Evaluating genetic susceptibility to Staphylococcus aureus bacteremia in African Americans using admixture mapping

Genes and Immunity

Volumn 18, Issue 2, 2017, Pages 95-99

  Cyr, D D ^a   Allen, A S ^a,b   Du, G J ^c   Ruffin, F ^a   Adams, C ^a   Thaden, J T ^a   Maskarinec, S A ^a   Souli, M ^a,d   Guo, S ^e   Dykxhoorn, D M ^e   Scott, W K ^e   Fowler, V G ^a  

^a DUKE UNIVERSITY MEDICAL CENTER   (United States)

^b DUKE UNIVERSITY SCHOOL OF MEDICINE   (United States)

^c DUKE UNIVERSITY   (United States)

^d UNIVERSITY OF ATHENS   (Greece)

^e UNIVERSITY OF MIAMI MILLER SCHOOL OF MEDICINE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ADMIXTURE MAPPING; ADULT; AFRICAN AMERICAN; ARTICLE; CASE CONTROL STUDY; CHROMOSOME 6; COMPARATIVE STUDY; CONTROLLED STUDY; DISEASE ASSOCIATION; FEMALE; GENE FREQUENCY; GENE MAPPING; GENETIC ANALYSIS; GENETIC SUSCEPTIBILITY; GENETIC VARIABILITY; GENETIC VARIATION; GENOME-WIDE ASSOCIATION STUDY; HLA SYSTEM; HUMAN; IMMUNE RESPONSE; INCIDENCE; MAJOR CLINICAL STUDY; MALE; NONHUMAN; PRIORITY JOURNAL; PROSPECTIVE STUDY; SINGLE NUCLEOTIDE POLYMORPHISM; STAPHYLOCOCCAL BACTEREMIA; STAPHYLOCOCCUS AUREUS; BACTEREMIA; GENETIC PREDISPOSITION; GENETICS; STAPHYLOCOCCAL INFECTIONS;

AFRICAN AMERICANS; BACTEREMIA; GENETIC PREDISPOSITION TO DISEASE; HUMANS; INCIDENCE; POLYMORPHISM, SINGLE NUCLEOTIDE; STAPHYLOCOCCAL INFECTIONS; STAPHYLOCOCCUS AUREUS;

EID: 85015951704     PISSN: 14664879     EISSN: 14765470     Source Type: Journal    
DOI: 10.1038/gene.2017.6     Document Type: Article

References (42)

1. Messina JA, Thaden JT, Sharma-Kuinkel BK, Fowler VG Jr. Impact of bacterial and human genetic variation on Staphylococcus aureus infections. PLoS Pathog 2016; 12: E1005330.
2. Ahn SH, Deshmukh H, Johnson N, Cowell LG, Rude TH, Scott WK, et al. Two genes on A/J chromosome are associated with susceptibility to Staphylococcus aureus infection by combined microarray and quantitative trait locus (QTL) analyses. PLoS Pathog 2010; 6: E1001088.
3. Johnson NV, Ahn SH, Deshmukh H, Levin MK, Nelson CL, Scott WK, et al. Haplotype association mapping identifies a candidate gene region in mice infected with Staphylococcus aureus. G3 (Bethesda) 2012; 2: 693-700.
4. Bonnefont CM, Rainard P, Cunha P, Gilbert FB, Toufeer M, Aurel MR, et al. Genetic susceptibility to S. aureus mastitis in sheep: Differential expression of mammary epithelial cells in response to live bacteria or supernatant. Physiol Genomics 2012; 44: 403-416.
5. Griesbeck-Zilch B, Osman M, Ch Kühn, Schwerin M, Bruckmaier RH, Pfaffl MW, et al. Analysis of key molecules of the innate immune system in mammary epithelial cells isolated from marker-assisted and conventionally-selected cattle. J Dairy Sci 2009; 92: 4621-4633.
6. Oestergaard LB, Christiansen MN, Schmiegelow MD, Skov RL, Andersen PS, Petersen A, et al. Familial clustering of Staphylococcus aureus bacteremia in first-degree relatives: A Danish nationwide cohort study. Ann Intern Med 2016; 165: 390-398.
7. DeLorenze GN, Nelson CL, Scott WK, Allen AS, Ray GT, Tsai AL, et al. Polymorphisms in HLA class II genes are associated with susceptibility to Staphylococcus aureus infection in a white population. J Infect Dis 2016; 213: 816-823.
8. Smith MW, Patterson N, Lautenberger JA, Truelove AL, McDonald GJ, Waliszewska A, et al. A high-density admixture map for disease gene discovery in African Americans. Am J Hum Genet 2004; 74: 1001-1013.
9. Darvasi A, Shifman S. The beauty of admixture. Nat Genet 2005; 37: 118-119.
10. Ye Z, Vasco DA, Carter TC, Brilliant MH, Schrodi SJ, Shukla SK. Genome wide association study of SNP-, gene-, pathway-based approaches to identify genes influencing susceptibility to Staphylococcus aureus infections. Front Genet 2014; 5: 125.
11. Nelson CL, Pelak K, Podgoreanu MV, Ahn SH, Scott WK, Allen AS, et al. A genomewide association study of variants associated with acquisition of Staphylococcus aureus bacteremia in a healthcare setting. BMC Infect Dis 2014; 14: 83.
12. Kallen AJ, Mu Y, Bulens S, Reingold A, Petit S, Gershman K, et al. Active Bacterial Core Surveillance (ABCs) MRSA Investigators of the Emerging Infections Program. Health care-associated invasive MRSA infections. JAMA 2010; 304: 641-648.
13. Klevens RM, Morrison MA, Nadle J, Petit S, Gershman K, Ray S, et al. Active Bacterial Core Surveillance (ABCs) MRSA Investigators. Invasive methicillin-resistant Staphylococcus aureus infections in the United States. JAMA 2007; 298: 1763-1771.
14. Zhu X, Luke A, Cooper RS, Quertermous T, Hanis C, Mosley T, et al. Admixture mapping for hypertension loci with genome-scan markers. Nat Genet 2005; 37: 177-181.
15. Bock CH, Schwartz AG, Ruterbusch JJ, Levin AM, Neslund-Dudas C, Land SJ, et al. Results from a prostate cancer admixture mapping study in African-American men. Hum Genet 2009; 126: 637-642.
16. Freedman ML, Haiman CA, Patterson N, McDonald GJ, Tandon A, Waliszewska A, et al. Admixture mapping identifies 8q24 as a prostate cancer risk locus in African-American men. Proc Natl Acad Sci USA 2006; 103: 14068-14073.
17. Scherer ML, Nalls MA, Pawlikowska L, Ziv E, Mitchell G, Huntsman S, et al. Admixture mapping of ankle-arm index: Identification of a candidate locus associated with peripheral arterial disease. J Med Genet 2010; 47: 1-7.
18. Elbein SC, Das SK, Hallman DM, Hanis CL, Hasstedt SJ. Genome-wide linkage and admixture mapping of type diabetes in African American families from the American Diabetes Association GENNID (Genetics of NIDDM) Study Cohort. Diabetes 2009; 58: 268-274.
19. Shukla SK, Rose W, Schrodi SJ. Complex host genetic susceptibility to Staphylococcus aureus infections. Trends Microbiol 2015; 23: 529-536.
20. Kotb M, Norrby-Teglund A, McGeer A, El-Sherbini H, Dorak MT, Khurshid A, et al. An immunogenetic and molecular basis for differences in outcomes of invasive group A streptococcal infections. Nat Med 2002; 8: 1398-1404.
21. Nooh MM, El-Gengehi N, Kansal R, David CS, Kotb M. HLA transgenic mice provide evidence for a direct and dominant role of HLA class II variation in modulating the severity of streptococcal sepsis. J Immunol 2007; 178: 3076-3083.
22. Llewelyn M, Sriskandan S, Peakman M, Ambrozak DR, Douek DC, Kwok WW, et al. HLA class II polymorphisms determine responses to bacterial superantigens. J Immunol 2004; 172: 1719-1726.
23. Kim J, Urban RG, Strominger JL, Wiley DC. Toxic shock syndrome toxin-1 complexed with a class II major histocompatibility molecule HLA-DR1. Science 1994; 266: 1870-1874.
24. Lavoie PM, Thibodeau J, Cloutier I, Busch R, Sékaly RP. Selective binding of bacterial toxins to major histocompatibility complex class II-expressing cells is controlled by invariant chain and HLA-DM. Proc Natl Acad Sci USA 1997; 94: 6892-6897.
25. Kinsman OS, McKenna R, Noble WC. Association between histocompatibility antigens (HLA) and nasal carriage of Staphylococcus aureus. J Med Microbiol 1983; 16: 215-220.
26. Salgado-Pabón W, Breshears L, Spaulding AR, Merriman JA, Stach CS, Horswill AR, et al. Superantigens are critical for Staphylococcus aureus Infective endocarditis, sepsis, acute kidney injury. MBio 2013; 4: E00494-13.
27. Maguire GP, Arthur AD, Boustead PJ, Dwyer B, Currie BJ. Clinical experience and outcomes of community-acquired and nosocomial methicillin-resistant Staphylococcus aureus in a northern Australian hospital. J Hosp Infect 1998; 38: 273-281.
28. Embil J, Ramotar K, Romance L, Alfa M, Conly J, Cronk S, et al. Methicillin-resistant Staphylococcus aureus in tertiary care institutions of the Canadian prairies 1990-1992. Infect Control Hosp Epidemiol 1994; 15: 646-651.
29. Hill PC, Wong CG, Voss LM, Taylor SL, Pottumarthy S, Drinkovic D, et al. Prospective study of cases of Staphylococcus aureus bacteremia in children in New Zealand. Pediatr Infect Dis J 2001; 20: 868-873.
30. Andersen PS, Pedersen JK, Fode P, Skov RL, Fowler Jr VG, Stegger M, et al. Influence of host genetics and environment on nasal carriage of Staphylococcus aureus in Danish middle-aged and elderly twins. J Infect Dis 2012; 206: 1178-1184.
31. Fowler Jr VG, Olsen MK, Corey GR, Woods CW, Cabell CH, Reller LB, et al. Clinical identifiers of complicated Staphylococcus aureus bacteremia. Arch Intern Med 2003; 163: 2066-2072.
32. Montana G, Pritchard JK. Statistical tests for admixture mapping with case-control and cases-only data. Am J Hum Genet 2004; 75: 771-789.
33. Thornton TA, Bermejo JL. Local and global ancestry inference and applications to genetic association analysis for admixed populations. Genet Epidemiol 2014; 38 (Suppl 1): S5-S12.
34. Pasaniuc B, Kennedy J, Mandoiu I. Imputation-Based Local Ancestry Inference in Admixed Populations. Proceedings of the 5th International Symposium on Bioinformatics Research and Applications. Fort Lauderdale: FL, USA, 13-16 May 2009, pp 221-233.
35. Pasaniuc B, Sankararaman S, Kimmel G, Halperin E. Inference of locus-specific ancestry in closely related populations. Bioinformatics 2009; 25: I213-i221.
36. Price AL, Tandon A, Patterson N, Barnes KC, Rafaels N, Ruczinksi I, et al. Sensitive detection of chromosomal segments of distinct ancestry in admixed populations. PLoS Genet 2009; 5: E1000519.
37. Sundquist A, Fratkin E, Do CB, Batzoglou S. Effect of genetic divergence in identifying ancestral origin using HAPAA. Genome Res 2008; 18: 676-682.
38. Seldin M, Pasaniuc B, Price AL. New approaches to disease mapping in admixed populations. Nat Rev Genet 2011; 12: 523-528.
39. Baran Y, Pasaniuc B, Sankararaman S, Torgerson DG, Gignoux C, Eng C, et al. Fast and accurate inference of local ancestry in Latino populations. Bioinformatics 2012; 28: 1359-1367.
40. The International Hapmap Consortium. A second generation human haplotype map of over 3.1 million SNPs. Nature 2007; 449: 851-861.
41. Pasaniuc B, Zaitlen N, Lettre G, Chen GK, Tandon A, Linda Kao WH, et al. Enhanced statistical tests for GWAS in admixed populations: Assessment using African Americans from CARe and a breast cancer consortium. PLoS Genet 2011; 7: E1001371.
42. Westfall PH, Young SS. Resampling-Based Multiple Testing: Examples and Methods for P-Value Adjustment. John Wiley & Sons: New York, USA, 1993.