%0 Journal Article %J Frontiers in Microbiology %D 2022 %T Comparative Thermophysiology of Marine Synechococcus CRD1 Strains Isolated From Different Thermal Niches in Iron-Depleted Areas %A Ferrieux, Mathilde %A Dufour, Louison %A Doré, Hugo %A Ratin, Morgane %A Guéneuguès, Audrey %A Chasselin, Léo %A Marie, Dominique %A Rigaut-jalabert, Fabienne %A Le Gall, Florence %A Sciandra, Théo %A Monier, Garance %A Hoebeke, Mark %A Corre, Erwan %A Xia, Xiaomin %A Liu, Hongbin %A Scanlan, David J. %A Partensky, Frédéric %A Garczarek, Laurence %K RCC2374 %K RCC2385 %K RCC2533 %K RCC2534 %K RCC2571 %K RCC515 %K rcc539 %K rcc791 %X Marine Synechococcus cyanobacteria are ubiquitous in the ocean, a feature likely related to their extensive genetic diversity. Amongst the major lineages, clades I and IV preferentially thrive in temperate and cold, nutrient-rich waters, whilst clades II and III prefer warm, nitrogen or phosphorus-depleted waters. The existence of such cold (I/IV) and warm (II/III) thermotypes is corroborated by physiological characterization of representative strains. A fifth clade, CRD1, was recently shown to dominate the Synechococcus community in iron-depleted areas of the world ocean and to encompass three distinct ecologically significant taxonomic units (ESTUs CRD1A-C) occupying different thermal niches, suggesting that distinct thermotypes could also occur within this clade. Here, using comparative thermophysiology of strains representative of these three CRD1 ESTUs we show that the CRD1A strain MITS9220 is a warm thermotype, the CRD1B strain BIOS-U3-1 a cold temperate thermotype, and the CRD1C strain BIOS-E4-1 a warm temperate stenotherm. Curiously, the CRD1B thermotype lacks traits and/or genomic features typical of cold thermotypes. In contrast, we found specific physiological traits of the CRD1 strains compared to their clade I, II, III, and IV counterparts, including a lower growth rate and photosystem II maximal quantum yield at most temperatures and a higher turnover rate of the D1 protein. Together, our data suggests that the CRD1 clade prioritizes adaptation to low-iron conditions over temperature adaptation, even though the occurrence of several CRD1 thermotypes likely explains why the CRD1 clade as a whole occupies most iron-limited waters. %B Frontiers in Microbiology %V 13 %G eng %U https://www.frontiersin.org/article/10.3389/fmicb.2022.893413 %R 10.3389/fmicb.2022.893413 %0 Journal Article %J Genome Biology and Evolution %D 2022 %T Diversity and evolution of pigment types in marine \textit{Synechococcus cyanobacteria %A Grébert, Théophile %A Garczarek, Laurence %A Daubin, Vincent %A Humily, Florian %A Marie, Dominique %A Ratin, Morgane %A Devailly, Alban %A Farrant, Gregory K. %A Mary, Isabelle %A Mella-Flores, Daniella %A Tanguy, Gwenn %A Labadie, Karine %A Wincker, Patrick %A Kehoe, David M. %A Partensky, Frédéric %E Angert, Esther %K RCC307 %K to add %X DNA integration and site-specific recombination, suggesting that their genomic variability relies D in part on a ‘tycheposon’-like mechanism. Comparison of the phylogenies obtained for PBS and E core genes revealed that the evolutionary history of PBS rod genes differs from the core T genome and is characterized by the co-existence of different alleles and frequent allelic P exchange. We propose a scenario for the evolution of the different pigment types and highlight E the importance of incomplete lineage sorting in maintaining a wide diversity of pigment types in C different Synechococcus lineages despite multiple speciation events. %B Genome Biology and Evolution %P evac035 %G eng %U https://academic.oup.com/gbe/advance-article/doi/10.1093/gbe/evac035/6547267 %R 10.1093/gbe/evac035 %0 Journal Article %J mSystems %D 2022 %T Global Phylogeography of Marine Synechococcus in Coastal Areas Reveals Strong Community Shifts %A Doré, Hugo %A Leconte, Jade %A Guyet, Ulysse %A Breton, Solène %A Farrant, Gregory K. %A Demory, David %A Ratin, Morgane %A Hoebeke, Mark %A Corre, Erwan %A Pitt, Frances D. %A Ostrowski, Martin %A Scanlan, David J. %A Partensky, Frédéric %A Six, Christophe %A Garczarek, Laurence %K RCC1086 %K RCC1695 %K RCC2369 %K rcc2380 %K RCC2553 %K RCC2556 %K RCC2570 %K rcc791 %X Marine Synechococcus comprise a numerically and ecologically prominent phytoplankton group, playing a major role in both carbon cycling and trophic networks in all oceanic regions except in the polar oceans. Despite their high abundance in coastal areas, our knowledge of Synechococcus communities in these environments is based on only a few local studies. Here, we use the global metagenome data set of the Ocean Sampling Day (June 21st, 2014) to get a snapshot of the taxonomic composition of coastal Synechococcus communities worldwide, by recruitment on a reference database of 141 picocyanobacterial genomes, representative of the whole Prochlorococcus, Synechococcus, and Cyanobium diversity. This allowed us to unravel drastic community shifts over small to medium scale gradients of environmental factors, in particular along European coasts. The combined analysis of the phylogeography of natural populations and the thermophysiological characterization of eight strains, representative of the four major Synechococcus lineages (clades I to IV), also brought novel insights about the differential niche partitioning of clades I and IV, which most often co-dominate the Synechococcus community in cold and temperate coastal areas. Altogether, this study reveals several important characteristics and specificities of the coastal communities of Synechococcus worldwide. IMPORTANCE Synechococcus is the second most abundant phytoplanktonic organism on Earth, and its wide genetic diversity allowed it to colonize all the oceans except for polar waters, with different clades colonizing distinct oceanic niches. In recent years, the use of global metagenomics data sets has greatly improved our knowledge of “who is where” by describing the distribution of Synechococcus clades or ecotypes in the open ocean. However, little is known about the global distribution of Synechococcus ecotypes in coastal areas, where Synechococcus is often the dominant phytoplanktonic organism. Here, we leverage the global Ocean Sampling Day metagenomics data set to describe Synechococcus community composition in coastal areas worldwide, revealing striking community shifts, in particular along the coasts of Europe. As temperature appears as an important driver of the community composition, we also characterize the thermal preferenda of 8 Synechococcus strains, bringing new insights into the adaptation to temperature of the dominant Synechococcus clades. %B mSystems %P e00656–22 %G eng %U https://journals.asm.org/doi/full/10.1128/msystems.00656-22 %R 10.1128/msystems.00656-22 %0 Journal Article %J Proceedings of the National Academy of Sciences %D 2021 %T Marine Synechococcus picocyanobacteria: Light utilization across latitudes %A Six, Christophe %A Ratin, Morgane %A Marie, Dominique %A Corre, Erwan %K ?? Invalid DOI %K RCC2035 %K rcc2382 %K RCC2385 %K RCC2421 %K RCC2527 %K RCC2535 %K RCC2553 %K RCC2570 %K RCC515 %K rcc539 %K rcc752 %K rcc791 %K to add %X

The most ubiquitous cyanobacteria, Synechococcus, have colonized different marine thermal niches through the evolutionary specialization of lineages adapted to different ranges of temperature seawater. We used the strains of Synechococcus temperature ecotypes to study how light utilization has evolved in the function of temperature. The tropical Synechococcus (clade II) was unable to grow under 16 °C but, at temperatures >25 °C, induced very high growth rates that relied on a strong synthesis of the components of the photosynthetic machinery, leading to a large increase in photosystem cross-section and electron flux. By contrast, the Synechococcus adapted to subpolar habitats (clade I) grew more slowly but was able to cope with temperatures <10 °C. We show that growth at such temperatures was accompanied by a large increase of the photoprotection capacities using the orange carotenoid protein (OCP). Metagenomic analyzes revealed that Synechococcus natural communities show the highest prevalence of the ocp genes in low-temperature niches, whereas most tropical clade II Synechococcus have lost the gene. Moreover, bioinformatic analyzes suggested that the OCP variants of the two cold-adapted Synechococcus clades I and IV have undergone evolutionary convergence through the adaptation of the molecular flexibility. Our study points to an important role of temperature in the evolution of the OCP. We, furthermore, discuss the implications of the different metabolic cost of these physiological strategies on the competitiveness of Synechococcus in a warming ocean. This study can help improve the current hypotheses and models aimed at predicting the changes in ocean carbon fluxes in response to global warming.

%B Proceedings of the National Academy of Sciences %V 118 %G eng %U http://www.pnas.org/content/118/38/e2111300118 %R 10.1073/pnas.2111300118 %0 Journal Article %J Proceedings of the National Academy of Sciences %D 2021 %T Molecular bases of an alternative dual-enzyme system for light color acclimation of marine \textit{Synechococcus cyanobacteria %A Grébert, Théophile %A Nguyen, Adam A. %A Pokhrel, Suman %A Joseph, Kes Lynn %A Ratin, Morgane %A Dufour, Louison %A Chen, Bo %A Haney, Allissa M. %A Karty, Jonathan A. %A Trinidad, Jonathan C. %A Garczarek, Laurence %A Schluchter, Wendy M. %A Kehoe, David M. %A Partensky, Frédéric %K RCC2374 %K to add %X

Marine Synechococcus cyanobacteria owe their ubiquity in part to the wide pigment diversity of their light-harvesting complexes. In open ocean waters, cells predominantly possess sophisticated antennae with rods composed of phycocyanin and two types of phycoerythrins (PEI and PEII). Some strains are specialized for harvesting either green or blue light, while others can dynamically modify their light absorption spectrum to match the dominant ambient color. This process, called type IV chromatic acclimation (CA4), has been linked to the presence of a small genomic island occurring in two configurations (CA4-A and CA4-B). While the CA4-A process has been partially characterized, the CA4-B process has remained an enigma. Here we characterize the function of two members of the phycobilin lyase E/F clan, MpeW and MpeQ, in Synechococcus sp. strain A15-62 and demonstrate their critical role in CA4-B. While MpeW, encoded in the CA4-B island and up-regulated in green light, attaches the green light-absorbing chromophore phycoerythrobilin to cysteine-83 of the PEII α-subunit in green light, MpeQ binds phycoerythrobilin and isomerizes it into the blue light-absorbing phycourobilin at the same site in blue light, reversing the relationship of MpeZ and MpeY in the CA4-A strain RS9916. Our data thus reveal key molecular differences between the two types of chromatic acclimaters, both highly abundant but occupying distinct complementary ecological niches in the ocean. They also support an evolutionary scenario whereby CA4-B island acquisition allowed former blue light specialists to become chromatic acclimaters, while former green light specialists would have acquired this capacity by gaining a CA4-A island.

%B Proceedings of the National Academy of Sciences %V 118 %P e2019715118 %G eng %U http://www.pnas.org/lookup/doi/10.1073/pnas.2019715118 %R 10.1073/pnas.2019715118 %0 Journal Article %J Frontiers in Microbiology %D 2020 %T Evolutionary mechanisms of long-term genome diversification associated with niche partitioning in marine picocyanobacteria %A Doré, Hugo %A Farrant, Gregory K. %A Guyet, Ulysse %A Haguait, Julie %A Humily, Florian %A Ratin, Morgane %A Pitt, Frances D. %A Ostrowski, Martin %A Six, Christophe %A Brillet-Guéguen, Loraine %A Hoebeke, Mark %A Bisch, Antoine %A Le Corguillé, Gildas %A Corre, Erwan %A Labadie, Karine %A Aury, Jean-Marc %A Wincker, Patrick %A Choi, Dong Han %A Noh, Jae Hoon %A Eveillard, Damien %A Scanlan, David J. %A Partensky, Frédéric %A Garczarek, Laurence %K amino-acid substitutions %K comparative genomics %K evolution %K genomic islands %K marine cyanobacteria %K niche adaptation %K Prochlorococcus %K rcc1084 %K RCC1085 %K RCC1086 %K RCC1087 %K RCC156 %K RCC158 %K rcc162 %K RCC2033 %K RCC2035 %K RCC2319 %K RCC2366 %K RCC2368 %K RCC2369 %K RCC2374 %K RCC2376 %K RCC2378 %K RCC2379 %K rcc2380 %K RCC2381 %K rcc2382 %K RCC2383 %K RCC2385 %K RCC2433 %K RCC2436 %K RCC2438 %K RCC2527 %K RCC2528 %K RCC2533 %K RCC2534 %K RCC2535 %K RCC2553 %K RCC2554 %K RCC2555 %K RCC2556 %K RCC2571 %K RCC2673 %K RCC278 %K rcc296 %K RCC307 %K RCC328 %K RCC3377 %K RCC407 %K RCC515 %K rcc539 %K rcc555 %K RCC556 %K rcc752 %K RCC753 %K rcc791 %K Synechococcus %B Frontiers in Microbiology %V 11 %P 1–23 %8 sep %G eng %U https://www.frontiersin.org/article/10.3389/fmicb.2020.567431/full %R 10.3389/fmicb.2020.567431 %0 Journal Article %J Frontiers in Microbiology %D 2020 %T Synergic effects of temperature and irradiance on the physiology of the marine synechococcus strain WH7803 %A Guyet, Ulysse %A Nguyen, Ngoc A. %A Doré, Hugo %A Haguait, Julie %A Pittera, Justine %A Conan, Maël %A Ratin, Morgane %A Corre, Erwan %A Le Corguillé, Gildas %A Brillet-Guéguen, Loraine %A Hoebeke, Mark %A Six, Christophe %A Steglich, Claudia %A Siegel, Anne %A Eveillard, Damien %A Partensky, Frédéric %A Garczarek, Laurence %K light stress %K marine cyanobacteria %K rcc752 %K Synechococcus %K temperature stress %K transcriptomics %K UV radiations %X Understanding how microorganisms adjust their metabolism to maintain their ability to cope with short-term environmental variations constitutes one of the major current challenges in microbial ecology. Here, the best physiologically characterized marine Synechococcus strain, WH7803, was exposed to modulated light/dark cycles or acclimated to continuous high-light (HL) or low-light (LL), then shifted to various stress conditions, including low (LT) or high temperature (HT), HL and ultraviolet (UV) radiations. Physiological responses were analyzed by measuring time courses of photosystem (PS) II quantum yield, PSII repair rate, pigment ratios and global changes in gene expression. Previously published membrane lipid composition were also used for correlation analyses. These data revealed that cells previously acclimated to HL are better prepared than LL-acclimated cells to sustain an additional light or UV stress, but not a LT stress. Indeed, LT seems to induce a synergic effect with the HL treatment, as previously observed with oxidative stress. While all tested shift conditions induced the downregulation of many photosynthetic genes, notably those encoding PSI, cytochrome b6/f and phycobilisomes, UV stress proved to be more deleterious for PSII than the other treatments, and full recovery of damaged PSII from UV stress seemed to involve the neo-synthesis of a fairly large number of PSII subunits and not just the reassembly of pre-existing subunits after D1 replacement. In contrast, genes involved in glycogen degradation and carotenoid biosynthesis pathways were more particularly upregulated in response to LT. Altogether, these experiments allowed us to identify responses common to all stresses and those more specific to a given stress, thus highlighting genes potentially involved in niche acclimation of a key member of marine ecosystems. Our data also revealed important specific features of the stress responses compared to model freshwater cyanobacteria. %B Frontiers in Microbiology %V 11 %P 1707 %8 jul %G eng %U www.frontiersin.org %R 10.3389/fmicb.2020.01707 %0 Journal Article %J New Phytologist %D 2019 %T Unveiling membrane thermoregulation strategies in marine picocyanobacteria %A Breton, Solène %A Jouhet, Juliette %A Guyet, Ulysse %A Gros, Valérie %A Pittera, Justine %A Demory, David %A Partensky, Frédéric %A Doré, Hugo %A Ratin, Morgane %A Maréchal, Éric %A Nguyen, Ngoc An %A Garczarek, Laurence %A Six, Christophe %K RCC2374 %K RCC2385 %K RCC515 %K rcc539 %B New Phytologist %P nph.16239 %8 oct %G eng %U https://onlinelibrary.wiley.com/doi/abs/10.1111/nph.16239 %R 10.1111/nph.16239 %0 Journal Article %J Scientific Reports %D 2018 %T A novel species of the marine cyanobacterium Acaryochloris with a unique pigment content and lifestyle %A Partensky, Frédéric %A Six, Christophe %A Ratin, Morgane %A Garczarek, Laurence %A Vaulot, Daniel %A Probert, Ian %A Calteau, Alexandra %A Gourvil, Priscillia %A Marie, Dominique %A Grébert, Théophile %A Bouchier, Christiane %A Le Panse, Sophie %A Gachenot, Martin %A Rodríguez, Francisco %A Garrido, José L. %K RCC1774 %B Scientific Reports %V 8 %P 9142 %8 dec %G eng %U http://www.nature.com/articles/s41598-018-27542-7 %R 10.1038/s41598-018-27542-7 %0 Journal Article %J Environmental Microbiology Reports %D 2018 %T Relative stability of ploidy in a marine Synechococcus across various growth conditions %A Perez-Sepulveda, Blanca %A Pitt, Frances %A N'Guyen, An Ngoc %A Ratin, Morgane %A Garczarek, Laurence %A Millard, Andrew %A Scanlan, David J %K rcc752 %X Marine picocyanobacteria of the genus Synechococcus are ubiquitous phototrophs in oceanic systems. Consistent with these organisms occupying vast tracts of the nutrient impoverished ocean, most marine Synechococcus so far studied are monoploid i.e. contain a single chromosome copy. The exception is the oligoploid strain Synechococcus sp. WH7803, which on average possesses around 4 chromosome copies. Here, we set out to understand the role of resource availability (through nutrient deplete growth) and physical stressors (UV, exposure to low and high temperature) in regulating ploidy level in this strain. Using qPCR to assay ploidy status we demonstrate the relative stability of chromosome copy number in Synechococcus sp. WH7803. Such robustness in maintaining an oligoploid status even under nutrient and physical stress is indicative of a fundamental role, perhaps facilitating recombination of damaged DNA regions as a result of prolonged exposure to oxidative stress, or allowing added flexibility in gene expression via possessing multiple alleles. This article is protected by copyright. All rights reserved. %B Environmental Microbiology Reports %P in press %8 feb %G eng %U http://dx.doi.org/10.1111/1758-2229.12614 http://doi.wiley.com/10.1111/1758-2229.12614 %R 10.1111/1758-2229.12614 %0 Journal Article %J PLoS ONE %D 2013 %T A gene island with two possible configurations is involved in chromatic acclimation in marine synechococcus %A Humily, Florian %A Partensky, Frédéric %A Six, Christophe %A Farrant, Gregory K %A Ratin, Morgane %A Marie, Dominique %A Garczarek, Laurence %K 2013 %K MACUMBA %K MicroB3 %K rcc %K SBR$_\textrmP$hyto$_\textrmP$PM %K sbr?hyto?app %X ¡p¿¡italic¿Synechococcus¡/italic¿, the second most abundant oxygenic phototroph in the marine environment, harbors the largest pigment diversity known within a single genus of cyanobacteria, allowing it to exploit a wide range of light niches. Some strains are capable of Type IV chromatic acclimation (CA4), a process by which cells can match the phycobilin content of their phycobilisomes to the ambient light quality. Here, we performed extensive genomic comparisons to explore the diversity of this process within the marine ¡italic¿Synechococcus¡/italic¿ radiation. A specific gene island was identified in all CA4-performing strains, containing two genes (¡italic¿fciA¡/italic¿/b) coding for possible transcriptional regulators and one gene coding for a phycobilin lyase. However, two distinct configurations of this cluster were observed, depending on the lineage. CA4-A islands contain the ¡italic¿mpeZ¡/italic¿ gene, encoding a recently characterized phycoerythrobilin lyase-isomerase, and a third, small, possible regulator called ¡italic¿fciC¡/italic¿. In CA4-B islands, the lyase gene encodes an uncharacterized relative of MpeZ, called MpeW. While ¡italic¿mpeZ¡/italic¿ is expressed more in blue light than green light, this is the reverse for ¡italic¿mpeW¡/italic¿, although only small phenotypic differences were found among chromatic acclimaters possessing either CA4 island type. This study provides novel insights into understanding both diversity and evolution of the CA4 process.¡/p¿ %B PLoS ONE %V 8 %P e84459 %G eng %U http://dx.doi.org/10.1371/journal.pone.0084459 %R 10.1371/journal.pone.0084459