This month's Genetics has a series of articles exploring the genome (published last year & freely available at Science) of the green algae [[Chlamydomonas reinhardtii]]. These manuscripts are primarily genome analyses making for a very bioinformatics focused issue of Genetics. Some of the highlights include:
Chlamy genome investigations
Posted on May 26th, 2008 by Jason Stajich · No Comments
Categories: bioinformatics · comparative · evolution · gene family · genome · genome annotation
S.pombe telomerase RNA identified
Posted on January 27th, 2008 by Jason Stajich · No Comments
Webb, C.J., Zakian, V.A. (2008). Identification and characterization of the Schizosaccharomyces pombe TER1 telomerase RNA. Nature Structural & Molecular Biology, 15(1), 34-42. DOI: 10.1038/nsmb1354
Leonardi, J., Box, J.A., Bunch, J.T., Baumann, P. (2008). TER1, the RNA subunit of fission yeast telomerase. Nature Structural & Molecular Biology, 15(1), 26-33. DOI: 10.1038/nsmb1343
Two papers in Nature Structural & Molecular Biology identify the telomerase RNA in Schizosaccharomyces pombe. Telomerase is a multi-unit enzyme that has both protein and RNA components. While the protein subunit is highly conserved and identifiable through sequence comparisons of eukaryotes, the RNA subunit has a variable size and sequence making identification through comparative means more difficult. The S. pombe telomerase RNA subunit, or TER1, was discovered by two labs applying similar biochemical approaches to identify the locus.
Categories: cell biology · s.pombe
Yes, Ecology can improve Genomics
Posted on October 5th, 2007 by sharpton · 1 Comment
Categories: bioinformatics · comparative · functional · gene function · gene knockout · genome · genome annotation · genome sequencing · molecular evolution · saccharomyces · yeast
Evolution of aflatoxin gene cluster
Posted on September 29th, 2007 by Jason Stajich · 1 Comment
Categories: PKS · aflatoxin · aspergillus · bioinformatics · comparative · gene cluster · human pathogen · molecular evolution · secondary metabolite
Orthology detection software
Posted on April 19th, 2007 by Jason Stajich · 1 Comment
A paper in PLoS One, Assessing Performance of Orthology Detection Strategies Applied to Eukaryotic Genomes, reports a new approach to assess the performance of automated orthology detection. These authors also wrote the OrthoMCL (2006 DB paper, 2003 algorithm paper) which uses MCL to build orthologous gene families.
Categories: bioinformatics · comparative · genome annotation · methods
Wikis for genome (re)annotation
Posted on February 12th, 2007 by Jason Stajich · 5 Comments
Categories: bioinformatics · database · genome annotation · wiki
