Development of microsatellite markers for the seagrass Zostera japonica using next-generation sequencing

doi:10.1007/s11033-018-4491-2

	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-Xian 1,2,3
	2019-02-01
发表期刊	MOLECULAR BIOLOGY REPORTS
ISSN	0301-4851
卷号	46 期号:1 页码:1335-1341
通讯作者	Zhou, Yi([email protected]) ; Liu, Jin-Xian([email protected])
摘要	The 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.
关键词	Zostera japonica NGS Microsatellites Population genetics
DOI	10.1007/s11033-018-4491-2
收录类别	SCI
语种	英语
资助项目	Taishan Scholars Program (Distinguished Taishan Scholars)###85; 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]###136; Science and Technology Service Network Initiative of CAS[KFJ-STS-ZDTP-023]###135; Key Research Project of Frontier Sciences of CAS[QYZDB-SSW-DQC041-1]###134; key Research and Development Project of Shandong Province[2017GHY15111]###133; China Postdoctoral Science Foundation[2016M600562]###132; CPSF-CAS Joint Foundation for Excellent Postdoctoral Fellows[2016LH0032]###131; NSFC-Shandong Joint Fund for Marine Science Research Centers[U1606404]###130; National Science & Technology Basic Work Program[2015FY110600]###129; National 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研究方向	Biochemistry & Molecular Biology
WOS类目	Biochemistry & Molecular Biology
WOS记录号	WOS:000462022300132
出版者	SPRINGER
引用统计	被引频次：4[WOS] [WOS记录] [WOS相关记录]
文献类型	期刊论文
条目标识符	http://ir.qdio.ac.cn/handle/337002/154929
专题	海洋生态与环境科学重点实验室
通讯作者	Zhou, Yi; Liu, Jin-Xian
作者单位	1.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
第一作者单位	海洋生态与环境科学重点实验室
通讯作者单位	海洋生态与环境科学重点实验室
推荐引用方式 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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