Mosaic environment-driven evolution of the deep-sea mussel Gigantidas platifrons bacterial endosymbiont

doi:10.1186/s40168-023-01695-8

	Mosaic environment-driven evolution of the deep-sea mussel Gigantidas platifrons bacterial endosymbiont
	Sun, Yan 1,2,3; Wang, Minxiao 1,2,3; Cao, Lei1,2,3 ; Seim, Inge 4,5; Zhou, Li 1,2,3; Chen, Jianwei 6; Wang, Hao 1,2,3; Zhong, Zhaoshan1,2,3 ; Chen, Hao1,2,3 ; Fu, Lulu 1,2,3; Li, Mengna 1,2,3; Li, Chaolun1,2,3,7,8 ; Sun, Song1,2,3,8
	2023-11-16
发表期刊	MICROBIOME
ISSN	2049-2618
卷号	11 期号:1 页码:19
通讯作者	Li, Chaolun(lcl@qdio.ac.cn) ; Sun, Song(sunsong@qdio.ac.cn)
摘要	Background: The within-species diversity of symbiotic bacteria represents an important genetic resource for their environmental adaptation, especially for horizontally transmitted endosymbionts. Although strain-level intraspecies variation has recently been detected in many deep-sea endosymbionts, their ecological role in environmental adaptation, their genome evolution pattern under heterogeneous geochemical environments, and the underlying molecular forces remain unclear.Results: Here, we conducted a fine-scale metagenomic analysis of the deep-sea mussel Gigantidas platifrons bacterial endosymbiont collected from distinct habitats: hydrothermal vent and methane seep. Endosymbiont genomes were assembled using a pipeline that distinguishes within-species variation and revealed highly heterogeneous compositions in mussels from different habitats. Phylogenetic analysis separated the assemblies into three distinct environment-linked clades. Their functional differentiation follows a mosaic evolutionary pattern. Core genes, essential for central metabolic function and symbiosis, were conserved across all clades. Clade-specific genes associated with heavy metal resistance, pH homeostasis, and nitrate utilization exhibited signals of accelerated evolution. Notably, transposable elements and plasmids contributed to the genetic reshuffling of the symbiont genomes and likely accelerated adaptive evolution through pseudogenization and the introduction of new genes.Conclusions: The current study uncovers the environment-driven evolution of deep-sea symbionts mediated by mobile genetic elements. Its findings highlight a potentially common and critical role of within-species diversity in animal-microbiome symbioses.
关键词	Deep sea Horizontally transmitted endosymbionts Within-species diversity Mobile genetic elements Genome evolution Environmental adaptation
DOI	10.1186/s40168-023-01695-8
收录类别	SCI
语种	英语
资助项目	We thank the captains, crews, and remotely operated vehicle (ROV) pilots of the research vessel KEXUE for supporting the sample collections. We also thank Professor Shi Wang from the Ocean University of China for the great comments and sug
WOS研究方向	Microbiology
WOS类目	Microbiology
WOS记录号	WOS:001107127400001
出版者	BMC
WOS关键词	MOBILE GENETIC ELEMENTS ; GENOME ; TOOL ; TRANSMISSION ; RESISTANCE ; QUALITY ; KNOLL
引用统计
文献类型	期刊论文
条目标识符	http://ir.qdio.ac.cn/handle/337002/184077
专题	海洋生态与环境科学重点实验室深海极端环境与生命过程研究中心
通讯作者	Li, Chaolun; Sun, Song
作者单位	1.Chinese Acad Sci, Inst Oceanol, CAS Key Lab Marine Ecol & Environm Sci, Qingdao, Peoples R China 2.Chinese Acad Sci, Inst Oceanol, Ctr Deep Sea Res, Qingdao 266071, Peoples R China 3.Laoshan Lab, Lab Marine Ecol & Environm Sci, Qingdao 266237, Peoples R China 4.Nanjing Normal Univ, Coll Life Sci, Integrat Biol Lab, Nanjing 210046, Peoples R China 5.Queensland Univ Technol, Sch Biol & Environm Sci, Brisbane, Qld 4000, Australia 6.BGI, BGI Res Qingdao, Qingdao 266555, Peoples R China 7.Chinese Acad Sci, South China Sea Inst Oceanol, Guangzhou 510301, Peoples R China 8.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; 深海极端环境与生命过程研究中心
通讯作者单位	中国科学院海洋研究所; 深海极端环境与生命过程研究中心
推荐引用方式 GB/T 7714	Sun, Yan,Wang, Minxiao,Cao, Lei,et al. Mosaic environment-driven evolution of the deep-sea mussel Gigantidas platifrons bacterial endosymbiont[J]. MICROBIOME,2023,11(1):19.
APA	Sun, Yan.,Wang, Minxiao.,Cao, Lei.,Seim, Inge.,Zhou, Li.,...&Sun, Song.(2023).Mosaic environment-driven evolution of the deep-sea mussel Gigantidas platifrons bacterial endosymbiont.MICROBIOME,11(1),19.
MLA	Sun, Yan,et al."Mosaic environment-driven evolution of the deep-sea mussel Gigantidas platifrons bacterial endosymbiont".MICROBIOME 11.1(2023):19.

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