This Article
Right arrow Full Text
Right arrow Full Text (PDF)
Right arrow Alert me when this article is cited
Right arrow Alert me if a correction is posted
Services
Right arrow Similar articles in this journal
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Download to citation manager
Right arrowReprints and Permissions
Right arrow Copyright Information
Right arrow Books from ASM Press
Right arrow MicrobeWorld
Citing Articles
Right arrow Citing Articles via HighWire
Right arrow Citing Articles via Google Scholar
Google Scholar
Right arrow Articles by Ping, L.-H.
Right arrow Articles by Swanstrom, R.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Ping, L.-H.
Right arrow Articles by Swanstrom, R.

 Previous Article  |  Next Article 

Journal of Virology, August 1999, p. 6271-6281, Vol. 73, No. 8
0022-538X/99/$04.00+0
Copyright © 1999, American Society for Microbiology. All rights reserved.

Characterization of V3 Sequence Heterogeneity in Subtype C Human Immunodeficiency Virus Type 1 Isolates from Malawi: Underrepresentation of X4 Variants

Li-Hua Ping,1,2 Julie A. E. Nelson,1 Irving F. Hoffman,1,2 Jody Schock,1,3 Suzanna L. Lamers,4 Melissa Goodman,1,2 Pietro Vernazza,5 Peter Kazembe,6 Martin Maida,6 Dick Zimba,6 Maureen M. Goodenow,4 Joseph J. Eron Jr.,1,2 Susan A. Fiscus,1,3 Myron S. Cohen,1,2 and Ronald Swanstrom1,7,*

UNC Center For AIDS Research,1 Department of Medicine,2 Department of Microbiology and Immunology,3 and Department of Biochemistry and Biophysics,7 University of North Carolina at Chapel Hill, Chapel Hill, North Carolina; Department of Pathology, Immunology, and Laboratory Medicine, University of Florida College of Medicine, Gainesville, Florida4; Institute for Clinical Microbiology and Immunology, St. Gallen, Switzerland5; and Lilongwe Central Hospital, Lilongwe, Malawi6

Received 19 February 1999/Accepted 20 April 1999

We have examined the nature of V3 sequence variability among subtype C human immunodeficiency virus type 1 (HIV-1) sequences from plasma-derived viral RNA present in infected men from Malawi. Sequence variability was assessed by direct sequence analysis of the V3 reverse transcription-PCR products, examination of virus populations by a subtype C V3-specific heteroduplex tracking assay (V3-HTA), and selected sequence analysis of molecular clones derived from the PCR products. Sequence variability in V3 among the subtype C viruses was not associated with the presence of basic amino acid substitutions. This observation is in contrast to that for subtype B HIV-1, where sequence variability is associated with such substitutions, and these substitutions are determinants of altered coreceptor usage. Evolutionary variants in subtype C V3 sequences, as defined by the V3-HTA, were not correlated with the CD4 level in the infected person, while such a correlation was found with subtype B V3 sequences. Viruses were isolated from a subset of the subjects; all isolates used CCR5 and not CXCR4 as a coreceptor, and none was able to grow in MT-2 cells, a hallmark of the syncytium-inducing phenotype that is correlated with CXCR4 usage. The overall sequence variability of the subtype C V3 region was no greater than that of the conserved regions of gp120. This limited sequence variability was also a feature of subtype B V3 sequences that do not carry the basic amino acid substitutions associated with altered coreceptor usage. Our results indicate that altered coreceptor usage is rare in subtype C HIV-1 isolates in sub-Saharan Africa and that sequence variability is not a feature of the V3 region of env in the absence of altered coreceptor usage.

* Corresponding author. Mailing address: CB7295, Rm 22-006 Lineberger Bldg., University of North Carolina at Chapel Hill, Chapel Hill, NC 27599. Phone: (919) 966-5710. Fax: (919) 966-8212. E-mail: risunc{at}med.unc.edu.

Journal of Virology, August 1999, p. 6271-6281, Vol. 73, No. 8
0022-538X/99/$04.00+0
Copyright © 1999, American Society for Microbiology. All rights reserved.


This article has been cited by other articles:

  • Abraha, A., Nankya, I. L., Gibson, R., Demers, K., Tebit, D. M., Johnston, E., Katzenstein, D., Siddiqui, A., Herrera, C., Fischetti, L., Shattock, R. J., Arts, E. J. (2009). CCR5- and CXCR4-Tropic Subtype C Human Immunodeficiency Virus Type 1 Isolates Have a Lower Level of Pathogenic Fitness than Other Dominant Group M Subtypes: Implications for the Epidemic. J. Virol. 83: 5592-5605 [Abstract] [Full Text]  
  • Coetzer, M., Nedellec, R., Salkowitz, J., McLaughlin, S., Liu, Y., Heath, L., Mullins, J. I., Mosier, D. E. (2008). Evolution of CCR5 Use before and during Coreceptor Switching. J. Virol. 82: 11758-11766 [Abstract] [Full Text]  
  • Campbell, G. R., Spector, S. A. (2008). CCL2 Increases X4-tropic HIV-1 Entry into Resting CD4+ T Cells. J. Biol. Chem. 283: 30745-30753 [Abstract] [Full Text]  
  • Tsibris, A. M. N., Sagar, M., Gulick, R. M., Su, Z., Hughes, M., Greaves, W., Subramanian, M., Flexner, C., Giguel, F., Leopold, K. E., Coakley, E., Kuritzkes, D. R. (2008). In Vivo Emergence of Vicriviroc Resistance in a Human Immunodeficiency Virus Type 1 Subtype C-Infected Subject. J. Virol. 82: 8210-8214 [Abstract] [Full Text]  
  • Garrido, C., Roulet, V., Chueca, N., Poveda, E., Aguilera, A., Skrabal, K., Zahonero, N., Carlos, S., Garcia, F., Faudon, J. L., Soriano, V., de Mendoza, C. (2008). Evaluation of Eight Different Bioinformatics Tools To Predict Viral Tropism in Different Human Immunodeficiency Virus Type 1 Subtypes. J. Clin. Microbiol. 46: 887-891 [Abstract] [Full Text]  
  • Patel, M. B., Hoffman, N. G., Swanstrom, R. (2008). Subtype-Specific Conformational Differences within the V3 Region of Subtype B and Subtype C Human Immunodeficiency Virus Type 1 Env Proteins. J. Virol. 82: 903-916 [Abstract] [Full Text]  
  • Travers, S. A. A., Tully, D. C., McCormack, G. P., Fares, M. A. (2007). A Study of the Coevolutionary Patterns Operating within the env Gene of the HIV-1 Group M Subtypes. Mol Biol Evol 24: 2787-2801 [Abstract] [Full Text]  
  • Berry, I. M., Ribeiro, R., Kothari, M., Athreya, G., Daniels, M., Lee, H. Y., Bruno, W., Leitner, T. (2007). Unequal Evolutionary Rates in the Human Immunodeficiency Virus Type 1 (HIV-1) Pandemic: the Evolutionary Rate of HIV-1 Slows Down When the Epidemic Rate Increases. J. Virol. 81: 10625-10635 [Abstract] [Full Text]  
  • Bugatti, A., Urbinati, C., Ravelli, C., De Clercq, E., Liekens, S., Rusnati, M. (2007). Heparin-Mimicking Sulfonic Acid Polymers as Multitarget Inhibitors of Human Immunodeficiency Virus Type 1 Tat and gp120 Proteins. Antimicrob. Agents Chemother. 51: 2337-2345 [Abstract] [Full Text]  
  • Bunnik, E. M., Quakkelaar, E. D., van Nuenen, A. C., Boeser-Nunnink, B., Schuitemaker, H. (2007). Increased Neutralization Sensitivity of Recently Emerged CXCR4-Using Human Immunodeficiency Virus Type 1 Strains Compared to Coexisting CCR5-Using Variants from the Same Patient. J. Virol. 81: 525-531 [Abstract] [Full Text]  
  • Li, M., Salazar-Gonzalez, J. F., Derdeyn, C. A., Morris, L., Williamson, C., Robinson, J. E., Decker, J. M., Li, Y., Salazar, M. G., Polonis, V. R., Mlisana, K., Karim, S. A., Hong, K., Greene, K. M., Bilska, M., Zhou, J., Allen, S., Chomba, E., Mulenga, J., Vwalika, C., Gao, F., Zhang, M., Korber, B. T. M., Hunter, E., Hahn, B. H., Montefiori, D. C. (2006). Genetic and Neutralization Properties of Subtype C Human Immunodeficiency Virus Type 1 Molecular env Clones from Acute and Early Heterosexually Acquired Infections in Southern Africa. J. Virol. 80: 11776-11790 [Abstract] [Full Text]  
  • Riddle, T. M., Shire, N. J., Sherman, M. S., Franco, K. F., Sheppard, H. W., Nelson, J. A. E. (2006). Sequential Turnover of Human Immunodeficiency Virus Type 1 env throughout the Course of Infection. J. Virol. 80: 10591-10599 [Abstract] [Full Text]  
  • Jensen, M. A., Coetzer, M., van 't Wout, A. B., Morris, L., Mullins, J. I. (2006). A reliable phenotype predictor for human immunodeficiency virus type 1 subtype C based on envelope v3 sequences.. J. Virol. 80: 4698-4704 [Abstract] [Full Text]  
  • Ghaffari, G., Tuttle, D. L., Briggs, D., Burkhardt, B. R., Bhatt, D., Andiman, W. A., Sleasman, J. W., Goodenow, M. M. (2005). Complex Determinants in Human Immunodeficiency Virus Type 1 Envelope gp120 Mediate CXCR4-Dependent Infection of Macrophages. J. Virol. 79: 13250-13261 [Abstract] [Full Text]  
  • Ndung'u, T., Gaseitsiwe, S., Sepako, E., Doualla-Bell, F., Peter, T., Kim, S., Thior, I., Novitsky, V. A., Essex, M. (2005). Major Histocompatibility Complex Class II (HLA-DRB and -DQB) Allele Frequencies in Botswana: Association with Human Immunodeficiency Virus Type 1 Infection. CVI 12: 1020-1028 [Abstract] [Full Text]  
  • Taha, T. E., Nour, S., Kumwenda, N. I., Broadhead, R. L., Fiscus, S. A., Kafulafula, G., Nkhoma, C., Chen, S., Hoover, D. R. (2005). Gender Differences in Perinatal HIV Acquisition Among African Infants. Pediatrics 115: e167-e172 [Abstract] [Full Text]  
  • Pastore, C., Ramos, A., Mosier, D. E. (2004). Intrinsic Obstacles to Human Immunodeficiency Virus Type 1 Coreceptor Switching. J. Virol. 78: 7565-7574 [Abstract] [Full Text]  
  • Khati, M., Schuman, M., Ibrahim, J., Sattentau, Q., Gordon, S., James, W. (2003). Neutralization of Infectivity of Diverse R5 Clinical Isolates of Human Immunodeficiency Virus Type 1 by gp120-Binding 2'F-RNA Aptamers. J. Virol. 77: 12692-12698 [Abstract] [Full Text]  
  • Goodenow, M. M., Rose, S. L., Tuttle, D. L., Sleasman, J. W. (2003). HIV-1 fitness and macrophages. J. Leukoc. Biol. 74: 657-666 [Abstract] [Full Text]  
  • de Oliveira, T., Engelbrecht, S., Janse van Rensburg, E., Gordon, M., Bishop, K., zur Megede, J., Barnett, S. W., Cassol, S. (2003). Variability at Human Immunodeficiency Virus Type 1 Subtype C Protease Cleavage Sites: an Indication of Viral Fitness?. J. Virol. 77: 9422-9430 [Abstract] [Full Text]  
  • Johnston, E. R., Zijenah, L. S., Mutetwa, S., Kantor, R., Kittinunvorakoon, C., Katzenstein, D. A. (2003). High Frequency of Syncytium-Inducing and CXCR4-Tropic Viruses among Human Immunodeficiency Virus Type 1 Subtype C-Infected Patients Receiving Antiretroviral Treatment. J. Virol. 77: 7682-7688 [Abstract] [Full Text]  
  • Kitrinos, K. M., Hoffman, N. G., Nelson, J. A. E., Swanstrom, R. (2003). Turnover of env Variable Region 1 and 2 Genotypes in Subjects with Late-Stage Human Immunodeficiency Virus Type 1 Infection. J. Virol. 77: 6811-6822 [Abstract] [Full Text]  
  • Cilliers, T., Nhlapo, J., Coetzer, M., Orlovic, D., Ketas, T., Olson, W. C., Moore, J. P., Trkola, A., Morris, L. (2003). The CCR5 and CXCR4 Coreceptors Are Both Used by Human Immunodeficiency Virus Type 1 Primary Isolates from Subtype C. J. Virol. 77: 4449-4456 [Abstract] [Full Text]  
  • Heredia, A., Davis, C., Amoroso, A., Dominique, J. K., Le, N., Klingebiel, E., Reardon, E., Zella, D., Redfield, R. R. (2003). Induction of G1 cycle arrest in T lymphocytes results in increased extracellular levels of beta -chemokines: A strategy to inhibit R5 HIV-1. Proc. Natl. Acad. Sci. USA 100: 4179-4184 [Abstract] [Full Text]  
  • Suphaphiphat, P., Thitithanyanont, A., Paca-Uccaralertkun, S., Essex, M., Lee, T.-H. (2003). Effect of Amino Acid Substitution of the V3 and Bridging Sheet Residues in Human Immunodeficiency Virus Type 1 Subtype C gp120 on CCR5 Utilization. J. Virol. 77: 3832-3837 [Abstract] [Full Text]  
  • Ball, S. C., Abraha, A., Collins, K. R., Marozsan, A. J., Baird, H., Quinones-Mateu, M. E., Penn-Nicholson, A., Murray, M., Richard, N., Lobritz, M., Zimmerman, P. A., Kawamura, T., Blauvelt, A., Arts, E. J. (2002). Comparing the Ex Vivo Fitness of CCR5-Tropic Human Immunodeficiency Virus Type 1 Isolates of Subtypes B and C. J. Virol. 77: 1021-1038 [Abstract] [Full Text]  
  • McCormack, G. P., Glynn, J. R., Crampin, A. C., Sibande, F., Mulawa, D., Bliss, L., Broadbent, P., Abarca, K., Ponnighaus, J. M., Fine, P. E. M., Clewley, J. P. (2002). Early Evolution of the Human Immunodeficiency Virus Type 1 Subtype C Epidemic in Rural Malawi. J. Virol. 76: 12890-12899 [Abstract] [Full Text]  
  • Bures, R., Morris, L., Williamson, C., Ramjee, G., Deers, M., Fiscus, S. A., Abdool-Karim, S., Montefiori, D. C. (2002). Regional Clustering of Shared Neutralization Determinants on Primary Isolates of Clade C Human Immunodeficiency Virus Type 1 from South Africa. J. Virol. 76: 2233-2244 [Abstract] [Full Text]  
  • Ndung'u, T., Lu, Y., Renjifo, B., Touzjian, N., Kushner, N., Pena-Cruz, V., Novitsky, V. A., Lee, T.-H., Essex, M. (2001). Infectious Simian/Human Immunodeficiency Virus with Human Immunodeficiency Virus Type 1 Subtype C from an African Isolate: Rhesus Macaque Model. J. Virol. 75: 11417-11425 [Abstract] [Full Text]  
  • Malkevich, N., Womack, C., Pandya, P., Grivel, J.-C., Fauci, A. S., Margolis, L. (2001). Human Immunodeficiency Virus Type 1 (HIV-1) Non-B Subtypes Are Similar to HIV-1 Subtype B in that Coreceptor Specificity Is a Determinant of Cytopathicity in Human Lymphoid Tissue Infected Ex Vivo. J. Virol. 75: 10520-10522 [Abstract] [Full Text]  
  • Ndung'u, T., Renjifo, B., Essex, M. (2001). Construction and Analysis of an Infectious Human Immunodeficiency Virus Type 1 Subtype C Molecular Clone. J. Virol. 75: 4964-4972 [Abstract] [Full Text]  
  • Trkola, A., Ketas, T. J., Nagashima, K. A., Zhao, L., Cilliers, T., Morris, L., Moore, J. P., Maddon, P. J., Olson, W. C. (2001). Potent, Broad-Spectrum Inhibition of Human Immunodeficiency Virus Type 1 by the CCR5 Monoclonal Antibody PRO 140. J. Virol. 75: 579-588 [Abstract] [Full Text]  
  • Resch, W., Parkin, N., Stuelke, E. L., Watkins, T., Swanstrom, R. (2000). A multiple-site-specific heteroduplex tracking assay as a tool for the study of viral population dynamics. Proc. Natl. Acad. Sci. USA 10.1073/pnas.011511298v1 [Abstract] [Full Text]  
  • Ping, L.-H., Cohen, M. S., Hoffman, I., Vernazza, P., Seillier-Moiseiwitsch, F., Chakraborty, H., Kazembe, P., Zimba, D., Maida, M., Fiscus, S. A., Eron, J. J., Swanstrom, R., Nelson, J. A. E. (2000). Effects of Genital Tract Inflammation on Human Immunodeficiency Virus Type 1 V3 Populations in Blood and Semen. J. Virol. 74: 8946-8952 [Abstract] [Full Text]  
  • Evans, D. T P, Riley, V. C, Fisk, P. G (2000). Ethnicity and country of acquisition of HIV in the current Leicester genitourinary medicine clinic cohort. Sex. Transm. Infect. 76 : 407-407 [Full Text]  
  • Nelson, J. A. E., Baribaud, F., Edwards, T., Swanstrom, R. (2000). Patterns of Changes in Human Immunodeficiency Virus Type 1 V3 Sequence Populations Late in Infection. J. Virol. 74: 8494-8501 [Abstract] [Full Text]  
  • Zhang, Y.-j., Lou, B., Lal, R. B., Gettie, A., Marx, P. A., Moore, J. P. (2000). Use of Inhibitors To Evaluate Coreceptor Usage by Simian and Simian/Human Immunodeficiency Viruses and Human Immunodeficiency Virus Type 2 in Primary Cells. J. Virol. 74: 6893-6910 [Abstract] [Full Text]  
  • Chen, Z., Huang, Y., Zhao, X., Skulsky, E., Lin, D., Ip, J., Gettie, A., Ho, D. D. (2000). Enhanced Infectivity of an R5-Tropic Simian/Human Immunodeficiency Virus Carrying Human Immunodeficiency Virus Type 1 Subtype C Envelope after Serial Passages in Pig-Tailed Macaques (Macaca nemestrina). J. Virol. 74: 6501-6510 [Abstract] [Full Text]  
  • Chabot, D. J., Chen, H., Dimitrov, D. S., Broder, C. C. (2000). N-Linked Glycosylation of CXCR4 Masks Coreceptor Function for CCR5-Dependent Human Immunodeficiency Virus Type 1 Isolates. J. Virol. 74: 4404-4413 [Abstract] [Full Text]  
  • Cohen, M. S. (2000). Preventing Sexual Transmission of HIV -- New Ideas from Sub-Saharan Africa. NEJM 342: 970-972 [Full Text]  
  • Shiino, T., Kato, K., Kodaka, N., Miyakuni, T., Takebe, Y., Sato, H. (2000). A Group of V3 Sequences from Human Immunodeficiency Virus Type 1 Subtype E Non-Syncytium-Inducing, CCR5-Using Variants Are Resistant to Positive Selection Pressure. J. Virol. 74: 1069-1078 [Abstract] [Full Text]  
  • Resch, W., Parkin, N., Stuelke, E. L., Watkins, T., Swanstrom, R. (2001). A multiple-site-specific heteroduplex tracking assay as a tool for the study of viral population dynamics. Proc. Natl. Acad. Sci. USA 98: 176-181 [Abstract] [Full Text]  


Copyright © 2009 by the American Society for Microbiology.   For an alternate route to Journals.ASM.org, visit: http://intl-journals.asm.org | More Info»