Genomic analysis of Microbacterium sediminis YLB-01T reveals backgrounds related to its deep-sea environment adaptation

Zhiwei Yi; Xiaorong Cao; Hong Li; Huahua Jian; Xiashutong Xu; Libo Yu; Xixiang Tang

doi:10.1016/j.margen.2020.100818

Genomic analysis of Microbacterium sediminis YLB-01^T reveals backgrounds related to its deep-sea environment adaptation

Mar Genomics. 2021 Apr:56:100818. doi: 10.1016/j.margen.2020.100818. Epub 2020 Sep 15.

Authors

Zhiwei Yi¹, Xiaorong Cao¹, Hong Li², Huahua Jian³, Xiashutong Xu¹, Libo Yu¹, Xixiang Tang⁴

Affiliations

¹ Key Laboratory of Marine Genetic Resources, Third Institute of Oceanography, Ministry of Natural Resources, Xiamen 361005, China.
² China National Accreditation Insititute for Conformity Assessment, No. 8 Nanhuashi Dajie Chongwen District, Beijing 10086, China.
³ State Key Laboratory of Microbial Metabolism, School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai 200240, China.
⁴ Key Laboratory of Marine Genetic Resources, Third Institute of Oceanography, Ministry of Natural Resources, Xiamen 361005, China; China Ocean Sample Respository (Biology), Xiamen 361005, China. Electronic address: tangxixiang@tio.org.cn.

PMID: 33632425
DOI: 10.1016/j.margen.2020.100818

Abstract

Microbacterium sediminis YLB-01^T, a piezotolerant and psychrotolerant actinomycete, was isolated from deep-sea sediment of the South-West Indian Ocean and could be a good model for understanding the adaptation of extremophiles to the benthic piezosphere. Here, we report the analysis of the complete genome sequence of strain YLB-01^T. The genome sequence consists of a single circular chromosome comprising 2,792,195 bp and a linear plasmid comprising 127,669 bp with G + C content of 71.76 and 68.49 mol%, respectively. In this regard, strain YLB-01^T possesses the smallest genome size but the highest G + C content among the genus Microbacterium sequenced to date. As the first complete genome sequence of the genus Microbacterium isolated from deep-sea environment, the strain YLB-01^T genome is unique or enriched in genes involved in xenobiotics biodegradation and metabolism, compatible solutes, and transposases, some of which might be related to bacterial enhancement of ecological fitness in the deep sea.

Keywords: Deep-sea adaptation; Genome; Microbacterium sediminis YLB-01(T); Piezotolerant and psychrotolerant.

MeSH terms

Adaptation, Biological / genetics*
Environment
Genome, Bacterial*
Geologic Sediments / microbiology*
Indian Ocean
Microbacterium / genetics
Whole Genome Sequencing

Supplementary concepts

Microbacterium sediminis