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