Genome analysis of vB_SupP_AX, a novel N4-like phage infecting Sulfitobacter

Yundan Liu¹, Chengrui Zhu², Yantao Liang^{3

4}, Andrew McMinn^{1

5}, Kaiyang Zheng¹, Ziyue Wang¹, Hongmin Wang¹, Linyi Ren¹, Hongbing Shao^{1

6}, Yeong Yik Sung^{6

7}, Wen Jye Mok^{6

7}, Li Lian Wong^{6

7}, Min Wang^{8

9

10

11}

Affiliations

¹ College of Marine Life Sciences, Institute of Evolution and Marine Biodiversity, MoE Laboratory of Evolution and Marine Biodiversity, Frontiers Science Center for Deep Ocean Multispheres and Earth System, Center for Ocean Carbon Neutrality, Ocean University of China, Qingdao, China.
² Haide College, Ocean University of China, Qingdao, China.
³ College of Marine Life Sciences, Institute of Evolution and Marine Biodiversity, MoE Laboratory of Evolution and Marine Biodiversity, Frontiers Science Center for Deep Ocean Multispheres and Earth System, Center for Ocean Carbon Neutrality, Ocean University of China, Qingdao, China. liangyantao@ouc.edu.cn.
⁴ UMT-OUC Joint Centre for Marine Studies, Qingdao, China. liangyantao@ouc.edu.cn.
⁵ Institute for Marine and Antarctic Studies, University of Tasmania, Hobart, TAS, Australia.
⁶ UMT-OUC Joint Centre for Marine Studies, Qingdao, China.
⁷ Institute of Marine Biotechnology, Universiti Malaysia Terengganu (UMT), Kuala Nerus, Malaysia.
⁸ College of Marine Life Sciences, Institute of Evolution and Marine Biodiversity, MoE Laboratory of Evolution and Marine Biodiversity, Frontiers Science Center for Deep Ocean Multispheres and Earth System, Center for Ocean Carbon Neutrality, Ocean University of China, Qingdao, China. mingwang@ouc.edu.cn.
⁹ Haide College, Ocean University of China, Qingdao, China. mingwang@ouc.edu.cn.
¹⁰ UMT-OUC Joint Centre for Marine Studies, Qingdao, China. mingwang@ouc.edu.cn.
¹¹ The Affiliated Hospital of Qingdao University, Qingdao, China. mingwang@ouc.edu.cn.

PMID: 38190086
DOI: 10.1007/s10123-023-00476-5

Genome analysis of vB_SupP_AX, a novel N4-like phage infecting Sulfitobacter

Yundan Liu et al. Int Microbiol. 2024 Aug.

. 2024 Aug;27(4):1297-1306.

doi: 10.1007/s10123-023-00476-5. Epub 2024 Jan 8.

Authors

Affiliations

¹ College of Marine Life Sciences, Institute of Evolution and Marine Biodiversity, MoE Laboratory of Evolution and Marine Biodiversity, Frontiers Science Center for Deep Ocean Multispheres and Earth System, Center for Ocean Carbon Neutrality, Ocean University of China, Qingdao, China.
² Haide College, Ocean University of China, Qingdao, China.
³ College of Marine Life Sciences, Institute of Evolution and Marine Biodiversity, MoE Laboratory of Evolution and Marine Biodiversity, Frontiers Science Center for Deep Ocean Multispheres and Earth System, Center for Ocean Carbon Neutrality, Ocean University of China, Qingdao, China. liangyantao@ouc.edu.cn.
⁴ UMT-OUC Joint Centre for Marine Studies, Qingdao, China. liangyantao@ouc.edu.cn.
⁵ Institute for Marine and Antarctic Studies, University of Tasmania, Hobart, TAS, Australia.
⁶ UMT-OUC Joint Centre for Marine Studies, Qingdao, China.
⁷ Institute of Marine Biotechnology, Universiti Malaysia Terengganu (UMT), Kuala Nerus, Malaysia.
⁸ College of Marine Life Sciences, Institute of Evolution and Marine Biodiversity, MoE Laboratory of Evolution and Marine Biodiversity, Frontiers Science Center for Deep Ocean Multispheres and Earth System, Center for Ocean Carbon Neutrality, Ocean University of China, Qingdao, China. mingwang@ouc.edu.cn.
⁹ Haide College, Ocean University of China, Qingdao, China. mingwang@ouc.edu.cn.
¹⁰ UMT-OUC Joint Centre for Marine Studies, Qingdao, China. mingwang@ouc.edu.cn.
¹¹ The Affiliated Hospital of Qingdao University, Qingdao, China. mingwang@ouc.edu.cn.

PMID: 38190086
DOI: 10.1007/s10123-023-00476-5

Abstract

Sulfitobacter is a bacterium recognized for its production of AMP-independent sulfite oxidase, which is instrumental in the creation of sulfite biosensors. This capability underscores its ecological and economic relevance. In this study, we present a newly discovered phage, Sulfitobacter phage vB_SupP_AX, which was isolated from Maidao of Qingdao, China. The vB_SupP_AX genome is linear and double-stranded and measures 75,445 bp with a GC content of 49%. It encompasses four transfer RNA (tRNA) sequences and 79 open reading frames (ORFs), one of which is an auxiliary metabolic gene encoding thioredoxin. Consistent with other N4-like phages, vB_SupP_AX possesses three distinct RNA polymerases and is characterized by the presence of four tRNA molecules. Comparative genomic and phylogenetic analyses position vB_SupP_AX and three other viral genomes from the Integrated Microbial Genomes/Virus v4 database within the Rhodovirinae virus subfamily. The identification of vB_SupP_AX enhances our understanding of virus-host interactions within marine ecosystems.

Keywords: Sulfitobacter; Genomic and comparative genomic analysis; N4-like phage; Phage; Phylogenetic analysis.

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References

1. Aziz RK, Bartels D, Best AA, DeJongh M, Disz T, Edwards RA, …, Zagnitko O (2008) The RAST Server: rapid annotations using subsystems technology. BMC Genomics 9:75. https://doi.org/10.1186/1471-2164-9-75
1. Bailly-Bechet M, Vergassola M, Rocha E (2007) Causes for the intriguing presence of tRNAs in phages. Genome Res 17(10):1486–1495 - DOI - PubMed - PMC
1. Bar-On YM, Milo R (2019) The biomass composition of the oceans: a blueprint of our blue planet. Cell 179(7):1451–1454. https://doi.org/10.1016/j.cell.2019.11.018 - DOI - PubMed
1. Bastian M, Heymann S, Jacomy M (2009) Gephi: an open source software for exploring and manipulating networks. Proc Int AAAI Conf Web Soc Media 3(1):361–362. https://doi.org/10.1609/icwsm.v3i1.13937 - DOI
1. Bin Jang H, Bolduc B, Zablocki O, Kuhn JH, Roux S, Adriaenssens EM, …, Sullivan MB (2019) Taxonomic assignment of uncultivated prokaryotic virus genomes is enabled by gene-sharing networks. Nat Biotechnol 37(6):632–639. https://doi.org/10.1038/s41587-019-0100-8

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Genome analysis of vB_SupP_AX, a novel N4-like phage infecting Sulfitobacter

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Genome analysis of vB_SupP_AX, a novel N4-like phage infecting Sulfitobacter

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