DataSheet_2_Detecting Large Chromosomal Modifications Using Short Read Data From Genotyping-by-Sequencing.pdf Jens Keilwagen Heike Lehnert Thomas Berner Sebastian Beier Uwe Scholz Axel Himmelbach Nils Stein Ekaterina D. Badaeva Daniel Lang Benjamin Kilian Bernd Hackauf Dragan Perovic 10.3389/fpls.2019.01133.s002 https://frontiersin.figshare.com/articles/dataset/DataSheet_2_Detecting_Large_Chromosomal_Modifications_Using_Short_Read_Data_From_Genotyping-by-Sequencing_pdf/9897242 <p>Markers linked to agronomic traits are of the prerequisite for molecular breeding. Genotyping-by-sequencing (GBS) data enables to detect small polymorphisms including single nucleotide polymorphisms (SNPs) and short insertions or deletions (InDels) that can be used, for instance, for marker-assisted selection, population genetics, and genome-wide association studies (GWAS). Here, we aim at detecting large chromosomal modifications in barley and wheat based on GBS data. These modifications could be duplications, deletions, substitutions including introgressions as well as alterations of DNA methylation. We demonstrate that GBS coverage analysis is capable to detect Hordeum vulgare/Hordeum bulbosum introgression lines. Furthermore, we identify large chromosomal modifications in barley and wheat collections. Hence, large chromosomal modifications, including introgressions and copy number variations (CNV), can be detected easily and can be used as markers in research and breeding without additional wet-lab experiments.</p> 2019-09-24 13:56:38 genebank crop wild relatives characterization and utilization of plant genetic resources translocation copy number variation (CNV) coverage bioinformatics breeding