文献类型：期刊文献

英文题名：Genomic SSR and EST-SSR markers for phylogenetic and pedigree reconstructions-A comparison in sea buckthorn

作者：Wang, Luo-Yun[1,2,3] Li, Shan-Shan[1,2] Wang, Tian-Yi[1,2] He, Cai-Yun[1,2] Luo, Hong-Mei[4] Zhang, Jian-Guo[1,2,3] Zeng, Yan-Fei[1,2]

第一作者：Wang, Luo-Yun

通信作者：Zhang, JG[1];Zeng, YF[1]|[a00054eda5d58f1b4f27e]曾艳飞;

机构：[1]Chinese Acad Forestry, Res Inst Forestry, State Key Lab Tree Genet & Breeding, Beijing, Peoples R China;[2]Chinese Acad Forestry, Res Inst Forestry, Key Lab Tree Breeding & Cultivat, Natl Forestry & Grassland Adm, Beijing, Peoples R China;[3]Nanjing Forestry Univ, Collaborat Innovat Ctr Sustainable Forestry South, Nanjing, Peoples R China;[4]Chinese Acad Forestry, Expt Ctr Desert Forestry, Dengkou, Peoples R China

年份：2021

卷号：140

期号：1

起止页码：167-183

外文期刊名：PLANT BREEDING

收录：;Scopus(收录号：2-s2.0-85101088394);WOS:【SCI-EXPANDED(收录号:WOS:000616763200014)】；

基金：Thanks to three anonymous reviewers for their helpful comments on this paper; this work was supported by the Fundamental Research Funds for the Central Non-profit Research Institution of Chinese Academy of Forestry (CAFYBB2019ZY004).

语种：英文

外文关键词：parentage analysis; phylogenetic analysis; sea buckthorn; species identification; SSR

摘要：Simple sequence repeat (SSR) markers play an important role in genetic and molecular breeding programs, especially for non-model species. We identified SSRs from expressed sequence tags (EST-SSRs) and whole genome sequences (gSSRs), by analysing the transcriptome and genome of the Mongolian sea buckthorn (Hippophae rhamnoides subsp. mongolica) cultivar 'Sunny'. Using the same number of loci, EST-SSRs showed higher transferability to Hippophae than gSSRs, and phylogenetic trees based on EST-SSRs demonstrated higher resolution for classifying Hippophae species and subspecies into clades, possibly due to high conservatism and/or existence of adaptive divergence between species/subspecies in coding sequence regions. In contrast, parentage analyses showed that gSSRs were more effective at resolving parentage than EST-SSRs due to higher level of polymorphism in gSSRs. The markers developed in this study can be used in the identification and pedigree reconstruction of species/subspecies of sea buckthorn, while their usage in clarifying phylogenetic relationship among species remains to be discussed. The comparison between EST-SSRs and gSSRs would provide insight into the trade-off between differentiation and polymorphism in marker selection for breeding programs.