Molecular Insights into the Genetic Diversity of Hemarthria compressa Germplasm Collections Native to Southwest China

Molecules

Zhi-Hui Guo²  Kai-Xin Fu²  Xin-Quan Zhang²  Shi-Qie Bai²  Yan Fan¹  Yan Peng²  Lin-Kai Huang²  Yan-Hong Yan²  Wei Liu²  Xiao Ma² 

[1] Chongqing Municipal Institute of Animal Husbandry, Chongqing 400039, China; E-Mail:;Department of Grassland Science, Animal Science and Technology College, Sichuan Agricultural University, Ya’an 625014, China; E-Mails:

关键词: Hemarthria compressa L.;    start codon targeted polymorphism (SCoT);    genetic diversity;    geographic groups;    genetic differentiation;   

DOI  :  10.3390/molecules191221541

来源: mdpi

【 摘 要 】

Start codon targeted polymorphism (SCoT) analysis was employed to distinguish 37 whipgrass (Hemarthria compressa L.) clones and assess the genetic diversity and population structure among these genotypes. The informativeness of markers was also estimated using various parameters. Using 25 highly reproducible primer sets, 368 discernible fragments were generated. Of these, 282 (77.21%) were polymorphic. The number of alleles per locus ranged from five to 21, and the genetic variation indices varied. The polymorphism information content (PIC) was 0.358, the Shannon diversity index (H) was 0.534, the marker index (MI) was 4.040, the resolving power (RP) was 6.108, and the genotype index (GI) was 0.782. Genetic similarity coefficients (GS) between the accessions ranged from 0.563 to 0.872, with a mean of 0.685. Their patterns observed in a dendrogram constructed using the unweighted pair group method with arithmetic mean analysis (UPGMA) based on GS largely confirmed the results of principal coordinate analysis (PCoA). PCoA was further confirmed by Bayesian model-based STRUCTURE analysis, which revealed no direct association between genetic relationship and geographical origins as validated by Mantel’s test (r = 0.2268, p = 0.9999). In addition, high-level genetic variation within geographical groups was significantly greater than that between groups, as determined by Shannon diversity analysis, analysis of molecular variance (AMOVA) and Bayesian analysis. Overall, SCoT analysis is a simple, effective and reliable technique for characterizing and maintaining germplasm collections of whipgrass and related species.

【 授权许可】

CC BY   
© 2014 by the authors; licensee MDPI, Basel, Switzerland.