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Molecules 2014, 19(3), 3813-3819; doi:10.3390/molecules19033813

Isolation and Characterization of Microsatellite Markers for Cotinus coggygria Scop. (Anacardiaceae) by 454 Pyrosequencing

1,†, 2,† and 1,*
1
College of Forestry, Henan Agricultural University, Zhengzhou 450002, China
2
College of Nature Conservation, Beijing Forestry University, Beijing 100083, China
These authors contributed equally to this work.
*
Author to whom correspondence should be addressed.
Received: 7 February 2014 / Revised: 20 March 2014 / Accepted: 21 March 2014 / Published: 24 March 2014
(This article belongs to the Section Molecular Diversity)
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Abstract

Cotinus coggygria Scop. (Anacardiaceae) is a deciduous shrub or small tree that is native to a large area covering from southern Europe, east across central Asia, and the Himalayas in northern China. Shotgun 454 pyrosequencing was used to develop microsatellite markers from the genome of C. coggygria. In this study, 349 microsatellite loci were identified from 40,074 individual sequence reads produced by one-sixteenth run, and primer pairs were designed for these loci. To test the primer amplification efficiency, 50 microsatellite primer pairs were tested across 12 individuals from two C. coggygria populations (Wuzhi Mountain: 36°30'N, 113°39'E; Tianlong Mountain: 37°42'N, 112°26'E). Among the 50 tested primer pairs, eight were found to be polymorphic. The average allele number of the microsatellites was 3.5 per locus, with a range from two to five. The inbreeding coefficient ranged from −0.478 to 0.222. The observed and expected heterozygosities varied from 0.167 to 0.750 and from 0.163 to 0.743, respectively. This set of markers is potentially useful for assessing the genetic diversity, as well as for understanding the population structure and phylogeographical and landscape genetic patterns, of C. coggygria.
Keywords: microsatellite markers; genetic diversity; 454 sequencing; population structure; Cotinus coggygria microsatellite markers; genetic diversity; 454 sequencing; population structure; Cotinus coggygria
This is an open access article distributed under the Creative Commons Attribution License (CC BY 3.0).

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MDPI and ACS Style

Wang, W.; Li, Z.; Li, Y. Isolation and Characterization of Microsatellite Markers for Cotinus coggygria Scop. (Anacardiaceae) by 454 Pyrosequencing. Molecules 2014, 19, 3813-3819.

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