Technical implementation for african pharmacogenetic studies on CYP2D6 from archived breast cancer formalin fixed paraffin-embedded (FFPE) tissues.
Nthontho Keneuoe Cecilia KC, Tawe Leabaneng L, Mugo Nduta N, Mabaka Rorisang R et al.
Breast cancer remains the most common cancer affecting women globally, with a disproportionate impact on low- and middle-income countries (LMICs), where survival is poor despite lower incidence. Conducting molecular studies in these settings is often hampered by limited resources and technical challenges, particularly when using traditional DNA sources. This is also true for pharmacogenetic studies among Africans. For this, we propose novel CYP2D6 PCR protocols optimized for formalin-fixed paraffin-embedded (FFPE) tissue blocks, a readily available and accessible resource in LMICs. Although formalin fixation can cause DNA fragmentation, FFPE tissues offer a valuable source for genetic studies.•We introduce four nested PCR-RFLP approaches targeting CYP2D6 variants for *2, *4, *17, *29 alleles (rs16947, rs3892097, rs28371706, rs59421388), which influence drug metabolism, in particular tamoxifen (breast cancer treatment)•Additionally, two amplification-refractory mutation system (ARMS) protocols are proposed to detect variants that determine CYP2D6*2 (rs5758550) and CYP2D6*29 (rs61736512) that lack suitable cleavage sites.This workflow aims to demonstrate the feasibility of pharmacogenetic studies in LMICs using FFPE samples, providing alternative techniques to traditional methods. Understanding CYP2D6 genetic variations is crucial in African populations, where tamoxifen metabolism impacts treatment efficacy. This research could improve personalized therapy and reduce mortality disparities in sub-Saharan Africa.