O conhecimento da estrutura da comunidade fitoplanctônica depende de estimativas robustas de biomassa e de como variam suas taxas de absorção de luz. Assim, é essencial descrever a relação entre grupos taxonômicos e seus morfotipos. Este trabalho investigou a influência da forma do fitoplâncton, por meio de sua razão S/V no coeficiente de absorção de luz. Comunidades fitoplanctônica de plataforma continental foram detalhadas taxonomicamente e categorizada como morfotipos para o cálculo de biomassa fitoplanctônica, razão S/V e tamanho médio, e relações com o coeficiente de absorção de luz foram exploradas. A razão Carbono:Clorofila-a variou entre a superfície e máximo de fluorescência, enquanto a biomassa permaneceu constante, sendo diatomáceas e dinoflagelados os principais grupos formadores de biomassa. Observamos morfotipos exclusivos a um dado grupo taxonômico, contudo, os intervalos de S/V são compartilhados entre grupos taxonômicos e entre morfotipos. A conversão entre biovolume e biomassa deve incorporar informações taxonômicas. A S/V média da comunidade não mostrou relação com a magnitude da absorção de luz pelo fitoplâncton. Os resultados puderam comprovar a baixa performance de modelos para a determinação de tamanho do fitoplâncton por pigmentos e sugerem que a fotoaclimatação deve ser incorporada para a discriminação bio-ótica do fitoplâncton marinho / Acurate descriptions of phytoplankton community structures depends on reliable estimation of biomass and on the understanding of light absorption. It is crucial to trace relationships between taxonomic groups and geometrical morphotypes. We investigated the influence of phytoplankton shapes in the light absorption coefficient by investigating surface/volume (S/V) ratios. Phytoplankton communities from the continental shelf were detailed taxonomicaly and also categorized in geometrical morphotypes in order to calculate phytoplankton biomass, S/V ratios and size to explore relatioships with spectral light absorption coefficients. The Carbon-to-Chlorophyll ratio varied between surface and the chlorophyll maximum deph while biomass remain fairly constant, and both diatoms and dinoflagellates were the main groups present in high biomass. Exclusive morfotypes were observed for some taxonomic groups, however, S/V ratios ranges were shared by distinct taxonomic groups and morphotypes. The conversion between biovolume and biomass must take taxonomic composition into account. The mean S/V for a community show no relatioship with the magnitude of ligth absorption. The results show a low performance of pigment-based models for description of fitoplankton size classes and highlight the importance of incorporating photooaclimation for bio-optical discrimination of marine phytoplankton communities

With a volcanic origin, Lake Kivu is deep and meromictic, and shows a very particular limnology and some astonishing features. The data available on its limnology and phytoplanktic communities are limited, dispersed or outdated. This is the first deep, long term study (2002-2004) on limnology and phytoplankton ecology of Lake Kivu, combining different techniques: HPLC analysis of marker pigments, flow cytometry, light, epifluorescence and electron microscopy. Lake Kivu combines a relatively shallow euphotic layer (~18m) usually smaller than its mixed layer (20 – 60 m), and with a weak thermal gradient in the mixolimnion. With an annual average chlorophyll a in the mixed layer of 2.2 mg m-3 and low nutrient levels in the euphotic zone, the lake is clearly oligotrophic. Concerning its phytoplanktonic composition, the most common species were the pennate diatoms Nitzschia bacata Hust. and Fragilaria danica (Kütz.) Lange Bert., and the cyanobacteria Planktolyngbya limnetica (Lemm.) Komárková-Legnerová and Cronberg and Synechococcus sp. Diatoms were the dominant group in the lake, particularly during the dry season episodes of deep mixing. During the rainy season, the stratified water column, with high light and lower nutrient availability, favoured dominance of cyanobacteria. Phycoerythrin-rich phototrophic picoplankton and heterotrophic bacteria cell numbers were constantly high, with relatively subtle spatial, seasonal and vertical variations. In open lake waters, where allochthonous carbon inputs are most probably inconsequential, HNA heterotrophic bacteria abundance is strongly correlated with chlorophyll a. Recent investigations revealed an increasing methane production in the deep waters during the past three decades, leading to an accumulation of gas and the subsequent lowering of the energy required to trigger a devastating release of gasses. The role of primary producers and the probable changes on the export ratio of the organic matter into deep waters after the introduction of the planktivorous sardine from Lake Tanganyika Limnothrissa miodon, is discussed. The actual primary production, 0.71 g C m-2 d-1 (~ 260 g C m-2 y-1), doesn’t seem substantially different from some punctual measurements made in the past, which discards the hypothesis of anthropogenic eutrophication. We believe that the export ratio of organic matter into the deep waters was largely affected by biological changes that could explain part of the methane increase in the past 30 years in Lake Kivu.

Simultaneous size fractionation of plankton populations associated with NaH^14CO_3 and ^3H-glucose uptake was employed in eutrophic Lake Texoma (Texas and Oklahoma) and oligotrophic Flathead Lake (Montana). Autoradiography was utilized to determine the role of specific microorganisms in community metabolism. Ultraplankton (0.45-10 μm) dominated plankton numbers and metabolic activity in both aquatic systems. Many of the most abundant species were not the most productive, in terms of inorganic C fixation. Rates of heterotrophic uptake of ^3H-glucose were small in comparison to photolithotrophic uptake in both lakes, Photoheterotrophy was more extensive in Flathead Lake, Autoradiographs indicated that bacteria were responsible for observed photoheterotrophy. Oscillatoria sp. exhibited. mixotrophy in Lake Texoma,

Canonical correspondence analysis (CCA) was used to explore relationships between measured environmental variables and in situ phytoplankton communities in a moderately eutrophic North Texas Reservoir.

Indiana University-Purdue University Indianapolis (IUPUI) / Phytoplankton size classes (pico-plankton, nano-plankton, and micro-plankton) provide information about pelagic ocean ecosystem structure, and their spatiotemporal variation is crucial in understanding ocean ecosystem structure and global carbon cycling. Remote sensing provides an efficient approach to estimate phytoplankton size compositions on global scale. In the first part of this thesis, a global sensitivity analysis method was used to determine factors mainly controlling the variations of remote sensing reflectance and inherent optical properties inverse algorithms. To achieve these purposes, average mass-specific coefficients of particles were first calculated through Mie theory, using particle size distributions and refractive indices as input; and then a synthesis remote sensing reflectance dataset was created using Hydrolight. Based on sensitivity analysis results, an algorithm for estimating phytoplankton size composition was proposed in the second part. This algorithm uses five types of spectral features: original and normalized remote sensing reflectance, two-band ratios, continuum removed spectra, and spectral curvatures. With the spectral features, phytoplankton size compositions were regressed using support vector machine. According to validation results, this algorithm performs well with simulated and satellite Sea-viewing Wide Field-of-view Sensor (SeaWiFS) and Moderate Resolution Imaging Spectroradiometer (MODIS), indicating that it is possible to estimate phytoplankton size compositions through satellite data on global scale.

Phytoplankton samples were collected in 2016 during the dry and rainy seasons at nine sampling sites in Vinh Long province, Vietnam. Some basic environment parameters such as temperature, pH, dissolved oxygen, nitrate and phosphate were measured and a total of 209 phytoplankton species (six phyla, 96 genera) were identified. The phylum that had the greatest number of species was Bacillariophyta (82 species), followed by Chlorophyta (61 species), Cyanophyta (39 species), Euglenophyta (21 species), Chrysophyta (three species) and Dinophyta (three3 species). The phytoplankton density ranged from 4,128 to 123,029 cells/liter. The dominant algae recorded in the study area include Microcystis aeruginosa, Merismopedia glauca, Oscillatoria perornata, Jaaginema sp., Planktothrix agardhii, Coscinodiscus subtilis, Melosira granulata. In particular, Microcystis aeruginosa was the most density dominant species in the total number of sampling sites during the dry season survey, and this species was classified as a group producing toxins harmful to the environment. Surface water quality, according to QCVN 08: 2015/BTNMT was classified into Column A1 for pH, nitrate and Column B1 for dissolved oxygen, and Column B2 for phosphate. Phytoplankton community structure and environmental factors changed substantially between dry and rainy seasons. A Pearson (r) correlation coefficient was used for the relative analysis. The results indicated that the number of phytoplankton species were a significantly positive correlation with pH, dissolved oxygen and nitrate in the rainy season. The phytoplankton abundance was uncorrelated with environmental factors in both seasons. / Các mẫu thực vật phù du được thu thập trong năm 2016 (mùa khô và mùa mưa) tại 9 vị trí ở tỉnh Vĩnh Long, Việt Nam. Một số thông số môi trường như nhiệt độ, pH, oxy hòa tan, nitrat và phốt phát được đo ngay tại hiện trường. Tổng cộng 209 loài thực vật phù du được ghi nhận (6 ngành, 96 chi). Số lượng loài cao nhất là tảo Silic (82 loài), kế đến là tảo Lục (61 loài), tảo Lam (39 loài), tảo Mắt (21 loài), tảo Vàng ánh (3 loài) và tảo Giáp (3 loài). Mật độ thực vật phù du dao động từ 4.128 đến 123.029 tế bào/ lít. Các loài ưu thế ghi nhận được ở khu vực nghiên cứu gồm có: Microcystis aeruginosa, Merismopedia glauca, Oscillatoria perornata, Jaaginema sp., Planktothrix agardhii; Coscinodiscus subtilis, Melosira granulata. Trong đó, loài Microcystis aeruginosa chiếm ưu thế nhiều nhất trên tổng số điểm thu mẫu trong đợt khảo sát mùa khô, đồng thời loài này được xếp vào nhóm sản sinh độc tố gây hại cho môi trường. Chất lượng nước mặt theo QCVN 08:2015/BTNMT được xếp vào loại A1 đối với thông số pH, nitrat và loại B1 đối với thông số oxy hòa tan, và loại B2 đối với phốt phát. Cấu trúc quần xã thực vât nổi và các yếu tố môi trường thay đổi đáng kể giữa mùa mưa và mừa khô. Hệ số tương quan Pearson (r) được dùng để phân tích. Kết quả cho thấy số lượng thực vật phù du có tương quan thuận với pH, oxy hòa tan và nitrat trong mùa mưa và có ý nghĩa về mặt thống kê. Mật độ của thực vật phù du không tương quan với các yếu tố môi trường trong cả hai mùa.

Thesis (MSc)--Stellenbosch University, 2011. / ENGLISH ABSTRACT: An integro-differential equation describing the dynamical behaviour of phytoplankton cells is considered in which the effects of cell division and aggregation are incorporated by coupling the coagulation-fragmentation equation with growth, and the McKendrick-von Foerster renewal model of an age-structured population. Under appropriate conditions on the model parameters, the associated initial-boundary value problem is shown to be well posed in a physically relevant Banach space using the theory of strongly continuous semigroups of operators, the theory of perturbation of positive semigroups and the semilinear abstract Cauchy problems theory. In particular, we provide sufficient conditions for honesty of the model. Finally, the results on the effects of the growth-fragmentation-coagulation on the overall evolution of the phytoplankton population are summarised. / AFRIKAANSE OPSOMMING: ’n Integro-differensiaalvergelyking wat die dinamiese ontwikkeling van fitoplanktonselle beskryf, word beskou. Die uitwerking van seldeling en -aggregasie is geïnkorporeer deur die vergelyking van koagulasie en fragmentasie met groeiaan die McKendrick-von Foerster hernuwingsmodel van ’n ouderdomsgestruktureerde populasie te koppel. Die teorie van sterk kontinue semigroepe van operatore, steuringsteorie van positiewe semigroepe en die teorie van semilineêre abstrakte Cauchy probleme word aangewend om, onder gepaste voorwaardes met betrekking tot die model se parameters, te bewys dat die geassosieerde beginwaarde-probleem met randvoorwaardes ‘goed gestel’ is in ’n fisies relevante Banach-ruimte. In die besonder word voldoende voorwaardes vir eerlikheid van die model verskaf. Ten slotte word ’n opsomming van die resultate met betrekking tot die gekombineerde uitwerking van groei-fragmentasie- koagulasie op die gesamentlike ontwikkeling van die fitoplanktonpopulasie verskaf.

The Belgian Coastal Zone (BCZ) in the Southern Bight of the North Sea is a highly dynamic and optically complex area. This is due to high non-algal particles (NAP) and coloured dissolved organic matter (CDOM) content which in spring adds together with undesirable blooms of the haptophyte Phaeocystis globosa. There is a need for improving the algorithms for chlorophyll a (chl a) retrieval in these highly turbid waters and for developing algorithms for species detection in order to attempt to create an early warning bloom system. This information will contribute to the knowledge of the extent and magnitude of the P. globosa bloom in Belgian waters. In this study, pure cultures of the main taxa present in the BCZ, diatoms and P. globosa, were combined with field measurements of light absorption of total particles, phytoplankton and dissolved material, pigment determination and phytoplankton counts to address the main objectives. Sampling was performed during 8 cruises covering winter, spring, summer and late summer, and along nearshore-offshore gradients from 2003 to 2006. The area is characterised by a high spatio-temporal variability of IOPs due to the high dynamics of the area in terms of currents, salinity gradients and biological production. During spring the presence of P. globosa modulates the IOPs across all the area, the particle absorption is significantly higher than summer and there is no significant coast-offshore variability for phytoplankton and CDOM. The design of chl a retrieval algorithms assumes negligible absorption of NAP and CDOM in the near infrared (NIR) and the use of a fixed value of specific phytoplankton absorption. It is shown that neglecting the NAP and CDOM absorption in the NIR will have a significant overestimation impact in retrieval of chl a. On the other hand, the specific phytoplankton absorption was found to be highly variable (0.015 „b 0.011 m2 mg chl a-1). Both results will affect directly the retrieved chl a. The spatial variability of CDOM was significant varying between 0.20-1.31 m-1 in the marine area and between 1.81-4.29 m-1 in the Scheldt estuary. CDOM was found to be related to salinity with conservative mixing within the Scheldt estuary and during some seasons in the BCZ, however deviations from conservative mixing suggest other inputs to the CDOM pool. Analyses of the spectral slope of the CDOM absorption curve revealed two main CDOM pools in the area, an allochthonous one delivered by the Scheldt estuary and an autochthonous one associated with the phytoplankton spring bloom decomposition. Algorithms for CDOM retrieval will be affected if the variability in the relation between CDOM and salinity is not taken into account. The optical characterisation of diatoms and P. globosa from the BCZ in pure cultures revealed that the main differences in the phytoplankton absorption spectra were found at 467 and 500 nm corresponding to the absorption of the pigments chlorophyll c3 (chl c3) characteristic of P. globosa and fucoxanthin, respectively. Accordingly, both the absorption at 467 nm and the ratio 500/467 nm were successfully used to discriminate the two taxa in cultures and field samples. This latter indicator was not preserved in the reflectance signal due to degradation of the signal when passing from absorption to reflectance, and thus could not be used for algorithm development. The spectral feature at 467 nm was later used as the basis for the development of a flag-type algorithm to detect chl c3 using either absorption or water-leaving reflectance data. Also, the correlation between the algorithm¡¦s retrieved chl c3 and P. globosa cell number allowed the quantification of the bloom. The main findings of this thesis highlight the importance of the IOPs characterisation for the improvement and development of ocean colour retrieval algorithms in these highly complex waters.

A comprehensive investigation into the relationship between physical forcing and sus- pended particles in the shallow shelf region of the Western English Channel has been conducted, in order to evaluate the temporal dynamics of suspended particle populations. Measurements were taken across tidal cycles and seasons at station L4, part of the Western Channel Observatory (WCO), using the combination of a free-fall microstructure profiler and holographic imaging. Confirmation that L4 is weakly stratified is given, and that the formation of the seasonal thermocline is substantially altered by the spring-neap cy- cle. Stratification is variable and prone to periodic and partial erosion from atmospheric forcing during any point in any season. L4 undergoes moderate turbulent dissipation, principally as a result of tidal forcing. Typically, values of ε do not exceed 10−4 W kg−1 . L4 also exhibits tidal asymmetry, chiefly in response to stratification which, albeit weak, is frequently able to suppress turbulence when generated from the sea bed. The potential energy anomaly is small at L4, as expected for a weakly-stratified environment. Maxi- mum values in summer were shown to not exceed 50 J m−3 . Values of bed stress, τ0 , are rarely greater than around 0.18 N m−2 . Nonetheless, the critical erosion threshold falls below this, and is therefore smaller than that observed in similar locations around the UK. Seasonality in the amount of material resuspended from the seabed is important at L4. The presence of certain biological particles strongly influence particle size and may also determine if a given particle is lifted from the bed. Particles ≥ 200 μm are relatively rare, the site is dominated by particles smaller than this value in line with many other UK sites. Under certain conditions the theoretical maximum limit of particle size, the Kolmogorov length scale, does not hold and many examples of occasions when this threshold is exceeded are shown. This may generate important consequences in subsequent work undertaken at this site and other temperate shelf locations globally, particularly as these results indicate that maximum particle size appears to be governed less by the size of the local turbulent eddies and more by the presence of biological particles. This is another key seasonal component to particle dynamics in the Western English Channel. Phytoplankton populations are readily advected into and out of the L4 site, calling into question the current sampling strategy of the WCO to rely exclusively upon point measurements. Small increases in atmospheric forcing have the ability to rapidly disperse patches of phytoplankton, possibly to the point of cell mortality. Traditional sampling techniques for assessing zooplankton density have been shown to radically underestimate the number of animals present at L4, which will increase error estimates on current ecosystem models.

Future climate scenarios in the Baltic Sea project increasing sea surface temperature, as well as increasing precipitation and river runoff resulting in decreased salinity. These changes can severely impact the dynamics and function of brackish water communities, specifically phytoplankton. Phytoplankton are a significant source of organic matter to other trophic levels, and some species can be toxic. Their response to future climate conditions is of great relevance for the health of humans and aquatic ecosystems. The aim of this thesis was to assess the potential for climate-induced changes, such as decreasing salinity, to affect phytoplankton dynamics, physiology and chemical profiles in the Baltic Sea.      Phytoplankton successional patterns in the Baltic Proper consist of a spring bloom where diatoms and dinoflagellates co-occur and a summer bloom dominated by filamentous/colonial cyanobacteria. The consensus is that future warmer conditions will promote filamentous/colonial cyanobacteria blooms. This thesis shows that phytoplankton biomass in the spring bloom was lower in years with milder winters compared with cold winters. This suggests that in terms of annual carbon export to higher trophic levels, loss of biomass from the spring bloom is unlikely to be compensated by summer cyanobacteria. High frequency sampling of phytoplankton performed in this thesis revealed a strong relationship between the dynamics of pico- and filamentous cyanobacteria. Large genetic diversity was found in cyanobacterial populations with high niche differentiation among the same species. At community level, high temperature and low salinity were the main factors shaping the summer cyanobacterial composition. These conditions may promote the predominance of opportunistic filamentous cyanobacteria, e.g. Nodularia spumigena. This species produces various bioactive compounds, including non-ribosomal peptides such as the hepatotoxin nodularin. In this work, N. spumigena subpopulations evolved different physiological strategies, including chemical profiles, to cope with salinity stress. This high phenotypic plasticity ensures survival in future climate conditions. Under salinity stress, some subpopulations displayed shorter filaments as a trade-off. This indicates that the future freshening of the Baltic Sea may promote grazing on filamentous cyanobacteria and modify carbon flows in the ecosystem. In this thesis, Baltic N. spumigena chemotypes and genotypes grouped into two main clusters without influence of geographical origin. Thus, chemical profiling can be used to explore conspecific diversity in closely genetically related N. spumigena subpopulations.      Overall, this thesis has significantly expanded the knowledge on phytoplankton community and population responses to short- and long-term environmental changes, relevant to project the impacts of future climate conditions in the Baltic Sea.