Next Article in Journal
Nitric Oxide-Releasing Aspirin Suppresses NF-κB Signaling in Estrogen Receptor Negative Breast Cancer Cells in Vitro and in Vivo
Previous Article in Journal
Anti-Protozoal Activities of Cembrane-Type Diterpenes from Vietnamese Soft Corals
Article Menu

Export Article

Open AccessArticle
Molecules 2015, 20(7), 12469-12480;

Development and Characterization of Novel EST-SSRs from Larix gmelinii and Their Cross-Species Transferability

Beijing Vegetable Research Center, Beijing Academy of Agriculture and Forestry Sciences, Key Laboratory of Biology and Genetic Improvement of Horticultural Crops (North China), Key Laboratory of Urban Agriculture (North), Ministry of Agriculture, Beijing 10097, China
College of Horticulture Science and Technology, Hebei Normal University of Science & Technology, Qinhuangdao 066600, China
State Key Laboratory of Forest Genetics and Tree Breeding, Northeast Forestry University, Harbin 150000, China
Beijing Key Laboratory of Separation and Analysis in Biomedicine and Pharmaceuticals, Beijing Institute of Technology, Beijing 10081, China
Author to whom correspondence should be addressed.
Academic Editor: Derek J. McPhee
Received: 27 March 2015 / Revised: 12 June 2015 / Accepted: 29 June 2015 / Published: 9 July 2015
(This article belongs to the Section Molecular Diversity)
Full-Text   |   PDF [1458 KB, uploaded 9 July 2015]   |  


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 (FIS) 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. View Full-Text
Keywords: Larix gmelinii; EST-SSRs; genetic diversity; cross-species transferability Larix gmelinii; EST-SSRs; genetic diversity; cross-species transferability

Figure 1

This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited (CC BY 4.0).

Supplementary material


Share & Cite This Article

MDPI and ACS Style

Zhang, G.; Sun, Z.; Zhou, D.; Xiong, M.; Wang, X.; Yang, J.; Wei, Z. Development and Characterization of Novel EST-SSRs from Larix gmelinii and Their Cross-Species Transferability. Molecules 2015, 20, 12469-12480.

Show more citation formats Show less citations formats

Related Articles

Article Metrics

Article Access Statistics



[Return to top]
Molecules EISSN 1420-3049 Published by MDPI AG, Basel, Switzerland RSS E-Mail Table of Contents Alert
Back to Top