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PMID: 16103911 Published · ppublish English Journal Article

A human-curated annotation of the Candida albicans genome.

PLoS genetics ·Vol. 1 ·No. 1 ·2005-07-00 ·Pages 36-57

Braun BR, van Het Hoog M, d'Enfert C, Martchenko M, Dungan J, Kuo A, Inglis DO, Uhl MA, Hogues H, Berriman M, Lorenz M, Levitin A, Oberholzer U, Bachewich C, Harcus D, Marcil A, Dignard D, Iouk T, Zito R, Frangeul L, Tekaia F, Rutherford K, Wang E, Munro CA, Bates S, Gow NA, Hoyer LL, Köhler G, Morschhäuser J, Newport G, Znaidi S, Raymond M, Turcotte B, Sherlock G, Costanzo M, Ihmels J, Berman J, Sanglard D, Agabian N, Mitchell AP, Johnson AD, Whiteway M, Nantel A

Abstract

Recent sequencing and assembly of the genome for the fungal pathogen Candida albicans used simple automated procedures for the identification of putative genes. We have reviewed the entire assembly, both by hand and with additional bioinformatic resources, to accurately map and describe 6,354 genes and to identify 246 genes whose original database entries contained sequencing errors (or possibly mutations) that affect their reading frame. Comparison with other fungal genomes permitted the identification of numerous fungus-specific genes that might be targeted for antifungal therapy. We also observed that, compared to other fungi, the protein-coding sequences in the C. albicans genome are especially rich in short sequence repeats. Finally, our improved annotation permitted a detailed analysis of several multigene families, and comparative genomic studies showed that C. albicans has a far greater catabolic range, encoding respiratory Complex 1, several novel oxidoreductases and ketone body degrading enzymes, malonyl-CoA and enoyl-CoA carriers, several novel amino acid degrading enzymes, a variety of secreted catabolic lipases and proteases, and numerous transporters to assimilate the resulting nutrients. The results of these efforts will ensure that the Candida research community has uniform and comprehensive genomic information for medical research as well as for future diagnostic and therapeutic applications.

Authors & Affiliations
43 authors, click to expand affiliations / ORCID
Braun Burkhard R
Department of Microbiology and Immunology, University of California, San Francisco, California, USA.
van Het Hoog Marco
d'Enfert Christophe
Martchenko Mikhail
Dungan Jan
Kuo Alan
Inglis Diane O
Uhl M Andrew
Hogues Hervé
Berriman Matthew
Lorenz Michael
Levitin Anastasia
Oberholzer Ursula
Bachewich Catherine
Harcus Doreen
Marcil Anne
Dignard Daniel
Iouk Tatiana
Zito Rosa
Frangeul Lionel
Tekaia Fredj
Rutherford Kim
Wang Edwin
Munro Carol A
Bates Steve
Gow Neil A
Hoyer Lois L
Köhler Gerwald
Morschhäuser Joachim
Newport George
Znaidi Sadri
Raymond Martine
Turcotte Bernard
Sherlock Gavin
Costanzo Maria
Ihmels Jan
Berman Judith
Sanglard Dominique
Agabian Nina
Mitchell Aaron P
Johnson Alexander D
Whiteway Malcolm
Nantel André
Conflict of Interest

Competing interests. BRB is an employee of both Incyte and University of California at San Francisco (UCSF). Incyte played no role in this work, and the resources used were all from UCSF.

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Article Info
Journal
PLoS genetics
Abbr.
PLoS Genet
ISSN
1553-7390
DOI
10.1371/journal.pgen.0010001
Published
2005-07-00
Epub
2005-00-17
Pages
36-57
Language
English
Region
United States
NLM ID
101239074
PMCID
PMC1183520
Grants
NIDCR NIH HHS · P01 DE007946 · United States
NIAID NIH HHS · R01 AI049187 · United States
External Links
PubMed source DOI: 10.1371/journal.pgen.0010001 PMC Full Text
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