Release Intentions

  • New genomes
    • New load of protist genomes from ENA
  • New data
    • Automated RNA gene annotation update
  • Updated data
    • Updated PHI-base 4.3 annotations
    • Updated protein features
    • Updated BioMarts

Release Notes (Brief)

​New genomes have been loaded from INSDC, and included in compara. New automatic ncRNA alignments have been added across all protists, using a new algorithm that aims to minimise false positive results by applying taxonomic (and other) filters. Cross references to other resources (such as UniProt and RefSeq) have been updated. Updated phenotypic information from PHI-base 4.3 have been added for phytopathogenic species.

Did you know...?

Ensembl Genomes REST ServiceTo access Ensembl Genomes data from any programming language, try our REST service. For full documentation including examples from a wide range of languages, visit

What's New in Release 37

  • Genomes
    • 189 genomes from 119 species
    • 4 new genomes added, 3 genomes renamed and 130 genomes have updated annotation since release 36
  • New data
    • New automatic ncRNA alignments across all protists
  • Updated data
    • Updated phenotypic annotation from PHI-base 4.3
    • Updated protein features
    • Updated BioMarts

Future Releases

Ensembl Protists

Ensembl Protists is a browser for protist 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 access

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.

Advanced Course on Fungal Pathogen Genomics

A Wellcome Trust Advanced Course on Fungal Pathogen Genomics will take place from 13th-18th May 2018, Hinxton, Cambridge. This course provides hands-on training on how to take advantage of unique tools offered by a number of leading fungal databases, including Ensemb Fungi, to develop testable hypotheses, and interrogate transcriptomics, proteomics and genomics datasets across multiple databases and different user interfaces. Daily activities at the workshop will include individual and group hands-on training exercises, supplementary lectures on bioinformatic techniques and tools used by various databases, and presentations by distinguished guest speakers. Follow the link to learn more and apply for your place!

New Ensembl Genomes Archive Sites

Ensembl Genomes now has archive sites for all divisions. These can be found at the following URLs:

The archive sites will allow researchers to access data from old releases in our web-based tools, and additionally will be able to display track hubs containing alignments and features located on older versions of genome assemblies that have since been upgraded in the live site. Archive sites will be searchable and BioMarts will be available where they were produced for the site when live. Schema and API versions for archive sites will be the same as when the data was released, i.e. archive sites will not be updated to use the most recent versions. Ensembl tools will not be active in the initial release, but we are hoping to enable these shortly. Major bugs (i.e. those impeding the usability of the site) will be fixed, but minor bugs will not be.

The first release of the archive sites contains content from release 37. New archive sites will be released at least once a year, under URLs indicating the date of first release of the data they contain. The previously existing archive for Ensembl Plants,, will continue to be available at this URL, but also as, in accordance with the new naming scheme. As previously, data from all recent releases will continue to be available for download at


PhytoPath is a joint project between EMBL-EBI and Rothamsted Research, funded by the BBSRC, linking genomic and phenotoypic data of fungal and oomycete plant pathogens.

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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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