genome sequencing « The Hyphal Tip

Keep track of the genome project for Blumeria graminis, a powdery mildew and barley pathogen. http://bit.ly/bvEwsS 2 days ago
Check out some Space Microbiology including lichens - http://bit.ly/cWEa9M /via genrepair http://bit.ly/c3WKmP 6 days ago
At least all are sequenced. Armed & Dangerous: Plant Diseases that threaten food security http://bit.ly/dx3qrY /via @plantdisease @KamounLab 1 week ago
The JGI Mucor circinelloides CBS277.49 v2 Genome Portal is now on the public JGI website: http://www.jgi.doe.gov/Mucor/ 1 week ago
RT @doe_jgi: Naegleria gruberi video on JGI's SciVee (http://tr.im/QCZn) features Simon Prochnik and UC Berkeley's Lillian Fritz-Laylin 1 week ago
More updates...

Sequencing wine spoilage yeast

By Jason Stajich, on August 11th, 2009

There is an article in Wine Spectator (Seen on the JGI feed) on sequencing the wine spoilage yeast bruxellensis (correct name is now Dekkera bruxellensis) which adds the not-so-excellent taste of “sweaty horse” to wines. There is already some survey sequencing done by Ken Wolfe and Jurge Piskur’s groups so a full genome sequencing project will [...]

Schizophyllum genome portal live at JGI

By Jason Stajich, on March 16th, 2009

In preparation for Asilomar, JGI is releasing lots of the genome sequencing project portals. The Schizophyllum commune Genome Portal is now publicly available. Go get your white-rot gene investigation on! (Though please respect the community rules for 1st rights to publication of the genome-wide [...]

Lichen genome projects and the power shift prompted by next-gen sequencing

By Jason Stajich, on October 31st, 2008

Genome Technology highlights the very cool thing about next-gen sequencing – it puts the power in the hands of the researchers to explore genome sequence and doesn’t limit them to projects only funded through sequencing centers. The Genome Technology piece highlights work at Duke to sequence the genome Cladonia grayi, a lichenized fungus, with 454 technology at Duke’s Institute for Genome Sciences and Policy through their next-gen sequencing program. [...]

Platypus genome

By Jason Stajich, on May 8th, 2008

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

More updates on Saccharomyces resequencing project at Sanger

By Jason Stajich, on December 19th, 2007

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 [...]

Banana black leaf fungus sequenced

By Jason Stajich, on November 17th, 2007

The 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.

Yes, Ecology can improve Genomics

By sharpton, on October 5th, 2007

Few 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. [...]

Fusarium graminearum genome published

By Jason Stajich, on September 8th, 2007

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. [...]

Genomes on the horizon at JGI

By Jason Stajich, on July 4th, 2007

Several more fungi are on the docket for sequencing at JGI through their community sequencing program. This includes

The Dothideomycete leaf streak disease causing fungus Mycosphaerella fijiensis
Soybean rust Phakopsora pachyrhizi
The Basidiomycete and jelly fungus Tremella mesenterica proposed by Joe Heitman for use as outgroup to the human pathogen Cryptococcus
The plant pathogen Cochliobolus heterostrophus proposed by Gillian Turgeon which ironically was already [...]

Genome of Postia placenta

By Jason Stajich, on June 12th, 2007

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 [...]

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