Free-flow electrophoresis of plasma membrane vesicles enriched by two-phase partitioning enhances the quality of the proteome from Arabidopsis seedlings

Research output: Contribution to journalJournal articleResearchpeer-review

  • Roberto de Michele
  • Heather E McFarlane
  • Harriet Tempé Parsons
  • Miranda J Meents
  • Jeemeng Lao
  • Susana M González Fernández-Niño
  • Christopher J Petzold
  • Wolf B Frommer
  • A Lacey Samuels
  • Joshua L Heazlewood

The plant plasma membrane is the interface between the cell and its environment undertaking a range of important functions related to transport, signaling, cell wall biosynthesis, and secretion. Multiple proteomic studies have attempted to capture the diversity of proteins in the plasma membrane using biochemical fractionation techniques. In this study, two-phase partitioning was combined with free-flow electrophoresis to produce a population of highly purified plasma membrane vesicles that were subsequently characterized by tandem mass spectroscopy. This combined high-quality plasma membrane isolation technique produced a reproducible proteomic library of over 1000 proteins with an extended dynamic range including plasma membrane-associated proteins. The approach enabled the detection of a number of putative plasma membrane proteins not previously identified by other studies, including peripheral membrane proteins. Utilizing multiple data sources, we developed a PM-confidence score to provide a value indicating association to the plasma membrane. This study highlights over 700 proteins that, while seemingly abundant at the plasma membrane, are mostly unstudied. To validate this data set, we selected 14 candidates and transiently localized 13 to the plasma membrane using a fluorescent tag. Given the importance of the plasma membrane, this data set provides a valuable tool to further investigate important proteins. The mass spectrometry data are available via ProteomeXchange, identifier PXD001795.

Original languageEnglish
JournalJournal of Proteome Research
Volume15
Issue number3
Pages (from-to)900-913
Number of pages14
ISSN1535-3893
DOIs
Publication statusPublished - 2016

    Research areas

  • Journal Article, Research Support, Non-U.S. Gov't, Research Support, U.S. Gov't, Non-P.H.S.

ID: 169137013