title: The evolutionary rate variation among genes of HOG-signaling pathway in yeast genomes.
abstract: BACKGROUND
  Responses to extracellular stress are required for microbes to survive in changing environments. Although the stress response mechanisms have been characterized extensively, the evolution of stress response pathway remains poorly understood. Here, we studied the evolution of High Osmolarity Glycerol (HOG) pathway, one of the important osmotic stress response pathways, across 10 yeast species and underpinned the evolutionary forces acting on the pathway evolution.
  
  
  RESULTS
  Although the HOG pathway is well conserved across the surveyed yeast species, the evolutionary rate of the genes in this pathway varied substantially among or within different lineages. The fast divergence of MSB2 gene indicates that this gene is subjected to positive selection. Moreover, transcription factors in HOG pathway tend to evolve more rapidly, but the genes in conserved MAPK cascade underwent stronger functional selection. Remarkably, the dN/dS values are negatively correlated with pathway position along HOG pathway from Sln1 (Sho1) to Hog1 for transmitting external signal into nuclear. The increased gradient of selective constraints from upstream to downstream genes suggested that the downstream genes are more pleiotropic, being required for a wider range of pathways. In addition, protein length, codon usage, gene expression, and protein interaction appear to be important factors to determine the evolution of genes in HOG pathway.
  
  
  CONCLUSIONS
  Taken together, our results suggest that functional constraints play a large role in the evolutionary rate variation in HOG pathway, but the genetic variation was influenced by quite complicated factors, such as pathway position, protein length and so on. These findings provide some insights into how HOG pathway genes evolved rapidly for responding to environmental osmotic stress changes.
  
  
  METHODS
  This article was reviewed by Han Liang (nominated by Laura Landweber), Georgy Bazykin (nominated by Mikhail Gelfand) and Zhenguo Lin (nominated by John Logsdon).
authors.affiliation: Institute of Microbiology, College of Life Sciences, Zhejiang University, Hangzhou, PR China. mgf@zju.edu.cn
authors.forename: Xuechang
authors.initials: X
authors.lastname: Wu
authors.forename: Xiaoqin
authors.initials: X
authors.lastname: Chi
authors.forename: Pinmei
authors.initials: P
authors.lastname: Wang
authors.forename: Daoqiong
authors.initials: D
authors.lastname: Zheng
authors.forename: Rui
authors.initials: R
authors.lastname: Ding
authors.forename: Yudong
authors.initials: Y
authors.lastname: Li
mesh_terms: D019143:Evolution, Molecular; D016681:Genome, Fungal / Q000235:genetics*; D009994:Osmolar Concentration; D012441:Saccharomyces cerevisiae / Q000235:genetics*; D029701:Saccharomyces cerevisiae Proteins / Q000235:genetics*; D015398:Signal Transduction / Q000235:genetics / Q000502:physiology
chemical_list: D029701:Saccharomyces cerevisiae Proteins