Insights into phage-bacteria interaction in cold seep <i>Gigantidas platifrons</i> through metagenomics and transcriptome analyses

doi:10.1038/s41598-024-61272-3

	*Insights into phage-bacteria interaction in cold seep Gigantidas platifrons* through metagenomics and transcriptome analyses**
	Zhang, Yan 1,2; Chen, Hao1,2 ; Lian, Chao 1,2; Cao, Lei1,2 ; Guo, Yang1,2 ; Wang, Minxiao 1,2; Zhong, Zhaoshan1,2 ; Li, Mengna 1,2,3; Zhang, Huan 1,2,3; Li, Chaolun1,2,4,5,6
	2024-05-08
发表期刊	SCIENTIFIC REPORTS
ISSN	2045-2322
卷号	14 期号:1 页码:12
通讯作者	Wang, Minxiao([email protected]) ; Li, Chaolun([email protected])
摘要	Viruses are crucial for regulating deep-sea microbial communities and biogeochemical cycles. However, their roles are still less characterized in deep-sea holobionts. Bathymodioline mussels are endemic species inhabiting cold seeps and harboring endosymbionts in gill epithelial cells for nutrition. This study unveiled a diverse array of viruses in the gill tissues of Gigantidas platifrons mussels and analyzed the viral metagenome and transcriptome from the gill tissues of Gigantidas platifrons mussels collected from a cold seep in the South Sea. The mussel gills contained various viruses including Baculoviridae, Rountreeviridae, Myoviridae and Siphovirdae, but the active viromes were Myoviridae, Siphoviridae, and Podoviridae belonging to the order Caudovirales. The overall viral community structure showed significant variation among environments with different methane concentrations. Transcriptome analysis indicated high expression of viral structural genes, integrase, and restriction endonuclease genes in a high methane concentration environment, suggesting frequent virus infection and replication. Furthermore, two viruses (GP-phage-contig14 and GP-phage-contig72) interacted with Gigantidas platifrons methanotrophic gill symbionts (bathymodiolin mussels host intracellular methanotrophic Gammaproteobacteria in their gills), showing high expression levels, and have huge different expression in different methane concentrations. Additionally, single-stranded DNA viruses may play a potential auxiliary role in the virus-host interaction using indirect bioinformatics methods. Moreover, the Cro and DNA methylase genes had phylogenetic similarity between the virus and Gigantidas platifrons methanotrophic gill symbionts. This study also explored a variety of viruses in the gill tissues of Gigantidas platifrons and revealed that bacteria interacted with the viruses during the symbiosis with Gigantidas platifrons. This study provides fundamental insights into the interplay of microorganisms within Gigantidas platifrons mussels in deep sea.
关键词	Viruses Gigantidas platifrons Metagenome Transcriptome Virus-host interaction
DOI	10.1038/s41598-024-61272-3
收录类别	SCI
语种	英语
资助项目	Laoshan Laboratory[2022QNLM030004]; National Natural Science Foundation of China[42030407]; National Natural Science Foundation of China[42106134]; National Natural Science Foundation of China[42076091]; National Natural Science Foundation of China[42221005]; Key Research Program of Frontier Sciences[ZDBS-LY-DQC032]; Strategic Priority Research Program of the Chinese Academy of Sciences[XDA22050303]; Strategic Priority Research Program of the Chinese Academy of Sciences[XDB42020401]
WOS研究方向	Science & Technology - Other Topics
WOS类目	Multidisciplinary Sciences
WOS记录号	WOS:001216508100056
出版者	NATURE PORTFOLIO
WOS关键词	DEEP-SEA SEDIMENTS ; COMMUNITIES ; OXIDATION ; ALIGNMENT ; HABITAT ; VIRUSES ; MUSSELS ; GENES ; OCEAN ; VENT
引用统计
文献类型	期刊论文
条目标识符	http://ir.qdio.ac.cn/handle/337002/185881
专题	深海极端环境与生命过程研究中心海洋生态与环境科学重点实验室
通讯作者	Wang, Minxiao; Li, Chaolun
作者单位	1.Chinese Acad Sci, Ctr Deep Sea Res, Inst Oceanol, Qingdao 266071, Peoples R China 2.Chinese Acad Sci, Inst Oceanol, CAS Key Lab Marine Ecol & Environm Sci, Qingdao 266071, Peoples R China 3.Natl Deep Sea Ctr, Qingdao 266071, Peoples R China 4.Laoshan Lab, Lab Marine Ecol & Environm Sci, Qingdao 266237, Peoples R China 5.Chinese Acad Sci, South China Sea Inst Oceanol, Guangzhou 510301, Peoples R China 6.Univ Chinese Acad Sci, Beijing 100049, Peoples R China
第一作者单位	中国科学院海洋研究所; 海洋生态与环境科学重点实验室
通讯作者单位	中国科学院海洋研究所; 海洋生态与环境科学重点实验室
推荐引用方式 GB/T 7714	Zhang, Yan,Chen, Hao,Lian, Chao,et al. Insights into phage-bacteria interaction in cold seep Gigantidas platifrons through metagenomics and transcriptome analyses[J]. SCIENTIFIC REPORTS,2024,14(1):12.
APA	Zhang, Yan.,Chen, Hao.,Lian, Chao.,Cao, Lei.,Guo, Yang.,...&Li, Chaolun.(2024).Insights into phage-bacteria interaction in cold seep Gigantidas platifrons through metagenomics and transcriptome analyses.SCIENTIFIC REPORTS,14(1),12.
MLA	Zhang, Yan,et al."Insights into phage-bacteria interaction in cold seep Gigantidas platifrons through metagenomics and transcriptome analyses".SCIENTIFIC REPORTS 14.1(2024):12.