All genomes
Favourite genomes 
What's New in Release 62
Genomes
- EnsemblFungi has 1504 genomes
In release 61, the following genomes were updated with data from VEuPathDB
- Aspergillus fischeri (GCA_000149645.4, previously known as Neosartorya fischeri)
- Aspergillus flavus NRRL3357 (GCA_000006275.3)
- Aspergillus fumigatus (GCA_000002655.1)
- Aspergillus lentulus (GCA_001445615.2)
- Fusarium graminearum (GCA_900044135.1)
- Mucor lusitanicus (GCA_001638945.1)
- Puccinia triticina (GCA_000151525.2)
- Schizophyllum commune (GCA_000143185.2)
- Trichoderma reesei (GCA_000167675.2)
Other data
- Updated BioMarts for gene and variation data
- Updated pan-taxonomic gene trees and homologies
- Updated fungal gene trees and homologies
- Updated annotation of molecular interactions involving fungal genes
- Updated protein features for all species using InterProScan
- Updated taxonomic classification of various species to reflect the latest changes from NCBI
The New Ensembl Site
The new Ensembl provides access to over 4700 genomes: http://beta.ensembl.org
There are over 4100 animal, 470 plant, and 100 fungal genomes ready to explore. We provide pangenomes for many species including human (565 haplotypes), barley (69 cultivars), and pig (27 breeds).
Genomes from projects such as Darwin Tree of Life, the Human Pangenome Reference Consortium, the Vertebrate Genomes Project and the European Reference Genome Atlas are regularly added.
We are in the process of migrating our existing prokaryotic genomes, with a target of moving all ~36,000 by July 2026. Prokaryotic releases will be phased, with batches migrating from Feb 2026 onwards.
From the summer of 2026, all new data will only be available through this new Ensembl site. Important info for programmatic access is available on this blog.
Archive sites
- The following archive sites are available to access previous versions of data:
- Release 59, May 2024 eg59-fungi.ensembl.org
- Release 56, February 2023 eg56-fungi.ensembl.org
- Release 52, December 2021 eg52-fungi.ensembl.org
- Release 49, December 2020 eg49-fungi.ensembl.org
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.
Ensembl Fungi release 62 - September 2025 © EMBL-EBI EMBL-EBI
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