Development and Characterization of Novel EST-SSRs from Larix gmelinii and Their Cross-Species Transferability
文献类型： 外文期刊
作者： Zhang, Guojun 1 ; Sun, Zhenzhen 4 ; Zhou, Di 1 ; Xiong, Min 1 ; Wang, Xian 1 ; Yang, Junming 2 ; Wei, Zunzheng 1 ;
作者机构： 1.Minist Agr, Key Lab Urban Agr North, Key Lab Biol & Genet Improvement Hort Crops North, Beijing Vegetable Res Ctr,Beijing Acad Agr & Fore, Beijing 10097, Peoples R China
2.Hebei Normal Univ Sci & Technol, Coll Hort Sci & Technol, Qinhuangdao 066600, Peoples R China
3.Northeast Forestry Univ, State Key Lab Forest Genet & Tree Breeding, Harbin 150000, Peoples R China
4.Beijing Inst Technol, Beijing Key Lab Separat & Anal Biomed & Pharmaceu, Beijing 10081, Peoples R China
关键词： Larix gmelinii; EST-SSRs; genetic diversity; cross-species transferability
期刊名称：MOLECULES （ 影响因子：4.411； 五年影响因子：4.587 ）
ISSN： 1420-3049
年卷期： 2015 年 20 卷 7 期
页码：
收录情况： SCI
摘要： A set of 899 L. gmelinii expression sequence tags (ESTs), available at the National Center of Biotechnology Information (NCBI), was employed to address the feasibility on development of simple sequence repeat (SSR) markers for Larch species. Totally, 634 non-redundant unigenes including 145 contigs and 489 singletons were finally identified and mainly involved in biosynthetic, metabolic processes and response to stress according to BLASTX results, gene ontology (GO) categories and Kyoto Encyclopedia of Genes and Genomes (KEGG) maps. Approximately 11.7% (74) unigenes contained 90 candidate SSRs, which were mainly trinucleotides (29, 32.2%) and dinucleotides (26, 28.9%). A relatively high frequency of SSRs was respectively found in the Open Reading Frame (ORF, about 54.4%) and 5'-untranslated region (5'-UTR, 31.2%), while a low frequency was observed in the 3'-untranslated region (3'-UTR, about 14.4%). Of the 45 novel EST-SSRs markers, nine were found to be polymorphic at two L. gmelinii populations. The number of alleles per locus (Na) ranged from two to four, and the observed (Ho) and expected (He) heterozygosity values were 0.200-0.733 and 0.408-0.604, respectively. The inbreeding coefficients (F-IS) for all loci were more than zero except Lg41. Most of these 9EST-SSR markers were transferable to its related species L. kaempferi, L. principis-rupprechtii and L. olgensis. These novel EST-SSRs will be useful for further research on comparative genomics, genetic resources conservation and molecular breeding in larch trees.
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