Exome Capture for Variant Discovery and Analysis in Barley

Micha Bayer (Lead / Corresponding author), Jenny A. Morris, Clare Booth, Allan Booth, Niki Uzrek, Joanne R. Russell, Robbie Waugh, Pete E. Hedley

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

Abstract

Exome capture is a reduced representation approach that selectively captures sequence from only the gene-bearing regions of a genome. It is based on probes targeted at these regions and, compared with whole genome shotgun sequencing, leads to a significant reduction in cost and data processing effort while still providing insights into the most relevant part of a genome. An exome capture array for barley was released in 2013 and this has opened the door to numerous studies that have put this technology to good use. In this chapter we detail the laboratory protocols required for enrichment and sequencing, and provide detailed step-by-step instructions for the bioinformatics analysis of the resulting data.

Original languageEnglish
Title of host publicationBarley
Subtitle of host publicationMethods and Protocols
EditorsWendy A. Harwood
Place of PublicationNew York
PublisherHumana Press
Pages283-310
Number of pages28
Volume1900
ISBN (Electronic)9781493989447
ISBN (Print)9781493989423
DOIs
Publication statusPublished - 2019

Publication series

NameMethods in Molecular Biology
PublisherSpringer
ISSN (Print)1064-3745

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Exome
Hordeum
Genome
Firearms
Computational Biology
Technology
Costs and Cost Analysis
Genes

Keywords

  • Barley exome capture
  • Bioinformatics
  • Data analysis
  • Enrichment
  • Library preparation

Cite this

Bayer, M., Morris, J. A., Booth, C., Booth, A., Uzrek, N., Russell, J. R., ... Hedley, P. E. (2019). Exome Capture for Variant Discovery and Analysis in Barley. In W. A. Harwood (Ed.), Barley: Methods and Protocols (Vol. 1900, pp. 283-310). (Methods in Molecular Biology). New York: Humana Press. https://doi.org/10.1007/978-1-4939-8944-7_18
Bayer, Micha ; Morris, Jenny A. ; Booth, Clare ; Booth, Allan ; Uzrek, Niki ; Russell, Joanne R. ; Waugh, Robbie ; Hedley, Pete E. / Exome Capture for Variant Discovery and Analysis in Barley. Barley: Methods and Protocols. editor / Wendy A. Harwood. Vol. 1900 New York : Humana Press, 2019. pp. 283-310 (Methods in Molecular Biology).
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Bayer, M, Morris, JA, Booth, C, Booth, A, Uzrek, N, Russell, JR, Waugh, R & Hedley, PE 2019, Exome Capture for Variant Discovery and Analysis in Barley. in WA Harwood (ed.), Barley: Methods and Protocols. vol. 1900, Methods in Molecular Biology, Humana Press, New York, pp. 283-310. https://doi.org/10.1007/978-1-4939-8944-7_18

Exome Capture for Variant Discovery and Analysis in Barley. / Bayer, Micha (Lead / Corresponding author); Morris, Jenny A.; Booth, Clare; Booth, Allan; Uzrek, Niki; Russell, Joanne R.; Waugh, Robbie; Hedley, Pete E.

Barley: Methods and Protocols. ed. / Wendy A. Harwood. Vol. 1900 New York : Humana Press, 2019. p. 283-310 (Methods in Molecular Biology).

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

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Bayer M, Morris JA, Booth C, Booth A, Uzrek N, Russell JR et al. Exome Capture for Variant Discovery and Analysis in Barley. In Harwood WA, editor, Barley: Methods and Protocols. Vol. 1900. New York: Humana Press. 2019. p. 283-310. (Methods in Molecular Biology). https://doi.org/10.1007/978-1-4939-8944-7_18