Soybean Proteome Database 2012: Update on the comprehensive data repository for soybean proteomics

Hajime Ohyanagi, Katsumi Sakata, Setsuko Komatsu*

*Corresponding author for this work

Research output: Contribution to journalReview articlepeer-review

26 Scopus citations

Abstract

The Soybean Proteome Database (SPD) was created to provide a data repository for functional analyses of soybean responses to flooding stress, thought to be a major constraint for establishment and production of this plant. Since the last publication of the SPD, we thoroughly enhanced the contents of database, particularly protein samples and their annotations from several organelles. The current release contains 23 reference maps of soybean (Glycine max cv. Enrei) proteins collected from several organs, tissues, and organelles including the maps for plasma membrane, cell wall, chloroplast, and mitochondrion, which were analyzed by two-dimensional polyacrylamide gels. Furthermore, the proteins analyzed with gel-free proteomics technique have been added and are available online. In addition to protein fluctuations under flooding, those of salt and drought stress have been included in the current release. A case analysis employing a portion of those newly released data was conducted, and the results will be shown. An 'omics table has also been provided to reveal relationships among mRNAs, proteins, and metabolites with a unified temporal-profile tag in order to facilitate retrieval of the data based on the temporal profiles. An intuitive user interface based on dynamic HTML enables users to browse the network as well as the profiles of the multiple 'omes' in an integrated fashion. The SPD is available at: Http://proteome.dc.affrc.go.jp/Soybean/.

Original languageEnglish (US)
Article number110
JournalFrontiers in Plant Science
Volume3
Issue numberMAY
DOIs
StatePublished - May 30 2012

Keywords

  • 2-DE (two-dimensional polyacrylamide gels electrophoresis)
  • Database
  • Gel-free proteomics technique
  • Glycine max cv. Enrei
  • Proteomics
  • Soybean

ASJC Scopus subject areas

  • Plant Science

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