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. 2005 Jan 1;33(Database issue):D348-52.
doi: 10.1093/nar/gki009.

The Ashbya Genome Database (AGD)--a tool for the yeast community and genome biologists

Leandro Hermida  1 , Sophie Brachat, Sylvia Voegeli, Peter Philippsen, Michael Primig
Affiliations

The Ashbya Genome Database (AGD)--a tool for the yeast community and genome biologists

Leandro Hermida et al. Nucleic Acids Res. .

Abstract

The Ashbya Genome Database (AGD) is a comprehensive online source of information covering genes from the filamentous fungus Ashbya gossypii. The database content is based upon comparative genome annotation between A.gossypii and the closely related budding yeast Saccharomyces cerevisiae taking both sequence similarity and synteny (conserved order and orientation) into account. Release 2 of AGD contains 4718 protein-encoding loci located across seven chromosomes. Information can be retrieved using systematic or standard locus names from A.gossypii as well as budding and fission yeast. Approximately 90% of the genes in the genome of A.gossypii are homologous and syntenic to loci of budding yeast. Therefore, AGD is a useful tool not only for the various yeast communities in general but also for biologists who are interested in evolutionary aspects of genome research and comparative genome annotation. The database provides scientists with a convenient graphical user interface that includes various locus search and genome browsing options, data download and export functionalities and numerous reciprocal links to external databases including SGD, MIPS, GeneDB, KEGG, GermOnline and Swiss-Prot/TrEMBL. AGD is accessible at http://agd.unibas.ch/.

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Figures

Figure 1
Figure 1
Search and browsing options in AGD. (A) The search form and (B) the chromosomal browsing function. (C and D) The Overview and the Detailed View of the ContigView page, respectively.
Figure 2
Figure 2
The locus report page of AGD. (A and B) The Gene Report and Transcript/Translation sections of the Gene Report page for the A.gossypii homolog of KIN28 (S.cerevisiae) and SPBC19F8.07 (S.pombe). (C and D) Examples of the Transcript and Peptide view, and (E) the data ExportView interface that is accessible via links in the welcome page and each Gene Report page.
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