What's New in Release 42

• New genomes:
  • Arabidopsis halleri: assembly GCA_900078215 , annotation doi:10.5061/dryad.gn4hh
• Details on genome updates:
  • Triticum aestivum: Inter-Homeologous Variants (IHVs) were added
  • Solanum lycopersicum: updated assembly (GCA_000188115.3) and annotation (ITAG3.0, except genes )
  • Glycine max: updated assembly (GCA_000004515.4) and annotation (Rel. 137, Version 4, Glycine_max_v2.1)
  • Vigna radiata: updated annotation (vigra.VC1973A.gnm6.ann1.M1Qs)
  • Physcomitrella patens: updated annotation (V3.3)
  • Lupinus angustifolius: genes from previous release were added
  • Arabidopsis thaliana: TAIR10 is now the unique source of ncRNA annotations
  • Nicotiana attenuata: mapped microarray probes were updated
  • Zea mays: mapped microarray probes were updated

New wheat assembly

This release of Ensembl Plants hosts the latest wheat assembly from the IWGSC (RefSeq v1.0). Current data includes:

• The IWGSC RefSeq v1.1 gene annotation.
• Alignment of 98,270 high confidence genes from the TGACv1 annotation.
• The Axiom 820K SNP Array from CerealsDB.
• EMS-induced mutations from sequenced TILLING populations (Kronos and Cadensa).
• Inter-Homeologous Variants (IHVs) between the A, B and D genome components.
• Assembly to assembly mapping and gene ID mapping to the previous TGAC v1 assembly and annotation.
• Whole genome alignments to rice, brachypodium and barley.
• The TGACv1 assembly will still be availble via the Ensembl Plants archive site.

Polyploid View Enabled

Polyploid view for wheat has been enabled, allowing users to view alignments between the three wheat components simultaneously.

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.

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).

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.