The development of EST-SSR markers in Lilium regale and their cross-amplification in related species

doi:10.1007/s10681-012-0788-8

	The development of EST-SSR markers in Lilium regale and their cross-amplification in related species
	Yuan, Suxia; Ge, Liang; Liu, Chun; Ming, Jun
刊名	EUPHYTICA
	2013
卷号	189 期号:3 页码:393-419
关键词	Lilium EST-SSR Polymorphism Transferability
ISSN号	0014-2336
DOI	10.1007/s10681-012-0788-8
通讯作者	Yuan, Suxia
英文摘要	Simple-sequence repeat (SSR) markers are a common choice for assaying genetic diversity and genetic mapping due to their highly polymorphic and co-dominant nature. In this paper, we developed SSR markers derived from expressed sequence tags (EST-SSRs) based on transcriptome sequences in Lilium regale. In total, 59,046 UniGene sequences (approximately 27.37 Mb) were evaluated, where 1,716 SSR sites in the 1,606 UniGene sequences were identified by data mining. Of these SSRs, the trinucleotide repeats were the most common repeat types (631, 36.8 %), followed by hexa- (23.7 %), di- (23.4 %), penta- (11.5 %), tetra- (3.3 %), hepta- (0.9 %), deca- (0.3 %), and octanucleotide repeats (0.1 %). TC/GA and CCG/CGG predominated in dimeric and trimeric repeat motifs, respectively. In total, 1,072 primer pairs were designed, of which 494 were amplified to yield the expected PCR products in L. regale. The polymorphism and transferability study was performed in six species endemic to China and ten cultivars derived from intraspecific and interspecific hybridization. Of the 494 primer pairs, 172 exhibited clear polymorphisms with stable cross-species amplifications in the 16 individuals, which contained 537 alleles for the 181 loci. The polymorphism information content values for the 172 primers ranged from 0.111 to 0.830, with an average value of 0.493. The phylogenetic dendrogram derived from the amplification profiles of the 172 polymorphic primers was congruent with the genetic background of the hybrids and the species. In addition, the putative functions of the 109 UniGenes containing the 118 polymorphic and transferable EST-SSRs were identified. Thus, the informative EST-SSR markers will be very useful in subsequent Lilium genetic improvement projects.
学科主题	Agronomy ; Plant Sciences ; Horticulture ; AGRONOMY ; HORTICULTURE ; PLANT SCIENCES
语种	英语
出版者	SPRINGER
WOS记录号	WOS:000313777700007
内容类型	期刊论文
源URL	[http://111.203.20.206/handle/2HMLN22E/101069]
专题	蔬菜花卉研究所_花卉研究室
作者单位	Chinese Acad Agr Sci, Inst Vegetables & Flowers, Beijing 100081, Peoples R China
推荐引用方式 GB/T 7714	Yuan, Suxia,Ge, Liang,Liu, Chun,et al. The development of EST-SSR markers in Lilium regale and their cross-amplification in related species[J]. EUPHYTICA,2013,189(3):393-419.
APA	Yuan, Suxia,Ge, Liang,Liu, Chun,&Ming, Jun.(2013).The development of EST-SSR markers in Lilium regale and their cross-amplification in related species.EUPHYTICA,189(3),393-419.
MLA	Yuan, Suxia,et al."The development of EST-SSR markers in Lilium regale and their cross-amplification in related species".EUPHYTICA 189.3(2013):393-419.