The DNA sequence of Melampsora larici-populina has been determined by the U.S. Department of Energy DOE Joint Genome Institute (DOE JGI). Annotations of the v1.0 assembly of Melampsora laricis-populina are publicly available at http://www.jgi.doe.gov/Melampsora.
Melampsora larici-populina genome sequenced
Posted on November 7th, 2008 by Jason Stajich · No Comments
Categories: evolution · genome sequencing
Tags: genome, JGI, Melampsora, poplar, rust, rusts, sequencing
Cochliobolus genome released
Posted on July 17th, 2008 by Jason Stajich · 1 Comment
Just noticed that the [[JGI]] has released the Cochliobolus heterostrophus genome sequence at their site predicting 9,633 protein-coding genes. Torrey Mesa Research Institute had access to a sequence many years ago, but it isn’t until now that public version of this genome is available. Cochliobolus is has been a model plant pathogen system and its production of T-Toxin by a PKS gene (Yang et al)
Categories: pezizomycota
Tags: annotation, cochliobolus, fungi, genome, genomes, infection, JGI, pathogen, pathogens, PKS
Trichoderma reesei genome paper published
Posted on May 12th, 2008 by Jason Stajich · 1 Comment
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
Tags: aspergillus, biofuel, cellulase, comparative, database, definitions, enzymes, evolution, fermentation, filamentous, fungi, fungus, fusarium, genome, genomes, JGI, magnaporthe, pathogens, phylogenetics, s, sequences, sequencing, species, systematics, trichoderma
B. dendrobatidis strain JAM81 released
Posted on March 6th, 2008 by Jason Stajich · No Comments
The following is an announcement to the B.dendrobatidis and fungal community at large from Alan Kuo at JGI. This is the JAM81 strain (Jess Morgan collected from a frog in the California Sierra Nevada). The JEL423 (Joyce Longcore, collected in Panama) strain genome sequence and annotation is available from the Broad Institute.
Categories: chytridomycota · genome · news
Tags: functional, gene, genes, genome, intron, JGI, methods, news, sequencing, transcription
Banana black leaf fungus sequenced
Posted on November 17th, 2007 by Jason Stajich · No Comments
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.
Categories: dothideomycetes · genome
Tags: fungus, genome sequencing, JGI, plant pathogen
Mucor circinelloides genome update
Posted on October 16th, 2007 by Jason Stajich · No Comments
I recently heard through the grapevine that the Mucor ircinelloides genome 4X assembly was completed by JGI and a BLAST server is available if you contact the authors. Mucorales (previously Zygomycota which is not monophyletic) includes previously sequenced Rhizopus oryzae and Phycomyces blakesleeanus which we’ve blogged about before.
Mucor is model system for the Zygos/Mucorales as it can be transformed
Categories: genome sequencing · zygomycete
Tags: genome, JGI, mucor, mucorales, phycomycyes, rhizopus, zygomycetes, zygomycota
Fungal Genetics 2007 details
Posted on March 28th, 2007 by Jason Stajich · 2 Comments
I’m including a recapping as many of the talks as I remember. There were 6 concurrent sessions each afternoon so you have to miss a lot of talks. The conference was bursting at the seams as it was- at least 140 people had to be turned away beyond the 750 who attended.
If there was any theme in the conference it was “Hey we are all using these genome sequences”.
Categories: Fungal Genetics · bioinformatics · chytridomycota · cryptococcus · dothideomycetes · euriotiomycetes · filamentous · glomeromycota · homobasidiomycota · horizontal gene transfer · neurospora · news · sordariomycetes · zygomycete
Tags: annotation, annotations, asilomar, aspergillus, basidiomycete, batrachochytrium, bioinforics, biology, candida, chytrid, clone, comparative, conferences & courses, coprinus, cryptococcus, definitions, development, diversity, ecology, endophyte, enzymes, evolution, experimental, frog, fungal, fungi, fungus, gene, genes, genome, genomes, horizontaltransfer, infection, JGI, maps, MAT, meetings, methods, microarray, microbes, multicellularity, mycological, neurospora, news, NRPS, organisms, pathogen, pathogens, phenotype, philosophy, phylogenetics, plant, plants, podospora, pombe, protein, repeats, rhizopus, RIP, s, saccharomyces, seminar, sequences, sequencing, SOLiD, speciation, species, strain, taxa, transcription, transcripts, wheat, yeast, zygomycete, zygomycetes
