About Hordeum vulgare
Hordeum vulgare (barley) is the world's fourth most important cereal crop and an important model for ecological adaptation, having been cultivated in all temperate regions from the Arctic Circle to the tropics. It was one of the first domesticated cereal grains originating in the Fertile Crescent over 10,000 years ago. About two-thirds of the global barley crop is used for animal feed, while the remaining third underpins the malting, brewing, and distilling industries. Although the human diet is not a primary use, barley offers potential health benefits, and is still the major calorie source in several parts of the world. Barley is a diploid member of the grass family, making it a natural model for the genetics and genomics of the Triticeae tribe, including polyploid wheat and rye. With a haploid genome size of ~5.3 Gbp in 7 chromosomes, it is one of the largest diploid genomes sequenced to date.
What can I find? Homologues, gene trees, and whole genome alignments across multiple species.
Download alignments (EMF)
|Hordeum vulgare : Aegilops tauschii||LASTZ_NET | stats|
|Hordeum vulgare : Brachypodium distachyon||LASTZ_NET | stats|
|Hordeum vulgare : Oryza sativa Japonica||LASTZ_NET | stats|
|Hordeum vulgare : Triticum aestivum||TRANSLATED_BLAT_NET | stats|
|Hordeum vulgare : Triticum urartu||LASTZ_NET | stats|
What can I find? Microarray annotations.
Transcriptome assembly in diploid einkorn wheat Triticum monococcum - Fox et al. 
Genome-wide transcriptomes of two Triticum monococcum subspecies were constructed, the wild winter wheat T. monococcum ssp. aegilopoides (accession G3116) and the domesticated spring wheat T. monococcum ssp. monococcum (accession DV92) by generating de novo assemblies of RNA-Seq data derived from both etiolated and green seedlings. Assembled data is available from the Jaiswal lab and raw reads are available from INSDC projects PRJNA203221 and PRJNA195398.
The de novo transcriptome assemblies of DV92 and G3116 represent 120,911 and 117,969 transcripts, respectively. They were mapped to the bread wheat, barley and Triticum urartu genomes using STAR. Click here for a barley example.
Triticum aestivum transcriptome
Wheat RNA-Seq, EST and UniGene datasets have also been aligned to the Hordeum vulgare genome:
- 454 RNA-seq data, from the study ERP001415, were aligned using GMAP. Click here for example.
- All publicly available wheat EST data were aligned using Exonerate. Click here for example.
- Wheat UniGene cluster sequence data were aligned using Exonerate. Click here for example.
Links (Triticum aestivum)
- MIPS Wheat Genome Database
- Triticum monococcum resources from Jaiswal Lab in Oregon State University
- ENA study ERP000319: 454 pyrosequencing of the Triticum aestivum (bread wheat) genome to 5X coverage
- ENA study ERP001415: 454 sequencing of Triticum aestivum (bread wheat) cv. Chinese spring cDNA samples from a pool of tissues, from plants under drought stress and from circadian-sampled leaves
- Triticum aestivum ESTs at ENA
- Triticum aestivum UniGene cluster sequences at NCBI