Worldwide haplotype diversity and coding sequence variation at human bitter taste receptor loci

Human Mutation

Volumn 26, Issue 3, 2005, Pages 199-204

  Kim, Unkyung ^a   Wooding, Stephen ^c   Ricci, Dante ^b   Jorde, Lynn B ^c   Drayna, Dennis ^b,d  

^a Kyungpook National University   (South Korea)

^b NATIONAL INSTITUTE ON DEAFNESS AND OTHER COMMUNICATION DISORDERS   (United States)

^c UNIVERSITY OF UTAH SCHOOL OF MEDICINE   (United States)

^d NATIONAL INSTITUTES OF HEALTH   (United States)

Author keywords

Bitter taste; cSNP; Haplotypes; Natural selection; TAS2R

Indexed keywords

AMINO ACID; PHENYLTHIOUREA;

ALLELE; AMINO ACID SUBSTITUTION; ARTICLE; BITTER TASTE; GENE FREQUENCY; GENE LOCUS; GENETIC CODE; GENETIC VARIABILITY; HAPLOTYPE; HUMAN; MOLECULAR RECOGNITION; MULTIGENE FAMILY; PRIORITY JOURNAL; TAS2R GENE;

ALLELES; HAPLOTYPES; HUMANS; LIGANDS; POLYMORPHISM, SINGLE NUCLEOTIDE; RECEPTORS, CELL SURFACE; SELECTION (GENETICS); SEQUENCE ANALYSIS, DNA; TASTE; TASTE BUDS; VARIATION (GENETICS);

EID: 24344435450     PISSN: 10597794     EISSN: None     Source Type: Journal    
DOI: 10.1002/humu.20203     Document Type: Article

References (33)

1. Abecasis GR, Cookson WO. 2000. GOLD-graphical overview of linkage disequilibrium. Bioinformatics 16:182-183.
2. Adler E, Hoon MA, Mueller KL, Chandrashekar J, Ryba NJ, Zuker CS. 2000. A novel family of mammalian taste receptors. Cell 100:693-702.
3. Akey JM, Zhang G, Zhang K, Jin L, Shriver MD. 2002. Interrogating a high-density SNP map for signatures of natural selection. Genome Res 12:1805-1814.
4. Bamshad M, Wooding SP. 2003. Signatures of natural selection in the human genome. Nat Rev Genet 4:99-111.
5. Behrens M, Brockhoff A, Kuhn C, Bufe B, Winnig M, Meyerhof W. 2004. The human taste receptor hTAS2R14 responds to a variety of different bitter compounds. Biochem Biophys Res Commun 319:479-485.
6. Berenbaum MR, Robinson GE. 2003. Chemical communication in a post-genomic world. Proc Natl Acad Sci USA 100(Suppl 2):14513.
7. Bufe B, Hofmann T, Krautwurst D, Raguse JD, Meyerhof W. 2002. The human TAS2R16 receptor mediates bitter taste in response to beta-glucopyranosides. Nat Genet 32:397-401.
8. Coley PD, Barone JA. 1996. Herbivory and plant defenses in tropical forests. Ann Rev Ecol Syst 27:305-335.
9. Drewnowski A, Gomez-Carneros C. 2000. Bitter taste, phytonutrients, and the consumer: a review. Am J Clin Nutr 72:1424-1435.
10. Gilad Y, Rosenberg S, Przeworski M, Lancet D, Skorecki K. 2002. Evidence for positive selection and population structure at the human MAO-A gene. Proc Natl Acad Sci USA 99:862-867.
11. Gilad Y, Lancet D. 2003. Population differences in the human functional olfactory repertoire. Mol Biol Evol 20:307-314.
12. Grantham R. 1974. Amino acid difference formula to help explain protein evolution. Science 185:862-864.
13. Hamblin MT, Thompson EE, Di Rienzo A. 2002. Complex signatures of natural selection at the Duffy blood group locus. Am J Hum Genet 70:369-383.
14. Hartl DL, Clark AG. 1997. Principles of population genetics. Sunderland, MA: Sinauer Associates.
15. Hollox EJ, Poulter M, Zvarik M, Ferak V, Krause A, Jenkins T, Saha N, Kozlov AI, Swallow DM. 2001. Lactase haplotype diversity in the Old World. Am J Hum Genet 68:160-172.
16. Kim UK, Jorgenson E, Coon H, Leppert M, Risch N, Drayna D. 2003. Positional cloning of the human quantitative trait locus underlying taste sensitivity to phenylthiocarbamide. Science 299:1221-1225.
17. Kim UK, Breslin PA, Reed D, Drayna D. 2004. Genetics of human taste perception. J Den Res 83:448-453.
18. Li WH, Wu CI, Luo CC. 1984. Nonrandomness of point mutation as reflected in nucleotide substitutions in pseudogenes and its evolutionary implications. J Mol Evol 21:58-71.
19. Li WH, Wu CI, Luo CC. 1985. A new method for estimating synonymous and nonsynonymous rates of nucleotide substitution considering the relative likelihood of nucleotide and codon changes. Mol Biol Evol 2:150-174.
20. Menashe I, Man O, Lancet D, Gilad Y. 2002. Population differences in haplotype structure within a human olfactory receptor gene cluster. Hum Mol Genet 11:1381-1390.
21. Nekrutenko A, Makova KD, Li WH. 2002. The K(A)/K(S) ratio test for assessing the protein-coding potential of genomic regions: an empirical and simulation study. Genome Res 12:198-202.
22. Rana BK, Hewett-Emmett D, Jin L, Chang BH, Sambuughin N, Lin M, Watkins S, Bamshad M, Jorde LB, Ramsay M, Jenkins T, Li WH. 1999. High polymorphism at the human melanocortin 1 receptor locus. Genetics 151:1547-1557.
23. Sachidanandam R, Weissman D, Schmidt SC, Kakol JM, Stein LD, Marth G, Sherry S, Mullikin JC, Mortimore BJ, Willey DL, Hunt SE, Cole CG, Coggil PC, Rice CM, Ning Z, Rogers J, Bentley DR, Kwok PY, Mardis ER, Yeh RT, Schultz B, Cook L, Davenport R, Dante M, Fulton L, Hillier L, Waterston RH, McPherson JD, Gilman B, Schaffner S, Van Etten WJ, Reich D, Higgins J, Daly MJ, Blumenstiel B, Baldwin J, Stange-Thomann N, Zody MC, Linton L, Lander ES, Altshuler D, International SNP Map Working Group. 2001. A map of human genome sequence variation containing 1.42 million single nucleotide polymorphisms. Nature 409:928-933.
24. Schneider JA, Pungliya MS, Choi JY, Jiang R, Sun XJ, Salisbury BA, Stephens JC. 2003. DNA variability of human genes. Mech Ageing Dev 124:17-25.
25. Shi P, Zhang J, Yang H, Zhang YP. 2003. Adaptive diversification of bitter taste receptor genes in Mammalian evolution. Mol Biol Evol 20:805-814.
26. ST in a hierarchical island model. Genetics 127:627-629.
27. Stephens M, Smith NJ, Donnelly P. 2001. A new statistical method for haplotype reconstruction from population data. Am J Hum Genet 68:978-989.
28. Stephens M, Donnelly P. 2003. A comparison of Bayesian methods for haplotype reconstruction from population genotype data. Am J Hum Genet 73:1162-1169.
29. Tepper BJ. 1998. 6-n-Propylthiouracil: a genetic marker for taste, with implications for food preference and dietary habits. Am J Hum Genet 63:1271-1276.
30. Tishkoff SA, Varkonyi R, Cahinhinan N, Abbes S, Argyropoulos G, Destro-Bisol G, Drousiotou A, Dangerfield B, Lefranc G, Loiselet J, Piro A, Stoneking M, Tagarelli A, Tagarelli G, Toumah EH, Williams SM, Clark AG. 2001. Haplotype diversity and linkage disequilibrium at human G6PD: recent origin of alleles that confer malarial resistance. Science 293:455-462.
31. Tishkoff SA, Verrelli BC. 2003. Patterns of human genetic diversity: implications for human evolutionary history and disease. Annu Rev Genomics Hum Genet 4:293-340.
32. Wang X, Thomas SD, Zhang J. 2004. Relaxation of selective constraint and loss of function in the evolution of human bitter taste receptor genes. Hum Mol Genet 13:2671-2678.
33. Wooding S, Kim UK, Bamshad MJ, Larsen J, Jorde LB, Drayna D. 2004. Natural selection and molecular evolution in PTC, a bitter-taste receptor gene. Am J Hum Genet 74:637-646.