Open AccessUnlocking the secondary gene‐pool of barley with next‐generation sequencing
Author(s) -
Wendler Neele,
Mascher Martin,
Nöh Christiane,
Himmelbach Axel,
Scholz Uwe,
RugeWehling Brigitte,
Stein Nils
Publication year - 2014
Publication title -
plant biotechnology journal
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 3.525
H-Index - 115
eISSN - 1467-7652
pISSN - 1467-7644
DOI - 10.1111/pbi.12219
Subject(s) - biology , genetic diversity , germplasm , introgression , hordeum vulgare , domestication , genetics , population , snp genotyping , gene pool , single nucleotide polymorphism , microbiology and biotechnology , genotype , gene , botany , poaceae , demography , sociology
Summary Crop wild relatives ( CWR ) provide an important source of allelic diversity for any given crop plant species for counteracting the erosion of genetic diversity caused by domestication and elite breeding bottlenecks. H ordeum bulbosum L. is representing the secondary gene pool of the genus H ordeum . It has been used as a source of genetic introgressions for improving elite barley germplasm ( H ordeum vulgare L.). However, genetic introgressions from H . bulbosum have yet not been broadly applied, due to a lack of suitable molecular tools for locating, characterizing, and decreasing by recombination and marker‐assisted backcrossing the size of introgressed segments. We applied next‐generation sequencing ( NGS ) based strategies for unlocking genetic diversity of three diploid introgression lines of cultivated barley containing chromosomal segments of its close relative H . bulbosum . Firstly, exome capture‐based (re)‐sequencing revealed large numbers of single nucleotide polymorphisms ( SNP s) enabling the precise allocation of H . bulbosum introgressions. This SNP resource was further exploited by designing a custom multiplex SNP genotyping assay. Secondly, two‐enzyme‐based genotyping‐by‐sequencing ( GBS ) was employed to allocate the introgressed H . bulbosum segments and to genotype a mapping population. Both methods provided fast and reliable detection and mapping of the introgressed segments and enabled the identification of recombinant plants. Thus, the utilization of H . bulbosum as a resource of natural genetic diversity in barley crop improvement will be greatly facilitated by these tools in the future.