Comparison of SNP and CAPS markers application in genetic research in wheat and barley

BMC Plant Biology
Yuri Shavrukov

Abstract

Barley and bread wheat show large differences in frequencies of Single Nucleotide Polymorphism (SNP) as determined from genome-wide studies. These frequencies have been estimated as 2.4-3 times higher in the entire barley genome than within each diploid genomes of wheat (A, B or D). However, barley SNPs within individual genes occur significantly more frequently than quoted. Differences between wheat and barley are based on the origin and evolutionary history of the species. Bread wheat contains rarer SNPs due to the double genetic 'bottle-neck' created by natural hybridisation and spontaneous polyploidisation. Furthermore, wheat has the lowest level of useful SNP-derived markers while barley is estimated to have the highest level of polymorphism. Different strategies are required for the development of suitable molecular markers in these cereal species. For example, SNP markers based on high-throughput technology (Infinium or KASP) are very effective and useful in both barley and bread wheat. In contrast, Cleaved Amplified Polymorphic Sequences (CAPS) are more widely and successfully employed in small-scale experiments with highly polymorphic genetic regions containing multiple SNPs in barley, but not in wheat. However, prelim...Continue Reading

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Citations

May 10, 2017·Genetics and Molecular Biology·Jéssica Rosset FerreiraJorge Fernando Pereira
Sep 25, 2020·Journal of Applied Genetics·Sandra Rychel-BielskaMichał Książkiewicz
Aug 15, 2019·Journal of Applied Genetics·Sandra Rychel, Michał Książkiewicz
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Jun 17, 2021·Molecular Biotechnology·Olha LakhnekoBogdan Morgun

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Methods Mentioned

BETA
Whole Genome Sequencing
genotyping
PCR

Software Mentioned

FlapJack

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