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:
Entries Tagged as 'genome annotation'
Chlamy genome investigations
Posted on May 26th, 2008 by Jason Stajich · No Comments
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
Swissprot/UniProt curating fungal proteins
Posted on February 11th, 2008 by Jason Stajich · No Comments

The UniProtKB/Swiss-Prot team is curating fungal proteins in their databases and reportedly have curated more than 20,000 fungal proteins in Release 54.8 of 05-Feb-2008
Categories: bioinformatics · database · fungi · genome · genome annotation · genome sequencing · news
Dandruff genomics
Posted on November 9th, 2007 by Jason Stajich · 2 Comments
Categories: basidiomycota · genome · genome annotation · genome sequencing
Yes, Ecology can improve Genomics
Posted on October 5th, 2007 by sharpton · 1 Comment
Categories: bioinformatics · comparative · functional · gene function · gene knockout · genome · genome annotation · genome sequencing · molecular evolution · saccharomyces · yeast
Fusarium graminearum genome published
Posted on September 8th, 2007 by Jason Stajich · 1 Comment
The genome of the wheat and cereal pathogen Fusarium graminearum was published in Science this week in an article entitled "The Fusarium graminearum Genome Reveals a Link Between Localized Polymorphism and Pathogen Specializationtion". The project was a collaboration of many different Fusarium research groups.
Categories: RIP · filamentous · fusarium · genome · genome annotation · genome sequencing · plant pathogen
Postia annotation
Posted on August 21st, 2007 by Jason Stajich · No Comments
Not sure when this went live but the Postia placenta annotation is available on the JGI site. 17k genes are predicted which is in the neighborhood of Laccaria.
Categories: genome · genome annotation
Yeast genome: Known knowns, and known unknowns
Posted on May 20th, 2007 by Jason Stajich · 1 Comment
Categories: gene function · genome annotation · saccharomyces · yeast
Orthology detection software
Posted on April 19th, 2007 by Jason Stajich · 1 Comment
A paper in PLoS One, Assessing Performance of Orthology Detection Strategies Applied to Eukaryotic Genomes, reports a new approach to assess the performance of automated orthology detection. These authors also wrote the OrthoMCL (2006 DB paper, 2003 algorithm paper) which uses MCL to build orthologous gene families.
Categories: bioinformatics · comparative · genome annotation · methods
That was a lot of work
Posted on April 3rd, 2007 by sharpton · No Comments
Categories: functional · fungi · gene function · genome · genome annotation · magnaporthe · plant pathogen
