RRC ID 61891
Author Jayakodi M, Padmarasu S, Haberer G, Bonthala VS, Gundlach H, Monat C, Lux T, Kamal N, Lang D, Himmelbach A, Ens J, Zhang XQ, Angessa TT, Zhou G, Tan C, Hill C, Wang P, Schreiber M, Boston LB, Plott C, Jenkins J, Guo Y, Fiebig A, Budak H, Xu D, Zhang J, Wang C, Grimwood J, Schmutz J, Guo G, Zhang G, Mochida K, Hirayama T, Sato K, Chalmers KJ, Langridge P, Waugh R, Pozniak CJ, Scholz U, Mayer KFX, Spannagl M, Li C, Mascher M, Stein N.
Title The barley pan-genome reveals the hidden legacy of mutation breeding.
Journal Nature
Abstract Genetic diversity is key to crop improvement. Owing to pervasive genomic structural variation, a single reference genome assembly cannot capture the full complement of sequence diversity of a crop species (known as the 'pan-genome'1). Multiple high-quality sequence assemblies are an indispensable component of a pan-genome infrastructure. Barley (Hordeum vulgare L.) is an important cereal crop with a long history of cultivation that is adapted to a wide range of agro-climatic conditions2. Here we report the construction of chromosome-scale sequence assemblies for the genotypes of 20 varieties of barley-comprising landraces, cultivars and a wild barley-that were selected as representatives of global barley diversity. We catalogued genomic presence/absence variants and explored the use of structural variants for quantitative genetic analysis through whole-genome shotgun sequencing of 300 gene bank accessions. We discovered abundant large inversion polymorphisms and analysed in detail two inversions that are frequently found in current elite barley germplasm; one is probably the product of mutation breeding and the other is tightly linked to a locus that is involved in the expansion of geographical range. This first-generation barley pan-genome makes previously hidden genetic variation accessible to genetic studies and breeding.
Volume 588(7837)
Pages 284-289
Published 2020-12-1
DOI 10.1038/s41586-020-2947-8
PII 10.1038/s41586-020-2947-8
PMID 33239781
PMC PMC7759462
MeSH Chromosome Inversion / genetics Chromosome Mapping Chromosomes, Plant / genetics* Genetic Loci / genetics Genome, Plant / genetics* Genotype Hordeum / classification Hordeum / genetics* Internationality* Mutation* Plant Breeding* Polymorphism, Genetic / genetics Reference Standards Seed Bank Sequence Inversion Whole Genome Sequencing
IF 42.779
Barley Barley Accessions. N333, J659