Phylogenomic Insight into Salinispora (Bacteria, Actinobacteria) Species Designations

Natalie Millán-Aguinãga, Krystle L. Chavarria, Juan A. Ugalde, Anne Catrin Letzel, Greg W. Rouse, Paul R. Jensen

Resultado de la investigación: Article

5 Citas (Scopus)

Resumen

Bacteria represent the most genetically diverse kingdom of life. While great progress has been made in describing this diversity, it remains difficult to identify the phylogenetic and ecological characteristics that delineate groups of bacteria that possess species-like properties. One major challenge associated with species delineations is that not all shared genes have the same evolutionary history, and thus the choice of loci can have a major impact on phylogenetic reconstruction. Sequencing the genomes of large numbers of closely related strains provides new opportunities to distinguish ancestral from acquired alleles and assess the effects of recombination on phylogenetic inference. Here we analyzed the genomes of 119 strains of the marine actinomycete genus Salinispora, which is currently comprised of three named species that share 99% 16S rRNA gene sequence identity. While 63% of the core genome showed evidence of recombination, this had no effect on species-level phylogenomic resolution. Recombination did however blur intra-species relationships and biogeographic resolution. The genome-wide average nucleotide identity provided a new perspective on Salinispora diversity, revealing as many as seven new species. Patterns of orthologous group distributions reveal a genetic basis to delineation the candidate taxa and insight into the levels of genetic cohesion associated with bacterial species.

Idioma originalEnglish
Número de artículo3564
PublicaciónScientific Reports
Volumen7
N.º1
DOI
EstadoPublished - 1 dic 2017
Publicado de forma externa

Huella dactilar

Actinobacteria
genome
bacteria
phylogeny
cohesion
nucleotides
ribosomal RNA
alleles
nucleotide sequences
history
loci
new species
genes

ASJC Scopus subject areas

  • General

Citar esto

Millán-Aguinãga, N., Chavarria, K. L., Ugalde, J. A., Letzel, A. C., Rouse, G. W., & Jensen, P. R. (2017). Phylogenomic Insight into Salinispora (Bacteria, Actinobacteria) Species Designations. Scientific Reports, 7(1), [3564]. https://doi.org/10.1038/s41598-017-02845-3
Millán-Aguinãga, Natalie ; Chavarria, Krystle L. ; Ugalde, Juan A. ; Letzel, Anne Catrin ; Rouse, Greg W. ; Jensen, Paul R. / Phylogenomic Insight into Salinispora (Bacteria, Actinobacteria) Species Designations. En: Scientific Reports. 2017 ; Vol. 7, N.º 1.
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abstract = "Bacteria represent the most genetically diverse kingdom of life. While great progress has been made in describing this diversity, it remains difficult to identify the phylogenetic and ecological characteristics that delineate groups of bacteria that possess species-like properties. One major challenge associated with species delineations is that not all shared genes have the same evolutionary history, and thus the choice of loci can have a major impact on phylogenetic reconstruction. Sequencing the genomes of large numbers of closely related strains provides new opportunities to distinguish ancestral from acquired alleles and assess the effects of recombination on phylogenetic inference. Here we analyzed the genomes of 119 strains of the marine actinomycete genus Salinispora, which is currently comprised of three named species that share 99{\%} 16S rRNA gene sequence identity. While 63{\%} of the core genome showed evidence of recombination, this had no effect on species-level phylogenomic resolution. Recombination did however blur intra-species relationships and biogeographic resolution. The genome-wide average nucleotide identity provided a new perspective on Salinispora diversity, revealing as many as seven new species. Patterns of orthologous group distributions reveal a genetic basis to delineation the candidate taxa and insight into the levels of genetic cohesion associated with bacterial species.",
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Millán-Aguinãga, N, Chavarria, KL, Ugalde, JA, Letzel, AC, Rouse, GW & Jensen, PR 2017, 'Phylogenomic Insight into Salinispora (Bacteria, Actinobacteria) Species Designations', Scientific Reports, vol. 7, n.º 1, 3564. https://doi.org/10.1038/s41598-017-02845-3

Phylogenomic Insight into Salinispora (Bacteria, Actinobacteria) Species Designations. / Millán-Aguinãga, Natalie; Chavarria, Krystle L.; Ugalde, Juan A.; Letzel, Anne Catrin; Rouse, Greg W.; Jensen, Paul R.

En: Scientific Reports, Vol. 7, N.º 1, 3564, 01.12.2017.

Resultado de la investigación: Article

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Millán-Aguinãga N, Chavarria KL, Ugalde JA, Letzel AC, Rouse GW, Jensen PR. Phylogenomic Insight into Salinispora (Bacteria, Actinobacteria) Species Designations. Scientific Reports. 2017 dic 1;7(1). 3564. https://doi.org/10.1038/s41598-017-02845-3