Table 1

Genotype and allele frequencies and tests for deviation from Hardy-Weinberg Equilibrium (χ2 p-values given)
Region Country Population CYP3A5*1/CYP3A5*3 CYP3A5*6 CYP3A5*7
AA AG GG Total G [*3] HWE GG GA AA Total A [*6] HWE −/− -/T T/T Total T [*7] HWE
Europe Armenia Southern Armenians 0 10 90 100 0.95 1.00 100 0 0 100 0.00 N/A 100 0 0 100 0.00 N/A
Turkey Anatolian Turks 2 10 62 74 0.91 0.11 74 0 0 74 0.00 N/A 74 0 0 74 0.00 N/A
Arabian Yemen Yemeni from Hadramaut 2 21 59 82 0.85 1.00 77 5 0 82 0.03 1.00 80 2 0 82 0.01 1.00
Peninsula Yemeni from Sena and Msila 7 17 13 37 0.58 0.74 29 7 1 37 0.12 0.42 35 2 0 37 0.03 1.00
North Africa Algeria Northern Algerians 9 42 108 159 0.81 0.12 146 15 0 161 0.05 1.00 159 2 0 161 0.01 1.00
Morocco Berbers 3 28 54 85 0.80 1.00 79 7 0 86 0.04 1.00 85 1 0 86 0.01 1.00
Sudan Northern Sudanese 24 58 51 133 0.60 0.29 104 28 0 132 0.11 0.36 135 1 0 136 0.00 1.00
Sudanese from Kordofan 11 11 8 30 0.45 0.16 19 10 1 30 0.20 1.00 29 1 0 30 0.02 N/A
East Africa Ethiopia Afar 10 31 32 73 0.65 0.61 47 26 0 73 0.18 0.11 73 0 0 73 0.00 N/A
Amhara 14 22 40 76 0.67 0.004 55 19 2 76 0.15 0.67 76 0 0 76 0.00 N/A
Anuak 38 32 6 76 0.29 1.00 44 25 7 76 0.26 0.23 75 1 0 76 0.01 1.00
Maale 20 36 19 75 0.49 0.82 53 22 0 75 0.15 0.34 74 1 0 75 0.01 1.00
Oromo 12 28 34 74 0.65 0.20 55 19 1 75 0.14 1.00 75 0 0 75 0.00 N/A
Republic of South Sudan Southern Sudanese 74 42 9 125 0.24 0.46 58 50 15 123 0.33 0.42 117 8 0 125 0.03 1.00
Tanzania Chagga 28 18 4 50 0.26 0.71 36 14 0 50 0.14 0.57 41 9 0 50 0.09 1.00
Uganda Bantu speakers from Ssese 36 3 0 39 0.04 1.00 22 17 0 39 0.22 0.16 23 16 0 39 0.21 0.31
West Africa Ghana Asante 27 8 0 35 0.11 1.00 20 13 1 34 0.22 1.00 29 5 0 34 0.07 1.00
Bulsa 58 29 3 90 0.19 1.00 61 28 0 89 0.16 0.11 69 19 2 90 0.13 0.62
Kasena 28 17 2 47 0.22 1.00 31 16 0 47 0.17 0.32 35 12 0 47 0.13 1.00
Senegal Manjak 57 29 4 90 0.21 1.00 59 24 9 92 0.23 0.02 81 13 0 94 0.07 1.00
Wolof 55 31 8 94 0.25 0.27 58 31 1 90 0.18 0.29 78 15 1 94 0.09 0.55
West Central Cameroon Kotoko 18 21 0 39 0.27 0.04 23 16 1 40 0.23 0.65 36 4 0 40 0.05 1.00
Africa Shewa Arabs 26 31 12 69 0.40 0.62 42 24 3 69 0.22 1.00 60 9 0 69 0.07 1.00
Mayo Darle 66 38 13 117 0.27 0.06 71 33 13 117 0.25 0.01 102 15 0 117 0.06 1.00
Somie, Cameroonian Grassfields 36 28 1 65 0.23 0.16 44 19 2 65 0.18 1.00 52 13 0 65 0.10 1.00
Congo Congolese from Brazzaville 35 18 2 55 0.20 1.00 43 11 1 55 0.12 0.55 45 10 0 55 0.09 1.00
Nigeria Igbo 64 23 0 87 0.13 0.35 60 24 4 88 0.18 0.47 73 12 2 87 0.09 0.14
South East Malawi Chewa 66 25 1 92 0.15 1.00 66 23 3 92 0.16 0.69 60 31 0 91 0.17 0.06
Africa Lomwe 13 4 1 18 0.17 N/A 10 8 0 18 0.22 N/A 14 4 0 18 0.11 N/A
Ngoni 15 2 1 18 0.11 N/A 9 6 3 18 0.33 N/A 16 2 0 18 0.06 N/A
Tumbuka 44 18 0 62 0.15 0.34 40 17 5 62 0.22 0.14 45 17 0 62 0.14 0.59
Yao 37 18 1 56 0.18 0.67 43 12 1 56 0.13 1.00 46 10 0 56 0.09 1.00
Mozambique Sena 58 21 3 82 0.16 0.44 51 28 5 84 0.23 0.75 59 25 1 85 0.16 0.68
South Africa Bantu speakers 22 17 2 41 0.26 1.00 29 9 3 41 0.18 0.10 34 4 2 40 0.10 0.03
Zimbabwe Lemba 17 6 0 23 0.13 1.00 13 10 1 24 0.25 1.00 17 7 0 24 0.15 1.00
Zimbabweans from Mposi 36 7 4 47 0.16 0.008 36 10 3 49 0.16 0.09 34 16 2 52 0.19 1.00

HWE could not be calculated for the Lomwe and Ngoni as both populations had fewer than 50 chromosomes meaning that the test had insufficient power. No population deviated from Hardy-Weinberg equilibrium, following Bonferonni correction (for CYP3A5*3: adjusted p value = 0.00139; correction for 36 tests, for CYP3A5*6: adjusted p value=0.0015; correction for 34 tests, for CYP3A5*7: adjusted p value=0.0017; correction for 30 tests). Deviations from HWE cannot be calculated for monomorphic loci: labeled “N/A” on the Table. “Total” refers to the number of individuals, from a given population, successfully genotyped at each locus. Population refers to the grouping of individuals either by self-declared ethnicity or geography/place collected.

Bains et al.

Bains et al. BMC Genetics 2013 14:34   doi:10.1186/1471-2156-14-34

Open Data