Literature DB >> 20646329

Co-receptor tropism prediction among 1045 Indian HIV-1 subtype C sequences: Therapeutic implications for India.

Ujjwal Neogi1, Sreenivasa B Prarthana, George D'Souza, Ayesha Decosta, Vijesh S Kuttiatt, Udaykumar Ranga, Anita Shet.   

Abstract

BACKGROUND: Understanding co-receptor tropism of HIV-1 strains circulating in India will provide key analytical leverage for assessing the potential usefulness of newer antiretroviral drugs such as chemokine co-receptor antagonists among Indian HIV-infected populations. The objective of this study was to determine using in silico methods, HIV-1 tropism among a large number of Indian isolates both from primary clinical isolates as well as from database-derived sequences.
RESULTS: R5-tropism was seen in 96.8% of a total of 1045 HIV-1 subtype C Indian sequences. Co-receptor prediction of 15 primary clinical isolates detected two X4-tropic strains using the C-PSSM matrix. R5-tropic HIV-1 subtype C V3 sequences were conserved to a greater extent than X4-tropic strains. X4-tropic strains were obtained from subjects who had a significantly longer time since HIV diagnosis (96.5 months) compared to R5-tropic strains (20.5 months).
CONCLUSIONS: High prevalence of R5 tropism and greater homogeneity of the V3 sequence among HIV-1 subtype C strains in India suggests the potential benefit of CCR5 antagonists as a therapeutic option in India.

Entities:  

Year:  2010        PMID： 20646329      PMCID： PMC2918521          DOI： 10.1186/1742-6405-7-24

Source DB:  PubMed          Journal:  AIDS Res Ther        ISSN： 1742-6405            Impact factor:   2.250


  30 in total

1.  Change in co-receptor usage of current South African HIV-1 subtype C primary isolates.

Authors:  Estrelita Janse van Rensburg; Tracey-Lee Smith; Michelle Zeier; Brenda Robson; Candice Sampson; Florette Treurnicht; Susan Engelbrecht
Journal:  AIDS       Date:  2002-12-06       Impact factor: 4.177

2.  A new perspective on V3 phenotype prediction.

Authors:  Satish Pillai; Benjamin Good; Douglas Richman; Jacques Corbeil
Journal:  AIDS Res Hum Retroviruses       Date:  2003-02       Impact factor: 2.205

3.  HIV-1 with predicted CXCR4 genotype identified in clade C from India.

Authors:  Abraham Joseph Kandathil; Rajesh Kannangai; Oriapadickal Cherian Abraham; Susanne Alexander Pulimood; Mark A Jensen; Gopalan Sridharan
Journal:  Mol Diagn Ther       Date:  2009       Impact factor: 4.074

4.  Identification of a major co-receptor for primary isolates of HIV-1.

Authors:  H Deng; R Liu; W Ellmeier; S Choe; D Unutmaz; M Burkhart; P Di Marzio; S Marmon; R E Sutton; C M Hill; C B Davis; S C Peiper; T J Schall; D R Littman; N R Landau
Journal:  Nature       Date:  1996-06-20       Impact factor: 49.962

5.  Determining human immunodeficiency virus coreceptor use in a clinical setting: degree of correlation between two phenotypic assays and a bioinformatic model.

Authors:  Katharina Skrabal; Andrew J Low; Winnie Dong; Tobias Sing; Peter K Cheung; Fabrizio Mammano; P Richard Harrigan
Journal:  J Clin Microbiol       Date:  2006-11-22       Impact factor: 5.948

6.  Changes in CCR5 and CXCR4 expression and beta-chemokine production in HIV-1-infected patients treated with highly active antiretroviral therapy.

Authors:  Marina Pierdominici; Antonello Giovannetti; Fabrizio Ensoli; Francesca Mazzetta; Marco Marziali; Maria Rita De Cristofaro; Donatella Santini-Muratori; Wilma Leti; Fernando Aiuti
Journal:  J Acquir Immune Defic Syndr       Date:  2002-02-01       Impact factor: 3.731

7.  Evolution of CCR5 use before and during coreceptor switching.

Authors:  Mia Coetzer; Rebecca Nedellec; Janelle Salkowitz; Sherry McLaughlin; Yi Liu; Laura Heath; James I Mullins; Donald E Mosier
Journal:  J Virol       Date:  2008-09-24       Impact factor: 5.103

8.  Binding of 2-aryl-4-(piperidin-1-yl)butanamines and 1,3,4-trisubstituted pyrrolidines to human CCR5: a molecular modeling-guided mutagenesis study of the binding pocket.

Authors:  Laurie A Castonguay; Youmin Weng; William Adolfsen; Jerry Di Salvo; Ruth Kilburn; Charles G Caldwell; Bruce L Daugherty; Paul E Finke; Jeffrey J Hale; Christopher L Lynch; Sander G Mills; Malcolm MacCoss; Martin S Springer; Julie A DeMartino
Journal:  Biochemistry       Date:  2003-02-18       Impact factor: 3.162

9.  The CD4 (T4) antigen is an essential component of the receptor for the AIDS retrovirus.

Authors:  A G Dalgleish; P C Beverley; P R Clapham; D H Crawford; M F Greaves; R A Weiss
Journal:  Nature       Date:  1984 Dec 20-1985 Jan 2       Impact factor: 49.962

10.  Genetic analysis of HIV-1 Circulating Recombinant Form 02_AG, B and C subtype-specific envelope sequences from Northern India and their predicted co-receptor usage.

Authors:  Ujjwal Neogi; Vikas Sood; Arpita Chowdhury; Shukla Das; Vishnampettai G Ramachandran; Vijesh K Sreedhar; Ajay Wanchu; Nilanjana Ghosh; Akhil C Banerjea
Journal:  AIDS Res Ther       Date:  2009-12-03       Impact factor: 2.250
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  3 in total

1.  Profile of HIV type 1 coreceptor tropism among Kenyan patients from 2009 to 2010.

Authors:  Anthony Kebira Nyamache; Anne W T Muigai; Zipporah Ng'ang'a; Samoel A Khamadi
Journal:  AIDS Res Hum Retroviruses       Date:  2013-05-21       Impact factor: 2.205

2.  Monophylogenetic HIV-1C epidemic in Ethiopia is dominated by CCR5-tropic viruses-an analysis of a prospective country-wide cohort.

Authors:  Amare Worku Kalu; Nigus Fikrie Telele; Solomon Gebreselasie; Daniel Fekade; Samir Abdurahman; Gaetano Marrone; Anders Sönnerborg
Journal:  BMC Infect Dis       Date:  2017-01-06       Impact factor: 3.090

3.  Prediction of coreceptor usage by five bioinformatics tools in a large Ethiopian HIV-1 subtype C cohort.

Authors:  Amare Worku Kalu; Nigus Fikrie Telele; Solomon Gebreselasie; Daniel Fekade; Samir Abdurahman; Gaetano Marrone; Anders Sönnerborg
Journal:  PLoS One       Date:  2017-08-25       Impact factor: 3.240
  3 in total

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