Gramene build 34 released
The Gramene team is happy to announce the 34th major release of the site. In our Ensembl genome browser, six genomes have been updated and we have added Glycine max (soybean), Selaginella moellendorffii, Chlamydomonas reinhardtii bringing us to 22 genomes. We have also updated the genome browser to Ensembl version 64, updated blastz-chain-net whole genome alignments for new and updated genomes, built new Compara gene trees, and updated protein domain annotaions, cross-references and gene ontology (GO) projections. The BioMart data mining tool has updated plant gene and variation databases. Our ontologies database has been updated to the latest releases of GO, plant ontology (PO), and trait ontology (TO) and includes many new associations to the genomes and genes of our new species. Our Pathways section now has official release versions of MaizeCyc and BrachyCyc, and non-plant pathways were removed from RiceCyc, SorghumCyc, and BrachyCyc. The diversity section contains a new rice study of 14 agronomic traits from 226K SNPs across 374 lines from Huang X, et al, Nat Genet 2010, the 3.06 version of NSF Arabidopsis 2010 Project 250K chip study, phenotype data from single-gene studies, and a new association viewer for Arabidopsis variation data which is also linked from our Arabidopsis Ensembl genome browser. Several Oryza germplasm have been added to our germplasm database to bring the total to 13,265 records with links to Gramene’s markers, map sets, genes and proteins, and our distributed annotation server (DAS) has been updated with the latest alignments for all our species. Please let us know if you have and problems or question with the new build.