Construction of a map-based reference genome sequence for barley, Hordeum vulgare L

Sebastian Beier; Axel Himmelbach; Christian Colmsee; Xiao-Qi Zhang; Roberto A Barrero; Qisen Zhang; Lin Li; Micha Bayer; Daniel Bolser; Stefan Taudien; Marco Groth; Marius Felder; Alex Hastie; Hana Šimková; Helena Staňková; Jan Vrána; Saki Chan; María Muñoz-Amatriaín; Rachid Ounit; Steve Wanamaker; Thomas Schmutzer; Lala Aliyeva-Schnorr; Stefano Grasso; Jaakko Tanskanen; Dharanya Sampath; Darren Heavens; Sujie Cao; Brett Chapman; Fei Dai; Yong Han; Hua Li; Xuan Li; Chongyun Lin; John K McCooke; Cong Tan; Songbo Wang; Shuya Yin; Gaofeng Zhou; Jesse A Poland; Matthew I Bellgard; Andreas Houben; Jaroslav Doležel; Sarah Ayling; Stefano Lonardi; Peter Langridge; Gary J Muehlbauer; Paul Kersey; Matthew D Clark; Mario Caccamo; Alan H Schulman; Matthias Platzer; Timothy J Close; Mats Hansson; Guoping Zhang; Ilka Braumann; Chengdao Li; Robbie Waugh; Uwe Scholz; Nils Stein; Martin Mascher

doi:10.1038/sdata.2017.44

Back

Construction of a map-based reference genome sequence for barley, Hordeum vulgare L

Journal article

Open access

Peer reviewed

Construction of a map-based reference genome sequence for barley, Hordeum vulgare L

Sebastian Beier, Axel Himmelbach, Christian Colmsee, Xiao-Qi Zhang, Roberto A Barrero, Qisen Zhang, Lin Li, Micha Bayer, Daniel Bolser, Stefan Taudien, …

Scientific data, Vol.4(1), pp.170044-170044

27/04/2017

DOI: https://doi.org/10.1038/sdata.2017.44

PMCID: PMC5407242

PMID: 28448065

Abstract

Chromosome Mapping

Genome, Plant

Hordeum - genetics

Sequence Analysis

Barley (Hordeum vulgare L.) is a cereal grass mainly used as animal fodder and raw material for the malting industry. The map-based reference genome sequence of barley cv. 'Morex' was constructed by the International Barley Genome Sequencing Consortium (IBSC) using hierarchical shotgun sequencing. Here, we report the experimental and computational procedures to (i) sequence and assemble more than 80,000 bacterial artificial chromosome (BAC) clones along the minimum tiling path of a genome-wide physical map, (ii) find and validate overlaps between adjacent BACs, (iii) construct 4,265 non-redundant sequence scaffolds representing clusters of overlapping BACs, and (iv) order and orient these BAC clusters along the seven barley chromosomes using positional information provided by dense genetic maps, an optical map and chromosome conformation capture sequencing (Hi-C). Integrative access to these sequence and mapping resources is provided by the barley genome explorer (BARLEX).

Files and links (1)

url

https://doi.org/10.1038/sdata.2017.44View

Published (Version of record) Open

Metrics

1 Record Views

See more details

Details

Title: Construction of a map-based reference genome sequence for barley, Hordeum vulgare L
Creators - without role: Sebastian Beier - Leibniz Association
Axel Himmelbach - Leibniz Association
Christian Colmsee - Leibniz Association
Xiao-Qi Zhang - Murdoch University
Roberto A Barrero - Murdoch University
Qisen Zhang - Australian Export Grains Innovation Centre
Lin Li - University of Minnesota
Micha Bayer - James Hutton Institute
Daniel Bolser - European Bioinformatics Institute
Stefan Taudien - National Institutes of Health
Marco Groth - National Institutes of Health
Marius Felder - National Institutes of Health
Alex Hastie - BioNano Genomics
Hana Šimková - Institute of Experimental Botany, Centre of the Region Haná for Biotechnological and Agricultural Research, 78371 Olomouc, Czech Republic
Helena Staňková - Institute of Experimental Botany, Centre of the Region Haná for Biotechnological and Agricultural Research, 78371 Olomouc, Czech Republic
Jan Vrána - Institute of Experimental Botany, Centre of the Region Haná for Biotechnological and Agricultural Research, 78371 Olomouc, Czech Republic
Saki Chan - BioNano Genomics
María Muñoz-Amatriaín - University of California, Riverside
Rachid Ounit - University of California, Riverside
Steve Wanamaker - University of California, Riverside
Thomas Schmutzer - Leibniz Association
Lala Aliyeva-Schnorr - Leibniz Association
Stefano Grasso - University of Udine
Jaakko Tanskanen - University of Helsinki
Dharanya Sampath - Norwich University
Darren Heavens - Norwich University
Sujie Cao - BGI
Brett Chapman - Murdoch University
Fei Dai - Zhejiang University
Yong Han - Zhejiang University
Hua Li - BGI
Xuan Li - BGI
Chongyun Lin - BGI
John K McCooke - Murdoch University
Cong Tan - Murdoch University
Songbo Wang - BGI
Shuya Yin - Zhejiang University
Gaofeng Zhou - Murdoch University
Jesse A Poland - Kansas State University
Matthew I Bellgard - Murdoch University
Andreas Houben - Leibniz Association
Jaroslav Doležel - Institute of Experimental Botany, Centre of the Region Haná for Biotechnological and Agricultural Research, 78371 Olomouc, Czech Republic
Sarah Ayling - Norwich University
Stefano Lonardi - University of California, Riverside
Peter Langridge - University of Adelaide
Gary J Muehlbauer - University of Minnesota
Paul Kersey - European Bioinformatics Institute
Matthew D Clark - University of East Anglia
Mario Caccamo - National Institute of Agricultural Botany
Alan H Schulman - University of Helsinki
Matthias Platzer - National Institutes of Health
Timothy J Close - University of California, Riverside
Mats Hansson - Lund University
Guoping Zhang - Zhejiang University
Ilka Braumann - Carlsberg Research Laboratory, 1799 Copenhagen, Denmark
Chengdao Li - Murdoch University
Robbie Waugh - James Hutton Institute
Uwe Scholz - Leibniz Association
Nils Stein - University of Western Australia
Martin Mascher - Leibniz Association
Publication Details: Scientific data, Vol.4(1), pp.170044-170044
Grant note: BB/H531519/1 / Biotechnology and Biological Sciences Research Council
Identifiers: 9941994308331
Academic Unit: King Abdullah University of Science & Technology
Language: English
Resource Type: Journal article