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Keilwagen, J.* ; Lehnert, H.* ; Berner, T.* ; Beier, S.* ; Scholz, U.* ; Himmelbach, A.* ; Stein, N.* ; Badaeva, E.D.* ; Lang, D. ; Kilian, B.* ; Hackauf, B.* ; Perovic, D.*

Detecting large chromosomal modifications using short read data from genotyping-by-sequencing.

Front. Plant Sci. 10:1133 (2019)
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Open Access Gold
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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.
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Publication type Article: Journal article
Document type Scientific Article
Keywords Bioinformatics ; Breeding ; Characterization And Utilization Of Plant Genetic Resources ; Copy Number Variation (cnv) ; Coverage ; Crop Wild Relatives ; Genebank ; Translocation; Dna Methylation; Genome Sequence; Wheat; Rye; Resistance; Translocations; Identification; Barley; Markers; Introgression
Language english
Publication Year 2019
HGF-reported in Year 2019
ISSN (print) / ISBN 1664-462X
e-ISSN 1664-462X
Journal Frontiers in Plant Science
Quellenangaben Volume: 10, Issue: , Pages: , Article Number: 1133 Supplement: ,
Publisher Frontiers
Publishing Place Avenue Du Tribunal Federal 34, Lausanne, Ch-1015, Switzerland
Reviewing status Peer reviewed
Institute(s) Research Unit Plant Genome and Systems Biology (PGSB)
POF-Topic(s) 30202 - Environmental Health
Research field(s) Environmental Sciences
PSP Element(s) G-503500-002
DOI 10.3389/fpls.2019.01133
WOS ID WOS:000487644800001
Scopus ID 85073170937
Erfassungsdatum 2019-10-14
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