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

Beier, Sebastian; Himmelbach, Axel; Colmsee, Christian; Zhang, Xiao Qi; Barrero, Roberto A.; Zhang, Qisen; Li, Lin; Bayer, Micha; Bolser, Daniel and Taudien, Stefan, et al. (2017) In Scientific data 4.
Abstract

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. â € 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... (More)

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. â € 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).

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Scientific data
volume
4
publisher
Nature Publishing Group
external identifiers
  • scopus:85018297524
  • wos:000400150800001
ISSN
2052-4463
DOI
10.1038/sdata.2017.44
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English
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yes
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2017-05-22 09:24:33
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@article{9ba2fa50-a7d6-4f07-a932-dc05e72d79e5,
  abstract     = {<p>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. â € 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).</p>},
  articleno    = {170044},
  author       = {Beier, Sebastian and Himmelbach, Axel and Colmsee, Christian and Zhang, Xiao Qi and Barrero, Roberto A. and Zhang, Qisen and Li, Lin and Bayer, Micha and Bolser, Daniel and Taudien, Stefan and Groth, Marco and Felder, Marius and Hastie, Alex and Šimková, Hana and Staňková, Helena and Vrána, Jan and Chan, Saki and Muñoz-Amatriaín, María and Ounit, Rachid and Wanamaker, Steve and Schmutzer, Thomas and Aliyeva-Schnorr, Lala and Grasso, Stefano and Tanskanen, Jaakko and Sampath, Dharanya and Heavens, Darren and Cao, Sujie and Chapman, Brett and Dai, Fei and Han, Yong and Li, Hua and Li, Xuan and Lin, Chongyun and McCooke, John K. and Tan, Cong and Wang, Songbo and Yin, Shuya and Zhou, Gaofeng and Poland, Jesse A. and Bellgard, Matthew I. and Houben, Andreas and Doležel, Jaroslav and Ayling, Sarah and Lonardi, Stefano and Langridge, Peter and Muehlbauer, Gary J. and Kersey, Paul and Clark, Matthew D. and Caccamo, Mario and Schulman, Alan H. and Platzer, Matthias and Close, Timothy J. and Hansson, Mats and Zhang, Guoping and Braumann, Ilka and Li, Chengdao and Waugh, Robbie and Scholz, Uwe and Stein, Nils and Mascher, Martin},
  issn         = {2052-4463},
  language     = {eng},
  month        = {04},
  publisher    = {Nature Publishing Group},
  series       = {Scientific data},
  title        = {Construction of a map-based reference genome sequence for barley, Hordeum vulgare L.},
  url          = {http://dx.doi.org/10.1038/sdata.2017.44},
  volume       = {4},
  year         = {2017},
}