The American Academy of Microbiology has released a report (PDF) on the Fungal Kingdom outlining importance of research in the kingdom and recommending several areas of priority for future areas of research.
AAM Releases "The Fungal Kingdom" Report
Posted on July 9th, 2008 by Jason Stajich · 1 Comment
Categories: news · science policy
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
(re)Annotating GenBank
Posted on March 22nd, 2008 by Jason Stajich · No Comments
There's a nice quote in the news article from Steven Salzberg talking about the difficulties in getting sequences, especially from big centers, updated. I'm sure he is thinking of many examples, like reclassifying some Drosophila sequence traces.
Categories: database · fungi · metagenomics · news
Some links
Posted on March 3rd, 2008 by Jason Stajich · 1 Comment
Categories: basidiomycota · database · extremophiles · molecular evolution · pathogens · zygomycete
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
Linkathon
Posted on November 13th, 2007 by Jason Stajich · 1 Comment
The Cornell Mushroom blog has a nice treatment of the maize pathogen and Mexican delicacy Ustilago maydis corn smut.
Chris and Tom took some more Coprinus pictures while I was away from the lab.
Categories: bioinformatics · comparative · database · fungi · genome · phylogenetics
SGD community annotation
Posted on March 13th, 2007 by Jason Stajich · No Comments
The Saccharomyces Genome Database has deployed a wiki for gene annotation from the community. This should be an interesting experiment in how information can flow from the community into these databases.
Categories: database · genome annotation · saccharomyces · wiki
The C is for Catalog
Posted on January 31st, 2007 by sharpton · No Comments
As an interesting side note, the authors mention a few particular findings in fungi. The histogram of genome size in Fungi (see the figure) tends to be tighter than in Plants and Animals, with almost all taxa within the range of 1C or 10-60 Mb of DNA. That said, a few species appear to exhibit considerable intraspecific variation. While this may be due to the aforementioned methodological errors, the authors consider that dikaryotic hybrids and heterokaryotes may contribute to this observation. It seems that we may only be scratching the surface of genome size variation in Fungi and if genome size is indeed rapidly evolving in Fungi, they may serve to as good models to study this evolutionary phenomenon.
Categories: database · evolution · fungi · genome · journal club
Making the Revolution Work for You
Posted on January 30th, 2007 by sharpton · No Comments
Categories: aspergillus · comparative · database · functional · fungi · genome
