Usually genome sequencing is used for identifying the SNPs but it is very costly offense for most genome especially complex genomes like plants. Plants possess most complex genomes due to ploidy variability and are difficult to sequence completely. The flexibility and low cost of GBS makes this an excellent tool for many applications and research questions in plant genetics and breeding. GBS gives an advantage in species like barley that lack a complete genome sequence is that a reference map need only be developed around the restriction sites, and this can be done in the process of sample genotyping.
Alternatively, for kinship analyses in the absence of a reference genome, the sequence tags can simply be treated as dominant markers.
Application of GBS to breeding, conservation, and global species and population surveys may allow
GBS uses Illumina next generation sequencing platform to discover thousands of SNP markers in numerous model or non model organisms. GBS givens an opportunity for studying SNPs and markers in all it is a "complexity reduction" technique designed to reliably interrogate a segment of genome; the method involves cutting down a genome anywhere from 0.1 to 15% with at least one restriction enzyme and sequencing the ends of the resulting fragments for either genetic marker discovery or genotyping.
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