What's New in Release 60
New genomes
Arachis hypogaea : assembly from INSDC and is linked to the assembly accession GCA_003086295.3 and annotation from International Peanut Genome Initiative.
Lathyrus sativus : assembly from INSDC and is linked to the assembly accession GCA_963859935.3 and annotation from John Innes Centre.
Triticum timopheevii : assembly from INSDC and is linked to the assembly accession GCA_963921465.1 and annotation from The University of Nottingham.
Updated genomes
Brassica rapa Z1 : assembly from INSDC and is linked to the assembly accession GCA_900412535.3 and annotation from Genoscope. It has been added as a cultivar.
Marchantia polymorpha : assembly from INSDC and is linked to the assembly accession GCA_039105155.1 and annotation from National Institute of Genetics.
Triticum aestivum Paragon : assembly from INSDC and is linked to the assembly accession GCA_949126075.1 and annotation from Earlham Institute.
Check which features are supported on each species here; if you would like to request a new species please email Helpdesk.
Ensembl Rapid Release
New genome assemblies are now being released to the Ensembl Beta site .
All Rapid Release data, including release 65, has been uploaded into the new Ensembl Beta site.
The Ensembl Rapid Release website will remain active for the foreseeable future, however, the data and species set will no longer be updated.
Find out more on our blog
Wheat assemblies
Ensembl Plants hosts the RefSeq v1.0 assembly from the IWGSC, including:
- The IWGSC RefSeq v1.1 gene annotation, with links to wheat expression browser and KnetMiner
- 17 wheat cultivars from the 10+ genome project and other sources including comparative analysis across the different lines
- ~90 million variants from the Watkins Landrace Wheat Collection
- Axiom 35K, 820K SNP arrays from CerealsDB, including QTL links in selected cases and Linkage Disequilibrium display - see QTL example here. 820K variants have been lifted over to the chromosomal level 10+ wheat cultivars
- EMS-induced mutations from sequenced TILLING populations of Cadenza (coding regions) and Kronos (coding regions and promoters)
- Inter-Homeologous Variants (IHVs) between the A, B and D genome components
- Chromosome specific KASP markers from the Nottingham BBSRC Wheat Research Centre
- Whole genome alignments to rice, brachypodium and barley
- Polyploid view enabled, allowing users to view alignments among multiple wheat components simultaneously
- Durum wheat 35K, 90K, 820K and TaBW280K variants
- Chromosome and centromere data can be viewed here
- AlphaFold protein predictions have been added to all transcripts - see an example here
Archive sites
Archive of release 59 of EnsemblPlants: eg59-plants.ensembl.org (May 2024)
Archive of release 56 of EnsemblPlants: eg56-plants.ensembl.org (Feb 2023)
Archive of release 52 of EnsemblPlants: eg52-plants.ensembl.org (Dec 2021)
Archive of release 49 of EnsemblPlants: eg49-plants.ensembl.org (Dec 2020)
Archive of release 45 of EnsemblPlants: eg45-plants.ensembl.org (Sep 2019)
Funding
Ensembl Plants datasets are constructed in a direct collaboration with the Gramene resource, funded by the United States National Science Foundation award 1127112. Read more about our collaboration with Gramene.
The development of resources for wheat is funded by the BBSRC-funded Designing Future Wheat ISP and PanOryza grants.
ELIXIR implementation study FONDUE - FAIR-ification of Plant Genotyping Data and its linking to Phenotyping using ELIXIR Platforms.
Past Funding
transPLANT, funded by the European Commission within its 7th Framework Programme, under the thematic area "Infrastructures", contract number 283496.
BBSRC funding for wheat (Triticeae Genomics For Sustainable Agriculture) and barley (UK barley genome sequencing project).
ELIXIR implementation study Apple as a Model for Genomic Information Exchange.
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.