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. 2016 Mar 17;11(3):e0150947.
doi: 10.1371/journal.pone.0150947. eCollection 2016.

A SNP-Based Molecular Barcode for Characterization of Common Wheat

LiFeng Gao  1 , JiZeng Jia  1 , XiuYing Kong  1
Affiliations

A SNP-Based Molecular Barcode for Characterization of Common Wheat

LiFeng Gao et al. PLoS One. .

Abstract

Wheat is grown as a staple crop worldwide. It is important to develop an effective genotyping tool for this cereal grain both to identify germplasm diversity and to protect the rights of breeders. Single-nucleotide polymorphism (SNP) genotyping provides a means for developing a practical, rapid, inexpensive and high-throughput assay. Here, we investigated SNPs as robust markers of genetic variation for typing wheat cultivars. We identified SNPs from an array of 9000 across a collection of 429 well-known wheat cultivars grown in China, of which 43 SNP markers with high minor allele frequency and variations discriminated the selected wheat varieties and their wild ancestors. This SNP-based barcode will allow for the rapid and precise identification of wheat germplasm resources and newly released varieties and will further assist in the wheat breeding program.

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Conflict of interest statement

Competing Interests: The authors have declared that no competing interests exist.

Figures

Fig 1
Fig 1. Flow chart of SNP-based molecular barcode screening for bread wheat.
Fig 2
Fig 2. Distribution of the 43-SNP barcode throughout the genome.
Each line represents one SNP. The SNP markers are colored according to their minor allele frequency among the panel 1 accessions. The centiMorgan (cM) scale is shown on the left.
Fig 3
Fig 3. Pair-wise LD for the 43 SNP markers along chromosomes.
The SNP information is listed in Table 1.
Fig 4
Fig 4. UPGMA trees showed high resolution of the SNP-based barcode.
The corresponding accessions for digital number are listed in S1 Table.
Fig 5
Fig 5. 2D barcode for the panel 1 wheat accessions based on 43 SNP markers.
See this image and copyright information in PMC

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