Classification of interspecific and intraspecific species by genome-wide SSR markers on Dendrobium

doi:10.1016/j.sajb.2019.08.051

CORC > 成都生物研究所 > 中国科学院成都生物研究所 > 食品安全与环境治理领域 > 农业生物技术研究

	Classification of interspecific and intraspecific species by genome-wide SSR markers on Dendrobium
	Zhao, T. M.1,3; Zheng, S. G.1; Hu, Y. D.1; Zhao, R. X.1; Li, H. J.1,3; Zhang, X. Q.1,3; Chun, Z.1,2
刊名	SOUTH AFRICAN JOURNAL OF BOTANY
	2019
卷号	127 页码:136-146
关键词	Dendrobium SSR markers Genome-wide D. catenatum D. denneanum D. nobile
ISSN号	0254-6299
DOI	10.1016/j.sajb.2019.08.051
产权排序	1
文献子类	Article
英文摘要	Dendrobium is a threatened and valuable genus in orchids. Many of themwere common inmedicinal and ornamental markets. In this study, a total of 198,990 simple sequence repeats (SSR) were identified from 3814 genomic scaffolds in D. catenatum (180 SSRs/Mb). Dinucleotide, trinucleotide and tetra-nucleotide covered about 0.2428%, 0.0544% and 0.0039% to the whole genome, separately. AT and TA, AAT and TGT, AAAT and TTTA were the corresponded dominant motifs. Total repetition of A and T was significantly greater than that of C and G. Moreover, 100 locus-specific primer pairs were randomly selected. And 73 of them produced polymorphic products in interspecific identification of 37 Dendrobium species. The interspecific effective polymorphic bands (EPBs), polymorphism information content (PIC), genetic diversity (Ht), genetic differentiation (Gst) and gene flow (Nm) of the novel SSR markers were 9.68, 0.528, 0.375, 0.499 and 0.753. The affinity of species and its varietas was confirmed in the phylogenetic tree. Additionally, 23, 25 and 12 SSR markers showed efficacy in intraspecific identification of 32 individuals in D. catenatum, 32 individuals in D. denneanum and 64 individuals in D. nobile, respectively. This confirmed the suitable transferability of SSR markers in cross-species. The intraspecific EPBs, PIC, Ht, Gst and Nm were 3.95, 0.554, 0.626, 0.226 and 2.305. The phylogenetic subgroups were significantly associated with plant height, epidermis and flower color. The electrophoretograms were clear for observation and suitable for auto-genotyping. The releasing of much more genome-wide SSR markers would be valuable for genetic studies and molecular breeding in Dendrobium. (C) 2019 SAAB. Published by Elsevier B.V. All rights reserved.
学科主题	Plant Sciences
URL标识	查看原文
WOS关键词	IMPORTANT BIOCHEMICAL TRAITS ; MICROSATELLITE MARKERS ; GENETIC DIVERSITY ; NOBILE ; IDENTIFICATION ; THYRSIFLORUM ; ASSOCIATION ; OFFICINALE ; ORCHID
WOS研究方向	Plant Sciences
语种	英语
出版者	ELSEVIER
WOS记录号	WOS:000502591700017
内容类型	期刊论文
源URL	[http://210.75.237.14/handle/351003/30900]
专题	环境治理与食品安全领域_农业生物技术研究
作者单位	1.Chinese Acad Sci, Chengdu Inst Biol, Chengdu 610041, Sichuan, Peoples R China; 2.Chinese Acad Sci, Innovat Acad Seed Design, Beijing 100101, Peoples R China 3.Univ Chinese Acad Sci, Beijing 100041, Peoples R China;
推荐引用方式 GB/T 7714	Zhao, T. M.,Zheng, S. G.,Hu, Y. D.,et al. Classification of interspecific and intraspecific species by genome-wide SSR markers on Dendrobium[J]. SOUTH AFRICAN JOURNAL OF BOTANY,2019,127:136-146.
APA	Zhao, T. M..,Zheng, S. G..,Hu, Y. D..,Zhao, R. X..,Li, H. J..,...&Chun, Z..(2019).Classification of interspecific and intraspecific species by genome-wide SSR markers on Dendrobium.SOUTH AFRICAN JOURNAL OF BOTANY,127,136-146.
MLA	Zhao, T. M.,et al."Classification of interspecific and intraspecific species by genome-wide SSR markers on Dendrobium".SOUTH AFRICAN JOURNAL OF BOTANY 127(2019):136-146.