Application of large-scale sequencing to marker discovery in plants.
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Date
2012-11
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Abstract
Advances in DNA sequencing provide tools for efficient large-scale discovery of markers for use in plants. Discovery
options include large-scale amplicon sequencing, transcriptome sequencing, gene-enriched genome sequencing and
whole genome sequencing. Examples of each of these approaches and their potential to generate molecular markers
for specific applications have been described. Sequencing the whole genome of parents identifies all the polymorphisms
available for analysis in their progeny. Sequencing PCR amplicons of sets of candidate genes from
DNA bulks can be used to define the available variation in these genes that might be exploited in a population or
germplasm collection. Sequencing of the transcriptomes of genotypes varying for the trait of interest may identify
genes with patterns of expression that could explain the phenotypic variation. Sequencing genomic DNA enriched for
genes by hybridization with probes for all or some of the known genes simplifies sequencing and analysis of
differences in gene sequences between large numbers of genotypes and genes especially when working with complex
genomes. Examples of application of the above-mentioned techniques have been described.
Description
Keywords
DNA markers, plants, sequencing
Citation
Henry Robert J, Edwards Mark, Waters Daniel L E, Gopala Krishnan S, Bundock Peter, Sexton Timothy R, Masouleh Ardashir K, Nock Catherine J, Pattemore Julie. Application of large-scale sequencing to marker discovery in plants. Journal of Biosciences. 2012 Nov; 37 (5): 829-841.