Haplotype association mapping identifies a candidate gene region in mice infected with staphylococcus aureus

G3: Genes, Genomes, Genetics

Volumn 2, Issue 6, 2012, Pages 693-700

  Johnson, Nicole V ^a   Ahn, Sun Hee ^b   Deshmukh, Hitesh ^c   Levin, Mikhail K ^d   Nelson, Charlotte L ^b   Scott, William K ^e   Allen, Andrew ^a   Fowler, Vance G ^b   Cowell, Lindsay G ^d  

^a DUKE UNIVERSITY SCHOOL OF MEDICINE   (United States)

^b DUKE UNIVERSITY MEDICAL CENTER   (United States)

^c UNIVERSITY AT BUFFALO   (United States)

^d UNIVERSITY OF TEXAS SOUTHWESTERN MEDICAL CENTER   (United States)

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

Author keywords

Family; Host genetic susceptibility; Infectious disease; Kallikrein gene

Indexed keywords

EID: 84883412486     PISSN: None     EISSN: 21601836     Source Type: Journal    
DOI: 10.1534/g3.112.002501     Document Type: Article

References (40)

1. Ahn, S. H., H. S. Deshmukh, N. V. Johnson, L. G. Cowell, T. H. Rude et al., 2010 Two genes on A/J chromosome 18 are associated with susceptibility to Staphylococcus aureus infection by combined microarray and quantitative trait locus (QTL) Analyses. Plos Pathog. 6: e1001088.
2. Anholt, R. R. H., and T. F. C. Mackay, 2009 Principles of Behavioral Genetics. Academic Press, London.
3. Benjamini, Y., and Y. Hochberg, 1995 Controlling the false discovery rate: a practical and powerful approach to multiple testing. J. R. Stat. Soc., B 57: 289-300.
4. Bopp, S. E., V. Ramachandran, K. Henson, A. Luzader, M. Lindstrom et al., 2010 Genome wide analysis of inbred mouse lines identifies a locus containing Ppar-gamma as contributing to enhanced malaria survival. PLoS ONE 5: e10903.
5. Burgess-Herbert, S. L., S. W. Tsaih, I. M. Stylianou, K. Walsh, A. J. Cox et al., 2009 An experimental assessment of in silico haplotype association mapping in laboratory mice. BMC Genet. 10: 81.
6. Cervino, A. C., G. Li, S. Edwards, J. Zhu, C. Laurie et al., 2005 Integrating QTL and high-density SNP analyses in mice to identify Insig2 as a susceptibility gene for plasma cholesterol levels. Genomics 86: 505-517.
7. Cervino, A. C., A. Darvasi, M. Fallahi, C. C. Mader, and N. F. Tsinoremas, 2007 An integrated in silico gene mapping strategy in inbred mice. Genetics 175: 321-333.
8. Deshmukh, H. S., J. B. Hamburger, S. H. Ahn, D. G. McCafferty, S. R. Yang et al., 2009 Critical role of NOD2 in regulating the immune response to Staphylococcus aureus. Infect. Immun. 77: 1376-1382.
9. Embil, J., K. Ramotar, L. Romance, M. Alfa, J. Conly et al., 1994 Methicillin-resistant Staphylococcus aureus in tertiary care institutions on the Canadian prairies 1990-1992. Infect. Control Hosp. Epidemiol. 15: 646-651.
10. Faigle, W., G. Raposo, D. Tenza, V. Pinet, A. B. Vogt et al., 1998 Deficient peptide loading and MHC class II endosomal sorting in a human genetic immunodeficiency disease: the Chediak-Higashi syndrome. J. Cell Biol. 141: 1121-1134.
11. Ferry, T., T. Perpoint, F. Vandenesch, and J. Etienne, 2005 Virulence determinants in Staphylococcus aureus and their involvement in clinical syndromes. Curr. Infect. Dis. Rep. 7: 420-428.
12. Ge, Y., S. Dudoit, and T. P. Speed, 2003 Resampling-based multiple testing for microarray data analysis. Test 12: 1-77.
13. Grupe, A., S. Germer, J. Usuka, D. Aud, J. K. Belknap et al., 2001 In silico mapping of complex disease-related traits in mice. Science 292: 1915-1918. Hegmann, J. P., and B. Possidente, 1981 Estimating genetic correlations from inbred strains. Behav. Genet. 11: 103-114.
14. Hegmann, J. P., and B. Possidente, 1981 Estimating genetic correlations from inbred strains. Behav. Genet. 11: 103-114.
15. Hill, P. C., C. G. Wong, L. M. Voss, S. L. Taylor, S. Pottumarthy et al., 2001 Prospective study of 125 cases of Staphylococcus aureus bacteremia in children in New Zealand. Pediatr. Infect. Dis. J. 20: 868-873.
16. Hillebrandt, S., H. E. Wasmuth, R. Weiskirchen, C. Hellerbrand, H. Keppeler et al., 2005 Complement factor 5 is a quantitative trait gene that modifies liver fibrogenesis in mice and humans. Nat. Genet. 37: 835-843.
17. Irizarry, R. A., B. Hobbs, F. Collin, Y. D. Beazer-Barclay, K. J. Antonellis et al., 2003 Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics 4: 249-264.
18. Kang, H. M., N. A. Zaitlen, C. M. Wade, A. Kirby, D. Heckerman et al., 2008 Efficient control of population structure in model organism association mapping. Genetics 178: 1709-1723.
19. Kirby, A., H. M. Kang, C. M. Wade, C. J. Cotsapas, E. Kostem et al., 2010 Fine mapping in 94 inbred mouse strains using a high-density haplotype resource. Genetics 185: 1081-1095.
20. Kopf, M., H. Baumann, G. Freer, M. Freudenberg, M. Lamers et al., 1994 Impaired immune and acute-phase responses in interleukin-6-deficient mice. Nature 368: 339-342.
21. Laupland, K. B., D. L. Church, M. Mucenski, L. R. Sutherland, and H. D. Davies, 2003 Population-based study of the epidemiology of and the risk factors for invasive Staphylococcus aureus infections. J. Infect. Dis. 187: 1452-1459.
22. McClurg, P., J. Janes, C. Wu, D. L. Delano, J. R. Walker et al., 2007 Genomewide association analysis in diverse inbred mice: power and population structure. Genetics 176: 675-683.
23. Moreau, M. E., N. Garbacki, G. Molinaro, N. J. Brown, F. Marceau et al., 2005 The kallikrein-kinin system: current and future pharmacological targets. J. Pharmacol. Sci. 99: 6-38.
24. Morizane, S., K. Yamasaki, F. D. Kabigting, and R. L. Gallo, 2010 Kallikrein expression and cathelicidin processing are independently controlled in keratinocytes by calcium, vitamin D(3), and retinoic acid. J. Invest. Dermatol. 130: 1297-1306.
25. Nadeau, J. H., J. B. Singer, A. Matin, and E. S. Lander, 2000 Analysing complex genetic traits with chromosome substitution strains. Nat. Genet. 24: 221-225.
26. Noble, W. C., H. A. Valkenburg, and C. H. Wolters, 1967 Carriage of Staphylococcus aureus in random samples of a normal population. J. Hyg. (Lond.) 65: 567-573.
27. Payseur, B. A., and M. Place, 2007 Prospects for association mapping in classical inbred mouse strains. Genetics 175: 1999-2008.
28. Pletcher, M. T., P. McClurg, S. Batalov, A. I. Su, S. W. Barnes et al., 2004 Use of a dense single nucleotide polymorphism map for in silico mapping in the mouse. PLoS Biol. 2: e393.
29. Rangnekar, A. S., F. Lammert, A. Igolnikov, and R. M. Green, 2006 Quantitative trait loci analysis of mice administered the methionine- choline deficient dietary model of experimental steatohepatitis. Liver Int. 26: 1000-1005.
30. Smith, J. D., D. James, H. M. Dansky, K. M. Wittkowski, K. J. Moore et al., 2003 In silico quantitative trait locus map for atherosclerosis susceptibility in apolipoprotein E-deficient mice. Arterioscler. Thromb. Vasc. Biol. 23: 117-122.
31. Sotiropoulou, G., and G. Pampalakis, 2010 Kallikrein-related peptidases: bridges between immune functions and extracellular matrix degradation. Biol. Chem. 391: 321-331.
32. Sotiropoulou, G., G. Pampalakis, and E. P. Diamandis, 2009 Functional roles of human kallikrein-related peptidases. J. Biol. Chem. 284: 32989-32994.
33. Storey, J. D., and R. Tibshirani, 2003 Statistical significance for genomewide studies. Proc. Natl. Acad. Sci. USA 100: 9440-9445.
34. Tong, S. Y., E. J. Bishop, R. A. Lilliebridge, A. C. Cheng, Z. Spasova-Penkova et al., 2009 Community-associated strains of methicillin-resistant Staphylococcus aureus and methicillin-susceptible S. aureus in indigenous Northern Australia: epidemiology and outcomes. J. Infect. Dis. 199: 1461-1470.
35. Tsaih, S. W., and R. Korstanje, 2009 Haplotype association mapping in mice. Methods Mol. Biol. 573: 213-222.
36. van der Poll, T., C. V. Keogh, X. Guirao, W. A. Buurman, M. Kopf et al., 1997 Interleukin-6 gene-deficient mice show impaired defense against pneumococcal pneumonia. J. Infect. Dis. 176: 439-444.
37. von Kockritz-Blickwede, M., M. Rohde, S. Oehmcke, L. S. Miller, A. L. Cheung et al., 2008 Immunological mechanisms underlying the genetic predisposition to severe Staphylococcus aureus infection in the mouse model. Am. J. Pathol. 173: 1657-1668.
38. Walter, N. A., S. K. McWeeney, S. T. Peters, J. K. Belknap, R. Hitzemann et al., 2007 SNPs matter: impact on detection of differential expression. Nat. Methods 4: 679-680.
39. Yang, I. V., C. M. Wade, H. M. Kang, S. Alper, H. Rutledge et al., 2009 Identification of novel genes that mediate innate immunity using inbred mice. Genetics 183: 1535-1544.
40. Zimakoff, J., V. T. Rosdahl, W. Petersen, and J. Scheibel, 1988 Recurrent staphylococcal furunculosis in families. Scand. J. Infect. Dis. 20: 403-405