A chromosome conformation capture ordered sequence of the barley genome

Research output: Contribution to journalArticle


Cereal grasses of the Triticeae tribe have been the major food source in temperate regions since the dawn of agriculture. Their large genomes are characterized by a high content of repetitive elements and large pericentromeric regions that are virtually devoid of meiotic recombination. Here we present a high-quality reference genome assembly for barley (Hordeum vulgare L.). We use chromosome conformation capture mapping to derive the linear order of sequences across the pericentromeric space and to investigate the spatial organization of chromatin in the nucleus at megabase resolution. The composition of genes and repetitive elements differs between distal and proximal regions. Gene family analyses reveal lineage-specific duplications of genes involved in the transport of nutrients to developing seeds and the mobilization of carbohydrates in grains. We demonstrate the importance of the barley reference sequence for breeding by inspecting the genomic partitioning of sequence variation in modern elite germplasm, highlighting regions vulnerable to genetic erosion.


  • Martin Mascher
  • Heidrun Gundlach
  • Axel Himmelbach
  • Sebastian Beier
  • Sven O. Twardziok
  • Thomas Wicker
  • Volodymyr Radchuk
  • Christoph Dockter
  • Pete E. Hedley
  • Joanne Russell
  • Micha Bayer
  • Luke Ramsay
  • Hui Liu
  • Georg Haberer
  • Xiao Qi Zhang
  • Qisen Zhang
  • Roberto A. Barrero
  • Lin Li
  • Stefan Taudien
  • Marco Groth
  • Marius Felder
  • Alex Hastie
  • Hana Šimková
  • Helena Stanková
  • Jan Vrána
  • Saki Chan
  • Mariá Munõz-Amatriaín
  • Rachid Ounit
  • Steve Wanamaker
  • Daniel Bolser
  • Christian Colmsee
  • Thomas Schmutzer
  • Lala Aliyeva-Schnorr
  • Stefano Grasso
  • Jaakko Tanskanen
  • Anna Chailyan
  • Dharanya Sampath
  • Darren Heavens
  • Leah Clissold
  • Sujie Cao
  • Brett Chapman
  • Fei Dai
  • Yong Han
  • Hua Li
  • Xuan Li
  • Chongyun Lin
  • John K. McCooke
  • Cong Tan
  • Penghao Wang
  • Songbo Wang
  • Shuya Yin
  • Gaofeng Zhou
  • Jesse A. Poland
  • Matthew I. Bellgard
  • Ljudmilla Borisjuk
  • Andreas Houben
  • Jaroslav Doleael
  • Sarah Ayling
  • Stefano Lonardi
  • Paul Kersey
  • Peter Langridge
  • Gary J. Muehlbauer
  • Matthew D. Clark
  • Mario Caccamo
  • Alan H. Schulman
  • Klaus F. X. Mayer
  • Matthias Platzer
  • Timothy J. Close
  • Uwe Scholz
  • Guoping Zhang
  • Ilka Braumann
  • Manuel Spannagl
  • Chengdao Li
  • Robbie Waugh
  • Nils Stein
External organisations
  • Leibniz Institute of Plant Genetics and Crop Plant Research
  • German Centre for Integrative Biodiversity Research (iDiv)
  • Helmholtz Zentrum München
  • University of Zurich
  • Carlsberg Research Center / Carlsberg Laboratory
  • Scottish Crop Research Institute
  • Murdoch University
  • Australian Export Grains Innovation Centre
  • University of Minnesota system
  • Leibniz Institute on Aging - Fritz Lipmann Institute (FLI)
  • BioNano Genomics Inc.
  • Centre of the Region Haná for Biotechnological and Agricultural Research
  • University of California, Riverside
  • European Bioinformatics Institute
  • University of Udine
  • University of Helsinki
  • Earlham Institute
  • Zhejiang University
  • Beijing Genomics Institute
  • Kansas State University
  • University of Adelaide
  • University of East Anglia
  • National Institute of Agricultural Botany
  • Technical University of Munich
  • Government of Western Australia
  • Yangtze University
  • Ninewells Hospital and Medical School
  • University of Western Australia, Crawley
Research areas and keywords

Subject classification (UKÄ) – MANDATORY

  • Genetics and Breeding
  • Genetics
  • Botany


  • Plant genetics, DNA sequencing, Natural variation in plants, Agricultural genetics, Hordeum vulgare
Original languageEnglish
Pages (from-to)427-433
Number of pages7
Issue number7651
Publication statusPublished - 2017 Apr 26
Publication categoryResearch