Aestuariivirga litoralis gen. nov., sp. nov., a proteobacterium isolated from a water sample, and proposal of Aestuariivirgaceae fam. nov.

Li, Xin; Salam, Nimaichand; Li, Jialing; Chen, Yi-Min; Yang, Ziwen; Han, Ming-Xian; Mou, Xiaozhen; Xiao, Min; Li, Wenjun

doi:10.1099/ijsem.0.003087

Cited by 14 publications

(11 citation statements)

References 47 publications

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“…We reinforce that 2.17 represents genomes with lower percentages of contamination. To complete these analyses, we also add 18 genomes [11,12,16,[18][19][20][21][22][23] deposited in public sequence repositories (Table 1), which were not explored deeply in the context of this investigation. Also according to MIMAG standards [14], these genomes were assigned with high-quality or medium-quality drafts (Table 1).…”

Section: Resultsmentioning

confidence: 99%

“…New taxa have been affiliated to the order Rhizobiales, which include the Aestuariivirgaceae (Rhizobiales) family proposed by [16] during the description and wholegenome-sequence of the Aestuariivirga litoralis species. This group was first described as part of an investigation to understand estuarine sediments' microbiome, highlighting significant phenotypic and genomic characterization findings.…”

Section: Introductionmentioning

confidence: 99%

“…This group was first described as part of an investigation to understand estuarine sediments' microbiome, highlighting significant phenotypic and genomic characterization findings. Furthermore, initial phylogeny analysis based on 16S rRNA and protein marker genes showed that his group should represent a new family [16]. However, an investigation using additional genomes is necessary to corroborate the monophyly of this group, once its phylogenetic position remains unclear.…”

Section: Introductionmentioning

confidence: 99%

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Genome-centric metagenomics reveals insights into the evolution and metabolism of a new free-living group in Rhizobiales

et al. 2021

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Background The Rhizobiales (Proteobacteria) order is an abundant and diverse group of microorganisms, being extensively studied for its lifestyle based on the association with plants, animals, and humans. New studies have demonstrated that the last common ancestor (LCA) of Rhizobiales had a free-living lifestyle, but the phylogenetic and metabolism characterization of basal lineages remains unclear. Here, we used a high-resolution phylogenomic approach to test the monophyly of the Aestuariivirgaceae family, a new taxonomic group of Rhizobiales. Furthermore, a deep metabolic investigation provided an overview of the main functional traits that can be associated with its lifestyle. We hypothesized that the presence of pathways (e.g., Glycolysis/Gluconeogenesis) and the absence of pathogenic genes would be associated with a free-living lifestyle in Aestuariivirgaceae. Results Using high-resolution phylogenomics approaches, our results revealed a clear separation of Aestuariivirgaceae into a distinct clade of other Rhizobiales family, suggesting a basal split early group and corroborate the monophyly of this group. A deep functional annotation indicated a metabolic versatility, which includes putative genes related to sugar degradation and aerobic respiration. Furthermore, many of these traits could reflect a basal metabolism and adaptations of Rhizobiales, as such the presence of Glycolysis/Gluconeogenesis pathway and the absence of pathogenicity genes, suggesting a free-living lifestyle in the Aestuariivirgaceae members. Conclusions Aestuariivirgaceae (Rhizobiales) family is a monophyletic taxon of the Rhizobiales with a free-living lifestyle and a versatile metabolism that allows these microorganisms to survive in the most diverse microbiomes, demonstrating their adaptability to living in systems with different conditions, such as extremely cold environments to tropical rivers.

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Section: Resultsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Genome-centric metagenomics reveals insights into the evolution and metabolism of a new free-living group in Rhizobiales

et al. 2021

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“…Water samples were collected from Pearl River Estuary (113 °39′36′′E, 22 °43′42′′N) at Guangzhou, in southern China. Isolation and purification of strain SYSU M00256-3 T were executed based on the method described by Li et al [5]. The strain was maintained on Marine Agar (MA) 2216E, and also preserved as cell suspensions in 20 % (v/v) glycerol at –80 °C.…”

Section: Full-textmentioning

confidence: 99%

“…Genomic DNA extraction and PCR amplification of the 16S rRNA gene from strain SYSU M00256-3 T were performed as described by Li et al [18]. Amplification of the 16S rRNA gene, purification, cloning, sequencing and assembly of the sequences were done as described by Li et al [5]. The assembled almost-complete 16S rRNA gene sequence was submitted to the EzBioCloud server database [19].…”

Section: Full-textmentioning

confidence: 99%

Roseibium aestuarii sp. nov., isolated from Pearl River Estuary

Duan

et al. 2020

International Journal of Systematic and Evolutionary Microbiology

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A novel bacterium, designated strain SYSU M00256-3 T , was isolated from a water sample collected from Pearl River Estuary at Guangzhou, PR China. Its taxonomic position was determined by using a polyphasic approach. Cells of the strain were Gramstaining-negative, motile, aerobic and rod-shaped with peritrichous flagella. It could grow at 15-45 °C, pH 4.0-10.0 and in the presence of 0-7.5 % (w/v) NaCl. The chemotaxonomic features of strain SYSU M00256-3 T included ubiquinone-10 (Q-10) as the sole respiratory quinone; phosphatidylcholine, phosphatidylmethylethanolamine, phosphatidylglycerol, diphosphatidylglycerol, phosphatidylethanolamine and an unidentified phospholipid as major polar lipids; summed feature 8 (C 18 : 1 ω7c and C 18 : 1 ω6c) as the predominant fatty acids (>70 %). On the basis of 16S rRNA gene sequence analysis, strain SYSU M00256-3 T was most closely related to the type strains of

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Microbial Communities’ Characterization in Urban Recreational Surface Waters Using Next Generation Sequencing

et al. 2021

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Aestuariivirga litoralis gen. nov., sp. nov., a proteobacterium isolated from a water sample, and proposal of Aestuariivirgaceae fam. nov.

Cited by 14 publications

References 47 publications

Genome-centric metagenomics reveals insights into the evolution and metabolism of a new free-living group in Rhizobiales

Genome-centric metagenomics reveals insights into the evolution and metabolism of a new free-living group in Rhizobiales

Roseibium aestuarii sp. nov., isolated from Pearl River Estuary

Microbial Communities’ Characterization in Urban Recreational Surface Waters Using Next Generation Sequencing

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