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Transcriptome-wide identification and characterization of the Sox gene family and microsatellites for Corbicula fluminea
Zhu, Chuankun1,2; Zhang, Lei2,3; Ding, Huaiyu1,2; Pan, Zhengjun1,2
Corresponding AuthorZhu, Chuankun(zhuchuankun@hytc.edu.cn)
2019-10-22
Source PublicationPEERJ
ISSN2167-8359
Volume7Pages:25
AbstractThe Asian clam, Corbicula fluminea, is a commonly consumed small freshwater bivalve in East Asia. However, available genetic information of this clam is still limited. In this study, the transcriptome of female C. fluminea was sequenced using the Illumina HiSeq 2500 platform. A total of 89,563 unigenes were assembled with an average length of 859 bp, and 36.7% of them were successfully annotated. Six members of Sox gene family namely SoxB1, SoxB2, SoxC, SoxD, SoxE and SoxF were identified. Based on these genes, the divergence time of C. fluminea was estimated to be around 476 million years ago. Furthermore, a total of 3,117 microsatellites were detected with a distribution density of 1:12,960 bp. Fifty of these microsatellites were randomly selected for validation, and 45 of them were successfully amplified with 31 polymorphic ones. The data obtained in this study will provide useful information for future genetic and genomic studies in C. fluminea.
KeywordCorbicula fluminea Transcriptome Sox gene family Microsatellite
DOI10.7717/peerj.7770
Funding OrganizationKey Laboratory of Fishery Sustainable Development and Water Environment Protection of Huai'an City, Huai'an Sub Center of the Institute of Hydrobiology, Chinese Academy of Sciences ; Key Laboratory of Fishery Sustainable Development and Water Environment Protection of Huai'an City, Huai'an Sub Center of the Institute of Hydrobiology, Chinese Academy of Sciences ; Key Laboratory of Fishery Sustainable Development and Water Environment Protection of Huai'an City, Huai'an Sub Center of the Institute of Hydrobiology, Chinese Academy of Sciences ; Key Laboratory of Fishery Sustainable Development and Water Environment Protection of Huai'an City, Huai'an Sub Center of the Institute of Hydrobiology, Chinese Academy of Sciences ; Start-up Funds of Scientific Research from Huaiyin Normal University ; Start-up Funds of Scientific Research from Huaiyin Normal University ; Start-up Funds of Scientific Research from Huaiyin Normal University ; Start-up Funds of Scientific Research from Huaiyin Normal University ; Key Laboratory of Fishery Sustainable Development and Water Environment Protection of Huai'an City, Huai'an Sub Center of the Institute of Hydrobiology, Chinese Academy of Sciences ; Key Laboratory of Fishery Sustainable Development and Water Environment Protection of Huai'an City, Huai'an Sub Center of the Institute of Hydrobiology, Chinese Academy of Sciences ; Key Laboratory of Fishery Sustainable Development and Water Environment Protection of Huai'an City, Huai'an Sub Center of the Institute of Hydrobiology, Chinese Academy of Sciences ; Key Laboratory of Fishery Sustainable Development and Water Environment Protection of Huai'an City, Huai'an Sub Center of the Institute of Hydrobiology, Chinese Academy of Sciences ; Start-up Funds of Scientific Research from Huaiyin Normal University ; Start-up Funds of Scientific Research from Huaiyin Normal University ; Start-up Funds of Scientific Research from Huaiyin Normal University ; Start-up Funds of Scientific Research from Huaiyin Normal University ; Key Laboratory of Fishery Sustainable Development and Water Environment Protection of Huai'an City, Huai'an Sub Center of the Institute of Hydrobiology, Chinese Academy of Sciences ; Key Laboratory of Fishery Sustainable Development and Water Environment Protection of Huai'an City, Huai'an Sub Center of the Institute of Hydrobiology, Chinese Academy of Sciences ; Key Laboratory of Fishery Sustainable Development and Water Environment Protection of Huai'an City, Huai'an Sub Center of the Institute of Hydrobiology, Chinese Academy of Sciences ; Key Laboratory of Fishery Sustainable Development and Water Environment Protection of Huai'an City, Huai'an Sub Center of the Institute of Hydrobiology, Chinese Academy of Sciences ; Start-up Funds of Scientific Research from Huaiyin Normal University ; Start-up Funds of Scientific Research from Huaiyin Normal University ; Start-up Funds of Scientific Research from Huaiyin Normal University ; Start-up Funds of Scientific Research from Huaiyin Normal University ; Key Laboratory of Fishery Sustainable Development and Water Environment Protection of Huai'an City, Huai'an Sub Center of the Institute of Hydrobiology, Chinese Academy of Sciences ; Key Laboratory of Fishery Sustainable Development and Water Environment Protection of Huai'an City, Huai'an Sub Center of the Institute of Hydrobiology, Chinese Academy of Sciences ; Key Laboratory of Fishery Sustainable Development and Water Environment Protection of Huai'an City, Huai'an Sub Center of the Institute of Hydrobiology, Chinese Academy of Sciences ; Key Laboratory of Fishery Sustainable Development and Water Environment Protection of Huai'an City, Huai'an Sub Center of the Institute of Hydrobiology, Chinese Academy of Sciences ; Start-up Funds of Scientific Research from Huaiyin Normal University ; Start-up Funds of Scientific Research from Huaiyin Normal University ; Start-up Funds of Scientific Research from Huaiyin Normal University ; Start-up Funds of Scientific Research from Huaiyin Normal University
Indexed BySCI ; SCI
Language英语
Funding ProjectKey Laboratory of Fishery Sustainable Development and Water Environment Protection of Huai'an City, Huai'an Sub Center of the Institute of Hydrobiology, Chinese Academy of Sciences[HASBSY201303] ; Start-up Funds of Scientific Research from Huaiyin Normal University[31ZCK00]
WOS Research AreaScience & Technology - Other Topics
WOS SubjectMultidisciplinary Sciences
WOS IDWOS:000491305900002
WOS KeywordGENOME DUPLICATION ; DEEP TRANSCRIPTOME ; MARKER DEVELOPMENT ; REDUNDANT ROLES ; EXPRESSION ; EVOLUTION ; ANNOTATION ; REVEALS ; PEARL ; RESOURCE
PublisherPEERJ INC
Funding OrganizationKey Laboratory of Fishery Sustainable Development and Water Environment Protection of Huai'an City, Huai'an Sub Center of the Institute of Hydrobiology, Chinese Academy of Sciences ; Key Laboratory of Fishery Sustainable Development and Water Environment Protection of Huai'an City, Huai'an Sub Center of the Institute of Hydrobiology, Chinese Academy of Sciences ; Key Laboratory of Fishery Sustainable Development and Water Environment Protection of Huai'an City, Huai'an Sub Center of the Institute of Hydrobiology, Chinese Academy of Sciences ; Key Laboratory of Fishery Sustainable Development and Water Environment Protection of Huai'an City, Huai'an Sub Center of the Institute of Hydrobiology, Chinese Academy of Sciences ; Start-up Funds of Scientific Research from Huaiyin Normal University ; Start-up Funds of Scientific Research from Huaiyin Normal University ; Start-up Funds of Scientific Research from Huaiyin Normal University ; Start-up Funds of Scientific Research from Huaiyin Normal University ; Key Laboratory of Fishery Sustainable Development and Water Environment Protection of Huai'an City, Huai'an Sub Center of the Institute of Hydrobiology, Chinese Academy of Sciences ; Key Laboratory of Fishery Sustainable Development and Water Environment Protection of Huai'an City, Huai'an Sub Center of the Institute of Hydrobiology, Chinese Academy of Sciences ; Key Laboratory of Fishery Sustainable Development and Water Environment Protection of Huai'an City, Huai'an Sub Center of the Institute of Hydrobiology, Chinese Academy of Sciences ; Key Laboratory of Fishery Sustainable Development and Water Environment Protection of Huai'an City, Huai'an Sub Center of the Institute of Hydrobiology, Chinese Academy of Sciences ; Start-up Funds of Scientific Research from Huaiyin Normal University ; Start-up Funds of Scientific Research from Huaiyin Normal University ; Start-up Funds of Scientific Research from Huaiyin Normal University ; Start-up Funds of Scientific Research from Huaiyin Normal University ; Key Laboratory of Fishery Sustainable Development and Water Environment Protection of Huai'an City, Huai'an Sub Center of the Institute of Hydrobiology, Chinese Academy of Sciences ; Key Laboratory of Fishery Sustainable Development and Water Environment Protection of Huai'an City, Huai'an Sub Center of the Institute of Hydrobiology, Chinese Academy of Sciences ; Key Laboratory of Fishery Sustainable Development and Water Environment Protection of Huai'an City, Huai'an Sub Center of the Institute of Hydrobiology, Chinese Academy of Sciences ; Key Laboratory of Fishery Sustainable Development and Water Environment Protection of Huai'an City, Huai'an Sub Center of the Institute of Hydrobiology, Chinese Academy of Sciences ; Start-up Funds of Scientific Research from Huaiyin Normal University ; Start-up Funds of Scientific Research from Huaiyin Normal University ; Start-up Funds of Scientific Research from Huaiyin Normal University ; Start-up Funds of Scientific Research from Huaiyin Normal University ; Key Laboratory of Fishery Sustainable Development and Water Environment Protection of Huai'an City, Huai'an Sub Center of the Institute of Hydrobiology, Chinese Academy of Sciences ; Key Laboratory of Fishery Sustainable Development and Water Environment Protection of Huai'an City, Huai'an Sub Center of the Institute of Hydrobiology, Chinese Academy of Sciences ; Key Laboratory of Fishery Sustainable Development and Water Environment Protection of Huai'an City, Huai'an Sub Center of the Institute of Hydrobiology, Chinese Academy of Sciences ; Key Laboratory of Fishery Sustainable Development and Water Environment Protection of Huai'an City, Huai'an Sub Center of the Institute of Hydrobiology, Chinese Academy of Sciences ; Start-up Funds of Scientific Research from Huaiyin Normal University ; Start-up Funds of Scientific Research from Huaiyin Normal University ; Start-up Funds of Scientific Research from Huaiyin Normal University ; Start-up Funds of Scientific Research from Huaiyin Normal University
Citation statistics
Document Type期刊论文
Identifierhttp://ir.ihb.ac.cn/handle/342005/34431
Collection其他_期刊论文
Corresponding AuthorZhu, Chuankun
Affiliation1.Huaiyin Normal Univ, Jiangsu Engn Lab Breeding Special Aquat Organisms, Huaian, Jiangsu, Peoples R China
2.Huaiyin Normal Univ, Jiangsu Collaborat Innovat Ctr Reg Modern Agr & E, Huaian, Peoples R China
3.Chinese Acad Sci, Inst Hydrobiol, Huaian Sub Ctr, Key Lab Fishery Sustainable Dev & Water Environm, Huaian, Peoples R China
Recommended Citation
GB/T 7714
Zhu, Chuankun,Zhang, Lei,Ding, Huaiyu,et al. Transcriptome-wide identification and characterization of the Sox gene family and microsatellites for Corbicula fluminea[J]. PEERJ,2019,7:25.
APA Zhu, Chuankun,Zhang, Lei,Ding, Huaiyu,&Pan, Zhengjun.(2019).Transcriptome-wide identification and characterization of the Sox gene family and microsatellites for Corbicula fluminea.PEERJ,7,25.
MLA Zhu, Chuankun,et al."Transcriptome-wide identification and characterization of the Sox gene family and microsatellites for Corbicula fluminea".PEERJ 7(2019):25.
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