The Identification of Novel CYP2D6 Variants in US Hmong: Results From Genome Sequencing and Clinical Genotyping

Ya Feng Wen, Andrea Gaedigk, Erin C. Boone, Wendy Y. Wang, Robert J. Straka

Research output: Contribution to journalArticlepeer-review

Abstract

Objective: Hmong individuals represent a unique East Asian subpopulation in whom limited information concerning pharmacogenetic variation exists. The objectives of this study were to comprehensively characterize the highly polymorphic CYP2D6 gene in Hmong, estimate allele and phenotype frequencies and to compare results between two testing platforms. Methods: DNA from 48 self-identified Hmong participants were sequenced using a targeted next-generation sequencing (NGS) panel. Star allele calls were made using Astrolabe, manual inspection of NGS variant calls and confirmatory Sanger sequencing. Structural variation was determined by long-range (XL)-PCR and digital droplet PCR (ddPCR). The consensus diplotypes were subsequently translated into phenotype utilizing the activity score system. Clinical grade pharmacogenetic testing was obtained for 12 of the 48 samples enabling an assessment of concordance between the consensus calls and those determined by clinical testing platforms. Results: A total of 13 CYP2D6 alleles were identified. The most common alleles were CYP2D6*10 and its structural arrangements (37.5%, 36/96) and the *5 gene deletion (13.5%, 13/96). Three novel suballeles (*10.007, *36.004, and *75.002) were also identified. Phenotype frequencies were as follows: ultrarapid metabolizers (4.2%, 2/48), normal metabolizers (41.7%, 20/48) and intermediate metabolizers (52.1%, 25/48); none of the 48 participants were predicted to be poor metabolizers. Concordance of diplotype and phenotype calls between the consensus and clinical testing were 66.7 and 50%, respectively. Conclusion: Our study to explore CYP2D6 genotypes in the Hmong population suggests that this subpopulation is unique regarding CYP2D6 allelic variants; also, a higher portion of Hmong participants (50%) are predicted to have an intermediate metabolizer phenotype for CYP2D6 compared to other East Asians which range between 27 and 44%. Results from different testing methods varied considerably. These preliminary findings underscore the importance of thoroughly interrogating unique subpopulations to accurately predict a patient’s CYP2D6 metabolizer status.

Original languageEnglish (US)
Article number867331
JournalFrontiers in Pharmacology
Volume13
DOIs
StatePublished - Mar 21 2022

Bibliographical note

Funding Information:
Grand Challenge Exploratory Research Award, Office of the Executive Vice President and Provost, University of Minnesota and National Institutes of Health’s National Center for Advancing Translational Sciences, grant UL1TR002494.

Publisher Copyright:
Copyright © 2022 Wen, Gaedigk, Boone, Wang and Straka.

Keywords

  • CYP2D6
  • Hmong
  • ethnic variability
  • minority health
  • pharmacogenetics
  • population genetics
  • targeted exome sequencing

PubMed: MeSH publication types

  • Journal Article

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