Victor Schmidt was supported during this work by an NSF IGERT fellowship (DGE 0966060 ,
Microflora in the Digestive Tract of Inshore Fish in Japan, Journal of General Microbiology, vol.52, issue.3, pp.361-364, 1968. ,
DOI : 10.1099/00221287-52-3-361
r- and K-Selection and Microbial Ecology, Advances in Microbial Ecology, pp.99-147, 1986. ,
DOI : 10.1007/978-1-4757-0611-6_3
Bacterial Fish Pathogens; Diseases of Farmed and Wild Fish, 2007. ,
The Origin of the Haitian Cholera Outbreak Strain, New England Journal of Medicine, vol.364, issue.1, pp.33-42, 1056. ,
DOI : 10.1056/NEJMoa1012928
Ecological Populations of Bacteria Act as Socially Cohesive Units of Antibiotic Production and Resistance, Science, vol.337, issue.6099, pp.1228-1231, 2012. ,
DOI : 10.1126/science.1219385
Oligotyping: differentiating between closely related microbial taxa using 16S rRNA gene data, Methods in Ecology and Evolution, vol.486, issue.12, pp.1111-1119, 2013. ,
DOI : 10.1111/2041-210X.12114
URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3864673
A single genus in the gut microbiome reflects host preference and specificity, The ISME Journal, vol.486, issue.1, 2014. ,
DOI : 10.1038/ismej.2014.97
A filtering method to generate high quality short reads using Illumina paired-end technology, PLoS ONE, vol.8, 2013. ,
Exploring the Diversity of Gardnerella vaginalis in the genitourinary tract microbiota of monogamous couples through subtle nucleotide variation The State of World Fisheries and Aquaculture, PLoS ONE, vol.6, 2011. ,
Defining seasonal marine microbial community dynamics, The ISME Journal, vol.73, issue.2, pp.298-308, 2012. ,
DOI : 10.1038/ismej.2011.107
URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3260500
Molecular identification of Vibrio harveyi-related isolates associated with diseased aquatic organisms, Microbiology, vol.150, issue.6, pp.1769-1777, 2004. ,
DOI : 10.1099/mic.0.26797-0
DNA sequence of both chromosomes of the cholera pathogen Vibrio cholerae, Nature, vol.406, pp.477-483, 1038. ,
Resource Partitioning and Sympatric Differentiation Among Closely Related Bacterioplankton, Science, vol.320, issue.5879, pp.1081-1085, 2008. ,
DOI : 10.1126/science.1157890
Exploring Microbial Diversity and Taxonomy Using SSU rRNA Hypervariable Tag Sequencing, PLoS Genetics, vol.16, issue.11, 2008. ,
DOI : 10.1371/journal.pgen.1000255.t003
URL : http://doi.org/10.1371/journal.pgen.1000255
VAMPS: a website for visualization and analysis of microbial population structures, BMC Bioinformatics, vol.15, issue.1, pp.41-51, 2014. ,
DOI : 10.1038/ismej.2011.132
The polycyclic aromatic hydrocarbon degradation potential of Gulf of Mexico native coastal microbial communities after the Deepwater Horizon oil spill, Frontiers in Microbiology, vol.74, issue.50, 2014. ,
DOI : 10.1128/AEM.02692-07
Symbiotic role of the viable but nonculturable state of Vibrio fischeri in Hawaiian coastal seawater, Appl. Environ. Microbiol, vol.61, pp.278-283, 1995. ,
Interactive Tree Of Life v2: online annotation and display of phylogenetic trees made easy, Nucleic Acids Research, vol.39, issue.suppl, pp.475-478, 2011. ,
DOI : 10.1093/nar/gkr201
Quantitative Variations in the Bacterial Flora of Flatfish, Journal of General Microbiology, vol.15, issue.2, pp.305-314, 1956. ,
DOI : 10.1099/00221287-15-2-305
Brock Biology of Microorganisms, 2009. ,
Regulating the transition of Vibrio cholerae out of the host, Regulation of Bacterial Virulence, pp.566-578, 2013. ,
Evidence for several waves of global transmission in the seventh cholera pandemic, Nature, vol.7, issue.7365, pp.462-465, 1038. ,
DOI : 10.1038/nature10392
Vegan: Community Ecology Package. R package version 1, pp.17-20, 2012. ,
Metapopulation structure of Vibrionaceae among coastal marine invertebrates, Environmental Microbiology, vol.9, issue.1, pp.265-275, 2011. ,
DOI : 10.1111/j.1462-2920.2010.02328.x
Merging Taxonomy with Ecological Population Prediction in a Case Study of Vibrionaceae, Applied and Environmental Microbiology, vol.77, issue.20, pp.7195-7206, 2011. ,
DOI : 10.1128/AEM.00665-11
into the viable but nonculturable state, Journal of Applied Microbiology, vol.61, issue.1, pp.108-116, 2002. ,
DOI : 10.1046/j.1365-2672.2002.01666.x
Symbiotic association of Photobacterium fischeri with the marine luminous fish Monocentris japonica: a model of symbiosis based on bacterial studies, Biol. Bull, vol.151, pp.547-586, 1976. ,
Toxin and virulence regulation in Vibrio cholerae, Regulation of Bacterial Virulence, pp.241-262, 2013. ,
Reproducibility of Vibrionaceae population structure in coastal bacterioplankton, The ISME Journal, vol.181, issue.3, pp.509-519, 2013. ,
DOI : 10.1111/j.1462-2920.2005.00863.x
Associations and dynamics of Vibrionaceae in the environment, from the genus to the population level, Frontiers in Microbiology, vol.5, 2014. ,
DOI : 10.3389/fmicb.2014.00038
Phylogeny and Molecular Identification of Vibrios on the Basis of Multilocus Sequence Analysis, Applied and Environmental Microbiology, vol.71, issue.9, pp.5107-5115, 2005. ,
DOI : 10.1128/AEM.71.9.5107-5115.2005
Life in the ???Plastisphere???: Microbial Communities on Plastic Marine Debris, Environmental Science & Technology, vol.47, pp.7137-7146, 1021. ,
DOI : 10.1021/es401288x