[Gramene-announce] Gramene database build 41 released

[Monaco, Marcela]

The Gramene Team is pleased to announce its release #41.  In collaboration with Ensembl Plants<http://http//plants.ensembl.org> we are providing in this release:


  1.  New genomes for Amborella trichopoda, Prunus persica (peach), Oryza glumaepatula, O. meridionalis, and O. nivara.
  2.  Updated gene models for bread wheat, O. barthii, and O. punctata. The Oryza gene models were updated using the OGE Maker pipeline.
  3.  Updated split genes for 33 plant reference genomes based on the latest Ensembl Compara data.
  4.  New sorghum variation data on the Sorghum Association Panel.
  5.  Whole-genome alignments within bread wheat (i.e., between its component A, B, and D genomes).
  6.  Calculation of homoeologous genes between bread wheat's component A, B and D genomes.
  7.  Whole-genome alignments involving all new genomes.
  8.  ESTs alignments against the peach and wheat genomes using STAR aligner.
  9.  Updated biomart databases.
  10. Updated genome browser, database schema and API to Ensembl version 75.
  11. New orthology-based projections of rice pathways to Arabidopsis and maize.
  12. Five newly curated rice pathways in Plant Reactome.

A complete description of the contents of this new release is available in our release notes<http://gramene.org/release-notes-41>.

Please let us know<http://tools.gramene.org/feedback> if you have questions or suggestions.

The Gramene Team

==
Marcela Karey Monaco, PhD
Cold Spring Harbor Laboratory