Animesh Shukla for discussion about statistical analyses. CK received a Marie Curie grant from EU (Esteam PhD program) ,
BP 10448, 63000 Clermont-Ferrand, France. 5 CEMAGREF, UR Biologie des Ecosystèmes Aquatiques, vol.220, issue.4 6 ,
A novel free-living prochlorophyte abundant in the oceanic euphotic zone, Nature, vol.334, issue.6180, pp.340-343, 1988. ,
DOI : 10.1038/334340a0
Code and context: Prochlorococcus as a model for cross-scale biology, Trends in Microbiology, vol.15, issue.9, pp.398-407, 2007. ,
DOI : 10.1016/j.tim.2007.07.001
: Advantages and Limits of Minimalism, Annual Review of Marine Science, vol.2, issue.1, pp.211-237, 2010. ,
DOI : 10.1146/annurev-marine-120308-081034
Ecological Genomics of Marine Picocyanobacteria, Microbiology and Molecular Biology Reviews, vol.73, issue.2, pp.249-299, 2009. ,
DOI : 10.1128/MMBR.00035-08
URL : https://hal.archives-ouvertes.fr/hal-00406529
Toward an understanding of cell growth and the cell division cycle of unicellular photoautotrophic cyanobacteria, Cellular and Molecular Life Sciences (CMLS), vol.60, issue.4, pp.663-687, 2003. ,
DOI : 10.1007/s00018-003-2079-y
Cell Cycle Regulation by Light in Prochlorococcus Strains, Applied and Environmental Microbiology, vol.67, issue.2, pp.782-790, 2001. ,
DOI : 10.1128/AEM.67.2.782-790.2001
Growth of Prochlorococcus, a Photosynthetic Prokaryote, in the Equatorial Pacific Ocean, Science, vol.268, issue.5216, pp.1480-1482, 1995. ,
DOI : 10.1126/science.268.5216.1480
Ultradian growth in Prochlorococcus spp, Appl Environ Microbiol, vol.64, pp.1066-1069, 1998. ,
optical properties, Diel variations in Prochlorococcus optical properties, pp.1637-1647, 2002. ,
DOI : 10.4319/lo.2002.47.6.1637
URL : https://hal.archives-ouvertes.fr/hal-00330254
strain PCC 9511: Combined effects of light and cell cycle, Limnology and Oceanography, vol.50, issue.3, pp.850-863, 2005. ,
DOI : 10.4319/lo.2005.50.3.0850
Differential expression of antenna and core genes in Prochlorococcus PCC 9511 (Oxyphotobacteria) grown under a modulated light-dark cycle, Environmental Microbiology, vol.268, issue.3, pp.168-175, 2001. ,
DOI : 10.1016/0014-5793(88)80472-1
URL : https://hal.archives-ouvertes.fr/hal-00529712
Diel Expression of Cell Cycle-Related Genes in Synchronized Cultures of Prochlorococcus sp. Strain PCC 9511, Journal of Bacteriology, vol.183, issue.3, pp.915-920, 2001. ,
DOI : 10.1128/JB.183.3.915-920.2001
URL : https://hal.archives-ouvertes.fr/hal-00529713
Choreography of the Transcriptome, Photophysiology, and Cell Cycle of a Minimal Photoautotroph, Prochlorococcus, PLoS ONE, vol.57, issue.4, p.5135, 2009. ,
DOI : 10.1371/journal.pone.0005135.s015
Prochlorococcus, a marine photosynthetic prokaryote of global significance, Microbiol Mol Biol Rev, vol.63, pp.106-127, 1999. ,
Photosynthetic picoplankton community structure in the subtropical North Pacific Ocean near Hawaii (station ALOHA). Deep Sea Res, pp.2043-2060, 1993. ,
Photophysiology of the marine cyanobacterium Prochlorococcus: Ecotypic differences among cultured isolates, Limnology and Oceanography, vol.44, issue.3, pp.628-638, 1999. ,
DOI : 10.4319/lo.1999.44.3.0628
Physiology and molecular phylogeny of coexisting Prochlorococcus ecotypes, Nature, vol.393, pp.464-467, 1998. ,
Niche Partitioning Among Prochlorococcus Ecotypes Along Ocean-Scale Environmental Gradients, Science, vol.311, issue.5768, pp.1737-1740, 2006. ,
DOI : 10.1126/science.1118052
Closely related Prochlorococcus genotypes show remarkably different depth distributions in two oceanic regions as revealed by in situ hybridization using 16S rRNA-targeted oligonucleotides, Microbiology, vol.147, issue.7, pp.1731-1744, 2001. ,
DOI : 10.1099/00221287-147-7-1731
Influence of light and temperature on Prochlorococcus ecotype distributions in the Atlantic Ocean, Limnology and Oceanography, vol.52, issue.5, pp.2205-2220, 2007. ,
DOI : 10.4319/lo.2007.52.5.2205
Temporal dynamics of Prochlorococcus ecotypes in the Atlantic and Pacific oceans, The ISME Journal, vol.52, issue.10, 2010. ,
DOI : 10.1111/j.1462-2920.2007.01246.x
Patterns and implications of gene gain and loss in the evolution of Prochlorococcus, PLoS Genet, vol.3, pp.2515-2528, 2007. ,
Genome divergence in two Prochlorococcus ecotypes reflects oceanic niche differentiation, Nature, vol.424, issue.6952, pp.1042-1047, 2003. ,
DOI : 10.1038/nature01947
Genome sequence of the cyanobacterium Prochlorococcus marinus SS120, a nearly minimal oxyphototrophic genome, Proceedings of the National Academy of Sciences, vol.100, issue.17, pp.10020-10025, 2003. ,
DOI : 10.1073/pnas.1733211100
Cyanobacterial Two-Component Proteins: Structure, Diversity, Distribution, and Evolution, Microbiology and Molecular Biology Reviews, vol.70, issue.2, pp.472-509, 2006. ,
DOI : 10.1128/MMBR.00046-05
URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1489541
MED4: Genomic analysis and differential expression under stress, FEMS Microbiology Letters, vol.226, issue.1, pp.135-144, 2003. ,
DOI : 10.1016/S0378-1097(03)00587-1
URL : https://hal.archives-ouvertes.fr/hal-00529709
The challenge of regulation in a minimal photoautotroph: non-coding RNAs in Prochlorococcus, PLoS Genet, vol.4, pp.1-14, 2008. ,
Chromosome replication and the division cycle of Escherichia coli, Journal of Molecular Biology, vol.31, issue.3, pp.519-540, 1968. ,
DOI : 10.1016/0022-2836(68)90425-7
Species-specific phytoplankton growth rates via diel DNA synthesis cycles. I. Concept of the method, Marine Ecology Progress Series, vol.43, pp.105-111, 1988. ,
DOI : 10.3354/meps043105
Role of FtsH2 in the repair of Photosystem II in mutants of the cyanobacterium Synechocystis PCC 6803 with impaired assembly or stability of the CaMn4 cluster, Biochimica et Biophysica Acta (BBA) - Bioenergetics, vol.1797, issue.5, pp.566-575, 2010. ,
DOI : 10.1016/j.bbabio.2010.02.006
Characterization of the FtsZ-Interacting Septal Proteins SepF and Ftn6 in the Spherical-Celled Cyanobacterium Synechocystis Strain PCC 6803, Journal of Bacteriology, vol.191, issue.19, pp.6178-6185, 2009. ,
DOI : 10.1128/JB.00723-09
Characterization of Escherichia coli Translesion Synthesis Polymerases and Their Accessory Factors, Methods Enzymol, vol.408, pp.318-340, 2006. ,
DOI : 10.1016/S0076-6879(06)08020-7
Group 2 sigma factors in cyanobacteria, Physiologia Plantarum, vol.15, issue.3, pp.490-506, 2008. ,
DOI : 10.1016/j.febslet.2007.03.010
Sigma factors for cyanobacterial transcription, Gene Regul Syst Biol, vol.3, pp.65-87, 2009. ,
PCC 9511, Journal of Biological Rhythms, vol.2, issue.5, pp.187-199, 2008. ,
DOI : 10.1177/0748730408316040
URL : https://hal.archives-ouvertes.fr/hal-00529713
The bacterial LexA transcriptional repressor, Cellular and Molecular Life Sciences, vol.66, issue.1, pp.82-93, 2009. ,
DOI : 10.1007/s00018-008-8378-6
Timekeeping in bacteria: the cyanobacterial circadian clock, Current Opinion in Microbiology, vol.6, issue.6, pp.535-540, 2003. ,
DOI : 10.1016/j.mib.2003.10.012
Picophytoplankton cell death induced by UV radiation: Evidence for oceanic Atlantic communities, Limnology and Oceanography, vol.51, issue.1, pp.21-29, 2006. ,
DOI : 10.4319/lo.2006.51.1.0021
Differential Sunlight Sensitivity of Picophytoplankton from Surface Mediterranean Coastal Waters, Applied and Environmental Microbiology, vol.71, issue.4, pp.2154-2157, 2005. ,
DOI : 10.1128/AEM.71.4.2154-2157.2005
Accelerated evolution associated with genome reduction in a free-living prokaryote, Genome Biology, vol.6, issue.2, p.14, 2005. ,
DOI : 10.1186/gb-2005-6-2-r14
Dynamics of picophytoplankton, ultraphytoplankton and bacteria in the central equatorial Pacific. Deep Sea Res II, pp.907-931, 1996. ,
Prochlorococcus and Synechococcus growth rates and contributions to production in the Arabian Sea during the 1995 Southwest and Northeast Monsoons, Deep Sea Research Part II: Topical Studies in Oceanography, vol.45, issue.10-11, pp.2327-2352, 1998. ,
DOI : 10.1016/S0967-0645(98)00073-3
Prochlorococcus growth rate and contribution to primary production in the equatorial and subtropical North Pacific Ocean, Aquatic Microbial Ecology, vol.12, pp.39-47, 1997. ,
DOI : 10.3354/ame012039
Function and evolution of the psbA gene family in marine Synechococcus: Synechococcus sp. WH7803 as a case study, The ISME Journal, vol.109, issue.9, pp.937-953, 2008. ,
DOI : 10.1111/j.1462-2920.2005.00833.x
URL : https://hal.archives-ouvertes.fr/hal-00338642
Global Gene Expression Profiles of the Cyanobacterium Synechocystis sp. Strain PCC 6803 in Response to Irradiation with UV-B and White Light, Journal of Bacteriology, vol.184, issue.24, pp.6845-6858, 2002. ,
DOI : 10.1128/JB.184.24.6845-6858.2002
UV-induced phycobilisome dismantling in the marine picocyanobacterium Synechococcus sp. WH8102, Photosynthesis Research, vol.1757, issue.1, pp.75-86, 2007. ,
DOI : 10.1007/s11120-007-9170-4
The UV-B stimulon of the terrestrial cyanobacterium Nostoc commune comprises early shock proteins and late acclimation proteins, Molecular Microbiology, vol.379, issue.3, pp.827-843, 2002. ,
DOI : 10.1046/j.1365-2958.2002.03209.x
Identification of the proteomic changes in Synechocystis sp. PCC 6803 following prolonged UV-B irradiation, Journal of Experimental Botany, vol.60, issue.4, pp.1141-1154, 2009. ,
DOI : 10.1093/jxb/ern356
Circadian tempo: a paradigm for genome stability? Med Hypotheses, pp.883-891, 2007. ,
Toxin release in response to oxidative stress and programmed cell death in the cyanobacterium Microcystis aeruginosa, Aquatic Toxicology, vol.78, issue.1, pp.66-73, 2006. ,
DOI : 10.1016/j.aquatox.2006.02.007
Cyanobacteria and ultraviolet radiation (UVR) stress: Mitigation strategies, Ageing Research Reviews, vol.9, issue.2, pp.79-90, 2009. ,
DOI : 10.1016/j.arr.2009.05.004
Culturing the marine cyanobacterium Prochlorococcus, Limnology and Oceanography: Methods, vol.5, issue.10, pp.353-362, 2007. ,
DOI : 10.4319/lom.2007.5.353
Cell Cycle Checkpoints: Preventing an Identity Crisis, Science, vol.274, issue.5293, pp.1664-1672, 1996. ,
DOI : 10.1126/science.274.5293.1664
Cell division during inhibition of deoxyribonucleic acid synthesis in Escherichia coli, J Bacteriol, vol.95, pp.1627-1633, 1968. ,
A model for a umuDC-dependent prokaryotic DNA damage checkpoint, Proceedings of the National Academy of Sciences, vol.96, issue.16, pp.9218-9223, 1999. ,
DOI : 10.1073/pnas.96.16.9218
A Novel Prokaryotic UVB Photoreceptor in the Cyanobacterium Chlorogloeopsis PCC 6912, Photochemistry and Photobiology, vol.1244, issue.4, pp.493-498, 2000. ,
DOI : 10.1562/0031-8655(2000)071<0493:ANPUPI>2.0.CO;2
Checkpoints and restriction points in bacteria and eukaryotic cells, BioEssays, vol.106, issue.10, pp.1035-1039, 2006. ,
DOI : 10.1002/bies.20475
Replication fork stalling and cell cycle arrest in UV-irradiated Escherichia coli, Genes & Development, vol.21, issue.6, pp.668-681, 2007. ,
DOI : 10.1101/gad.417607
Correlation of gene transcription with the time of initiation of chromosome replication in Escherichia coli, Molecular Microbiology, vol.14, issue.3, pp.575-584, 1993. ,
DOI : 10.1016/0092-8674(92)90112-P
DnaA coordinates replication initiation and cell cycle transcription in Caulobacter crescentus, Molecular Microbiology, vol.176, issue.5, pp.1340-1353, 2005. ,
DOI : 10.1111/j.1365-2958.2005.04912.x
The DnaA protein determines the initiation mass of Escherichia coli K-12, Cell, vol.57, issue.5, pp.881-889, 1989. ,
DOI : 10.1016/0092-8674(89)90802-7
Limiting DNA replication to once and only once, EMBO reports, vol.1, issue.6, pp.479-483, 2000. ,
DOI : 10.1093/embo-reports/kvd116
ATP activates dnaA protein in initiating replication of plasmids bearing the origin of the E. coli chromosome, Cell, vol.50, issue.2, pp.259-265, 1987. ,
DOI : 10.1016/0092-8674(87)90221-2
PCC6803, Molecular Microbiology, vol.412, issue.2, pp.409-420, 2009. ,
DOI : 10.1111/j.1365-2958.2009.06873.x
URL : https://hal.archives-ouvertes.fr/tel-00553297
phrA, the major photoreactivating factor in the cyanobacterium Synechocystis sp. strain PCC 6803 codes for a cyclobutane-pyrimidine-dimer-specific DNA photolyase, Archives of Microbiology, vol.173, issue.5-6, pp.412-417, 2000. ,
DOI : 10.1007/s002030000164
UV hyper-resistance in Prochlorococcus MED4 results from a single base pair deletion just upstream of an operon encoding nudix hydrolase and photolyase, Environmental Microbiology, vol.82, issue.7, 2010. ,
DOI : 10.1111/j.1462-2920.2010.02203.x
Prokaryotic Nucleotide Excision Repair:?? The UvrABC System, Chemical Reviews, vol.106, issue.2, pp.233-252, 2006. ,
DOI : 10.1021/cr040471u
???Close-fitting sleeves???: DNA damage recognition by the UvrABC nuclease system, Mutation Research/Fundamental and Molecular Mechanisms of Mutagenesis, vol.577, issue.1-2, pp.92-117, 2005. ,
DOI : 10.1016/j.mrfmmm.2005.03.013
DNA Mismatch Repair: Molecular Mechanisms and Biological Function, Annual Review of Microbiology, vol.57, issue.1, pp.579-608, 2003. ,
DOI : 10.1146/annurev.micro.57.030502.090847
Roles of DNA Polymerase V and RecA Protein in SOS Damage-Induced Mutation, Chemical Reviews, vol.106, issue.2, pp.406-419, 2006. ,
DOI : 10.1021/cr0404951
RecA protein-dependent cleavage of UmuD protein and SOS mutagenesis., Proceedings of the National Academy of Sciences, vol.85, issue.6, pp.1806-1810, 1988. ,
DOI : 10.1073/pnas.85.6.1806
Error-prone replication for better or worse, Trends in Microbiology, vol.12, issue.6, pp.288-295, 2004. ,
DOI : 10.1016/j.tim.2004.04.004
ABC PROTEINS, Annual Review of Genetics, vol.31, issue.1, pp.213-244, 1997. ,
DOI : 10.1146/annurev.genet.31.1.213
LexA-binding sequences in Gram-positive and cyanobacteria are closely related, Molecular Genetics and Genomics, vol.271, issue.1, pp.40-49, 2004. ,
DOI : 10.1007/s00438-003-0952-x
Aeons of distress: an evolutionary perspective on the bacterial SOS response, FEMS Microbiology Reviews, vol.31, issue.6, pp.637-656, 2007. ,
DOI : 10.1111/j.1574-6976.2007.00082.x
Comparative gene expression profiles following UV exposure in wild-type and SOSdeficient Escherichia coli, Genetics, vol.158, pp.41-64, 2001. ,
Lysine-156 and serine-119 are required for LexA repressor cleavage: a possible mechanism., Proceedings of the National Academy of Sciences, vol.84, issue.12, pp.3987-3991, 1987. ,
DOI : 10.1073/pnas.84.12.3987
A LexA-related protein regulates redox-sensitive expression of the cyanobacterial RNA helicase, crhR, Nucleic Acids Research, vol.34, issue.12, pp.3446-3454, 2006. ,
DOI : 10.1093/nar/gkl426
Function and regulation of the cyanobacterial genes lexA, recA and ruvB: LexA is critical to the survival of cells facing inorganic carbon starvation, Molecular Microbiology, vol.412, issue.1, pp.65-80, 2004. ,
DOI : 10.1111/j.1365-2958.2004.04100.x
REGULATORY ELEMENTS OF MARINE CYANOBACTERIA, Genome Informatics 2007, pp.1-11, 2007. ,
DOI : 10.1142/9781860949920_0001
Identification of additional genes belonging to the LexA regulon in Escherichia coli, Molecular Microbiology, vol.180, issue.6, pp.1560-1572, 2000. ,
DOI : 10.1046/j.1365-2958.2000.01826.x
A sigma factor that modifies the circadian expression of a subset of genes in cyanobacteria, EMBO J, vol.15, pp.2488-2495, 1996. ,
Bacterial Chromosome Dynamics, Science, vol.301, issue.5634, pp.780-785, 2003. ,
DOI : 10.1126/science.1084780
After 30 Years of Study, the Bacterial SOS Response Still Surprises Us, PLoS Biology, vol.305, issue.7, pp.1174-1176, 2005. ,
DOI : 10.1371/journal.pbio.0030255.g002
Genome-Wide Analysis of Light Sensing in Prochlorococcus, Journal of Bacteriology, vol.188, issue.22, pp.7796-7806, 2006. ,
DOI : 10.1128/JB.01097-06
Oxidative stress in cyanobacteria, FEMS Microbiology Reviews, vol.33, issue.2, pp.258-278, 2009. ,
DOI : 10.1111/j.1574-6976.2008.00134.x
Prochlorococcus marinus Chisholm et al. 1992 subsp. pastoris subsp. nov. strain PCC 9511, the first axenic chlorophyll a2/b2-containing cyanobacterium (Oxyphotobacteria)., International Journal of Systematic and Evolutionary Microbiology, vol.50, issue.5, pp.1833-1847, 2000. ,
DOI : 10.1099/00207713-50-5-1833
An axenic cyclostat of Prochlorococcus PCC 9511 with a simulator of natural light regimes, Journal of Applied Phycology, vol.13, issue.2, pp.135-142, 2001. ,
DOI : 10.1023/A:1011144310988
Application of a compact automatic sea water sampler to high frequency picoplankton studies, Aquatic Microbial Ecology, vol.14, pp.309-314, 1998. ,
DOI : 10.3354/ame014309
Enumeration of Phytoplankton, Bacteria, and Viruses in Marine Samples, Current Protocol Cytom, vol.13, 1999. ,
DOI : 10.1002/0471142956.cy1111s10
DNA/RNA Analysis of Phytoplankton by Flow Cytometry, Curr Protocol Cytom, vol.63, 2000. ,
DOI : 10.1002/0471142956.cy1112s11
CYTOPC: Processing software for flow cytometric data. Signal Noise, 1989. ,
R: A language and environment for statistical computing. Computing RFfS, 2009. ,
CyanoBase: the cyanobacteria genome database update 2010, Nucleic Acids Research, vol.38, issue.Database, pp.379-338, 2009. ,
DOI : 10.1093/nar/gkp915
Experimental Design and Low-Level Analysis of Microarray Data, Int Rev Neurobiol, vol.60, pp.25-58, 2004. ,
DOI : 10.1016/S0074-7742(04)60002-X
Bioconductor: open software development for computational biology and bioinformatics, Genome Biology, vol.5, issue.10, p.80, 2004. ,
DOI : 10.1186/gb-2004-5-10-r80
Normalization of cDNA microarray data, Methods, vol.31, issue.4, pp.265-273, 2003. ,
DOI : 10.1016/S1046-2023(03)00155-5
Linear Models and Empirical Bayes Methods for Assessing Differential Expression in Microarray Experiments, Statistical Applications in Genetics and Molecular Biology, vol.3, issue.1, 2004. ,
DOI : 10.2202/1544-6115.1027
Using ANOVA to analyze microarray data, Biotechniques, vol.37, pp.173-177, 2004. ,
Analysis of Variance for Gene Expression Microarray Data, Journal of Computational Biology, vol.7, issue.6, pp.819-837, 2000. ,
DOI : 10.1089/10665270050514954
Quick and Easy Implementation of the Benjamini-Hochberg Procedure for Controlling the False Positive Rate in Multiple Comparisons, Journal of Educational and Behavioral Statistics, vol.27, issue.1, pp.77-83, 2002. ,
DOI : 10.3102/10769986027001077
Cluster analysis and display of genome-wide expression patterns, Proceedings of the National Academy of Sciences, vol.95, issue.25, pp.14863-14868, 1998. ,
DOI : 10.1073/pnas.95.25.14863
Ultraviolet stress delays chromosome replication in light/dark synchronized cells of the marine cyanobacterium Prochlorococcus marinus PCC9511, BMC Microbiology, vol.10, issue.1, p.204, 2010. ,
DOI : 10.1186/1471-2180-10-204
URL : https://hal.archives-ouvertes.fr/hal-00529495