Rapid detection of the CCR2-V64I, CCR5-A59029G and SDF1-G801A polymorphisms by tetra-primer PCR

Clinical Biochemistry

Volumn 35, Issue 5, 2002, Pages 399-403

  Hersberger, Martin ^a,b   Marti Jaun, Jacqueline ^a   Hänseler, Edgar ^a   Speck, Roberto F ^a  

^a UNIVERSITY HOSPITAL ZURICH   (Switzerland)

^b UNIVERSITY HOSPITAL ZURICH   (Switzerland)

Author keywords

AIDS; CCR2; CCR5; Chemokine; Genetics; HIV; Pathogenesis; Polymorphism; SDF1

Indexed keywords

CHEMOKINE RECEPTOR CCR2; CHEMOKINE RECEPTOR CCR5; DNA; EDETIC ACID; GENOMIC DNA; PRIMER RNA; STROMAL CELL DERIVED FACTOR 1; ALPHA CHEMOKINE; CHEMOKINE RECEPTOR; MONOCYTE CHEMOATTRACTANT PROTEIN 1 RECEPTOR; PRIMER DNA;

ALLELE; ARTICLE; COHORT ANALYSIS; ENZYME ASSAY; FLUORESCENCE; GEL ELECTROPHORESIS; GENE AMPLIFICATION; GENE SEQUENCE; GENETIC ANALYSIS; GENETIC POLYMORPHISM; GENETIC STRAIN; HUMAN; HUMAN IMMUNODEFICIENCY VIRUS; NONHUMAN; NUCLEOTIDE SEQUENCE; PATHOGENESIS; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; PROMOTER REGION; SAMPLE; TEMPERATURE; TUBE; CAUCASIAN; ECONOMICS; GENE FREQUENCY; GENETIC SCREENING; GENETICS; GENOTYPE; METHODOLOGY; REPRODUCIBILITY; TIME;

CHEMOKINES, CXC; DNA PRIMERS; EUROPEAN CONTINENTAL ANCESTRY GROUP; GENE FREQUENCY; GENETIC SCREENING; GENOTYPE; HUMANS; POLYMERASE CHAIN REACTION; POLYMORPHISM, GENETIC; RECEPTORS, CCR5; RECEPTORS, CHEMOKINE; REPRODUCIBILITY OF RESULTS; TIME FACTORS;

EID: 0036630088     PISSN: 00099120     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0009-9120(02)00333-8     Document Type: Article

References (34)

1. Vergis E.N., Mellors J.W. Natural history of HIV-1 infection. Infect Dis Clin North Am. 14:2000;. 809-8vi.
2. Buchbinder S., Vittinghoff E. HIV-infected long-term nonprogressors epidemiology, mechanisms of delayed progression, and clinical and research implications . Microbes Infect. 1:1999;1113-1120.
3. Alexander L., Weiskopf E., Greenough T.C., Gaddis N.C., Auerbach M.R., Malim M.H., O'Brien S.J., Walker B.D., Sullivan J.L., Desrosiers R.C. Unusual polymorphisms in human immunodeficiency virus type 1 associated with nonprogressive infection. J Virol. 74:2000;4361-4376.
4. Hogan C.M., Hammer S.M. Host determinants in HIV infection and disease. Part 1 cellular and humoral immune responses . Ann Intern Med. 134:2001;761-776.
5. Hogan C.M., Hammer S.M. Host determinants in HIV infection and disease. Part 2 genetic factors and implications for antiretroviral therapeutics . Ann Intern Med. 134:2001;978-996.
6. Dean M., Carrington M., Winkler C., Huttley G.A., Smith M.W., Allikmets R., Goedert J.J., Buchbinder S.P., Vittinghoff E., Gomperts E., Donfield S., Vlahov D., Kaslow R., Saah A., Rinaldo C., Detels R., O'Brien S.J. Genetic restriction of HIV-1 infection and progression to AIDS by a deletion allele of the CKR5 structural gene. Hemophilia Growth and Development Study, Multicenter AIDS Cohort Study, Multicenter Hemophilia Cohort Study, San Francisco City Cohort, ALIVE Study. Science. 273:1996;1856-1862.
7. Michael N.L., Louie L.G., Rohrbaugh A.L., Schultz K.A., Dayhoff D.E., Wang C.E., Sheppard H.W. The role of CCR5 and CCR2 polymorphisms in HIV-1 transmission and disease progression. Nat Med. 3:1997;1160-1162.
8. Martin M.P., Dean M., Smith M.W., Winkler C., Gerrard B., Michael N.L., Lee B., Doms R.W., Margolick J., Buchbinder S., Goedert J.J., O'Brien T.R., Hilgartner M.W., Vlahov D., O'Brien S.J., Carrington M. Genetic acceleration of AIDS progression by a promoter variant of CCR5. Science. 282:1998;1907-1911.
9. Kostrikis L.G., Huang Y., Moore J.P., Wolinsky S.M., Zhang L., Guo Y., Deutsch L., Phair J., Neumann A.U., Ho D.D. A chemokine receptor CCR2 allele delays HIV-1 disease progression and is associated with a CCR5 promoter mutation. Nat Med. 4:1998;350-353.
10. Smith M.W., Dean M., Carrington M., Winkler C., Huttley G.A., Lomb D.A., Goedert J.J., O'Brien T.R., Jacobson L.P., Kaslow R., Buchbinder S., Vittinghoff E., Vlahov D., Hoots K., Hilgartner M.W., O'Brien S.J. Contrasting genetic influence of CCR2 and CCR5 variants on HIV-1 infection and disease progression. Hemophilia Growth and Development Study (HGDS), Multicenter AIDS Cohort Study (MACS), Multicenter Hemophilia Cohort Study (MHCS), San Francisco City Cohort (SFCC), ALIVE Study. Science. 277:1997;959-965.
11. Liu H., Chao D., Nakayama E.E., Taguchi H., Goto M., Xin X., Takamatsu J.K., Saito H., Ishikawa Y., Akaza T., Juji T., Takebe Y., Ohishi T., Fukutake K., Maruyama Y., Yashiki S., Sonoda S., Nakamura T., Nagai Y., Iwamoto A., Shioda T. Polymorphism in RANTES chemokine promoter affects HIV-1 disease progression. Proc Natl Acad Sci USA. 96:1999;4581-4585.
12. Locati M., Murphy P.M. Chemokines and chemokine receptors biology and clinical relevance in inflammation and AIDS . Annu Rev Med. 50:1999;425-440.
13. Bieniasz P.D., Cullen B.R. Chemokine receptors and human immunodeficiency virus infection. Front Biosci. 3:1998;D44-D58.
14. Esser U., Speck R.F., Deen K.C., Atchison R.E., Sweet R., Goldsmith M.A. Molecular function of the CD4 D1 domain in coreceptor-mediated entry by HIV type 1. AIDS Res Hum Retroviruses. 16:2000;1845-1854.
15. Sattentau Q.J., Moore J.P. The role of CD4 in HIV binding and entry. Philos Trans R Soc Lond B Biol Sci. 342:1993;59-66.
16. Eckert D.M., Kim P.S. Mechanisms of viral membrane fusion and its inhibition. Annu Rev Biochem. 70:2001;777-810.
17. Zhang L., He T., Huang Y., Chen Z., Guo Y., Wu S., Kunstman K.J., Brown R.C., Phair J.P., Neumann A.U., Ho D.D., Wolinsky S.M. Chemokine coreceptor usage by diverse primary isolates of human immunodeficiency virus type 1. J Virol. 72:1998;9307-9312.
18. Connor R.I., Sheridan K.E., Ceradini D., Choe S., Landau N.R. Change in coreceptor use coreceptor use correlates with disease progression in HIV-1-infected individuals. J Exp Med. 185:1997;621-628.
19. McDermott D.H., Zimmerman P.A., Guignard F., Kleeberger C.A., Leitman S.F., Murphy P.M. CCR5 promoter polymorphism and HIV-1 disease progression. Multicenter AIDS Cohort Study (MACS). Lancet. 352:1998;866-870.
20. Liu R., Paxton W.A., Choe S., Ceradini D., Martin S.R., Horuk R., MacDonald M.E., Stuhlmann H., Koup R.A., Landau N.R. Homozygous defect in HIV-1 coreceptor accounts for resistance of some multiply-exposed individuals to HIV-1 infection. Cell. 86:1996;367-377.
21. Samson M., Libert F., Doranz B.J., Rucker J., Liesnard C., Farber C.M., Saragosti S., Lapoumeroulie C., Cognaux J., Forceille C., Muyldermans G., Verhofstede C., Burtonboy G., Georges M., Imai T., Rana S., Yi Y., Smyth R.J., Collman R.G., Doms R.W., Vassart G., Parmentier M. Resistance to HIV-1 infection in caucasian individuals bearing mutant alleles of the CCR-5 chemokine receptor gene. Nature. 382:1996;722-725.
22. Winkler C., Modi W., Smith M.W., Nelson G.W., Wu X., Carrington M., Dean M., Honjo T., Tashiro K., Yabe D., Buchbinder S., Vittinghoff E., Goedert J.J., O'Brien T.R., Jacobson L.P., Detels R., Donfield S., Willoughby A., Gomperts E., Vlahov D., Phair J., O'Brien S.J. Genetic restriction of AIDS pathogenesis by an SDF-1 chemokine gene variant. ALIVE Study, Hemophilia Growth and Development Study (HGDS), Multicenter AIDS Cohort Study (MACS), Multicenter Hemophilia Cohort Study (MHCS), San Francisco City Cohort (SFCC). Science. 279:1998;389-393.
23. Yuan C.C., Peterson R.J., Wang C.D., Goodsaid F., Waters D.J. 5′ Nuclease assays for the loci CCR5-+/Delta32, CCR2-V64I, and SDF1-G801A related to pathogenesis of AIDS. Clin Chem. 46:2000;24-30.
24. Kwok S., Kellogg D.E., McKinney N., Spasic D., Goda L., Levenson C., Sninsky J.J. Effects of primer-template mismatches on the polymerase chain reaction human immunodeficiency virus type 1 model studies . Nucleic Acids Res. 18:1990;999-1005.
25. Sambrook J., Fritsch E.F., Maniatis T. Molecular Cloning. 1989;Cold Spring Harbor Laboratory Press.
26. Hersberger M., Patarroyo-White S., Arnold K.S., Innerarity T.L. Phylogenetic analysis of the apolipoprotein B mRNA-editing region. Evidence for a secondary structure between the mooring sequence and the 3′ efficiency element. J Biol Chem. 274:1999;34590-34597.
27. Ye S., Humphries S., Green F. Allele specific amplification by tetra-primer PCR. Nucleic Acids Res. 20:1992;1152.
28. Hersberger M., Marti-Jaun J., Rentsch K., Hanseler E. Rapid Detection of the CYP2D6*3, CYP2D6*4, and CYP2D6*6 Alleles by Tetra-Primer PCR and of the CYP2D6*5 Allele by Multiplex Long PCR. Clin Chem. 46:2000;1072-1077.
29. Hersberger M., Marti-Jaun J., Rentsch K., Hanseler E. Two Single-Tube Tetra-Primer Assays to Detect the CYP2C19*2 and *3 Alleles of S-Mephenytoin Hydroxylase. Clin Chem. 47:2001;772-774.
30. O'Brien S.J., Moore J.P. The effect of genetic variation in chemokines and their receptors on HIV transmission and progression to AIDS. Immunol Rev. 177:2000;99-111.
31. Carrington M., Nelson G., O'Brien S.J. Considering genetic profiles in functional studies of immune responsiveness to HIV-1. Immunol Lett. 79:2001;131-140.
32. Knuchel M.C., Spira T.J., Neumann A.U., Xiao L., Rudolph D.L., Phair J., Wolinsky S.M., Koup R.A., Cohen O.J., Folks T.M., Lal R.B. Analysis of a biallelic polymorphism in the tumor necrosis factor alpha promoter and HIV type 1 disease progression. AIDS Res Hum Retroviruses. 14:1998;305-309.
33. Garred P., Madsen H.O., Balslev U., Hofmann B., Pedersen C., Gerstoft J., Svejgaard A. Susceptibility to HIV infection and progression of AIDS in relation to variant alleles of mannose-binding lectin. Lancet. 349:1997;236-240.
34. Tang J., Costello C., Keet I.P., Rivers C., Leblanc S., Karita E., Allen S., Kaslow R.A. HLA class I homozygosity accelerates disease progression in human immunodeficiency virus type 1 infection. AIDS Res Hum Retroviruses. 15:1999;317-324.