanic ecosystem function. Consequently, PhytoPP has been recognized as an Essential Ocean Variable (EOV) within the Global Ocean Observing System (GOOS). PhytoPP is a dynamic biological process that responds to variability in multiple environmental drivers including light, temperature and nutrients across spatial scales from meters to ocean basins, and time scales from minutes to tens of years. This poses significant challenges for measuring and monitoring PhytoPP.

Historically, the most frequently employed method for assessing PhytoPP has been the fixation of 14C within closed systems over several hours of incubation (Marra, 2002; Milligan et al., 2015). Despite the widespread use of the 14C method, which has led to measurements of PhytoPP by the 14C method providing the database against which remote sensing estimates of primary production are calibrated (Bouman et al., 2018), there is considerable uncertainty in what exactly the 14C method measures and the accuracy of bottle-incubation based methods for obtaining PhytoPP in oligotrophic ocean waters (Quay et al., 2010).

According to Marra (2002), the 14C technique measures something between net and gross carbon fixation, depending on the length of the incubation. In this context, net carbon fixation is defined as gross carbon fixation minus carbon respiratory losses and light-dependent losses due to photorespiration and light-enhanced mitochondrial respiration (Milligan et al., 2015). Although it may seem intuitive that short incubations should provide a good estimate of gross carbon fixation (and closely match PhytoPP), several authors have reported that short-term 14C fixation does not reliably measure net or gross production (e.g., Halsey et al., 2013; Milligan et al., 2015). It should be noted that short-term, in the context of 14C fixation, can vary from tens of minutes to several hours’ incubation. This clearly imposes major limitations on the spatiotemporal scales at which PhytoPP can be assessed using this method.

Gross photosynthesis by phytoplankton is defined here as the rate at which reducing power is generated by photosystem II (PSII) through the conversion of absorbed light energy (PSII photochemistry). Within this study, gross photosynthesis is quantified by measuring the rate at which O2 is evolved through water oxidation by PSII photochemistry (Ferrón et al., 2016) and is termed PhytoGO. Although measurement of O2 evolution provides some advantages over 14C fixation, in that both gross and net primary production can be obtained, the spatiotemporal limitations are similar.

Active fluorometry has the potential to provide a non-intrusive method for measuring PSII photochemistry on much wider spatiotemporal scales than either 14C fixation or O2 evolution. Within oceanic systems, where optically thin conditions are the norm, the most appropriate form of active fluorometry is the single turnover method (Kolber and Falkowski, 1993; Kolber et al., 1998; Suggett et al., 2001; Moore et al., 2006; Oxborough et al., 2012). One important parameter generated by single turnover active fluorometry (STAF) is the absorption cross section of PSII photochemistry (σPII in the dark-adapted state, σPII’ in the light-adapted state, see Terminology) with units of m2 PSII-1 (Kolber et al., 1998; Oxborough et al., 2012). This parameter allows for the calculation of PSII photochemical flux through a single PSII center, as the product of σPII’ and incident photon irradiance (E, with units of photons m-2 s-1). PSII photochemical flux has units of photons PSII-1 s-1 or (assuming an efficiency of one stable photochemical event per photon) electrons PSII-1 s-1 (Equation 1).

JPII= σPII·E          (1)

Both PhytoPP and PhytoGO can be reported per unit volume (SI units of C m-3 s-1 or O2 m-3 s-1, respectively). Given that JPII provides the photochemical flux through the σPII’ provided by a single PSII, the PSII photochemical flux per unit volume (JVPII, with units of electrons m-3 s-1) can be defined as the flux through the absorption cross section of PSII photochemistry provided by all open PSII centers within the volume (Equation 2).

JVPII= σPII·[PSII]·(1C)·E          (2)

Where [PSII] is the concentration of photochemically active PSII complexes, with units of PSII m-3, and (1 -C) is the proportion of these centers that are in the open state at the point of measurement under actinic light. It follows that JVPII can, in principle, provide a proxy for PhytoPP (Oxborough et al., 2012).

An important caveat to using JVPII as a proxy for PhytoPP is that there are a number of processes operating within phytoplankton that can uncouple PhytoPP from PhytoGO and PhytoGO from PSII photochemistry (Geider and MacIntyre, 2002; Behrenfeld et al., 2004; Halsey et al., 2010; Suggett et al., 2010; Lawrenz et al., 2013). It follows that JVPII provides an upper limit for PhytoPP which is defined by the release of each O2 requiring a minimum of four photochemical events and each O2 released resulting in the maximum assimilation of one CO2.

Previous studies obtained a value for the [PSII] term within Equation 2 from discrete samples of chlorophyll a by assuming that the number of PSII centers per chlorophyll a (nPSII) is relatively constant (Kolber and Falkowski, 1993; Suggett et al., 2001). A significant problem with this approach is that nPSII shows significant variability, both in laboratory-based cultures (Suggett et al., 2004) and in natural phytoplankton communities (Moore et al., 2006; Suggett et al., 2006). In addition, the derivation of nPSII requires a chlorophyll a extraction for each sample: a requirement that imposes significant spatiotemporal limitations.

A STAF-based method for the determination of [PSII] was described by Oxborough et al. (2012). This method operates on the assumption that the ratio of rate constants for PSII photochemistry (kPII) and PSII fluorescence emission (kFII) falls within a narrow range across all phytoplankton types. One consequence of this assumption is illustrated by Equation 3.

[PSII]kPIIkPII·FoσPII          (3)

Where Fo is the ‘origin’ of variable fluorescence from a dark-adapted sample (see Terminology). Data from a follow-up study (Silsbe et al., 2015), were entirely consistent with Equation 3 and were used to derive a sensor type-specific constant, termed Ka, for the FastOcean fluorometer (CTG Ltd., West Molesey, United Kingdom). It follows that:

[PSII]=Ka·Fo σPII          (4)

It is worth noting that Ka and [PSII], within Equation 4, are spectrally independent while, for a homogeneous population, Fo and σPII are expected to covary with measurement LED intensity and wavelength.

As noted by Oxborough et al. (2012), Equation 3 is only valid if a high proportion of the fluorescence signal at Fo comes from PSII complexes that are photochemically active and in the open state. While it is reasonable to expect that most photochemically active PSII complexes will be in the open state at t = 0 during a STAF measurement, there are situations where a significant proportion of the fluorescence signal at Fo may come from a wide range of sources other than photochemically active PSII complexes, from dissolved fluorescent compounds to energetically uncoupled light-harvesting complexes. This becomes a concern when the observed ratio of variable fluorescence (Fv) to maximum fluorescence (Fm) from a dark-adapted sample is low: although the maximum observed Fv/Fm varies among phytoplankton taxa, it is generally within the range of 0.5–0.6 for the fluorometers used within this study.

One plausible explanation for sub-maximal Fv/Fm values is that PSII photochemistry is downregulated by high levels of Stern–Volmer quencher within the PSII pigment matrix. As with measurement LED intensity, Fo and σPII covary with Stern–Volmer quenching and Equation 4 remains valid. Light-dependent accumulation of Stern–Volmer quencher within the PSII pigment matrix generates non-photochemical quenching of PSII fluorescence (NPQ) within a wide range of phytoplankton groups (Olaizola and Yamamoto, 1994; Krause and Jahns, 2004; Demmig-Adams and Adams, 2006; Goss and Jakob, 2010). However, this form of quenching is generally reversed within tens of seconds to a few minutes dark-adaptation and would therefore not be expected to significantly decrease Fv/Fm.

A second plausible explanation for sub-maximal Fv/Fm values is that a proportion of the signal at Fo is generated by PSII complexes that lack photochemically active reaction centers (Macey et al., 2014). Under the assumption that these complexes are not energetically coupled to photochemically active PSII complexes, their presence would increase Fo but have no impact on σPII. Consequently, the value of [PSII] generated by Equation 4 would increase in proportion to the increase in measured Fo. Within this manuscript, the fraction of Fo that does not originate from open PSII complexes is termed baseline fluorescence (Fb) and the fraction that does is termed baseline corrected Fo (Foc, see Terminology).

Within Equation 2, JVPII is proportional to the product of [PSII] and (1 -C) during a STAF measurement under actinic light. A value for the concentration of photochemically active PSII centers can be generated from a STAF measurement made on a dark-adapted sample using Equation 4. The proportion of these complexes in the open state has routinely been estimated through the qP parameter (Kolber et al., 1998) which is mathematically equivalent to the photochemical factor (Fq’/Fv’) defined by Baker and Oxborough (2004). This requires determination of Fo’, using the equation provided by Oxborough and Baker (1997) or through direct measurement after 1 – 2 s dark-adaptation following a STAF measurement under actinic light (Kolber et al., 1998).

As an alternative to Equation 2, Oxborough et al. (2012) include a method for calculating JVPII that does not require [PSII], (I – C) or σPII (Equation 5).

JVPII=aLHII·Fq′Fm′·E          (5)

Where aLHII is the absorption coefficient for PSII light harvesting, with units of m-1. A value for aLHII can be derived using Equation 6.

aLHII=Ka·Fm·FoFmFo          (6)

The link between Equations 2 and 5 is illustrated by Equation 7 (Kolber et al., 1998) and Equation 8 (Oxborough et al., 2012).

σLHII=σPII/FvFm          (7)
aLHII=σLHII·[PSII]          (8)

The package effect is a consequence of the high concentration of chlorophyll a and other light-absorbing pigments within phytoplankton cells. To put this in context, while the concentration of chlorophyll a within the open ocean is often below 0.1 mg m-3, the concentration within phytoplankton cells is approximately a million times higher than this, at 0.1 kg m-3 (calculated from data within Montagnes et al., 1994). It follows that while sea water with phytoplankton cells suspended within it can be considered optically thin, the localized volume within each phytoplankton cell is optically very thick.

Differences in the package effect due to pigment composition and morphology among species have been identified (Morel and Bricaud, 1981; Bricaud et al., 1983; Berner et al., 1989). Even within individual phytoplankton species, levels of pigment packing vary with eco-physiological condition and life cycle (Berner et al., 1989; Falkowski and LaRoche, 1991). Increases in the magnitude of the package effect will increase the absorption of photons generated by PSII fluorescence (FII) before these photons leave the cell, and thus decrease the measured value of FII relative to PSII photochemistry (PII). Given that a fundamental assumption of the absorption method is that the relationship between PSII photochemistry (PII) and PSII fluorescence emission (FII) is reasonably constant (see Equation 3), variability in the level of package effect among samples clearly has the potential to introduce significant errors.

The main objective for this study was to test the applicability of Equations 4 and 6. Because the values generated by both equations are dependent on Ka, a comprehensive evaluation of the absolute value and general applicability of Ka has been incorporated within the study. As a first step, a large number of sample-specific values of Ka (hereafter, KaS) were generated by combining data from parallel STAF and flash O2 measurements from eleven phytoplankton species, grown under nutrient-replete and N-limited conditions. This allowed an evaluation of the degree to which sub-maximal values of Fv/Fm could be attributed to Stern–Volmer quenching or baseline fluorescence (see Figure 1). It should be noted that KaS is used to define apparent Ka values that are not corrected for baseline fluorescence. Each KaS value referenced is the mean of all reps for a specific combination of species and growth conditions (nutrient replete or N-starved).


Figure 1. STAF measurements from E. huxleyi illustrating the concept of baseline fluorescence (Fb). In (A) is from a nutrient-replete culture in log-growth phase. In (B) is from a N-limited culture. Two plausible explanations for the lower Fv/Fm in (B) are considered within the main text. The first assumes that Fb is zero, as indicated by the black text in (B), and the second assumes that Fb has a value that accounts for the entire difference in Fv/Fm between (A) and (B), as indicated by the red text. Fmc is the baseline-corrected value of Fm.

In addition to the STAF and flash O2 measurements used to generate KaS values, the same measurement systems were used to run fluorescence light curves (FLCs) and oxygen light curves (OLCs) on all eleven phytoplankton species. The data generated from these measurements allowed for direct comparison of PhytoGO and JVPII (from Equation 5) at multiple points through the light curves.

This first set of experiments provided evidence for a wider range of Ka values across species and environmental conditions than was evident in the earlier studies of Oxborough et al. (2012) and Silsbe et al. (2015). Although the intra-species variance of Ka values (between values determined for nutrient-replete and N-limited cultures) could confidently be linked to baseline fluorescence, the inter-species variance was more easily explained in terms of the package effect. To test this hypothesis, an additional set of measurements were made on 11 phytoplankton species, of which six were common to the first set of experiments. The species were selected to cover a wide range of cell sizes and optical characteristics. As before, KaS values were generated from parallel flash O2 and STAF measurements. The STAF measurements were made using FastBallast fluorometers (CTG Ltd., as before) fitted with narrow bandpass filters centered at 680 and 730 nm. These wavebands were chosen because chlorophyll a fluorescence is absorbed much more strongly at 680 nm than at 730 nm. It follows that attenuation of fluorescence emission due to the package effect will be much higher at 680 nm than at 730 nm and thus that variability of the package effect among species should correlate with the ratio of fluorescence outputs measured at 730 nm and 680 nm. To allow for comparison with the existing FastOcean sensor, a third FastBallast sensor was fitted with the bandpass filter used within FastOcean.

Materials and Methods

Phytoplankton Cultures (N-Limited Experiments)

Semi-continuous phytoplankton cultures were maintained and adapted to nutrient-replete conditions. All cultures were grown in f/2 medium with silicates omitted where appropriate (Guillard, 1975).

The experimental work covered a period of several months. The initial work was conducted at the University of Essex and incorporated six phytoplankton species (Table 1). Cultures were maintained at 20°C in a growth room (Sanyo Gallenkamp PLC, United Kingdom) and illuminated by horizontal fluorescent tubes (Sylvania Luxline Plus FHQ49/T5/840, United Kingdom). The Light:Dark (L:D) cycle was set at 12 h:12 h. Neutral density filters were used to generate low light and high light conditions (photon irradiances of 30 and 300 μmol photons m-2 s-1, respectively). 300 mL culture volumes were maintained within 1 L Duran bottles. Cultures were constantly aerated with ambient air and mixed using magnetic stirrers.


Table 1. List of cultures used within each experiment.


Table 2. The maximum phytoplankton gross photosynthesis rates (PhytoGOm) from simultaneous OLC and FLC measurements of the 11 nutrient-replete phytoplankton cultures measured in Experiment 1.

Additional experiments, incorporating the remaining five species, were conducted at CTG Ltd. (as before). Cultures were maintained as 30 mL aliquots within filter-capped tissue culture flasks (Fisher Scientific, United Kingdom: 12034917). A growth temperature of 20°C was maintained by placing the flasks within a water bath (Grant SUB Aqua Pro 2 L, United States). Low light illumination (photon irradiance of 30 μmol photons m-2 s-1) was provided from white LED arrays (Optoelectronic Manufacturing Corporation Ltd. 1ft T5 Daylight, United Kingdom). The L:D cycle was set at 12 h:12 h.

The N-limited cultures were sub-cultured from the nutrient-replete cultures. High light-grown cultures were used for the six species interrogated at the University of Essex. In all cases, the growth photon irradiance of the original culture was maintained after sub-culturing. All N-limited cultures were grown into the stationary growth phase using N-limiting f/2 medium before experimental measurements were made.

Phytoplankton Cultures (Package Effect Experiments)

All package effect experiments were conducted at CTG Ltd. Cultures were maintained as 30 mL aliquots within filter-capped tissue culture flasks (Fisher Scientific, United Kingdom: 12034917). A growth temperature of 20°C was maintained by placing the flasks within a water bath (Grant SUB Aqua Pro 2 L, United States). Low light illumination (photon irradiance of 30 μmol photons m-2 s-1) was provided from white LED arrays (Optoelectronic Manufacturing Corporation Ltd. 1ft T5 Daylight, United Kingdom). The L:D cycle was set at 12 h:12 h.

Setup for OLCs and Flash O2 Measurements

All OLCs and flash O2 measurements were made using an Oxygraph Plus system (Hansatech Instruments Ltd, Norfolk, United Kingdom). The sample volume was always 1.5 mL and a sample temperature of 20°C was maintained using a circulating water bath connected to the water jacket of the DW1 electrode chamber. The sample was mixed continuously using a magnetic flea (as supplied with the Oxygraph Plus system). Illumination was provided from an Act2 laboratory system (CTG Ltd, as before). The source comprised three blue Act2 LED units incorporated within an Act2 Oxygraph head. Automated control of continuous illumination during OLCs or the delivery of saturating pulses during flash O2 measurements was provided by an Act2 controller and the supplied Act2Run software package.

Dilution of Samples Between Flash O2 and STAF Measurements

The N-limited and dual waveband experiments included determination of KaS values. In all cases, the required dark STAF measurements of Fo and σPII were made after the flash O2 measurements. In all cases, filtered medium was used to dilute the sample between Oxygraph and STAF measurements.

Chlorophyll a Extraction

In all cases, the concentrated sample used for flash O2 or OLCs was normalized to the parallel dilute STAF sample used to generate Fo and σPII or FLC data through direct measurement of chlorophyll a concentration from both samples.

Chlorophyll was quantified by pipetting 0.5 mL of each sample into 4.5 mL of 90% acetone and extracting overnight in a freezer at -20°C (Welschmeyer, 1994). Samples were re-suspended and centrifuged at approximately 12,000 × g for 10 min and left in the dark (∼30 min) to equilibrate to ambient temperature. Raw fluorescence from a 2 mL aliquot was measured using a Trilogy laboratory fluorometer (Turner, United Kingdom). The chlorophyll a concentration was then calculated from a standard curve.

Setup for Dark STAF Measurements and FLCs (N-Limited Experiments)

All STAF measurements for the N-limited experiments were made using a FastOcean sensor in combination with an Act2 laboratory add-on (CTG Ltd, as before). The Act2 FLC head was populated with blue LEDs. A water bath was used as a source for the FLC head water jacket, maintaining the sample temperature at 20°C.

Flash O2 Measurements for Determining Sample-Specific Ka Values

The density of photochemically active PSII complexes within each sample was determined using the flash O2 method (Mauzerall and Greenbaum, 1989; Suggett et al., 2003; Silsbe et al., 2015). The standard flash used was 120 μs duration on a 24 ms pitch at a photon irradiance of 22,000 μmol photons m-2 s-1.

The concentration of photochemically active PSII centers is proportional to the product of gross O2 evolution rates (E0) and the reciprocal of flash frequency (Hz). The basic theoretical assumptions are that all photochemically active PSII centers undergo stable charge separation once during each flash, that all photochemically active PSII centers re-open before the next flash and that four stable charge separation events are required for each O2 released. In reality, small errors are introduced because some centers do not undergo stable charge separation with each flash (misses) while some centers will undergo more than one stable charge separation event with each flash (multiple hits).

The following checks were applied with all samples:

• The proportion of PSII centers closed during each flash was verified by comparison with sequences of 120 μs flashes on a 24 ms pitch at a photon irradiance of 13,800 μmol photons m-2 s-1

• The default flash pitch of 24 ms was compared against 16 and 36 ms to assess the accumulation of closed PSII centers, with 120 μs flashes of 22,000 μmol photons m-2 s-1 being applied in all three cases

• Sequences of 180 and 240 μs flashes on a 24 ms pitch at a photon irradiance of 22,000 μmol photons m-2 s-1 were applied to assess multiple hits

In all cases, a flash duration of 120 μs duration at a photon irradiance of 22,000 μmol photons m-2 s-1 on a 24 ms pitch provided more than 96% saturation, with no evidence of a significant level of multiple hits or the accumulation of closed PSII centers.

Parallel OLC and FLC Measurements (N-Limited Experiments)

A series of parallel replicate OLC/FLC measurements were made on all nutrient-replete cultures, as well as for the N-limited Thalassiosira weissflogii culture (Table 1). The 10–12 light steps were identical between the parallel OLC and FLC measurements. The sequences always started with a dark step, with all subsequent steps lasting 180 s. Additional dark steps were incorporated after every third light step. The dark respiration rate (Rd) was assessed before, during and after the OLC. The Rd values measured during and after the OLC were always within 8% of the initial Rd (n = 65). The FastOcean ST sequence comprised 100 flashlets on a 2 μs pitch. Each acquisition was an average of 16 sequences on a 100 ms pitch. The auto-LED and auto-PMT functions incorporated within the Act2Run software were always active.

The reported gross O2 evolution rates (E0) were taken as the sum of measured net O2 evolution (Pn) and Rd (Equation 9).

E0=Pn+Rd          (9)

OLC and FLC Curve Fits (N-Limited Experiments)

OLCs and FLCs are variants of the widely used P-E (photosynthesis – photon irradiance) curve. For OLCs, the metric for photosynthesis is the rate at which O2 is evolved through water oxidation by PSII. For FLCs, the metric for photosynthesis is the relative rate of PSII photochemistry, which is assessed as the product of ϕPII and E. In the absence of baseline fluorescence (when Fb = 0), the parameter Fq’/Fm’ can be used to provide an estimate of ϕPII. It follows that FLC curves can be generated by plotting E against the product of baseline corrected Fq′/Fm′ (Fq′/Fmc′) and E.

There are three basic parameters derived from all P-E curve fits: α, Ek, and Pm. The value of α provides the initial slope of the relationship between E and P. Ek is an inflection point along the P-E curve which is often described as the light saturation parameter (Platt and Gallegos, 1980). Pm is the maximum rate of photosynthesis.

The FLC curve fits within this study were generated by the Act2Run software (CTG Ltd, as before). The curve fitting routine within Act2Run is a two-step process which takes advantage of the fact that the signal to noise within FLC data is highest during the initial part of the FLC curve. In the first step (the Alpha phase), Equation 10 is used to generate values for α and Ek (Webb et al., 1974; Silsbe and Kromkamp, 2012). The overall fit is an iterative process that minimizes the sum of squares of the difference between observed and fit values. During the Alpha fit, a significant weighting on the initial points (low actinic E values) is generated by multiplying each square of the difference by (Fq′/Fmc′)2. This approach normally generates a good fit up to Ek, but overshoots beyond this point. Consequently, the Pm values generated by the Alpha phase are generally too high.

Fq′Fm′= α·Ek·(1eE/Ek)·E1          (10)

In the second step (the Beta phase) Equation 11 is used to improve the value of Pm. This step includes a second exponential which is only applied to data points at E values above the Ek value generated by the Alpha phase. The sum of squares of the difference between observed and fit values is not weighted during the Beta phase. This approach forces ϕPII at Ek to be 63.2% of α.

Fq′Fm′=(α·Ek·[1eE/Ek] β·Ekβ·[1e{EEk}/Ekβ])·E1          (11)

The signal to noise for OLC data tends to increase with E (the opposite of what happens with FLC data). Consequently, the fitting method used for the FLC data is not appropriate for OLC data as it is highly dependent on having a good signal to noise during the early part of the curve. The iterative OLC data fits used Equations 12 and 13 (Platt and Gallegos, 1980).

P=PS·(1e( α·E/PS))·(e( β·E/PS))          (12)
Pm=PS·(αα+β)·(βα+β)βα          (13)

Within these equations, Ps and β improve some fits by incorporating a phase that accounts for possible photoinactivation of PSII complexes and/or supra-optimal levels of PSII downregulation (photoinhibition).

Direct comparison of α and β between the FLC and OLC is problematic because while α is incorporated through the entire curve for both fits, β is only incorporated beyond Ek for the FLC and through the entire curve for the OLC. For this reason, direct comparison between FLC and OLC data was focused on Pm values.

Setup for the Package Effect STAF Measurements

STAF measurements were made using three FastBallast sensors (CTG Ltd, as before). Each sensor was fitted with one of the following bandpass filters:

730 nm bandpass, 10 nm FWHM (Edmund Optics, United Kingdom; part number 65-176)

680 nm bandpass, 10 nm FWHM (Edmund Optics, United Kingdom; part number 88-571)

682 nm bandpass, 30 nm FWHM (HORIBA Scientific, United Kingdom; part number 682AF30)

Where FWHM is Full Width at Half Maximum. These filters are, hereafter, termed B730, B680 and B682, respectively. B682 is the standard bandpass filter fitted within FastOcean and FastBallast fluorometers and was included here for comparison.

The emission peak for PSII fluorescence is centered at 683 nm and is Stokes shifted from a strong absorption peak centered at 680 nm. Consequently, reabsorption of PSII fluorescence defined by B680 is close to maximal and is also very high when PSII fluorescence is defined by B682. In contrast, reabsorption of PSII fluorescence within the waveband defined by B730 is minimal.

Because the FastBallast sensor does not incorporate a water jacket, all measurements were made in a temperature-controlled room at 20°C. The FastBallast units were always switched on immediately before each test and automatically powered down once a test had finished. This procedure prevented any measurable increase in temperature within the FastBallast sample chamber during testing.

Calibration of FastBallast units does not include an absolute assessment of the measurement LED photon flux density (which is included within the calibration of FastOcean sensors). Consequently, there is no instrument-type specific Ka available for FastBallast. To get around this limitation, the LED output was maintained at a constant level for all measurements. This allowed Equation 14 to be used in place of Equation 4.

KR=[PSII]·JPIIFo          (14)

Where KR is the instrument-specific constant defined by Oxborough et al. (2012) with units of photons m-3 s-1 and JPII is the initial rate of PSII photochemical flux during a STAF pulse, with units of electrons PSII-1 s-1. As before, it is assumed that each photon used to drive PSII photochemistry results in the transfer of one electron.

Samples used for the FastBallast STAF measurements were prepared by diluting a small aliquot from the sample used for the associated flash O2 measurement. Sixty mL of cell suspension was prepared and divided equally among the three FastBallast sample chambers. Samples were dark-adapted for at least 5 min before measurements were made.

Each sample was run through the three FastBallast units simultaneously using the FaBtest software supplied with the FastBallast fluorometer (CTG Ltd, as before). This test involved continuous application of 400 μs saturating pulses at 10 Hz to a slowly stirred 20 mL sample for 8 min. Only 0.5 mL of the sample is illuminated by the saturating pulse at any point in time. Stirring the sample ensured that the entire sample was interrogated during the test and prevented the accumulation of closed PSII reaction centers. The mean value of Fv was extracted from each test result.

Following the initial measurement, a spike of Basic Blue 3 (BB3) was added to each sample to increase the extracellular baseline fluorescence. BB3 is a water-soluble fluorescent dye, which absorbs throughout the visible range and has a broad emission spectrum centered at approximately 690 nm (Sigma-Aldrich, Saint Louis, MA, United States). As such, it can be used to simulate non-variable fluorescence emission from any source, including CDOM and free chlorophyll a. The BB3 was dissolved in MilliQ water to a final concentration of 118 μM. The volume of the BB3 spike was never more than 30 μL within each 20 mL sample. After spiking with BB3, each sample was dark-adapted for 5 min followed by a second test. In all cases, the Fb generated by addition of BB3 was at least three times the value of the original Fv and, consequently, decreased Fv/Fm by approximately 65%.


A structured approach has been taken in derivation of the parameters used within this manuscript. As baseline fluorescence is central to this study, new fluorescence terms to describe baseline-corrected values of existing fluorescence terms have been introduced. Otherwise, the parameters are structured around root terms that are widely used within the fluorescence community.

Table 3 provides terms used to describe the fluorescence signal at any point. Table 4 provides commonly used parameters derived from the terms in Table 3. Tables 57 show the derivation of terms used for the yields, rate constants, absorption cross sections and absorption coefficients applied to PSII energy conversion processes.


Table 3. The o, m, and v subscripts define the origin (of variable fluorescence), maximum fluorescence and variable fluorescence, respectively.


Table 4. Fluorescence parameters derived using the terms within Table 3.


Table 5. Root terms used in the derivation of parameter ‘x’ within Table 7.


Table 6. Subscripts used for derivation of parameters within Table 7.


Table 7. Parameters derived from the root terms and subscripts within Tables 5, 6, respectively.

The root terms and subscripts provided in Tables 5, 6, respectively, are very widely used (examples include Butler and Kitajima, 1975; Kolber et al., 1998; Baker and Oxborough, 2004; Oxborough et al., 2012). These tables were constructed to introduce consistency and minimize ambiguity: particularly with the distinction between absorption cross-sections and absorption coefficients. It should also be noted that the ‘optical absorption cross-section of PSII’ and ‘effective absorption cross-section of PSII’ (both unit area per photon) employed by Kolber et al. (1998) are, in terms of usage, equivalent to the absorption cross-sections of PSII light-harvesting and PSII photochemistry (both unit area per PSII), respectively.


Sample-Specific Ka Values Under Nutrient-Replete and N-Limited Conditions

The sample-specific values of Ka (KaS) for all nutrient-replete, low light grown cultures ranged from 7,822 m-1 for C. vulgaris to 25,743 m-1 for T. pseudonana (Figure 2A). Of the six species grown under both low and high light, only D. salina exhibited a significant difference in the KaS values between light treatments (Supplementary Table 1). In all cases, the N-limited KaS values were significantly lower than for the nutrient-replete samples from which they were sub-cultured (Figure 2A). These lower KaS values were matched to lower values of Fv/Fm (Supplementary Table 1).


Figure 2. Variability in Ka (A) and nPSII (B) values measured across a range of phytoplankton species. In (A), the consensus Fv/Fmc value of 0.518 (see main text) was used to calculated Fb for each culture when the measured Fv/Fm was lower than 0.518. Fb was subtracted from the measured Fo and Fm. The dashed line represents KaFO (11,800 m-1). Significant differences were tested by a series of parametric t-tests (t-test; P < 0.05); however, if normality was not achieved after data transformation a Mann–Whitney Rank Sum test was performed. All nutrient-replete and uncorrected N-limited Ka values were significantly different. In (B), the number of PSII reaction centers per chlorophyll a molecule was calculated from flash O2 measurements and chlorophyll a extractions. More details are provided within Section “Materials and Methods.”

As discussed in the introduction, there are two mechanisms that could cause sub-maximal Fv/Fm values: dark-persistent Stern–Volmer quenching and baseline fluorescence. Importantly, the absorption method is insensitive to Stern–Volmer quenching while baseline fluorescence can introduce a significant error in the calculation of JVPII. In the context of these tests, the lower values of both sample-specific Ka and Fv/Fm values observed within the N-limited cultures, when compared to the nutrient-replete values, are entirely consistent with a baseline fluorescence-induced error being introduced by, for example, the accumulation of photoinactivated PSII complexes and/or other energetically uncoupled complexes. To test this possibility, Equation 15 (Oxborough, 2012) was used to derive a theoretical Fv/Fmc value that could be applied across all N-limited cultures.

Fb=FmFv(Fv/Fmc)          (15)

Where Fmc is the Fb-corrected value of the measured Fm (see Terminology). When using this equation, Fm and Fv are measured from the sample and Fv/Fmc is an assumed baseline corrected value of Fv/Fm for the photochemically active PSII complexes within the sample (see Figure 1). The single, consensus value of Fv/Fmc used was generated iteratively, by minimizing the total sum of squares for the differences in KaS values from nutrient-replete cultures and corrected N-limited cultures.

Applying an Fb-correction within Equation 15 brings the N-limited KaS values for all but one species (T. pseudonana) up to the point where they are not significantly different from the matched nutrient-replete culture values and resulted in a consensus Fv/Fmc value of 0.518. Even with T. pseudonana, the Fb-corrected value is much closer to the nutrient-replete value than is the uncorrected N-limited value. The observation that the consensus Fv/Fmc value required for the Fb-corrected values is slightly lower than most of the Fv/Fm values measured from the nutrient-replete cultures (see Supplementary Table 1) may indicate that the photochemically active PSII complexes within the N-limited cultures are operating at a slightly lower efficiency that the photochemically active PSII complexes within the nutrient-replete cultures.

The dashed line within Figure 2A shows the default Ka value of 11,800 m-1 that is currently provided for the FastOcean sensor (hereafter, KaFO). Although this value falls within the mid-range of KaS values for the nutrient-replete cultures, there is considerable variability around this default value; for example, KaFO is approximately 50% higher than the nutrient-replete KaS value for C. vulgaris and less than 50% of the equivalent value for T. pseudonana.

Interspecific Variability in Ka and Chl PSII-1

A comparison between nPSII and Ka is valid because they have a similar proportional impact in the calculation of [PSII] within Equations 2 and 4, respectively. Figure 2B shows nPSII values for nutrient-replete cultures and N-limited cultures. The dashed line is at a widely used default value for nPSII of 0.002 Chl PSII-1 (Kolber and Falkowski, 1993; Suggett et al., 2001). There are two noteworthy features within this dataset. Firstly, the range of nPSII values is very wide, at around 15:1: from less than 0.0002 Chl PSII-1 for the N-limited T. pseudonana to more than 0.003 Chl PSII-1 for N-limited E. huxleyi. Secondly, there is a lack of consistency between nPSII values from nutrient-replete cultures and N-limited cultures: five species show higher nPSII values for the N-limited cultures while the remaining six species show lower nPSII values for the N-limited cultures. Overall, these data provide a good illustration of how an assumed value for nPSII can introduce large errors in the calculation of JVPII, which can only be corrected through independent determination of PSII concentration.

Comparison of OLC and FOC Curves

Figure 3 shows OLC and FLC data from all eleven phytoplankton species used within this study. All data are from the nutrient-replete, low light-grown cultures. The FLC values of PhytoGO (y-axes) assume four electrons per O2 released. Values from the STAF data were derived using either KaFO or the KaS values shown in Figure 2A. Clearly, in most cases, the match between OLC and FLC is greatly improved by using the KaS values in place of KaFO. The one exception is Figure 3B (D. salina) where the KaS value happens to be very close to KaFO.


Figure 3. A representative example of simultaneous oxygen light curve (OLC) and fluorescence light curve (FLC) measurements made across all phytoplankton species. The OLC and FLC measurements were made on cultures acclimated to ambient temperature (∼20°C) and low-light (LL = 30 μmol photons m-2 s-1). FLC data were standardized to equivalent units of O2, with both OLC and FLC data normalized to a derived concentration of functional PSII complexes (O2 PSII-1 s-1). FLC data were derived using KaFO (11,800 m-1) or a sample-specific (KaS) value. The solid lines represent the P-E curve fits (color-coded to match the data points). (A) = D. tertiolecta; (B) = D. salina; (C) = P. provasolii; (D) = C. vulgaris; (E) = P. tricornutum; (F) = T. pseudonana; (G) = T. punctigera; (H) = T. weissflogii; (I) = C. pelagicus; (J) = E. huxleyi; (K) = I. galbana. PhytoGOm values from all OLC and FLC data fits are shown in Table 2. Replicates from each species (n = 5) are presented in Supplementary Figures 312.

The data presented within Figure 4 have been extracted from the OLCs and FLCs within Figure 3 to allow bulk comparison of the measured OLC and FLC PhytoGO values (A and C). Also shown is a comparison of the Pm values (B and D) from the OLC and FLC curve fits. Values were generated using either KaFO (A and C) or KaS values (B and D).


Figure 4. The relationship between the entire photosynthesis-photon irradiance (P-E) curve of PhytoGO (A,C), and the maximum PhytoGO (PhytoGOm) from simultaneous OLC and FLC measurements (B,D). FLC data were standardized to equivalent units of O2, with both OLC and FLC data normalized to a derived concentration of functional PSII complexes (O2 PSII-1 s-1). Within (A,B), FLC data were derived using KaFO (11,800 m-1). Within (C,D), KaS values were used (see Materials and Methods). Each species consisted of 5 biological replicates. The dashed line represents a 1:1 line, while the solid line is the linear regression used to generate r2, slope and intercept values. A key for the symbols in (A) is incorporated within Table 1.

Inevitably, the match between OLC and FLC data, both as the entire PE curve [ANCOVA, F(2, 492) = 1.962, P < 0.001] and Pm values [ANCOVA, F(2, 106) = 1.983, P < 0.001], is improved significantly when KaS values (C and D) are used in preference to KaFO (A and B). The slope for the KaS data is very close to the ’ideal’ of 1.0 and a high proportion of data points fall within the ±20% lines included within the plot [Paired t-test, t(492) = 1.781, P < 0.005]. In contrast, the KaFO data have a much lower slope of 0.6 and ±50% lines are required to constrain a similar proportion of points [Paired t-test, t(492) = 17.119, P > 0.005]. The KaS values also generate a much better correlation between the values of Pm derived from OLC and FLC curve fits than KaFO (D and B, respectively). The slope for the KaS data (D), at 0.778, is significantly lower than the ideal of 1.0 [Paired t-test, t(53) = 3.888, P > 0.005]. This lower slope may be at least partly due to differences in the curve fits applied to OLC and FLC data (see Materials and Methods).

The Stability of Fb Under Actinic Light

Clearly, the consensus Fv/Fmc (0.518) in Equation 15 generated a good match between KaS values for all but one of the nutrient-replete and N-limited cultures in Figure 2A. In a wider context, it could prove valid to use the consensus Fv/Fmc of 0.518 within Equation 15 when the measured Fv/Fm is lower than this value and assume that Fb is zero when the measured Fv/Fm is above 0.518.

In situations where Fb is non-zero, the calculated value of aLHII used within Equation 5 is decreased while value of Fq’/Fm’ used within the same equation is increased. The adjustment to aLHII can largely be justified by the fact that matched Fb and aLHII values are derived from the same dark-adapted STAF measurement. In contrast, the adjustment to Fq’/Fm’ is potentially more complex, simply because light-dependent NPQ can significantly decrease the maximum fluorescence level between the dark-adapted Fm and light-adapted Fm’ (see Introduction). Given that a proportion of Fb could be from photoinactivated PSII complexes within the same membranes as the photochemically active PSII complexes, it seems reasonable to consider the possibility that NPQ could also quench Fb.

To test the potential for a NPQ-dependent decrease in Fb, additional FLCs were run on the N-limited cultures of T. weissflogii that had been sub-cultured from the low light-grown, nutrient-replete cultures. The value of Fb for the original, nutrient-replete cultures was always assumed to be zero, simply because the measured Fv/Fm from these cultures was always above 0.518. Conversely, the Fv/Fm values measured from the N-limited cultures were always well below the consensus value, at 0.116 ± 0.006.

Figure 5A shows the maximum PhytoGO values (PhytoGOm), measured as O2-evolution (x-axis) or calculated using the KaS value from the nutrient-replete T. weissflogii of 15,868 m-1. For these values, Fb was set to zero for both the nutrient-replete cultures and the N-limited cultures. Clearly, while there is good agreement between the measured and calculated values of PhytoGOm from the nutrient-replete cultures, most of the calculated PhytoGOm values from the N-limited cultures are much higher than the measured values. As noted previously, failure to correct for Fb results in an overestimate of aLHII and underestimate of Fq’/Fm’. In this case, it seems reasonable to conclude that the overestimate of aLHII was greater than the underestimate of Fq’/Fm’, resulting in an overestimate of PhytoGOm.


Figure 5. The relationship between simultaneous OLC and FLC measurements of maximum PhytoGO (PhytoGOm) within N-limited (n = 10) and nutrient replete (n = 5) T. weissflogii cultures. The KaS value from the nutrient-replete cultures was applied throughout. In (A), no Fb correction was applied. In (B), the N-limited values were Fb-corrected by applying a consensus Fv/Fmc value of 0.502. Further details are provided within Section “Materials and Methods.”

For Figure 5B, Equation 15 was used to generate a consensus Fv/Fmc specific to the N-limited cultures. This consensus value was reached by minimizing the sum-of-squares for the regression line through the N-limited data by allowing Fb to vary. The mean consensus Fv/Fmc from this fit (0.502) is within 3% of the consensus value derived from the dark-adapted data presented in Figure 2. In contrast, the average NPQ-dependent decrease from dark-adapted Fm to the light-adapted Fm’ measured at Pm was always more than 30% (data not shown). Consequently, these data do not imply significant quenching of Fb between the dark-adapted state and Pm.

Dual Waveband STAF Measurements to Correct for the Package Effect

We hypothesized that variability in the package effect could account for the variance of KaS values within Figure 2A. As previously noted within Materials and methods, three FastBallast units were used to measure fluorescence centered at 730 and 680 nm (designated B730 and B680, both with 10 nm FWHM) and 682 nm (designated B682 with 30 nm FWHM), respectively.

We generated ratios of the Fv measured using the bandpass filter centered at 730 nm to Fv measured using the bandpass filters centered at 680 nm (Fv730/680) or 683 nm (Fv730/683). Within Figure 6, the values of these ratios are plotted against sample-specific values of KR (Figures 6A,D, respectively). The linear regressions generated from the data in Figures 6A,D were used to generate Fv-derived values of KR which are shown in Figures 6B,E, respectively.


Figure 6. The relationship between dual wavelength STAF measurements and KR values generated using the flash O2 method. The leftmost panels show the ratio of FR measured by B730 to Fv measured by B680 (A) and Fv measured by B730 to Fv measured by B682 (D) against the measured KR value from parallel measurements of flash O2. The middle panels (B,E) show the relationship between flash O2-derived KR and dual waveband-derived KR values. The dual waveband KR values within these panels were derived using the slopes and offsets reported in (A,D), as appropriate. The rightmost panels (C,F), show the same relationships as reported in (B,E), respectively, but in the presence of extracellular baseline fluorescence (Fb) generated by a spike of BB3 (see Materials and Methods). The dashed lines in each panel represents a 1:1 slope, the solid black line is the linear regression. The solid red lines represent ± 20% of the regression values.

CalculatedKR=Fv730/680InterceptSlope          (16)

Equation 16 provides the conversion between A and D. For the equivalent conversion between B and E, Fv730/680 was replaced with Fv730/683. Slope and Intercept are the regression line values from A or D, as appropriate. The calculated KR values within C and F were generated by combining the observations of Fv730/680 and Fv730/683 from samples with the added BB3 with the Slope and Intercept from A and D, as appropriate.

One feature that is immediately clear from these data is the much tighter grouping of points along the regression lines for the Fv730/680 data (Figures 6A–C) than the Fv730/683 data (Figures 6D–F). This indicates that the 30 nm FWHM of the 682 nm bandpass filter is too broad to adequately isolate the fluorescence generated close the 680 nm absorption peak and, consequently, that the 10 nm FWHM 680 nm bandpass filter is the better choice for these measurements.

All 11 species used within the package effect tests were grown under nutrient-replete conditions and exhibited Fv/Fm values that were above the consensus value of 0.518 generated from the first part of this study. BB3 was added to each sample within the package effect tests to simulate the lower Fv/Fm values that are frequently observed under conditions of stress. The expectation was that fluorescence from the added BB3 would increase Fb but have minimal impact Fv and, as a consequence, that the slope of the relationship between calculated and measured KR values would not be significantly affected by a BB3-dependent increase in Fb. The absence of significant changes in slope between Figures 6B,C and between Figures 6E,F are consistent with this expectation.


Determination of JVPII using the absorption method described by Oxborough et al. (2012) provides a method for estimating PhytoGO and PhytoPP on much wider spatiotemporal scales than can be achieved by conventional measurements of O2 evolution or 14C fixation, respectively. This study was undertaken to assess the extent to which baseline fluorescence and the package effect could introduce errors into the calculation of JVPII (Equation 5).

With regard to baseline fluorescence (Fb), the underlying question was whether sub-maximal dark-adapted value of Fv/Fm could be attributed to Fb or downregulation of PSII photochemistry by dark-persistent Stern–Volmer quenching or some combination of the two. The data presented within Figure 2A provides strong evidence that, for the examples presented within this study, Fb is by far the dominant contributor to sub-maximal Fv/Fm values. Although this interpretation may not hold for all phytoplankton species and environmental conditions, this study provides a straightforward, practical approach to addressing the question of how universally valid an Fb correction to low sub-maximal dark-adapted Fv/Fm values might be.

We conclude that no correction for baseline fluorescence should be applied when the dark-adapted Fv/Fm is above a certain consensus value. In situations where the dark-adapted Fv/Fm is below this consensus value, Equation 14 should be used to calculate a value for Fb. From the data presented here, a consensus value (Fv/Fmc) of between 0.50 and 0.52 seems an appropriate default value for the cultures used within this study. Clearly, this value for Fv/Fmc is significantly lower than the maximum Fv/Fm values recorded from phytoplankton using STAF, of around 0.6–0.65. It follows that future work, with other cultures and natural samples, may generate a higher consensus values in some situations.

Clearly, the value of Fb generated by Equation 15 is dependent on a STAF measurement made on a dark-adapted sample. The data presented in Figure 5 indicate that, for this specific example at least, there was no evidence of a change in Fb between the dark and light-adapted states. As a consequence, the dark-adapted Fb could be applied at the other end of the FLC scale to correct the value of Pm.

With regard to the package effect, the wide range of Ka values within Figure 2A is entirely consistent with a significant proportion of the fluorescence emitted from functional PSII complexes being reabsorbed through this process. This interpretation is clearly supported by data presented in Figure 3, where use of the KaS value in place of KaFO provides a much stronger match between the FLC and OLC data. The dual waveband data presented in Figure 6 provide strong evidence that the package effect-induced error could be decreased significantly through incorporation of a Fv730/680-derived correction factor applied to a default instrument-type specific Ka value such as KaFO. From a practical point of view, routine implementation of this correction step will require either two detectors with different filters or a single detector with switchable filtering. On balance, the latter option is likely to prove more cost-effective and easier to calibrate.

Overall, the conclusions reached can be summarized by Equation 17

JVPII=KaTS·RPE·Fmc·FocFmcFoc·Fq′Fmc′·E          (17)

where KaTS is the instrument type-specific Ka value and RPE is a sample-specific dimensionless package effect correction factor. All other terms are as before or are defined in Terminology.

For the species and conditions examined in this paper, the data presented provide strong evidence that baseline correction and package effect correction can increase the accuracy of estimates of PhytoGO from STAF. While fully acknowledging the inevitable challenges that will be imposed by a move from cultures to natural communities, we anticipate that the development and deployment of autonomous STAF instrumentation will allow Equation 17 to be applied on much wider spatiotemporal scales than is currently possible. Such measurements, if used in conjunction with simultaneous satellite measurements of ocean color, will likely lead to improved estimates of local, regional or global pelagic PhytoPP.

Contribution to the Field Statement

Phytoplankton photosynthesis is responsible for approximately half of the carbon fixed on the planet. As a process, photosynthesis is responsive to variability in multiple environmental drivers including light, temperature and nutrients across spatial scales from meters to ocean basins, and time scales from minutes to tens of years. This poses significant challenges for measurement and monitoring. While direct measurement of the carbon fixed by photosynthesis can only be applied on very limited spatial and temporal scales, active chlorophyll fluorescence has enormous potential for the accurate measurement of phytoplankton photochemistry, which provides the reducing power for carbon fixation, on much wider spatiotemporal scales and with much lower operational costs. This study identifies practical measures that can be taken to improve the accuracy of such measurements. We are confident that these measures will have minimal impact on the frequency at which phytoplankton photochemistry is assessed and that they will be suitable for application on autonomous measurement platforms.

Data Availability

The datasets generated for this study are available on request to the corresponding author.

Author Contributions

KO conceived the study and developed the software required to conduct the experiments. KO, RG, and TB designed the initial baseline experiments. All the baseline experiments were conducted by TB who also processed the primary data. The dual waveband experiments for assessment of the package effect were conceived by KO and RG and conducted by TB. The Package effect data were processed by TB and jointly analyzed by KO and TB. Figure 1 was generated by KO, whereas all the remaining figures were generated by TB. The initial draft of the main text was made by KO. Iterations of the manuscript were implemented by KO, TB, and RG. The submitted version of the manuscript is approved for publication by KO, TB, and RG.


RG acknowledges support from the NERC grant NE/P002374/1.

Conflict of Interest Statement

The authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest.


We wish to thank T. Cresswell-Maynard, J. Fox, and P. Siegel (University of Essex, United Kingdom) for supplying the phytoplankton cultures. We would also like to thank H. Ga Chan (Princeton University, United States) and M. Moore and A. Hickman (University of Southampton, United Kingdom) for helpful discussions.

Supplementary Material

The Supplementary Material for this article can be found online at:


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Keywords: photosynthesis, primary productivity, photosystem II, chlorophyll fluorescence, package effect, ocean color

Citation: Boatman TG, Geider RJ and Oxborough K (2019) Improving the Accuracy of Single Turnover Active Fluorometry (STAF) for the Estimation of Phytoplankton Primary Productivity (PhytoPP). Front. Mar. Sci. 6:319. doi: 10.3389/fmars.2019.00319

Received: 19 March 2019; Accepted: 28 May 2019;
Published: 14 June 2019.

Edited by:

Johannes Karstensen, GEOMAR Helmholtz Centre for Ocean Research Kiel, Germany

Reviewed by:

Christoph Waldmann, University of Bremen, Germany
Yuyuan Xie, Milford Laboratory, Northeast Fisheries Science Center (NOAA), United States

Copyright © 2019 Boatman, Geider and Oxborough. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

*Correspondence: Kevin Oxborough,