Evolutionary responses to a constructed niche: Ancient mesoamericans as a model of gene-culture coevolution

PLoS ONE

Volumn 7, Issue 6, 2012, Pages

  Hünemeier, Tábita ^a   Amorim, Carlos Eduardo Guerra ^a   Azevedo, Soledad ^b   Contini, Veronica ^a   Acuña Alonzo, Víctor ^c   Rothhammer, Francisco ^d,e   Dugoujon, Jean Michel ^f   Mazières, Stephane ^g   Barrantes, Ramiro ^h   Villarreal Molina, María Teresa ⁱ   Paixão Côrtes, Vanessa Rodrigues ^a   Salzano, Francisco M ^a   Canizales Quinteros, Samuel ^j,k   Ruiz Linares, Andres ^l   Bortolini, Maria Cátira ^a  

^a FEDERAL UNIVERSITY OF RIO GRANDE DO SUL   (Brazil)

^b Centro Nacional Patagónico CONICET U9120ACV ^*  (Argentina)

^c INSTITUTO NACIONAL DE ANTROPOLOGÍA E HISTORIA   (Mexico)

^d UNIVERSITY OF CHILE   (Chile)

^e UNIVERSIDAD DE TARAPACÁ   (Chile)

^f UNIVERSITÉ PAUL SABATIER   (France)

^g AIX MARSEILLE UNIVERSITY   (France)

^h UNIVERSIDAD DE COSTA RICA   (Costa Rica)

ⁱ INSTITUTO NACIONAL DE MEDICINA GENÓMICA   (Mexico)

^j INSTITUTO NACIONAL DE CIENCIAS MÉDICAS Y NUTRICIÓN SALVADOR ZUBIRÁN   (Mexico)

^k UNIVERSIDAD NACIONAL AUTÓNOMA DE MÉXICO   (Mexico)

^l UNIVERSITY COLLEGE LONDON   (United Kingdom)

more..

Author keywords

[No Author keywords available]

Indexed keywords

ABC TRANSPORTER A1; ARGININE; CYSTEINE;

ABCA1 GENE; AMERICAN INDIAN; ARCHEOLOGY; ARTICLE; COEVOLUTION; CONTROLLED STUDY; CULTURAL FACTOR; DOMESTICATION; ECOLOGICAL NICHE; GENE; GENE FREQUENCY; GENE LOCUS; GENETIC ANALYSIS; GENETIC ASSOCIATION; GENETIC DRIFT; GENETIC LINKAGE; GENETIC MODEL; GENETIC VARIABILITY; GENOTYPE ENVIRONMENT INTERACTION; HUMAN; MAIZE; NATURAL SELECTION; POPULATION RESEARCH; SINGLE NUCLEOTIDE POLYMORPHISM;

AGRICULTURE; ALLELES; BIOLOGICAL EVOLUTION; CULTURE; ECOSYSTEM; GENE FREQUENCY; GENETIC ASSOCIATION STUDIES; GENETIC LOCI; GENETICS, POPULATION; GENOTYPE; GEOGRAPHY; HUMANS; INDIANS, NORTH AMERICAN; MODELS, BIOLOGICAL; POLLEN; POLYMORPHISM, SINGLE NUCLEOTIDE; RADIOMETRIC DATING; REGRESSION ANALYSIS; ZEA MAYS;

EID: 84862740267     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0038862     Document Type: Article

References (74)

1. Laland KN, Odling-Smee J, Myles S, (2010) How culture shaped the human genome: bringing genetics and the human sciences together. Nat Rev Genet 11: 137-148.
2. Richerson PJ, Boyd R, Henrich J, (2010) Gene-culture coevolution in the age of genomics. Proc Natl Acad Sci USA 107: 8985-8992.
3. Odling-Smee FJ, (1988) Niche construction phenotypes. In: The role of behavior in evolution (ed. H. C. Plotkin), 73-132. Cambridge: MIT Press.
4. Odling-Smee FJ, Laland KN, Feldman MW, (2003) Niche construction: the neglected process in evolution. Monographs in Population Biology 37. Princeton: Princeton Univ. Press.
5. Gerbault P, Liebert A, Itan Y, Powell A, Currat M, et al. (2011) Evolution of lactase persistence: an example of human niche construction. Philos Trans R Soc Lond B Biol Sci 366: 863-877.
6. Rowley-Conwy P, Layton R, (2011) Foraging and farming as niche construction: stable and unstable adaptations. Philos Trans R Soc Lond B Biol Sci 366: 849-862.
7. Holden C, Mace R, (1997) Phylogenetic analysis of the evolution of lactose digestion in adults. Hum Biol 69: 605-628.
8. Bersaglieri T, Sabeti PC, Patterson N, Vanderploeg T, Schaffner S F, et al. (2004) Genetic signatures of strong recent positive selection at the lactase gene. Am J Hum Genet 74: 1111-1120.
9. Voight BF, Kudaravalli S, Wen X, Pritchard JK, (2006) A map of recent positive selection in the human genome. PLoS Biol 4: e72.
10. Tishkoff SA, Reed FA, Ranciaro A, Voight BF, Babbitt CC, et al. (2007) Convergent adaptation of human lactase persistence in Africa and Europe. Nat Genet 39: 31-40.
11. Holden C, Mace R, (1997) Phylogenetic analysis of the evolution of lactose digestion in adults. Hum Biol 81: 597-619.
12. Ingram CJ, Mulcare CA, Itan Y, Thomas MG, Swallow DM, (2009) Lactose digestion and the evolutionary genetics of lactase persistence. Hum Genet 124: 579-591.
13. Itan Y, Jones BL, Ingram CJ, Swallow DM, Thomas MG, (2010) A worldwide correlation of lactase persistence phenotype and genotypes. BMC Evol Biol 10: 36.
14. Lewinsky RH, Jensen T G, Møller J, Stensballe A, Olsen J, et al. (2005) T-13910 DNA variant associated with lactase persistence interacts with Oct-1 and stimulates lactase promoter activity in vitro. Hum Mol Genet 14: 3945-3953.
15. Beja-Pereira A, Luikart G, England PR, Bradley DG, Jann OC, et al. (2003) Gene-culture coevolution between cattle milk protein genes and human lactase genes. Nat Genet 35: 311-313. Erratum in: Nat Genet (2004) 36: 106.
16. Burger J, Kirchner M, Bramanti B, Haak W, Thomas MG, (2007) Absence of the lactase-persistence-associated allele in early Neolithic Europeans. Proc Natl Acad Sci U S A 104: 3736-3741.
17. Livingstone FB, (1958) Anthropological implications of sickle-cell distribution in West Africa. Am Anthropol 60: 533-562.
18. Neel JV, Salzano FM, (1967) Further studies on the Xavante Indians. X. Some hypotheses-generalizations resulting from these studies. Am J Hum Genet 19: 554-574.
19. Hunley KL, Cabana GS, Merriwether DA, Long JC, (2007) A formal test of linguistic and genetic coevolution in native Central and South America. Am J Phys Anthropol 132: 622-631.
20. Kemp BM, González-Oliver A, Malhi RS, Monroe C, Schroeder KB, et al. (2010) Evaluating the Farming/Language Dispersal Hypothesis with genetic variation exhibited by populations in the Southwest and Mesoamerica. Proc Natl Acad Sci USA 107: 6759-6764.
21. Tovo-Rodrigues L, Callegari-Jacques SM, Petzl-Erler ML, Tsuneto L, Salzano FM, et al. (2010) Dopamine receptor D4 allele distribution in Amerindians: a reflection of past behavior differences? Am J Phys Anthropol 143: 458-464.
22. Acuña-Alonzo V, Flores-Dorantes T, Kruit JK, Villarreal-Molina T, Arellano-Campos O, et al. (2010) A functional ABCA1 gene variant is associated with low HDL-cholesterol levels and shows evidence of positive selection in Native Americans. Hum Mol Genet 19: 2877-2885.
23. Romero-Hidalgo S, Villarreal-Molina T, González-Barrios JA, Canizales-Quinteros S, Rodríguez-Arellano ME, et al. (2012) Carbohydrate intake modulates the effect of the ABCA1-R230C variant on HDL cholesterol concentrations in premenopausal women. J Nutr 142: 278-283.
24. Neel JV, (1962) Diabetes mellitus: a 'thrifty' genotype rendered detrimental by 'progress'? Am J Hum Genet 14: 353-362.
25. Bortolini MC, Salzano FM, Bau CH, Layrisse Z, Petzl-Erler ML, et al. (2002) Y-chromosome biallelic polymorphisms and Native American population structure. Ann Hum Genet 66: 255-259.
26. Bortolini MC, Salzano FM, Thomas MG, Stuart S, Nasanen SP, et al. (2003) Y-chromosome evidence for differing ancient demographic histories in the Americas. Am J Hum Genet 73: 524-539.
27. Wang S, Lewis CM, Jakobsson M, Ramachandran S, Ray N, et al. (2007) Genetic variation and population structure in Native Americans. PLoS Genet 3: e185.
28. Mazières S, Guitard E, Crubézy E, Dugoujon JM, Bortolini MC, et al. (2008) Uniparental (mtDNA, Y-chromosome) polymorphisms in French Guiana and two related populations-implications for the region's colonization. Ann Hum Genet 72: 145-156.
29. Mazières S, Sevin A, Callegari-Jacques SM, Crubézy E, Larrouy G, et al. (2009) Population genetic dynamics in the French Guiana region. Am J Hum Biol 21: 113-117.
30. Excoffier L, Lischer HE, (2010) Arlequin suite ver 3.5: a new series of programs to perform population genetics analyses under Linux and Windows. Mol Ecol Resour 10: 564-567.
31. Kimura M, Ohta T, (1973) The age of a neutral mutation persisting in a finite population. Genetics 75: 199-212.
32. González-José R, Bortolini MC, Santos FR, Bonatto SL, (2008) The peopling of America: craniofacial shape variation on a continental scale and its interpretation from an interdisciplinary view. Am J Phys Anthropol 137: 175-187.
33. Slatkin M, Rannala B, (2000) Estimating allele age. Annu Rev Genom Hum Genet 1: 225-249.
34. Rannala B, Reeve JP, (2008) Joint Bayesian estimation of mutation location and age using linkage disequilibrium. Pacific Symp Biocomp 8: 526-534.
35. Sabeti PC, Reich DE, Higgins JM, Levine HZ, Richter DJ, et al. (2002) Detecting recent positive selection in the human genome from haplotype structure. Nature 419: 832-837.
36. Pickrell JK, Coop G, Novembre J, Kudaravalli S, Li JZ, et al. (2009) Signals of recent positive selection in a worldwide sample of human populations. Genome Re 19: 826-837.
37. Excoffier L, Ray N, (2008) Surfing during population expansions promotes genetic revolutions and structuration. Trends Ecol Evol 23: 347-351.
38. Excoffier L, Hofer T, Foll M, (2009) Detecting loci under selection in a hierarchically structured population. Heredity 103: 285-298.
39. Schroeder KB, Jakobsson M, Crawford MH, Schurr TG, Boca SM, et al. (2009) Haplotypic background of a private allele at high frequency in the Americas. Mol Biol Evol 26: 995-1016.
40. Hey J, (2005) On the number of New World founders: a population genetic portrait of the peopling of the Americas. PLoS Biol 3: e193.
41. Pavlidis P, Laurent S, Stephan W, (2010) msABC: a modification of Hudson's ms to facilitate ABC analysis. Mol Ecol Res 10: 723-727.
42. Hudson RR, (2002) Generating samples under a Wright-Fisher neutral model. Bioinformatics 18: 337-338.
43. Wegmann D, Leuenberger C, Neuenschwander S, Excoffier L, (2010) ABCtoolbox: a versatile toolkit for approximate Bayesian computations. BMC Bioinformatics 11: 116.
44. Blake M, (2006) Dating the initial spread of Zea mays. In Histories of maize (eds. J. E Staller, R H Tykot, BF Benz), 55-68. San Diego: Academic Press.
45. Matsuoka Y, Vigouroux Y, Goodman MM, Sanchez JG, Buckler E, et al. (2002) A single domestication for maize shown by multilocus microsatellite genotyping. Proc Natl Acad Sci USA 99: 6080-6084.
46. Dull R, (2006) The maize revolution: a view from El Salvador. In: Histories of maize (eds. J. E Staller, R H Tykot, B F Benz), 357-363. San Diego: Academic Press.
47. Jaenicke-Després VR, Smith BD, (2006) Ancient DNA and the integration of archaeological and genetic approaches to the study of maize domestication. In: Histories of maize (eds. J E Staller, RH Tykot, BF Benz), 83-92. San Diego: Academic Press.
48. Lesure RG, (2008) The Neolithic demographic transition in Mesoamerica? Larger implications of the strategy of relative chronology. In The Neolithic demographic transition and its consequence (eds. JP Bocquet-Appel, O Bar-Yosef), 107-138. New York: Springer.
49. Ranere AJ, Piperno DR, Holst I, Dickau R, Iriarte J, (2009) The cultural and chronological context of early Holocene maize and squash domestication in the Central Balsas River Valley, Mexico. Proc Natl Acad Sci USA 106: 5014-5018.
50. Piperno DR, (2007) Late Pleistocene and Holocene environmental history of the Iguala Valley, Central Balsas Watershed of Mexico. Proc Natl Acad Sci USA 104: 11874-11881.
51. van Heerwaarden J, Doebley J, Briggs WH, Glaubitz JC, Goodman MM, et al. (2011) Genetic signals of origin, spread, and introgression in a large sample of maize landraces. Proc Natl Acad Sci USA 108: 1088-1092.
52. Lia VV, Confalonieri VA, Ratto N, Hernández J A, Alzogaray AM, et al. (2007) Microsatellite typing of ancient maize: insights into the history of agriculture in southern South America. Proc Biol Sci 274: 545-554.
53. Tian F, Stevens NM, Buckler ES 4th (2009) Tracking footprints of maize domestication and evidence for a massive selective sweep on chromosome 10. Proc Natl Acad Sci USA 106: 9979-9986.
54. Ding YC, Chi HC, Grady DL, Morishima A, Kidd JR, et al. (2002) Evidence of positive selection acting at the human dopamine receptor D4 gene locus. Proc Natl Acad USA 99: 309-314.
55. Vargas-Alarcon G, Moscoso J, Martinez-Laso J, Rodriguez-Perez JM, Flores-Dominguez C, et al. (2007) Origin of Mexican Nahuas (Aztecs) according to HLA genes and their relationships with worldwide populations. Mol Immunol 44: 747-755.
56. González-Martín A, Gorostiza A, Rangel-Villalobos H, Acunha V, Barrot C, et al. (2008) Analyzing the genetic structure of the Tepehua in relation to other neighbouring Mesoamerican populations. A study based on allele frequencies of STR markers. Am J Hum Biol 20: 605-613.
57. Raymond JS, Deboer WR, (2006) Maize on the move. In Histories of maize (eds. JE Staller, RH Tykot, BF Benz), 337-341. San Diego: Academic Press.
58. Chisholm B, Blake M, (2006) Diet in prehistoric Soconusco. In Histories of maize (eds. JE Staller, RH Tykot, BF Benz), 161-167. San Diego: Academic Press.
59. Brown CH, (2010) The pastoral niche in pre-Hispanic Mesoamerica. In Pre-Columbian foodways: interdisciplinary approaches to food, culture, and markets in ancient Mesoamerica (eds. J Staller, M Carrasco), 273-291. New York: Springer.
60. Benedict FG, Steggerda M, (1936) The food of present-day Maya Indians of Yucatan. Washington: Carnegie Institute of Washington.
61. Parsons JR, (2010) The pastoral niche in pre-Hispanic Mesoamerica. In Pre-Columbian foodways: interdisciplinary approaches to food, culture, and markets in ancient Mesoamerica (eds. J Staller, M Carrasco), 109-136. New York: Springer.
62. Cohen NM, (2008) Implications of the NDT for worldwide health and mortality in prehistory. In The Neolithic demographic transition and its consequence (eds. JP Bocquet-Appel, O Bar-Yosef), 481-500. New York: Springer.
63. Kennett DJ, Voorhies B, Martorana D, (2006) An ecological model for the origins of maize-based food production on the Pacific Coast of Southern Mexico. In Behavioral ecology and the transition to agriculture (eds. DJ Kennett, B Winterhalder), 103-136. Berkeley: University of California Press.
64. Poinar HN, Kuch M, Sobolik KD, Barnes I, Stankiewicz AB, et al. (2001) A molecular analysis of dietary for three archaic Native Americans. Proc Natl Acad USA 98: 4317-4322.
65. Steckel RH, Rose JC, Larsen CS, Walker PL, (2002) Skeletal health in the western hemisphere from 4000 B.C. to the present. Evol Anthropol 11: 142-155.
66. Peng Y, Shi H, Qi XB, Xiao CJ, Zhong H, et al. (2010) The ADH1B Arg47His polymorphism in east Asian populations and expansion of rice domestication in history. BMC Evol Biol 20: 10-15.
67. Lee CJ, Lin HR, Liao CL, Lin YL, (2008) Cholesterol effectively blocks entry of flavivirus. J Virol 82: 6470-6480.
68. Simons K, Toomre D, (2000) Lipid rafts and signal transduction. Nat Rev Mol Cell Biol 1: 31-39.
69. Combes V, Coltel N, Alibert M, van Eck M, Raymond C, et al. (2005) ABCA1 gene deletion protects against cerebral malaria: potential pathogenic role of microparticles in neuropathology. Am J Pathol 166: 295-302.
70. Bocquet-Appel JP, (2008) Explaining the Neolithic demographic transition. In The Neolithic demographic transition and its consequence (eds. JP Bocquet-Appel, O Bar-Yosef), 35-56. New York: Springer.
71. Zarrillo S, Pearsall DM, Raymond JS, Tisdale MA, Quon DJ, (2009) Directly dated starch residues document early formative maize (Zea mays L.) in tropical Ecuador. Proc Natl Acad Sci USA 106: 9979-9986.
72. Schwarcz HP, (2006) Stable carbon isotope analysis and human diet: a synthesis. In Histories of maize (eds. JE Staller, RH Tykot, BF Benz), 315-324. San Diego: Academic Press.
73. Tykot RH, Burger RL, Van der Merwe N, (2006) The importance of maize in initial period and early horizon Peru. In Histories of maize (eds. JE Staller, RH Tykot, BF Benz), 187-233. San Diego: Academic Press.
74. Tarazona-Santos E, Carvalho-Silva DR, Pettener D, Luiselli D, De Stefano GF, et al. (2001) Genetic differentiation in South Amerindians is related to environmental and cultural diversity: evidence from the Y chromosome. Am J Hum Genet 68: 1485-1496.