CerealsDB: A Whistle-Stop Tour of an Open Access SNP Resource

Mark Winfield*, Paul Wilkinson, Amanda Burridge, Alexandra Przewieslik-Allen, Jane Coghill, Christy Waterfall, Keith Edwards, Gary Barker

*Corresponding author for this work

Research output: Chapter in Book/Report/Conference proceedingChapter in a book

Abstract

The CerealsDB website, created by members of the Functional Genomics Group at the University of Bristol, provides access to a database containing SNP and genotyping data for hexaploid wheat and, to a lesser extent, its progenitors and several of its relatives. The site is principally aimed at plant breeders and research scientists who wish to obtain information regarding SNP markers; for example, obtain primers used for their identification or the sequences upon which they are based. The database underpinning the website contains circa one million putative varietal SNPs of which several hundreds of thousands have been experimentally validated on a range of common genotyping platforms. For each SNP marker, the site also hosts the allelic scores for thousands of elite wheat varieties, landrace cultivars, and wheat relatives. Tools are available to help negotiate and visualize the datasets. The website has been designed to be simple and straightforward to use and is completely open access.

Original languageEnglish
Title of host publicationPlant Bioinformatics
PublisherHumana Press
Pages133-146
Number of pages14
ISBN (Electronic)9781071620670
ISBN (Print)9781071620663
DOIs
Publication statusPublished - 16 Jan 2022

Publication series

NameMethods in Molecular Biology
Volume2443
ISSN (Print)1064-3745
ISSN (Electronic)1940-6029

Bibliographical note

Funding Information:
We are grateful to the Biotechnology and Biological Sciences Research Council, UK, for providing the funding for this work (BBS/E/C/000I0210, BBS/E/C/000I0280, BBS/E/J/ 000PR9782, BBS/E/T/000PR9783). We are also grateful to the Lady Emily Smyth Agricultural Research Station for providing the funds for next generation sequencing.

Publisher Copyright:
© 2022, The Author(s), under exclusive license to Springer Science+Business Media, LLC, part of Springer Nature.

Keywords

  • Single nucleotide polymorphisms
  • SNPs
  • Database
  • QTL
  • Phylogeny
  • Wheat

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