This is the home of the Candida Genome Database, a resource for
genomic sequence data and gene and protein information for Candida
albicans and related species. CGD is based on
Genome Database and is funded by
the National Institute of Dental &
Craniofacial Research at
the US National Institutes of
Meetings & Courses
Molecular Mycology: Current Approaches to Fungal Pathogenesis
Marine Biological Laboratory, Woods Hole, MA, USA
June 12-28, 2016; Applications are due on Feb 24, 2016
5th CESC (Central European Summer Course) on Mycology and the 2nd Rising Stars in Mycology Workshop
University of Szeged, Szeged Hungary
July 2 – 8, 2016; Applications are due by May 20, 2016
PYFF6 - 6th Conference on Physiology of Yeast and Filamentous Fungi
July 11-14, 2016; Deadline for abstract submission, to be considered for oral presentation, and for earlybird registration is March 22, 2016.
New and Noteworthy
CGD website offline on Monday, September 12, 2016
The CGD website will have to go offline on Monday, September 12, around 7 AM Pacific time (2 PM GMT) to allow us to make necessary software updates. The downtime may last most of the day. We apologize for the inconvenience.
(Posted August 30, 2016)
Correction of chromosome 3 haplotype information for C. albicans SC5314 Assembly 22
We have corrected the haplotype assignments on chromosome 3 of C. albicans SC5314,
based on comparisons of haplotype data
(Legrand et al, 2008;
Berman and Forche, 2016)
with sequence data
(Muzzey et al, 2013)
for both the wild-type diploid strain and the strain RBY10-10, which is homozygous for chromosome 3A. This
analysis supported the exchange of approximately 845 kbp between chromosome 3A and chromosome 3B of Assembly 22
at CGD, including the entire left arm of the chromosome, and a portion of the right arm extending from
to within the coding sequence of the gene
This results in sequence and gene model boundary changes for most chromosome 3 features.
(Posted June 22, 2016)
CGD Curation News
EnsemblFungi gene annotations for Candida strains not curated by CGD
We now provide links on
CGD Homology Pages
and CGD Multi-Genome BLAST results pages
to gene annotations from EnsemblFungi
for the seven Candida-related strains for which we provide sequence
and gene model downloads,
but do not actively curate: C. albicans WO-1, C. guilliermondii ATCC 6260, C. lusitaniae ATCC 42720,
C. orthopsilosis Co 90-125, C. tropicalis MYA-3404, D. hansenii CBS767 and L. elongisporus NRLL YB-4239.
These replace the links to annotations formerly provided by the
Broad Institute Fungal Genome Initiative, which are no longer supported.
(Posted June 6, 2016)
Major update of the C. albicans genome sequence at CGD
We have released a major sequence update for C. albicans SC5314 (Assembly 22, version s06-m01-r01).
Based on reanalysis by CGD of all available sequence data, the update affects more than 300 features,
correcting many ORF translation errors and resolving many sequence ambiguities.
The specific sequence changes can be viewed on our
Chromosome History pages.
(Posted February 2, 2016)
Updates to C. glabrata genome annotation
Multiple C. glabrata gene models were updated based on gene expression analysis conducted by Linde et al. (2015).
4,994 features were affected: 107 new features
were added, including 49 protein-coding genes and 58 non-coding RNAs; 4 ORFs were deleted; the sequences for 132 features were extended and 10
shortened; 15 features were split to create 35 new features; 2 features were merged to create 1 new feature; 4,819 5-prime UTRs and 4,828 3-prime UTRs
were added; The intron/exon structure was modified for 60 features; splice variants were identified for 16 features. For a list of updates, see
(Posted April 15, 2015)
Assembly 22 of the C. albicans genome sequence
We are pleased to announce that Assembly 22 of the C. albicans SC5314 genome sequence has now become available at CGD, fully integrated into the
CGD environment. Assembly 22 (A22) is described in Muzzey D., et
al. (2013) Assembly of a phased, diploid Candida albicans genome facilitates allele-specific measurements and provides a simple model for repeat
and indel structure. Genome Biol. 2013 Sep 11;14(9):R97.
Taking advantage of next-generation sequencing and achieving nearly 700-fold
coverage, this phased, diploid assembly permits more sensitive, allele-specific analysis of the genome structure and funcion. A22 supersedes the
previous Assembly 21 as the default genome sequence for C. albicans SC5314. All the previous assemblies remain available at CGD's download
(Posted June 27, 2014)
Introducing GeneXplorer for CGD
We have implemented GeneXplorer, a web tool for browsing and analysis of expression datasets and, so far, we have added microarray datasets from over
30 publications already archived at CGD. Each of those publication is linked via an icon to a GeneXplorer-generated web page that shows a colorimetric image of the clustered expression profiles. These images are
zoomable and clickable (click on any profile to see the expression patterns of the most similarly or dissimilarly expressed genes). The publications
are also linked (via ) to a downloadable data file in the pcl format. We are focusing our efforts on the microarray datasets
and more publications are added to GeneXplorer every week.
(Posted March 11, 2014)
Click here to view archived news items.
CGD Copyright © 2004-2013 The Board of Trustees,
Leland Stanford Junior University.
use the information contained in this database was given by
the researchers/institutes who contributed or published the
information. Users of the database are solely responsible
for compliance with any copyright restrictions, including
those applying to the author abstracts. Documents from this
server are provided "AS-IS" without any warranty, expressed
To cite CGD
, please use the
Inglis DO, Arnaud MB, Binkley J, Shah P, Skrzypek MS, Wymore
F, Binkley G, Miyasato SR, Simison M, Sherlock
G. (2012). The Candida
Genome Database incorporates multiple
species: multispecies search and analysis tools with
curated gene and protein information for Candida albicans
and Candida glabrata
. Nucleic Acids Res. 40(Database issue)
How to cite CGD.