Upload
shawn-cole
View
218
Download
3
Tags:
Embed Size (px)
Citation preview
STEPHANIE HINTZENBIOL 471
SIV and HIV:Differences in Diversity and
Divergence
Markham HIV paper Island SIV paper
Divergence Rapid progressor had a significantly
higher rate of increase over non Rapid had a greater rate of increase
but not significant over moderate Moderate significant over
nonprogressors Diversity
The differences in slope were significant between the rapid progressors and nonprogressors
Between nonprogressors and moderate progressors was significant
Moderate and rapid had a trend toward significant
Divergence Unknown!
Diversity Unknown!
Background
The Question My thoughts
Are the measurements of diversity and divergence of mutation less than, the same or greater in SIV than in HIV.
There will be equal amounts of diversity and divergence between HIV and SIV
Consider
Methods
Use NCBI and genBank (FASTA) to retrieve sequences of SIV
Use of Biology Workbench and ClustalW to align all sequences
MEGA for diversity and divergenceWeblogo
Methods
Results: ClustalW Phylogenetic tree
Rooted tree (generated by Phylip's Drawgram)
Results: Weblogo
Discussion
Diversity Coefficient of Differentiation
0.035
Divergence Overall Distance/Divergence
0.551 HM363427.1 and HM363426.1
89.3% identity HM363412.1 and HM363426.1
47.6% identity
References
Markham R., et al. 1998. Patterns of HIV -1 evolution in individuals with differing rates of CD4 T cell decline. Proc. Natl. Acad. Sci. USA:95, p 12568-12573.
Worobey M., et al. 2010. Island Biogeography Reveals the Deep History of SIV. Science:329, 5998, p 1487