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.
Trichoderma reesei genome paper published
Posted on May 12th, 2008 by Jason Stajich · No Comments
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
Aspergillus comparative transcriptional profiling
Posted on March 12th, 2008 by Jason Stajich · 1 Comment
Researchers from Technical University of Denmark published some interesting results from comparing expression across the very distinct Aspergillus species.
Kudos also goes to making it Open Access. I am posting a few key figures below the fold because I can! They grew the fungi in bioreactors fermenting glucose or xylose. After calibrating the growth curves they were able to sample the appropriate time points for comparison of gene expression across these three species. They found a set of genes commonly expressed.
Categories: aspergillus · evolution · gene regulation · microarray
Some links
Posted on March 3rd, 2008 by Jason Stajich · 1 Comment
Categories: basidiomycota · database · extremophiles · molecular evolution · pathogens · zygomycete
Neurospora speciation through experimental evolution
Posted on February 5th, 2008 by Jason Stajich · No Comments
Dettman, Anderson, and Kohn recently published a paper in BMC Evolutionary Biology on reproductive experimental evolution in two Neurospora crassa populations evolved under different selective conditions. This is a great study that complements work published last year in Nature on experimental evolution in Saccharomyces cerevisiae populations. Neurospora populations were evolved under high salt and low temperature and were started from either high diversity (interspecific crosses, N. crassa vs N. intermedia) or low diversity (intraspecific cross, two N. crassa isolates D143 (Louisiana, USA)and D69 (Ivory Coast)) as described in Figure 1. The experimentally evolved populations were then tested for asexual and sexual fitness (they were taken through complete meiotic cycle throughout the experiment to avoid insure there was selection on the sexual reproduction pathway.
Categories: adaptation · experimental evolution · neurospora · speciation
Evolutionary morphology of mushroom-forming fungi
Posted on December 10th, 2007 by Jason Stajich · 3 Comments
Dave Hibbett wrote a great article for Mycological Research that describes the current state of systematics and evolutionary studies of morphology in mushroom-forming Agaricomycete fungi. His article, dedicated to the late, great mycologist Orson K Miller, Jr and entitled "After the gold rush, or before the flood? Evolutionary morphology of mushroom-forming fungi (Agaricomycetes) in the early 21st century" describes the how classification and systematics has changed in the last two hundred years and macromorphology to the more than "108,000 nucleotide sequences of ‘homobasidiomycetes’, filed under 7300 unique names."
The article contains some beautiful pictures many of which are taken from some of the eminent mycological photographers and mycologists Michael Wood and Taylor Lockwood.
Categories: Agaricomycota · basidiomycota · homobasidiomycota
Fungal Genetics 2007 details
Posted on March 28th, 2007 by Jason Stajich · 1 Comment
Categories: bioinformatics · chytridomycota · cryptococcus · dothideomycetes · euriotiomycetes · filamentous · glomeromycota · homobasidiomycota · horizontal gene transfer · neurospora · news · sordariomycetes · zygomycete
