Brachypodium distachyon
Brachypodium distachyon
About Brachypodium distachyon
In common with the model plant, Arabidopsis thaliana, Brachypodium distachyon has several features that recommend it as a model plant for functional genomic studies especially in the grasses. Traits that make it an ideal model include its small genome (~355 Mbp), small physical stature, a short lifecycle, and few growth requirements. Brachypodium is related to the major cereal grain species but is understood to be more closely related to the Triticeae (wheat and barley) than to the other cereals.
Comparative genomics
What can I find? Homologues, gene trees, and whole genome alignments across multiple species.
More about comparative analysis
Download alignments (EMF)
Gene annotation
What can I find? Protein-coding and non-coding genes, splice variants, cDNA and protein sequences, non-coding RNAs.
Update your old Ensembl IDs
Variation
What can I find? Short sequence variants.
More about variation in Ensembl Plants
Download all variants (GVF)
Gramene/Ensembl Genomes Annotation
Additional annotations generated by the Gramene/Ensembl Genomes projects include:- The standard set of Gramene analyses detailed here.
- Mapping to the genome of multiple sequence-based feature sets using Gramene blat pipeline. Read more...
Analysis of the bread wheat genome using comparative whole genome shotgun sequencing
As part of the wheat genome analysis, we have aligned a set of identified Triticum aestivum (bread wheat) gene sequences and homoeologous SNPs (SNPs between the component A, B, and D genomes of wheat) against the Brachypodium distachyon genome.
Currently, the size and complexity of the wheat genome precludes a chromosome-scale assembly. However, significant sequences resources have been used to produce a gene-space assembly, included here in the syntenic context of brachypodium, a model cereal and pooid relative of wheat.
Sequences of diploid progenitor and ancestral species permitted homoeologous SNPs to be classified into two groups, 1) SNPs that differ between the A and D genomes (where the B genome is unknown) and, 2) SNPs that are the same between the A and D genomes, but differ in B.
The wheat gene alignments and the projected wheat SNPs are available on the Location view, as additional tracks under the "Wheat SNPs and alignments" section of the "Configure This page" menu. Click here for example.
Wheat RNA-Seq and EST dataset have also been aligned to the Brachypodium distachyon genome:- 454 RNA-seq data, from the study, ERP001415, were aligned using GMAP. Click here for example.
- All publically available EST data were aligned using Exonerate, following the standard Ensembl pipeline. Click here for example.