OBJECTIVE

We aimed to identify hemoglobin A1c (HbA1c)-associated genetic variants and examine their implications for glycemic status evaluated by HbA1c in U.S. Hispanics/Latinos with diverse genetic ancestries.

RESEARCH DESIGN AND METHODS

We conducted a genome-wide association study (GWAS) of HbA1c in 9,636 U.S. Hispanics/Latinos without diabetes from the Hispanic Community Health Study/Study of Latinos, followed by a replication among 4,729 U.S. Hispanics/Latinos from three independent studies.

RESULTS

Our GWAS and replication analyses showed 10 previously known and novel loci associated with HbA1c at genome-wide significance levels (P < 5.0 × 10−8). In particular, two African ancestry–specific variants, HBB-rs334 and G6PD-rs1050828, which are causal mutations for sickle cell disease and G6PD deficiency, respectively, had ∼10 times larger effect sizes on HbA1c levels (β = −0.31% [−3.4 mmol/mol]) and −0.35% [−3.8 mmol/mol] per minor allele, respectively) compared with other HbA1c-associated variants (0.03–0.04% [0.3–0.4 mmol/mol] per allele). A novel Amerindian ancestry–specific variant, HBM-rs145546625, was associated with HbA1c and hematologic traits but not with fasting glucose. The prevalence of hyperglycemia (prediabetes and diabetes) defined using fasting glucose or oral glucose tolerance test 2-h glucose was similar between carriers of HBB-rs334 or G6PD-rs1050828 HbA1c-lowering alleles and noncarriers, whereas the prevalence of hyperglycemia defined using HbA1c was significantly lower in carriers than in noncarriers (12.2% vs. 28.4%, P < 0.001). After recalibration of the HbA1c level taking HBB-rs334 and G6PD-rs1050828 into account, the prevalence of hyperglycemia in carriers was similar to noncarriers (31.3% vs. 28.4%, P = 0.28).

CONCLUSIONS

This study in U.S. Hispanics/Latinos found several ancestry-specific alleles associated with HbA1c through erythrocyte-related rather than glycemic-related pathways. The potential influences of these nonglycemic-related variants need to be considered when the HbA1c test is performed.

Glycated hemoglobin (HbA1c) results from nonenzymatic and mostly irreversible chemical modification by glucose of hemoglobin molecules carried in erythrocytes. HbA1c reflects the average concentration of blood glucose over the average life span of an erythrocyte (∼3 months in humans) and indicates glycemic status over a longer period compared with fasting glucose (1). Thus, HbA1c is used both as a measure of glycemic control and as a diagnostic criterion for diabetes (2).

HbA1c levels are heritable, with a heritability of ∼50% (3). Previous genome-wide association studies (GWAS) have identified several diabetes- and glucose metabolism–related genetic loci associated with HbA1c (47). In addition, GWAS have identified several erythrocyte-related genetic loci that are associated with HbA1c (4,79). HbA1c levels attributed to nonglycemic-related genetic variants may not reflect glycemic status, and this implication has been noted in diabetes screening and diagnosis (4,7,9,10). For example, the common G6PD variant rs1050828, which affects red blood cell (RBC) life span, was recently found to be associated with lower HbA1c in African Americans, and it was estimated that 650,000 African Americans with diabetes would be missed when screened by HbA1c if this genetic information was not taken into account (10). Another study reported that African Americans with sickle cell trait, who are heterozygous for an abnormal hemoglobin allele and usually have no symptoms of sickle cell disease, had lower HbA1c levels compared with those without sickle cell trait (11).

Prior GWAS of HbA1c levels have been largely conducted in populations of European ancestry (4,5,12) and East Asians (6,7,13). A recent transethnic genome-wide meta-analysis included individuals from other ethnic groups (e.g., African American, South Asian) (10), but no GWAS of HbA1c levels has been conducted in U.S. Hispanics/Latinos. Understanding genetic determinants of HbA1 in this population is of public health and clinical importance because U.S. Hispanics/Latinos, the largest minority group in the U.S., are disproportionally affected by diabetes (14) and also have poorer diabetes management compared with non-Hispanic whites (15). Moreover, the diverse U.S. Hispanic/Latino population, admixture of African, European, and Amerindian ancestries, may offer opportunities to identify novel ancestry-specific alleles affecting HbA1c levels (16). Therefore, this study conducted a GWAS of HbA1c in U.S. Hispanics/Latinos of diverse backgrounds using data from the Hispanic Community Health Study/Study of Latinos (HCHS/SOL) and replicated novel genetic variants associated with HbA1c levels using data from other Hispanic/Latino cohorts. We also examined the potential implications of nonglycemic-related HbA1c variants for glycemic status evaluated using HbA1c.

Study Participants

The HCHS/SOL is a population-based study of 16,415 Hispanic/Latino adults, aged 18–74 years, living in four U.S. metropolitan areas (Bronx, NY; Chicago, IL; Miami, FL; and San Diego, CA) (17,18). A comprehensive battery of interviews relating to personal and family characteristics and health status and behaviors, and a clinical assessment with a blood draw, were conducted at an in-person baseline clinic visit during 2008–2011. The Starr County Health Study (SCHS) is a population-based study of 1,980 Mexican-American adults (aged ≥20 years) in Starr County, TX. Survey collection has been previously described (19). The Boston Puerto Rican Health Study (BPRHS) is a longitudinal cohort of 1,500 Puerto Rican adults (aged 45–75 years) living in the greater Boston, MA, area. Baseline data from this ongoing study have been described elsewhere (20). The BioMe Biobank is an ongoing hospital- and outpatient-based population research study that has enrolled more than 34,000 participants since September 2007. This is a electronic medical records–linked biobank that integrates research data and clinical care information for consented patients at the Mount Sinai Medical Center, which serves diverse local communities of upper Manhattan (21).

The analysis excluded participants with diabetes (self-reported, on antihyperglycemic medications, HbA1c ≥6.5% [48 mmol/mol], fasting glucose ≥200 mg/dL, or glucose ≥200 mg/dL after oral glucose tolerance test [OGTT]), those with self-reported history of major blood abnormalities (self-reported, if known), and those who had received a blood transfusion 3 months before HbA1c measures. The GWAS of HbA1c levels described here included 9,636 U.S. Hispanics/Latinos from the HCHS/SOL (discovery study) and 4,777 U.S. Hispanics/Latinos from three replication studies, the SCHS (n = 395), the BPRHS (n = 832), and the BioMe (n = 3,550). Characteristics of study participants are reported in Supplementary Table 1. The study was approved by the Institutional Review Boards at all participating institutions, and all participants gave written informed consent.

HbA1c, Plasma Glucose, Liver, and Hematologic Measures

In the HCHS/SOL, HbA1c was measured in EDTA whole blood using a Tosoh G7 automated high-performance liquid chromatography analyzer (Tosoh Bioscience, San Francisco, CA). In the SCHS, HbA1c was measured in EDTA whole blood using the DCA Vantage Analyzer point of care device (Siemens, Malvern, PA) following standard protocols. In the BPRHS, a Tosoh G7 automated high-performance liquid chromatography analyzer was used to measure HbA1c. In the BioMe, data on HbA1c were extracted from electronic medical records of participants at the time of enrollment. In the HCHS/SOL, plasma glucose (fasting and 2 h OGTT glucose) was measured using a hexokinase enzymatic method (Roche Diagnostics Corporation, Indianapolis, IN). Hemogram and platelet count were measured using a Sysmex XE-2100 instrument (Sysmex America, Mundelein, IL). Serum iron and unsaturated iron binding capacity (UIBC) were measured on a Roche Modular P chemistry analyzer using a Fe reagent kit and a UIBC reagent kit, respectively (Roche Diagnostics), and ferritin was measured in serum with Roche reagents on a Cobas 6000 Analyzer (Roche Diagnostics) using a particle-enhanced immunoturbidimetric assay. Total iron binding capacity was calculated as the sum of serum iron and UIBC, and transferrin saturation was calculated as the percentage of serum iron in total iron binding capacity. Alanine aminotransferase (ALT) and aspartate aminotransferase (AST) were measured in serum on a Roche Modular P Chemistry Analyzer using an α-ketoglutaratic enzymatic method (Roche Diagnostics). Suspected nonalcoholic fatty liver disease was defined by the elevated aminotransferase levels as AST >31 IU/mL or ALT >40 IU/mL for men and AST or ALT >31 IU/mL for women (22).

Genotyping and Imputation

In the HCHS/SOL, genotyping was performed with an Illumina custom array (15041502 B3), which consists of the Illumina Omni 2.5M array (HumanOmni 2.5-8v1-1) plus ∼150,000 custom single nucleotide polymorphisms (SNPs), with the quality control performed at the HCHS/SOL Genetic Analysis Center (16). Genome-wide imputation was performed with 1000 Genomes Project (1000G) phase 1 worldwide reference panel (v3, released March 2012) using SHAPEIT2 and IMPUTE2 software, as described previously (16). In the SCHS, genome-wide SNPs were genotyped using the Affymetrix Genome-Wide Human SNP Array 6.0 and imputed to the 1000G phase 1 reference data (19). In the BPRHS, genome-wide SNPs were genotyped using the Affymetrix Axiom Genome-Wide LAT Array and imputed to the 1000G phase 1 reference data (23). In the BioMe, genome-wide SNPs were genotyped with the Illumina OmniExpressExome (BioMe-OMNI) (n = 1,867) or the Illumina Multi-Ethnic Global BeadChip (BioMe-MEGA) array (n = 1,683) and imputed to the 1000G phase 3 reference data.

Statistical Analysis

Linear mixed-effects regressions were used to test genome-wide SNP-HbA1c associations among 9,636 individuals without diabetes using data from HCHS/SOL. Correlations between individuals were accounted for by incorporating covariance matrices corresponding to genetic relatedness (kinship), household, and census block group as random effects. The model also included field center, age, sex, the first five principal components to adjust for ancestry (16), and sampling weights (24). Similar linear regression models were used to test associations between 18 potentially novel SNPs and HbA1c (P < 1 × 10−5), adjusting for age, sex, top principal components, center, and relatedness (if appropriate), using data from the three replication cohorts. Inverse variance fixed-effect meta-analyses were performed to combine the results of replication studies and to combine these with results from HCHS/SOL.

We examined the potential implications of two variants, HBB-rs334 and G6PD-rs1050828, on the screening of hyperglycemia (prediabetes and diabetes) using HbA1c among 10,470 HCHS/SOL participants without diagnosed diabetes (those with self-reported diabetes or antidiabetic medication use were not included in this analysis). We reestimated the effects of HBB-rs334 and G6PD-rs1050828 on HbA1c levels, respectively, because the additional samples included the natural right-end of HbA1c distribution, instead of cutoff at 6.5% (48 mmol/mol) in our GWAS analysis, but still without prominent influences by self-awareness or medication. Then, measured HbA1c levels were adjusted to account for genetic variants using the re-estimated effects in the following equation:

where a hemizygous AO of rs1050828 in the X chromosome for men was coded to have two copies of the A allele. A survey logistic regression was used to compare the prevalence of hyperglycemia defined using fasting glucose, 2-h glucose, or HbA1c between carriers and noncarriers of HBB-rs334 T allele or G6PD-rs1050828 A allele.

We also constructed an unweighted genetic risk score (GRS) based on five SNPs (ANK1-rs4737010, HK1-rs72805692, TMPRSS6-rs855791, HBM-rs145546625, and TMC6-rs2748424) that might be associated with HbA1c through the erythrocytic pathway according to a previous GWAS of HbA1c (10), by summing the HbA1c-raising alleles. The associations of this GRS with HbA1c level and prevalence of hyperglycemia were examined, taking into account the complex design of the HCHS/SOL study.

All analyses were performed using R 3.3.2 (R Foundation for Statistical Computing, Vienna, Austria) or SAS 9.4 (SAS Institute, Cary, NC) software.

GWAS of HbA1c

In the discovery GWAS in the HCHS/SOL, we identified 12 genome-wide significant associations with HbA1c (P < 5.0 × 10−8), 6 of which were previously known loci (G6PC2, GCK, ANK1, HK1, FN3K, and TMPRSS6) (Fig. 1 and Table 1). We then sought replication of 18 potentially novel independent SNPs with suggestive associations with HbA1c (P < 1.0 × 10−5) in three independent studies of Hispanics/Latinos in the U.S. (Supplementary Tables 2 and 3). Of note, G6PD and HBB variants (10,11) were not known to be associated with HbA1c when we selected SNPs for replication in this study. Four SNPs, including rs334 at HBB (P = 2.7 × 10−40 in HCHS/SOL), rs145546625 at HBM (P = 8.2 × 10−9), rs145546625 at TMC6 (P = 2.0 × 10−15), and rs1050828 at G6PD (P = 9.6 × 10−132), were robustly associated with HbA1c in the combined replication analyses with nominal significance (all P ≤ 0.05) (Table 1 and Supplementary Table 2). No significant heterogeneity was observed across cohorts. Regional plots for these four novel HbA1c loci are shown in Supplementary Fig. 1. The effect sizes of HBB rs334 (β = −0.31% [−3.4 mmol/mol] per minor allele) and G6PD rs1050828 (β = −0.35% [−3.8 mmol/mol] per minor allele) on HbA1c were ∼10 times larger compared with other HbA1c-related variants (Table 1).

Figure 1

Manhattan plot for GWAS of HbA1c in the HCHS/SOL. A total of 11,510,031 SNPs with MAF >0.01 were tested in 9,636 U.S. Hispanics/Latinos without diabetes from the HCHS/SOL. Six previously known loci (green), four newly identified and replicated loci (red), and two newly identified but not replicated loci (pink) associated with HbA1c at the genome-wide significance level. P < 5.0 × 10−8 (dashed line).

Figure 1

Manhattan plot for GWAS of HbA1c in the HCHS/SOL. A total of 11,510,031 SNPs with MAF >0.01 were tested in 9,636 U.S. Hispanics/Latinos without diabetes from the HCHS/SOL. Six previously known loci (green), four newly identified and replicated loci (red), and two newly identified but not replicated loci (pink) associated with HbA1c at the genome-wide significance level. P < 5.0 × 10−8 (dashed line).

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Table 1

Summary of genetic variants associated with HbA1c in U.S. Hispanics/Latinos

SNP
Nearest gene
Chr
Position
Allele
HCHS/SOL
Replication P value*
Effect
 
Other
 
EAF
 
β (SE)
 
P value
 
Previously known loci before 2017          
 rs557462 G6PC2/ABCB11 169777595 0.182 −0.03 (0.01) 5.7 × 10−9  
 rs2971670 GCK 44226101 0.202 0.04 (0.01) 2.9 × 10−11  
 rs4737010 ANK1 41630447 0.263 0.03 (0.01) 5.1 × 10−10  
 rs72805692 HK1 10 71099109 0.066 −0.10 (0.01) 6.1 × 10−26  
 rs2256339 FN3K 17 80693281 0.475 −0.03(0.01) 1.9 × 10−11  
 rs855791 TMPRSS6 22 37462936 0.438 0.03 (0.01) 8.7 × 10−10  
Additional loci          
 rs334 HBB 11 5248232 0.013 −0.31 (0.02) 2.7 × 10−40 0.004 
 rs145546625 HBM 16 220583 0.066 0.06 (0.01) 8.2 × 10−9 0.050 
 rs2748424 TMC6 17 76124865 0.179 0.05 (0.01) 2.0 × 10−15 0.008 
 rs1050828 G6PD 153764217 0.020 −0.35 (0.01) 9.6 × 10−132 0.003 
SNP
Nearest gene
Chr
Position
Allele
HCHS/SOL
Replication P value*
Effect
 
Other
 
EAF
 
β (SE)
 
P value
 
Previously known loci before 2017          
 rs557462 G6PC2/ABCB11 169777595 0.182 −0.03 (0.01) 5.7 × 10−9  
 rs2971670 GCK 44226101 0.202 0.04 (0.01) 2.9 × 10−11  
 rs4737010 ANK1 41630447 0.263 0.03 (0.01) 5.1 × 10−10  
 rs72805692 HK1 10 71099109 0.066 −0.10 (0.01) 6.1 × 10−26  
 rs2256339 FN3K 17 80693281 0.475 −0.03(0.01) 1.9 × 10−11  
 rs855791 TMPRSS6 22 37462936 0.438 0.03 (0.01) 8.7 × 10−10  
Additional loci          
 rs334 HBB 11 5248232 0.013 −0.31 (0.02) 2.7 × 10−40 0.004 
 rs145546625 HBM 16 220583 0.066 0.06 (0.01) 8.2 × 10−9 0.050 
 rs2748424 TMC6 17 76124865 0.179 0.05 (0.01) 2.0 × 10−15 0.008 
 rs1050828 G6PD 153764217 0.020 −0.35 (0.01) 9.6 × 10−132 0.003 

β, effect size for each effect allele of SNP on HbA1c (%); Chr, chromosome; EAF, effect allele frequency; Position, in GRCh37/hg19.

*Fixed effect meta-analysis of SCHS, BPRHS, BioMe-Omni, and BioMe-MEGA.

In analyses stratified by Hispanic/Latino background, associations between these four SNPs and HbA1c were consistent across groups with no significant heterogeneity (all P for heterogeneity ≥0.14) (Supplementary Table 4). Given that SNP rs1050828 is located at the X chromosome, we further examined the association by sex, and results were consistent between men and women. In addition, a sensitivity analysis excluding participants with iron deficiency showed similar associations between these SNPs and HbA1c (Supplementary Table 5).

Conditional Analysis

Although our lead SNP rs145546625 at TMC6 has not been reported before, three SNPs at the same locus (rs2748427, rs761772, and rs2073285) were identified in recent HbA1c GWAS (10,12,13), reaching genome-wide significance in our study as well (Supplementary Table 6 and Supplementary Fig. 2). In the joint analyses of our lead SNP with rs2748427 or rs761772, which are in moderate-to-high linkage disequilibrium (LD) with the lead SNP (r2 = 0.70, 0.53), our lead SNP showed attenuated but still suggestively significant signals (P = 2.8 ×10−5, P = 3.1 × 10−5), whereas the signals of the other SNPs became null (P = 0.59, P = 0.78) (Supplementary Table 6). The joint analysis with rs2073285 in weak LD (r2 = 0.10) showed that the lead SNP was still at genome-wide significance (P = 1.1 × 10−11), and rs2073285 was at near suggestive significance (P = 6.2 × 10−5). Expanding the conditional analysis to ∼500 kb of our lead SNP, we found a suggestive but not genome-wide significant secondary signal at rs80149164 (P = 5.3 × 10−7) (Supplementary Fig. 2).

HbA1c-Related SNPs and Hematologic Traits

We then examined associations of these newly identified four HbA1c variants with diabetes-related traits, hematologic traits (25,26), iron traits (27), and liver-related traits in the HCHS/SOL to explore potential mechanisms underlying observed SNP-HbA1c relationships. These newly identified HbA1c SNPs were significantly associated with hematologic traits rather than glycemic traits or liver-related traits (Supplementary Table 7).

Specifically, HBB-rs334 (A-to-T, Glu7Val) is a causal mutation for sickle cell trait (heterozygous of the T allele) and sickle cell disease (homozygous of the T allele), producing abnormal β-globin in hemoglobin. In line with this, the minor T allele (HbA1c-lowering allele) was associated with lower hematocrit (P = 1.3 × 10−10), mean corpuscular volume (MCV) (P = 1.1 × 10−22), and mean corpuscular hemoglobin (MCH) (P = 1.3 × 10−5), and higher mean corpuscular hemoglobin concentration (P = 3.6 × 10−16), which are hematologic characteristics for sickle cell trait and disease. G6PD-rs1050828 (G-to-A, Val98Met) is a causal mutation for glucose-6-phosphate dehydrogenase (G6PD) deficiency, resulting in the premature breakdown of RBCs. The minor A allele was associated with lower RBC count (P = 1.4 × 10−19), higher MCV (P = 3.7 × 10−13), higher MCH (P = 4.9 × 10−11), lower RBC distribution width (P = 3.7 × 10−29), higher iron (P = 3.0 × 10−5), and higher transferrin saturation (P = 1.1 × 10−6), which are hematologic characteristics for G6PD deficiency and subsequent iron overload from chronic anemia. In addition, the minor T allele of HBM-rs145546625 was associated with lower MCV and MCH.

HbA1c-Related SNPs and Screening for Diabetes and Prediabetes

Given the much larger effect sizes of HBB-rs334 and G6PD-rs1050828 on HbA1c compared with other HbA1c-related variants and their nonglycemic-related features (strong associations with hematologic traits rather than glycemic traits), we then examined the influences of these two variants on hyperglycemia screening using HbA1c.

In 10,470 participants without diagnosed diabetes (self-reported diabetes or antidiabetic medication use), 224 participants were carriers of the HBB-rs334 T allele, of which 222 individuals were heterozygous (sickle cell trait) and two individuals were homozygous of T allele (sickle cell disease) (Supplementary Table 8). Among 309 carriers of the G6PD-rs1050828 A allele in X chromosome, 91 individuals were homozygous of AA for women and AO for men, and 218 women were heterozygous. With exclusion of the two individuals with sickle cell disease by rs334 hereinafter, the A-to-T mutation of HBB-rs334 lowered HbA1c by 0.33% (3.6 mmol/mol). The G-to-A mutation of G6PD-rs1050828 lowered HbA1c by 0.35% (3.8 mmol/mol), with no significant difference by sex.

We then classified individuals into two groups, noncarriers and carriers of the HBB-rs334 T allele or G6PD-rs1050828 A allele. Carriers of HbA1c-lowering alleles tended to have lower HbA1c levels (P < 0.001) as expected, but fasting glucose and 2-h glucose levels did not differ significantly between groups (P = 0.14 and P = 0.50, respectively) (Supplementary Table 9). At the same fasting glucose levels, carriers tended to have lower measured HbA1c than noncarriers, whereas after genetic recalibration by Eq. 1, HbA1c levels in respect to fasting glucose became comparable between carriers and noncarriers (Fig. 2 and Supplementary Fig. 3).

Figure 2

Scatterplots of measured HbA1c and genetically adjusted HbA1c against fasting glucose in carriers and noncarriers of HBB-rs334 or G6PD-rs1050828 minor alleles. Zoomed-in plots among the individuals without diagnosed diabetes. Red points indicate carriers and blue points indicate noncarriers of HBB-rs334 or G6PD-rs1050828 minor alleles.

Figure 2

Scatterplots of measured HbA1c and genetically adjusted HbA1c against fasting glucose in carriers and noncarriers of HBB-rs334 or G6PD-rs1050828 minor alleles. Zoomed-in plots among the individuals without diagnosed diabetes. Red points indicate carriers and blue points indicate noncarriers of HBB-rs334 or G6PD-rs1050828 minor alleles.

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Carriers and noncarriers had comparable prevalence of hyperglycemia (prediabetes and undiagnosed diabetes) defined by fasting glucose ≥100 mg/dL or 2-h glucose ≥140 mg/dL (carriers vs. noncarriers: 21.2% vs. 25.4%, 18.6% vs. 21.8%; P = 0.10, P = 0.17, respectively), whereas carriers had lower prevalence of hyperglycemia defined by HbA1c ≥5.7% (39 mmol/mol [12.2% vs. 28.4%], P < 0.001) compared with noncarriers (Table 2). After recalibration, there was no significant difference in the prevalence of hyperglycemia defined by genetically adjusted HbA1c between carriers and noncarriers (31.3% vs. 28.4%, P = 0.28). Results were similar but not significant when we examined the potential implications of these genetic variants in the diabetes screen using HbA1c levels, which might be due to the small number of individuals with undiagnosed diabetes among carriers (Supplementary Table 10).

Table 2

Prevalence of hyperglycemia estimated based on fasting glucose, 2-h glucose, and HbA1c in carriers and noncarriers of HBB-rs334 or G6PD-rs1050828 minor alleles without diagnosed diabetes

Prevalence of hyperglycemia, % (95% CI)
CarrierNoncarrierP value
Fasting glucose ≥100 mg/dL 21.2 (16.6–25.8) 25.4 (24.0–26.8) 0.10 
Post-OGTT glucose ≥140 mg/dL 18.6 (14.2–23.0) 21.8 (20.5–23.2) 0.17 
Measured HbA1c ≥5.7% (39 mmol/mol) 12.2 (8.9–15.4) 28.4 (27.1–29.7) <0.001 
Fasting glucose ≥100 mg/dL, post-OGTT glucose ≥140 mg/dL, or HbA1c ≥5.7% (39 mmol/mol) 31.9 (26.5–37.2) 46.6 (45.0–48.2) <0.001 
Genetically adjusted HbA1c ≥5.7% (39 mmol/mol)* 31.3 (26.0–36.5) 28.4 (27.1–29.7) 0.28 
Fasting glucose ≥100 mg/dL, post-OGTT glucose ≥140 mg/dL, or genetically adjusted HbA1c ≥5.7% (39 mmol/mol)* 42.0 (36.0–48.0) 46.6 (45.0–48.2) 0.13 
Prevalence of hyperglycemia, % (95% CI)
CarrierNoncarrierP value
Fasting glucose ≥100 mg/dL 21.2 (16.6–25.8) 25.4 (24.0–26.8) 0.10 
Post-OGTT glucose ≥140 mg/dL 18.6 (14.2–23.0) 21.8 (20.5–23.2) 0.17 
Measured HbA1c ≥5.7% (39 mmol/mol) 12.2 (8.9–15.4) 28.4 (27.1–29.7) <0.001 
Fasting glucose ≥100 mg/dL, post-OGTT glucose ≥140 mg/dL, or HbA1c ≥5.7% (39 mmol/mol) 31.9 (26.5–37.2) 46.6 (45.0–48.2) <0.001 
Genetically adjusted HbA1c ≥5.7% (39 mmol/mol)* 31.3 (26.0–36.5) 28.4 (27.1–29.7) 0.28 
Fasting glucose ≥100 mg/dL, post-OGTT glucose ≥140 mg/dL, or genetically adjusted HbA1c ≥5.7% (39 mmol/mol)* 42.0 (36.0–48.0) 46.6 (45.0–48.2) 0.13 

Prevalence estimates were computed while accounting for the complex study design of HCHS/SOL.

*Hyperglycemia defined with genetically adjusted HbA1c.

Although other nonglycemic-related genetic variants have much smaller effects on HbA1c compared with HBB-rs334 and G6PD-rs1050828, a combined effect may have a considerable impact on HbA1c for the hyperglycemia screening. Hence, we constructed an unweighted GRS of five potentially erythrocytic genetic variants. As expected, the GRS showed an additive effect on HbA1c levels (Supplementary Fig. 4). We classified individuals into two groups by a cutoff of 5th percentile of the GRS. Thus, the comparison between these two groups was comparable to that between carriers (∼5% of the study population) and noncarriers (∼95% of the study population) of HBB or G6PD variants. Individuals with the bottom 5% of the GRS had lower HbA1c levels compared with those with higher GRS (mean 5.38% [35 mmol/mol] vs. 5.50% [37 mmol/mol]; P = 1.2 × 10−7). The prevalence of hyperglycemia defined by fasting glucose or 2-h glucose was comparable between the two groups, whereas the prevalence of hyperglycemia defined by HbA1c was lower in the lower GRS group than in the higher GRS group (21.9% vs. 28.1%) (Supplementary Table 11).

This study, the first GWAS of HbA1c to date among Hispanics/Latinos in the U.S., showed multiple previously known as well as novel loci associated with HbA1c at genome-wide significance level (P < 5.0 × 10−8). In particular, two blood disorder–related variants, HBB-rs334 and G6PD-rs1050828, showed ∼10-fold larger effect sizes (0.3–0.4% [3.3–4.4 mmol/mol] per allele) on HbA1c compared with other variants (0.03–0.04% [0.3–0.4 mmol/mol] per allele). The G6PD variant was recently identified in a GWAS of HbA1c in African Americans (10), and sickle cell trait (determined by the HBB-rs334) was reported to be associated with HbA1c in African Americans (11).

We found that the HbA1c level was significantly lower by 0.33% (3.6 mmol/mol; 95% CI 0.24–0.42 [2.6–4.6 mmol/mol]) per A allele of HBB-rs334 in Hispanics/Latinos, comparable to the reported difference in HbA1c between African Americans with and without sickle cell trait (0.29% [3.2 mmol/mol]; 95% CI 0.23–0.35 [2.5–3.8 mmol/mol]) (11). The missense A allele of rs334 is observed in African ancestry at a frequency of 0.1, is very rare in Amerindian ancestry at a frequency of 0.01, and does not appear in other ancestries from 1000G (25,28), which comaps with malaria risk. The homozygotes of A allele have sickle cell anemia, a lifelong disease by chronic hemolytic anemia, caused by the rigid and sickling form of RBCs formed by polymerization of hemoglobin S especially at low oxygen concentrations (29). Although the heterozygotes (AT; sickle cell trait) are asymptomatic, they have increased complications, such as urinary tract infection, splenic infarction, or sudden death, when exposed to strenuous exercise, high altitudes, dehydration, or low oxygen levels. Lacy et al. (11) hypothesized that lower HbA1c in people with sickle cell trait might be due to the shorter life span of the RBCs and accordingly less opportunity for glycation of hemoglobin. In line with this, our data in the HCHS/SOL demonstrated that this variant was not associated with fasting glucose but was associated with small RBCs (microcytes), characterized by lower MCV and MCH. Because microcytes may be more susceptible to oxidative stress, the life span of RBCs might be shortened (30). These data suggest that HBB-rs334 may influence HbA1c through hematologic mechanisms independent of blood glucose. On the contrary, it has also been postulated that lower HbA1c in individuals with sickle cell trait might be due to assay interference by hemoglobin S compared with those without sickle cell trait (11,31).

The X chromosome–linked G6PD-rs1050828 is another erythrocytic variant with a relatively large effect on HbA1c in our study of U.S. Hispanics/Latinos (−0.35% [−3.8 mmol/mol] per A allele) as well as in a previous study of African Americans (−0.40% [−4.4 mmol/mol] per A allele for men and −0.34% [−3.7 mmol/mol] for women) (10). The missense A allele in rs1050828 is African-ancestry specific (frequency 0.13), is rarely found in Amerindian ancestry (frequency 0.01), and is not seen in other ancestries (28). G6PD (G6PD) catalyzes the reaction of the pentose phosphate pathway and in turn generates the reduced form of glutathione as an antioxidant, which protects RBCs against oxidative stress (32). G6PD deficiency reduces G6PD activity, results in a premature breakdown of RBCs, and aggravates to hemolytic anemia when triggered by certain foods (fava beans), drugs, or infection. This explains the survival advantage of G6PD deficiency against malaria because it uses RBCs as a host cell (32). However, the shortened life span of RBCs may result in lower HbA1c levels, regardless of blood glucose levels (10). Further, the regulation via the erythrocytic pathway is supported by the significant associations with RBC count, red cell distribution width, MCH concentration, MCV, and higher iron levels, potentially from chronic hemolysis (33), but no association with other glycemic traits in our study.

TMC6-rs2748424 in the upstream of transmembrane channel-like 6 (TMC6, also known as epidermodysplasia verruciformis 1 [EVER1]) is a common variant observed across all ancestries (0.19–0.46 of minor allele frequency) (28). Three SNPs (rs2748427, rs761772, and rs2073285) near our lead SNP rs2748424 were previously identified in Japanese, European, and non-Hispanic/Latino transethnic populations (10,13). All of these three previously reported SNPs were at genome-wide significance in our Hispanic/Latino populations. SNPs rs2748427 and rs761772 showed moderate-to-high LD with our lead SNP, whereas rs2073285 showed weak LD (r2 = 0.1) with our lead SNP. Of note, only our lead SNP rs2748424 remained at genome-wide significance level in the conditional analysis, suggesting a potential causal signal represented by this SNP. In addition, our lead SNP and two other SNPs (rs2748427 and rs761772) in LD were related to hematologic traits, including the immature fraction of reticulocytes (34), RBCs, MCH, and MCV (35) rather than glycemic markers such as fructosamine and glycated albumin (13,36), although there were no significant associations with hematologic traits in our study. It has been hypothesized that TMC6 genetic variants may affect HbA1c, independent of blood glucose levels, through erythrocyte life span, iron handling, or glucose concentration difference across the erythrocyte membrane (13).

Lastly, to the best of our knowledge, HBM-rs145546625 was discovered and replicated in this study of Hispanics/Latinos for the first time. HBM-rs145546625 originated from Amerindian ancestry (frequency of T allele 0.08) (28). This Amerindian-specific variant is located upstream of hemoglobin-alpha2 (HBA2) and downstream of hemoglobin-mu (HBM), in high LD (r2 > 0.99) with a splice-site variant rs148323035 in HBM (25). There is evidence suggesting that these Amerindian ancestral variants may influence HbA1c levels through blood cell biology (25), but more study is warranted to elucidate how this variant may influence HbA1c through the erythrocyte pathway.

The findings of the current study provide evidence supporting the significant influences of nonglycemic-related genetic variants on diabetes screening using HbA1c tests, consistent with two previous studies (10,11). Specifically, individuals in this study carrying the HbA1c-lowering alleles of HBB-rs334 or G6PD-rs1050828 had a lower prevalence of hyperglycemia (prediabetes and diabetes) defined by HbA1c levels compared with noncarriers, whereas there were no differences in the prevalence of hyperglycemia defined by fasting glucose or post-OGTT glucose between carriers and noncarriers. In addition to findings in previous studies (10,11), our current analysis using genetically adjusted HbA1c levels demonstrated that this underestimation could be recalibrated when genetic information was taken into account. Although our study did not test influences of nonglycemic-related genetic variants on the prediction of diabetes and related complications such as stroke and coronary artery disease, these potential implications have been reported previously (37).

Taken together, these findings support the current American Diabetes Association recommendations that hemoglobin variants need to be considered when evaluating the HbA1c tests (38). However, it should be noted that the clinical interpretation of HbA1c may need to consider conditions such as shortened erythrocyte life span, hemolytic anemia, microcytosis, iron deficiency, iron overload, vitamin B12, and folate, which may impact the HbA1c levels from the changes in the opportunity of glycation, hemoglobin levels, and glycation rate (27,33,38,39). On the other hand, the increased glycated proteins from high glucose concentrations may increase the oxidative stress or alter erythrocyte conditions (40). More investigations are needed to evaluate the potential use of genetic adjustment with HbA1c levels among individuals without symptoms but at high risk of these blood abnormities (e.g., those with African ancestry and family history of sickle cell disease/trait).

In summary, this study found multiple genetic variants associated with HbA1c levels in U.S. Hispanics/Latinos, particularly two African ancestry–specific variants at HBB and G6PD and an Amerindian ancestry–specific variant at HBM. Further analysis suggested that these variants may influence HbA1c through erythrocyte-related pathways rather than glycemic-related pathways. Our findings expand the understandings of erythrocyte-related genetic determinants of HbA1c and their implications for evaluation of HbA1c tests of glycemic status in U.S. Hispanics/Latinos.

Acknowledgments. The authors thank the participants and staffs of HCHS/SOL, SCHS, Boston Puerto Rican Health Study, and BioMe Biobank for their important contributions.

Funding. HCHS/SOL was performed as a collaborative study supported by contracts from the National Heart, Lung, and Blood Institute (NHLBI) to the University of North Carolina (N01-HC-65233), University of Miami (N01-HC-65234), Albert Einstein College of Medicine (N01-HC-65235), Northwestern University (N01-HC-65236), and San Diego State University (N01-HC-65237). The following institutes/centers/offices contributed to the HCHS/SOL first funding period through a transfer of funds to the NHLBI: the National Institute on Minority Health and Health Disparities, the National Institute on Deafness and Other Communication Disorders, the National Institute of Dental and Craniofacial Research, the National Institute of Diabetes and Digestive and Kidney Diseases (NIDDK), the National Institute of Neurological Disorders and Stroke, and the National Institutes of Health Office of Dietary Supplements. The Genetic Analysis Center at the University of Washington was supported by NHLBI contracts (HHSN268201300005C AM03) and National Institute of Dental and Craniofacial Research contracts (HHSN268201300005C MOD03). Genotyping efforts were supported by NHLBI HSN 26220/20054C, National Center for Advancing Translational Sciences Clinical and Translational Science Institute grant UL1-TR-000123, and NIDDK Diabetes Research Center (DRC) grant DK-063491. SCHS was supported in part by Division of Intramural Research, National Institute of Allergy and Infectious Diseases grant AI-085014, NIDDK grants DK-020595, DK-073541, and DK-085501, and NHLBI grant HL-102830 from the National Institutes of Health and funds from the University of Texas Health Science Center at Houston. Genotyping services were provided by the Center for Inherited Disease Research, which is funded through a federal contract from the National Institutes of Health to The Johns Hopkins University, contract number HHSN268200782096C. BRPHS was funded by NHLBI grant P50-HL-105185 and National Institute on Aging grant P01-AG-023394. The Andrea and Charles Bronfman Philanthropies supported the BioMe Biobank program. Q.Q. is supported by NHLBI grants K01-HL-129892, R01-HL-060712, and R01-HL-140976, and by NIDDK grants R01-DK-119268 and R01-DK-120870.

The funding sources had no role in the study design or execution, data analysis, manuscript writing, or manuscript submission.

Duality of Interest. No potential conflicts of interest relevant to this article were reported.

Author Contributions. J.-Y.M. and Q.Q. performed the literature search, analyzed and interpreted data, and drafted the manuscript. T.L.L., D.J., T.S., and T.W. performed data analyses in the HCHS/SOL. C.S., J.E.B., C.-Q.L., C.E.S., L.E.P., E.P.B., K.L.T., J.M.O., C.L.H., and R.J.F.L. contributed to replication data. M.L.A.-S., G.A.T., Y.-D.I.C., K.D.T., M.L.D., J.C., N.S., J.I.R., and R.C.K. contributed to data generation in the HCHS/SOL. Q.Q. designed the study. All authors contributed to data interpretation and editing and reviewing the manuscript. Q.Q. is the guarantor of this work and, as such, has full access to all the data in the study and takes responsibility for the integrity of the data and the accuracy of the data analysis.

Prior Presentation. Parts of this study were presented in abstract and poster form at the 77th Scientific Sessions of the American Diabetes Association, San Diego, CA, 9–13 June 2017.

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