DNA sequencing of alleles of DHN1 in Vitis vinifera cv. Thompson Seedless and their bioinformatics analysis
Abstract：According to the DHN1 sequence （NCBI accession number： AY706989） in Vitis vinifera cv. Chardonnay, primer pairs of VDE-F and VDE-R were designed for PCR amplification. Then the PCR amplicon was modified by digoxin for Southern blot assay. It was found that Vitis vinifera cv. Thompson Seedless bears two similar dehydrin genes. Then, DNA fragments of these two similar DHN 1 genes were obtained by the ladder-like purification of agarose gel, and designated as DHNI-L and DHN1-S respec- tively. Flanking sequences were also obtained by the inverse PCR method （NCBI accession numbers ： EF371882 and EF371881 respectively）. BLAST search showed that they located at the same locus （alle- les） of chromosome 4 in the grape genome. Bioinformatics analysis showed that there were some differ- ences in hydrophobicity and tertiary structure of the two corresponding encoded proteins. These results would facilitate the ongoing differential functional relevancies of these two alleles in Thompson Seedless in response to the stresses.
Keywords：Vitis vinifera cv. Thompson SeedlessDehydrin geneAllelesCloneBioinformatics analysis
Publication Date：2012-01-01
Online Publishing Date：2025-08-15(First online date of this platform, not the publication date of the document)