Eukaryotic Pathogen Database Explained

The Eukaryotic Pathgen Database, or EuPathDB, is a database of bioinformatic and experimental data related to a variety of eukaryotic pathogens. It was established in 2006 under a National Institutes of Health program to create Bioinformatics Resource Centers to facilitate research on pathogens that may pose biodefense threats. EuPathDB stores data related to its organisms of interest and provides tools for searching through and analyzing the data. It currently consists of 14 component databases, each dedicated to a certain research topic.EuPathDB includes:

History

EuPathDB was established under the NIH Bioinformatics Resource Centers program as ApiDB, a resource meant to cover Apicomplexan parasites.[1] ApiDB originally consisted of component sites CryptoDB (for Cryptosporidium), PlasmoDB (for Plasmodium), and ToxoDB (for Toxoplasma gondii). As ApiDB grew to focus on eukaryotic pathogens beyond Apicomplexans, the name was changed to EuPathDB to support its broadened scope. EuPathDB was the result of collaboration between many different parasitologists, including David Roos, Jessica Kissinger and Dyann Wirth.[2] [3]

Functions

It is an integrated database covering the eukaryotic pathogens in several genera. It enables the accessing of detailed genome information associated with these pathogens. EuPathDB was formerly known as ApiDB and was the integrated resources for the apicomplexans covering the databases of associated pathogens, ToxoDB, PiroplasmDB and CryptoDB.[4]

Presently EuPathDB covers 11 databases, the latest addition being that of Piroplasma which supports Babesia and Theileria. This BRC is one of five centres being funded to providesupport to research bodies. EuPath supports the investigation of eukaryotic pathogens, and the other four centres support the investigation of other disease pathogens.[5] It has developed a sophisticated search system providing invaluable help to researchers.[6]

Component databases

EuPathDB consists of 14 component databases, each with a particular focus:[7]

Notes and References

  1. National Institute of Allergy and Infectious Diseases Bioinformatics Resource Centers: New Assets for Pathogen Informatics . Greene JM, Collins F, Lefkowitz EJ, Roos D, Scheuermann RH, Sobral B, Stevens R, White O, Francsco VD. Infection and Immunity . 2007 . 75 . 7 . 3212–3219 . 10.1128/IAI.00105-07 . 17420237 . 1932942 .
  2. Web site: Parasitologist, Reprogrammed: A Profile of David Roos. The Scientist Magazine®. en. 2019-08-02.
  3. Web site: EuPathDB : About All. eupathdb.org. 2019-08-02.
  4. 17098930 . 10.1093/nar/gkl880 . 35 . ApiDB: integrated resources for the apicomplexan bioinformatics resource center . 1669770 . 2007 . Nucleic Acids Res . D427-30 . Aurrecoechea C, Heiges M, Wang H, Wang Z, Fischer S, Rhodes P, Miller J, Kraemer E, Stoeckert CJ Jr, Roos DS, Kissinger JC . Database issue .
  5. Aurrecoechea C, Barreto A . etal . 2013. EuPathDB:the eukaryotic pathogen database . Nucleic Acids Research . 41. Database issue . D684-91. 23175615 . 10.1093/nar/gks1113 . 3531183 .
  6. 19914931 . 10.1093/nar/gkp941 . 38 . EuPathDB: a portal to eukaryotic pathogen databases . 2808945 . 2010 . Nucleic Acids Res . D415-9 . Aurrecoechea C, Brestelli J, Brunk BP, Fischer S, Gajria B, Gao X, Gingle A, Grant G, Harb OS, Heiges M, Innamorato F, Iodice J, Kissinger JC, Kraemer ET, Li W, Miller JA, Nayak V, Pennington C, Pinney DF, Roos DS, Ross C, Srinivasamoorthy G, Stoeckert CJ Jr, Thibodeau R, Treatman C, Wang H . Database issue .
  7. Web site: The Eukaryotic Pathogen genome resource . EuPathDB . 2013-11-11.

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