id	author	title	date	pages	extension	mime	words	sentences	flesch	summary	cache	txt
cord-314166-79323mzd	Vanderford, Thomas H.	Adaptation of a Diverse Simian Immunodeficiency Virus Population to a New Host Is Revealed through a Systematic Approach to Identify Amino Acid Sites under Selection	2006-12-11		.txt	text/plain	6453	275	45	Here, employing previously unused numerical analyses and a more comprehensive phylogenetic analysis of the same viral sequence data, we detect strong RM-specific selection in the V2 loop at days 40 and 70 p.i., which underscores this region's importance in adaptation to the RMs. Most prominently, changes in the position and frequency of an N-glyc motif in the V2 loop likely represent an adaptation either to a divergent CD4 or chemokine coreceptor or to an as-of-yet undetermined target cell population. Taken together, these data suggest that in addition to overall differences in the allelic structure of the SIVsm populations between the 2 host species, the viruses replicating in RMs are significantly more diverged from the SI than viruses replicating in the newly infected SMs. To identify specific amino acid sites that may be responsible for the disparate evolutionary patterns of viruses replicating in the 2 monkey species, we applied 3 site-bysite analyses to detect particular codons under selection.	./cache/cord-314166-79323mzd.txt	./txt/cord-314166-79323mzd.txt