Transcriptome Analysis of Acetyl-Homoserine Lactone-Based Quorum Sensing Regulation in Yersinia pestis

PLoS ONE

Volumn 8, Issue 4, 2013, Pages

  LaRock, Christopher N ^b   Yu, Jing ^a   Horswill, Alexander R ^c   Parsek, Matthew R ^b   Minion, F Chris ^a  

^a IOWA STATE UNIVERSITY   (United States)

^b UNIVERSITY OF WASHINGTON   (United States)

^c UNIVERSITY OF IOWA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL RNA; MESSENGER RNA; N ACYLHOMOSERINE LACTONE; TRANSCRIPTOME;

ARTICLE; BACTERIAL GENE; BACTERIAL GROWTH; BACTERIAL SURVIVAL; CARBON SOURCE; CATABOLISM; CONTROLLED STUDY; GENE CONTROL; GENE EXPRESSION REGULATION; HIGH TEMPERATURE; METABOLIC REGULATION; NONHUMAN; NUCLEOTIDE SEQUENCE; OPERON; QUORUM SENSING; RNA ANALYSIS; TEMPERATURE DEPENDENCE; UPREGULATION; YERSINIA PESTIS; YSEIR GENE; YSPIR GENE;

ACETATES; ACYL-BUTYROLACTONES; CARBOHYDRATES; CARBON; FATTY ACIDS; FERMENTATION; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION, BACTERIAL; GLYOXYLATES; MUTATION; QUORUM SENSING; UP-REGULATION; YERSINIA PESTIS;

MAMMALIA; YERSINIA PESTIS; YERSINIA PSEUDOTUBERCULOSIS;

EID: 84876448504     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0062337     Document Type: Article

References (46)

1. Morelli G, Song Y, Mazzoni CJ, Eppinger M, Roumagnac P, et al. (2010) Yersinia pestis genome sequencing identifies patterns of global phylogenetic diversity. Nat Genet 42: 1140-1143.
2. Brown SA, Palmer KL, Whiteley M, (2008) Revisiting the host as a growth medium. Nat Rev Microbiol 6: 657-666.
3. Gage KL, Kosoy MY, (2005) Natural history of plague: perspectives from more than a century of research. Annu Rev Entomol 50: 505-528.
4. Eisen RJ, Vetter SM, Holmes JL, Bearden SW, Montenieri JA, et al. (2008) Source of host blood affects prevalence of infection and bacterial loads of Yersinia pestis in fleas. J Med Entomol 45: 933-388.
5. Eisen RJ, Wilder AP, Bearden SW, Montenieri JA, Gage KL, (2007) Early-phase transmission of Yersinia pestis by unblocked Xenopsylla cheopis (Siphonaptera: Pulicidae) is as efficient as transmission by blocked fleas. J Med Entomol 44: 678-682.
6. Erickson DL, Waterfield NR, Vadyvaloo V, Long D, Fischer ER, et al. (2007) Acute oral toxicity of Yersinia pseudotuberculosis to fleas: implications for the evolution of vector-borne transmission of plague. Cell Microbiol 9: 2658-2666.
7. Eisen RJ, Petersen JM, Higgins CL, Wong D, Levy CE, et al. (2008) Persistence of Yersinia pestis in soil under natural conditions. Emerg Infect Dis 14: 941-943.
8. Atkinson S, Throup JP, Stewart GS, Williams P, (1999) A hierarchical quorum-sensing system in Yersinia pseudotuberculosis is involved in the regulation of motility and clumping. Mol Microbiol 33: 1267-1277.
9. Ortori CA, Atkinson S, Chhabra SR, Camara M, Williams P, et al. (2007) Comprehensive profiling of N-acylhomoserine lactones produced by Yersinia pseudotuberculosis using liquid chromatography coupled to hybrid quadrupole-linear ion trap mass spectrometry. Anal Bioanal Chem 387: 497-511.
10. Atkinson S, Chang CY, Patrick HL, Buckley CM, Wang Y, et al. (2008) Functional interplay between the Yersinia pseudotuberculosis YpsRI and YtbRI quorum sensing systems modulates swimming motility by controlling expression of flhDC and fliA. Mol Microbiol 69: 137-151.
11. Chen TH, Elberg SS, (1977) Scanning electron microscopic study of virulent Yersinia pestis and Yersinia pseudotuberculosis type 1. Infect Immun 15: 972-977.
12. Jarrett CO, Deak E, Isherwood KE, Oyston PC, Fischer ER, et al. (2004) Transmission of Yersinia pestis from an infectious biofilm in the flea vector. J Infect Dis 190: 783-792.
13. Bobrov AG, Bearden SW, Fetherston JD, Khweek AA, Parrish KD, et al. (2007) Functional quorum sensing systems affect biofilm formation and protein expression in Yersinia pestis. Adv Exp Med Biol 603: 178-191.
14. Surgalla MJ, Beesley ED, (1969) Congo red-agar plating medium for detecting pigmentation in Pasteurella pestis. Appl Environ Microbiol 18: 834-837.
15. Surette MG, Bassler BL, (1999) Regulation of autoinducer production in Salmonella typhimurium. Mol Microbiol 31: 585-595.
16. Straley SC, Bowmer WS, (1986) Virulence genes regulated at the transcriptional level by Ca2+ in Yersinia pestis include structural genes for outer membrane proteins. Infect Immun 51: 445-454.
17. Schaefer AL, Greenberg EP, Parsek MR, (2001) Acylated homoserine lactone detection in Pseudomonas aeruginosa biofilms by radiolabel assay. Meth Enzymol 336: 41-47.
18. Kong CS, Yu J, Minion FC, Rajan K, (2011) Identification of biologically significant genes from combinatorial microarray data. ACS Comb Sci 13: 562-571.
19. Carruthers MD, Minion C, (2009) Transcriptome analysis of Escherichia coli O157:H7 EDL933 during heat shock. FEMS Microbiol Lett 295: 96-102.
20. Lawson JN, Lyons CR, Johnston SA, (2006) Expression profiling of Yersinia pestis during mouse pulmonary infection. DNA Cell Biol 25: 608-616.
21. Madsen ML, Nettleton D, Thacker EL, Edwards R, Minion FC, (2006) Transcriptional profiling of Mycoplasma hyopneumoniae during heat shock using microarrays. Infect Immun 74: 160-166.
22. Dudley AM, Aach J, Steffen MA, Church GM, (2002) Measuring absolute expression with microarrays with a calibrated reference sample and an extended signal intensity range. Proc Natl Acad Sci USA 99: 7554-7559.
23. Dudoit S, Yang YH, Callow MJ, Speed TP (2000) Statistical methods for identifying differentially expressed genes in replicated cDNA microarray experiments. Technical report #578. Speed Group Microarray Page. Available: http://www.stat.berkeley.edu/users/terry/zarray/Html/papersindex.html. Accessed 2013 Mar 26.
24. Yang YH, Dudoit S, Luu P, Lin DM, Peng V, et al. (2002) Normalization for cDNA microarray data: a robust composite method for addressing single and multiple slide systematic variation. Nucleic Acids Res 30: e15.
25. Wolfinger RD, Gibson G, Wolfinger ED, Bennett L, Hamadeh H, et al. (2001) Assessing gene significance from cDNA microarray expression data via mixed models. J Comp Biol 8: 625-637.
26. Storey JD, Tibshirani R, (2003) Statistical significance for genomewide studies. Proc Natl Acad Sci U S A 100: 9440-9445.
27. Gallup JM, Ackermann MR, (2006) Addressing fluorogenic real-time qPCR inhibition using the novel custom Excel file system 'Focusfield2-6GallupqPCRSet-upTool-001' to attain consistently high fidelity qPCR reactions. Biol Proced 8: 87-152.
28. Higuchi K, Kupferberg LL, Smith JL, (1959) Studies on the nutrition and physiology of Pasteurella pestis. III. Effects of calcium ions on the growth of virulent and avirulent strains of Pasteurella pestis. J Bacteriol 77: 317-321.
29. Sebbane F, Jarrett CO, Linkenhoker JR, Hinnebusch BJ, (2004) Evaluation of the role of constitutive isocitrate lyase activity in Yersinia pestis infection of the flea vector and mammalian host. Infect Immun 72: 7334-7337.
30. Hugh R, Leifson E, (1953) The taxonomic significance of fermentative versus oxidative metabolism of carbohydrates by various gram negative bacteria. J Bacteriol 66: 24-26.
31. Chen Z, Li B, Zhang J, Qin L, Zhou D, et al. (2006) Quorum sensing affects virulence-associated proteins F1, LcrV, KatY and pH6 etc. of Yersinia pestis as revealed by protein microarray-based antibody profiling. Microbes Infect 8: 2501-3508.
32. Motin VL, Georgescu AM, Fitch JP, Gu PP, Nelson DO, et al. (2004) Temporal global changes in gene expression during temperature transition in Yersinia pestis. J Bacteriol 186: 6298-6305.
33. Chauvaux S, Rosso ML, Frangeul L, Lacroix C, Labarre L, et al. (2007) Transcriptome analysis of Yersinia pestis in human plasma: an approach for discovering bacterial genes involved in septicaemic plague. Microbiology 153: 3112-3124.
34. Sebbane F, Lemaitre N, Sturdevant DE, Rebeil R, Virtaneva K, et al. (2006) Adaptive response of Yersinia pestis to extracellular effectors of innate immunity during bubonic plague. Proc Natl Acad Sci U S A 103: 11766-11771.
35. Wolfe AJ, (2005) The acetate switch. Microbiol Mol Biol Rev 69: 12-50.
36. Hillier SL, Charnetzky WT, (1981) Rapid diagnostic test that uses isocitrate lyase activity for identification of Yersinia pestis. J Clin Microbiol 13: 661-665.
37. Quan TJ, Vanderlinden JJ, Tsuchiya KR, (1982) Evaluation of a qualitative isocitrate lyase assay for rapid presumptive identification of Yersinia pestis cultures. J Clin Microbiol 15: 1178-1179.
38. Moncla BJ, Hillier SL, Charnetzky WT, (1983) Constitutive uptake and degradation of fatty acids by Yersinia pestis. J Bacteriol 153: 340-344.
39. Hinnebusch BJ, (2005) The evolution of flea-borne transmission in Yersinia pestis. Curr Issues Mol Biol 7: 197-212.
40. Fang FC, Libby SJ, Castor ME, Fung AM, (2005) Isocitrate lyase (AceA) is required for Salmonella persistence but not for acute lethal infection in mice. Infect Immun 73: 2547-2549.
41. McKinney JD, Honer zu Bentrup K, Munoz-Elias EJ, Miczak A, Chen B, et al. (2000) Persistence of Mycobacterium tuberculosis in macrophages and mice requires the glyoxylate shunt enzyme isocitrate lyase. Nature 406: 735-738.
42. Lindsey TL, Hagins JM, Sokol PA, Silo-Suh LA, (2008) Virulence determinants from a cystic fibrosis isolate of Pseudomonas aeruginosa include isocitrate lyase. Microbiology 154: 1616-1627.
43. Shelburne SA, Davenport MT, Keith DB, Musser JM, (2008) The role of complex carbohydrate metabolism in the pathogenesis of invasive streptococci. Trends Microbiol 16: 318-325.
44. Jones SA, Jorgensen M, Chowdhury FZ, Rodgers R, Hartline J, et al. (2008) Glycogen and maltose utilization by Escherichia coli O157:H7 in the mouse intestine. Infect Immun 76: 2531-2540.
45. Pieper R, Huang ST, Clark DJ, Robinson JM, Parmar PP, et al. (2008) Characterizing the dynamic nature of the Yersinia pestis periplasmic proteome in response to nutrient exhaustion and temperature change. Proteomics 8: 1442-1458.
46. Franchini AG, Egli T, (2006) Global gene expression in Escherichia coli K-12 during short-term and long-term adaptation to glucose-limited continuous culture conditions. Microbiology 152: 2111-2127.