Purpose Iron is an important component of the oxygen-binding proteins and may be critical to optimal athletic performance. Previous studies have suggested that the G allele of C/G rare variant (rs1799945), which causes H63D amino acid replacement, in the HFE is associated with elevated iron indexes and may give some advantage in endurance-oriented sports. The aim of the present study was to investigate the association between the HFE H63D polymorphism and elite endurance athlete status in Japanese and Russian populations, aerobic capacity and to perform a meta-analysis using current findings and three previous studies. Methods The study involved 315 international-level endurance athletes (255 Russian and 60 Japanese) and 809 healthy controls (405 Russian and 404 Japanese). Genotyping was performed using micro-array analysis or by PCR. VO 2max in 46 male Russian endurance athletes was determined using gas analysis system. Results The frequency of the iron-increasing CG/GG genotypes was significantly higher in Russian (38.0 vs 24.9%; OR 1.85, P = 0.0003) and Japanese (13.3 vs 5.0%; OR 2.95, P = 0.011) endurance athletes compared to ethnically matched controls. The meta-analysis using five cohorts (two French, Japanese, Spanish, and Russian; 586 athletes and 1416 controls) showed significant prevalence of the CG/GG genotypes in endurance athletes compared to controls (OR 1.96, 95% CI 1.58-2.45; P = 1.7 × 10-9). Furthermore, the HFE G allele was associated with high VȮ 2max in male athletes [CC: 61.8 (6.1), CG/GG: 66.3 (7.8) ml/min/kg; P = 0.036]. Conclusions We have shown that the HFE H63D polymorphism is strongly associated with elite endurance athlete status, regardless ethnicities and aerobic capacity in Russian athletes. Keywords Gene • Genotype • Hemochromatosis • Endurance performance • Athletes Abbreviations CI Confidence intervals DNA Deoxyribonucleic acid EDTA Ethylenediaminetetraacetic acid GWAS Genome-wide association studies HFE Homeostatic iron regulator (hemochromatosis gene) HH Hereditary hemochromatosis HWE Hardy-Weinberg equilibrium PCR Polymerase chain reaction RFLP Restriction fragment length polymorphism SNP Single-nucleotide polymorphism STREGA Strengthening the reporting of genetic association TFRC Transferrin receptor VȮ 2max Maximal oxygen consumption Communicated by Michael Lindinger.