C. Leboulanger, H. Agogué, C. Bernard, M. Bouvy, C. Carré et al., Microbial diversity and cyanobacterial production in Dziani Dzaha crater lake, a unique tropical thalassohaline environment, PLoS One, vol.12, pp.1-28, 2017.
URL : https://hal.archives-ouvertes.fr/hal-01465841

P. Cadeau, Caractérisation des cycles géochimiques dans un analogue potentiel des océans à 2.2 Ga : le lac DzianiDzaha, 2017.

S. Fazi, A. Butturini, F. Tassi, S. Amalfitano, S. Venturi et al., Biogeochemistry and biodiversity in a network of saline-alkaline lakes: implications of ecohydrological connectivity in the Kenyan Rift Valley, Ecohydrol. Hydrobiol, vol.18, pp.96-106, 2018.

R. Wood and . &amp,

J. Talling, Chemical and algal relationships in a salinity-series of Ethiopian inland waters, In: Chem. algal relationships a Salin. Ethiop. Inl. waters, vol.15, pp.29-67, 1988.

E. Kebede and K. Willén, Phytoplankton in a salinity-alkalinity series of lakes in the Ethiopian Rift Valley Algol Stud, vol.89, pp.63-96, 1998.

R. Abate, D. Kifle, B. Lemma, and Y. Gao, Phytoplankton community and physico-chemical seasonality and changes in Lake Hora-Kilole, Ethiopia, a tropical crater lake, African J Aquat Sci, vol.39, pp.97-108, 2014.

B. Lemma, LIMNOLOGICA ecological changes in two Ethiopian lakes caused by contrasting human intervention, 2003.

J. M. Melack, Photosynthesis and growth of Spirulina platensis (Cyanophyta) in an equatorial lake, Lake Simbi, Kenya)1. Limnol. Oceanogr, vol.24, pp.753-760, 1979.

B. J. Finlay, C. R. Curds, S. S. Bamforth, and J. M. Bafort, Ciliated protozoa and other microorganisms from two African Soda Lakes (Lake Nakuru and Lake Simbi, Kenya), Arch. Protistenkd, vol.133, pp.80041-80047, 1987.

S. G. Njuguna, Nutrient-phytoplankton relationships in a tropical meromictic soda lake. Saline Lakes, pp.15-28, 1988.

A. Ballot, L. Krienitz, K. Kotut, C. Wiegand, and S. Pflugmacher, Cyanobacteria and cyanobacterial toxins in the alkaline crater lakes Sonachi and Simbi, Kenya. Harmful Algae, vol.4, pp.139-150, 2005.

W. Luo, H. Li, K. Kotut, and L. Krienitz, Molecular diversity of plankton in a tropical crater lake switching from hyposaline to subsaline conditions: lake Oloidien, Hydrobiologia, vol.788, pp.205-229, 2017.

B. Rumes, H. Eggermont, and D. Verschuren, Distribution and faunal richness of Cladocera in western Uganda crater lakes, Hydrobiologia, vol.676, pp.39-56, 2011.

L. Krienitz, C. Bock, K. Kotut, and W. Luo, Picocystis salinarum (Chlorophyta) in saline lakes and hot springs of East Africa, Phycologia, vol.51, pp.22-32, 2012.

M. Nkambo, F. W. Bugenyi, and J. Naluwayiro, Planktonic and fisheries biodiversity of alkaline saline crater lakes of Western Uganda, 2015.

P. J. Oberholster, A. Botha, and P. J. Ashton, Appearance of new taxa: invertebrates, phytoplankton and bacteria in an alkaline, saline, meteorite crater lake, South Africa, Fundam Appl Limnol / Arch für Hydrobiol, vol.174, pp.271-282, 2009.

E. Mathelin, Les lacs insulaires du sud-ouest de l'océan indien, un enjeu pour la gestion durable de la ressource en eau, 2013.

M. Cellamare, C. Duval, Y. Drelin, C. Djediat, N. Touibi et al., Characterization of phototrophic microorganisms and description of new cyanobacteria isolated from the saline-alkaline crater-lake Dziani Dzaha, FEMS Microbiol. Ecol, vol.94, 2018.
URL : https://hal.archives-ouvertes.fr/hal-01903434

A. Eiler, S. Drakare, S. Bertilsson, J. Pernthaler, S. Peura et al., Unveiling distribution patterns of freshwater phytoplankton by a next generation sequencing based approach, PLoS One, vol.8, pp.1-10, 2013.

X. Xiao, H. Sogge, K. Lagesen, A. Tooming-klunderud, K. S. Jakobsen et al., Use of high throughput sequencing and light microscopy show contrasting results in a study of phytoplankton occurrence in a freshwater environment, PLoS One, vol.9, 2014.

Z. I. Johnson and A. C. Martiny, Techniques for quantifying phytoplankton biodiversity, Annu. Rev. Mar. Sci, vol.7, pp.299-324, 2015.

A. Lanzén, A. Simachew, A. Gessesse, D. Chmolowska, I. Jonassen et al., Surprising prokaryotic and eukaryotic diversity, community structure and biogeography of Ethiopian Soda Lakes, PLoS One, vol.8, 2013.

W. Luo, K. Kotut, and L. Krienitz, Hidden diversity of eukaryotic plankton in the soda lake Nakuru, Kenya, during a phase of low salinity revealed by a SSU rRNA gene clone library, Hydrobiologia, vol.702, pp.95-103, 2013.

T. F. Thingstad and R. Lignell, Theoretical models for the control of bacterial growth rate, abundance, diversity and carbon demand, Aquat. Microb. Ecol, vol.13, pp.19-27, 1997.

D. Tilman, S. S. Kilham, and P. Kilham, Phytoplankton community ecology: the role of limiting nutrients, Annu. Rev. Ecol. Syst, vol.13, pp.349-372, 1982.

E. Gérard, S. De-goeyse, and M. Hugoni, Key role of Alphaproteobacteria and Cyanobacteria in the formation of stromatolites of Lake Dziani Dzaha, Front. Microbiol, vol.9, 2018.

G. Gran, H. Dahlenborg, S. Laurell, and M. Rottenberg, Determination of the equivalent point in potentiometric titrations, 1950.

, Acta Chem. Scand, vol.4, pp.4-0559

R. J. Ritchie, Consistent sets of spectrophotometric chlorophyll equations for acetone, methanol and ethanol solvents, Photosyn Res, vol.89, pp.27-41, 2006.

M. Bouvy, P. Got, I. Domaizon, M. Pagano, C. Leboulanger et al., Plankton communities in the five Iles Eparses (Western Indian Ocean) considered to be pristine ecosystems, Acta Oecol, vol.72, pp.9-20, 2016.

A. Catherine, M. Selma, D. Mouillot, M. Troussellier, and C. Bernard, Patterns and multi-scale drivers of phytoplankton species richness in temperate peri-urban lakes, Sci. Total Environ, vol.559, pp.74-83, 2016.
URL : https://hal.archives-ouvertes.fr/hal-01923947

R. Rippka, Isolation and purification of cyanobacteria, Meth Enzym, vol.167, pp.3-27, 1988.

A. Catherine, S. Maloufi, R. Congestri, E. Viaggiu, and R. Pilkaityte, Cyanobacterial samples: preservation, enumeration, and biovolume measurements, Handbook of cyanobacterial monitoring and cyanotoxin analysis, pp.333-334, 2017.

C. Yéprémian, C. A. Congestri, R. Bernard, C. Elersek, T. Pilkaityte et al., Chlorophyll a extraction and determination, Handbook of cyanobacterial monitoring and cyanotoxin analysis, pp.315-330, 2017.

J. Ras, H. Claustre, and J. Uitz, Spatial variability of phytoplankton pigment distributions in the subtropical South Pacific Ocean: comparison between in situ and predicted data, Biogeosci. Discuss, vol.4, pp.3409-3451, 2007.
URL : https://hal.archives-ouvertes.fr/hal-00330270

J. Sun and D. Liu, Geometric models for calculating cell biovolume and surface area for phytoplankton, J. Plankton Res, vol.25, pp.1331-1346, 2003.
URL : https://hal.archives-ouvertes.fr/hal-01663379

T. Schuurman, R. F. De-boer, A. Kooistra-smid, and A. A. Van-zwet, Prospective study of use of PCR amplification and sequencing of 16S ribosomal DNA from cerebrospinal fluid for diagnosis of bacterial meningitis in a clinical setting, J. Clin. Microbiol, vol.42, pp.734-740, 2004.

W. Walters, E. R. Hyde, D. Berg-lyons, G. Ackermann, G. Humphrey et al., Improved bacterial 16S rRNA gene (V4 and V4-5) and fungal internal transcribed spacer marker gene primers for microbial community surveys, vol.1, 2016.

T. Mago? and S. L. Salzberg, FLASH: fast length adjustment of short reads to improve genome assemblies, Bioinformatics, vol.27, pp.2957-2963, 2011.

F. Mahé, T. Rognes, C. Quince, C. De-vargas, and M. Dunthorn, Swarm: robust and fast clustering method for amplicon-based studies, PeerJ, vol.2, p.593, 2014.

T. Rognes, T. Flouri, B. Nichols, C. Quince, and F. Mahé, VSEARCH: a versatile open source tool for metagenomics, PeerJ, vol.4, p.2584, 2016.

N. A. Bokulich, S. Subramanian, J. J. Faith, D. Gevers, J. I. Gordon et al., Quality-filtering vastly improves diversity estimates from Illumina amplicon sequencing, Nat. Methods, vol.10, pp.57-59, 2013.

Q. Wang, G. M. Garrity, J. M. Tiedje, and J. R. Cole, Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy, Appl. Environ. Microbiol, vol.73, pp.5261-5267, 2007.

C. Camacho, G. Coulouris, V. Avagyan, N. Ma, J. Papadopoulos et al., BLAST+: architecture and applications, BMC Bioinformatics, vol.10, p.421, 2009.

E. Pruesse, C. Quast, K. Knittel, B. M. Fuchs, W. Ludwig et al., SILVA: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB, Nucleic Acids Res, vol.35, pp.7188-7196, 2007.

F. Escudié, L. Auer, M. Bernard, M. Mariadassou, L. Cauquil et al., FROGS: find, rapidly, OTUs with galaxy solution, Bioinformatics, vol.34, pp.1287-1294, 2017.

J. Decelle, S. Romac, R. F. Stern, E. M. Bendif, A. Zingone et al., PhytoREF: a reference database of the plastidial 16S rRNA gene of photosynthetic eukaryotes with curated taxonomy, Mol. Ecol. Resour, vol.15, pp.1435-1445, 2015.
URL : https://hal.archives-ouvertes.fr/hal-01149047

P. C. Kirchberger, K. M. Sefc, C. Sturmbauer, and S. Koblmüller, Outgroup effects on root position and tree topology in the AFLP phylogeny of a rapidly radiating lineage of cichlid fish, Mol. Phylogenet. Evol, vol.70, pp.57-62, 2014.

M. Tenenhaus, La régression PLS: théorie et pratique. Editions TECHNIP, 1998.

S. Wold, A. Ruhe, H. Wold, and W. I. Dunn, The collinearity problem in linear regression. The partial least squares (PLS) approach to generalized inverses, SIAM J. Sci. Stat. Comput, vol.5, pp.735-743, 1984.

L. Guillou, W. Eikrem, M. Chrétiennot-dinet, L. Gall, and F. , Diversity of picoplanktonic prasinophytes assessed by direct nuclear SSU rDNA, Protist, vol.155, pp.193-214, 2004.

M. Schagerl and S. O. Oduor, On the limnology of Lake Baringo (Kenya): II. Pelagic primary production and algal composition of Lake Baringo, Hydrobiologia, vol.506, pp.297-303, 2003.

M. Schagerl and S. O. Oduor, Phytoplankton community relationship to environmental variables in three Kenyan Rift Valley salinealkaline lakes, Mar. Freshw. Res, vol.59, pp.125-136, 2008.

M. Schagerl, A. Burian, M. Gruber-dorninger, S. O. Oduor, and M. N. Kaggwa, Algal communities of kenyan soda lakes with a special focus on Arthrospira Fusiformis, Fottea, vol.15, pp.245-257, 2015.

P. K. Dadheech, G. Glöckner, P. Casper, K. Kotut, C. J. Mazzoni et al., Cyanobacterial diversity in the hot spring, pelagic and benthic habitats of a tropical soda lake, FEMS Microbiol. Ecol, vol.85, pp.389-401, 2013.

T. Ogato and D. Kifle, Phytoplankton composition and biomass in tropical soda Lake Shala: seasonal changes in response to environmental drivers, 2017.

L. Krienitz, P. K. Dadheech, and K. Kotut, Mass developments of the cyanobacteria Anabaenopsis and Cyanospira (Nostocales) in the soda lakes of Kenya: ecological and systematic implications, Hydrobiologia, vol.703, pp.79-93, 2013.

D. Y. Sorokin, T. Berben, E. D. Melton, L. Overmars, C. D. Vavourakis et al., Microbial diversity and biogeochemical cycling in soda lakes, Extremophiles, vol.18, pp.791-809, 2014.

A. K. Kambura, Metagenomic and metatranscriptomic analysis of bacterial, archaeal and fungal communities within the hot springs of lakes, 2016.

M. Hugoni, A. Escalas, and C. Bernard, Spatiotemporal variations in microbial diversity across the three domains of life in a tropical thalassohaline lake, pp.1-12, 2018.
URL : https://hal.archives-ouvertes.fr/hal-01961707

A. Sournia, A checklist of planktonic diatoms and dinoflagellates from the Mozambique channel, Bull. Mar. Sci, vol.20, pp.678-695, 1968.

J. Padisák, G. Vasas, and G. Borics, Phycogeography of freshwater phytoplankton: traditional knowledge and new molecular tools, Hydrobiologia, vol.764, pp.3-27, 2016.

M. Schagerl and A. Burian, The ecology of African Soda Lakes: driven by variable and extreme conditions, 2016.

M. Pan?i? and T. Kiørboe, Phytoplankton defence mechanisms: traits and trade-offs, Biol. Rev, vol.93, pp.1269-1303, 2018.

M. A. Leibold, S. R. Hall, V. H. Smith, and D. A. Lytle, Herbivory enhances the diversity of primary producers in pond ecosystems, Ecology, vol.98, pp.48-56, 2017.

V. S. Brauer, M. Stomp, and J. Huisman, The nutrient-load hypothesis: patterns of resource limitation and community structure driven by competition for nutrients and light, vol.179, pp.721-740, 2012.

D. Tilman, Resource competition between plankton algae: an experimental and theoretical approach, Ecology, vol.58, pp.338-348, 1977.

T. F. Thingstad, Elements of a theory for the mechanisms controlling abundance, diversity, and biogeochemical role of lytic bacterial viruses in aquatic systems, Limnol. Oceanogr, vol.45, pp.1320-1328, 2000.

A. Burson, M. Stomp, E. Greenwell, J. Grosse, and J. Huisman, Competition for nutrients and light: testing advances in resource competition with a natural phytoplankton community, Ecology, vol.0, p.99, 2018.

G. E. Likens, Biogeochemistry of inland waters: a derivative of encyclopedia of inland waters, 2009.

. Naselli-flores, L Fight on plankton! Or, phytoplankton shape and size as adaptive tools to get ahead in the struggle for life, Cryptogam Algol

J. A. Chindia and C. C. Figueredo, Phytoplankton settling depends on cell morphological traits, but what is the best predictor ?, Hydrobiologia, vol.813, pp.51-61, 2018.

C. Kruk, A. Martínez, and L. Nogueira, Morphological traits variability reflects light limitation of phytoplankton production in a highly productive subtropical estuary (Río de la Plata, South America, 2014.

C. S. Roesler, C. W. Culbertson, S. M. Etheridge, R. Goericke, R. P. Kiene et al., Distribution, production, and ecophysiology of Picocystis strain ML in Mono Lake, California. Limnol. Oceanogr, vol.47, pp.440-452, 2002.

C. Bernard,

L. L. Richardson and R. W. Castenholz, Enhanced survival of the cyanobacterium Oscillatoria terebriformis in darkness under anaerobic conditions, Appl. Environ. Microbiol, vol.53, pp.2151-2158, 1987.

A. S. Schwaderer, K. Yoshiyama, D. Pinto, and P. , Eco-evolutionary differences in light utilization traits and distributions of freshwater phytoplankton, Limnol. Oceanogr, vol.56, pp.589-598, 2011.

Y. Cohen, B. B. Jorgensen, N. P. Revsbech, and R. Poplawski, Adaptation to hydrogen sulfide of oxygenic and anoxygenic photosynthesis among cyanobacteria, Appl. Environ. Microbiol, vol.51, pp.398-407, 1986.

S. R. Miller and B. M. Bebout, Variation in sulfide tolerance of photosystem II in phylogenetically diverse cyanobacteria from sulfidic habitats, Appl. Environ. Microbiol, vol.70, pp.736-744, 2004.

R. W. Castenholz and H. C. Utkilen, Physiology of sulfide tolerance in a thermophilic Oscillatoria, Arch. Microbiol, vol.138, pp.299-305, 1984.

L. J. Stal and R. Moezelaar, Acclimation and toxicity of high ammonium concentrations to unicellular algae, FEMS Microbiol. Rev, vol.21, pp.8-23, 1997.

G. Markou, O. Depraetere, and K. Muylaert, Effect of ammonia on the photosynthetic activity of Arthrospira and chlorella: a study on chlorophyll fluorescence and electron transport, 2016.

, Algal Res, vol.16, pp.449-457

E. Kebede, Response of Spirulina platensis (Arthrospira fusiformis) from Lake Chitu, Ethiopia, to salinity stress from sodium salts, J. Appl. Phycol, vol.9, pp.551-558, 1997.

H. M. Sosik, R. J. Olson, and E. V. Armbrust, Flow cytometry in phytoplankton research, Chlorophyll a Fluorescence in aquatic sciences: methods and applications, 2010.

F. Azam, T. Fenchel, J. Field, J. S. Gray, L. A. Meyer-reil et al., The ecological role of water column microbes in the sea, Mar. Ecol. Prog. Ser, vol.10, pp.257-263, 1983.

A. R. Longhurst, G. Harrison, and W. , The biological pump: profiles of plankton production and consumption in the upper ocean, Prog. Oceanogr, vol.22, issue.89, pp.90010-90014, 1989.

, Very Low Phytoplankton Diversity in a Tropical Saline-Alkaline Lake, with Co-dominance of

. Planktonic,

. Biovolume, Cylindrical cell (this study): 235 Spherical cell, p.10

. Surface, Spherical cells: 2.2 Sinking properties Regulated by the numerous aerotopes and buoyancy

, Low intrinsic sinking rate due to the small size [70] Biomass Highly productive primary producer

, Grazers Lesser Flamingos, fish (Alcolapia graham Boulenger, rotifers (Brachionus dimidiatus Bryce), B. plicatilis Müller, Hexarthra jenkinae De Beauchamps), copepods (Lovenula africana Daday), insects (chironomids), vol.86

, Crustacean: Lovenula africana Daday, Rotifers: Brachionus dimidiatus Bryce and B. plicatilis Müller, vol.73

. Amoebae,

, Laboratory

, Osmoprotectants Accumulation of low MW carbohydrates: glucosyl-glycerol, trehalose

. Majors, Chlorophyll-a (431, 617, 666 nm), phycocyanin (550-650) Minors: carotenoids b-carotene

, Chlorophyll b (461, 599, 648 nm), b-carotene (454, 479 nm), diatoxanthin (451, 479 nm), monadoxanthin (448, 475 nm) Minors: neoxanthin, violaxanthin, antheraxanthin, lutein, zeaxanthin, vol.617

L. Krienitz and M. Schagerl, Tiny and tough: microphytes of East African Soda Lakes, 2016.

R. A. Lewini, L. Krienltz, and R. G. Oerickei, , vol.39, pp.560-565, 2000.

E. Vareschi and A. Vareschi, The ecology of Lake Nakuru (Kenya), Oecologia, vol.61, pp.70-82, 1984.

P. Peduzzi, M. Gruber, M. Gruber, and M. Schagerl, The virus's tooth: cyanophages affect an African flamingo population in a bottom-up cascade, ISME J, vol.8, pp.1346-1351, 2014.

N. Dadheech, Desiccation tolerance in cyanobacteria, African J Microbiol Res, vol.4, pp.1584-1593, 2010.

R. Arruda, A. Brito, R. Da-silva, and I. Moraes, Fermentação De Spirulina Platensis Sob Condições Naturais De Temperatura E Insolação, Rev Saúde, vol.3, pp.16-19, 2009.

L. H. Pelizer and I. Moraes, Development of solid state cultivation process for Spirulina platensis production, New Biotechnol, vol.25, pp.223-224, 2009.

M. A. Furmaniak, A. E. Misztak, M. D. Franczuk, A. Wilmotte, M. Waleron et al., Edible cyanobacterial genus Arthrospira: actual state of the art in cultivation methods, genetics, and application in medicine, Front. Microbiol, vol.8, pp.1-21, 2017.

A. Vonshak and L. Tomaselli, Arthrospira (spirulina): systematics and ecophysioIogy. The ecology of cyanobacteria, pp.505-522, 2000.

S. Wang, W. Lambert, S. Giang, R. Goericke, and B. Palenik, Microalgal assemblages in a poikilohaline pond, J. Phycol, vol.50, pp.303-309, 2014.

S. Belkin and S. Boussiba, Resistance of Spirulina platensis to ammonia at high pH values, Plant Cell Physiol, vol.32, pp.953-958, 1991.

W. H. Schlesinger, J. A. Raikes, A. E. Hartley, and A. F. Cross, On the spatial pattern of soil nutrients in desert ecosystems, Ecology, vol.77, pp.364-374, 1996.

A. Vonshak, Spirulina platensis (Arthrospira): physiology, cell-biology, and biotechnology, 1997.

A. Lopes-dos-santos, T. Pollina, and P. Gourvil, Chloropicophyceae, a new class of picophytoplanktonic prasinophytes, Sci. Rep, vol.7, pp.1-20, 2017.
URL : https://hal.archives-ouvertes.fr/hal-01634064

A. Belay, The potential application of Spirulina (Arthrospira) as a nutritional and therapeutic supplement in health management Fig, 2002.

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