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Evidence of microbial reductive dehalogenation in deep-sea cold seeps and its implications for biogeochemical cycles

文献类型：期刊论文

作者Han, Yingchun5; Deng, Zhaochao3,6; Peng, Yongyi5,8; Peng, Jiaxue5,7; Cao, Lei9; Xu, Yangru3; Yang, Yi1; Zhou, Hao2; Zhang, Chen4; Zhang, Dongdong3
刊名MICROBIOME
出版日期2025-07-02
卷号13期号:1页码:22
ISSN号2049-2618
DOI10.1186/s40168-025-02147-1
通讯作者Zhang, Chunfang(zhangcf@zju.edu.cn) ; Dong, Xiyang(dongxiyang@tio.org.cn)
英文摘要BackgroundReductive dehalogenation is crucial for halogen cycling and environmental remediation, yet its ecological role is not completely understood, especially in deep-sea environments. To address this gap, we investigated the diversity and expression of genes encoding reductive dehalogenase catalytic subunits (RdhAs), and ecophysiology of potential organohalide reducers in deep-sea cold seeps, which are environments rich in halogenated compounds.ResultsThrough genome-resolved metagenomic analysis of 165 global cold seep sediment samples, 4 types of RdhA-like sequences were identified based on their features and phylogenetic relationships: prototypical respiratory, transmembrane respiratory, cytosolic, and a novel clade. Cold seeps were found to harbor a higher abundance of these rdhA-like genes compared to other marine sediments, highlighting their potential as microbial reductive dehalogenation hotspots. These rdhA-like genes are encoded by a wide range of microorganisms across 4 archaeal and 36 bacterial phyla, significantly expanding the known diversity of organohalide reducers. Halogen geochemistry, laboratory incubations, metatranscriptomic data, and metabolomic profiling confirmed the presence of organohalides at concentrations of up to 18 mg/g in these sediments and suggested the potential for microbial reductive dehalogenation. Our findings suggest that organohalide reducers in cold seep sediments may participate in diverse biogeochemical processes, as inferred from the presence of genes related to carbon, hydrogen, nitrogen, sulfur, and trace element cycling. Additionally, RdhA-like proteins from cold seeps have diverse N-terminal structures across different gene groups.ConclusionsThese findings collectively suggest that reductive dehalogenation is an important process in deep-sea environments, mediated by a diverse array of microbes and novel enzymes. The discovery of diverse and abundant rdhA-like genes, along with their genomic context and potential metabolic linkages, highlights the role of cold seeps as reservoirs of microbial diversity with possible implications for environmental remediation.DNS--MuKfbyrAEV9539UfPVideo AbstractConclusionsThese findings collectively suggest that reductive dehalogenation is an important process in deep-sea environments, mediated by a diverse array of microbes and novel enzymes. The discovery of diverse and abundant rdhA-like genes, along with their genomic context and potential metabolic linkages, highlights the role of cold seeps as reservoirs of microbial diversity with possible implications for environmental remediation.DNS--MuKfbyrAEV9539UfPVideo Abstract
WOS关键词MULTIPLE SEQUENCE ALIGNMENT ; EPOXYQUEUOSINE REDUCTASE ; DEHALOCOCCOIDES ; BIOSYNTHESIS ; DIVERSITY ; ALGORITHM ; SUGGESTS ; COMPLEX ; RATES
资助项目National Natural Science Foundation of China ; HPC Center of ZJU
WOS研究方向Microbiology
语种英语
WOS记录号WOS:001521880800001
出版者BMC
源URL[http://ir.qdio.ac.cn/handle/337002/202623]  
专题海洋研究所_深海极端环境与生命过程研究中心
通讯作者Zhang, Chunfang; Dong, Xiyang
作者单位1.Chinese Acad Sci, Inst Appl Ecol, Shenyang 110016, Peoples R China
2.Dalian Univ Technol, Sch Ocean Sci & Technol, Panjin 124221, Peoples R China
3.Zhejiang Univ, Inst Marine Biol & Pharmacol, Ocean Coll, Zhoushan 316021, Peoples R China
4.Univ Texas Hlth Sci Ctr, Dept Microbiol Immunol & Mol Genet, San Antonio, TX 78229 USA
5.Minist Nat Resources, Inst Oceanog 3, Key Lab Marine Genet Resources, Xiamen 361005, Peoples R China
6.Zhejiang Univ, Ocean Res Ctr Zhoushan, Zhoushan 316021, Peoples R China
7.Dalian Maritime Univ, Coll Environm Sci & Engn, Dalian 116026, Peoples R China
8.Monash Univ, Biomed Discovery Inst, Dept Microbiol, Monash, Vic 3800, Australia
9.Chinese Acad Sci, Inst Oceanol, Deep Sea Res Ctr, Qingdao 266000, Peoples R China
推荐引用方式
GB/T 7714		 Han, Yingchun,Deng, Zhaochao,Peng, Yongyi,et al. Evidence of microbial reductive dehalogenation in deep-sea cold seeps and its implications for biogeochemical cycles[J]. MICROBIOME,2025,13(1):22.
APA Han, Yingchun.,Deng, Zhaochao.,Peng, Yongyi.,Peng, Jiaxue.,Cao, Lei.,...&Dong, Xiyang.(2025).Evidence of microbial reductive dehalogenation in deep-sea cold seeps and its implications for biogeochemical cycles.MICROBIOME,13(1),22.
MLA Han, Yingchun,et al."Evidence of microbial reductive dehalogenation in deep-sea cold seeps and its implications for biogeochemical cycles".MICROBIOME 13.1(2025):22.

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来源：海洋研究所

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