The influence of habitats on female mobility in Central and Western Africa inferred from human mitochondrial variation

BMC Evolutionary Biology

Volumn 13, Issue 1, 2013, Pages

  Montano, Valeria ^a,f   Marcari, Veronica ^a   Pavanello, Mariano ^a,b,d   Anyaele, Okorie ^c   Comas, David ^d   Destro Bisol, Giovanni ^a,b,d   Batini, Chiara ^e  

^a SAPIENZA UNIVERSITY OF ROME   (Italy)

^b Istituto Italiano di Antropologia   (Italy)

^c UNIVERSITY OF IBADAN   (Nigeria)

^d UNIVERSITAT POMPEU FABRA   (Spain)

^e UNIVERSITY OF LEICESTER   (United Kingdom)

^f UNIVERSITY OF VETERINARY MEDICINE   (Austria)

Author keywords

Bayesian inference; Migration; Mitochondrial DNA; Population genetic structure; Western Central Africa

Indexed keywords

BAYESIAN ANALYSIS; ENVIRONMENTAL FACTOR; GENE FLOW; GENETIC STRUCTURE; GENETIC VARIATION; MITOCHONDRIAL DNA; MOBILITY; MULTIVARIATE ANALYSIS; RAINFOREST; SAVANNA;

CONGO; NIGER [WEST AFRICA]; SENEGAL;

MITOCHONDRIAL DNA;

AFRICA; ARTICLE; BAYES THEOREM; CENTRAL AFRICA; FEMALE; GENETIC VARIABILITY; GENETICS; HUMAN; LINGUISTICS; MALE; MIGRATION; MOLECULAR GENETICS; MULTIVARIATE ANALYSIS; POPULATION GENETICS;

AFRICA, CENTRAL; AFRICA, WESTERN; BAYES THEOREM; DNA, MITOCHONDRIAL; FEMALE; GENETIC VARIATION; GENETICS, POPULATION; HUMAN MIGRATION; HUMANS; LINGUISTICS; MALE; MOLECULAR SEQUENCE DATA; MULTIVARIATE ANALYSIS;

MLCS; MLOWN;

EID: 84872933110     PISSN: None     EISSN: 14712148     Source Type: Journal    
DOI: 10.1186/1471-2148-13-24     Document Type: Article

References (72)

1. The making of the African mtDNA landscape. Salas A, Richards M, De la Fe T, Lareu MV, Sobrino B, Sanchez-Diz P, Macaulay V, Carracedo A, Am J Hum Genet 2002 71 5 1082 1111 10.1086/344348 12395296 (Pubitemid 35305228)
2. Genetic structure of human populations. Rosenberg NA, Pritchard JK, Weber JL, Cann HM, Kidd KK, Zhivotovsky LA, Feldman MW, Science 2002 298 5602 2381 2385 10.1126/science.1078311 12493913 (Pubitemid 36014209)
3. Geography predicts neutral genetic diversity of human populations. Prugnolle F, Manica A, Balloux F, Curr Biol 2005 15 5 159 R160 10.1016/j.cub.2005.02.038 15753023 (Pubitemid 40323514)
4. Worldwide human relationships inferred from genome-wide patterns of variation. Li JZ, Absher DM, Tang H, Southwick AM, Casto AM, Ramachandran S, Cann HM, Barsh GS, Feldman M, Cavalli-Sforza LL, Myers RM, Science 2008 319 5866 1100 1104 10.1126/science.1153717 18292342 (Pubitemid 351300793)
5. Genes mirror geography within Europe. Novembre J, Johnson T, Bryc K, Kutalik Z, Boyko AR, Auton A, Indap A, King KS, Bergmann S, Nelson MR, Stephens M, Bustamante CD, Nature 2008 456 7218 98 101 10.1038/nature07331 18758442
6. The influence of natural barriers in shaping the genetic structure of Maharashtra populations. Thangaraj K, Naidu BP, Crivellaro F, Tamang R, Upadhyay S, Sharma VK, Reddy AG, Walimbe SR, Chaubey G, Kivisild T, Singh L, PLoS One 2010 5 12 15283 10.1371/journal.pone.0015283 21187967
7. Population genetic structure in Indian Austroasiatic speakers: the role of landscape barriers and sex-specific admixture. Chaubey G, Metspalu M, Choi Y, Magi R, Romero IG, Soares P, van Oven M, Behar DM, Rootsi S, Hudjashov G, Mallick CB, Karmin M, Nelis M, Parik J, Reddy AG, Metspalu E, van Driem G, Xue Y, Tyler-Smith C, Thangaraj K, Singh L, Remm M, Richards MB, Lahr MM, Kayser M, Villems R, Kivisild T, Mol Biol Evol 2011 28 2 1013 1024 10.1093/molbev/msq288 20978040
8. Cavalli-Sforza LL, Menozzi P, Piazza A, The history and geography of human genes Princeton University Press, Princeton 1993
9. Jobling MA, Hurles ME, Tyler-Smith C, Human evolutionary genetics Garland Science, New York and Abingdon 2004
10. Colloquium paper: working toward a synthesis of archaeological, linguistic, and genetic data for inferring African population history. Scheinfeldt LB, Soi S, Tishkoff SA, Proc Natl Acad Sci USA 2010 107 Suppl 2 8931 8938 20445100
11. Y-chromosome lineages trace diffusion of people and languages in southwestern Asia. Quintana-Murci L, Krausz C, Zerjal T, Sayar SH, Hammer MF, Mehdi SQ, Ayub Q, Qamar R, Mohyuddin A, Radhakrishna U, Jobling MA, Tyler-Smith C, McElreavey K, Am J Hum Genet 2001 68 2 537 542 10.1086/318200 11133362 (Pubitemid 32147826)
12. Genetic substructure in South African Bantu-speakers: evidence from autosomal DNA and Y-chromosome studies. Lane AB, Soodyall H, Arndt S, Ratshikhopha ME, Jonker E, Freeman C, Young L, Morar B, Toffie L, Am J Phys Anthropol 2002 119 2 175 185 10.1002/ajpa.10097 12237937
13. Contrasting patterns of Y chromosome and mtDNA variation in Africa: evidence for sex-biased demographic processes. Wood ET, Stover DA, Ehret C, Destro-Bisol G, Spedini G, McLeod H, Louie L, Bamshad M, Strassmann BI, Soodyall H, Hammer MF, Eur J Hum Genet 2005 13 7 867 876 10.1038/sj.ejhg.5201408 15856073 (Pubitemid 40946086)
14. Genetic evidence for a higher female migration rate in humans. Seielstad MT, Minch E, Cavalli-Sforza LL, Nat Genet 1998 20 3 278 280 10.1038/3088 9806547 (Pubitemid 28507673)
15. Human mtDNA and Y-chromosome variation is correlated with matrilocal versus patrilocal residence. Oota H, Settheetham-Ishida W, Tiwawech D, Ishida T, Stoneking M, Nat Genet 2001 29 1 20 21 10.1038/ng711 11528385 (Pubitemid 32801801)
16. Global patterns of human mitochondrial DNA and Y-chromosome structure are not influenced by higher migration rates of females versus males. Wilder JA, Kingan SB, Mobasher Z, Pilkington MM, Hammer MF, Nat Genet 2004 36 10 1122 1125 10.1038/ng1428 15378061 (Pubitemid 41184476)
17. Molecular analysis reveals tighter social regulation of immigration in patrilocal populations than in matrilocal populations. Hamilton G, Stoneking M, Excoffier L, Proc Natl Acad Sci USA 2005 102 21 7476 7480 10.1073/pnas. 0409253102 15894624 (Pubitemid 40740996)
18. Sex-biased migration in humans: what should we expect from genetic data? Wilkins JF, Marlowe FW, Bioessays 2006 28 3 290 300 10.1002/bies.20378 16479583
19. Support from the relationship of genetic and geographic distance in human populations for a serial founder effect originating in Africa. Ramachandran S, Deshpande O, Roseman CC, Rosenberg NA, Feldman MW, Cavalli-Sforza LL, Proc Natl Acad Sci USA 2005 102 44 15942 15947 10.1073/pnas.0507611102 16243969 (Pubitemid 41552847)
20. Low levels of genetic divergence across geographically and linguistically diverse populations from India. Rosenberg NA, Mahajan S, Gonzalez-Quevedo C, Blum MG, Nino-Rosales L, Ninis V, Das P, Hegde M, Molinari L, Zapata G, Weber JL, Belmont JW, Patel PI, PLoS Genet 2006 2 12 215 10.1371/journal.pgen.0020215 17194221 (Pubitemid 46045186)
21. A multi-perspective view of genetic variation in Cameroon. Coia V, Brisighelli F, Donati F, Pascali V, Boschi I, Luiselli D, Battaggia C, Batini C, Taglioli L, Cruciani F, Paoli G, Capelli C, Spedini G, Destro-Bisol G, Am J Phys Anthropol 2009 140 3 454 464 10.1002/ajpa.21088 19425092
22. Stoneking M: mtDNA analysis of Nile River Valley populations: A genetic corridor or a barrier to migration? Krings M, Salem AE, Bauer K, Geisert H, Malek AK, Chaix L, Simon C, Welsby D, Di Rienzo A, Utermann G, Sajantila A, Paabo S, Am J Hum Genet 1999 64 4 1166 1176 10.1086/302314 10090902 (Pubitemid 30463048)
23. Where west meets east: the complex mtDNA landscape of the southwest and Central Asian corridor. Quintana-Murci L, Chaix R, Wells RS, Behar DM, Sayar H, Scozzari R, Rengo C, Al-Zahery N, Semino O, Santachiara-Benerecetti AS, Coppa A, Ayub Q, Mohyuddin A, Tyler-Smith C, Qasim Mehdi S, Torroni A, McElreavey K, Am J Hum Genet 2004 74 5 827 845 10.1086/383236 15077202 (Pubitemid 38568958)
24. The genetic structure and history of Africans and African Americans. Tishkoff SA, Reed FA, Friedlaender FR, Ehret C, Ranciaro A, Froment A, Hirbo JB, Awomoyi AA, Bodo JM, Doumbo O, Ibrahim M, Juma AT, Kotze MJ, Lema G, Moore JH, Mortensen H, Nyambo TB, Omar SA, Powell K, Pretorius GS, Smith MW, Thera MA, Wambebe C, Weber JL, Williams SM, Science 2009 324 5930 1035 1044 10.1126/science.1172257 19407144
25. Hunter-gatherer genomic diversity suggests a southern African origin for modern humans. Henn BM, Gignoux CR, Jobin M, Granka JM, Macpherson JM, Kidd JM, Rodriguez-Botigue L, Ramachandran S, Hon L, Brisbin A, Lin AA, Underhill PA, Comas D, Kidd KK, Norman PJ, Parham P, Bustamante CD, Mountain JL, Feldman MW, Proc Natl Acad Sci USA 2011 108 13 5154 5162 10.1073/pnas.1017511108 21383195
26. Language and history. Ehret C, African languages: an introduction Cambridge University Press, Cambridge, Heine B, Nurse D, 2000 272 297
27. A genomic analysis identifies a novel component in the genetic structure of sub-Saharan African populations. Sikora M, Laayouni H, Calafell F, Comas D, Bertranpetit J, Eur J Hum Genet 2011 19 1 84 88 10.1038/ejhg.2010.141 20736976
28. Y-chromosomal variation in sub-Saharan Africa: insights into the history of Niger-Congo groups. de Filippo C, Barbieri C, Whitten M, Mpoloka SW, Gunnarsdottir ED, Bostoen K, Nyambe T, Beyer K, Schreiber H, de Knijff P, Luiselli D, Stoneking M, Pakendorf B, Mol Biol Evol 2011 28 3 1255 1269 10.1093/molbev/msq312 21109585
29. The Bantu expansion revisited: a new analysis of Y chromosome variation in Central Western Africa. Montano V, Ferri G, Marcari V, Batini C, Anyaele O, Destro-Bisol G, Comas D, Mol Ecol 2011 20 13 2693 2708 10.1111/j.1365-294X.2011. 05130.x 21627702
30. Molecular perspectives on the Bantu expansion: a synthesis. Pakendorf B, Bostoen K, de Filippo C, Lang Dynam Change 2011 1 50 88 10.1163/221058211X570349
31. African Archaeology, Multidisciplinary Reconstructions of Africa's Recent Past, and Archaeology's Role in Future Collaborative Research. Robertshaw P, Afr Archaeol Rev 2012 29 2 95 108 10.1007/s10437-012-9113-0
32. Studies in African Linguistic Classification: I The Niger-Congo Family. Southwestern. Greenberg JH, J Anthropol 1949 5 79 100
33. Baumann H, Westermann D, Les peuples et les civilisations de l'Afrique Payot, Paris 1970
34. Biasutti R, Le razze e i popoli della terra. Vol 3: Africa UTET, Torino 1967
35. Murdock GP, Social Structure Macmillan, New York 1949
36. Murdock GP, Africa. Its Peoples and Their Culture History McGraw-Hill, New York 1959
37. African human mtDNA phylogeography at-a-glance. Rosa A, Brehem A, J Anthropol Sci 2011 89 25 58 21368343
38. Discriminant analysis of principal components: a new method for the analysis of genetically structured populations. Jombart T, Devillard S, Balloux F, BMC Genet 2010 11 94 20950446
39. Maximum-likelihood estimation of migration rates and effective population numbers in two populations using a coalescent approach. Beerli P, Felsenstein J, Genetics 1999 152 2 763 773 10353916 (Pubitemid 29272726)
40. Comparison of Bayesian and maximum-likelihood inference of population genetic parameters. Beerli P, Bioinformatics 2006 22 3 341 345 10.1093/bioinformatics/bti803 16317072 (Pubitemid 43205381)
41. Unified framework to evaluate panmixia and migration direction among multiple sampling locations. Beerli P, Palczewski M, Genetics 2010 185 1 313 326 10.1534/genetics.109.112532 20176979
42. A multidimensional scaling stress evaluation table. Sturrock K, Rocha J, Field Methods 2000 12 49 60 10.1177/1525822X0001200104
43. A first map of tropical Africa's above-ground biomass derived from satellite imagery. Baccini A, Laporte N, Goetz SJ, Sun M, Dong H, Environ Res Lett 2008 3 4 10.1088/1748-9326/3/4/045011
44. Insights into the western Bantu dispersal: mtDNA lineage analysis in Angola. Plaza S, Salas A, Calafell F, Corte-Real F, Bertranpetit J, Carracedo A, Comas D, Hum Genet 2004 115 5 439 447 15340834 (Pubitemid 39341719)
45. The genetic legacy of western Bantu migrations. Beleza S, Gusmao L, Amorim A, Carracedo A, Salas A, Hum Genet 2005 117 4 366 375 10.1007/s00439-005-1290-3 15928903 (Pubitemid 41194563)
46. Niger-Congo. Williamson K, Blench R, African Languages-An Introduction 42, Cambridge, Heine B, Nurse D, 2000 11 23499188
47. Blench R, Archaeology, language, and the African past Oxford: AltaMira Press, Lanham, MD 2006
48. The younger Dryas in equatorial and southern Africa and in the southeast Atlantic Ocean. Jansen F, Ufkes E, Bey Khelifa L, The younger Dryas, Troelstra SR, Hinte JE, Ganssen GM, 44 1995 141 147
49. An abrupt change in the African monsoon at the end of the Younger Dryas. Talbot MR, Jensen NB, Tiercelin J, Geochem Geophys Geosyst 2007 8 3 1 16
50. History of climate and forests in tropical Africa during the last 8 million years. Hamilton AC, Taylor D, Clim Chang 1991 19 1-2 65 78 (Pubitemid 23371930)
51. Geography is a better determinant of human genetic differentiation than ethnicity. Manica A, Prugnolle F, Balloux F, Hum Genet 2005 118 3-4 366 371 16189711 (Pubitemid 43091208)
52. Statistical power analysis of neutrality tests under demographic expansions, contractions and bottlenecks with recombination. Ramirez-Soriano A, Ramos-Onsins SE, Rozas J, Calafell F, Navarro A, Genetics 2008 179 1 555 567 10.1534/genetics.107.083006 18493071
53. Inferring past demography using spatially explicit population genetic models. Ray N, Excoffier L, Hum Biol 2009 81 2-3 141 157 19943741
54. Climate shaped the worldwide distribution of human mitochondrial DNA sequence variation. Balloux F, Handley LJ, Jombart T, Liu H, Manica A, Proc Biol Sci 2009 276 1672 3447 3455 10.1098/rspb.2009.0752 19586946
55. Human responses to changing environments in Central Africa between 40,000 and 12,000 BP. Cornelissen E, J World Prehist 2002 16 3 197 235 10.1023/A:1020949501304 (Pubitemid 36017377)
56. Phylogeography of the human mitochondrial L1c haplogroup: genetic signatures of the prehistory of Central Africa. Batini C, Coia V, Battaggia C, Rocha J, Pilkington MM, Spedini G, Comas D, Destro-Bisol G, Calafell F, Mol Phylogenet Evol 2007 43 2 635 644 10.1016/j.ympev.2006.09.014 17107816 (Pubitemid 46687047)
57. Maternal traces of deep common ancestry and asymmetric gene flow between Pygmy hunter-gatherers and Bantu-speaking farmers. Quintana-Murci L, Quach H, Harmant C, Luca F, Massonnet B, Patin E, Sica L, Mouguiama-Daouda P, Comas D, Tzur S, Balanovsky O, Kidd KK, Kidd JR, van der Veen L, Hombert JM, Gessain A, Verdu P, Froment A, Bahuchet S, Heyer E, Dausset J, Salas A, Behar DM, Proc Natl Acad Sci USA 2008 105 5 1596 1601 10.1073/pnas.0711467105 18216239 (Pubitemid 351346560)
58. Genetic and demographic implications of the Bantu expansion: insights from human paternal lineages. Berniell-Lee G, Calafell F, Bosch E, Heyer E, Sica L, Mouguiama-Daouda P, van der Veen L, Hombert JM, Quintana-Murci L, Comas D, Mol Biol Evol 2009 26 7 1581 1589 10.1093/molbev/msp069 19369595
59. Origins and genetic diversity of pygmy hunter-gatherers from Western Central Africa. Verdu P, Austerlitz F, Estoup A, Vitalis R, Georges M, Thery S, Froment A, Le Bomin S, Gessain A, Hombert JM, Van der Veen L, Quintana-Murci L, Bahuchet S, Heyer E, Curr Biol 2009 19 4 312 318 10.1016/j.cub.2008.12.049 19200724
60. Insights into the demographic history of African Pygmies from complete mitochondrial genomes. Batini C, Lopes J, Behar DM, Calafell F, Jorde LB, van der Veen L, Quintana-Murci L, Spedini G, Destro-Bisol G, Comas D, Mol Biol Evol 2011 28 2 1099 1110 10.1093/molbev/msq294 21041797
61. HLA Class-I Diversity in Cameroon: Evidence for a North-south Structure of Genetic Variation and Relationships with African Populations. Spinola H, Couto AR, Peixoto MJ, Anagnostou P, Destro-Bisol G, Spedini G, Lopez-Larrea C, Bruges-Armas J, Ann Hum Genet 2011 75 6 665 677 10.1111/j.1469-1809.2011.00672.x 21910692
62. Online databases for mtDNA and Y chromosome polymorphisms in human populations. Congiu A, Anagnostou P, Milia N, Capocasa M, Montinaro F, Destro Bisol G, J Anthropol Sci 2012 90 201 215 23274751
63. Ethnologue: Languages of the World, Sixteenth edition SIL International, Dallas, Tex, Lewis MP, 2009 Online version: http://www.ethnologue.com/
64. Mitochondrial DNA sequences in single hairs from a southern African population. Vigilant L, Pennington R, Harpending H, Kocher TD, Wilson AC, Proc Natl Acad Sci USA 1989 86 23 9350 9354 10.1073/pnas.86.23.9350 2594772 (Pubitemid 20010423)
65. Updated comprehensive phylogenetic tree of global human mitochondrial DNA variation. van Oven M, Kayser M, Hum Mutat 2009 30 2 386 94 10.1002/humu.20921 18853457
66. Arlequin suite ver 3.5: a new series of programs to perform population genetics analyses under Linux and Windows. Excoffier L, Lischer HE, Mol Ecol Resour 2010 10 3 564 567 10.1111/j.1755-0998.2010.02847.x 21565059
67. R Core Development Team, R: A Language and Environment for Statistical Computing R Foundation for Statistical Computing, Vienna 2009
68. PCA and clustering reveal alternate mtDNA phylogeny of N and M clades. Alexe G, Satya RV, Seiler M, Platt D, Bhanot T, Hui S, Tanaka M, Levine AJ, Bhanot G, J Mol Evol 2008 67 5 465 487 10.1007/s00239-008-9148-7 18855041
69. adegenet: a R package for the multivariate analysis of genetic markers. Jombart T, Bioinformatics 2008 24 11 1403 1405 10.1093/bioinformatics/btn129 18397895 (Pubitemid 351737150)
70. adegenet 1.3-1: new tools for the analysis of genome-wide SNP data. Jombart T, Ahmed I, Bioinformatics 2011 27 21 3070 3071 10.1093/bioinformatics/ btr521 21926124
71. MEGA5: Molecular Evolutionary Genetics Analysis Using Maximum Likelihood, Evolutionary Distance, and Maximum Parsimony Methods. Tamura K, Peterson D, Peterson N, Stecher G, Nei M, Kumar S, Mol Biol Evol 2011 28 10 2371 2379 21385829
72. Bayes factors and model uncertainty. Kass RRA, J Am Stat Assoc 1995 90 773 795 10.1080/01621459.1995.10476572