Archive for November, 2007

Buffering Mechanisms for genetic information

November 26, 2007

Over the holidays I read a Review article entitled “From genotype to phenotype: buffering mechanisms and the storage of genetic information” by S.L. Rutherford.

Most models of evolution focus on DNA variation, either between individuals or between populations. However, reality is a bit more complicated, as most natural selection acts on variation among phenotypes rather than genotypes. The mapping from phenotype to genotype is complicated by the fact that genetic buffering allows for the buildup and storage of genetic variation in phenotypically normal populations.

“A more realistic picture of genetic networks will emerge from combining the perspectives of molecular and developmental genetics with those of population and evolutionary genetics. Understanding how specific genes are modulated relative to genetic and environmental variation is essential to understanding the course of evolution.”

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“Natural History” of Ascomycota fungi

November 13, 2007

Nature recently published a paper by Wapinski et. al. entitled “Natural history and evolutionary principles of gene duplication in fungi.”. This was a follow up paper to their ISMB paper “Automatic genome-wide reconstruction of phylogenetic gene trees.” Bioinformatics, 23(13), i549-i558 (2007). DOI: 10.1093/bioinformatics/btm193. In these papers the authors seek to answer the following questions:

  1. How does one clearly identify orthologs?
  2. What genes share a common ancestor?
  3. What happened to them along the way?

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Histone Replacement / Turnover

November 4, 2007

There were two reports in Science last March on Histone replacement/turnover. These appeared back to back in the March 9 issue (vol 315): Dynamics of Replication-Independent Histone Turnover in Budding Yeast by Dion et. al. (pg 1405-1408 ) and Histone Replacement Marks the Boundaries of cis-Regulatory Domains by Mito et. al. (pg 1408-1411).

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