Authors

María Muñoz-Amatriaín, University of California, Riverside
Stefano Lonardi, University of California, Riverside
MingCheng Luo, University of California, Davis
Kavitha Madishetty, University of California, Riverside
Jan T. Svensson, University of California, Riverside
Matthew J. Moscou, University of California, Riverside
Steve Wanamaker, University of California, Riverside
Tao Jiang, University of California, Riverside
Andris Kleinhofs, Washington State University, Pullman
Gary J. Muehlbauer, University of Minnesota, St. Paul
Roger P. Wise, Iowa State University, Ames
Nils Stein, Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), Gatersleben
Shane Ma, University of California, Riverside
Edmundo Rodriguez, University of California, Riverside
Dave Kudrna, University of Arizona, Tucson
Prasanna R. Bhat, University of California, Riverside
Shiaoman Chao, USDA-ARS Biosciences Research Lab, Fargo
Pascal Condamine, University of California, Riverside
Shane Heinen, University of Minnesota, St. Paul
Josh Resnik, University of California, Riverside
Rod Wing, University of Arizona, Tucson
Heather N. Witt, University of California, Davis
Matthew Alpert, University of California, Riverside
Marco Beccuti, University of California, Riverside
Serdar Bozdag, Marquette UniversityFollow
Francesca Cordero, University of California, Riverside
Hamid Mirebrahim, University of California, Riverside
Rachid Ounit, University of California, Riverside
Yonghui Wu, University of California, Riverside
Frank You, USDA-ARS, Albany
Jie Zheng, University of California, Riverside
Hana Simková, Institute of Experimental Botany, Olomouc
Jaroslav Dolezel, Institute of Experimental Botany, Olomouc
Jane Grimwood, DOE Joint Genome Institute, Huntsville
Jeremy Schmutz, DOE Joint Genome Institute, Huntsville
Denisa Duma, University of California, Riverside
Lothar Altschmied, Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), Gatersleben
Tom Blake, Montana State University, Bozeman
Phil Bregitzer, USDA-ARS, Aberdeen
Laurel Cooper, Oregon State University, Corvallis
Muharrem Dilbirligi, Washington State University, Pullman
Anders Falk, Swedish University of Agricultural Sciences, SE-750 07 Uppsala
Leila Feiz, Montana State University, Bozeman
Andreas Graner, Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), Gatersleben
Perry Gustafson, University of Missouri, Columbia
Patrick M. Hayes, Oregon State University, Corvallis
Peggy Lemaux, University of California, Berkeley
Jafar Mammadov, Virginia Tech, Blacksburg
Timothy J. Close, University of California, Riverside

Document Type

Article

Language

eng

Format of Original

12 p.; 28 cm

Publication Date

10-2015

Publisher

Wiley

Source Publication

Plant Journal

Source ISSN

0960-7412

Original Item ID

Shelves: QK 728 .P53 2015 v. 84, Raynor Memorial Periodicals; doi: 10.1111/tpj.12959

Abstract

Barley (Hordeum vulgare L.) possesses a large and highly repetitive genome of 5.1 Gb that has hindered the development of a complete sequence. In 2012, the International Barley Sequencing Consortium released a resource integrating whole-genome shotgun sequences with a physical and genetic framework. However, because only 6278 bacterial artificial chromosome (BACs) in the physical map were sequenced, fine structure was limited. To gain access to the gene-containing portion of the barley genome at high resolution, we identified and sequenced 15 622 BACs representing the minimal tiling path of 72 052 physical-mapped gene-bearing BACs. This generated ~1.7 Gb of genomic sequence containing an estimated 2/3 of all Morex barley genes. Exploration of these sequenced BACs revealed that although distal ends of chromosomes contain most of the gene-enriched BACs and are characterized by high recombination rates, there are also gene-dense regions with suppressed recombination. We made use of published map-anchored sequence data from Aegilops tauschii to develop a synteny viewer between barley and the ancestor of the wheat D-genome. Except for some notable inversions, there is a high level of collinearity between the two species. The software HarvEST:Barley provides facile access to BAC sequences and their annotations, along with the barley–Ae. tauschii synteny viewer. These BAC sequences constitute a resource to improve the efficiency of marker development, map-based cloning, and comparative genomics in barley and related crops. Additional knowledge about regions of the barley genome that are gene-dense but low recombination is particularly relevant.

Comments

Published version. Plant Journal, Vol. 84, No. 1 (October 2015): 216–227. DOI. © The Authors 2015.

Creative Commons License

Creative Commons Attribution 4.0 License
This work is licensed under a Creative Commons Attribution 4.0 License.

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