Complete genome sequence and Carbohydrate Active Enzymes (CAZymes) repertoire of Gilvimarinus sp. DA14 isolated from the South China Sea

Qun-Jian Yin; Hong-Zhi Tang; Fang-Chao Zhu; Xu-Yang Chen; De-Wei Cheng; Li-Chang Tang; Xiao-Qing Qi; Xue-Gong Li

doi:10.1016/j.margen.2022.100982

Complete genome sequence and Carbohydrate Active Enzymes (CAZymes) repertoire of Gilvimarinus sp. DA14 isolated from the South China Sea

Mar Genomics. 2022 Oct:65:100982. doi: 10.1016/j.margen.2022.100982. Epub 2022 Aug 27.

Authors

Qun-Jian Yin¹, Hong-Zhi Tang², Fang-Chao Zhu³, Xu-Yang Chen³, De-Wei Cheng³, Li-Chang Tang⁴, Xiao-Qing Qi⁵, Xue-Gong Li⁶

Affiliations

¹ Fourth Institute of Oceanography, Ministry of Natural Resources, Beihai, China; Key Laboratory of Tropical Marine Ecosystem and Bioresource, Fourth Institute of Oceanography, Ministry of Natural Resources, Beihai, China; Guangxi Key Laboratory of Beibu Gulf Marine Resources, Environment and Sustainable Development, Fourth Institute of Oceanography, Ministry of Natural Resources, Beihai, China. Electronic address: yinqunjian@4io.org.cn.
² Fourth Institute of Oceanography, Ministry of Natural Resources, Beihai, China.
³ Fourth Institute of Oceanography, Ministry of Natural Resources, Beihai, China; Key Laboratory of Tropical Marine Ecosystem and Bioresource, Fourth Institute of Oceanography, Ministry of Natural Resources, Beihai, China; Guangxi Key Laboratory of Beibu Gulf Marine Resources, Environment and Sustainable Development, Fourth Institute of Oceanography, Ministry of Natural Resources, Beihai, China.
⁴ Beihai Food & Drug Inspection and Testing Institute, Beihai, China.
⁵ Laboratory of Deep-sea Microbial Cell Biology, Institute of Deep-sea Science and Engineering, Chinese Academy of Sciences, Sanya, China.
⁶ Laboratory of Deep-sea Microbial Cell Biology, Institute of Deep-sea Science and Engineering, Chinese Academy of Sciences, Sanya, China. Electronic address: xuegongli@idsse.ac.cn.

PMID: 36096633
DOI: 10.1016/j.margen.2022.100982

Abstract

Gilvimarinus sp. DA14, a putative new species isolated from mangrove sediment in the South China Sea (Beihai, Guangxi province), is an aerobic and heterotrophic agar degrading bacterium. Here, we present the complete genome sequence of strain DA14, which comprises 3.96 Mb sequences with 53.39% GC content. In total, 3391 CDSs, 6 rRNA genes and 44 tRNA genes were obtained. Genomic analysis of strain DA14 revealed that 218 CAZymes classes were identified and they were organized in 371 CAZymes in PULs involved in polysaccharides degradation, transport and regulation. Further, we performed the genome comparison among Gilvimarinus strains and analysis the diversity of CAZymes and PULs. Meanwhile, ability of agar and alginate degradation in strain DA14 were analyzed. This study represents a thorough genomic characterization of CAZymes repertoire of Gilvimarinus, provides insight into diversity of polysaccharide degrading enzymes existing in Gilvimarinus sp. DA14 and their biotechnological applications.

Keywords: CAZymes; Genome sequence; Gilvimarinus; PULs; South China Sea.

MeSH terms

Agar / metabolism
China
Gammaproteobacteria* / genetics
Genome, Bacterial*
Sequence Analysis, DNA

Substances

Agar