A paper in PLoS Biology from Sandy Johnson's lab entitled "Interlocking Transcriptional Feedback Loops Control White-Opaque Switching in Candida albicans" discusses phenotype switching in the human pathogenic fungus Candida albicans. Why is the important?
Entries from October 2007
Candida White-Opaque switching
Posted on October 31st, 2007 by Jason Stajich · No Comments
A paper in PLoS Biology from Sandy Johnson's lab entitled "Interlocking Transcriptional Feedback Loops Control White-Opaque Switching in Candida albicans" discusses phenotype switching in the human pathogenic fungus Candida albicans. Why is the important?
Categories: candida · development · human pathogen
I hate it when I lose chromosomes
Posted on October 22nd, 2007 by Jason Stajich · No Comments
A paper on "Effects of Aneuploidy on Cellular Division in Haploid Yeast" describes what must be a very stressful situation for a cell, when it loses or gains a chromosome.
Categories: aneuploidy · copy number variation
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
Yeast resequencing update
Posted on October 16th, 2007 by Jason Stajich · 1 Comment
Ed Louis at Nottingham sent out an email today outlining plans for publishing analyses of the Saccharomyces Genome Resequencing Project. They are in process of analyzing the data and ask that people respect their use of the data, but also invite collaborations and companion papers.
Categories: genome sequencing · news · resequencing · saccharomyces
Contact your represenative: Vote in the Senate on NIH Funding
Posted on October 11th, 2007 by Jason Stajich · No Comments
This was sent along from the GSA. It is important to contact your represenative about the Vote in the Senate on NIH Funding.
The Senate is expected to vote on the Fiscal Year 2008 Labor, Health and Human Services and Education (L-HHS) appropriations bill the week of October 15.
Categories: news · science policy
Exploring CUG codon evolution in Candida
Posted on October 9th, 2007 by Jason Stajich · 1 Comment
Reverting CUG tRNA from derived change coding for serine back to leucine (standard code) has profound effect on organism.
Categories: candida · evolution · fungi · gene regulation · genetic code
Bay Area Seminar(s): Jonathan Eisen
Posted on October 5th, 2007 by Jason Stajich · No Comments
For those within reach of Bay Area, Jonanthan Eisen (who recently posted about 3-day Biology and Mathematics in the Bay Area meeting) will be presenting at Bay Area BioSystematists meeting on Oct 16.
Categories: seminars
Yes, Ecology can improve Genomics
Posted on October 5th, 2007 by sharpton · 1 Comment
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.
Categories: bioinformatics · comparative · functional · gene function · gene knockout · genome · genome annotation · genome sequencing · molecular evolution · saccharomyces · yeast
Next gen sequencing technology
Posted on October 4th, 2007 by Jason Stajich · No Comments
Nature has an overview of what goes in and out of next generation sequencers with an interview with a smiling Chad Nusbaum from the Broad Institute. Most of these have been out and about for a while, but it seems that the hayride/bandwagon is starting to pick up more steam as GT's Genome Scan has several posts about sequencing referencing J. Craig V, George
Categories: genome sequencing · news · resequencing
Little Coprinus mushroom pictures
Posted on October 3rd, 2007 by Jason Stajich · 1 Comment
Coprinus cinereus (renamed Coprinopsis cinerea) growing in the lab. The genome was sequenced, assembled into chromosomes, and annotated and we are working on the final analysis of it to describe some of the interesting biology about this little Coprophilic fungus. I'm excited to put up a few of my pictures of the tiny mushrooms growing in the lab (although others have
Categories: basidiomycota · genome