| Literature DB >> 27785397 |
M Kuzmanovska, M Dimishkovska, I Maleva Kostovska, P Noveski, E Sukarova Stefanovska, D Plaseska-Karanfilska.
Abstract
Cytochrome P450 2D6 (CYP2D6) is an enzyme of great importance for the metabolism of clinically used drugs. More than 100 variants of the CYP2D6 gene have been identified so far. The aim of this study was to investigate the allele distribution of CYP2D6 gene variants in 100 individuals of each of the Macedonian, Albanian and Romany population, by genotyping using long range polymerase chain reaction (PCR) and a multiplex single base extension method. The most frequent variants and almost equally distributed in the three groups were the fully functional alleles *1 and *2. The most common non functional allele in all groups was *4 that was found in 22.5% of the Albanians. The most common allele with decreased activity was *41 which was found in 23.0% of the Romany ethnic group, in 11.0% of the Macedonians and in 10.5% of the Albanians. Seven percent of the Albanians, 6.0% of the Romani and 4.0% of the Macedonians were poor metabolizers, while 5.0% of the Macedonians, 1.0% of Albanians and 1.0% of the Romanies were ultrarapid metabolizers. We concluded that the CYP2D6 gene locus is highly heterogeneous in these groups and that the prevalence of the CYP2D6 allele variants and genotypes in the Republic of Macedonia is in accordance with that of other European populations.Entities:
Keywords: Allele; CYP2D6 gene; CYP450; Ethnic groups; Extensive metabolizers (EMs); Intermediate metabolizers (IMs); Poor metabolizers (PMs); Ultrarapid metabolizers (UMs)
Year: 2016 PMID: 27785397 PMCID: PMC5026269 DOI: 10.1515/bjmg-2015-0086
Source DB: PubMed Journal: Balkan J Med Genet ISSN: 1311-0160 Impact factor: 0.519
CYP2D64 major phenotype classes and two subclasses [4,7]a.
| Predicted Drug Metabolizing Phenotype | Combination of Alleles |
|---|---|
| A combination of one normal activity allele with one increased activity allele | |
| Two normal activity alleles; a combination of one increased activity allele with one decreased activity allele | |
| A combination of one normal activity allele with one decreased activity allele; a combination of one increased activity allele with one null activity allele | |
| One normal activity allele with one null activity allele; two decreased activity alleles | |
| A combination of one decreased activity allele with one null activity allele | |
| Only null activity alleles detected |
The phenotypes were derived from the Human Cytochrome P450 (CYP) Allele Nomenclature Committee website [4] and the PharmGKB website for the related Clinical Pharmacogenetics Implementation Consortium guidelines for CYP2D6 [7].
UM: ultrarapid metabolizer; EM: extensive metabolizer; IM: intermediate metabolizer; PM: poor metabolizer.
Figure 1Representative electropherogram of homozygous patient with genotype *4/*4.
Figure 2A) Representative electropherogram of a heterozygous patient without a duplication. B) Representative electropherogram of a heterozygous patient with a duplication.
CYP2D6 allele frequency in Macedonians, Albanians and Romanies.
| Allele and SNP | Location | Amino Acid Change | dbSNP ID | Functional Effect | Allele Frequency | ||
|---|---|---|---|---|---|---|---|
| Macedonians | Albanians | Romanies | |||||
| – | – | – | normal | 0.365 | 0.370 | 0.330 | |
| exon 2 exon 6 | Arg296Cys Ser486Thr | rs16947 rs1135840 | normal | 0.255 | 0.215 | 0.255 | |
| exon 5 | frameshift | rs35742686 | none | 0.020 | 0.035 | 0.015 | |
| intron 3 - exon 4 junction | splicing defect | rs3892097 | none | 0.170 | 0.225 | 0.150 | |
| ‒ | gene deletion | ‒ | none | 0.015 | 0.025 | 0.005 | |
| ‒ | frameshift | rs5030655 | none | 0.010 | 0.015 | 0.005 | |
| ‒ | Lys281del | rs5030656 | decreased | 0.000 | 0.005 | 0.005 | |
| exon 1 | Pro34Ser | rs1065852 | decreased | 0.015 | 0.005 | 0.000 | |
| exon 2 | Thr107Ile | rs28371706 | decreased | 0.000 | 0.000 | 0.000 | |
| ‒ | Arg36His | rs61736512 | decreased | 0.015 | 0.000 | 0.000 | |
| ‒ | Glu242Lys | rs28371725 | decreased | 0.110 | 0.105 | 0.230 | |
| ‒ | gene duplication | ‒ | increased | 0.020 | 0.000 | 0.005 | |
| ‒ | gene duplication | ‒ | increased | 0.005 | 0.005 | 0.000 | |
SNP: single nucleotide polymorphism; dbSNP: database SNP.
Genotype frequency of determined CYP2D6 genotypes and corresponding phenotypes.
| Predicted | Genotype | Frequency in Macedonians (%) | Frequency in Albanians (%) | Frequency in Romanies (%) |
|---|---|---|---|---|
| 0.01 | 0.00 | 0.00 | ||
| 0.03 | 0.00 | 0.01 | ||
| 0.01 | 0.01 | 0.00 | ||
| 0.14 | 0.15 | 0.13 | ||
| 0.20 | 0.13 | 0.17 | ||
| 0.00 | 0.00 | 0.01 | ||
| 0.02 | 0.00 | 0.00 | ||
| 0.01 | 0.00 | 0.00 | ||
| 0.01 | 0.00 | 0.00 | ||
| 0.05 | 0.08 | 0.12 | ||
| 0.06 | 0.05 | 0.07 | ||
| 0.01 | 0.02 | 0.00 | ||
| 0.05 | 0.03 | 0.17 | ||
| 0.01 | 0.03 | 0.01 | ||
| 0.13 | 0.17 | 0.07 | ||
| 0.02 | 0.02 | 0.01 | ||
| 0.00 | 0.02 | 0.01 | ||
| 0.09 | 0.12 | 0.02 | ||
| 0.01 | 0.00 | 0.00 | ||
| 0.00 | 0.01 | 0.00 | ||
| 0.03 | 0.02 | 0.03 | ||
| 0.00 | 0.01 | 0.00 | ||
| 0.04 | 0.04 | 0.09 | ||
| 0.01 | 0.00 | 0.00 | ||
| 0.01 | 0.00 | 0.00 | ||
| 0.01 | 0.00 | 0.00 | ||
| 0.00 | 0.01 | 0.02 | ||
| 0.00 | 0.01 | 0.00 | ||
| 0.01 | 0.00 | 0.00 | ||
| 0.00 | 0.01 | 0.00 | ||
| 0.00 | 0.03 | 0.00 | ||
| 0.03 | 0.03 | 0.06 |
Comparison of CYP2D6 allele frequencies in different populations.
| Population | Refs | Functional | Non Functional | Reduced | Duplications | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 15 | 28.00 | 32.00 | 0.00 | 16.00 | 4.00 | 0.00 | 4.00 | 2.00 | 0.00 | 0.00 | 10.00 | 2.00 | 0.00 | |
| 15 | 28.60 | 35.70 | 1.80 | 21.40 | 1.80 | 0.00 | 0.00 | 5.40 | 0.00 | 0.00 | 3.60 | 0.00 | 1.80 | |
| 15 | 32.00 | 34.00 | 0.00 | 20.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 8.00 | 0.00 | 4.00 | |
| 32 | 36.40 | 32.40 | 2.00 | 20.70 | 2.00 | 0.90 | 1.80 | 1.50 | ‒ | ‒ | ‒ | 0.50 | 1.30 | |
| 29 | 76.50 | ‒ | 2.75 | 14.00 | 1.00 | 1.50 | ‒ | ‒ | ‒ | ‒ | ‒ | ‒ | 4.00 | |
| 30 | ‒ | ‒ | 2.30 | 17.84 | ‒ | ‒ | ‒ | ‒ | ‒ | ‒ | ‒ | ‒ | 6.01 | |
| 31 | ‒ | ‒ | 1.12 | 22.87 | 3.14 | 0.02 | ‒ | ‒ | ‒ | ‒ | ‒ | 3.14 | ‒ | |
| 15 | 35.70 | 20.40 | 0.00 | 5.10 | 4.10 | 2.00 | 0.00 | 0.00 | 3.10 | 0.00 | 22.40 | 1.00 | 2.00 | |
| 27 | 24.90 | 10.80 | 0.80 | 18.70 | 9.10 | 0.00 | 1.60 | 2.70 | ‒ | ‒ | 8.60 | 5.90 | ||
| ‒ | 36.50 | 25.50 | 2.00 | 17.00 | 1.50 | 1.00 | 0.00 | 1.50 | 0.00 | 1.50 | 11.00 | 2.00 | 0.50 | |
| ‒ | 37.00 | 21.50 | 3.50 | 22.50 | 2.50 | 1.50 | 0.50 | 0.50 | 0.00 | 0.00 | 10.50 | 0.00 | 0.50 | |
| ‒ | 33.00 | 25.40 | 1.50 | 15.00 | 0.50 | 0.50 | 0.50 | 0.00 | 0.00 | 0.00 | 23.00 | 0.50 | 0.00 | |
The article does not clearly explain on which alleles the duplications occur.
This study.
Figure 3The calculated percentage of metabolizing classes within the Macedonian, Albanian and Romany population (EM: extensive metabolizers; IM: intermediate metabolizers; PM: poor metabolizers; UM: ultrarapid metabolizers).