Difference between revisions of "GC content shift"
From CoGepedia
Line 6: | Line 6: | ||
==Comparison of Schizosaccharomyces fungi japonicus strain yFS275 and pombe 972h-== | ==Comparison of Schizosaccharomyces fungi japonicus strain yFS275 and pombe 972h-== | ||
+ | |||
+ | [[Image:Master 7763 1483.CDS-CDS.lastz.dag.go c4 D20 g10 A5.aligncoords.gcoords ct0.w1200.ks.png|thumb|right|500px|SynMap syntenic dotplot of two Schizosaccharomyces fungi: japonicus strain yFS275 (x-axis) and pombe 972h (y-axis). Syntenic gene pairs are colored based on their synonymous mutation rates. While there have been many genomic rearrangements since these lineages diverged, nearly every genomic regions in both species have a syntenic partner region (albeit it small regions of contiguous synteny). Results may be regenerated at: http://genomevolution.org/r/pi4]] | ||
[[Image:GEvo-Schizosaccharomyces.png|thumb|right|500px|GEvo analysis of syntenic regions from the Schizosaccharomyces fungi japonicus strain yFS275 (top) and pombe 972h- (bottom). Gene models are colored based on the percent GC content of GC3. Red is AT rich; green GC rich; yellow 50/50 AT/GC. Results may be regenerated at: http://genomevolution.org/r/pi7]] | [[Image:GEvo-Schizosaccharomyces.png|thumb|right|500px|GEvo analysis of syntenic regions from the Schizosaccharomyces fungi japonicus strain yFS275 (top) and pombe 972h- (bottom). Gene models are colored based on the percent GC content of GC3. Red is AT rich; green GC rich; yellow 50/50 AT/GC. Results may be regenerated at: http://genomevolution.org/r/pi7]] |
Revision as of 16:42, 25 August 2010
GC content shift is an evolutionary genome-wide change in the GC content of an organism. The evolutionary consequences of such a change is unknown. They are detected by comparing the genomes of two related organisms that share a recent common ancestor, and determining if their have different:
- AT/GC genomic composition
- High rate of synonymous mutations for syntenic gene pairs
- Amino acid usage frequencies
- Codon usage frequencies