e.g. NAT2 or alcohol*

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What's New in Release 41

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Ensembl Genomes REST Service To access Ensembl Genomes data from any programming language, try our REST service. For full documentation including examples from a wide range of languages, visit http://rest.ensemblgenomes.org

  • New Genomes
  • Updated genomes
    • Updated gene set for Saccharomyces cerevisiae from SGD
    • Updates in ENA to existing genomes have also been picked up
    • In total, EnsemblFungi release 41 has 1023 genomes
  • Updated data
    • Updated peptide compara with a subset of 480 species chosen from across the fungal taxonomic groups
    • Updated pathogen-host interaction data from PHI-base annotated onto nearly 2500 fungal proteins
    • Updated pan-taxonomic compara which includes the protein-coding genes from the updated Saccharomyces cerevisiae
    • Updated protein domain information based on latest InterProScan
    • Updated BioMarts
  • Known issues
    • Saccharomyces cerevisiae: 92 transposable elements that were previously annotated as protein-coding genes have now been removed and will be captured as transposable elements in the next release
    • Fungi compara: A few genomes have had genes with duplicated gene IDs which has meant that our compara pipeline could not capture all of the duplicates. The submitters of this data to ENA have been contacted and the genes fixed in most cases. Compara will be rerun for the next release which should bring in these genes.
    • Missing synteny data for three Fusarium species: Will be added for next release
    • Missing GOA projections for Yarrowia lipolytica and Aspergillus fumigatus: Will be added for next release

Join the Zymoseptoria tritici community annotation project

The gene set for Zymoseptoria tritici, a wheat plant pathogen causing septoria leaf blotch, is currently under review by a team of Z. tritici researchers. This is a collaborative effort supported by EnsemblFungi with the aim of consolidating and improving the existing gene sets. If you would like to get involved, please contact Marc-Henri Lebrun from the National Institute of Agricultural Research (INRA) in France (marc-henri.lebrun@inra.fr) to get started.

Wellcome Genome Campus Advanced Course on Fungal Pathogen genomics

Our next annual advanced course on fungal pathogen genomics will be May 2019. See details and registration.

New archive site

Find all the data from the previous release of EnsemblFungi at eg40-fungi.ensembl.org (July 2018).

Ensembl Fungi

Ensembl Fungi is a browser for fungal genomes. A majority of these are taken from the databases of the International Nucleotide Sequence Database Collaboration (the European Nucleotide Archive at the EBI, GenBank at the NCBI, and the DNA Database of Japan); in some cases, the annotation has been taken directly from the websites of the data generators. Data can be visualised through the Ensembl genome browser and accessed programmatically via our Perl and RESTful APIs. Data is also accessible through public MySQL databases and our FTP site containing full data dumps in FASTA, EMBL, GTF, GFF3, JSON and RDF formats.

Ensembl Genomes is developed by EMBL-EBI and is powered by the Ensembl software system for the analysis and visualisation of genomic data. For details of our funding please click here.

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