Genetic Polymorphisms of Pharmacogenomic VIP Variants in the Lisu Population of Southwestern China: A Cohort Study

Overview

Journal Medicine (Baltimore)

Specialty General Medicine

Date 2018 Sep 22

PMID 30235667

Authors

Bin Li

Li Wang

Lingyu Lei

Mingxiang Zhang

Fanglin Niu

Peng Chen

Tianbo Jin

Affiliations

Soon will be listed here.

Abstract

Pharmacogenomic studies of different ethnic or racial groups have been used to develop personalized therapies specific to subjects. This study aimed to identify the distribution differences of very important pharmacogenetic (VIP) variants between the Lisu population from southwestern China and other ethnic groups.Eighty VIP variants in 37 genes were selected from the pharmacogenomic knowledge base (PharmGKB), and compared with genotype data of the Lisu population then compared with other 11 populations from the HapMap dataset and previously published data including Miao, Li, Deng, Sherpa, Lhoba, Tibetan, Kirghiz, Tajik, Mongol, Shaanxi Han ethnic, and Uygur populations.VDR rs1540339, MTHFR rs1801131, P2RY1 rs701265, and PTGS2 rs689466 were significantly different between Lisu and 11 HapMap populations. ANKK1 rs1800497 was the least statistical significant locus among selected single nucleotide polymorphisms. In addition, genetic background of Lisu was strongly closest to Shaanxi Han ethnic cohort, and followed by Chinese in metropolitan Denver population based on population structure and F-statistics analyses.Our results showed significant interethnic differences between Lisu and other populations, which will give useful information for prospective studies and better individualized treatments.

References

Zhang X, Miao X, Tan W, Ning B, Liu Z, Hong Y . Identification of functional genetic variants in cyclooxygenase-2 and their association with risk of esophageal cancer. Gastroenterology. 2005; 129(2):565-76. DOI: 10.1016/j.gastro.2005.05.003. View

Yunus Z, Liu L, Wang H, Zhang L, Li X, Geng T . Genetic polymorphisms of pharmacogenomic VIP variants in the Kyrgyz population from northwest China. Gene. 2013; 529(1):88-93. DOI: 10.1016/j.gene.2013.07.078. View

McLeod H, Krynetski E, Relling M, Evans W . Genetic polymorphism of thiopurine methyltransferase and its clinical relevance for childhood acute lymphoblastic leukemia. Leukemia. 2000; 14(4):567-72. DOI: 10.1038/sj.leu.2401723. View

Shi X, Wang L, Du S, Wang H, Feng T, Jin T . Genetic polymorphism of pharmacogenomic VIP variants in the Deng people from the Himalayas in Southeast Tibet. Biomarkers. 2015; 20(5):275-86. DOI: 10.3109/1354750X.2015.1068859. View

Etienne M, Formento J, Chazal M, Francoual M, Magne N, Formento P . Methylenetetrahydrofolate reductase gene polymorphisms and response to fluorouracil-based treatment in advanced colorectal cancer patients. Pharmacogenetics. 2004; 14(12):785-92. DOI: 10.1097/00008571-200412000-00001. View

Kuehl P, Zhang J, Lin Y, Lamba J, Assem M, Schuetz J . Sequence diversity in CYP3A promoters and characterization of the genetic basis of polymorphic CYP3A5 expression. Nat Genet. 2001; 27(4):383-91. DOI: 10.1038/86882. View

Wang L, Aikemu A, Yibulayin A, Du S, Geng T, Wang B . Genetic polymorphisms of pharmacogenomic VIP variants in the Uygur population from northwestern China. BMC Genet. 2015; 16:66. PMC: 4475291. DOI: 10.1186/s12863-015-0232-x. View

Poon A, Laprise C, Lemire M, Montpetit A, Sinnett D, Schurr E . Association of vitamin D receptor genetic variants with susceptibility to asthma and atopy. Am J Respir Crit Care Med. 2004; 170(9):967-73. DOI: 10.1164/rccm.200403-412OC. View

Lordkipanidze M, Diodati J, Palisaitis D, Schampaert E, Turgeon J, Pharand C . Genetic determinants of response to aspirin: appraisal of 4 candidate genes. Thromb Res. 2011; 128(1):47-53. DOI: 10.1016/j.thromres.2011.02.019. View

10.

Zhao D, Yu D, Ren Q, Dong B, Zhao F, Sun Y . Association of vitamin D receptor gene polymorphisms with susceptibility to childhood asthma: A meta-analysis. Pediatr Pulmonol. 2016; 52(4):423-429. DOI: 10.1002/ppul.23548. View

11.

Behar D, Yunusbayev B, Metspalu M, Metspalu E, Rosset S, Parik J . The genome-wide structure of the Jewish people. Nature. 2010; 466(7303):238-42. DOI: 10.1038/nature09103. View

12.

de Azevedo Silva J, Guimaraes R, Brandao L, Araujo J, Segat L, Crovella S . Vitamin D receptor (VDR) gene polymorphisms and age onset in type 1 diabetes mellitus. Autoimmunity. 2013; 46(6):382-7. DOI: 10.3109/08916934.2013.795952. View

13.

Jin T, Xun X, Shi X, Yuan D, Feng T, Geng T . Genetic polymorphisms in very important pharmacogenomic (VIP) variants in the Tibetan population. Genet Mol Res. 2015; 14(4):12497-504. DOI: 10.4238/2015.October.16.17. View

14.

Wang S, Lewis C, Jakobsson M, Ramachandran S, Ray N, Bedoya G . Genetic variation and population structure in native Americans. PLoS Genet. 2007; 3(11):e185. PMC: 2082466. DOI: 10.1371/journal.pgen.0030185. View

15.

Huang R, Duan S, Kistner E, Zhang W, Bleibel W, Cox N . Identification of genetic variants and gene expression relationships associated with pharmacogenes in humans. Pharmacogenet Genomics. 2008; 18(6):545-9. PMC: 2567052. DOI: 10.1097/FPC.0b013e3282fe1745. View

16.

Phan V, Tan C, Rittau A, Xu H, McLachlan A, Clarke S . An update on ethnic differences in drug metabolism and toxicity from anti-cancer drugs. Expert Opin Drug Metab Toxicol. 2011; 7(11):1395-410. DOI: 10.1517/17425255.2011.624513. View

17.

Smith L, Watson M, Gates S, Ball D, Foxcroft D . Meta-analysis of the association of the Taq1A polymorphism with the risk of alcohol dependency: a HuGE gene-disease association review. Am J Epidemiol. 2007; 167(2):125-38. DOI: 10.1093/aje/kwm281. View

18.

Hu W, Lu J, Lei Y, Chen B, Tang W, Cun Y . HLA-DPB1 allelic frequency of the Lisu ethnic group in the Southwest China and evolutionary relationship of Lisu with other populations. Tissue Antigens. 2005; 65(3):289-92. DOI: 10.1111/j.1399-0039.2005.00361.x. View

19.

Ding Y, He P, He N, Li Q, Sun J, Yao J . Genetic polymorphisms of pharmacogenomic VIP variants in Li nationality of southern China. Environ Toxicol Pharmacol. 2016; 42:237-42. DOI: 10.1016/j.etap.2016.02.003. View

20.

Hughes L, Beasley T, Patel H, Tiwari H, Morgan S, Baggott J . Racial or ethnic differences in allele frequencies of single-nucleotide polymorphisms in the methylenetetrahydrofolate reductase gene and their influence on response to methotrexate in rheumatoid arthritis. Ann Rheum Dis. 2006; 65(9):1213-8. PMC: 1798268. DOI: 10.1136/ard.2005.046797. View