Cochliobolus genome released
Posted on July 17th, 2008 by Jason Stajich · No Comments
Categories: pezizomycota
Basidiomycete Research Networks
Posted on July 14th, 2008 by Jason Stajich · No Comments
Categories: basidiomycota · news
Theobroma cacao to be sequenced, Oompa Loompa genome to follow.
Posted on June 26th, 2008 by Chris Villalta · 2 Comments
Categories: genome
Will you always be able to satisfy that chocolate craving?
Posted on June 15th, 2008 by Jason Stajich · No Comments
NPR had a story this weekend on Cocoa plantation collapse and the ecological aftermath of the changes the witches' broom fungus [[Moniliophthora perniciosa]] has wreaked. The genome sequence project for this Homobasidiomycete fungus is underway.
Categories: genome sequencing · homobasidiomycota · plant pathogen
Basidiomycete genomes galore
Posted on June 1st, 2008 by Jason Stajich · Comments Off
Just finished attending Genetics and Cell Biology of Basidiomycetes in Cape Girardeau, MO which was an intimate gathering of basidiomycetaphiles. I learned about systems that are used for studying fruiting body development, genetic mapping, pheromone and mating genes, kinesin dynamics, meoitic gene regulation, and a host of topics. I'm happy I got a chance to meet more folks in the community and learned about where informatics is needed
Categories: conferences
Chlamy genome investigations
Posted on May 26th, 2008 by Jason Stajich · No Comments
This month's Genetics has a series of articles exploring the genome (published last year & freely available at Science) of the green algae [[Chlamydomonas reinhardtii]]. These manuscripts are primarily genome analyses making for a very bioinformatics focused issue of Genetics. Some of the highlights include:
Categories: bioinformatics · comparative · evolution · gene family · genome · genome annotation
Trichoderma reesei genome paper published
Posted on May 12th, 2008 by Jason Stajich · No Comments
The [[Trichoderma reesei]] genome paper was recently published in Nature Biotechnology from Diego Martinez at [[LANL]] with collaborators at [[JGI]], [[LBNL]], and others. This fungus was chosen for sequencing because it was found on canvas tents eating the cotton material suggesting it may be a good candidate for degrading cellulose plant material as part of cellulosic ethanol production.
Categories: filamentous · gene family · genome · genome annotation · genome sequencing · trichoderma
Podospora genome published
Posted on May 11th, 2008 by Jason Stajich · No Comments
The genome of Podospora anserina S mat+ strain was sequenced by Genoscope and CNRS and published recently in Genome Biology. The genome sequence data has been available for several years, but it is great to see a publication describing the findings. The 10X genome assembly with ~10,000 genes provides an important dataset for comparisons
Categories: comparative · genome · genome sequencing · neurospora · sordariomycetes
Rhizoctonia genome project
Posted on April 23rd, 2008 by Jason Stajich · 1 Comment
Jennifer from the other end of the lab just showed me the Rhizoctonia solani genome project page at JCVI. Another Basidiomycete genome on the way, yah!
Categories: basidiomycota · genome sequencing
Lest you think annotation is easy
Posted on April 12th, 2008 by Jason Stajich · No Comments
Ewan Birney and Ensembl (the other/original genome browser depending on if you are a UCSC junkie) have started blogging a bit more about what is going on under the proverbial hood over there in Hinxton. There are some great nuggets talking about what are some of the current problems. These bite-sized comments should be a great glimpse into how Ensembl works
Categories: bioinformatics · comparative · database · genome
