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...
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2018-10-01
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| Series: | Frontiers in Microbiology |
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| Online Access: | https://www.frontiersin.org/article/10.3389/fmicb.2018.02453/full |
| _version_ | 1828402189711704064 |
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| author | Yang Liu Yang Liu Qiliang Lai Qiliang Lai Zongze Shao Zongze Shao |
| author_facet | Yang Liu Yang Liu Qiliang Lai Qiliang Lai Zongze Shao Zongze Shao |
| author_sort | Yang Liu |
| collection | DOAJ |
| 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. |
| first_indexed | 2024-12-10T09:57:13Z |
| format | Article |
| id | doaj.art-ae18f09b1b5a4f8cba8e9ca4865709e0 |
| institution | Directory Open Access Journal |
| issn | 1664-302X |
| language | English |
| last_indexed | 2024-12-10T09:57:13Z |
| publishDate | 2018-10-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Microbiology |
| spelling | doaj.art-ae18f09b1b5a4f8cba8e9ca4865709e02022-12-22T01:53:27ZengFrontiers Media S.A.Frontiers in Microbiology1664-302X2018-10-01910.3389/fmicb.2018.02453416958Genome-Based Analysis Reveals the Taxonomy and Diversity of the Family IdiomarinaceaeYang Liu0Yang Liu1Qiliang Lai2Qiliang Lai3Zongze Shao4Zongze Shao5State Key Laboratory Breeding Base of Marine Genetic Resources, Key Laboratory of Marine Genetic Resources, Key Laboratory of Marine Genetic Resources of Fujian Province, Third Institute of Oceanography, State Oceanic Administration, Xiamen, ChinaLaboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao, ChinaState Key Laboratory Breeding Base of Marine Genetic Resources, Key Laboratory of Marine Genetic Resources, Key Laboratory of Marine Genetic Resources of Fujian Province, Third Institute of Oceanography, State Oceanic Administration, Xiamen, ChinaLaboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao, ChinaState Key Laboratory Breeding Base of Marine Genetic Resources, Key Laboratory of Marine Genetic Resources, Key Laboratory of Marine Genetic Resources of Fujian Province, Third Institute of Oceanography, State Oceanic Administration, Xiamen, ChinaLaboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao, ChinaIdiomarinaceae 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.https://www.frontiersin.org/article/10.3389/fmicb.2018.02453/fullIdiomarinaceaegenometaxonomydiversitydDDHANI |
| spellingShingle | Yang Liu Yang Liu Qiliang Lai Qiliang Lai Zongze Shao Zongze Shao Genome-Based Analysis Reveals the Taxonomy and Diversity of the Family Idiomarinaceae Frontiers in Microbiology Idiomarinaceae genome taxonomy diversity dDDH ANI |
| 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 | Idiomarinaceae genome taxonomy diversity dDDH ANI |
| url | https://www.frontiersin.org/article/10.3389/fmicb.2018.02453/full |
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