Literature DB >> 22681313

Bread matters: a national initiative to profile the genetic diversity of Australian wheat.

David Edwards1, Stephen Wilcox, Roberto A Barrero, Delphine Fleury, Colin R Cavanagh, Kerrie L Forrest, Matthew J Hayden, Paula Moolhuijzen, Gabriel Keeble-Gagnère, Matthew I Bellgard, Michał T Lorenc, Catherine A Shang, Ute Baumann, Jennifer M Taylor, Matthew K Morell, Peter Langridge, Rudi Appels, Anna Fitzgerald.   

Abstract

The large and complex genome of wheat makes genetic and genomic analysis in this important species both expensive and resource intensive. The application of next-generation sequencing technologies is particularly resource intensive, with at least 17 Gbp of sequence data required to obtain minimal (1×) coverage of the genome. A similar volume of data would represent almost 40× coverage of the rice genome. Progress can be made through the establishment of consortia to produce shared genomic resources. Australian wheat genome researchers, working with Bioplatforms Australia, have collaborated in a national initiative to establish a genetic diversity dataset representing Australian wheat germplasm based on whole genome next-generation sequencing data. Here, we describe the establishment and validation of this resource which can provide a model for broader international initiatives for the analysis of large and complex genomes.
© 2012 The Authors. Plant Biotechnology Journal © 2012 Society for Experimental Biology, Association of Applied Biologists and Blackwell Publishing Ltd.

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Year:  2012        PMID: 22681313     DOI: 10.1111/j.1467-7652.2012.00717.x

Source DB:  PubMed          Journal:  Plant Biotechnol J        ISSN: 1467-7644            Impact factor:   9.803


  18 in total

Review 1.  Accessing complex crop genomes with next-generation sequencing.

Authors:  David Edwards; Jacqueline Batley; Rod J Snowdon
Journal:  Theor Appl Genet       Date:  2012-09-05       Impact factor: 5.699

2.  High-resolution mapping of rachis nodes per rachis, a critical determinant of grain yield components in wheat.

Authors:  Kai P Voss-Fels; Gabriel Keeble-Gagnère; Lee T Hickey; Josquin Tibbits; Sergej Nagornyy; Matthew J Hayden; Raj K Pasam; Surya Kant; Wolfgang Friedt; Rod J Snowdon; Rudi Appels; Benjamin Wittkop
Journal:  Theor Appl Genet       Date:  2019-06-28       Impact factor: 5.699

3.  A haplotype map of allohexaploid wheat reveals distinct patterns of selection on homoeologous genomes.

Authors:  Katherine W Jordan; Shichen Wang; Yanni Lun; Laura-Jayne Gardiner; Ron MacLachlan; Pierre Hucl; Krysta Wiebe; Debbie Wong; Kerrie L Forrest; Andrew G Sharpe; Christine Hd Sidebottom; Neil Hall; Christopher Toomajian; Timothy Close; Jorge Dubcovsky; Alina Akhunova; Luther Talbert; Urmil K Bansal; Harbans S Bariana; Matthew J Hayden; Curtis Pozniak; Jeffrey A Jeddeloh; Anthony Hall; Eduard Akhunov
Journal:  Genome Biol       Date:  2015-02-26       Impact factor: 13.583

4.  Application of next-generation sequencing technology to study genetic diversity and identify unique SNP markers in bread wheat from Kazakhstan.

Authors:  Yuri Shavrukov; Radoslaw Suchecki; Serik Eliby; Aigul Abugalieva; Serik Kenebayev; Peter Langridge
Journal:  BMC Plant Biol       Date:  2014-09-28       Impact factor: 4.215

5.  Mapping of novel salt tolerance QTL in an Excalibur × Kukri doubled haploid wheat population.

Authors:  Muhammad A Asif; Rhiannon K Schilling; Joanne Tilbrook; Chris Brien; Kate Dowling; Huwaida Rabie; Laura Short; Christine Trittermann; Alexandre Garcia; Edward G Barrett-Lennard; Bettina Berger; Diane E Mather; Matthew Gilliham; Delphine Fleury; Mark Tester; Stuart J Roy; Allison S Pearson
Journal:  Theor Appl Genet       Date:  2018-07-30       Impact factor: 5.699

6.  Next generation characterisation of cereal genomes for marker discovery.

Authors:  Paul Visendi; Jacqueline Batley; David Edwards
Journal:  Biology (Basel)       Date:  2013-11-25

7.  Discovery of Single Nucleotide Polymorphisms in Complex Genomes Using SGSautoSNP.

Authors:  Michał T Lorenc; Satomi Hayashi; Jiri Stiller; Hong Lee; Sahana Manoli; Pradeep Ruperao; Paul Visendi; Paul J Berkman; Kaitao Lai; Jacqueline Batley; David Edwards
Journal:  Biology (Basel)       Date:  2012-08-27

8.  Chromosome-specific sequencing reveals an extensive dispensable genome component in wheat.

Authors:  Miao Liu; Jiri Stiller; Kateřina Holušová; Jan Vrána; Dengcai Liu; Jaroslav Doležel; Chunji Liu
Journal:  Sci Rep       Date:  2016-11-08       Impact factor: 4.379

9.  Molecular identification of the wheat male fertility gene Ms1 and its prospects for hybrid breeding.

Authors:  Elise J Tucker; Ute Baumann; Allan Kouidri; Radoslaw Suchecki; Mathieu Baes; Melissa Garcia; Takashi Okada; Chongmei Dong; Yongzhong Wu; Ajay Sandhu; Manjit Singh; Peter Langridge; Petra Wolters; Marc C Albertsen; A Mark Cigan; Ryan Whitford
Journal:  Nat Commun       Date:  2017-10-11       Impact factor: 14.919

10.  Characterization of polyploid wheat genomic diversity using a high-density 90,000 single nucleotide polymorphism array.

Authors:  Shichen Wang; Debbie Wong; Kerrie Forrest; Alexandra Allen; Shiaoman Chao; Bevan E Huang; Marco Maccaferri; Silvio Salvi; Sara G Milner; Luigi Cattivelli; Anna M Mastrangelo; Alex Whan; Stuart Stephen; Gary Barker; Ralf Wieseke; Joerg Plieske; Morten Lillemo; Diane Mather; Rudi Appels; Rudy Dolferus; Gina Brown-Guedira; Abraham Korol; Alina R Akhunova; Catherine Feuillet; Jerome Salse; Michele Morgante; Curtis Pozniak; Ming-Cheng Luo; Jan Dvorak; Matthew Morell; Jorge Dubcovsky; Martin Ganal; Roberto Tuberosa; Cindy Lawley; Ivan Mikoulitch; Colin Cavanagh; Keith J Edwards; Matthew Hayden; Eduard Akhunov
Journal:  Plant Biotechnol J       Date:  2014-03-20       Impact factor: 9.803

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