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Some complex mutational pathways in Gag included sequential series of reversions and escapes.
Timing patterns of viral mutational pathways in the natural course of HIV-1 infection are not well understood, and denote a knowledge gap in HIV research.
It would be crucial to determine whether ART affects the timing of viral mutational pathways in Gag, and if so, the extent of ART contribution.
Therefore, a better understanding of viral mutational pathways in Gag and their temporal constraints may advance rational design of an HIV-1 vaccine.
10.7554/eLife.07864.007 Figure 5. Accessible mutational pathways in the joint TF-RE sequence space.
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However, strong trade-offs associated with nutrient specialization and a partial analysis of the underlying genetic mutations [16] suggest less parallel evolution at the genetic level and the potential for a greater number of beneficial mutational pathways than observed in other systems [48].
Second, there are different mutational pathways that result in a low-affinity PBP.
The sign epistasis caused by contrasting genetic contexts between an HGT donor and the recipient species may allow mutational pathways to be taken in the donor's allele that were inaccessible in the recipient.
From a comparative point of view with in vitro generated mutants, mutational pathways appear to be very similar in both conditions.
The HIV-2 PR is weakly inhibited by some PR inhibitors (e.g. amprenavir), and little is known of the mutational pathways leading to drug resistance in this virus.
We present serial evolutionary networks as a longitudinal representation of the mutational pathways of a viral population in a within-host environment.
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