IOCAS-IR
Genomic evidence of population genetic differentiation in deep-sea squat lobster Shinkaia crosnieri (crustacea: Decapoda: Anomura) from Northwestern Pacific hydrothermal vent and cold seep
Cheng, Jiao1,3; Hui, Min1,3; Li, Yulong1,3; Sha, Zhongli1,2,3
2020-02-01
Source PublicationDEEP-SEA RESEARCH PART I-OCEANOGRAPHIC RESEARCH PAPERS
ISSN0967-0637
Volume156Pages:12
Corresponding AuthorSha, Zhongli(shazl@qdio.ac.cn)
AbstractThe galatheid squat lobster, Shinkaia crosnieri Baba and Williams, 1998, is one of the few dominant species inhabiting both deep-sea hydrothermal vents and cold seeps. Here, we used mitochondrial cytochrome c oxidase subunit I (mtDNA COI) and nuclear genome-wide single nucleotide polymorphism (SNP) as genetic markers to investigate genetic connectivity of S. crosnieri populations from a hydrothermal vent of Okinawa Through and a cold seep of the South China Sea. MtDNA COI sequence analyses indicated that deep-sea vent population of S. crosnieri was genetically divergent from cold seep population. To obtain deep insights into the evolutionary forces driving this genetic break, we performed restriction-site associated DNA analysis to evaluate the extent of genetic differentiation in S. crosnieri inhabiting both environments on a genome-wide scale, and to assess the role of selective processes in shaping this pattern. Using the assembled survey genome of S. crosnieri as a reference, 12,963 SNPs were identified for 30 S. crosnieri specimens. The structural and principle component analyses based on SNPs supported genetic differentiation between the vent and seep populations. Evidence for local adaptation of S. crosnieri populations was confirmed by identifying increased population divergence using F-sT-based outlier tests, which resulted in 54 potentially locally selected SNPs, indicative of an important role for natural selection as a driver of genetic divergence in this species. Further studies revealed that candidate genes containing outlier SNPs were involved in diverse biological processes, including immunity, transposon and metabolic processes. Overall, our results demonstrated significant genetic divergence between the vent and seep S. crosnieri populations in the Northwestern Pacific and provided clues to understand potential genetic basis underlying local adaptation in S. crosnieri during colonization into deep-sea chemosynthetic ecosystems.
KeywordChemosynthetic fauna Population connectivity Local adaptation Single nucleotide polymorphism Cytochrome c oxidase subunit I
DOI10.1016/j.dsr.2019.103188
Indexed BySCI
Language英语
Funding ProjectNational Key R&D Program of China[2018YFC0310702] ; National Key R&D Program of China[2018YFC0310802] ; National Natural Science Foundation of China[31872215] ; Strategic Priority Research Program of the Chinese Academy of Sciences[XDA22050302] ; Strategic Priority Research Program of the Chinese Academy of Sciences[XDA22050303] ; Senior User Project of RV KEXUE[KEXUE2018G21]
WOS Research AreaOceanography
WOS SubjectOceanography
WOS IDWOS:000514247800009
PublisherPERGAMON-ELSEVIER SCIENCE LTD
Citation statistics
Cited Times:2[WOS]   [WOS Record]     [Related Records in WOS]
Document Type期刊论文
Identifierhttp://ir.qdio.ac.cn/handle/337002/165545
Collection中国科学院海洋研究所
Corresponding AuthorSha, Zhongli
Affiliation1.Chinese Acad Sci, Inst Oceanol, 7 Nanhai Rd, Qingdao 266071, Peoples R China
2.Qingdao Natl Lab Marine Sci & Technol, Lab Marine Biol & Biotechnol, Qingdao 266237, Peoples R China
3.Chinese Acad Sci, Ctr Ocean Megasci, Qingdao 266071, Peoples R China
First Author AffilicationInstitute of Oceanology, Chinese Academy of Sciences;  Center for Ocean Mega-Science, Chinese Academy of Sciences
Corresponding Author AffilicationInstitute of Oceanology, Chinese Academy of Sciences;  Center for Ocean Mega-Science, Chinese Academy of Sciences
Recommended Citation
GB/T 7714
Cheng, Jiao,Hui, Min,Li, Yulong,et al. Genomic evidence of population genetic differentiation in deep-sea squat lobster Shinkaia crosnieri (crustacea: Decapoda: Anomura) from Northwestern Pacific hydrothermal vent and cold seep[J]. DEEP-SEA RESEARCH PART I-OCEANOGRAPHIC RESEARCH PAPERS,2020,156:12.
APA Cheng, Jiao,Hui, Min,Li, Yulong,&Sha, Zhongli.(2020).Genomic evidence of population genetic differentiation in deep-sea squat lobster Shinkaia crosnieri (crustacea: Decapoda: Anomura) from Northwestern Pacific hydrothermal vent and cold seep.DEEP-SEA RESEARCH PART I-OCEANOGRAPHIC RESEARCH PAPERS,156,12.
MLA Cheng, Jiao,et al."Genomic evidence of population genetic differentiation in deep-sea squat lobster Shinkaia crosnieri (crustacea: Decapoda: Anomura) from Northwestern Pacific hydrothermal vent and cold seep".DEEP-SEA RESEARCH PART I-OCEANOGRAPHIC RESEARCH PAPERS 156(2020):12.
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