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Development of microsatellite markers for the seagrass Zostera japonica using next-generation sequencing
Zhang, Xiaomei1,2,3; Zhou, Yi1,2,3; Li, Yu-Long1,2,3; Liu, Jin-Xian1,2,3
2019-02-01
Source PublicationMOLECULAR BIOLOGY REPORTS
ISSN0301-4851
Volume46Issue:1Pages:1335-1341
Corresponding AuthorZhou, Yi(yizhou@qdio.ac.cn) ; Liu, Jin-Xian(jxliu@qdio.ac.cn)
AbstractThe seagrass Zostera japonica Asch. & Graebn. is among the few seagrass species that thrive both in temperate and tropical intertidal zones. The degradation of Z. japonica in its native range and continued expansion in some localities have raised concerns with regard to its conservation and management. Population genetic studies of Z. japonica across its biogeographic range and within meadows are scarce. Previously developed microsatellites via traditional methods are not sufficient in quantity and perform inconsistently between the temperate and tropical populations. Thus, this study aimed to develop more reliable polymorphic markers for Z. japonica using next generation sequencing. In total, 6479 sequences containing loci were identified and 1619 pairs of primers were successfully designed. Of these, 63 loci were selected for primary validation in 16 individuals from four populations, with 48 (76.2%) polymorphic loci detected. Seventeen polymorphic loci were selected for further evaluation in 62 individuals from one temperate and one tropical population. The overall probability of identity (PID) for both populations was 2.375e(-22) (PIDsib=3.557e(-08)). The number of alleles, and expected and observed heterozygosity in the two populations were both relatively high and not significantly different from each other. The pairwise F-ST=0.232 (p<0.0001) and Principal Coordinates Analysis both suggested a large and significant genetic divergence between the two populations. This study makes abundant molecular markers available for genetic studies in Z. japonica, and facilitates its conservation and management strategies.
KeywordZostera japonica NGS Microsatellites Population genetics
DOI10.1007/s11033-018-4491-2
Indexed BySCI
Language英语
Funding ProjectNational Science & Technology Basic Work Program[2015FY110600] ; NSFC-Shandong Joint Fund for Marine Science Research Centers[U1606404] ; CPSF-CAS Joint Foundation for Excellent Postdoctoral Fellows[2016LH0032] ; China Postdoctoral Science Foundation[2016M600562] ; key Research and Development Project of Shandong Province[2017GHY15111] ; Key Research Project of Frontier Sciences of CAS[QYZDB-SSW-DQC041-1] ; Science and Technology Service Network Initiative of CAS[KFJ-STS-ZDTP-023] ; Creative Team Project of the Laboratory for Marine Ecology and Environmental Science from the Qingdao National Laboratory for Marine Science and Technology[LMEES-CTSP-2018-1] ; Taishan Scholars Program (Distinguished Taishan Scholars)
WOS Research AreaBiochemistry & Molecular Biology
WOS SubjectBiochemistry & Molecular Biology
WOS IDWOS:000462022300132
PublisherSPRINGER
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Document Type期刊论文
Identifierhttp://ir.qdio.ac.cn/handle/337002/154929
Collection海洋生态与环境科学重点实验室
Corresponding AuthorZhou, Yi; Liu, Jin-Xian
Affiliation1.Chinese Acad Sci, Inst Oceanol, CAS Key Lab Marine Ecol & Environm Sci, Qingdao 266071, Peoples R China
2.Qingdao Natl Lab Marine Sci & Technol, Lab Marine Ecol & Environm Sci, Qingdao 266237, Peoples R China
3.Chinese Acad Sci, Ctr Ocean Mega Sci, Qingdao 266071, Peoples R China
First Author AffilicationKey Laboratory of Marine Ecology & Environmental Sciences, CAS
Corresponding Author AffilicationKey Laboratory of Marine Ecology & Environmental Sciences, CAS
Recommended Citation
GB/T 7714
Zhang, Xiaomei,Zhou, Yi,Li, Yu-Long,et al. Development of microsatellite markers for the seagrass Zostera japonica using next-generation sequencing[J]. MOLECULAR BIOLOGY REPORTS,2019,46(1):1335-1341.
APA Zhang, Xiaomei,Zhou, Yi,Li, Yu-Long,&Liu, Jin-Xian.(2019).Development of microsatellite markers for the seagrass Zostera japonica using next-generation sequencing.MOLECULAR BIOLOGY REPORTS,46(1),1335-1341.
MLA Zhang, Xiaomei,et al."Development of microsatellite markers for the seagrass Zostera japonica using next-generation sequencing".MOLECULAR BIOLOGY REPORTS 46.1(2019):1335-1341.
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