Haplogroup_F_(mtDNA)

Haplogroup F (mtDNA)

Haplogroup F (mtDNA)

Human mitochondrial DNA haplogroup


Haplogroup F is a human mitochondrial DNA (mtDNA) haplogroup. The clade is most common in East Asia and Southeast Asia. It has not been found among Native Americans.[3]

Quick Facts Possible time of origin, Possible place of origin ...

It is a primary branch of haplogroup R9.

Distribution

The F haplogroup is fairly common in East Asia. High frequencies of the clade are found among the Lahu from Yunnan (33% - 77%, average 52%), Nicobar Islands (50%), Shors from Kemerovo Oblast of Siberia (41%), and Arunachal Pradesh, India (31%).[4] There is also an important frequency in Taiwanese aborigines, Khakas, Kets, Han Chinese (and, thus, nearly all of China), Lombok, Sumba, Thailand, and Vietnam. Its distribution extends with low frequency to the Tharu of southern Nepal and the Bashkirs of the southern Urals.[5][6][7]

Haplogroup F also occurs at low frequencies on the Comoros Islands (<10%).[8] It is also found at low frequencies on The Hvar island in Croatia (8.3%).

Subclades

F1a clearly predominates among the representatives of haplogroup F in Southeast Asia, but subclades of this haplogroup have been found in populations as far north as the Buryats and Ulchi of Siberia.

F1b tends to become more frequent as a fraction of total F in populations of the northern parts of East Asia and Central Asia, such as Mongols, Kazakhs, Uyghurs, and Japanese. It also has been found among the Yi people. There are odd exclaves of F1b in Gaininsk Bashkirs of Perm Oblast and Croats of Hvar Island.[5][9]

F1d is the second most frequent sub-clade in Newar (Nepal). Haplogroup F1d reaches the greatest proportion in Newar (11.97%) of Nepal and Kshatriya (16%) of North India.[10]

F2 has been found mainly in the form of F2a, which has been observed in more than 10% of a couple samples of Nu and Lisu from Gongshan, Yunnan.[11] F2 has been found with frequencies exceeding 5% in several other populations of Southwest China, Guangxi, and Hainan, including the Han majority population. Outside of southwestern China, F2 has been found with frequency greater than 5% in a sample of Oirat Mongols from Xinjiang and a sample of Khakas from Khakassia, with the former population boasting particularly high diversity within this clade.

F3 is especially common among Austronesian peoples of Taiwan and the Malay Archipelago, but it also has been found in many populations of Southwest China and South-Central China, and in a sample of Hans from Xinjiang.

F4 has been found mainly in aboriginal populations of Taiwan and Hainan, with some representatives among samples of Filipinos from Luzon, Indonesians from Sumatra, and Hans and Uzbeks from Xinjiang.

Tree

This phylogenetic tree of haplogroup F subclades is based on the paper by Mannis van Oven and Manfred Kayser Updated comprehensive phylogenetic tree of global human mitochondrial DNA variation[2] and subsequent published research.

  • F
    • F* – China, Korea[12]
    • F1
      • F1a'c'f – Thailand (Kaleun in Nakhon Phanom Province[13]), China, Korea,[12] Kazakhstan
        • F1a – China, Korea,[12] Uyghur, Thailand, Mongolia[14]
          • F1a1'4 – Thailand (Khon Mueang in Chiang Rai Province[13]), China (Ma'an site, Wuxi, Majiabang culture)
            • F1a1 – Japan, Korea,[12] China, Ulchi, Uyghur, Vietnam (incl. Cờ Lao), Laos, Thailand, Indonesia, Mexico
              • F1a1a – Thailand, Laos, Vietnam, China (Zhanjiang, etc.), Tibet, Indonesia
                • F1a1a1 – Vietnam, Laos, Thailand, Cambodia, Nicobar Islands, Malaysia, Indonesia, China, Uyghur
              • F1a1b – Japan, Korea
              • F1a1c – Zhuang (Bama), Thailand, Tibet, Buryats (Inner Mongolia and Irkutsk Oblast), Japan
                • F1a1c1 – Moken
                • F1a1c2 – Japan, Xibo, China (Shanghai)
              • F1a1d – Thailand, China, Taiwan (Tsou, Bunun, Rukai), Philippines
                • F1a1d1 – Tao (Orchid Island)
            • F1a4
              • F1a4a – Thailand, Han Chinese (Denver), Ulchi
                • F1a4a1 – Taiwan (Tsou, Makatao, Bunun, Ami, etc.), Philippines (Ivatan, Ibaloi, Abaknon, Bugkalot, Kalangoya, Dulag, etc.), Guam, Malaysia (Kelantan Malay), Sumatra, Vietnam (Dao), Thailand (Khon Mueang in Mae Hong Son Province and Chiang Mai Province[13]), South Africa
              • F1a4b – China
          • F1a2 – Thailand, Vietnam (Hmong), China (Guizhou)
            • F1a2a – Thailand (Phutai in Sakon Nakhon Province, Nyaw in Nakhon Phanom Province, Mon in Lopburi Province[13]), China (Han in Zhanjiang, Dong, etc.)
          • F1a3 – Thailand, Uyghur
            • F1a3a – Filipino (Lipa City), Indonesia
              • F1a3a1 – Japan
                • F1a3a1a – Japan, Korea
              • F1a3a2 – Philippines (Ivatan)
              • F1a3a3 – Taiwan (Tsou, Bunun, Makatao, Thao), Philippines (Ivatan)
        • F1c – Japan
          • F1c1 – Japan
            • F1c1a – Korea, Xinjiang, Tibet, Jammu and Kashmir, Thailand (Palaung in Chiang Mai Province, Khmu in Nan Province, Khon Mueang in Lampang Province[13])
              • F1c1a1 – Russia, China (Qingdao, etc.), Evenk (New Barag Left Banner), Oroqen, Zhuang (Bama), Taiwan (Minnan)
                • F1c1a1a – Tibet (Shannan, Sherpa, etc.), Yi
                • F1c1a1b – China
              • F1c1a2 – Tibet, Thailand, China (Chongqing), India
        • F1f – Thailand, China, Lahu, Myanmar, Tibet, Cambodia, Vietnam (Hmong)
      • F1-T16189C!
        • F1b - Korea,[12] Japan, Mongolia,[14] China (North China)
          • F1b1 – China, Tibet (Shigatse, etc.), Ladakh, Uyghur (Artux, etc.), Kyrgyz, Azeri, Kurd (Iran), Armenian, Turkey, Russia, Croatia
            • F1b1a – Japan, Korea, Uyghur
              • F1b1a1 – Japan, Korea
                • F1b1a1a – Japan, Korea, USA (African American)[15]
                  • F1b1a1a1 – Japan, Korea
                    • F1b1a1a1a – Japan
                  • F1b1a1a2 – Japan, Korea
                  • F1b1a1a3 – Japan
              • F1b1a2 – Japan, Korea
            • F1b1b – Yakut, Uyghur, Kyrgyz, Turk, Even (Sakkyryyr, Tompo), Korea
            • F1b1c – China, Yi, Buryat
            • F1b1d – Japan, Korea
            • F1b1e – Uyghur, Kyrgyz, Buryat, Oroqen, Russian (Sverdlovsk Oblast)
              • F1b1e1 – Yakut
            • F1b1f – China, Uyghur, Buryat (Buryat Republic), Yakut (Namsky District), Evenk (Stony Tunguska River basin), Hungary (ancient Avars)
        • F1d – China (Hunan, Zhejiang, Jiangsu, Beijing, Liaoning, Korean from Antu County, Hezhen), Taiwan (Minnan, etc.), Tibet (Lhasa, etc.), Thailand (Mon in Kanchanaburi Province[13]), South Korea, Japan, Kyrgyz (Artux, Ak-Say), ancient Scythian
          • F1d1 – Tibet, Nepal (Tharu), Newar of Nepal (12%),[10] Myanmar, Thailand (Mon in Kanchanaburi Province[13]), China, Japan, South Africa
        • F1e
          • F1e1 – China (North China), Mongolia
            • F1e1a – Japan
          • F1e2 – China, Kyrgyz (Tashkurgan)
          • F1e3 – China (Guangdong, etc.), Laos (Lao in Vientiane[13]), Thailand (Phuan in Lopburi Province and Phichit Province[13]), Sumatra, Vietnam (Kinh)
        • F1g – Tibet, Thailand (Phuan in Lopburi Province, Sukhothai Province, and Phichit Province[13]), China, Kyrgyz (Tashkurgan)
          • F1g1 – China (Yunnan, etc.), Vietnam (Hmong, Dao), Nepal (Newar, 2.4%)[10]
    • F2
      • F2* – Laos (Lao in Vientiane[13]), China, Hong Kong, Uyghur (Artux)
      • F2a'b'g
        • F2a – China (Han from Beijing, Xinjiang, etc.), Taiwan (Makatao), Korea,[12] Japan, Kazakhstan
          • F2a1 – China (Han from Shandong), Naxi, Bai, Nu, Tu (Monguor),[16] Yi, Tibetan
          • F2a2 – China (Han from Zhanjiang, etc.), Miao (Guizhou), Kinh (Guangxi), Dai and Lisu (Yunnan)[16]
          • F2a3 – China (Han from Xinjiang, Yunnan, Qinghai, and Shandong), Tu, Hui, Mongols in Inner Mongolia[16]
        • F2b – China (Han from Qingdao), Taiwan (Hakka)
          • F2b1 – Thailand (Lao Isan in Roi Et Province and Chaiyaphum Province, Khon Mueang in Lampang Province[13]), China (Han from Beijing, Xinjiang, etc.), Buryat (Irkutsk Oblast), Yakut, Even (NE Sakha Republic),[17] Yukaghir (NE Sakha Republic),[17] Nepal (Newar, 1.1%)[10]
        • F2g – China, Ladakh
      • F2c – China
        • F2c1 – China (Shantou, etc.), Japan
        • F2c2 – China (Han from Beijing), Kyrgyzstan (Kyrgyz)
      • F2d – China, Uyghur, Thailand (Khon Mueang in Chiang Mai Province and Lamphun Province[13]), Singapore, Japan, Kazakhstan
      • F2e – China, Thailand (Tai Yuan in Uttaradit Province, Phuan in Phrae Province and Lopburi Province, Khon Mueang in Chiang Mai Province[13]), Vietnam (Dao)
        • F2e1 – China, Barghut (Hulun Buir)
      • F2f – Japan, Korea, China, Pakistan (Hazara), Azerbaijan (Astara),[citation needed] Bashkortostan (Bashkir), Poland
      • F2h'i – China
        • F2h – China, Tibet (Lhasa), Taiwan, Thailand (Tai Dam in Kanchanaburi Province[13])
        • F2i – China, Taiwan (Makatao), Korea
    • F3 (formerly R9a)
      • F3a – China (Han from Ili, etc.), Uyghur, Thailand
        • F3a1 – China (Han from Yunnan, Guizhou, Shantou, Lanzhou,[18] etc.), Kyrgyz (Tashkurgan), Taiwan (Hakka, etc.), Thailand (Phuan in Suphan Buri Province, Shan in Mae Hong Son Province, Khon Mueang in Chiang Rai Province, Mae Hong Son Province, Chiang Mai Province, Lamphun Province, and Lampang Province[13]), Vietnam (Hmong, Dao)
      • F3b – Thailand, Japan, Korea,[12] China (Han from Qijiang), Yi
        • F3b1 – Philippines, Comoros (Comorian from Grande Comore), USA
          • F3b1a – Taiwan (Rukai, Puyuma, Paiwan, Tsou, Makatao, Bunun, Ami, etc.), Philippines (Maranao)
            • F3b1a1 – Philippines (Bugkalot), Indonesia
            • F3b1a2 – Taiwan (Puyuma, Bunun, Paiwan, etc.)
          • F3b1b – Madagascar, Sumatra, Philippines (Batak from Palawan Island)
            • F3b1b1 – Philippines (Ibaloi, Kankanaey, Ifugao), Spain, Denmark
    • F4
      • F4a – Thailand/Laos, China, Taiwan, Korea[12]
        • F4a1
        • F4a2 – China, Laos (Lao in Vientiane and Luang Prabang[13]), Thailand (Phuan in Lopburi Province, Nyah Kur in Chaiyaphum Province, Khon Mueang in Lamphun Province[13])
      • F4b – China (Han from Beijing), Thailand (Khon Mueang in Mae Hong Son Province, Lao Isan in Roi Et Province[13])
        • F4b1 – China, Taiwan (Atayal, Bunun, Saisiyat, Thao, Tsou, Ami, Makatao, etc.), Philippines, Madagascar

Table of frequencies by ethnic group

More information Population, Frequency ...

See also


References

  1. Soares P, Ermini L, Thomson N, Mormina M, Rito T, Röhl A, et al. (June 2009). "Correcting for purifying selection: an improved human mitochondrial molecular clock". American Journal of Human Genetics. 84 (6): 740–759. doi:10.1016/j.ajhg.2009.05.001. PMC 2694979. PMID 19500773.
  2. Derenko M, Malyarchuk B, Grzybowski T, Denisova G, Dambueva I, Perkova M, et al. (November 2007). "Phylogeographic analysis of mitochondrial DNA in northern Asian populations". American Journal of Human Genetics. 81 (5): 1025–1041. doi:10.1086/522933. PMC 2265662. PMID 17924343.
  3. M. A. Bermisheva, K. Tambets, R. Villems, and E. K. Khusnutdinova, "Diversity of Mitochondrial DNA Haplogroups in Ethnic Populations of the Volga–Ural Region", Molecular Biology Vol. 36, No. 6, 2002, pp. 802–812. Translated from Molekulyarnaya Biologiya, Vol. 36, No. 6, 2002, pp. 990–1001.
  4. Fornarino S, Pala M, Battaglia V, Maranta R, Achilli A, Modiano G, et al. (July 2009). "Mitochondrial and Y-chromosome diversity of the Tharus (Nepal): a reservoir of genetic variation". BMC Evolutionary Biology. 9 (1): 154. Bibcode:2009BMCEE...9..154F. doi:10.1186/1471-2148-9-154. PMC 2720951. PMID 19573232.
  5. Pimenoff VN, Comas D, Palo JU, Vershubsky G, Kozlov A, Sajantila A (October 2008). "Northwest Siberian Khanty and Mansi in the junction of West and East Eurasian gene pools as revealed by uniparental markers". European Journal of Human Genetics. 16 (10): 1254–1264. doi:10.1038/ejhg.2008.101. PMID 18506205. S2CID 19488203.
  6. Msaidie S, Ducourneau A, Boetsch G, Longepied G, Papa K, Allibert C, et al. (January 2011). "Genetic diversity on the Comoros Islands shows early seafaring as major determinant of human biocultural evolution in the Western Indian Ocean". European Journal of Human Genetics. 19 (1): 89–94. doi:10.1038/ejhg.2010.128. PMC 3039498. PMID 20700146.
  7. Tolk HV, Barac L, Pericic M, Klaric IM, Janicijevic B, Campbell H, et al. (September 2001). "The evidence of mtDNA haplogroup F in a European population and its ethnohistoric implications". European Journal of Human Genetics. 9 (9): 717–723. doi:10.1038/sj.ejhg.5200709. PMID 11571562.
  8. Basnet R, Rai N, Tamang R, Awasthi NP, Pradhan I, Parajuli P, et al. (February 2023). "The matrilineal ancestry of Nepali populations". Human Genetics. 142 (2): 167–180. doi:10.1007/s00439-022-02488-z. PMID 36242641. S2CID 252904281.
  9. Wen B, Xie X, Gao S, Li H, Shi H, Song X, et al. (May 2004). "Analyses of genetic structure of Tibeto-Burman populations reveals sex-biased admixture in southern Tibeto-Burmans". American Journal of Human Genetics. 74 (5): 856–865. doi:10.1086/386292. PMC 1181980. PMID 15042512.
  10. Hwan Young Lee, Ji-Eun Yoo, Myung Jin Park, Ukhee Chung, Chong-Youl Kim, and Kyoung-Jin Shin, "East Asian mtDNA haplogroup determination in Koreans: Haplogroup-level coding region SNP analysis and subhaplogroup-level control region sequence analysis." Electrophoresis (2006). DOI 10.1002/elps.200600151.
  11. Wibhu Kutanan, Jatupol Kampuansai, Metawee Srikummool, Daoroong Kangwanpong, Silvia Ghirotto, Andrea Brunelli, and Mark Stoneking, "Complete mitochondrial genomes of Thai and Lao populations indicate an ancient origin of Austroasiatic groups and demic diffusion in the spread of Tai–Kadai languages." Hum Genet 2016 DOI 10.1007/s00439-016-1742-y.
  12. Cardinali I, Bodner M, Capodiferro MR, Amory C, Rambaldi Migliore N, Gomez EJ, et al. (2022). "Mitochondrial DNA Footprints from Western Eurasia in Modern Mongolia". Frontiers in Genetics. 12: 819337. doi:10.3389/fgene.2021.819337. PMC 8773455. PMID 35069708.
  13. Rebecca S Just, Melissa K Scheible, Spence A Fast, et al., "Full mtGenome reference data: development and characterization of 588 forensic-quality haplotypes representing three U.S. populations." Forensic Sci Int Genet. 2015 Jan;14:141-55. doi: 10.1016/j.fsigen.2014.09.021. Epub 2014 Oct 5.
  14. Kong, Q.P., Yao, Y.G., Sun, C., Zhu, C.L., Zhong, L., Wang, C.Y., Cai, W.W., Xu, X.M., Xu, A.L. and Zhang, Y.P., 2004. Phylogeographic analysis of mitochondrial DNA haplogroup F2 in China reveals T12338C in the initiation codon of the ND5 gene not to be pathogenic. Journal of human genetics, 49(8), p.414.
  15. Sardana A Fedorova, Maere Reidla, Ene Metspalu, et al., "Autosomal and uniparental portraits of the native populations of Sakha (Yakutia): implications for the peopling of Northeast Eurasia." BMC Evolutionary Biology 2013, 13:127. http://www.biomedcentral.com/1471-2148/13/127
  16. Hongbin Yao, Mengge Wang, Xing Zou, et al., "New insights into the fine-scale history of western-eastern admixture of the northwestern Chinese population in the Hexi Corridor via genome-wide genetic legacy." Mol Genet Genomics 2021 Mar 1. doi: 10.1007/s00438-021-01767-0.
  17. Hill C, Soares P, Mormina M, Macaulay V, Meehan W, Blackburn J, et al. (December 2006). "Phylogeography and ethnogenesis of aboriginal Southeast Asians". Molecular Biology and Evolution. 23 (12): 2480–2491. doi:10.1093/molbev/msl124. hdl:1885/23220. PMID 16982817.
  18. Wen B, Li H, Gao S, Mao X, Gao Y, Li F, et al. (March 2005). "Genetic structure of Hmong-Mien speaking populations in East Asia as revealed by mtDNA lineages". Molecular Biology and Evolution. 22 (3): 725–734. doi:10.1093/molbev/msi055. PMID 15548747.
  19. Comas D, Plaza S, Wells RS, Yuldaseva N, Lao O, Calafell F, et al. (June 2004). "Admixture, migrations, and dispersals in Central Asia: evidence from maternal DNA lineages". European Journal of Human Genetics. 12 (6): 495–504. doi:10.1038/sj.ejhg.5201160. PMID 14872198.
  20. Starikovskaya EB, Sukernik RI, Derbeneva OA, Volodko NV, Ruiz-Pesini E, Torroni A, et al. (January 2005). "Mitochondrial DNA diversity in indigenous populations of the southern extent of Siberia, and the origins of Native American haplogroups". Annals of Human Genetics. 69 (Pt 1): 67–89. doi:10.1046/j.1529-8817.2003.00127.x. PMC 3905771. PMID 15638829.
  21. Supannee Kaewsutthi, Nopasak Phasukkijwatana, Yutthana Joyjinda et al., "Mitochondrial Haplogroup Background May Influence Southeast Asian G11778A Leber Hereditary Optic Neuropathy", Investigative Ophthalmology & Visual Science, June 2011, Vol. 52, No. 7
  22. Tabbada KA, Trejaut J, Loo JH, Chen YM, Lin M, Mirazón-Lahr M, et al. (January 2010). "Philippine mitochondrial DNA diversity: a populated viaduct between Taiwan and Indonesia?". Molecular Biology and Evolution. 27 (1): 21–31. doi:10.1093/molbev/msp215. PMID 19755666.
  23. Peng MS, Quang HH, Dang KP, Trieu AV, Wang HW, Yao YG, et al. (October 2010). "Tracing the Austronesian footprint in Mainland Southeast Asia: a perspective from mitochondrial DNA". Molecular Biology and Evolution. 27 (10): 2417–2430. doi:10.1093/molbev/msq131. PMID 20513740.
  24. Dulik MC, Zhadanov SI, Osipova LP, Askapuli A, Gau L, Gokcumen O, et al. (February 2012). "Mitochondrial DNA Dulik_2012 Y chromosome variation provides evidence for a recent common ancestry between Native Americans and Indigenous Altaians". American Journal of Human Genetics. 90 (2): 229–46. doi:10.1016/j.ajhg.2011.12.014. PMC 3276666. PMID 22281367.
  25. Fuku N, Park KS, Yamada Y, Nishigaki Y, Cho YM, Matsuo H, et al. (March 2007). "Mitochondrial haplogroup N9a confers resistance against type 2 diabetes in Asians". American Journal of Human Genetics. 80 (3): 407–415. doi:10.1086/512202. PMC 1821119. PMID 17273962.
  26. D Miścicka-Sliwka, M Woźniak, I A Zakharov (2003). "Diversity of mitochondrial DNA lineages in South Siberia". Annals of Human Genetics. 67 (Pt 5): 391–411. doi:10.1046/j.1469-1809.2003.00035.x. PMID 12940914.{{cite journal}}: CS1 maint: multiple names: authors list (link)
  27. Jeon S, Bhak Y, Choi Y, Jeon Y, Kim S, Jang J, et al. (May 2020). "Korean Genome Project: 1094 Korean personal genomes with clinical information". Science Advances. 6 (22): eaaz7835. Bibcode:2020SciA....6.7835J. doi:10.1126/sciadv.aaz7835. PMC 7385432. PMID 32766443.
  28. Chi-Zao Wang, Xue-Er Yu, Mei-Sen Shi, Hui Li & Shu-Hua Ma (2022). "Whole mitochondrial genome analysis of the Daur ethnic minority from Hulunbuir in the Inner Mongolia Autonomous Region of China". BMC Ecology and Evolution. 22 (1): 66. doi:10.1186/s12862-022-02019-4. PMC 9118598. PMID 35585500.{{cite journal}}: CS1 maint: multiple names: authors list (link)
  29. Taketo U, Rinnosuke H, Kenshi S, Kazuhiko I, Kazumasa S, Kentaro K (2007). "Mitochondrial DNA Sequence Variation and Phylogenetic Analysis in Japanese Individuals from Miyazaki Prefecture". Japanese Journal of Forensic Science and Technology. 12 (1): 83–96. doi:10.3408/jafst.12.83.
  30. Ayken Askapuli, Miguel Vilar, Humberto Garcia-Ortiz (2022). "Kazak mitochondrial genomes provide insights into the human population history of Central Eurasia". PLOS ONE. 17 (11): e0277771. Bibcode:2022PLoSO..1777771A. doi:10.1371/journal.pone.0277771. PMC 9707748. PMID 36445929.{{cite journal}}: CS1 maint: multiple names: authors list (link)
  31. Fuku N, Park KS, Yamada Y, Nishigaki Y, Cho YM, Matsuo H, et al. (March 2007). "Mitochondrial haplogroup N9a confers resistance against type 2 diabetes in Asians". American Journal of Human Genetics. 80 (3): 407–415. doi:10.1086/512202. PMC 1821119. PMID 17273962.
  32. Maruyama S, Minaguchi K, Saitou N (August 2003). "Sequence polymorphisms of the mitochondrial DNA control region and phylogenetic analysis of mtDNA lineages in the Japanese population". International Journal of Legal Medicine. 117 (4): 218–225. doi:10.1007/s00414-003-0379-2. PMID 12845447. S2CID 1224295.

Sources

Phylogenetic tree of human mitochondrial DNA (mtDNA) haplogroups

  Mitochondrial Eve (L)    
L0 L1–6  
L1 L2   L3     L4 L5 L6
M N  
CZ D E G Q   O A S R   I W X Y
C Z B F R0   pre-JT   P   U
HV JT K
H V J T

Share this article:

This article uses material from the Wikipedia article Haplogroup_F_(mtDNA), and is written by contributors. Text is available under a CC BY-SA 4.0 International License; additional terms may apply. Images, videos and audio are available under their respective licenses.