Nitrincola tapanii sp. nov., a novel alkaliphilic bacterium from An Indian Soda Lake

Joshi, Amaraja; Thite, Sonia; Dhotre, Dhiraj; Moorthy, Manju; Joseph, Neetha; Ramana, V. Venkata; Shouche, Yogesh S.

doi:10.1099/ijsem.0.003883

Cited by 15 publications

(4 citation statements)

References 18 publications

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“…Meanwhile, MAG 012 clustered closely to Nitrincola lacisaponensis , and appears to belong to the same genus (Figure 5). Genus Nitrincola is composed of different haloalkaliphilic bacterial species belonging to family Oceanospirillaceae , with several of its members having been isolated from soda pans and lakes (Joshi et al ., 2020; Borsodi et al ., 2017). Lastly, MAG 015 paired with Dethiobacter alkaliphus AHT 1 in the phylogenetic tree.…”

Section: Resultsmentioning

confidence: 99%

Metagenome-assembled genomes provide insight into the microbial taxonomy and ecology of the Buhera Soda Pans, Zimbabwe

Mangoma,

Zhou,

Ncube

2024

Preprint

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The use of metagenomics has substantially improved our understanding of the taxonomy, phylogeny and ecology of extreme environment microbiomes. Advances in bioinformatics now permit the reconstruction of almost intact microbial genomes, called metagenome-assembled genomes (MAGs), from metagenomic sequence data, allowing for more precise cell-level taxonomic, phylogenetic and functional profiling of uncultured extremophiles. Here, we report on the recovery and characterisation of metagenome-assembled genomes from the Buhera soda pans located in eastern Zimbabwe. This ecosystem has not been studied despite its unique geochemistry and potential as a habitat for unique microorganisms. Metagenomic DNA from the soda pan was sequenced using the DNA Nanoball Sequencing (DNBSEQR) technique. Sequence analysis, done on the Knowledgebase (KBase) platform, involved quality assessment, read assembly, contig binning, and MAG extraction. The MAGs were subjected to taxonomic placement, phylogenetic profiling and functional annotation in order to establish their possible ecological roles in the soda pan ecosystem. A total of 16 bacterial MAGs of medium to high quality were recovered, all distributed among five phyla dominated by Proteobacteria and Firmicutes. Of the ten MAGs that were taxonomically classified up to genus level, five of them belonged to the halophilic/haloalkaliphilic genera Alkalibacterium, Vibrio, Thioalkalivibrio, Cecembia and Nitrincola. Functional profiling revealed the use of diverse carbohydrate-metabolising pathways among the MAGs, with glycolysis and the pentose phosphate pathways appearing to be key pathways in this ecosystem. Several MAGs harboured both sulphur/sulphate reduction and respiratory pathways, suggesting a possible mechanism of energy generation through sulphur/ suphate respiration. In conclusion, this study revealed a highly taxonomically and functionally diverse microbial community in the soda pans, dominated by halophilic and haloalkaliphilic bacteria.

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Section: Resultsmentioning

confidence: 99%

Metagenome-assembled genomes provide insight into the microbial taxonomy and ecology of the Buhera Soda Pans, Zimbabwe

Mangoma,

Zhou,

Ncube

2024

Preprint

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“…There were also some Nitrincola stains isolated from haloalkaline soda lakes located worldwide in warm arid and semiarid areas [6–9]. Members of the genus Nitrincola are reported to be motile with a single polar flagellum, facultatively anaerobic, alkaliphilic (growing optimally at pH 8.0–10.0), chemoorganotrophic, oxidase-positive and catalase-positive [1–5]. Here, we describe a slightly halophilic but non-alkaliphilic strain, KXZD1103 T , which was isolated from the sediment collected at a cold seep field.…”

Section: Full-textmentioning

confidence: 97%

“… Nitrincola lacisaponensis 4CA T , was first isolated from a decomposing wood taken from the shore of Soap Lake, a saline and alkaline lake in the USA [1]. Nitrincola alkalisediminis MEB087 T and Nitrincola tapanii MEB193 T were isolated from sediment samples of alkaline Lonar Lake in Maharashtra, India [3, 4]. Nitrincola alkalilacustris ZV-19 T and Nitrincola schmidtii R4-8 T were isolated from soda pans located in the Kiskunsag National Park, Hungary [2].…”

Section: Full-textmentioning

confidence: 99%

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Nitrincola iocasae sp. nov., a bacterium isolated from sediment collected at a cold seep field in the South China Sea

Zhang

Wang

Chen

et al. 2020

International Journal of Systematic and Evolutionary Microbiology

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A novel bacterium, designated strain KXZD1103T, was isolated from sediment collected at a cold seep field of the Formosa Ridge in the South China Sea. Cells were Gram-stain-negative, facultatively anaerobic, motile, oxidase- and catalase-positive, and grew optimally at 28 °C, pH 6.0–pH 7.0 and in the presence of 1–3 % (w/v) NaCl. The major cellular fatty acids were summed feature 8 (C18 : 1 ω7c/C18 : 1 ω6c), summed feature 3 (C16 : 1 ω7c/C16 : 1 ω6c) and C16 : 0. The major respiratory ubiquinone was Q-8. The predominant polar lipids were diphosphatidylglycerol, phosphatidylethanolamine and phosphatidylglycerol. Analysis of 16S rRNA gene sequences revealed that strain KXZD1103T grouped with members of the genus Nitrincola , with Nitrincola lacisaponensis 4CAT (98.1 % sequence similarity) and Nitrincola schmidtii R4-8T (97.7 %) as its closest neighbours. Genome sequencing revealed a genome size of 4.17 Mb and a DNA G+C content of 50.1 %. Genomic average nucleotide identity values for strain KXZD1103T with the type strains within the genus Nitrincola ranged from 71.0 to 75.7 %, while the in silico DNA–DNA hybridization values for strain KXZD1103T with these strains ranged from 16.1 to 21.6 %. On the basis of the results of phylogenetic, phenotypic and chemotaxonomic analyses, strain KXZD1103T is considered to represent a novel species of the genus Nitrincola , for which the name Nitrincola iocasae sp. nov. is proposed. The type strain is KXZD1103T (=KCTC 72678T=MCCC 1K04283T).

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Alkaliphilic, Alkalitolerant Microorganisms

Kanekar¹,

Kanekar²

2022

Microorganisms for Sustainability

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Nitrincola tapanii sp. nov., a novel alkaliphilic bacterium from An Indian Soda Lake

Cited by 15 publications

References 18 publications

Metagenome-assembled genomes provide insight into the microbial taxonomy and ecology of the Buhera Soda Pans, Zimbabwe

Metagenome-assembled genomes provide insight into the microbial taxonomy and ecology of the Buhera Soda Pans, Zimbabwe

Nitrincola iocasae sp. nov., a bacterium isolated from sediment collected at a cold seep field in the South China Sea

Alkaliphilic, Alkalitolerant Microorganisms

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