Download Supporting information Supplementary Figure 1. Linkage

Supporting information
Supplementary Figure 1. Linkage disequilibrium (LD) patterns at the 3’UTR region of HLAG in individual population samples, including the three African populations investigated in
the present study (Serer, Yansi and Tori) and the 14 populations from the 1000 Genomes
Project. LD plots are generated by Haploview66 and show correlation between all pairs of
variants. High pairwise LD (r2) between variants is illustrated with dark shading. The r2
values (× 100) for the marker pairs are listed in the corresponding boxes. For comparison
purposes, the 16 variation sites identified at the global level are represented, even if some of
them are not present in a given population sample. SER: Serer from Niakhar, Senegal; TOR:
Tori from Tori-Bossito, Benin; YRI: Yoruba from Ibadan, Nigeria; YAN: Yansi from
Bandundu, Democratic Republic of the Congo; LWK: Luhya fromWebuye, Kenya; ASW:
people of African ancestry from the southwestern United States; IBS: Iberian populations
from Spain; TSI: Toscani from Italy; CEU: Utah residents with Northern and Westhern
European ancestry; GBR: British from England and Scotland; FIN: Finnish from Finland;
JPT: Japanese from Tokyo, Japan; CHB: Han Chinese from Beijing; CHS: Han Chinese from
South China; CLM: Colombians from Medellín, Colombia; MXL: people of Mexican
ancestry from Los Angeles, California; PUR: Puerto Ricans from Puerto Rico.
Supplementary Figure 2. Extended haplotype homozygosity (EHH) decay over physical
distance for each core haplotype at the HLA-G 3’UTR region across a 300-kb region
encompassing the HLA-F, HLA-G, HLA-H, and HLA-A genes. The EHH score on both sides of
both UTR-1 (yellow) and UTR-2 (orange) haplotypes reaches a value near zero well before reaching
HLA-A.
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Supplementary Table 1. HLA-G 3’UTR haplotype frequencies in 21 worldwide population
samples
Abbreviations: 2N, total number of alleles; Ins, insertion; Del, deletion; GUI, natives of
Guinea-Bissau;16 SER, Serer from Niakhar, Senegal; TOR, Tori from Tori-Bossito, Benin;
YRI, Yoruba from Ibadan, Nigeria; YAN, Yansi from Bandundu, Democratic Republic of the
Congo; LWK, Luhya fromWebuye, Kenya; ASW, people of African ancestry from the
southwestern United States; POR, Portuguese;16 IBS, Iberian populations from Spain; TSI,
Toscani from Italy; CEU, Utah residents with Northern and Westhern European ancestry;
GBR, British from England and Scotland; FIN, Finnish from Finland; JPT, Japanese from
Tokyo, Japan; CHB, Han Chinese from Beijing; CHS, Han Chinese from South China; SEB,
Southeastern Brazilians from RibeirãoPreto, São Paulo, Brazil;17 NEB, Northeastern
Brazilians from Recife, Pernambuco, Brazil;18 CLM, Colombians from Medellín, Colombia;
MXL; people of Mexican ancestry from Los Angeles, California; PUR, Puerto Ricans from
Puerto Rico. aBecause of missing data at two variation sites (+3187A/G and +3196C/G),
haplotype frequencies were available for 127 individuals instead of 128. Haplotype sequences
are formed by the succession of polymorphisms 14-bp indel, +3001, +3003, +3010, +3027,
+3032, +3035, +3052, +3092, +3107, +3111, +3121, +3142, +3187, +3196, and +3227 along
the 3’UTR region of the HLA-G gene (in the direction 5’3’). The derived allele at each
variation site is shown in bold. Haplotypes UTR-1 to UTR-16 were named as described
elsewhere.13,17,18 The K, F, N, Q and C haplotypes previously described by Alvarez et al.16
were renamed UTR-19, UTR-21, UTR-22, UTR-24 and UTR-34, respectively, to adopt a
single nomenclature system. Other haplotypes are described for the first time in this study.
Previously published data sets are indicated by an asterisk (*).
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