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Logo of nihpaAbout Author manuscriptsSubmit a manuscriptHHS Public Access; Author Manuscript; Accepted for publication in peer reviewed journal;
J Allergy Clin Immunol. Author manuscript; available in PMC 2013 October 1.
Published in final edited form as:
PMCID: PMC3520130

Genetic variation in BAFF and asthma exacerbations among African American individuals

Rajesh Kumar, MD, MS,(1)* L. Keoki Williams, MD, MPH,(2)(3)* Atsushi Kato, PhD,(4) Edward L. Peterson, PhD,(5) Silvio Favoreto, Jr., DDS, PhD,(4) Katie Hulse, PhD,(4) Deli Wang, PhD,(6) Kenneth Beckman, PhD,(7) Shannon Thyne, MD,(8) Michael LeNoir, MD,(9) Kelley Meade, MD,(10) David E. Lanfear, MD, MS,(2)(3) Albert M. Levin, PhD,(11) David Favro, BS,(2) James J. Yang, PhD,(5) Kevin Weiss, MD, MPH,(11) Homer A. Boushey, MD,(12) Leslie Grammer, MD,(4) Pedro C Avila, MD,(4) Esteban G. Burchard, MD, MPH,(12)(13) and Robert Schleimer, PhD(4)

Capsule Summary

A BAFF polymorphism is associated with asthma exacerbations and serum BAFF levels. BAFF expression in vivo increases in natural rhinovirus infection. BAFF may play a role in airway antiviral immunity and impact asthma exacerbation rates.

Keywords: BAFF, B-cell activating factor, tumor necrosis factor ligand superfamily, asthma, asthma exacerbations, genetics

To the Editor

African American individuals are disproportionately affected by asthma morbidity and mortality,1 and socioeconomic factors alone do not completely account for these disparities.2 Viral illnesses, particularly from rhinovirus, are considered to be the most frequent triggers of asthma exacerbations.3 As previous studies have shown that the genetic predictors of asthma may differ between African American and white individuals,4 it stands to reason that the predictors of asthma exacerbation may also differ by race-ethnicity. We evaluated whether single nucleotide polymorphisms (SNPs) in genes thought to modulate innate immune response to respiratory viruses (primarily the RIG-I and MDA5 pathways and BAFF related genes)5 were associated with exacerbations among African American individuals with asthma.

Complete methods are outlined in the online supplement. Self-identified African American participants with asthma from three independent study cohorts were included in this analysis. This included a discovery cohort, the Chicago Initiative to Raise Asthma Health Equity (CHIRAH) study (n=321), and two replication cohorts, the Study of African Americans, Asthma, Genes & Environments (SAGE) (n=264) and the Study of Asthma Phenotypes and Pharmacogenomic Interactions by Race-Ethnicity (SAPPHIRE) (n=468) (Table E1). A subset (n=63) of unrelated African American subjects from the SAPPHIRE study also provided serum to determine levels of BAFF by an ELISA kit which specifically recognized BAFF (R&D systems, Minneapolis, MN). To assess whether rhinovirus induces BAFF expression in airways in vivo, we utilized samples from a separate study of the common cold in which asthmatic adults were evaluated within 3 days of onset of a rhinovirus upper respiratory tract infection (proven by Virochip6 in nasal lavage), and again when asymptomatic at baseline (i.e., at least 42 days following cold symptom onset).6 BAFF mRNA was quantified in nasal mucosal samples through a 2-step quantitative real-time RT-PCR.

We used multivariate, negative binomial regression to assess the relationship between genotype and risk of exacerbation in all 3 cohorts. In SAPPHIRE, Cox proportional hazards models were also used to assess the relationship between genotype and the time to exacerbation. Analysis of variance was used to assess differences in the mean serum levels of BAFF by rs17564816 genotype. Analyses of RV induced BAFF expression in vivo compared levels at a point during the acute illness (1–3 days after onset of URI) to baseline levels (42 days after the onset of the URI) using the Wilcoxon signed rank sum test for non-parametric data. All analyses were performed using SAS v9.1 (SAS Institute Inc., Cary, NC).

Of these 16 genes evaluated (see Table E2), only BAFF had an intronic SNP, rs17564816, which neared our criterion for a nominal level of significance in our discovery cohort (meeting bonferroni level of significance for the SNPs typed within a gene) with a relative rate [RR]: −2.96 (p=0.003). This borderline protective finding in the CHIRAH cohort was in contrast to the associations observed in the two other cohorts (Table 1). Specifically, the minor (A) allele of this SNP was associated with an increase in exacerbation rates in SAGE (RR 1.36, p=0.015). In SAPPHIRE, the A allele was also associated with an increase in ED visits (RR 2.32, p=0.001), oral steroid courses (RR 1.68, p=0.034), and overall exacerbation rates (RR 1.96, p=0.001). Similarly, in SAPPHIRE, the A allele was associated with a shorter time to both oral steroid prescriptions (hazard ratio [HR] 2.37, p=0.001) and ED visits (HR 2.70, p=0.001), as well as for exacerbations overall (HR 2.54, p=0.001). In a random subset of SAPPHIRE study participants, serum levels of BAFF varied by BAFF genotype (Online Figure E2). Those with the AA and AG genotypes had higher levels than those with the GG (homozygous wild type) genotypes (AA=859.3 ± 204.5 pg/ml standard deviation [SD]; AG=821.0 ± 242.5 pg/ml SD; GG=725.6 ± 253.8 pg/ml SD; Jonckheere-Terpstra test for trend p=0.022).

Table 1
Relationship between BAFF polymorphism, rs17564816, and asthma exacerbations in the SAGE and SAPPHIRE cohorts.*

In a separate sample of 15 adult asthmatics with a community-acquired upper respiratory tract infection, the copy number for BAFF mRNA was almost five fold higher in nasal epithelial cell samples taken at the time of an active rhinovirus upper respiratory tract infection (i.e., 1–3 days from the onset of symptoms mean gene copy number was 1.52x107) when compared with the post-convalescence baseline sample (i.e., at least 6 weeks after symptom onset the mean gene copy number was 3.09x106) (p<0.003, Wilcoxon signed rank test) (Figure 1A). Similarly, nasal lavage samples assayed for BAFF protein showed that BAFF was indeed induced by natural rhinovirus infection in these subjects (Figure 1B) (77.2 ± 107.3 pg/ml) when compared with the post convalescent sample (4.6 ± 6.3 pg/ml) (p=0.05, Mann Whitney test).

Figure 1
BAFF expression in vivo following Natural Rhinovirus Upper Respiratory Tract Infections

In summary, an intronic SNP in the BAFF gene, rs17564816 (A allele), was associated with asthma exacerbations in two African American asthmatic cohorts, time to first exacerbation, and higher serum levels of BAFF. BAFF was also up-regulated in response to community acquired rhinovirus infection, the most common viral infection associated with exacerbations in children and adults.7, 8 BAFF has been shown to be induced by viruses,9 and be present in elevated levels in the airway epithelium of children with RSV.10 The ability of the local tissue to mount a rapid and effective local immunoglobulin response against viruses is likely to be important in limiting of the extent and severity of virus-induced tissue damage. Our group has previously shown that dsRNA (a TLR3 ligand and activator produced by RSV and rhinovirus) potently and effectively induces BAFF production in airway epithelial cells, and that expression of BAFF is regulated by TLR3- and IFN-β-dependent signaling.11 We hypothesize that higher serum levels of BAFF are associated with a more aggressive immune response to virus, and this may be particularly important since the interaction of innate and adaptive immune responses may provoke asthma exacerbations.12

This study has limitations. Namely, there were only 5 subjects in CHIRAH with the minor allele and the allelic relationship in this cohort was in the opposite direction to the other two cohorts. Therefore the findings in CHIRAH may have been spurious. Nevertheless, the A allele of rs17564816 was consistently and robustly associated with asthma exacerbations in both SAPPHIRE and SAGE. Given the low frequency of this allele, we did not evaluate the influence of genotype on BAFF induction by rhinovirus, and further studies will be needed.

In conclusion, we evaluated polymorphisms in viral response genes and found an intronic SNP in the BAFF gene associated with asthma exacerbations in African American subjects in two of three cohorts of patients. This SNP was also associated with higher levels of BAFF compared to individuals homozygous for the G allele. Given the importance of asthma exacerbations in minority urban populations, further studies are needed to determine the genetic and environmental contributors to this complex outcome.


The authors would like to acknowledge Zhenling Huang MS for her contribution to this paper including analyses of the CHIRAH cohort.

Funding: This work was funded in part through grant support from the following institutes of the National Institutes of Health: the National Heart Lung and Blood Institute (NHLBI), the National Institute of Allergy and Infectious Diseases (NIAID), the National Institute of Environmental Health Sciences (NIEHS), and the National Institute of Diabetes and Digestive and Kidney Disease (NIDDK). Individual grant support was as follows: Dr. Kumar received support from the NHBLI (K23HL093023); Dr. Williams received support from the NIAID (R01AI079139, R01AI61774), NHLBI (R01HL079055), NIDDK (R01DK064695), the American Asthma Foundation, and the Fund for Henry Ford Hospital; Dr. Burchard received support from the NHLBI (R01HL078885, R01HL088133), the NIEHS (R01ES015794), the Robert Wood Johnson Foundation Amos Medical Faculty Development Program, and the Flight Attendant Medical Research Institute; Dr. Weiss received support from the NHLBI (U01HL072478), and Dr. Schleimer received support from the NIAID (R01AI072570), the NHLBI (R37HL068546) and the Ernest Bazley Grant; Dr. Boushey received support from the NIAID (P01 AI50496, R21AI057506); Dr. Avila received support from the NIAID (U01AI082984).


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