QIBEBT-IR
Raman-activated cell sorting and metagenomic sequencing revealing carbon-fixing bacteria in the ocean
Jing, Xiaoyan1,2,3,4; Gou, Honglei1,2,4; Gong, Yanhai1,2,4; Su, Xiaolu1,2,4; Xu, La5; Ji, Yuetong1,2,4; Song, Yizhi3; Thompson, Ian P.3; Xu, Jian1,2,4; Huang, Wei E.3
2018-06-01
Source PublicationENVIRONMENTAL MICROBIOLOGY
ISSN1462-2912
Volume20Issue:6Pages:2241-2255
AbstractIt is of great significance to understand CO2 fixation in the oceans. Using single cell Raman spectra (SCRS) as biochemical profiles, Raman activated cell ejection (RACE) was able to link phenotypes and genotypes of cells. Here, we show that mini-metagenomic sequences from RACE can be used as a reference to reconstruct nearly complete genomes of key functional bacteria by binning shotgun metagenomic sequencing data. By applying this approach to C-13 bicarbonate spiked seawater from euphotic zone of the Yellow Sea of China, the dominant bacteria Synechococcus spp. and Pelagibacter spp. were revealed and both of them contain carotenoid and were able to incorporate C-13 into the cells at the same time. Genetic analysis of the reconstructed genomes suggests that both Synechococcus spp. and Pelagibacter spp. contained all genes necessary for carotenoid synthesis, light energy harvesting and CO2 fixation. Interestingly, the reconstructed genome indicates that Pelagibacter spp. harbored intact sets of genes for -carotene (precursor of retional), proteorhodopsin synthesis and anaplerotic CO2 fixation. This novel approach shines light on the role of marine microbial dark matter' in global carbon cycling, by linking yet-to-be-cultured Synechococcus spp. and Pelagibacter spp. to carbon fixation and flow activities in situ.
DOI10.1111/1462-2920.14268
WOS KeywordMICROBIAL-CELLS ; SINGLE-CELLS ; SARGASSO SEA ; RIBOSOMAL-RNA ; DARK-MATTER ; GEN. NOV. ; GENOME ; SAR11 ; BACTERIOPLANKTON ; IDENTIFICATION
Language英语
Funding ProjectEPSRC[EP/M002403/1] ; EPSRC[EP/M02833X/1] ; NERC[NE/M002934/1] ; NSFC[31770112] ; NSFC[21605151] ; NSFC[31425002] ; NSFC[31400436] ; SOA[GASI-03-01-02-05] ; CAS[KFJ-SW-STS-165] ; CAS[XDB15000000] ; NSF Grant of Shandong Province[ZR2014CQ005]
WOS Research AreaMicrobiology
Funding OrganizationEPSRC ; NERC ; NSFC ; SOA ; CAS ; NSF Grant of Shandong Province
WOS SubjectMicrobiology
WOS IDWOS:000441876900036
PublisherWILEY
Citation statistics
Cited Times:51[WOS]   [WOS Record]     [Related Records in WOS]
Document Type期刊论文
Identifierhttp://ir.qibebt.ac.cn/handle/337004/12212
Collection中国科学院青岛生物能源与过程研究所
Corresponding AuthorXu, Jian; Huang, Wei E.
Affiliation1.Chinese Acad Sci, Qingdao Inst BioEnergy & Bioproc Technol, Single Cell Ctr, Key Lab Biofuels, Qingdao, Shandong, Peoples R China
2.Chinese Acad Sci, Qingdao Inst BioEnergy & Bioproc Technol, Shandong Key Lab Energy Genet, Qingdao, Shandong, Peoples R China
3.Univ Oxford, Dept Engn Sci, Parks Rd, Oxford OX1 3PJ, England
4.Univ Chinese Acad Sci, Beijing, Peoples R China
5.Marine Biol Inst Shandong Prov, Dis & Fishery Drugs Res Ctr, Qingdao, Shandong, Peoples R China
Recommended Citation
GB/T 7714
Jing, Xiaoyan,Gou, Honglei,Gong, Yanhai,et al. Raman-activated cell sorting and metagenomic sequencing revealing carbon-fixing bacteria in the ocean[J]. ENVIRONMENTAL MICROBIOLOGY,2018,20(6):2241-2255.
APA Jing, Xiaoyan.,Gou, Honglei.,Gong, Yanhai.,Su, Xiaolu.,Xu, La.,...&Huang, Wei E..(2018).Raman-activated cell sorting and metagenomic sequencing revealing carbon-fixing bacteria in the ocean.ENVIRONMENTAL MICROBIOLOGY,20(6),2241-2255.
MLA Jing, Xiaoyan,et al."Raman-activated cell sorting and metagenomic sequencing revealing carbon-fixing bacteria in the ocean".ENVIRONMENTAL MICROBIOLOGY 20.6(2018):2241-2255.
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