Putative gene split models are available now for 23 plant reference genomes based on the latest Gramene release 36b (Gramene36bEnsembl70) hosted at Gramene. The split gene models are commonly related to an annotation artifact where a single gene is annotated as two or more genes due to incomplete evidence, but could also result from legitimate [...]
Archive for the ‘Gramene’ Category
Assembling the transcriptome of a noxious weed (Brachypodium sylvaticum): New resources for studying how plants invade
Scientists from Oregon State University and Portland State University develop the transcriptome and other genetic resources of an invasive plant, Brachypodium sylvaticum, for extensive research on plant adaptation.
In order to build and maintain cells, DNA is copied into ribonucleic acid (RNA) molecules, also called transcripts. Transcripts are often like a recipe for making [...]
Gramene and MaizeGDB project teams publish work on MaizeCyc, a network of maize metabolic genes and pathways.
Gramene is looking forward to participating at the annual Plant and Animal Genome (PAG) meeting in the Town & Country Hotel of San Diego, CA from January 12-16, 2013. We invite the community of plant researchers and breeders to learn how to get the most out of our resources by joining our workshop, stopping by [...]
The Gramene Team is happy to announce its 36th release. In collaboration with the International Barley Genome Sequencing Consortium, the Potato Genome Sequencing Consortium, the Oryza Genome Evolution (OGE) project, the Global Musa Genomics Consortium, and Ensembl Plants, we are providing in this release, the new draft reference genomes for three species, namely, Hordeum vulgare (barley), [...]
I. Introduction to Gramene’s Ensembl Genome Browsers
Gramene contains genome browsers for 16 species of flowering plants: Arabidopsis lyrata, Arabidopsis thaliana, Brachypodium distachyon, Brassica rapa, Glycine max, Oryza brachyantha, Oryza glaberrima, Oryza rufipogon, Oryza sativa indica and japonica, Populus trichocarpa, Sorghum bicolor, Setaria italica, Solanum lycopersicum, Vitis vinifera, and Zea mays.
On the Gramene homepage [...]
Questions about simple sequence repeats (SSRs) make up a significant portion of the questions we get. A user just yesterday asked about finding the markers matching a particular repeat motif. While Gramene doesn’t have a specific tool for finding this, it’s possible to figure it out a number of ways:
Visit the SSR Markers [...]
Cold Spring Harbor, NY – With research in plant biology “at a tipping point,” in the words of a leading investigator, two pathbreaking efforts by scientists interested in making comparisons across and within sequenced plant genomes have been given a significant funding boost and vote of confidence from the National Science Foundation (NSF).
The NSF has [...]
The B vitamins and the cofactors derived from them are essential for all forms of life. B vitamin synthesis in plants is therefore crucial to plants themselves as well as to humans and animals, which cannot make most B vitamins themselves and so must obtain them from the diet.
A full annotation of all maize and [...]
Putative gene split models are available for 18 plant reference genomes hosted at Gramene. The split gene models are commonly related to an annotation artifact wherein a single gene is annotated as two or more genes due to incomplete evidence, but could also result from legitimate evolutionary processes. The Compara Gene Tree method predicts a [...]