We describe for the first time the use of PCR based techniques to anal
yze the MHC class II polymorphism of the Bulgarian population. The pre
sent study provides the HLA-DRB, DQB1 allele frequencies in 116 Bulgar
ian individuals and DQA1 alleles frequencies in 100 subjects. DNA from
these individuals was typed for DRB and DQB1 typed by the PCR- Allele
Specific Amplification (PCR-ASA) method and DQA1 by PCR followed by h
ybridization using Sequence Specific Oligonucleotides (PCR-SSO). Allel
e and haplotype frequencies and linkage disequilibria are computed by
the standard methods used for the XIth International Histocompatibilit
y Workshop. The highest frequencies are 0.159, 0.109 and 0.085 for DRB
11101, DRB1*1601 and DRB1*1301 respectively. Among the eight DQA1 all
eles detected, DQA10501 (0.344) is found to be much more frequent tha
n the two most frequent alleles DQA10102 (0.225) and DQA1*0101 (0.151
). Twelve DQB1 alleles are found and three of them, DQB10301 (0.280),
DQB10502 (0.153) and DQB1*0201 (0.133) showed the highest frequencie
s. The haplotype DRB11101-DQA1*0501-DQB1*0301 (0.079) predominate cle
arly, followed by DRB11601-DQA1*0102-DDQB1*0502 (0.055) and DRB1*0101
-DQA10101-DQB1*0501. These results indicate that the Bulgarian popula
tion is characterized by features representative of the European anthr
opological type with a substantial contribution from the Southern Belt
of Europe.