Protists

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 http://rest.ensemblgenomes.org

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

PhytoPath

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.

BBSRC Logo PhytoPath is funded by the BBSRC.

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. For information on how to cite Ensembl Genomes click here.

Register now for the EBI training course in Plant and Pathogen Bioinformatics 13th-15th November 2017, Hinxton, UK

This course will provide an introduction to data resources, tools and essential bioinformatic techniques for biologists studying plants and their pathogens. It will be delivered using a mixture of lectures, practical computer sessions and include discussions based on relevant case studies and public domain data. For more details, go to http://www.ebi.ac.uk/training/events/2017/plant-and-pathogen-bioinformatics-0.

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.

Citing Ensembl Genomes

If you've used Ensembl Genomes in your work, please cite the most recent overview article below and the Ensembl Genomes release you retrieved your data from. References for the specific genome assembly can be found on the ‘More information and statistics’ page for each species (e.g. Saccharomyces cerevisiae).

Kersey PJ, et al. Ensembl Genomes 2016: more genomes, more complexity. Nucleic Acids Res. 2016 Jan;44(D1) D574-80. doi:10.1093/nar/gkv1209. PMID: 26578574; PMCID: PMC4702859.