Haplogroup O-P31

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Haplogroup O-P31
Haplogroup O1b-P31_(O1b1-M1470,_O1b1a1-PK4,_O1b1a2-Pages59,_O1b2-M176) Distribution
Possible time of origin 30,100 [95% CI 27,800 <-> 32,400] ybp[1]
Coalescence age 28,500 [95% CI 26,200 <-> 30,900] ybp[1]
Ancestor O-M175 > O-F265
Defining mutations P31, M268, L690/F167, F256/M1341, Y9038/FGC19644, L463/F330, M1461, F138, Y9317, FGC55566, F292/M1363, CTS4164, CTS6713/M1396, CTS5785/M1377, F435/M1417, F516, M1455
Highest frequencies Austroasiatic-speaking peoples, Tai peoples, Hlai, Balinese, Javanese, Japanese, Ryukyuans, Koreans, Manchus, Malagasy

In human genetics, Haplogroup O-P31 is a Y-chromosome DNA haplogroup. Haplogroup O-P31 is a descendant branch of the greater Haplogroup O-M175.

Origin[edit]

In a paper published in 2011 by a group of Chinese researchers affiliated with Fudan University, it has been suggested that China is the origin of the expansion of haplogroup O-P31 (therein called Haplogroup O2-M268).[2]

Distribution[edit]

Haplogroup O-P31 is notable for the peculiarities of its geographical distribution. Like all clades of Haplogroup O-M175, Haplogroup O-P31 is found only among the males of modern Eastern Eurasian populations. However, Haplogroup O-P31 is generally found with high frequency only among certain populations, such as the Austroasiatic peoples of India, Bangladesh and Southeast Asia, the Nicobarese of the Nicobar Islands in the Indian Ocean, Koreans, and Japanese.

Besides its widespread and patchy distribution, Haplogroup O-P31 is also notable for the fact that it can be divided into two major subclades that show almost completely disjunct distribution. One of these subclades, Haplogroup O-M95, is found among some (mostly tribal) populations of South and Southeast Asia, as well as among the Japanese of Japan and the Balinese of Indonesia. The other major subclade, Haplogroup O-M176, is found almost exclusively among the Japanese, Koreans, and some Manchurians.[citation needed]

Phylogenetics[edit]

Phylogenetic History[edit]

Prior to 2002, there were in academic literature at least seven naming systems for the Y-Chromosome Phylogenetic tree. This led to considerable confusion. In 2002, the major research groups came together and formed the Y-Chromosome Consortium (YCC). They published a joint paper that created a single new tree that all agreed to use. Later, a group of citizen scientists with an interest in population genetics and genetic genealogy formed a working group to create an amateur tree aiming at being above all timely. The table below brings together all of these works at the point of the landmark 2002 YCC Tree. This allows a researcher reviewing older published literature to quickly move between nomenclatures.

YCC 2002/2008 (Shorthand) (α) (β) (γ) (δ) (ε) (ζ) (η) YCC 2002 (Longhand) YCC 2005 (Longhand) YCC 2008 (Longhand) YCC 2010r (Longhand) ISOGG 2006 ISOGG 2007 ISOGG 2008 ISOGG 2009 ISOGG 2010 ISOGG 2011 ISOGG 2012
O-M175 26 VII 1U 28 Eu16 H9 I O* O O O O O O O O O O
O-M119 26 VII 1U 32 Eu16 H9 H O1* O1a O1a O1a O1a O1a O1a O1a O1a O1a O1a
O-M101 26 VII 1U 32 Eu16 H9 H O1a O1a1 O1a1a O1a1a O1a1 O1a1 O1a1a O1a1a O1a1a O1a1a O1a1a
O-M50 26 VII 1U 32 Eu16 H10 H O1b O1a2 O1a2 O1a2 O1a2 O1a2 O1a2 O1a2 O1a2 O1a2 O1a2
O-P31 26 VII 1U 33 Eu16 H5 I O2* O2 O2 O2 O2 O2 O2 O2 O2 O2 O2
O-M95 26 VII 1U 34 Eu16 H11 G O2a* O2a O2a O2a O2a O2a O2a O2a O2a O2a1 O2a1
O-M88 26 VII 1U 34 Eu16 H12 G O2a1 O2a1 O2a1 O2a1 O2a1 O2a1 O2a1 O2a1 O2a1 O2a1a O2a1a
O-SRY465 20 VII 1U 35 Eu16 H5 I O2b* O2b O2b O2b O2b O2b O2b O2b O2b O2b O2b
O-47z 5 VII 1U 26 Eu16 H5 I O2b1 O2b1a O2b1 O2b1 O2b1a O2b1a O2b1 O2b1 O2b1 O2b1 O2b1
O-M122 26 VII 1U 29 Eu16 H6 L O3* O3 O3 O3 O3 O3 O3 O3 O3 O3 O3
O-M121 26 VII 1U 29 Eu16 H6 L O3a O3a O3a1 O3a1 O3a1 O3a1 O3a1 O3a1 O3a1 O3a1a O3a1a
O-M164 26 VII 1U 29 Eu16 H6 L O3b O3b O3a2 O3a2 O3a2 O3a2 O3a2 O3a2 O3a2 O3a1b O3a1b
O-M159 13 VII 1U 31 Eu16 H6 L O3c O3c O3a3a O3a3a O3a3 O3a3 O3a3a O3a3a O3a3a O3a3a O3a3a
O-M7 26 VII 1U 29 Eu16 H7 L O3d* O3c O3a3b O3a3b O3a4 O3a4 O3a3b O3a3b O3a3b O3a2b O3a2b
O-M113 26 VII 1U 29 Eu16 H7 L O3d1 O3c1 O3a3b1 O3a3b1 - O3a4a O3a3b1 O3a3b1 O3a3b1 O3a2b1 O3a2b1
O-M134 26 VII 1U 30 Eu16 H8 L O3e* O3d O3a3c O3a3c O3a5 O3a5 O3a3c O3a3c O3a3c O3a2c1 O3a2c1
O-M117 26 VII 1U 30 Eu16 H8 L O3e1* O3d1 O3a3c1 O3a3c1 O3a5a O3a5a O3a3c1 O3a3c1 O3a3c1 O3a2c1a O3a2c1a
O-M162 26 VII 1U 30 Eu16 H8 L O3e1a O3d1a O3a3c1a O3a3c1a O3a5a1 O3a5a1 O3a3c1a O3a3c1a O3a3c1a O3a2c1a1 O3a2c1a1

Original Research Publications[edit]

The following research teams per their publications were represented in the creation of the YCC Tree.

Phylogenetic Trees[edit]

This phylogenetic tree of haplogroup O subclades is based on the YCC 2008 tree (Karafet 2008) and subsequent published research.

  • O-P31 (P31, M268)
    • O-K18
      • O-CTS10887 Found in Han Chinese, Vietnamese, Dai, and Japanese
      • O-PK4
        • O-F838 Found in Han Chinese, especially in southern China
        • O-M95 (M95)
          • O-CTS10007 Found in Southern Han in Hunan and/or Fujian
          • O-M1310
            • O-M1283 Found in China, Vietnam, Cambodia, Indonesia, Bangladesh, and India
            • O-F1252
              • O-CTS5854 Found in Han Chinese, Dai, and Japanese
              • O-M88 (M88, M111) Found in Vietnamese, Dai, Miao, Tujia, and southern Han Chinese
    • O-P49 (SRY465, P49, 022454)
      • O-CTS9259
        • O-CTS562
        • O-K10
          • O-K27
            • O-K4
              • O-K3
              • O-L682 Found in approximately 19% of South Korean males[3] and with lower frequency in Japan and China
            • O-47z (47z) Found in approximately 24% of Japanese males and with lower frequency in Korea

See also[edit]

Genetics[edit]

Y-DNA O Subclades[edit]

Y-DNA Backbone Tree[edit]

Phylogenetic tree of human Y-chromosome DNA haplogroups [χ 1][χ 2]
"Y-chromosomal Adam"
A00 A0-T [χ 3]
A0 A1 [χ 4]
A1a A1b
A1b1 BT
B CT
DE CF
D E C F
F1  F2  F3  GHIJK
G HIJK
IJK H
IJ   K
I J     LT [χ 5]  K2
L     T [χ 6] K2a [χ 7] K2b [χ 8]   K2c   K2d  K2e [χ 9]  
K2a1                    K2b1 [χ 10]    P [χ 11]
NO    S [χ 12]  M [χ 13]    P1     P2
NO1    Q   R
N O
  1. ^ Van Oven M, Van Geystelen A, Kayser M, Decorte R, Larmuseau HD (2014). "Seeing the wood for the trees: a minimal reference phylogeny for the human Y chromosome". Human Mutation. 35 (2): 187–91. PMID 24166809. doi:10.1002/humu.22468. 
  2. ^ International Society of Genetic Genealogy (ISOGG; 2015), Y-DNA Haplogroup Tree 2015. (Access date: 1 February 2015.)
  3. ^ Haplogroup A0-T is also known as A0'1'2'3'4.
  4. ^ Haplogroup A1 is also known as A1'2'3'4.
  5. ^ Haplogroup LT (L298/P326) is also known as Haplogroup K1.
  6. ^ Between 2002 and 2008, Haplogroup T (M184) was known as "Haplogroup K2" – that name has since been re-assigned to K-M526, the sibling of Haplogroup LT.
  7. ^ Haplogroup K2a (M2308) and the new subclade K2a1 (M2313) were separated from Haplogroup NO (F549) in 2016. (This followed the publication of: Poznik GD, Xue Y, Mendez FL, et al. (2016). "Punctuated bursts in human male demography inferred from 1,244 worldwide Y-chromosome sequences". Nature Genetics. 48 (6): 593–9. PMC 4884158Freely accessible. PMID 27111036. doi:10.1038/ng.3559.  In the past, other haplogroups, including NO1 (M214) and K2e had also been identified with the name "K2a".
  8. ^ Haplogroup K2b (M1221/P331/PF5911) is also known as Haplogroup MPS.
  9. ^ Haplogroup K2e (K-M147) was previously known as "Haplogroup X" and "K2a" (but is a sibling subclade of the present K2a).
  10. ^ Haplogroup K2b1 (P397/P399) is also known as Haplogroup MS, but has a broader and more complex internal structure.
  11. ^ Haplogroup P (P295) is also klnown as K2b2.
  12. ^ Haplogroup S, as of 2017, is also known as K2b1a. (Previously the name Haplogroup S was assigned to K2b1a4.)
  13. ^ Haplogroup M, as of 2017, is also known as K2b1b. (Previously the name Haplogroup M was assigned to K2b1d.)

References[edit]

  1. ^ a b YFull Haplogroup YTree v5.04 at 16 May 2017
  2. ^ Shi Yan, Chuan-Chao Wang, Hui Li, Shi-Lin Li, Li Jin, and The Genographic Consortium, "An updated tree of Y-chromosome Haplogroup O and revised phylogenetic positions of mutations P164 and PK4." European Journal of Human Genetics (2011) 19, 1013–1015; doi:10.1038/ejhg.2011.64
  3. ^ So Yeun Kwon, Hwan Young Lee, Eun Young Lee, Woo Ick Yang, and Kyoung-Jin Shin, "Confirmation of Y haplogroup tree topologies with newly suggested Y-SNPs for the C2, O2b and O3a subhaplogroups." Forensic Science International: Genetics 19 (2015) 42–46. http://dx.doi.org/10.1016/j.fsigen.2015.06.003

Footnotes[edit]

Works Cited[edit]

Journals

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Further reading[edit]