Targeted Proteomics Approach for Precision Plant Breeding

Research output: Contribution to journalArticle

Abstract

Selected reaction monitoring (SRM) is a targeted mass spectrometry technique that enables precise quantitation of hundreds of peptides in a single run. This technique provides new opportunities for multiplexed protein biomarker measurements. For precision plant breeding, DNA-based markers have been used extensively, but the potential of protein biomarkers has not been exploited. In this work, we developed an SRM marker panel with assays for 104 potato (Solanum tuberosum) peptides selected using univariate and multivariate statistics. Thereafter, using random forest classification, the prediction markers were identified for Phytopthora infestans resistance in leaves, P. infestans resistance in tubers, and plant yield in potato leaf secretome samples. The results suggest that the marker panel has the predictive potential for three traits, two of which have no commercial DNA markers so far. Furthermore, the marker panel was also tested and found to be applicable to potato clones not used during the marker development. The proposed workflow is thus a proof-of-concept for targeted proteomics as an efficient readout in accelerated breeding for complex and agronomically important traits.

Details

Authors
  • Aakash Chawade
  • Erik Alexandersson
  • Therese Bengtsson
  • Erik Andreasson
  • Fredrik Levander
Organisations
External organisations
  • Swedish University of Agricultural Sciences
Research areas and keywords

Subject classification (UKÄ) – MANDATORY

  • Genetics and Breeding
Original languageEnglish
Pages (from-to)638-642
Number of pages9
JournalJournal of Proteome Research
Volume15
Issue number2
Publication statusPublished - 2016 Feb 5
Publication categoryResearch
Peer-reviewedYes