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Mitochondrial DNA Part A
DNA Mapping, Sequencing, and Analysis
Volume 29, 2018 - Issue 5
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Research Article

Genetic perspective of uniparental mitochondrial DNA landscape on the Punjabi population, Pakistan

, , , , , , & show all
Pages 714-726 | Received 22 Apr 2017, Accepted 02 Jul 2017, Published online: 26 Jul 2017

References

  • Abu-Amero KK, Larruga JM, Cabrera VM, González AM. 2008. Mitochondrial DNA structure in the Arabian Peninsula. BMC Evol Biol. 8:45.
  • Anagnostou P, Capocasa M, Dominici V, Montinaro F, Coia V, Destro-Bisol G. 2017. Evaluating mtDNA patterns of genetic isolation using a re-sampling procedure: A case study on Italian populations. Ann Hum Biol. 44:140–148.
  • Angele G. 2012. SPSS Statistics 20. Eine Einführung, Otto-Friedrich-Universität.
  • Arnaiz-Villena A, Palacio-Grüber J, Muñiz E, Campos C, Alonso-Rubio J, Gomez-Casado E, Salih SF, Martin-Villa M, Al-Qadi R. 2017. Genetic HLA study of Kurds in Iraq, Iran and Tbilisi (Caucasus, Georgia): relatedness and medical implications. PLoS One. 12:e0169929.
  • ArunKumar G, Tatarinova TV, Duty J, Rollo D, Syama A, Arun VS, Kavitha VJ, Triska P, Greenspan B, Wells RS. 2015. Genome-wide signatures of male-mediated migration shaping the Indian gene pool. J Hum Genet. 60:493–499.
  • Aslam N, Bukhari MF. 2017. Buddhist art in ancient Gandhara, an appraisal of its distinctive features. Paper presented at International Conference on Buddhism and Jainism in Early Historic Asia, 16–17 Feb., Centre for Asian Studies, University of Kelaniya, Sri Lanka; p. 06–07.
  • Bamshad M, Kivisild T, Watkins WS, Dixon ME, Ricker CE, Rao BB, Naidu JM, Prasad BR, Reddy PG, Rasanayagam A. 2001. Genetic evidence on the origins of Indian caste populations. Genome Res. 11:994–1004.
  • Bandyopadhyay S. 2017. Caste, nation and modernity: Indian nationalism's unresolved Dilemma. J Orient Soc Aust. 48:5.
  • Barcaccia G, Galla G, Achilli A, Olivieri A, Torroni A. 2015. DNA analysis of dust particles sampled from the Turin Shroud. In: MATEC Web of Conferences; EDP Sciences.
  • Bates J, Petrie C, Singh R. 2017. Approaching rice domestication in South Asia: new evidence from Indus settlements in northern India. J Archaeol Sci. 78:193–201.
  • Bhattacharyya P. 2017. IndoWordNet. In: The WordNet in Indian languages. New York: Springer; p. 1–18.
  • Bhatti S, Aslam Khan M, Abbas S, Attimonelli M, Gonzalez GR, Aydin HH, de Souza EMS. Forthcoming. Problems in Mitochondrial DNA forensics: while interpreting length heteroplasmy conundrum of various Sindhi and Baluchi ethnic groups of Pakistan. Mitochondrial DNA Part A. [accessed 2017 Apr 9]:[10 p.]. doi: 10.1080/24701394.2017.1310853
  • Bhatti S, Aslamkhan M, Abbas S, Attimonelli M, Aydin HH, de Souza EMS. 2016. Genetic analysis of mitochondrial DNA control region variations in four tribes of Khyber Pakhtunkhwa, Pakistan. Mitochondrial DNA Part A. 28:687–697.
  • Bhatti S, Aslamkhan M, Attimonelli M, Abbas S, Aydin HH. 2017. Mitochondrial DNA variation in the Sindh population of Pakistan. Aust J Forensic Sci. 49:201–216.
  • Bodner M, Zimmermann B, Röck A, Kloss-Brandstätter A, Horst D, Horst B, Sengchanh S, Sanguansermsri T, Horst J, Krämer T. 2011. Southeast Asian diversity: first insights into the complex mtDNA structure of Laos. BMC Evol Biol. 11:49.
  • Briant P, Elliott N. 2017. The first European: a history of Alexander in the age of empire. Cambridge (MA): Harvard University Press.
  • Carling G, van de Weijer J, Cronhamn S, Johansson N, Farren R. 2017. The cultural Lexicon of Indo-European in Europe: quantifying stability and change. J Indo-Eur Stud Monogr Se. 15:123–129.
  • Chandrasekar A, Kumar S, Sreenath J, Sarkar BN, Urade BP, Mallick S, Bandopadhyay SS, Barua P, Barik SS, Basu D. 2009. Updating phylogeny of mitochondrial DNA macrohaplogroup m in India: dispersal of modern human in South Asian corridor. PLoS One 4:e7447.
  • Chaubey G, Govindaraj P, Rai N, van Driem G, Thangaraj K. 2017. The genome-wide analysis of the Bhils: the second largest tribal population of India. Man India. 97:279–290.
  • Chaubey G, Karmin M, Metspalu E, Metspalu M, Selvi-Rani D, Singh VK, Parik J, Solnik A, Naidu BP, Kumar A. 2008. Phylogeography of mtDNA haplogroup R7 in the Indian peninsula. BMC Evol Biol. 8:227.
  • Chaubey G, Metspalu M, Kivisild T, Villems R. 2007. Peopling of South Asia: investigating the caste-tribe continuum in India. Bioessays. 29:91–100.
  • Cocoş R, Schipor S, Hervella M, Cianga P, Popescu R, Bănescu C, Constantinescu M, Martinescu A, Raicu F. 2017. Genetic affinities among the historical provinces of Romania and Central Europe as revealed by an mtDNA analysis. BMC Genet. 18:20.
  • Comas D, Calafell F, Mateu E, Pérez-Lezaun A, Bosch E, Martínez-Arias R, Clarimon J, Facchini F, Fiori G, Luiselli D. 1998. Trading genes along the silk road: mtDNA sequences and the origin of central Asian populations. Am J Hum Genet. 63:1824–1838.
  • Consortium HP-AS. 2009. Mapping human genetic diversity in Asia. Science. 326:1541–1545.
  • Cordaux R, Saha N, Bentley GR, Aunger R, Sirajuddin S, Stoneking M. 2003. Mitochondrial DNA analysis reveals diverse histories of tribal populations from India. Eur J Hum Genet. 11:253–264.
  • Datta R, Basu T. 2017. Present scenario of South-East Asian countries’ newspapers to cater local scientific issues through the regional languages: an epistemological case study. Int J Res Adv Eng. 3:1–21.
  • Davidovic S, Malyarchuk B, Aleksic J, Derenko M, Topalovic V, Litvinov A, Skonieczna K, Rogalla U, Grzybowski T, Stevanovic M. Forthcoming. Mitochondrial super-haplogroup U diversity in Serbians. Ann Hum Biol. [accessed 2017 Feb 19]:[11 p.]. doi: 10.1080/03014460.2017.1287954
  • DeBalsi KL, Hoff KE, Copeland WC. 2017. Role of the mitochondrial DNA replication machinery in mitochondrial DNA mutagenesis, aging and age-related diseases. Ageing Res Rev. 33:89–104.
  • Debnath M, Palanichamy MG, Mitra B, Jin J-Q, Chaudhuri TK, Zhang Y-P. 2011. Y-chromosome haplogroup diversity in the sub-Himalayan Terai and Duars populations of East India. J Hum Genet. 56:765–771.
  • Dennell RW, Rendell HM, Halim M, Moth E. 1992. A 45,000-year-old open-air Paleolithic site at Riwat, northern Pakistan. J Field Archaeol. 19:17–33.
  • Devi S. 1999. Caste system in India. Jaipur (India): Pointer Publishers.
  • Dixit US, Hazarika M, Davim JP. 2017. History of mechanics. In: A brief history of mechanical engineering. New York: Springer; p. 47–72.
  • Enzel Y, Ely L, Mishra S, Ramesh R, Amit R, Lazar B, Rajaguru S, Baker V, Sandler A. 1999. High-resolution Holocene environmental changes in the Thar Desert, Northwestern India. Science. 284:125–128.
  • Excoffier L, Laval G, Schneider S. 2005. Arlequin (version 3.0): an integrated software package for population genetics data analysis. Evolutionary Bioinformatics 1:47–50.
  • Fregel R, Cabrera V, Larruga JM, Abu-Amero KK, González AM. 2015. Carriers of mitochondrial DNA macrohaplogroup N lineages reached Australia around 50,000 years ago following a northern Asian route. PLoS One. 10:e0129839.
  • Gilbert MJ. 2017. South Asia in World History. Oxford (UK): Oxford University Press.
  • Green N. 2017. The Afghan discovery of Buddha: civilizational history and the nationalizing of afghan antiquity. Int J Middle East Stud. 49:47–70.
  • Gustafsson CM, Falkenberg M, Larsson N-G. 2016. Maintenance and expression of mammalian mitochondrial DNA. Annu Rev Biochem. 85:133–160.
  • Hay ED. 2013. Cell biology of extracellular matrix. Berlin (Germany): Springer Science & Business Media.
  • Heinz T, Pala M, Gómez-Carballa A, Richards MB, Salas A. 2017. Updating the African human mitochondrial DNA tree: Relevance to forensic and population genetics. Forensic Sci Int Genet. 27:156–159.
  • Hernández CL, Reales G, Dugoujon J-M, Novelletto A, Rodríguez JN, Cuesta P, Calderón R. 2014. Human maternal heritage in Andalusia (Spain): its composition reveals high internal complexity and distinctive influences of mtDNA haplogroups U6 and L in the Western and Eastern side of region. BMC Genet. 15:11.
  • Irwin JA, Ikramov A, Saunier J, Bodner M, Amory S, Röck A, O’Callaghan J, Nuritdinov A, Atakhodjaev S, Mukhamedov R. 2010. The mtDNA composition of Uzbekistan: a microcosm of Central Asian patterns. Int J Legal Med. 124:195–204.
  • Irwin JA, Saunier JL, Strouss KM, Diegoli TM, Sturk KA, O’Callaghan JE, Paintner CD, Hohoff C, Brinkmann B, Parsons TJ. 2008. Mitochondrial control region sequences from a Vietnamese population sample. Int J Legal Med. 122:257–259.
  • Jankova-Ajanovska R, Zimmermann B, Huber G, Röck AW, Bodner M, Jakovski Z, Janeska B, Duma A, Parson W. 2014. Mitochondrial DNA control region analysis of three ethnic groups in the Republic of Macedonia. Forensic Sci Int Genet. 13:1–2.
  • Jinam TA, Hong L-C, Phipps ME, Stoneking M, Ameen M, Edo J, Saitou N, Consortium HP-AS. 2012. Evolutionary history of continental Southeast Asians: early train hypothesis based on genetic analysis of mitochondrial and autosomal DNA data. Mol Biol Evol. 29:3513–3527.
  • Khan FK. 1991. A geography of Pakistan: environment, people and economy. Oxford (UK): Oxford University Press.
  • Khan AA, Ruby T, Naz N, Rafay M. 2017. Desert ecosystem management: a sustainable and wise use. In: Ecosystem functions and management. New York: Springer; p. 85–99.
  • Khurana P, Aggarwal A, Mitra S, Italia YM, Saraswathy KN, Chandrasekar A, Kshatriya GK. 2014. Y chromosome haplogroup distribution in Indo-European speaking tribes of Gujarat, Western India. PLoS One. 9:e90414.
  • Kivisild T, Bamshad MJ, Kaldma K, Metspalu M, Metspalu E, Reidla M, Laos S, Parik J, Watkins WS, Dixon ME. 1999. Deep common ancestry of Indian and western-Eurasian mitochondrial DNA lineages. Curr Biol. 9:1331–1334.
  • 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.
  • Kumar D. 2017. River Ganges: historical, cultural and socioeconomic attributes. Aquatic Ecosyst Health Manage. 20:8–20.
  • Kumar S, Stecher G, Tamura K. 2016. MEGA7: Molecular Evolutionary Genetics Analysis version 7.0 for bigger datasets. Mol Biol Evol. 33:1870–1874.
  • Kunstadter P. 2017. Southeast Asian tribes, minorities, and nations. vol. 1. Princeton (NJ): Princeton University Press.
  • Li Z-Y, Wu X-J, Zhou L-P, Liu W, Gao X, Nian X-M, Trinkaus E. 2017. Late Pleistocene archaic human crania from Xuchang, China. Science. 355:969–972.
  • Lincove D. 2017. Book review: the Persian empire: a historical encyclopedia. Ref User Serv Q. 56:145–146.
  • Llamas B, Willerslev E, Orlando L. 2017. Human evolution: a tale from ancient genomes. Phil Trans R Soc B. 372:20150484.
  • Malyarchuk B, Derenko M, Grzybowski T, Lunkina A, Czarny J, Rychkov S, Morozova I, Denisova G, Miścicka-Śliwka D. 2004. Differentiation of mitochondrial DNA and Y chromosomes in Russian populations. Hum Biol. 76:877–900.
  • Marchi N, Hegay T, Mennecier P, Georges M, Laurent R, Whitten M, Endicott P, Aldashev A, Dorzhu C, Nasyrova F. 2017. Sex-specific genetic diversity is shaped by cultural factors in Inner Asian human populations. Am J Phys Anthropol. 162:627–640.
  • Marrero P, Abu-Amero KK, Larruga JM, Cabrera VM. 2016. Carriers of human mitochondrial DNA macrohaplogroup M colonized India from southeastern Asia. BMC Evol Biol. 16:246.
  • Martínez-Cruz B, Mendizabal I, Harmant C, de Pablo R, Ioana M, Angelicheva D, Kouvatsi A, Makukh H, Netea MG, Pamjav H. 2016. Origins, admixture and founder lineages in European Roma. Eur J Hum Genet. 24:937–943.
  • Martínez-Cruz B, Vitalis R, Ségurel L, Austerlitz F, Georges M, Théry S, Quintana-Murci L, Hegay T, Aldashev A, Nasyrova F. 2011. In the heartland of Eurasia: the multilocus genetic landscape of Central Asian populations. Eur J Hum Genet. 19:216–223.
  • Mellars P, Gori KC, Carr M, Soares PA, Richards MB. 2013. Genetic and archaeological perspectives on the initial modern human colonization of southern Asia. Proc Natl Acad Sci. 110:10699–10704.
  • Miller KW, Budowle B. 2001. A compendium of human mitochondrial DNA control region: development of an international standard forensic database. Croatia Med J. 42:315–327.
  • Naseem N, Younas I. 2017. Regional bonds between Central Asia and South Asia (with special reference to Pakistan). Proc Paki Acad Sci. 550:10891–10901.
  • Nasidze I, Ling E, Quinque D, Dupanloup I, Cordaux R, Rychkov S, Naumova O, Zhukova O, Sarraf‐Zadegan N, Naderi G. 2004. Mitochondrial DNA and Y-chromosome variation in the caucasus . Ann Hum Genet. 68:205–221.
  • Navarro-Gomez D, Leipzig J, Shen L, Lott M, Stassen AP, Wallace DC, Wiggs JL, Falk MJ, Van Oven M, Gai X. 2015. Phy-Mer: a novel alignment-free and reference-independent mitochondrial haplogroup classifier. Bioinformatics. 31:1310–1312.
  • Neel JV, Biggar RJ, Sukernik RI. 1994. Virologic and genetic studies relate Amerind origins to the indigenous people of the Mongolia/Manchuria/southeastern Siberia region. Proc Natl Acad Sci. 91:10737–10741.
  • Nikitin AG, Potekhina I, Rohland N, Mallick S, Reich D, Lillie M. 2017. Mitochondrial DNA analysis of eneolithic trypillians from Ukraine reveals neolithic farming genetic roots. PLoS One. 12:e0172952.
  • Pagani L, Colonna V, Tyler-Smith C, Ayub Q. 2017. An ethnolinguistic and genetic perspective on the origins of the Dravidian-speaking Brahui in Pakistan. Man India. 97:267
  • Palanichamy MG, Mitra B, Zhang C-L, Debnath M, Li G-M, Wang H-W, Agrawal S, Chaudhuri TK, Zhang Y-P. 2015. West Eurasian mtDNA lineages in India: an insight into the spread of the Dravidian language and the origins of the caste system. Hum Genet. 134:637–647.
  • Patel Y, Wallace A. 2005. Mutation scanning: Applied Biosystems VariantSEQr and SeqScape v2. 1—an assessment using a model system [Technology Assessment Report]. September. Available on the NGRL website. Available from: http://www ngrl org uk/Manchester
  • Patnaik P. 2017. Caste, community and belonging: the Indian case. Soc Sci. 45:71.
  • Pfeiffer H, Steighner R, Fisher R, Mörnstad H, Yoon C-L, Holland M. 1998. Mitochondrial DNA extraction and typing from isolated dentin-experimental evaluation in a Korean population. Int J Legal Med. 111:309–313.
  • Powers JM. 2015. The roots of hinduism: the early Aryans and the Indus civilization, by Asko Parpola. New York: Oxford University Press; p. xvi, 363.
  • Quintana-Murci L, Chaix R, Wells RS, Behar DM, Sayar H, Scozzari R, Rengo C, Al-Zahery N, Semino O, Santachiara-Benerecetti AS. 2004. Where west meets east: the complex mtDNA landscape of the southwest and Central Asian corridor. Am J Hum Genet. 74:827–845.
  • Rej PH, Deka R, Norton HL. 2017. Understanding influences of culture and history on mtDNA variation and population structure in three populations from Assam, Northeast India. Am J Hum Biol. 29:169–178.
  • Rensch R. 2017. Harps and harpists. Bloomington (IN): Indiana University Press; p. 687–780.
  • Richards M, Macaulay V, Hickey E, Vega E, Sykes B, Guida V, Rengo C, Sellitto D, Cruciani F, Kivisild T. 2000. Tracing European founder lineages in the Near Eastern mtDNA pool. Am J Hum Genet. 67:1251–1276.
  • Sahakyan H, Kashani BH, Tamang R, Kushniarevich A, Francis A, Costa MD, Pathak AK, Khachatryan Z, Sharma I, van Oven M. 2017. Origin and spread of human mitochondrial DNA haplogroup U7. Sci Rep. 7:46044.
  • Sankaran S, Sekerdej M, von Hecker U. 2017. The role of Indian caste identity and caste inconsistent norms on status representation. Front Psychol. 8:487.
  • Serin A, Canan H, Alper B, Gulmen MK, Zimmermann B, Parson W. 2016. Mitochondrial DNA control region haplotype and haplogroup diversity in South Eastern Turkey. Forensic Sci Int Genet. 24:176–179.
  • Silva M, Oliveira M, Vieira D, Brandão A, Rito T, Pereira JB, Fraser RM, Hudson B, Gandini F, Edwards C. 2017. A genetic chronology for the Indian subcontinent points to heavily sex-biased dispersals. BMC Evol Biol. 17:88.
  • Sinha M, Rao I, Mitra M. 2017. Y-chromosomal and mitochondrial SNP haplogroup distribution in Indian populations and its significance in disaster victim identification (DVI): a review based molecular approach. Austin J Forensic Sci Criminol. 4:1055.
  • Soni VS, Soni AS. 2013. New observations on the age and context of Soanian tools found in post-Urban Harappan sites and along with SE Asian type tools on the mid-Holocene terraces in the NW Sub-Himalayas. Bull Indo-Pacific Prehistory Assoc. 32:6–18.
  • Sultana GNN, Tuli JF, Begum R, Tamang R. 2014. Mitochondrial DNA control region variation from Bangladesh: sequence analysis for the establishment of a forensic database. Forensic Med Anatomy Res. 2:95–100.
  • Summerer M, Horst J, Erhart G, Weißensteiner H, Schönherr S, Pacher D, Forer L, Horst D, Manhart A, Horst B. 2014. Large-scale mitochondrial DNA analysis in Southeast Asia reveals evolutionary effects of cultural isolation in the multi-ethnic population of Myanmar. BMC Evol Biol. 14:17.
  • Tajima F. 1989. Statistical method for testing the neutral mutation hypothesis by DNA polymorphism. Genetics. 123:585–595.
  • Tanaka M, Cabrera VM, González AM, Larruga JM, Takeyasu T, Fuku N, Guo L-J, Hirose R, Fujita Y, Kurata M. 2004. Mitochondrial genome variation in eastern Asia and the peopling of Japan. Genome Res. 14:1832–1850.
  • Van Oven M, Kayser M. 2009. Updated comprehensive phylogenetic tree of global human mitochondrial DNA variation. Hum Mutat. 30:E386–E394.
  • Wang H-W, Li Y-C, Sun F, Zhao M, Mitra B, Chaudhuri TK, Regmi P, Wu S-F, Kong Q-P, Zhang Y-P. 2012. Revisiting the role of the Himalayas in peopling Nepal: insights from mitochondrial genomes. J Hum Genet. 57:228–234.
  • Weissensteiner H, Pacher D, Kloss-Brandstätter A, Forer L, Specht G, Bandelt H-J, Kronenberg F, Salas A, Schönherr S. 2016. HaploGrep 2: mitochondrial haplogroup classification in the era of high-throughput sequencing. Nucleic Acids Res. 44:W58–W63.
  • West AP, Shadel GS. 2017. Mitochondrial DNA in innate immune responses and inflammatory pathology. Nat Rev Immunol. 17:363–375.
  • Whale J. 2012. Mitochondrial DNA analysis of four ethnic groups of Afghanistan. University of Portsmouth.
  • Wong L-P, Lai JK-H, Saw W-Y, Ong RT-H, Cheng AY, Pillai NE, Liu X, Xu W, Chen P, Foo J-N. 2014. Insights into the genetic structure and diversity of 38 South Asian Indians from deep whole-genome sequencing. PLoS Genet. 10:e1004377.
  • Yanchevskaya N, Witzel M. 2017. Time and space in Ancient India: pre-philosophical Period. In: Space, time and the limits of human understanding. New York: Springer; p. 23–41.
  • Yao YG, Nie L, Harpending H, Fu YX, Yuan ZG, Zhang YP. 2002. Genetic relationship of Chinese ethnic populations revealed by mtDNA sequence diversity. Am J Phys Anthropol. 118:63–76.
  • Zenil H. 2017. Reprogramming matter, life, and purpose. arXiv Preprint arXiv 170400725.

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