New Microbial Lineages Capable of Carbon Fixation and Nutrient Cycling in Deep-Sea Sediments of the Northern South China Sea
Huang, Jiao-Mei1,2; Baker, Brett J.3; Li, Jiang-Tao4; Wang, Yong1
2019-08-01
Source PublicationAPPLIED AND ENVIRONMENTAL MICROBIOLOGY
ISSN0099-2240
Volume85Issue:15Pages:19
Abstract

Metagenomics of marine sediments has uncovered a broad diversity of new uncultured taxa and provided insights into their metabolic capabilities. Here, we detected microbial lineages from a sediment core near the Jiulong methane reef of the northern South China Sea (at 1,100-m depth). Assembly and binning of the metagenomes resulted in 11 genomes (>85% complete) that represented nine distinct phyla, including candidate phyla TA06 and LCP-89, Lokiarchaeota, Heimdallarchaeota, and a newly described globally distributed phylum (B38). The genome of LCP-89 has pathways for nitrate, selenate, and sulfate reduction, suggesting that they may be involved in mediating these important processes. B38 are able to participate in the cycling of hydrogen and selenocompounds. Many of these uncultured microbes may also be capable of autotrophic CO2 fixation, as exemplified by identification of the Wood-Ljungdahl (W-L) pathway. Genes encoding carbohydrate degradation, W-L pathway, Rnf-dependent energy conservation, and Ni/Fe hydrogenases were detected in the transcriptomes of these novel members. Characterization of these new lineages provides insight to the undescribed branches in the tree of life. IMPORTANCE Sedimentary microorganisms in the South China Sea (SCS) remain largely unknown due to the complexity of sediment communities impacted by continent rifting and extension. Distinct geochemical environments may breed special microbial communities including microbes that are still enigmatic. Functional inference of their metabolisms and transcriptional activity provides insight in the ecological roles and substrate-based interactivity of these uncultured Archaea and Bacteria. These microorganisms play different roles in utilizing inorganic carbon and scavenging diverse organic compounds involved in the deep-sea carbon cycle. The genomes recovered here contributed undescribed species to the tree of life and laid the foundation for future study on these novel phyla persisting in marginal sediments of the SCS.

KeywordCarbon Fixation Metagenome Metatranscriptome South China Sea Sulfate Reduction
DOI10.1128/AEM.00523-19
Indexed BySCI
Funding OrganizationNational Science Foundation of China (NSFC) ; National Key Research and Development Program of China ; Strategic Priority Research Program B of Chinese Academy of Sciences ; NSFC Open Research Cruise - Shiptime Sharing Project of NSFC
Language英语
Funding ProjectNational Science Foundation of China (NSFC)[41476104] ; National Science Foundation of China (NSFC)[31460001] ; National Key Research and Development Program of China[2016YFC0302500] ; Strategic Priority Research Program B of Chinese Academy of Sciences[XDB06010201] ; Strategic Priority Research Program B of Chinese Academy of Sciences[XDB06010103] ; NSFC Open Research Cruise - Shiptime Sharing Project of NSFC[NORC2015-06]
WOS KeywordJiulong Methane Reef ; Cold Seep Sediments ; Vertical-distribution ; Uncultured Bacteria ; Rna Genes ; Archaea ; Diversity ; Alignment ; Reconstruction ; Prokaryotes
WOS Research AreaBiotechnology & Applied Microbiology ; Microbiology
WOS SubjectBiotechnology & Applied Microbiology ; Microbiology
WOS IDWOS:000478565000007
PublisherAMER SOC MICROBIOLOGY
Citation statistics
Document Type期刊论文
Version出版稿
Identifierhttp://ir.idsse.ac.cn/handle/183446/6921
Collection深海科学研究部_深海生物学研究室_海洋微生物宏基因组与分子进化研究组
Corresponding AuthorWang, Yong
Affiliation1.Chinese Acad Sci, Inst Deep Sea Sci & Engn, Sanya, Hainan, Peoples R China
2.Univ Chinese Acad Sci, Beijing, Peoples R China
3.Univ Texas Austin, Marine Sci Inst, Dept Marine Sci, Port Aransas, TX USA
4.Tongji Univ, State Key Lab Marine Geol, Shanghai, Peoples R China
Recommended Citation
GB/T 7714
Huang, Jiao-Mei,Baker, Brett J.,Li, Jiang-Tao,et al. New Microbial Lineages Capable of Carbon Fixation and Nutrient Cycling in Deep-Sea Sediments of the Northern South China Sea[J]. APPLIED AND ENVIRONMENTAL MICROBIOLOGY,2019,85(15):19.
APA Huang, Jiao-Mei,Baker, Brett J.,Li, Jiang-Tao,&Wang, Yong.(2019).New Microbial Lineages Capable of Carbon Fixation and Nutrient Cycling in Deep-Sea Sediments of the Northern South China Sea.APPLIED AND ENVIRONMENTAL MICROBIOLOGY,85(15),19.
MLA Huang, Jiao-Mei,et al."New Microbial Lineages Capable of Carbon Fixation and Nutrient Cycling in Deep-Sea Sediments of the Northern South China Sea".APPLIED AND ENVIRONMENTAL MICROBIOLOGY 85.15(2019):19.
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