1,660
Views
16
CrossRef citations to date
0
Altmetric
Research Paper

The genetic landscape of Mediterranean North African populations through complete mtDNA sequences

, , , , , , & show all
Pages 98-104 | Received 25 Jul 2017, Accepted 30 Nov 2017, Published online: 30 Jan 2018

References

  • Achilli A, Rengo C, Magri C, Battaglia V, Olivieri A, Scozzari R, Cruciani F, et al. 2004. The molecular dissection of mtDNA Haplogroup H confirms that the Franco-Cantabrian glacial refuge was a major source for the European gene pool. Am J Hum Genet 75:910–918.
  • Andrews RM, Kubacka I, Chinnery PF, Lightowlers RN, Turnbull DM, Howell N. 1999. Reanalysis and revision of the Cambridge reference sequence for human mitochondrial DNA. Nat Genet 23:147
  • Arauna LR, Mendoza-Revilla J, Mas-Sandoval A, Izaabel H, Bekada A, Benhamamouch S, Fadhlaoui-Zid K, et al. 2017. Recent historical migrations have shaped the gene pool of Arabs and Berbers in North Africa. Mol Biol Evol 34:318–329.
  • Arredi B, Poloni ES, Paracchini S, Zerjal T, Fathallah DM, Makrelouf M, Pascali VL, et al. 2004. A predominantly neolithic origin for Y-chromosomal DNA variation in North Africa. Am J Hum Genet 75:338–345.
  • Behar DM, van Oven M, Rosset S, Metspalu M, Loogväli E-L, Silva NM, Kivisild T, et al. 2012. A “Copernican reassessment of the human mitochondrial DNA tree from its root”. Am J Hum Genet 90:675–684.
  • Bosch E, Calafell F, Comas D, Oefner PJ, Underhill PA, Bertranpetit J. 2001. High-resolution analysis of human Y-Chromosome variation shows a sharp discontinuity and limited gene flow between Northwestern Africa and the Iberian Peninsula. Am J Hum Genet 68:1019–1029.
  • Brakez Z, Bosch E, Izaabel H, Akhayat O, Comas D, Bertranpetit J, Calafell F. 2001. Human mitochondrial DNA sequence variation in the Moroccan population of the Souss area. Ann Hum Biol 28:295–307.
  • Cherni L, Loueslati BY, Pereira L, Ennafaa H, Amorim A, El Gaaied ABA. 2005. Female gene pools of berber and Arab neighboring communities in central Tunisia: microstructure of mtDNA variation in North Africa. Hum Biol 77:61–70.
  • Costa MD, Cherni L, Fernandes V, Freitas F, Ammar el Gaaied AB, Pereira L. 2009. Data from complete mtDNA sequencing of Tunisian centenarians: testing haplogroup association and the “golden mean” to longevity. Mech Ageing Dev 130:222–226.
  • Coudray C, Olivieri A, Achilli A, Pala M, Melhaoui M, Cherkaoui M, El-Chennawi F, et al. 2009. The complex and diversified mitochondrial gene pool of Berber populations. Ann Hum Genet 73:196–214.
  • Drake NA, Blench RM, Armitage SJ, Bristow CS, White KH. 2011. Ancient watercourses and biogeography of the Sahara explain the peopling of the desert. Proc Natl Acad Sci USA 108:458–462.
  • Ennafaa H, Cabrera VM, Abu-Amero KK, González AM, Amor MB, Bouhaha R, Dzimiri N, et al. 2009. Mitochondrial DNA haplogroup H structure in North Africa. BMC Genet 10:8.
  • Fadhlaoui-Zid K, Plaza S, Calafell F, Ben Amor M, Comas D, Bennamar A, Gaaied E. 2004. Mitochondrial DNA heterogeneity in Tunisian Berbers. Ann Hum Genet 68:222–233.
  • Fadhlaoui-Zid K, Rodríguez-Botigué L, Naoui N, Benammar-Elgaaied A, Calafell F, Comas D. 2011. Mitochondrial DNA structure in North Africa reveals a genetic discontinuity in the Nile Valley. Am J Phys Anthropol 145:107–117.
  • González AM, Larruga JM, Abu-Amero KK, Shi Y, Pestano J, Cabrera VM. 2007. Mitochondrial lineage M1 traces an early human backflow to Africa. BMC Genomics 8:223.
  • Harich N, Costa MD, Fernandes V, Kandil M, Pereira JB, Silva NM, Pereira L. 2010. The trans-Saharan slave trade - clues from interpolation analyses and high-resolution characterization of mitochondrial DNA lineages. BMC Evol Biol 10:138.
  • Henn BM, Botigué LR, Gravel S, Wang W, Brisbin A, Byrnes JK, Fadhlaoui-Zid K, et al. 2012. Genomic ancestry of North Africans supports back-to-Africa migrations. PLoS Genet 8:e1002397.
  • Hernández CL, Dugoujon JM, Novelletto A, Rodríguez JN, Cuesta P, Calderón R. 2017. The distribution of mitochondrial DNA haplogroup H in southern Iberia indicates ancient human genetic exchanges along the western edge of the Mediterranean. BMC Genet 18:46.
  • Hervella M, Svensson EM, Alberdi A, Günther T, Izagirre N, Munters AR, Alonso S, et al. 2016. The mitogenome of a 35,000-year-old Homo sapiens from Europe supports a Palaeolithic back-migration to Africa. Sci Rep 6:25501.
  • Kloss-Brandstätter A, Pacher D, Schönherr S, Weissensteiner H, Binna R, Specht G, Kronenberg F. 2011. HaploGrep: A fast and reliable algorithm for automatic classification of mitochondrial DNA haplogroups. Hum Mutat 32:25–32.
  • Krings M, Salem AE, Bauer K, Geisert H, Malek AK, Chaix L, Simon C, et al. 1999. mtDNA analysis of Nile river valley populations: a genetic corridor or a barrier to migration? Am J Hum Genet 64:1166–1176.
  • Li H, Durbin R. 2009. Fast and accurate short read alignment with Burrows-Wheeler transform. Bioinformatics 25:1754–1760.
  • Li H, Handsaker B, Wysoker A, Fennell T, Ruan J, Homer N, Marth G. 1000 Genome Project Data Processing Subgroup 1000 Genome Project Data Processing. 2009. The Sequence Alignment/Map format and SAMtools. Bioinformatics 25:2078–2079.
  • Li JZ, Absher DM, Tang H, Southwick AM, Casto AM, Ramachandran S, Cann HM, et al. 2008. Worldwide human relationships inferred from genome-wide patterns of variation. Science 319:1100–1104.
  • Librado P, Rozas J. 2009. DnaSP v5: a software for comprehensive analysis of DNA polymorphism data. Bioinformatics 25:1451–1452.
  • Lippold S, Xu H, Ko A, Li M, Renaud G, Butthof A, Schröder R, et al. 2014. Human paternal and maternal demographic histories: insights from high-resolution Y chromosome and mtDNA sequences. Investig Genet 5:13.
  • Maca-Meyer N, González AM, Larruga JM, Flores C, Cabrera VM. 2001. Major genomic mitochondrial lineages delineate early human expansions. BMC Genet 2:13.
  • Macaulay V, Richards M, Hickey E, Vega E, Cruciani F, Guida V, Scozzari R, et al. 1999. The emerging tree of West Eurasian mtDNAs: a synthesis of control-region sequences and RFLPs. Am J Hum Genet 64:232–249.
  • McKenna A, Hanna M, Banks E, Sivachenko A, Cibulskis K, Kernytsky A, Garimella K, et al. 2010. The genome analysis toolkit: a MapReduce framework for analyzing next-generation DNA sequencing data. Genome Res 20:1297–1303.
  • Nespoulet R, El Hajraoui MA, Amani F, Ben Ncer A, Debénath A, Idrissi A, Lacombe JP, et al. 2008. Palaeolithic and neolithic occupations in the Témara region (Rabat, Morocco): recent data on hominin contexts and behavior. African Archaeol Rev 25:21–39.
  • Newman JL, Rogers D. 1995. Spotswood collection. In: The peopling of Africa: a geographic interpretation. [place unknown]: Yale University Press.
  • Olivieri A, Achilli A, Pala M, Battaglia V, Fornarino S, Al-Zahery N, Scozzari R, et al. 2006. The mtDNA legacy of the levantine early upper palaeolithic in Africa. Science 314:1767–1770.
  • Osborne AH, Vance D, Rohling EJ, Barton N, Rogerson M, Fello N. 2008. A humid corridor across the Sahara for the migration of early modern humans out of Africa 120,000 years ago. Proc Natl Acad Sci USA 105:16444–16447.
  • Ottoni C, Martínez-Labarga C, Loogväli E-L, Pennarun E, Achilli A, De Angelis F, Trucchi E, et al. 2009. First genetic insight into Libyan Tuaregs: a maternal perspective. Ann Hum Genet 73:438–448.
  • Ottoni C, Primativo G, Kashani BH, Achilli A, Martínez-Labarga C, Biondi G, Torroni A, et al. 2010. Mitochondrial haplogroup H1 in North Africa: an early holocene arrival from Iberia. PLoS One 5:e13378.
  • Pennarun E, Kivisild T, Metspalu E, Metspalu M, Reisberg T, Moisan J-P, Behar DM, et al. 2012. Divorcing the late upper palaeolithic demographic histories of mtDNA haplogroups M1 and U6 in Africa. BMC Evol Biol 12:234.
  • Plaza S, Calafell F, Helal A, Bouzerna N, Lefranc G, Bertranpetit J, Comas D. 2003. Joining the pillars of hercules: mtDNA sequences show multidirectional gene flow in the Western mediterranean. Ann Hum Genet 67:312–328.
  • Poznik GD, Henn BM, Yee M-C, Sliwerska E, Euskirchen GM, Lin AA, Snyder M, et al. 2013. Sequencing Y chromosomes resolves discrepancy in time to common ancestor of males versus females. Science 341:562–565.
  • Prüfer K, Racimo F, Patterson N, Jay F, Sankararaman S, Sawyer S, Heinze A, et al. 2013. The complete genome sequence of a Neanderthal from the Altai Mountains. Nature 505:43–49.
  • Purcell S, Neale B, Todd-Brown K, Thomas L, Ferreira MAR, Bender D, Maller J, et al. 2007. PLINK: a tool set for whole-genome association and population-based linkage analyses. Am J Hum Genet 81: 559–575.
  • Rahmani N. 2004. Technological and cultural change among the last hunter-gatherers of the Maghreb: the Capsian (10,000–6000 B.P.). J World Prehistory 18:57–105.
  • Rando JC, Pinto F, González AM, Hernández M, Larruga JM, Cabrera VM, Bandelt HJ. 1998. Mitochondrial DNA analysis of northwest African populations reveals genetic exchanges with European, near-eastern, and sub-Saharan populations. Ann Hum Genet 62:531–550.
  • Reich D, Green RE, Kircher M, Krause J, Patterson N, Durand EY, Viola B, et al. 2010. Genetic history of an archaic hominin group from Denisova Cave in Siberia. Nature 468:1053–1060.
  • Richards M, Macaulay V. 2001. The mitochondrial gene tree comes of age. Am J Hum Genet 68:1315–1320.
  • Roostalu U, Kutuev I, Loogväli E-L, Metspalu E, Tambets K, Reidla M, Khusnutdinova EK, et al. 2007. Origin and expansion of haplogroup H, the dominant human mitochondrial DNA lineage in West Eurasia: the near Eastern and Caucasian perspective. Mol Biol Evol 24:436–448.
  • Soares P, Ermini L, Thomson N, Mormina M, Rito T, Röhl A, Salas A, et al. 2009. Correcting for purifying selection: an improved human mitochondrial molecular clock. Am J Hum Genet 84:740–759.
  • Stevanovitch A, Gilles A, Bouzaid E, Kefi R, Paris F, Gayraud RP, Spadoni JL, et al. 2004. Mitochondrial DNA sequence diversity in a sedentary population from Egypt. Ann Hum Genet 68:23–39.
  • Tamura K, Stecher G, Peterson D, Filipski A, Kumar S. 2013. MEGA6: molecular evolutionary genetics analysis version 6.0. Mol Biol Evol 30:2725–2729.
  • Turchi C, Buscemi L, Giacchino E, Onofri V, Fendt L, Parson W, Tagliabracci A. 2009. Polymorphisms of mtDNA control region in Tunisian and moroccan populations: an enrichment of forensic mtDNA databases with Northern Africa data. Forensic Sci Int Genet 3:166–172.
  • van Oven M, Kayser M. 2008. Updated comprehensive phylogenetic tree of global human mitochondrial DNA variation. Hum Mutat 30:E386–E394.
  • Zalloua PA, Platt DE, El Sibai M, Khalife J, Makhoul N, Haber M, Xue Y, et al. 2008. Identifying genetic traces of historical expansions: phoenician footprints in the mediterranean. Am J Hum Genet 83:633–642.

Reprints and Corporate Permissions

Please note: Selecting permissions does not provide access to the full text of the article, please see our help page How do I view content?

To request a reprint or corporate permissions for this article, please click on the relevant link below:

Academic Permissions

Please note: Selecting permissions does not provide access to the full text of the article, please see our help page How do I view content?

Obtain permissions instantly via Rightslink by clicking on the button below:

If you are unable to obtain permissions via Rightslink, please complete and submit this Permissions form. For more information, please visit our Permissions help page.