Literature DB >> 16849594

Site-specific amino acid frequency, fitness and the mutational landscape model of adaptation in human immunodeficiency virus type 1.

Jack da Silva1.   

Abstract

Analysis of the intensely studied HIV-1 gp120 V3 protein region reveals that the among-population mean site-specific frequency of an amino acid is a measure of its relative marginal fitness. This surprising result may arise if populations are displaced from mutation-selection equilibrium by fluctuating selection and if the probability of fixation of a beneficial amino acid is proportional to its selection coefficient.

Entities:  

Mesh：

Substances：

Year:  2006        PMID： 16849594      PMCID： PMC1667049          DOI： 10.1534/genetics.106.062885

Source DB:  PubMed          Journal:  Genetics        ISSN： 0016-6731            Impact factor:   4.562


  31 in total

1.  Minimal requirements for the human immunodeficiency virus type 1 V3 domain to support the syncytium-inducing phenotype: analysis by single amino acid substitution.

Authors:  J J De Jong; A De Ronde; W Keulen; M Tersmette; J Goudsmit
Journal:  J Virol       Date:  1992-11       Impact factor: 5.103

2.  A robust measure of HIV-1 population turnover within chronically infected individuals.

Authors:  G Achaz; S Palmer; M Kearney; F Maldarelli; J W Mellors; J M Coffin; J Wakeley
Journal:  Mol Biol Evol       Date:  2004-06-23       Impact factor: 16.240

3.  The fate of competing beneficial mutations in an asexual population.

Authors:  P J Gerrish; R E Lenski
Journal:  Genetica       Date:  1998       Impact factor: 1.082

4.  Likelihood models for detecting positively selected amino acid sites and applications to the HIV-1 envelope gene.

Authors:  R Nielsen; Z Yang
Journal:  Genetics       Date:  1998-03       Impact factor: 4.562

5.  Evolutionary mechanisms and population dynamics of the third variable envelope region of HIV within single hosts.

Authors:  Y Yamaguchi; T Gojobori
Journal:  Proc Natl Acad Sci U S A       Date:  1997-02-18       Impact factor: 11.205

6.  Quantification of latent tissue reservoirs and total body viral load in HIV-1 infection.

Authors:  T W Chun; L Carruth; D Finzi; X Shen; J A DiGiuseppe; H Taylor; M Hermankova; K Chadwick; J Margolick; T C Quinn; Y H Kuo; R Brookmeyer; M A Zeiger; P Barditch-Crovo; R F Siliciano
Journal:  Nature       Date:  1997-05-08       Impact factor: 49.962

7.  Causes of HIV diversity.

Authors:  S Bonhoeffer; E C Holmes; M A Nowak
Journal:  Nature       Date:  1995-07-13       Impact factor: 49.962

8.  Analysis of the critical domain in the V3 loop of human immunodeficiency virus type 1 gp120 involved in CCR5 utilization.

Authors:  C S Hung; N Vander Heyden; L Ratner
Journal:  J Virol       Date:  1999-10       Impact factor: 5.103

9.  Selective employment of chemokine receptors as human immunodeficiency virus type 1 coreceptors determined by individual amino acids within the envelope V3 loop.

Authors:  R F Speck; K Wehrly; E J Platt; R E Atchison; I F Charo; D Kabat; B Chesebro; M A Goldsmith
Journal:  J Virol       Date:  1997-09       Impact factor: 5.103

10.  Lower in vivo mutation rate of human immunodeficiency virus type 1 than that predicted from the fidelity of purified reverse transcriptase.

Authors:  L M Mansky; H M Temin
Journal:  J Virol       Date:  1995-08       Impact factor: 5.103
View more
  6 in total

1.  The role of epistasis in protein evolution.

Authors:  David M McCandlish; Etienne Rajon; Premal Shah; Yang Ding; Joshua B Plotkin
Journal:  Nature       Date:  2013-05-30       Impact factor: 49.962

2.  Diversity of HIV-1 subtype B: implications to the origin of BF recombinants.

Authors:  Elcio Leal; Fabiola E Villanova
Journal:  PLoS One       Date:  2010-07-28       Impact factor: 3.240

3.  Fitness epistasis and constraints on adaptation in a human immunodeficiency virus type 1 protein region.

Authors:  Jack da Silva; Mia Coetzer; Rebecca Nedellec; Cristina Pastore; Donald E Mosier
Journal:  Genetics       Date:  2010-02-15       Impact factor: 4.562

4.  Amino acid covariation in a functionally important human immunodeficiency virus type 1 protein region is associated with population subdivision.

Authors:  Jack da Silva
Journal:  Genetics       Date:  2009-03-11       Impact factor: 4.562

5.  Evolution of human immunodeficiency virus type 1 cytotoxic T-lymphocyte epitopes: fitness-balanced escape.

Authors:  Yi Liu; John McNevin; Hong Zhao; Denis M Tebit; Ryan M Troyer; Matthew McSweyn; Ananta K Ghosh; Daniel Shriner; Eric J Arts; M Juliana McElrath; James I Mullins
Journal:  J Virol       Date:  2007-08-29       Impact factor: 5.103

Review 6.  HIV-1 group M conserved elements vaccine.

Authors:  Morgane Rolland; David C Nickle; James I Mullins
Journal:  PLoS Pathog       Date:  2007-11       Impact factor: 6.823
  6 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.