Search for a gene

e.g. NAT2 or alcohol*

Search for a genome

e.g. type sac to find Saccharomyces

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What's New in Release 31

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  • New genomes
    • Addition of 26 newly available, completely sequenced and annotated genomes from INSDC
  • Updated genomes
    • Update of existing genomes to new assemblies and annotation where available
    • Update of Schizosaccharomyces pombe annotations based on the latest version of PomBase
  • New data
    • New variation database for Schizosaccharomyces pombe
    • Addition of cross-references to PHI-base where available
    • Addition of non-coding RNA gene models based on Rfam family matches for genomes imported from the INSDC
  • Updated data
    • Updated peptide comparative genomics
    • Gene families
    • Updated protein domain information based on latest InterProScan

Training Course in Bioinfomatics of Plants and Plant Pathogens

A training course on the Bioinformatics of Plants and Plant Pathogens will be held at EBI from 23rd-25th May, 2016. Please click here for more details and to register.

26 new genomes now available in Ensembl Fungi

From release 28 forward, all fungal genomes whose sequence and annotation has been completed and submitted to the the International Nucleotide Sequence Database Collaboration (i.e. the ENA, GenBank and DDBJ databases) is available in Ensembl Fungi. The release now consists of a total of 589 genomes, of which 536 have been taken from the archives and 53 taken directly from other sources. The new genomes have been functionally annotated with InterPro entries and GO terms using InterProScan v55, and manually curated GO terms have been projected from Saccharomyces cerevisiae and Schizosaccharomyces pombe to 1:1 orthologues in other species.

The Fungal Compara is now calculated across 339 species. This includes all previously included genomes and the new imports, selected to ensure each species is represented by at least one genome. Representative sequences have been selected by date of submission to the INSDC (the earliest sequences submitted have been preferentially included).

Note: The new genomes are not currently available through BioMart - this will be addressed in a future release. New genomes are also stored in MySQL collection databases, which may require changes to data access in some cases.

New variation data for Schizosaccharomyces pombe

In release 31 there is the import of variation data from Jeffares et al (2015). This covers the variation for 57 lab strains of S. pombe that have been sourced from labs world wide that regularly use S. pombe in their research.

For example II:g.1500490G>A.


EMBL-EBI and Rothamsted Research have jointly released the PhytoPath portal, a joint project bringing together Ensembl Genomes with PHI-base, a community-curated resource describing the role of genes in pathogenic infection. PhytoPath provides access to genomic and phentoypic data from fungal and oomycete plant pathogens, and has enabled a considerable increase in the coverage of phytopathogen genomes in Ensembl Fungi and Ensembl Protists.

PhytoPath also provides enhanced searching of the PHI-base resource as well as the fungi and protists in Ensembl Genomes.

BBSRC Logo PhytoPath is funded by the BBSRC.