Abstract
Molecular variants of polymorphic drug metabolizing enzymes and drug transporters are attributed to differences in individual’s therapeutic response and drug toxicity in different populations. We sought to determine the genotype and allele frequencies of polymorphisms for major phase II drug-metabolizing enzymes (TPMT, UGT1A1) and drug transporter (MDR1) in South Indians. Allelic variants of TPMT (*2,*3A,*3B,*3C & *8), UGT1A1 (TA)6>7 and MDR1 (2677G>T/A & 3435C>T) were evaluated in 450–608 healthy South Indian subjects. Genomic DNA was extracted by phenol–chloroform method and genotype was determined by PCR–RFLP, qRT-PCR, allele specific PCR, direct sequencing and SNaPshot techniques. The frequency distributions of TPMT, UGT1A1 and MDR1 gene polymorphisms were compared between the individual 4 South Indian populations viz., Tamilian, Kannadiga, Andhrite and Keralite. The combined frequency distribution of the South Indian populations together, was also compared with that of other major populations. The allele frequencies of TPMT*3C, UGT1A1 (TA)7, MDR1 2677T, 2677A and 3435T were 1.2, 39.8, 60.3, 3.7, and 61.6% respectively. The other variant alleles such as TPMT*2, *3A, *3B and *8 were not identified in the South Indian population. Sub-population analysis showed that the distribution of UGT1A1 (TA)6>7 and MDR1 allelic variants differed between the four ethnic groups. However, the frequencies of TPMT*3C allele were similar in the four South Indian populations. The distribution of TPMT, UGT1A1 and MDR1 gene polymorphisms of the South Indian population was significantly different from other populations.
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References
Krynetski EY, Tai HL, Yates CR, Fessing MY, Loennechen T, Schuetz JD et al (1996) Genetic polymorphism of thiopurine S-methyltransferase: clinical importance and molecular mechanisms. Pharmacogenetics 6:279–290
Sahasranaman S, Howard D, Roy S (2008) Clinical pharmacology and pharmacogenetics of thiopurines. Eur J Clin Pharmacol 64:753–767
Lennard L, Van Loon JA, Weinshilboum RM (1989) Pharmacogenetics of acute azathioprine toxicity: relationship to thiopurine methyltransferase genetic polymorphism. Clin Pharmacol Ther 46:149–154
Seki T, Tanaka T, Nakamura Y (2000) Genomic structure and multiple single nucleotide polymorphisms (SNPs) of the thiopurine S-methyltransferase (TPMT) gene. J Hum Genet 45:299–302
Schulz C, Boeck S, Heinemann V, Stemmler HJ (2009) UGT1A1 genotyping: a predictor of irinotecan-associated side effects and drug efficacy? Anticancer Drugs 20:867–879
Guillemette C, Millikan RC, Newman B, Housman DE (2000) Genetic polymorphisms in uridine diphospho-glucuronosyltransferase 1A1 and association with breast cancer among African Americans. Cancer Res 60:950–956
Balram C, Sabapathy K, Fei G, Khoo KS, Lee EJ (2002) Genetic polymorphisms of UDP-glucuronosyltransferase in Asians: UGT1A1*28 is a common allele in Indians. Pharmacogenetics 12:81–83
Zhang A, Xing Q, Qin S, Du J, Wang L, Yu L et al (2007) Intra-ethnic differences in genetic variants of the UGT-glucuronosyltransferase 1A1 gene in Chinese populations. Pharmacogenomics J 7:333–338
Pacheco PR, Brilhante MJ, Ballart C, Sigalat F, Polena H, Cabral R et al (2009) UGT1A1, UGT1A6 and UGT1A7 genetic analysis: repercussion for irinotecan pharmacogenetics in the Sao Miguel Island Population (Azores, Portugal). Mol Diagn Ther 13:261–268
Kohle C, Mohrle B, Munzel PA, Schwab M, Wernet D, Badary OA et al (2003) Frequent co-occurrence of the TATA box mutation associated with Gilbert’s syndrome (UGT1A1*28) with other polymorphisms of the UDP-glucuronosyltransferase-1 locus (UGT1A6*2 and UGT1A7*3) in Caucasians and Egyptians. Biochem Pharmacol 65:1521–1527
Lacko M, Roelofs HM, Te Morsche RH, Voogd AC, Oude Ophuis MB, Peters WH et al (2010) Genetic polymorphism in the conjugating enzyme UGT1A1 and the risk of head and neck cancer. Int J Cancer 127:2815–2821
Sharom FJ (2008) ABC multidrug transporters: structure, function and role in chemo resistance. Pharmacogenomics 9:105–127
Fung KL, Gottesman MM (2009) A synonymous polymorphism in a common MDR1 (ABCB1) haplotype shapes protein function. Biochim Biophys Acta 1794:860–871
Cizmarikova M, Wagnerova M, Schonova L, Habalova V, Kohut A, Linkova A et al (2010) MDR1 (C3435T) polymorphism: relation to the risk of breast cancer and therapeutic outcome. Pharmacogenomics J 10:62–69
Zschiedrich K, Konig IR, Bruggemann N, Kock N, Kasten M, Leenders KL et al (2009) MDR1 variants and risk of Parkinson disease. Association with pesticide exposure? J Neurol 256:115–120
Ramasamy K, Sisy Sam S, Chandrasekaran A (2006) Allele and genotype frequency of MDR1 C3435T in Tamilian population. Drug Metab Pharmacokinet 21:506–508
Kapoor G, Maitra A, Somlata, Brahmachari V (2009) Application of SNaPshot for analysis of thiopurine methyltransferase gene polymorphism. Indian J Med Res 129:500–505
Juyal G, Midha V, Amre D, Sood A, Seidman E, Thelma BK (2009) Associations between common variants in the MDR1 (ABCB1) gene and ulcerative colitis among North Indians. Pharmacogenet Genomics 19:77–85
Ameyaw MM, Collie-Duguid ES, Powrie RH, Ofori-Adjei D, McLeod HL (1999) Thiopurine methyltransferase alleles in British and Ghanaian populations. Hum Mol Genet 8:367–370
Lu HF, Shih MC, Chang YS, Chang JY, Ko YC, Chang SJ et al (2006) Molecular analysis of thiopurine S-methyltransferase alleles in Taiwan aborigines and Taiwanese. J Clin Pharm Ther 31:93–98
Hakooz N, Arafat T, Payne D, Ollier W, Pushpakom S, Andrews J et al (2010) Genetic analysis of thiopurine methyltransferase polymorphism in the Jordanian population. Eur J Clin Pharmacol 66:999–1003
Girard H, Butler LM, Villeneuve L, Millikan RC, Sinha R, Sandler RS et al (2008) UGT1A1 and UGT1A9 functional variants, meat intake, and colon cancer, among Caucasians and African-Americans. Mutat Res 644:56–63
Peters WH, te Morsche RH, Roelofs HM (2003) Combined polymorphisms in UDP-glucuronosyltransferases 1A1 and 1A6: implications for patients with Gilbert’s syndrome. J Hepatol 38:3–8
Tsezou A, Tzetis M, Giannatou E, Spanos I, Roma E, Fretzayas A et al (2009) Gilbert syndrome as a predisposing factor for cholelithiasis risk in the Greek adult population. Genet Test Mol Biomarkers 13:143–146
Ostanek B, Furlan D, Mavec T, Lukac-Bajalo J (2007) UGT1A1(TA)n promoter polymorphism–a new case of a (TA)8 allele in Caucasians. Blood Cells Mol Dis 38:78–82
Marinkovic N, Pasalic D, Grskovic B, Ferencak G, Honovic L, Rukavina AS (2008) Genotype frequencies of UDP-glucuronosyltransferase 1A1 promoter gene polymorphism in the population of healthy Croatian pre-scholars. Coll Antropol 32:725–729
Lingenhel A, Kollerits B, Schwaiger JP, Hunt SC, Gress R, Hopkins PN et al (2008) Serum bilirubin levels, UGT1A1 polymorphisms and risk for coronary artery disease. Exp Gerontol 43:1102–1107
Bosma PJ, van der Meer IM, Bakker CT, Hofman A, Paul-Abrahamse M, Witteman JC (2003) UGT1A1*28 allele and coronary heart disease: the Rotterdam study. Clin Chem 49:1180–1181
Guillemette C, De Vivo I, Hankinson SE, Haiman CA, Spiegelman D, Housman DE et al (2001) Association of genetic polymorphisms in UGT1A1 with breast cancer and plasma hormone levels. Cancer Epidemiol Biomarkers Prev 10:711–714
Saracino MR, Bigler J, Schwarz Y, Chang JL, Li S, Li L et al (2009) Citrus fruit intake is associated with lower serum bilirubin concentration among women with the UGT1A1*28 polymorphism. J Nutr 139:555–560
Gajdos V, Petit FM, Perret C, Mollet-Boudjemline A, Colin P, Capel L et al (2006) Further evidence that the UGT1A1*28 allele is not associated with coronary heart disease: the ECTIM Study. Clin Chem 52:2313–2314
Abnet CC, Fagundes RB, Strickland PT, Kamangar F, Roth MJ, Taylor PR et al (2007) The influence of genetic polymorphisms in Ahr, CYP1A1, CYP1A2, CYP1B1, GST M1, GST T1 and UGT1A1 on urine 1-hydroxypyrene glucuronide concentrations in healthy subjects from Rio Grande do Sul, Brazil. Carcinogenesis 28:112–117
Adegoke OJ, Shu XO, Gao YT, Cai Q, Breyer J, Smith J et al (2004) Genetic polymorphisms in uridine diphospho-glucuronosyltransferase 1A1 (UGT1A1) and risk of breast cancer. Breast Cancer Res Treat 85:239–245
Teng HC, Huang MJ, Tang KS, Yang SS, Tseng CS, Huang CS (2007) Combined UGT1A1 and UGT1A7 variant alleles are associated with increased risk of Gilbert’s syndrome in Taiwanese adults. Clin Genet 72:321–328
Allabi AC, Horsmans Y, Issaoui B, Gala JL (2005) Single nucleotide polymorphisms of ABCB1 (MDR1) gene and distinct haplotype profile in a West Black African population. Eur J Clin Pharmacol 61:97–102
Xu P, Jiang ZP, Zhang BK, Tu JY, Li HD (2008) Impact of MDR1 haplotypes derived from C1236T, G2677T/A and C3435T on the pharmacokinetics of single-dose oral digoxin in healthy Chinese volunteers. Pharmacology 82:221–227
Ameyaw MM, Regateiro F, Li T, Liu X, Tariq M, Mobarek A et al (2001) MDR1 pharmacogenetics: frequency of the C3435T mutation in exon 26 is significantly influenced by ethnicity. Pharmacogenetics 11:217–221
Reich D, Thangaraj K, Patterson N, Price AL, Singh L (2009) Reconstructing Indian population history. Nature 461:489–494
Indian Genome Variation Consortium (2008) Genetic landscape of the people of India: a canvas for disease gene exploration. J Genet 87:3–20
Kubota T, Chiba K (2001) Frequencies of thiopurine S-methyltransferase mutant alleles (TPMT*2, *3A, *3B and *3C) in 151 healthy Japanese subjects and the inheritance of TPMT*3C in the family of a propositus. Br J Clin Pharmacol 51:475–477
Rossino R, Vincis C, Alves S, Prata MJ, Macis MD, Nucaro AL et al (2006) Frequency of the thiopurine S-methyltransferase alleles in the ancient genetic population isolate of Sardinia. J Clin Pharm Ther 31:283–287
Zhang JP, Zhou SF, Chen X, Huang M (2006) Determination of intra-ethnic differences in the polymorphisms of thiopurine S-methyltransferase in Chinese. Clin Chim Acta 365:337–341
Lu HF, Shih MC, Hsueh SC, Chen CM, Chang JY, Chang JG (2005) Molecular analysis of the thiopurine S-methyltransferase alleles in Bolivians and Tibetans. J Clin Pharm Ther 30:491–496
Slanar O, Bortlik M, Buzkova H, Donoval R, Pechandova K, Sebesta I et al (2008) Polymorphisms of the TPMT gene in the Czech healthy population and patients with inflammatory bowel disease. Nucleosides Nucleotides Nucleic Acids 27:835–838
Corominas H, Domenech M, Gonzalez D, Diaz C, Roca M, Garcia-Gonzalez MA et al (2000) Allelic variants of the thiopurine S-methyltransferase deficiency in patients with ulcerative colitis and in healthy controls. Am J Gastroenterol 95:2313–2317
Tamm R, Oselin K, Kallassalu K, Magi R, Anier K, Remm M et al (2008) Thiopurine S-methyltransferase (TPMT) pharmacogenetics: three new mutations and haplotype analysis in the Estonian population. Clin Chem Lab Med 46:974–979
Alves S, Rocha J, Amorim A, Prata MJ (2004) Tracing the origin of the most common thiopurine methyltransferase (TPMT) variants: preliminary data from the patterns of haplotypic association with two CA repeats. Ann Hum Genet 68:313–323
Luis Alvarez L, Mauricio Venegas S, Milton Larrondo L, Natalia Becerra B, Ariel Castro L, Rodrigo Quera P (2009) Thiopurine S-methyltransferase gene polymorphism in Chilean blood donors. Rev Med Chile 137:185–192
Bahari A, Hashemi M, Bari Z, Moazeni-Roodi A, Kaykhaei MA, Narouie B (2010) Frequency of thiopurine S-methyltransferase (TPMT) alleles in southeast Iranian population. Nucleosides Nucleotides Nucleic Acids 29:237–244
Samochatova EV, Chupova NV, Rudneva A, Makarova O, Nasedkina TV, Fedorova OE et al (2009) TPMT genetic variations in populations of the Russian Federation. Pediatr Blood Cancer 52:203–208
Sayutoulu MA, Yildiz U, Hatirnaz O, Ozbek U (2006) Common Cytochrome p4503A (CYP3A4 and CYP3A5) and Thiopurine S-Methyl Transferase (TPMT) Polymorphisms In Turkish Population. Turk J Med Sci 36:11–15
Huo D, Kim HJ, Adebamowo CA, Ogundiran TO, Akang EE, Campbell O et al (2008) Genetic polymorphisms in uridine diphospho-glucuronosyltransferase 1A1 and breast cancer risk in Africans. Breast Cancer Res Treat 110:367–376
Zhang Y, Jiang XH, Hu YQ, Li ZR, Su L, Wang ZG et al (2008) MDR1 genotypes do not influence the absorption of a single oral dose of 600 mg valacyclovir in healthy Chinese Han ethnic males. Br J Clin Pharmacol 66:247–254
Osuga T, Sakaeda T, Nakamura T, Yamada T, Koyama T, Tamura T et al (2006) MDR1 C3435T polymorphism is predictive of later onset of ulcerative colitis in Japanese. Biol Pharm Bull 29:324–329
Scheiner MA, Damasceno AM, Maia RC (2010) ABCB1 single nucleotide polymorphisms in the Brazilian population. Mol Biol Rep 37:111–118
Kim HJ, Hwang SY, Kim JH, Park HJ, Lee SG, Lee SW et al (2009) Association between Genetic Polymorphism of Multidrug Resistance 1 Gene and Sasang Constitutions. Evid Based Complement Alternat Med 6(Suppl 1):73–80
Onnie CM, Fisher SA, Pattni R, Sanderson J, Forbes A, Lewis CM et al (2006) Associations of allelic variants of the multidrug resistance gene (ABCB1 or MDR1) and inflammatory bowel disease and their effects on disease behavior: a case-control and meta-analysis study. Inflamm Bowel Dis 12:263–271
Petrova DT, Nedeva P, Maslyankov S, Toshev S, Yaramov N, Atanasova S et al (2008) No association between MDR1 (ABCB1) 2677G>T and 3435C>T polymorphism and sporadic colorectal cancer among Bulgarian patients. J Cancer Res Clin Oncol 134:317–322
Jeannesson E, Albertini L, Siest G, Gomes AM, Ribeiro V, Aslanidis C et al (2007) Determination of ABCB1 polymorphisms and haplotypes frequencies in a French population. Fundam Clin Pharmacol 21:411–418
Fiedler T, Buning C, Reuter W, Pitre G, Gentz E, Schmidt HH et al (2007) Possible role of MDR1 two-locus genotypes for young-age onset ulcerative colitis but not Crohn’s disease. Eur J Clin Pharmacol 63:917–925
Fischer S, Lakatos PL, Lakatos L, Kovacs A, Molnar T, Altorjay I et al (2007) ATP-binding cassette transporter ABCG2 (BCRP) and ABCB1 (MDR1) variants are not associated with disease susceptibility, disease phenotype response to medical therapy or need for surgeryin Hungarian patients with inflammatory bowel diseases. Scand J Gastroenterol 42:726–733
Penna G, Allegra A, Alonci A, Aguennouz M, Garufi A, Cannavo A et al (2010) MDR-1 polymorphisms (G2677T and C3435T) in B-chronic lymphocytic leukemia: an impact on susceptibility and prognosis. Med Oncol. doi:10.1007/s1203201095619
Krivulcik T, Sedlak J, Bartosova Z (2009) Frequency of the three most common polymorphisms in the MDR1 gene in Slovak population. Neoplasma 56:101–107
Potocnik U, Glavac D, Dean M (2008) Common germline MDR1/ABCB1 functional polymorphisms and haplotypes modify susceptibility to colorectal cancers with high microsatellite instability. Cancer Genet Cytogenet 183:28–34
Green H, Soderkvist P, Rosenberg P, Horvath G, Peterson C (2006) mdr-1 single nucleotide polymorphisms in ovarian cancer tissue: G2677T/A correlates with response to paclitaxel chemotherapy. Clin Cancer Res 12:854–859
Kimchi-Sarfaty C, Marple AH, Shinar S, Kimchi AM, Scavo D, Roma MI et al (2007) Ethnicity-related polymorphisms and haplotypes in the human ABCB1 gene. Pharmacogenomics 8:29–39
Vicente J, Sinues B, Fanlo A, Vasquez P, Medina JC, Martinez-Jarreta B (2008) Polymorphism C3435T of the MDR1 gene in Central Americans and Spaniards. Mol Biol Rep 35:473–478
Lee BI, Choi KY, Lee KM, Chung WC, Kim BW, Choi H et al (2006) Is C3435T polymorphism of MDR1 related to inflammatory bowel disease or colorectal cancer in Korean? Korean J Gastroenterol 47:22–29
Veiga MI, Asimus S, Ferreira PE, Martins JP, Cavaco I, Ribeiro V et al (2009) Pharmacogenomics of CYP2A6, CYP2B6, CYP2C19, CYP2D6, CYP3A4, CYP3A5 and MDR1 in Vietnam. Eur J Clin Pharmacol 65:355–363
Krupoves A, Seidman EG, Mack D, Israel D, Morgan K, Lambrette P et al (2009) Associations between ABCB1/MDR1 gene polymorphisms and Crohn’s disease: a gene-wide study in a pediatric population. Inflamm Bowel Dis 15:900–908
Hilli J, Rane A, Lundgren S, Bertilsson L, Laine K (2007) Genetic polymorphism of cytochrome P450s and P-glycoprotein in the Finnish population. Fundam Clin Pharmacol 21:379–386
Ardizzone S, Maconi G, Bianchi V, Russo A, Colombo E, Cassinotti A et al (2007) Multidrug resistance 1 gene polymorphism and susceptibility to inflammatory bowel disease. Inflamm Bowel Dis 13:516–523
Drozdzik M, Stefankiewicz J, Kurzawa R, Gornik W, Baczkowski T, Kurzawski M (2009) Association of the MDR1 (ABCB1) gene 3435C>T polymorphism with male infertility. Pharmacol Rep 61:690–696
Henriquez-Hernandez LA, Murias-Rosales A, Hernandez Gonzalez A, Cabrera De Leon A, Diaz-Chico BN, Mori De Santiago M et al (2009) Gene polymorphisms in TYMS, MTHFR, p53 and MDR1 as risk factors for breast cancer: a case-control study. Oncol Rep 22:1425–1433
Acknowledgements
The study was funded by Indian Council of Medical Research (ICMR), New Delhi, India. The authors thank Ms. G. Saraswathy and Ms. S. Indhumathy for excellent technical assistance and Mrs. K. Yogalaksmi for collection and storage of blood samples. We are grateful to Dr. A. Surendiran and Mrs. M. Aarthi for assistance in language editing. Finally the effort of Mr. S. Kamalprashad during the initial stage of the study is highly appreciated.
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Umamaheswaran, G., Krishna Kumar, D., Kayathiri, D. et al. Inter and intra-ethnic differences in the distribution of the molecular variants of TPMT, UGT1A1 and MDR1 genes in the South Indian population. Mol Biol Rep 39, 6343–6351 (2012). https://doi.org/10.1007/s11033-012-1456-8
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DOI: https://doi.org/10.1007/s11033-012-1456-8