Genomic analysis of Vibrio sp. D3 reveals its role in marine sulfur cycling.

Hui-Hui Fu, Yu-Zhong Zhang, Fei-Fei Li, Na Wang, Zhen-Kun Li, Ming-Chen Wang, Jia-Rong Liu, Zhi-Qing Wang

Journal: Marine genomics 2025;80():101181

PMID: 39947123

Full Text on Elsevier Science View on PubMed

Abstract

Dimethylsulfoniopropionate (DMSP) is an important organosulfur compound, with key roles in global carbon and sulfur cycling, stress tolerance, chemotaxis, and, potentially, climate regulation. The strain Vibrio sp. D3 was isolated from the surface seawater samples in Qingdao coastal area, which could grow on DMSP as sole carbon source. Here, we report the complete genome sequence of strain D3 and analyzed its genomic characteristics related to the sulfur metabolism, especially DMSP. The genome of strain D3 contains two circular chromosomes of total 5,104,020 bp with a mean GC content of 44.87 %. DMSP transporter gene bccT and acryloy-CoA reductase gene acuI, which is essential in DMSP cleavage, are identified in the genome of Vibrio sp. D3. Potential DMSP demethylase gene dmdA (26.07 %, amino acid sequence identity) and DMSP lyase gene dddX (26.32 %, amino acid sequence identity) are predicted in the genome of strain D3, whose functions need further experimental verification. Vibrio sp. D3 also contains -Met gamma-lyase (MegL) to generate MeSH from -Met and complete assimilatory sulfate reduction pathway. Together, the genome of strain D3 reveals the possible DMSP catabolic pathways and supports its role in sulfur cycling.

Address: MOE Key Laboratory of Evolution and Marine Biodiversity, Frontiers Science Center for Deep Ocean Multispheres and Earth System & College of Marine Life Sciences, Ocean University of China, Qingdao 266003, China; Laboratory for Marine Biology and Biotechnology, Qingdao Marine Science and Technology Center, Qingdao 266373, China.; MOE Key Laboratory of Evolution and Marine Biodiversity, Frontiers Science Center for Deep Ocean Multispheres and Earth System & College of Marine Life Sciences, Ocean University of China, Qingdao 266003, China; Laboratory for Marine Biology and Biotechnology, Qingdao Marine Science and Technology Center, Qingdao 266373, China; State Key Laboratory of Microbial Technology, Marine Biotechnology Research Center, Shandong University, Qingdao 266237, China; Joint Research Center for Marine Microbial Science and Technology, Shandong University and Ocean University of China, Qingdao 266003, China.; MOE Key Laboratory of Evolution and Marine Biodiversity, Frontiers Science Center for Deep Ocean Multispheres and Earth System & College of Marine Life Sciences, Ocean University of China, Qingdao 266003, China; Laboratory for Marine Biology and Biotechnology, Qingdao Marine Science and Technology Center, Qingdao 266373, China. Electronic address: [email protected].

DOI: 10.1016/j.margen.2025.101181

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MeSH Terms: Vibrio, Genome, Bacterial, Sulfur, Seawater, Sulfonium Compounds