Complete genome sequencing and analysis revealed the nitrogen utilization strategy of a novel Acuticoccus species isolated from surface water of the Indian Ocean

Jie Shi; Yufeng Zeng; Huan Wang; Yuanyuan Niu; Peiqing He; Hao Chen

doi:10.1016/j.margen.2022.100971

Complete genome sequencing and analysis revealed the nitrogen utilization strategy of a novel Acuticoccus species isolated from surface water of the Indian Ocean

Mar Genomics. 2022 Oct:65:100971. doi: 10.1016/j.margen.2022.100971. Epub 2022 Jul 19.

Authors

Jie Shi¹, Yufeng Zeng¹, Huan Wang¹, Yuanyuan Niu¹, Peiqing He², Hao Chen³

Affiliations

¹ Key Laboratory of Science and Technology for Marine Ecology and Environment, First Institute of Oceanography, Ministry of Natural Resources, 6 Xianxialing Road, Qingdao 266061, China; Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology, Qingdao 266071, China.
² Key Laboratory of Science and Technology for Marine Ecology and Environment, First Institute of Oceanography, Ministry of Natural Resources, 6 Xianxialing Road, Qingdao 266061, China; Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology, Qingdao 266071, China. Electronic address: hepeiqing@fio.org.cn.
³ Key Laboratory of Science and Technology for Marine Ecology and Environment, First Institute of Oceanography, Ministry of Natural Resources, 6 Xianxialing Road, Qingdao 266061, China; Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology, Qingdao 266071, China. Electronic address: hchen@fio.org.cn.

PMID: 36096632
DOI: 10.1016/j.margen.2022.100971

Abstract

Acuticoccus sp. I52.16.1 was isolated from 100 m water depth from the Indian Ocean, and presented a novel Acuticoccus species belonging to the family Acuticoccaceae, class Alphaproteobacteria. The strain I52.16.1 displayed the activities of nitrate reductase, nitrite reductase, and urease. The genome of Acuticoccus sp. I52.16.1 consisted of a circular chromosome (5, 134, 086bp) with a G + C content of 69.7 mol%. The predicted number of coding genes was 4935, including 6 rRNA, 47 tRNA, and 2 sRNA. The 16S rDNA sequence displayed the maximum similarity of 97.58% with Acuticoccus yangtzensis JL1095^T, followed by Acuticoccus sediminis PTG4-2^T (97.05%), Acuticoccus kandeliae J103^T (96.52%), and Acuticoccus mangrove B2012^T (95.85%). Acuticoccus sp. I52.16.1 contained clades of genes involved in assimilating ammonium, nitrate, nitrite, and simple organic nitrogen compounds, but lacked the pathway for dissimilatory denitrification. Two distinct types of ureases were also detected, suggesting genetic heterogeneity. This study provided insight into the nitrogen metabolism strategies of heterotrophic bacteria in the oligotrophic ocean surface.

Keywords: Acuticoccus sp.; Nitrogen utilization; Surface water; The Indian Ocean.

MeSH terms

Base Composition
Indian Ocean
Nitrogen* / metabolism
Water*
Whole Genome Sequencing

Substances

Water
Nitrogen