Analysis of genetic diversity in barley cultivars reveals incongruence between S-SAP, SNP and pedigree data

作者：Soleiman V D; Baum B R^*; Johnson D A

来源：Genetic Resources and Crop Evolution, 2007, 54(1): 83-97.

DOI：10.1007/s10722-005-1886-4

• barley
• genetic similarity
• genome evolution
• Hordeum vulgare
• kinship coefficient
• SNP
• S-SAP

Accurate assessment of genetic similarity is important for plant breeding, germplasm enhancement and conservation of plant genetic resources. A comparative analysis of genome diversity among a group of six-rowed spring barley (Hordeum vulgare L.) cultivars was carried out using sequence-specific amplified polymorphism (S-SAP) and single nucleotide polymorphism (SNP), with the results compared to the kinship coefficients derived from the pedigree data. Mean pair-wise GS values were estimated to be 0.0957 +/- 0.144 (Kinship), 0.491 +/- 0.189 (SNPs), and 0.602 +/- 0.098 (S-SAPs). S-SAP and SNP-based genetic similarity (GS) values were normally distributed but kinship values had a non-normal and skewed distribution. Pair-wise correlation of GS values were lowest for the S-SAP and the SNP matrices (r =; 0.040, p < 0.230) and highest for the SNP and pedigree matrices (r =; 0.240, p < 0.001). Analysis of molecular variance (AMOVA) attributed about 90.4% of observed variation to the cultivars within each of the malting and feed groups. Variance component between malting and feed groups was 6.6% for both SNP and S-SAP data suggesting lack of a significant genetic differentiation along this agronomic division. The remaining 3% of variation was attributed to genetic diversity within cultivars. Although both DNA-based marker systems were able to differentiate all barley cultivars, significant difference were observed in the pattern of genetic relationships obtained by the two marker systems and the pedigree data.

• 出版日期2007-2