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Population genomics of a bioluminescent symbiosis sheds light on symbiont transmission and specificity

https://doi.org/10.1101/736074
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Outgoing claims: the papers this work cites, builds on, or argues with.

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Intracellular symbionts of sharpshooters (Insecta: Hemiptera: Cicadellinae) form a distinct clade with a small genome
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Marine bacteria exhibit a bipolar distribution
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Establishment of an animal–bacterial association: Recruiting symbiotic vibrios from the environment
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The Sequence Alignment/Map format and SAMtools
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Nucleotide sequence of a gene, hpt, for hypoxanthine phosphoribosyltransferase from Vibrio harveyi
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The Vibrio cholerae VarS/VarA two-component system controls the expression of virulence proteins through ToxT regulation
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Minor allele frequency thresholds strongly affect population structure inference with genomic data sets
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COSPECIATION BETWEEN BACTERIAL ENDOSYMBIONTS (BUCHNERA) AND A RECENT RADIATION OF APHIDS (UROLEUCON) AND PITFALLS OF TESTING FOR PHYLOGENETIC CONGRUENCE
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Symbiosis initiation in the bacterially luminous sea urchin cardinalfishSiphamia versicolor
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Phylogenetic analysis of host–symbiont specificity and codivergence in bioluminescent symbioses
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Global patterns of diversity and community structure in marine bacterioplankton
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Biogeography of the ubiquitous marine bacterium Alteromonas macleodii determined by multilocus sequence analysis
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RAD in the realm of next-generation sequencing technologies
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Genome‐wide association genetics of an adaptive trait in lodgepole pine
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Hfq is essential for Vibrio cholerae virulence and downregulates σ E expression
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CsrA and three redundant small RNAs regulate quorum sensing in Vibrio cholerae
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Biogeography of bacteria associated with the marine sponge Cymbastela concentrica
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ESTIMATING F -STATISTICS FOR THE ANALYSIS OF POPULATION STRUCTURE
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Bioluminescence In Action
inferredcites →https://doi.org/10.1111/jfb.13063openalex-snapshot
Life history of the symbiotically luminous cardinalfish Siphamia tubifer (Perciformes: Apogonidae)
inferredcites →https://doi.org/10.1111/mec.12354openalex-snapshot
Stacks: an analysis tool set for population genomics
inferredcites →https://doi.org/10.1111/mec.13245openalex-snapshot
RAD genotyping reveals fine‐scale genetic structuring and provides powerful population assignment in a widely distributed marine species, the A merican lobster ( H omarus americanus)
inferredcites →https://doi.org/10.1111/mec.14169openalex-snapshot
Genomic analysis of a cardinalfish with larval homing potential reveals genetic admixture in the Okinawa Islands
inferredcites →https://doi.org/10.1126/science.1157890openalex-snapshot
Resource Partitioning and Sympatric Differentiation Among Closely Related Bacterioplankton
inferredcites →https://doi.org/10.1128/aem.01792-08openalex-snapshot
Population Structure ofVibrio fischeriwithin the Light Organs ofEuprymna scolopesSquid from Two Oahu (Hawaii) Populations
inferredcites →https://doi.org/10.1128/aem.02212-06openalex-snapshot
Phylogenetic Diversity and Cosymbiosis in the Bioluminescent Symbioses of “Photobacterium mandapamensis”
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Planktonic Marine Luminous Bacteria: Species Distribution in the Water Column
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Modulation of Expression of the ToxR Regulon in Vibrio cholerae by a Member of the Two-Component Family of Response Regulators
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Genome Sequence of Photobacterium mandapamensis Strain svers. 1.1, the Bioluminescent Symbiont of the Cardinal Fish Siphamia versicolor
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Strict Host-Symbiont Cospeciation and Reductive Genome Evolution in Insect Gut Bacteria
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Double Digest RADseq: An Inexpensive Method for De Novo SNP Discovery and Genotyping in Model and Non-Model Species
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Gene Fitness Landscapes of Vibrio cholerae at Important Stages of Its Life Cycle
inferredcites →https://doi.org/10.1371/journal.ppat.1006428openalex-snapshot
Vibrio cholerae ensures function of host proteins required for virulence through consumption of luminal methionine sulfoxide
inferredcites →https://doi.org/10.1534/g3.111.000240openalex-snapshot
Stacks: Building and Genotyping Loci De Novo From Short-Read Sequences
inferredcites →https://doi.org/10.3354/ame041079openalex-snapshot
Biogeographic analysis of ribosomal RNA clusters from marine bacterioplankton
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A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff

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inferred← citeshttps://doi.org/10.3389/fmicb.2019.02670openalex-snapshot
Shedding Light on Specificity: Population Genomic Structure of a Symbiosis Between a Coral Reef Fish and Luminous Bacterium
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