Comparative genomic analysis of selenium utilization traits in different marine environments

Muhammad Farukh

doi:10.1007/s12275-020-9250-0

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Comparative genomic analysis of selenium utilization traits in different marine environments: Muhammad Farukh; Journal of Microbiology 2020;58(2):113-122.
DOI: https://doi.org/10.1007/s12275-020-9250-0
Published online: January 29, 2020

Department of Biotechnology, School of Life Science and Technology, Huazhong University of Science and Technology, 1037 Luoyu Road, Hongshan District, Wuhan, 430074, P. R. China, Key Laboratory of Molecular Biophysics, Ministry of Education, Wuhan, Hubei, P. R. ChinaDepartment of Biotechnology, School of Life Science and Technology, Huazhong University of Science and Technology, 1037 Luoyu Road, Hongshan District, Wuhan, 430074, P. R. China, Key Laboratory of Molecular Biophysics, Ministry of Education, Wuhan, Hubei, P. R. China

Received: 21 May 2019 • Revised: 2 October 2019 • Accepted: 31 October 2019

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Abstract

Selenium (Se) is an essential trace element for many organisms, which is required in the biosynthesis of proteins with selenocysteine, tRNAs with selenouridine, and certain enzymes with Se as a cofactor. Recent large-scale metagenomics projects provide a unique opportunity for studying the global trends of Se utilization in marine environments. Here, we analyzed samples from different marine microbial communities, revealed by the Tara Oceans project, to characterize the Se utilization traits. We found that the selenophosphate synthetase gene, which defines the overall Se utilization, and Se utilization traits are present in all samples. Regions with samples rich and poor in Se utilization traits were categorized. From the analysis of environmental factors, the mesopelagic zone and high temperature (> 15°C) of water are favorable, while geographical location has little influence on Se utilization. All Se utilization traits showed a relatively independent occurrence. The taxonomic classification of Se traits shows that most of the sequences corresponding to Se utilization traits belong to the phylum Proteobacteria. Overall, our study provides useful insights into the general features of Se utilization in ocean samples and may help to understand the evolutionary dynamics of Se utilization in different marine environments.

Keywords: selenium utilization traits;Tara Oceans;metagenome;marine;Sec;SeU;Se-cofactor;SelD

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Comparative genomic analysis of selenium utilization traits in different marine environments

J. Microbiol. 2020;58(2):113-122. Published online January 29, 2020

DOI: https://doi.org/10.1007/s12275-020-9250-0

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