The Hyphal Tip: Fungal Genomes and Comparative Genomics

Digesting the fungal genomes

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Platypus genome

Posted on May 8th, 2008 by Jason Stajich · No Comments

Neil has a great summary of the results from the Platypus genome sequencing project.

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Categories: genome

More updates on Saccharomyces resequencing project at Sanger

Posted on December 19th, 2007 by Jason Stajich · 1 Comment

I've paraphrased an email sent by David Carter to folks interested in Saccharomyces resequencing project. The latest version of the SGRP data is on the web site and ftp site. This release is somewhat provisional, and motivated more by the fact that we have a paper deadline coming up than by any claim to finality. It should be quite
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Categories: population genomics · resequencing · saccharomyces

Banana black leaf fungus sequenced

Posted on November 17th, 2007 by Jason Stajich · No Comments

M.fljiensisThe JGI have released the genome sequence and annotation of the Mycosphaerella fijiensis fungus an important crop pathogen of bananas. This Dothideomycete fungus is one of several in the clade of important plant pathogens that have been sequenced recently including M. gramicola, a relative that causes wheat-blotch.

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Categories: dothideomycetes · genome

Yes, Ecology can improve Genomics

Posted on October 5th, 2007 by sharpton · 1 Comment

Blogging on Peer-Reviewed ResearchFew organisms are as well understood at the genetic level as Saccharomyces cerevisiae. Given that there are more yeast geneticists than yeast genes and exemplary resources for the community (largely a result of their size), this comes as no surprise.
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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.
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Categories: RIP · filamentous · fusarium · genome · genome annotation · genome sequencing · plant pathogen

Genomes on the horizon at JGI

Posted on July 4th, 2007 by Jason Stajich · 1 Comment

Several more fungi are on the docket for sequencing at JGI through their community sequencing program. This includes
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Categories: NRPS · aspergillus · basidiomycota · chytridomycota · cryptococcus · dothideomycetes · fungi · genome · genome sequencing · neurospora · pathogens · plant pathogen · rumen · rusts · saccharomyces

Genome of Postia placenta

Posted on June 12th, 2007 by Jason Stajich · 1 Comment

The JGI has released the genome sequence and annotation of the Basidiomycete brown rot Postia placenta. Brown rotters can only break down cellulose but do not degrade lignin that white rotters (like Phanerochaete chrysosporium). Using total genomic DNA from dikaryotic strain MAD-698, the JGI generated 571,000 reads that assembled into 1243 haplotype scaffolds, with 85 of these scaffolds covering half of the genome sequence.
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Categories: basidiomycota · genome · genome sequencing

More Neurospora genomes

Posted on April 24th, 2007 by Jason Stajich · 1 Comment

We got word last week from the JGI that our DNA for Neurospora tetrasperma and N. discreta have passed QC and library QC and are on their way to being sequenced. The center also plans to do some EST sequencing to improve gene calling abilities. Why more Neurospora genomes? The sequencing proposal discussed these species as a model system for evolutionary and ecological genetics.
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Categories: genome · genome sequencing · neurospora