Microbe-driven elemental cycling enables microbial adaptation to deep-sea ferromanganese nodule sediment fields

doi:10.1186/s40168-023-01601-2

IOCAS-IR > 海洋地质与环境重点实验室

	Microbe-driven elemental cycling enables microbial adaptation to deep-sea ferromanganese nodule sediment fields
	Zhang, Dechao 1,2,3; Li, Xudong 4,5; Wu, Yuehong 6,7; Xu, Xuewei 6,7; Liu, Yanxia 2,3,8; Shi, Benze1,2,3 ; Peng, Yujie 4,5; Dai, Dadong 4; Sha, Zhongli1,2,3 ; Zheng, Jinshui 4,5
	2023-07-25
发表期刊	MICROBIOME
ISSN	2049-2618
卷号	11 期号:1 页码:20
通讯作者	Sha, Zhongli([email protected]) ; Zheng, Jinshui([email protected])
摘要	Background Ferromanganese nodule-bearing deep-sea sediments cover vast areas of the ocean floor, representing a distinctive habitat in the abyss. These sediments harbor unique conditions characterized by high iron concentration and low degradable nutrient levels, which pose challenges to the survival and growth of most microorganisms. While the microbial diversity in ferromanganese nodule-associated sediments has been surveyed several times, little is known about the functional capacities of the communities adapted to these unique habitats. Results Seven sediment samples collected adjacent to ferromanganese nodules from the Clarion-Clipperton Fracture Zone (CCFZ) in the eastern Pacific Ocean were subjected to metagenomic analysis. As a result, 179 highquality metagenome-assembled genomes (MAGs) were reconstructed and assigned to 21 bacterial phyla and 1 archaeal phylum, with 88.8% of the MAGs remaining unclassified at the species level. The main mechanisms of resistance to heavy metals for microorganisms in sediments included oxidation (Mn), reduction (Cr and Hg), efflux (Pb), synergy of reduction and efflux (As), and synergy of oxidation and efflux (Cu). Iron, which had the highest content among all metallic elements, may occur mainly as Fe(III) that potentially functioned as an electron acceptor. We found that microorganisms with a diverse array of CAZymes did not exhibit higher community abundance. Instead, microorganisms mainly obtained energy from oxidation of metal (e.g., Mn(II)) and sulfur compounds using oxygen or nitrate as an electron acceptor. Chemolithoautotrophic organisms (Thaumarchaeota and Nitrospirota phyla) were found to be potential manganese oxidizers. The functional profile analysis of the dominant microorganisms further indicated that utilization of inorganic nutrients by redox reactions (rather than organic nutrient metabolism) is a major adaptive strategy used by microorganisms to support their survival in the ferromanganese nodule sediments. Conclusions This study provides a comprehensive metagenomic analysis of microbes inhabiting metal-rich ferromanganese nodule sediments. Our results reveal extensive redundancy across taxa for pathways of metal resistance and transformation, the highly diverse mechanisms used by microbes to obtain nutrition, and their participation in various element cycles in these unique environments.
DOI	10.1186/s40168-023-01601-2
收录类别	SCI
语种	英语
资助项目	Marine Samp;T Fund of Shandong Province[2022QNLM030004-3]; Marine Samp;T Fund of Shandong Province[LSKJ202203100]; National Natural Science Foundation of China[41876182]; National Natural Science Foundation of China[42025603]; Strategic Priority Research Program of the Chinese Academy of Sciences[XDA22050302]; National Key Ramp;D Program of China[2022YFC2804003]; NSFC Shiptime Sharing Project[42249901]
WOS研究方向	Microbiology
WOS类目	Microbiology
WOS记录号	WOS:001036889900003
出版者	BMC
WOS关键词	SP NOV. ; MULTICOPPER OXIDASE ; POLYMETALLIC NODULES ; BACTERIAL DIVERSITY ; NRAMP-FAMILY ; GEN. NOV. ; TRANSPORTER ; PROTEIN ; SULFUR ; IRON
引用统计	被引频次：10[WOS] [WOS记录] [WOS相关记录]
文献类型	期刊论文
条目标识符	http://ir.qdio.ac.cn/handle/337002/182684
专题	海洋地质与环境重点实验室
通讯作者	Sha, Zhongli; Zheng, Jinshui
作者单位	1.Chinese Acad Sci, Inst Oceanol, Qingdao Key Lab Marine Biodivers & Conservat, Qingdao 266071, Peoples R China 2.Laoshan Lab, Lab Marine Geol, Qingdao 266237, Peoples R China 3.Univ Chinese Acad Sci, Beijing 100049, Peoples R China 4.Huazhong Agr Univ, Natl Key Lab Agr Microbiol, Wuhan 430070, Peoples R China 5.Huazhong Agr Univ, Coll Informat, Hubei Key Lab Agr Bioinformat, Wuhan 430070, Peoples R China 6.Minist Nat Resources, Key Lab Marine Ecosyst Dynam, Hangzhou 310012, Peoples R China 7.Second Inst Oceanog, Minist Nat Resources, Hangzhou 310012, Peoples R China 8.Chinese Acad Sci, Inst Oceanol, Key Lab Marine Geol & Environm, Qingdao 266071, Peoples R China
第一作者单位	中国科学院海洋研究所
通讯作者单位	中国科学院海洋研究所
推荐引用方式 GB/T 7714	Zhang, Dechao,Li, Xudong,Wu, Yuehong,et al. Microbe-driven elemental cycling enables microbial adaptation to deep-sea ferromanganese nodule sediment fields[J]. MICROBIOME,2023,11(1):20.
APA	Zhang, Dechao.,Li, Xudong.,Wu, Yuehong.,Xu, Xuewei.,Liu, Yanxia.,...&Zheng, Jinshui.(2023).Microbe-driven elemental cycling enables microbial adaptation to deep-sea ferromanganese nodule sediment fields.MICROBIOME,11(1),20.
MLA	Zhang, Dechao,et al."Microbe-driven elemental cycling enables microbial adaptation to deep-sea ferromanganese nodule sediment fields".MICROBIOME 11.1(2023):20.