Asians as well as Europeans have light skin, for which no genes to date are known to be responsible. A mutation, Ala481Thr (c.G1559A), in the oculocutaneous albinism type II (OCA2) gene has approximately 70% function of the wild type allele in melanogenesis. In this study, the distribution of the mutation was investigated in a total of 2,615 individuals in 20 populations from various areas. OCA2*481Thr prevailed almost exclusively in a northeastern part of Asia. The allele frequency was highest in Buryat (0.24) in Mongolia and showed a north–south downward geographical gradient. These findings suggest that OCA2*481Thr arose in a region of low ultraviolet radiation and thereafter spread to neighboring populations.
Skin color is a complex genetic trait that has long intrigued biologists. Its variation among indigenous peoples is obvious and correlated with levels of ultraviolet radiation, becoming lighter in more northerly latitudes (Jablonski and Chaplin 2000). Asians as well as Europeans have light skin, for which no genes to date are known to be responsible. Recent interest in signatures of positive selection in candidate pigmentation genes has been raised by a long-range haplotype test and an F ST-based approach (Izagirre et al. 2006; Lao et al. 2007; Myles et al. 2007). Some candidate genes appear to have evolved independently after the divergence of Europeans and East Asians. The OCA2 gene, showing relatively strong signatures for natural selection, is included among the candidate genes affecting skin lightening in East Asian populations (McEvoy et al. 2006; Norton et al. 2007).
The human OCA2 gene (GenBank GeneID: 4948; accession numbers: NM_000275 and NT_000015), the homologue of the murine pink-eyed dilution (p) gene, plays a role in regulating the pH of melanosomes. Some mutations in the OCA2 gene result in oculocutaneous albinism type II (OCA2). The OCA2 gene spans 350 kb on chromosome 15q11.2–q12 and consists of 24 exons, encoding an 838-amino acid polypeptide (Lee et al. 1995; Oetting et al. 2005; Puri et al. 2000). A c.G1559A (Ala481Thr; unregistered in Entrez SNP) mutation in exon 14 was first discovered as a compound heterozygote in a European–American patient with apparent autosomal recessive ocular albinism, and its frequency was estimated to be 0.01 in the testing of 50 unrelated normal Caucasian subjects (Lee et al. 1994). Thereafter, this mutant allele, OCA2*481Thr, has sporadically been observed in Japanese OCA2 patients (Saitoh et al. 2000; Kato et al. 2003; Suzuki et al. 2003a; Kawai et al. 2005; Ito et al. 2006) and a German patient with congenital cataract and macular hypoplasia (Graw et al. 2006). A transfection study showed that OCA2*481Thr had approximately 70% function of the wild type allele in melanogenesis and confirmed it was a relatively mild OCA2 allele (Sviderskaya et al. 1997). This allele is not rare, but has been observed at a frequency as high as 0.10 in Japanese OCA patients and 0.12 in normally pigmented Japanese volunteers (Suzuki et al. 2003b), and it is warned that a number of subclinical patients of OCA2 with this allele might exist not only in Japan, but also all over the world (Kawai et al. 2005). However, as there have been only two studies on distribution of the A481T mutation, it remains unknown whether OCA2*481Thr exists in other populations. In this study, therefore, we investigated the frequency of OCA2*481Thr in more than 2,600 people from 20 African and Eurasian populations.
Subjects and methods
DNA samples were obtained from 2,615 unrelated individuals living in various areas of Eurasia (Table 1; Fig. 1). The donors were selected at random, irrespective of skin color, and their phenotypic data were unavailable. This study was approved by the Ethical Committee at the Faculty of Medicine, Tottori University. The typing of the A481T mutation was carried out based on the principle of the amplified product length polymorphism (APLP) method (Watanabe et al. 1997). The sequences of the primers used are as follows: OCA2-481-Thr: 5′-atatCACAAACATTGGAGGtGCTA-3′ (nucleotide positions 115895-115914; lower cases are non-complementary nucleotides), OCA2-481-Ala: 5′-CACAAACATTGGAGGAaCTG-3′ (115895-115914) and OCA2-481-R: 5′-TTGGAAACAATAATGACATTTGG-3′ (115957-115935). The PCR cocktail consisted of 100 μl of Multiple PCR Master Mix from a Multiplex PCR Kit (Qiagen), 20 μl of three primers (1:3:1) with a concentration of 10 pmol/μl, and 80 μl of water. PCR was performed in a volume of 8 μl containing 7.5 μl of the PCR cocktail and 0.5 μl of a solution containing about 10 ng of genomic DNA. Cycle conditions were 95°C for 15 min, then 30 cycles of 94°C for 30 s, 56°C for 30 s, 72°C for 30 s, and a final extension step of 10 min at 72°C. The products were separated using a polyacrylamide gel (9%T, 5%C), then visualized by ethidium bromide staining. The homozygotes of OCA2*481Thr and OCA2*481Ala showed 67 and 63-bp bands, respectively, whereas the heterozygotes had both bands. Allele frequencies were estimated and Hardy–Weinberg equilibrium was tested using Arlequin program version 3.01 (Excoffier et al. 2005).
Results and discussion
Table 1 summarizes differences in the distribution of the A481T genotypes and allele frequency for the mutant in 20 populations. In each population, there was no statistically significant departure from Hardy–Weinberg equilibrium (data not shown). The highest value of the OCA2*481Thr frequency was observed in Buryat (0.24) and the second highest in Khalha (0.13). The frequencies in northern Han Chinese in Shenyang, Koreans, and Japanese were similar to each other and ranged from 0.075 in Tottori to 0.057 in Okinawa. These values are lower than the data (0.12) in Nagoya, central Japan (Suzuki et al. 2003). A slight but significant difference in distribution was observed between Okinawa and Nagoya (χ2 = 3.92, P < 0.05). In contrast, other Han Chinese populations were either low or zero. This allele was not found in Indo-European and African populations except for Turks in Germany. A recent study also failed to detect OCA2*481Thr in about 3,000 European descendants in Australia (Duffy et al. 2007). The frequency (0.01) in Caucasians reported previously (Lee et al. 1994) must have been overestimated. Thus, OCA2*481Thr is characteristic of northeastern Asian populations.
Buryat in Mongolia showed the highest frequency, but there may be some populations with higher frequencies in northeast China, Siberia, and/or Central Asia. Anyway, OCA2*481Thr is nearly restricted to a northeastern part of Asia. The distribution of OCA2*481Thr reflects the migration of ancient northeastern Asians. This allele must have occurred recently in a region of low ultraviolet radiation and have spread to northeast and Far East Asia. It showed a north–south downward geographical gradient. There is a significant correlation between allele frequencies and degrees of latitude in 14 East Asian populations (r = 0.776, P < 0.01). However, the frequencies are slightly higher in Korean and Japanese than in Han Chinese. This difference in distribution reminds us of the Y-chromosomal haplogroup C, frequencies of which differ remarkably between Han Chinese and northeast Asians including Buryat and Mongolian populations. Koreans and Japanese have higher frequencies than Han Chinese. OCA2*481Thr has also made less contribution to the gene pools of Chinese Han populations than those of Far East populations, as haplogroup C could not expand extensively into mainland China due to the rapid and striking northward migration and expansion of haplogroup O from south China (Hammer et al. 2006; Xue et al. 2006). OCA2*481Thr has extended from northeast Asia through the Korean peninsula to the Japanese archipelago. The somewhat low frequency in Okinawa suggests a relatively weak gene flow from Kyushu to Okinawa. An east–west decreasing cline may also be observed in Eurasia. It is necessary to investigate the distribution in more detail and whether OCA2*481Thr in Europeans has the same origin as that in Asians. These expansions may also be a result of a certain selective advantage of hypofunction in pigmentation.
Individuals homozygous for OCA2*481Thr appear phenotypically normal (Suzuki et al. 2003b; Ito et al. 2006). However, this allele may affect variation in skin color in Japanese because of its hypofunction in pigmentation. Japanese skin type is classified on the basis of an individual’s susceptibility to sunburn and ability to tan: type I, always burns, never tans; type II, moderately burns, moderately tans; type III, never burns, always tans (Satoh and Kawada 1986). Subjects with type I showed statistically higher prevalence rates for actinic keratosis and nonmelanoma skin cancer in comparison with subjects having the other types. The incidence of type I was estimated to be 18.6% in Kasai City, western Japan and 10.3% in Ie Island, Okinawa (Naruse et al. 1997; Nagano et al. 1999). These values coincide with total values of the homozygote and heterozygote for OCA2*481Thr in Honshu and Okinawa. Individuals with OCA2*481Thr may have less resistance to the stress of sunburn (Kawai et al. 2005).
Recently, mutant alleles in the melanocortin 1 receptor (MC1R), the membrane-associated transporter protein (SLC45A2), and a putative cation exchanger protein (SLC24A5) have been elucidated to play a key role in light skin and its variation in European populations (review, Sturm 2006). In contrast, little is understood about the genetic and molecular basis of light skin color in Asian populations. OCA2*481Thr described here is, of course, not a key mutation responsible for light skin pigmentation in Asians.
Duffy DL, Montgomery GW, Chen W, Zhao ZZ, Le L, James MR, Hayward NK, Martin NG, Sturm RA (2007) A three-single-nucleotide polymorphism haplotype in intron 1 of OCA2 explains most human eye-color variation. Am J Hum Genet 80:241–252
Excoffier L, Laval G, Schneider S (2005) Arlequin ver 3.0: an integrated software package for population genetics data analysis. Evol Bioinf Online 1:47–50
Graw J, Klopp N, Illig T, Preising MN, Lorenz B (2006) Congenital cataract and macular hypoplasia in humans associated with a de novo mutation in CRYAA and compound heterozygous mutations in P. Graefes Arch Clin Exp Ophthalmol 244:912–919
Hammer MF, Karafet TM, Park H, Omoto K, Harihara S, Stoneking M, Horai S (2006) Dual origins of the Japanese: common ground for hunter-gatherer and farmer Y chromosomes. J Hum Genet 51:47–58
Ito S, Suzuki T, Inagaki K, Suzuki N, Kono M, Tomita Y, Iwamoto T, Mochizuki N (2006) Two novel mutations detected in Japanese patients with oculocutaneous albinism. J Dermatol Sci 44:116–118
Izagirre N, García I, Junquera C, de la Rúa C, Alonso S (2006) A scan for signature of positive selection in candidate loci for skin pigmentation in humans. Mol Biol Evol 23:1697–1706
Jablonski NG, Chaplin G (2000) The evolution of skin coloration. J Hum Evol 39:57–106
Kato A, Fukai K, Oiso N, Hosomi N, Saitoh S, Wada T, Shimizu H, Ishii M (2003) A novel P gene missense mutation in a Japanese patient with oculocutaneous albinism type II (OCA2). J Dermatol Sci 31:189–192
Kawai M, Suzuki T, Ito S, Inagaki K, Suzuki N, Tomita Y (2005) A patient with subclinical oculocutaneous albinism type 2 diagnosed on getting severely sunburned. Dermatology 210:322–323
Lao O, de Gruijter JM, van Duijn K, Navarro A, Kayser M (2007) Signatures of positive selection in genes associated with human skin pigmentation as revealed from analyses of single nucleotide polymorphisms. Ann Hum Genet 71:354–369
Lee S-T, Nicholls RD, Bundey S, Laxova R, Musarella M, Spritz RA (1994) Mutations of the P gene in oculocutaneous albinism, ocular albinism, and Prader–Willi syndrome plus albinism. N Engl J Med 330:529–534
Lee S-T, Nicholls RD, Jong MTC, Fukai K, Spritz AS (1995) Organization and sequence of the human P gene and identification of a new family of transport proteins. Genomics 26:354–363
McEvoy B, Beleza S, Shriver MD (2006) The genetic architecture of normal variation in human pigmentation: an evolutionary perspective and model. Hum Mol Genet 15:R176–R181
Myles S, Somel M, Tang K, Kelso J, Stoneking M (2007) Identifying genes underlying skin pigmentation differences among human populations. Hum Genet 120:613–621
Nagano T, Ueda M, Suzuki T, Naruse K, Nakamura T, Taguchi M, Araki K, Nakagawa K, Nagai H, Hayashi K, Watanabe S, Ichihashi M (1999) Skin cancer screening in Okinawa, Japan. J Dermatol Sci 19:161–165
Naruse K, Ueda M, Nagano T, Suzuki T, Harada S, Imaizumi K, Watanabe S, Ichihashi M (1997) Prevalence of actinic keratosis in Japan. J Dermatol Sci 15:183–187
Norton HL, Kittles RA, Parra E, McKeigue P, Mao X, Cheng K, Canfield VA, Bradley DG, McEvoy B, Shriver MD (2007) Genetic evidence for the convergent evolution of light skin in Europeans and East asians. Mol Biol Evol 24:710–722
Oetting WS, Garrett SS, Brott M, King RA (2005) P genemutations associated with oculocutaneous albinism type II (OCA2). Hum Mutat 25:323
Puri N, Gardner JM, Brilliant MH (2000) Aberrant pH of melanosomes in pink-eyed dilution (p) mutant melanocytes. J Invest Dermatol 115:607–613
Saitoh S, Oiso N, Wada T, Narazaki O, Fukai K (2000) Oculocutaneous albinism type 2 with a P gene missense mutation in a patient with Angelman syndrome. J Med Genet 37:392–394
Satoh Y, Kawada A (1986) Action spectrum for melanin pigmentation to ultraviolet light, and Japanese skin typing. In: Fitzpatrick TB et al. (eds) Brown melanoderma. Biology and disease of epidermal pigmentation. University of Tokyo Press, Tokyo, pp 87–95
Sturm RA (2006) A golden age of human pigmentation genetics. Trends Genet 22:464–468
Suzuki T, Miyamura Y, Matsunaga J, Shimizu H, Kawachi Y, Ohyama N, Ishikawa O, Ishikawa T, Terao H, Tomita Y (2003a) Six novel P gene mutations and oculocutaneous albinism type 2 frequency in Japanese albino patients. J Invest Dermatol 120:781–783
Suzuki T, Miyamura Y, Tomita Y (2003b) High frequency of the Ala481Thr mutation of the P gene in the Japanese population. Am J Med Genet 118A:402–403
Sviderskaya EV, Bennett DC, Ho L, Bailin T, Lee ST, Spritsz RA (1997) Complementation of hypopigmentation in p-mutant (pink-eyed dilution) mouse melanocytes by normal human P cDNA, and defective complementation by OCA2 mutant sequences. J Invest Dermatol 108:30–34
Watanabe G, Umetsu K, Yuasa I, Suzuki T (1997) Amplified product length polymorphism (APLP): a novel strategy for genotyping the ABO blood group. Hum Genet 99:34–37
Xue Y, Zerjal T, Bao W, Zhu S, Shu Q, Xu J, Du R, Fu S, Li P, Hurles ME, Yang H, Tyler-Smith C (2006) Male demography in East Asia: a north–south contrast in human population expansion times. Genetics 172:2431–2439
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Yuasa, I., Umetsu, K., Harihara, S. et al. OCA2*481Thr, a hypofunctional allele in pigmentation, is characteristic of northeastern Asian populations. J Hum Genet 52, 690–693 (2007). https://doi.org/10.1007/s10038-007-0167-9
- Population study
- Skin color
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