Integration of the barley genetic and seed proteome maps for chromosome 1H, 2H, 3H, 5H and 7H

Christine Finnie, Merethe Bagge, Torben Steenholdt, Ole Østergaard, Kristian Sass Bak-Jensen, Gunter Backes, Anais Jensen, Nanna Henriette Giese, Jørgen Larsen, Peter Roepstorff, Birte Svensson

Research output: Contribution to journalJournal articleResearchpeer-review

Abstract

Two-dimensional gel electrophoresis was used to screen spring barley cultivars for differences in seed protein profiles. In parallel, 72 microsatellite (simple sequence repeat (SSR)) markers and 11 malting quality parameters were analysed for each cultivar. Over 60 protein spots displayed cultivar variation, including peroxidases, serpins and proteins with unknown functions. Cultivars were clustered based on the spot variation matrix. Cultivars with superior malting quality grouped together, indicating malting quality to be more closely correlated with seed proteomes than with SSR profiles. Mass spectrometry showed that some spot variations were caused by amino acid differences encoded by single nucleotide polymorphisms (SNPs). Coding SNPs were validated by mass spectrometry, expressed sequence tag and 2D gel data. Coding SNPs can alter function of affected proteins and may thus represent a link between cultivar traits, proteome and genome. Proteome analysis of doubled haploid lines derived from a cross between a malting (Scarlett) and a feed cultivar (Meltan) enabled genetic localisation of protein phenotypes represented by 48 spot variations, involving e.g. peroxidases, serpins, alpha-amylase/trypsin inhibitors, peroxiredoxin and a small heat shock protein, in relation to markers on the chromosome map.
Original languageEnglish
JournalFunctional & Integrative Genomics
Volume9
Issue number1
Pages (from-to)135-143
ISSN1438-793X
DOIs
Publication statusPublished - 2009

Keywords

  • Cereal seed proteome
  • Malting
  • Coding SNP
  • SSR

Cite this