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Database Commons - PRGdb

PRGdb

Citations: 98

z-index 2.45

Short name PRGdb
Full name
Description PRG-Wiki is an open and daily update space about plant resistance gene, in which all information about this family is stored, curated and discussed. The purpose of our work is creating a worldwide community working on plant resistance genes with a constant update on all aspects of this research field and to encourage scientists to be actors of the discussion and of the data exchange. PRG-Wiki actually stores more than 112 reference resistance gene and 104335 putative disease resistance gene.
URL http://prgdb.crg.eu/wiki/Main_Page
Year founded 2009
Last update & version 2014-02-04    v2.0
Availability Free to all users
University/Institution hosted University of Naples "Federico II"
Address Via Università 100, 80055 Portici, Italy
City Portici
Province/State
Country/Region Italy
Contact name Maria Raffaella Ercolano
Contact email ercolano@unina.it
Data type(s)
Major organism(s)
Keyword(s)
  • resistance gene
  • wiki
Publication(s)
  • PRGdb 2.0: towards a community-based database model for the analysis of R-genes in plants. [PMID: 23161682]

    Walter Sanseverino, Antonio Hermoso, Raffaella D'Alessandro, Anna Vlasova, Giuseppe Andolfo, Luigi Frusciante, Ernesto Lowy, Guglielmo Roma, Maria Raffaella Ercolano
    Nucleic acids research 2013:41(Database issue)
    30 Citations (Google Scholar as of 2016-03-03)

    Abstract: The Plant Resistance Genes database (PRGdb; http://prgdb.org) is a comprehensive resource on resistance genes (R-genes), a major class of genes in plant genomes that convey disease resistance against pathogens. Initiated in 2009, the database has grown more than 6-fold to recently include annotation derived from recent plant genome sequencing projects. Release 2.0 currently hosts useful biological information on a set of 112 known and 104?310 putative R-genes present in 233 plant species and conferring resistance to 122 different pathogens. Moreover, the website has been completely redesigned with the implementation of Semantic MediaWiki technologies, which makes our repository freely accessed and easily edited by any scientists. To this purpose, we encourage plant biologist experts to join our annotation effort and share their knowledge on resistance-gene biology with the rest of the scientific community.

  • PRGdb: a bioinformatics platform for plant resistance gene analysis. [PMID: 19906694]

    Walter Sanseverino, Guglielmo Roma, Marco De Simone, Luigi Faino, Sara Melito, Elia Stupka, Luigi Frusciante, Maria Raffaella Ercolano
    Nucleic acids research 2010:38(Database issue)
    68 Citations (Google Scholar as of 2016-03-03)

    Abstract: PRGdb is a web accessible open-source (http://www.prgdb.org) database that represents the first bioinformatic resource providing a comprehensive overview of resistance genes (R-genes) in plants. PRGdb holds more than 16,000 known and putative R-genes belonging to 192 plant species challenged by 115 different pathogens and linked with useful biological information. The complete database includes a set of 73 manually curated reference R-genes, 6308 putative R-genes collected from NCBI and 10463 computationally predicted putative R-genes. Thanks to a user-friendly interface, data can be examined using different query tools. A home-made prediction pipeline called Disease Resistance Analysis and Gene Orthology (DRAGO), based on reference R-gene sequence data, was developed to search for plant resistance genes in public datasets such as Unigene and Genbank. New putative R-gene classes containing unknown domain combinations were discovered and characterized. The development of the PRG platform represents an important starting point to conduct various experimental tasks. The inferred cross-link between genomic and phenotypic information allows access to a large body of information to find answers to several biological questions. The database structure also permits easy integration with other data types and opens up prospects for future implementations.

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Tags

Disease DNA
Plant
resistance gene wiki

Record metadata

  • Created on: 2015-06-20
  • Curated by:
    • Shixiang Sun [2016-03-28]
    • Shixiang Sun [2015-11-21]
    • Shixiang Sun [2015-06-28]
    • Shixiang Sun [2015-06-26]
Stats