Fast Repetition Rate Fluorometry (FRRF) Derived Phytoplankton Primary Productivity in the Bay of Bengal

Effect of increased pCO2 and temperature on the phytoplankton community in the coastal of Yellow Sea

In order to study the dynamics of marine phytoplankton communities in response to anticipated in temperature and CO2, a shipboard continuous culture experiment (Ecostat) was conducted. The experiment involved simulations under current atmospheric CO2 concentrations (400 ppm) and projected year-2100 CO2 levels (1000 ppm), as well as varying temperature under present (22 °C) versus increased temperature (26 °C) in the Yellow Sea during the summer of 2020. The results showed that both the increased pCO2 and temperature had significant effects on microphytoplankton and picophytoplankton, with the warming effect proving to be more significant. The different responses of various species to acidification and warming and their coupling effect led to the changes in microphytoplankton and picophytoplankton community structure. Elevated temperature and greenhouse treatments promoted the growth of dominant diatoms and Synechococcus, such as Guinardia flaccida and Pseudo-nitzschia delicatissima. This phenomenons widened the ecological niche, and the changes in the growth patterns of dominant species consequently influenced the content of cellular elements. Mantel's analysis further demonstrated that both warming and greenhouse promoted the growth of diatoms and Synechococcus. Projections of marine phytoplankton community trends by the end of the century based on Growth Rate Ratio (GRR), indicated that not only would species with GRR < 1 decrease, but also numerous species with growth rates >1 at elevated pCO2 levels would be ousted from competition. This experiment demonstrates the need to investigate whether extended exposure to increased pCO2 and temperature over more extended time scales would similarly induce shifts in the biological and biogeochemical dynamics of the Yellow Sea.

In situ phytoplankton photosynthetic characteristics and their controlling factors in the eastern Indian Ocean

Photosynthesis is the most important bioenergy conversion process on Earth. Capturing instantaneous changes in in situ photosynthesis in open ocean ecosystems remains a major challenge. In this study, fast repetition rate fluorometry (FRRF), which can obtain nondestructive, real-time and in situ estimates of photosynthetic parameters, was used for the first time to continuously observe the spatial variation in in situ photosynthetic parameters in the eastern Indian Ocean (EIO). We further formulated new insights regarding abiotic and biotic factors of potential importance in determining photosynthetic performance. First, we found that the distributions of micro/nano- and picophytoplankton were opposite under the control of nutrient concentrations. Micro/nanophytoplankton had higher cell abundances in the nearshore and upwelling regions, while picophytoplankton had higher abundances in the open ocean, and Prochlorococcus was the dominant group. Second, based on the FRRF technology, we obtained the high-precision and high-density vertical profile map of photosynthetic parameters in the euphotic layer. It was observed that values of the maximum photochemical efficiency (Fv/Fm; 0.14-0.55, unitless) and the functional absorption cross-section of PSII (σPSII; 1.71-4.90 nm2 RCII-1) increased with increasing depth, while high values of the photosynthetic electron transfer rates (ETRRCII; 0.0019-17.0292 mol e- mol RCII-1 s-1) and the nonphotochemical quenching (NPQNSV; 0.35-7.26, unitless) occurred in the shallow 50 m layer, and the values decreased as the depth increased. Finally, we discussed limiting factors that regulated the distribution of photosynthetic parameters and concluded that optical properties varied significantly with changes in the ocean physico-chemical parameters and taxonomic composition of phytoplankton assemblages in the EIO. Picophytoplankton (especially cyanobacteria), rather than the micro/nanophytoplankton community, was the dominant factor influencing photosynthesis. Among abiotic factors, photosynthetically active radiation (PAR) was the proximal limiting factor affecting photosynthetic efficiency, followed by temperature and dissolved inorganic nitrogen (DIN). Consequently, phytoplankton photosynthetic parameters exhibited great variability, allowing rapid responses to environmental condition changes. In this study, we established the basis for detecting future changes in primary production in this oligotrophic area.

Key determinants controlling the seasonal variation of coastal zooplankton communities: A case study along the Yellow Sea

Zooplankton play key top-down and bottom-up regulatory roles in aquatic food webs, and are also ecologically indicative in marine ecosystems. However, there are relatively limited data on the effects of environmental changes on natural zooplankton communities, especially in coastal ecosystems. In the present study, we systematically evaluated the potential effects of various environmental variables, such as temperature, salinity, and nutrients, on the zooplankton communities along the coastal Yellow Sea during spring, summer, and fall. The results showed that the average abundance of zooplankton decreased in general from spring to autumn, but the biomass exhibited a different seasonal variation trend, with the highest in summer and the lowest in fall. Throughout the three seasons, copepods were the most dominant species within the zooplankton communities, followed by Pelagic larvae and Hydromedusae. However, Noctiluca miliaris accounted for a large proportion of zooplankton abundance during spring. Moreover, the correlation analysis was applied to explore the potential effects of environmental factors on the seasonal variation of zooplankton communities. The results showed that chlorophyll a (Chl a) and salinity were significantly correlated with zooplankton abundance and biomass during spring. The implication is that high phytoplankton biomass (expressed as Chl a) and salinity would benefit the growth of zooplankton in spring. During summer and fall, the effects of dissolved inorganic phosphate (DIP) on the zooplankton abundance and biomass showed a significant positive correlation, indicating that zooplankton were better able to tolerate high DIP during summer and fall. Taken together, Chl a, salinity, and DIP may be the key determinants controlling the seasonal dynamics of zooplankton communities in the coastal Yellow Sea.

Structural diversity of bacterial communities in two divergent sunflower rhizosphere soils

Purpose

Farming practices on farmlands aim to improve nutrients in the fields or crops, soil quality and functions, as well as boost and sustain crop yield; however, the effect of loss of ecological diversity and degradation have impacted ecosystem functions. The beneficial rhizosphere-microorganism network and crop rotation may enhance a stable ecosystem. The use of next-generation sequencing technique will help characterize the entire bacterial species in the sunflower rhizosphere compared with the nearby bulk soils. We investigated the potential of the bacterial community structure of sunflower rhizosphere and bulk soils cultivated under different agricultural practices at two geographical locations in the North West Province of South Africa.

Methods

DNA was extracted from rhizosphere and bulk soils associated with sunflower plants from the crop rotation (rhizosphere soils from Lichtenburg (LTR) and bulk soils from Lichtenburg (LTB) and mono-cropping (rhizosphere soils from Krayburg (KRPR) and bulk soils from Krayburg (KRPB) sites, and sequenced employing 16S amplicon sequencing. Bioinformatics tools were used to analyse the sequenced dataset.

Results

Proteobacteria and Planctomycetes dominated the rhizosphere, while Firmicutes and Actinobacteria were predominant in bulk soils. Significant differences in bacterial structure at phyla and family levels and predicted functional categories between soils (P < 0.05) across the sites were revealed. The effect of physicochemical parameters was observed to influence bacterial dispersal across the sites.

Conclusion

This study provides information on the predominant bacterial community structure in sunflower soils and their predictive functional attributes at the growing stage, which suggests their future study for imminent crop production and management for enhanced agricultural yields.

Comparative Analysis of Total and Size-Fractionated Chlorophyll a in the Yellow Sea and Western Pacific

Measurements of different size-fractionated chlorophyll a concentrations (Chl a) of phytoplankton assemblages in situ are vital for advancing our understanding of the phytoplankton size structure and thus the marine biogeochemical cycle. In the present study, we thus made a comparative analysis of total and size-fractionated Chl a in the Yellow Sea (YS) and Western Pacific (WP). Our results suggest that the total Chl a was highly variable in the YS (averaging ~1.02 μg L⁻¹) and was generally 3–4-fold more than that in the WP (averaging ~0.30 μg L⁻¹). The pico-sized Chl a had a significant contribution to total Chl a in the WP (range 75–88%), while the average contributions of the nano-sized and pico-sized Chl a to total Chl a in the YS were 47 and 38%, respectively, suggesting that a majority of the total Chl a in the YS was associated with nano- and picophytoplankton. Moreover, we applied the generalized additive models (GAMs) to explore the relationships between the total Chl a and that contained in each of the three size classes. These GAMs relationships suggested a continuum from picophytoplankton dominated waters to large phytoplankton (cells> 2 μm) domination with increasing Chl a. Finally, we made a comparison of the total Chl a obtained with GF/F filters and that measured from size-fractionated filtration and revealed that their corresponding concentrations are in good agreement, indicating the size-fractionated filtration had no effect on total Chl a determination.

Exploring Variability of Trichodesmium Photophysiology Using Multi-Excitation Wavelength Fast Repetition Rate Fluorometry

Fast repetition rate fluorometry (FRRf) allows for rapid non-destructive assessment of phytoplankton photophysiology in situ yet has rarely been applied to Trichodesmium. This gap reflects long-standing concerns that Trichodesmium (and other cyanobacteria) contain pigments that are less effective at absorbing blue light which is often used as the sole excitation source in FRR fluorometers-potentially leading to underestimation of key fluorescence parameters. In this study, we use a multi-excitation FRR fluorometer (equipped with blue, green, and orange LEDs) to investigate photophysiological variability in Trichodesmium assemblages from two sites. Using a multi-LED measurement protocol (447+519+634 nm combined), we assessed maximum photochemical efficiency (F v /F m ), functional absorption cross section of PSII (σ PSII ), and electron transport rates (ETRs) for Trichodesmium assemblages in both the Northwest Pacific (NWP) and North Indian Ocean in the vicinity of Sri Lanka (NIO-SL). Evaluating fluorometer performance, we showed that use of a multi-LED measuring protocol yields a significant increase of F v /F m for Trichodesmium compared to blue-only excitation. We found distinct photophysiological differences for Trichodesmium at both locations with higher average F v /F m as well as lower σ PSII and non-photochemical quenching (NPQ NSV ) observed in the NWP compared to the NIO-SL (Kruskal-Wallis t-test df = 1, p < 0.05). Fluorescence light response curves (FLCs) further revealed differences in ETR response with a lower initial slope (α ETR ) and higher maximum electron turnover rate ( E T R P S I I m a x ) observed for Trichodesmium in the NWP compared to the NIO-SL, translating to a higher averaged light saturation E K (= E T R P S I I m a x /α ETR ) for cells at this location. Spatial variations in physiological parameters were both observed between and within regions, likely linked to nutrient supply and physiological stress. Finally, we applied an algorithm to estimate primary productivity of Trichodesmium using FRRf-derived fluorescence parameters, yielding an estimated carbon-fixation rate ranging from 7.8 to 21.1 mgC mg Chl-a-1 h-1 across this dataset. Overall, our findings demonstrate that capacity of multi-excitation FRRf to advance the application of Chl-a fluorescence techniques in phytoplankton assemblages dominated by cyanobacteria and reveals novel insight into environmental regulation of photoacclimation in natural Trichodesmium populations.

Photosynthetic Characteristics of Smaller and Larger Cell Size-Fractioned Phytoplankton Assemblies in the Daya Bay, Northern South China Sea

Cell size of phytoplankton is known to influence their physiologies and, consequently, marine primary production. To characterize the cell size-dependent photophysiology of phytoplankton, we comparably explored the photosynthetic characteristics of piconano- (<20 µm) and micro-phytoplankton cell assemblies (>20 µm) in the Daya Bay, northern South China Sea, using a 36-h in situ high-temporal-resolution experiment. During the experimental periods, the phytoplankton biomass (Chl a) in the surface water ranged from 0.92 to 5.13 μg L^-1, which was lower than that in bottom layer (i.e., 1.83-6.84 μg L^-1). Piconano-Chl a accounted for 72% (mean value) of the total Chl a, with no significant difference between the surface and bottom layers. The maximum photochemical quantum yield (F_V/F_M) of Photosystem II (PS II) and functional absorption cross-section of PS II photochemistry (σ_{PS II}) of both piconano- and micro-cells assemblies varied inversely with solar radiation, but this occurred to a lesser extent in the former than in the latter ones. The σ_{PS II} of piconano- and micro-cell assemblies showed a similar change pattern to the F_V/F_M in daytime, but not in nighttime. Moreover, the fluorescence light curve (FLC)-derived light utilization efficiency (α) displayed the same daily change pattern as the F_V/F_M, and the saturation irradiance (E_K) and maximal rETR (rETR_max) mirrored the change in the solar radiation. The F_V/F_M and σ_{PS II} of the piconano-cells were higher than their micro-counterparts under high solar light; while the E_K and rETR_max were lower, no matter in what light regimes. In addition, our results indicate that the F_V/F_M of the micro-cell assembly varied quicker in regard to Chl a change than that of the piconano-cell assembly, indicating the larger phytoplankton cells are more suitable to grow than the smaller ones in the Daya Bay through timely modulating the PS II activity.

Irradiance and nutrient-dependent effects on photosynthetic electron transport in Arctic phytoplankton: A comparison of two chlorophyll fluorescence-based approaches to derive primary photochemistry

We employed Fast Repetition Rate fluorometry for high-resolution mapping of marine phytoplankton photophysiology and primary photochemistry in the Lancaster Sound and Barrow Strait regions of the Canadian Arctic Archipelago in the summer of 2019. Continuous ship-board analysis of chlorophyll a variable fluorescence demonstrated relatively low photochemical efficiency over most of the cruise-track, with the exception of localized regions within Barrow Strait, where there was increased vertical mixing and proximity to land-based nutrient sources. Along the full transect, we observed strong non-photochemical quenching of chlorophyll fluorescence, with relaxation times longer than the 5-minute period used for dark acclimation. Such long-term quenching effects complicate continuous underway acquisition of fluorescence amplitude-based estimates of photosynthetic electron transport rates, which rely on dark acclimation of samples. As an alternative, we employed a new algorithm to derive electron transport rates based on analysis of fluorescence relaxation kinetics, which does not require dark acclimation. Direct comparison of kinetics- and amplitude-based electron transport rate measurements demonstrated that kinetic-based estimates were, on average, 2-fold higher than amplitude-based values. The magnitude of decoupling between the two electron transport rate estimates increased in association with photophysiological diagnostics of nutrient stress. Discrepancies between electron transport rate estimates likely resulted from the use of different photophysiological parameters to derive the kinetics- and amplitude-based algorithms, and choice of numerical model used to fit variable fluorescence curves and analyze fluorescence kinetics under actinic light. Our results highlight environmental and methodological influences on fluorescence-based photochemistry estimates, and prompt discussion of best-practices for future underway fluorescence-based efforts to monitor phytoplankton photosynthesis.

Identification of paralytic shellfish poison producing algae based on three-dimensional fluorescence spectra and quaternion principal component analysis

In view of the problem of the paralytic shellfish poison producing algae on-line measurement and identification, a new feature extraction method of paralytic shellfish poison producing algae measurement and identification based on quaternion principal component analysis (QPCA) is investigated. The three-dimensional (3D) fluorescence spectra of three common species of paralytic shellfish poison producing algae and eight species common of non paralytic shellfish poison producing algae are analyzed. The quaternion parallel representation model of algae three-dimensional fluorescence spectrum data is established, then the features of quaternion principal component is extracted to use as the input of k-nearest neighbor (KNN) classifier, and the identification of paralytic shellfish poison producing algae is realized by the three-dimensional fluorescence spectra coupled with quaternion principal component analysis. The results show that under the quaternion parallel representation model, the recognition accuracy rate of multiplication feature, modulus feature and summation feature is 90%, 95% and 100% respectively. Compared with that of the principal component analysis feature extraction method, the recognition accuracy rate in pure samples by summation feature of quaternion principal component is improved by 10%. This study provides an experimental basis for the accurate monitoring technology of three-dimensional fluorescence spectrum of paralytic shellfish poison producing algae.

Development of photosynthetic carbon fixation model using multi-excitation wavelength fast repetition rate fluorometry in Lake Biwa

Direct measurements of gross primary productivity (GPP) in the water column are essential, but can be spatially and temporally restrictive. Fast repetition rate fluorometry (FRRf) is a bio-optical technique based on chlorophyll a (Chl-a) fluorescence that can estimate the electron transport rate (ETR_PSII) at photosystem II (PSII) of phytoplankton in real time. However, the derivation of phytoplankton GPP in carbon units from ETR_PSII remains challenging because the electron requirement for carbon fixation (Ф_e,C), which is mechanistically 4 mol e⁻ mol C⁻¹ or above, can vary depending on multiple factors. In addition, FRRf studies are limited in freshwater lakes where phosphorus limitation and cyanobacterial blooms are common. The goal of the present study is to construct a robust Ф_e,C model for freshwater ecosystems using simultaneous measurements of ETR_PSII by FRRf with multi-excitation wavelengths coupled with a traditional carbon fixation rate by the ¹³C method. The study was conducted in oligotrophic and mesotrophic parts of Lake Biwa from July 2018 to May 2019. The combination of excitation light at 444, 512 and 633 nm correctly estimated ETR_PSII of cyanobacteria. The apparent range of Ф_e,C in the phytoplankton community was 1.1–31.0 mol e⁻ mol C⁻¹ during the study period. A generalised linear model showed that the best fit including 12 physicochemical and biological factors explained 67% of the variance in Ф_e,C. Among all factors, water temperature was the most significant, while photosynthetically active radiation intensity was not. This study quantifies the in situ FRRf method in a freshwater ecosystem, discusses core issues in the methodology to calculate Ф_e,C, and assesses the applicability of the method for lake GPP prediction.

Taxonomic Variability in the Electron Requirement for Carbon Fixation Across Marine Phytoplankton

Fast Repetition Rate fluorometry (FRRf) has been increasingly used to measure marine primary productivity by oceanographers to understand how carbon (C) uptake patterns vary over space and time in the global ocean. As FRRf measures electron transport rates through photosystem II (ETR_PSII ), a critical, but difficult to predict conversion factor termed the "electron requirement for carbon fixation" (Φ_e,C ) is needed to scale ETR_PSII to C-fixation rates. Recent studies have generally focused on understanding environmental regulation of Φ_e,C , while taxonomic control has been explored by only a handful of laboratory studies encompassing a limited diversity of phytoplankton species. We therefore assessed Φ_e,C for a wide range of marine phytoplankton (n = 17 strains) spanning multiple taxonomic and size classes. Data mined from previous studies were further considered to determine whether Φ_e,C variability could be explained by taxonomy versus other phenotypic traits influencing growth and physiological performance (e.g., cell size). We found that Φ_e,C exhibited considerable variability (~4-10 mol e^-  · [mol C]^-1 ) and was negatively correlated with growth rate (R²  = 0.7, P < 0.01). Diatoms exhibited a lower Φ_e,C compared to chlorophytes during steady-state, nutrient-replete growth. Inclusion of meta-analysis data did not find significant relationships between Φ_e,C and class, or growth rate, although confounding factors inherent to methodological inconsistencies between studies likely contributed to this. Knowledge of empirical relationships between Φ_e,C and growth rate coupled with recent improvements in quantifying phytoplankton growth rates in situ, facilitate up-scaling of FRRf campaigns to routinely derive Φ_e,C needed to assess ocean C-cycling.

Physiological and Ecological Responses of Photosynthetic Processes to Oceanic Properties and Phytoplankton Communities in the Oligotrophic Western Pacific Ocean

Understanding the dynamics of primary productivity in a rapidly changing marine environment requires mechanistic insight into the photosynthetic processes (light absorption characteristics and electron transport) in response to the variability of environmental conditions and algal species. Here, we examined the photosynthetic performance and related physiological and ecological responses to oceanic properties [temperature, salinity, light, size-fractionated chlorophyll a (Chl a) and nutrients] and phytoplankton communities in the oligotrophic Western Pacific Ocean (WPO). Our results revealed high variability in the maximum (F_v/F_m; 0.08–0.26) and effective (F_q′/F_m′; 0.02–0.22) photochemical efficiency, the efficiency of charge separation (F_q′/F_v′; 0.19–1.06), the photosynthetic electron transfer rates (ETR_RCII; 0.02–5.89 mol e^– mol RCII^–1 s^–1) and the maximum of primary production [PP_max; 0.04–8.59 mg C (mg chl a)^–1 h^–1]. All these photosynthetic characteristics showed a depth-specific dependency based on respective nonlinear regression models. On physiological scales, variability in light absorption parameters F_v/F_m and F_q′/F_m′ notably correlated with light availability and size-fractionated Chl a, while both ETR_RCII and PP_max were correlated to temperature, light, and ambient nutrient concentration. Since the presence of nonphotochemical quenching (NPQ_NSV; 2.33–12.31) and increasing reductant are used for functions other than carbon fixation, we observed nonparallel changes in the ETR_RCII and F_v/F_m, F_q′/F_m′, F_q′/F_v′. In addition, we found that the important biotic variables influencing F_v/F_m were diatoms (cells > 2 μm), picosized Prochlorococcus, and eukaryotes, but the PP_max was closely related to large cyanobacteria (cells > 2 μm), dinoflagellates, and picosized Synechococcus. The implication is that, on ecological scales, an interaction among temperature, light, and nutrient availability may be key in driving the dynamics of primary productivity in the WPO, while large cyanobacteria, dinoflagellates, and picosized Synechococcus may have a high contribution to the primary production. Overall, the photosynthetic processes are interactively affected by complex abiotic and biotic variables in marine ecosystems, rather than by a single variable.

Quantitative Proteomic Analysis Reveals Novel Insights into Intracellular Silicate Stress-Responsive Mechanisms in the Diatom Skeletonema dohrnii

Diatoms are a successful group of marine phytoplankton that often thrives under adverse environmental stress conditions. Members of the Skeletonema genus are ecologically important which may subsist during silicate stress and form a dense bloom following higher silicate concentration. However, our understanding of diatoms' underlying molecular mechanism involved in these intracellular silicate stress-responses are limited. Here an iTRAQ-based proteomic method was coupled with multiple physiological techniques to explore distinct cellular responses associated with oxidative stress in the diatom Skeletonema dohrnii to the silicate limitation. In total, 1768 proteins were detected; 594 proteins were identified as differentially expressed (greater than a two-fold change; p < 0.05). In Si-limited cells, downregulated proteins were mainly related to photosynthesis metabolism, light-harvesting complex, and oxidative phosphorylation, corresponding to inducing oxidative stress, and ROS accumulation. None of these responses were identified in Si-limited cells; in comparing with other literature, Si-stress cells showed that ATP-limited diatoms are unable to rely on photosynthesis, which will break down and reshuffle carbon metabolism to compensate for photosynthetic carbon fixation losses. Our findings have a good correlation with earlier reports and provides a new molecular level insight into the systematic intracellular responses employed by diatoms in response to silicate stress in the marine environment.