Viruses in deep-sea cold seep sediments harbor diverse survival mechanisms and remain genetically conserved within species

doi:10.1038/s41396-023-01491-0

CORC > 深海科学与工程研究所 > 中国科学院深海科学与工程研究所 > 深海科学研究部 > 深海地球物理与资源研究室

	Viruses in deep-sea cold seep sediments harbor diverse survival mechanisms and remain genetically conserved within species
	Peng, Yongyi 7,8; Lu, Zijian 6; Pan, Donald 5; Shi, Ling-Dong 4; Zhao, Zhao 3,7; Liu, Qing 7; Zhang, Chuwen 8; Jia, Kuntong 7; Li, Jiwei 2; Hubert, Casey R. J.1
刊名	ISME JOURNAL
	2023-08-12
页码	11
ISSN号	1751-7362
DOI	10.1038/s41396-023-01491-0
通讯作者	Dong, Xiyang(dongxiyang@tio.org.cn)
英文摘要	Deep sea cold seep sediments have been discovered to harbor novel, abundant, and diverse bacterial and archaeal viruses. However, little is known about viral genetic features and evolutionary patterns in these environments. Here, we examined the evolutionary ecology of viruses across active and extinct seep stages in the area of Haima cold seeps in the South China Sea. A total of 338 viral operational taxonomic units are identified and linked to 36 bacterial and archaeal phyla. The dynamics of host-virus interactions are informed by diverse antiviral defense systems across 43 families found in 487 microbial genomes. Cold seep viruses are predicted to harbor diverse adaptive strategies to persist in this environment, including counter-defense systems, auxiliary metabolic genes, reverse transcriptases, and alternative genetic code assignments. Extremely low nucleotide diversity is observed in cold seep viral populations, being influenced by factors including microbial host, sediment depth, and cold seep stage. Most cold seep viral genes are under strong purifying selection with trajectories that differ depending on whether cold seeps are active or extinct. This work sheds light on the understanding of environmental adaptation mechanisms and evolutionary patterns of viruses in the sub-seafloor biosphere.
资助项目	Scientific Research Foundation of Third Institute of Oceanography , MNR[2023022] ; Scientific Research Foundation of Third Institute of Oceanography , MNR[2022025] ; National Key Research and Development Program of China[2022YFC2805500] ; Natural Science Foundation of Fujian Province[2023J06042] ; State Key Laboratory of Marine Geology, Tongji University[MGK202303] ; China Postdoctoral Science Foundation[2022M723709]
WOS关键词	ALIGNMENT ; BACTERIA ; SYSTEM ; HOSTS
WOS研究方向	Environmental Sciences & Ecology ; Microbiology
语种	英语
出版者	SPRINGERNATURE
WOS记录号	WOS:001046965700001
资助机构	Scientific Research Foundation of Third Institute of Oceanography , MNR ; National Key Research and Development Program of China ; Natural Science Foundation of Fujian Province ; State Key Laboratory of Marine Geology, Tongji University ; China Postdoctoral Science Foundation
内容类型	期刊论文
源URL	[http://ir.idsse.ac.cn/handle/183446/10448]
专题	深海科学研究部_深海地球物理与资源研究室
通讯作者	Dong, Xiyang
作者单位	1.Univ Calgary, Dept Biol Sci, Calgary, AB 214, Canada 2.Chinese Acad Sci, Inst Deep Sea Sci & Engn, Sanya 572000, Peoples R China 3.Southern Marine Sci & Engn Guangdong Lab Zhuhai, Zhuhai 519000, Peoples R China 4.Zhejiang Univ, Coll Environm & Resource Sci, Hangzhou 310058, Peoples R China 5.Shanghai Jiao Tong Univ, Sch Oceanog, Shanghai 200030, Peoples R China 6.Chinese Acad Sci, South China Sea Inst Oceanol, Guangzhou 510301, Peoples R China 7.Sun Yat Sen Univ, Sch Marine Sci, Zhuhai 519082, Peoples R China 8.Minist Nat Resources, Inst Oceanog 3, Key Lab Marine Genet Resources, Xiamen 361005, Peoples R China
推荐引用方式 GB/T 7714	Peng, Yongyi,Lu, Zijian,Pan, Donald,et al. Viruses in deep-sea cold seep sediments harbor diverse survival mechanisms and remain genetically conserved within species[J]. ISME JOURNAL,2023:11.
APA	Peng, Yongyi.,Lu, Zijian.,Pan, Donald.,Shi, Ling-Dong.,Zhao, Zhao.,...&Dong, Xiyang.(2023).Viruses in deep-sea cold seep sediments harbor diverse survival mechanisms and remain genetically conserved within species.ISME JOURNAL,11.
MLA	Peng, Yongyi,et al."Viruses in deep-sea cold seep sediments harbor diverse survival mechanisms and remain genetically conserved within species".ISME JOURNAL (2023):11.