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Genome-Based Analysis Reveals the Taxonomy and Diversity of the Family Idiomarinaceae
Idiomarinaceae is a family of Gram-stain negative, mesophilic euryhalophiles. To provide a robust framework for the evolutionary and taxonomic relationships of bacteria of this family, we compared herein the genomes of 36 type strains and 43 non-type strains using 16S rRNA gene sequences, core genom...
Autores principales: | , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
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Frontiers Media S.A.
2018
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Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6193092/ https://www.ncbi.nlm.nih.gov/pubmed/30364313 http://dx.doi.org/10.3389/fmicb.2018.02453 |
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author | Liu, Yang Lai, Qiliang Shao, Zongze |
author_facet | Liu, Yang Lai, Qiliang Shao, Zongze |
author_sort | Liu, Yang |
collection | PubMed |
description | Idiomarinaceae is a family of Gram-stain negative, mesophilic euryhalophiles. To provide a robust framework for the evolutionary and taxonomic relationships of bacteria of this family, we compared herein the genomes of 36 type strains and 43 non-type strains using 16S rRNA gene sequences, core genome based 78 single-copy orthologous proteins, digital DNA-DNA hybridization and average nucleotide identity (ANI) estimation. The 79 bacteria of this family were consistently divided into taxon I, taxon II, and taxon III corresponding to the three genera Idiomarina, Pseudidiomarina, and Aliidiomarina, which contained 13 putative new genospecies in addition to 35 well-defined species represented by each type strain. Furthermore, genetic diversity of this family was evident at the genus- and species levels, and exceeded that which is defined currently by the named species. In view of multiple genotypic characteristics clearly distinct from the other two genera, we propose reinstating the genus Pseudidiomarina as a monophyletic taxon. Taken together, this is the first genome-based study of the taxonomy and diversity of bacteria within the family Idiomarinaceae, and will contribute to further insights into microbial evolution and adaptation to saline environments. |
format | Online Article Text |
id | pubmed-6193092 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2018 |
publisher | Frontiers Media S.A. |
record_format | MEDLINE/PubMed |
spelling | pubmed-61930922018-10-25 Genome-Based Analysis Reveals the Taxonomy and Diversity of the Family Idiomarinaceae Liu, Yang Lai, Qiliang Shao, Zongze Front Microbiol Microbiology Idiomarinaceae is a family of Gram-stain negative, mesophilic euryhalophiles. To provide a robust framework for the evolutionary and taxonomic relationships of bacteria of this family, we compared herein the genomes of 36 type strains and 43 non-type strains using 16S rRNA gene sequences, core genome based 78 single-copy orthologous proteins, digital DNA-DNA hybridization and average nucleotide identity (ANI) estimation. The 79 bacteria of this family were consistently divided into taxon I, taxon II, and taxon III corresponding to the three genera Idiomarina, Pseudidiomarina, and Aliidiomarina, which contained 13 putative new genospecies in addition to 35 well-defined species represented by each type strain. Furthermore, genetic diversity of this family was evident at the genus- and species levels, and exceeded that which is defined currently by the named species. In view of multiple genotypic characteristics clearly distinct from the other two genera, we propose reinstating the genus Pseudidiomarina as a monophyletic taxon. Taken together, this is the first genome-based study of the taxonomy and diversity of bacteria within the family Idiomarinaceae, and will contribute to further insights into microbial evolution and adaptation to saline environments. Frontiers Media S.A. 2018-10-11 /pmc/articles/PMC6193092/ /pubmed/30364313 http://dx.doi.org/10.3389/fmicb.2018.02453 Text en Copyright © 2018 Liu, Lai and Shao. http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms. |
spellingShingle | Microbiology Liu, Yang Lai, Qiliang Shao, Zongze Genome-Based Analysis Reveals the Taxonomy and Diversity of the Family Idiomarinaceae |
title | Genome-Based Analysis Reveals the Taxonomy and Diversity of the Family Idiomarinaceae |
title_full | Genome-Based Analysis Reveals the Taxonomy and Diversity of the Family Idiomarinaceae |
title_fullStr | Genome-Based Analysis Reveals the Taxonomy and Diversity of the Family Idiomarinaceae |
title_full_unstemmed | Genome-Based Analysis Reveals the Taxonomy and Diversity of the Family Idiomarinaceae |
title_short | Genome-Based Analysis Reveals the Taxonomy and Diversity of the Family Idiomarinaceae |
title_sort | genome-based analysis reveals the taxonomy and diversity of the family idiomarinaceae |
topic | Microbiology |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6193092/ https://www.ncbi.nlm.nih.gov/pubmed/30364313 http://dx.doi.org/10.3389/fmicb.2018.02453 |
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