期刊
GENOMICS
卷 111, 期 6, 页码 1604-1619出版社
ACADEMIC PRESS INC ELSEVIER SCIENCE
DOI: 10.1016/j.ygeno.2018.11.004
关键词
Arsenic; Groundwater; Achromobacter sp.; Whole genome sequencing; Proteomics; Pan-genomics; Niche adaptation
资金
- Council of Scientific and Industrial Research (CSIR), Govt. of India [38/1314/11/EMR II]
- Department of Science and Technology (DST), Govt. of India [DST/TM/WTI/2 K15/182]
- Indian Institute of Technology, Kharagpur [IIT/SRIC/BT/ODM/2015-16/141]
- INSPIRE fellowship scheme of Department of Science and Technology (DST), Govt. of India [IF 120832]
Whole genome sequence of arsenic (As) reducing, hydrocarbon metabolizing groundwater bacterium Achromobacter sp. KAs 3-5(T) was explored to understand the genomic basis of its As-ecophysiology and niche adaptation in aquifer environment. The genome (5.6 Mbp, 65.5 G + C mol %) encodes 4840 proteins, 1138 enzymes, 53 tRNAs, 11 rRNAs, 608 signal peptides, and 1.13% horizontally transferred genes. Presence of genes encoding cytosolic As5+-reduction (arsRCBH, ACR3), aromatics utilization (bph, naph, catABC, boxABCD, genACB), Fe-transformation (tonB, achromobactin, FUR, FeR), and denitrification (nar, nap) processes were observed and validated through proteomics. Phylogenomic analysis (< 90% ANI, < 50% DDH) confirmed strain KAs 3-5(T) to be a novel representative of the genus Achromobacter. An asymptotic open pan-genome (20,855 genes) and high correlation between genomic and ecological diversity suggested niche preference ability of this genus. Assemblage of species specific genes affiliated to transcription-regulation, membrane transport, and redox-transformation explained the strain's competitive survival strategies in As-rich oligotrophic groundwater.
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