A total of 71 million variations have been added to Solanum lycopersicum (tomato), covering 84 breeding varieties sequenced as part of the first release of the 150 Tomato Genome ReSequencing Project. 300 million individual genotypes are now available through the Ensembl Plants website and API. Read more...
Wheat stem rust caused by Puccinia graminis f. sp. tritici is one of the most damaging diseases of wheat, causing immense suffering and economic damage. Ensembl Fungi now contains genomes for Puccinia graminis and the virulent new strain Puccinia graminis Ug99, including comparisons of these reference genomes to each other and to other resequenced genomes.
In addition to the existing inter-varietal Triticum aestivum (bread wheat) variation data from CerealsDB, we've added more than 10 million 'Inter-Homoeologous Variations' (IHVs). These are positions that differ between homoeologous regions in the A, B and D component-genomes of this complex polyploid. Read more...
Release 25 of Ensembl Genomes is scheduled for 8th January 2015 - more details in Ensembl Genomes Release 25 Intentions.
The REST server provided by Ensembl Genomes has now been updated to use the latest v3.0.0 codebase provided by Ensembl, plus supplementary endpoints for genome discovery and bacterial family/genome retrieval. For more information on these additional endpoints, please visit:
The new server is available at http://rest.ensemblgenomes.org/ - please note that http://beta.ensemblgenomes.org will remain accessible until the next release of Ensembl Genomes in October after which point it will be removed.
The Ensembl Genomes public MySQL server is now located on mysql-eg-publicsql.ebi.ac.uk, port 4157. Please update your scripts to use this new location.
mysql.ebi.ac.uk port 4157 will be retired on 4th December 2014
Ensembl Bacteria has been updated to include the latest versions of 20,254 genomes (19,980 bacteria and 276 archaea) from the INSDC archives.
This release of Ensembl Fungi sees the inclusion of variation data for wheat pathogen Puccinia graminis Ug99. There are also DNA pairwise alignments between the Pucciniales including P. graminis, P. graminis Ug99 and P. triticina. DNA pairwise alignments have also been updated for genomes belonging to the Hypocreales. Data from the latest release of PomBase has been loaded for Schizosaccharomyces pombe.
The Nevada dampwood termite (Zootermopsis nevadensis) has infested Ensembl Metazoa, the first isopteran to do so. The Glanville fritillary (Melitaea cinxia) genes have been added to the gene trees, enabling comparisons across the four lepidopteran genomes. Protein domains have been recalculated for all metazoan species, using InterProScan to annotate domains; GO terms associated with the InterPro domains were subsequently added to the relevant genes.
This release of Ensembl Plants brings an updated Hordeum vulgare (barley) genome assembly using POPSEQ data produced at IPK. Based on the original contig assembly, the update positionally anchors about three times as much DNA into chromosomes (410 Mbp vs. 1.17 Gbp), with a 4% increase in the number of anchored genes. Read more...
In addition to the existing inter-varietal Triticum aestivum (bread wheat) variation data from CerealsDB added last release, we have added more than 10 million 'inter-homoeologous' variations. These are positions that differ between homoeologous genes in the A, B and D sub-genomes. Read more... In addition, the SIFT prediction of functional impact of non-synonymous mutations has been calculated across all bread wheat variation datasets.
Talking of variations, we've added 71 million of them to Solanum lycopersicum (tomato), covering 84 breeding varieties sequenced as part of the 150 Tomato Genome ReSequencing Project, giving us data for a cool 300 million genotypes. Read more...
Ensembl Protists now includes updated protein features and peptide comparative analysis across all species.