What's New in Release 38
- Eight New genomes
- New genome for Cucumis sativus (cucumber, GCA_000004075.2)
- New genome for Dioscorea rotundata (white Guinea yam, GCA_002240015.2)
- New genome for Gossypium raimondii (cotton, GCA_000327365.1)
- New genome for Helianthus annuus (common sunflower, GCA_002127325.1)
- New genome for Lupinus angustifolius (blue lupin, GCA_001865875.1)
- New genome for Manihot esculenta (cassava, GCA_001659605.1)
- New genome for Nicotiana attenuata (coyote tobacco, GCA_001879085.1)
- New genome for Phaseolus vulgaris (green bean, GCA_000499845.1)
- Updated genomes
- New data
- New transposable elements for Zea mays (maize) provided by Jeffrey Ross-Ibarra, Department of Plant Sciences, UC Davis
- Updated data
- Updated gene trees across all plants, including the twelve new and updated genomes
- Updated identity based cross references to UniProt across all plants
- Updated alignment based cross references to UniProt and RefSeq across all plants
- Updated ncRNA alignments across all plants including MirBase imports for six species
- Updated protein features for all (nearly 2 million) plant proteins
- Updated BioMarts for all gene and variation data
New Ensembl Genomes Archive Sites
Ensembl Genomes now has archive sites for all divisions:
allowing researchers to access data from old releases and display track hubs for previous assemblies. Archive sites are searchable and have BioMarts available. Archival REST servers will not initially be available, but will be added in future.
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 the data they contain.The previously existing archive for Ensembl Plants, http://archive.plants.ensembl.org, will continue to be available at this URL, but also as http://mar2016-plants.ensembl.org, in accordance with the new naming scheme. As previously, data from all recent releases will continue to be available for download at ftp://ftp.ensemblgenomes.org.
New and updated genomes
This bumper release of Ensembl Plants brings eight new genomes, including cassava, cotton, cucumber, green bean, sunflower and yam. In addition we have updated to latest and greatly improved (v3.0) sorghum genome assembly from JGI as well as updated assemblies for both soybean and peach. Users can now view, query, download and analyse our comparative analysis of nearly 2 million genes across 53 plant species.
New barley genome
A ten-nation consortium has reported the first high-quality reference genome sequence of Hordeum vulgare (barley). The barley genome was sequenced and assembled using an array of state-of- the-art methods, taking ten years. For the first time, scientists can now locate all genes precisely in the genome and analyze complex gene families that play a key role in malting and resilience.
New Arabidopsis variation data from the 1001 Genomes Project
We have upgraded our representation of genetic variation in Arabidopsis thaliana, incorporating the full data set from the 1001 Genomes Project, covering more than 10 million variant loci across 1,135 samples (Cell 2016).
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.