Microarray analysis of a two-component regulatory system involved in acid resistance and proteolytic activity in Lactobacillus acidophilus

Applied and Environmental Microbiology

Volumn 71, Issue 10, 2005, Pages 5794-5804

  Azcarate Peril, M Andrea ^a   McAuliffe, Olivia ^a,c   Altermann, Eric ^a   Lick, Sonja ^a,d   Russell, W Michael ^b,e   Klaenhammer, Todd R ^a  

^a NORTH CAROLINA STATE UNIVERSITY   (United States)

^b Danisco USA Inc   (United States)

^c ANIMAL AND GRASSLAND RESEARCH AND INNOVATION CENTRE   (Ireland)

^d FEDERAL INSTITUTE FOR RISK ASSESSMENT   (Germany)

^e Mead Johnson Nutritionals   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

APPROXIMATION THEORY; BACTERIA; BIOSYNTHESIS; DAIRY PRODUCTS; ENVIRONMENTAL IMPACT; ENZYMES; GENES;

ANNOTATED GENES; MICROARRAY ANALYSIS; REGULATORY SYSTEMS; SIGNAL TRANSDUCTION;

MICROBIOLOGY;

CASAMINO ACID; PROBIOTIC AGENT; PROTEIN HISTIDINE KINASE;

MICROBIOLOGY;

ACIDIFICATION; ARTICLE; AUTOPHOSPHORYLATION; DIET SUPPLEMENTATION; DNA MICROARRAY; GENE EXPRESSION REGULATION; GENE MUTATION; GENE TARGETING; GENETIC ANALYSIS; GENOME ANALYSIS; LACTOBACILLUS ACIDOPHILUS; NONHUMAN; PROTEIN DEGRADATION; SIGNAL TRANSDUCTION; TRANSCRIPTION REGULATION; TRANSPORT KINETICS;

BACTERIAL PROTEINS; BASE SEQUENCE; CULTURE MEDIA; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION, BACTERIAL; HYDROGEN-ION CONCENTRATION; LACTOBACILLUS ACIDOPHILUS; MUTATION; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; PEPTIDE HYDROLASES; PROTEIN KINASES; SIGNAL TRANSDUCTION;

BACTERIA (MICROORGANISMS); COTTER; LACTOBACILLUS ACIDOPHILUS; LISTERIA MONOCYTOGENES;

EID: 23944443724     PISSN: 00992240     EISSN: None     Source Type: Journal    
DOI: 10.1128/AEM.71.10.5794-5804.2005     Document Type: Article

References (41)

1. Altermann, E., and T. R. Klaenhammer. 2003. GAMOLA: a new local solution for sequence annotation and analyzing draft and finished prokaryotic genomes. OMICS 7:161-169.
2. Altermann, E., W. M. Russell, M. A. Azcarate-Peril, R. Barrangou, B. L. Buck, O. McAuliffe, N. Souther, A. Dobson, T. Duong, M. Callanan, S. Lick, A. Hamrick, R. Cano, and T. R. Klaenhammer. 2004. Complete genome sequence of the probiotic lactic acid bacterium Lactobacillus acidophilus NCFM. Proc. Natl. Acad. Sci. USA 102:3906-3912.
3. Altschul, S. F., T. L. Madden, A. A. Schäffer, J. Zhang, Z. Zhang, W. Miller, and D. J. Lipman. 1997. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res. 25:3389-3402.
4. Azcarate-Peril, M. A., E. Altermann, R. L. Hoover-Fitzula, R. J. Cano, and T. R. Klaenhammer. 2004. Identification and inactivation of genetic loci involved with acid tolerance in Lactobacillus acidophilus. Appl. Environ. Microbiol. 70:5315-5322.
5. Barefoot, S. F., and T. R. Klaenhammer. 1983. Detection and activity of lactacin B, a bacteriocin produced by Lactobacillus acidophilus. Appl. Environ. Microbiol. 45:1808-1815.
6. Cotter, P. D., N. Emerson, C. G. Gahan, and C. Hill. 1999. Identification and disruption of lisRK, a genetic locus encoding a two-component signal transduction system involved in stress tolerance and virulence in Listeria monocytogenes. J. Bacteriol. 181:6840-6843.
7. Durmaz, E., S. M. Madsen, H. Israelsen, and T. R. Klaenhammer. 2002. Lactococcus lactis lytic bacteriophages of the P335 group are inhibited by overexpression of a truncated C1 repressor. J. Bacteriol. 184:6532-6543.
8. Fabret, C., V. Feher, and J. Hoch. 1999. Two-component signal transduction in Bacillus subtilis: how one organism sees its world. J. Bacteriol. 181:1975-1983.
9. Foussard, M., S. Cabantus, J. Pedelacq, V. Guiller, S. Tranier, L. Mourey, C. Birck, and J. Samama. 2001. The molecular puzzle of two-component signaling cascades. Microbes Infect. 3:417-424.
10. Galperin, M. Y., A. N. Nikolskaya, and E. V. Koonin. 2001. Novel domains of the prokaryotic two-component signal transduction systems. FEMS Microbiol. Lett. 203:11-21.
11. Heath, A., V. J. DiRita, N. L. Barg, and N. C. Engleberg. 1999. A two-component regulatory system, CsrR-CsrS, represses expression of three Streptococcus pyogenes virulence factors, hyaluronic acid capsule, streptolysin S, and pyrogenic exotoxin B. Infect. Immun. 67:5298-5305.
12. Hoch, J. A., and K. I. Varughese. 2001. Keeping signals straight in phosphorelay signal transduction. J. Bacteriol. 183:4941-4949.
13. Kleerebezem, M., J. Bockhorst, R. van Kranenburg, D. Molenaar, O. P. Kuipers, R. Leer, R. Tarchini, S. A. Peters, H. M. Sandbrink, M. W. Fiers, W. Stiekema, R. M. Lankhorst, P. A. Bron, S. M. Hoffer, M. N. Groot, R. Kerkhoven, M. De Vries, B. Ursing, W. M. De Vos, and R. J. Siezen, R. J. 2003. Complete genome sequence of Lactobacillus plantarum WCFS1. Proc. Natl. Acad. Sci. USA 100:1990-1995.
14. Knudsen, S. 2002. A biologist's guide to analysis of DNA microarray data. John Wiley & Sons, Inc., New York, N.Y.
15. Kobayashi, K., M. Ogura, H. Yamaguchi, K. Yoshida, N. Ogasawara, T. Tanaka, and Y. Fujita. 2001. Comprehensive DNA microarray analysis of Bacillus subtilis two-component regulatory systems. J. Bacteriol. 183:7365-7370.
16. Kunji, E. R. S., I. Mierau, A. Hagting, B. Poolman, and W. N. Konings. 1996. The proteolytic system of lactic acid bacteria. Antonie Leeuwenhoek 70:187-221.
17. Law, J., G. Buist, A. Haandrikman, J. Kok, G. Venema, and K. Leenhouts. 1995. A system to generate chromosomal mutations in Lactococcus lactis which allows fast analysis of targeted genes. J. Bacteriol. 177:7011-7018.
18. Lazazzera, B. A. 2001. The intracellular function of extracellular signaling peptides. Peptides 22:1519-1527.
19. Lyon, W. R., J. C. Madden, J. C. Levin, J. L. Stein, and M. G. Caparon. 2001. Mutation of luxS affects growth and virulence factor expression in Streptococcus pyogenes. Mol. Microbiol. 42:145-157.
20. Marchler-Bauer, A., J. B. Anderson, C. DeWeese-Scott, N. D. Fedorova, L. Y. Geer, S. He, D. I. Hurwitz, J. D. Jackson, A. R. Jacobs, C. J. Lanczycki, C. A. Liebert, C. Liu, T. Madej, G. H. Marchler, R. Mazumder, A. N. Nikolskaya, A. R. Panchenko, B. S. Rao, B. A. Shoemaker, V. Simonyan, J. S. Song, P. A. Thiessen, S. Vasudevan, Y. Wang, R. A. Yamashita, J. J. Yin, and S. H. Bryant. 2003. CDD: a curated Entrez database of conserved domain alignments. Nucleic Acids Res. 31:383-387.
21. Martinez-Hackert, E., and A. M. Stock. 1997. The DNA-binding domain of OmpR: crystal structures of a winged helix transcription factor. Structure 5:109-124.
22. Miller, M. B., and B. L. Bassler. 2001. Quorum sensing in bacteria. Annu. Rev. Microbiol. 55:165-199.
23. Morel-Deville, F., S. D. Ehrlich, and P. Morel. 1997. Identification by PCR of genes encoding multiple response regulators. Microbiology 143:1513-1520.
24. Morel-Deville, F., F. Fauvel, and P. Morel, P. 1998. Two-component signal-transducing systems involved in stress responses and vancomycin susceptibility in Lactobacillus sakei. Microbiology 144:2873-2883.
25. Nes, I. F., D. B. Diep, L. S. Havarstein, M. B. Brurberg, V. Eijsink, and H. Holo. 1996. Biosynthesis of bacteriocins in lactic acid bacteria. Antonie Leeuwenhoek 70:113-128.
26. Nikolskaya, A. N., and M. Y. Galperin. 2002. A novel type of conserved DNA-binding domain in the transcriptional regulators of the AlgR/AgrA/LytR family. Nucleic Acids Res. 30:2453-2459.
27. O'Connell-Motherway, M., D. van Sinderen, F. Morel-Deville, G. F. Fitzgerald, S. D. Ehrlich, and P. Morel. 2000. Six putative two-component regulatory systems isolated from Lactococcus lactis subsp. cremoris MG1363. Microbiology 46:935-947.
28. Ogura, M., H. Yamaguchi, K. Yoshida, Y. Fujita, and T. Tanaka. 2001. DNA microarray analysis of Bacillus subtilis DegU, ComA, and PhoP regulons: an approach to comprehensive analysis of B. subtilis two-component regulatory systems. Nucleic Acids Res. 29:3804-3813.
29. Parkinson, J. S. 1993. Signal transduction schemes of bacteria. Cell 73:857-871.
30. Richarme, G., and T. Dantas Caldas. 1997. Chaperone properties of the bacterial periplasmic substrate-binding proteins. J. Biol. Chem. 272:15607-15612.
31. Russell, W. M., and T. R. Klaenhammer. 2001. Efficient system for directed integration into the Lactobacillus acidophilus and Lactobacillus gasseri chromosomes via homologous recombination. Appl. Environ. Microbiol. 67:4361-4364.
32. Sanders, M. E., and T. R. Klaenhammer. 2001. Invited review: the scientific basis of Lactobacillus acidophilus NCFM functionality as a probiotic. J. Dairy Sci. 84:319-331.
33. Sebert, M. E., L. M. Palmer, M. Rosenberg, and J. N. Weiser. 2002. Microarray-based identification of htrA, a Streptococcus pneumoniae gene that is regulated by the CiaRH two-component system and contributes to nasopharyngeal colonization. Infect. Immun. 70:4059-4067.
34. Shauder, S., K. Shokat, M. G. Surette, and B. Bassler. 2001. The LuxS family of bacterial autoinducers: biosynthesis for a novel quorum-sensing signal molecule. Mol. Microbiol. 41:463-476.
35. Stock, A. M., V. L. Robinson, and P. N. Goudreau. 2000. Two-component signal transduction. Annu. Rev. Biochem. 69:183-215.
36. Sutcliffe, I. C., and R. R. Russell. 1995. Lipoproteins of gram-positive bacteria. J. Bacteriol. 177:1123-1128.
37. Tatusov, R. L., E. V. Koonin, and D. J. Lipman. 1997. A genomic perspective on protein families. Science 278:631-637.
38. Teng, F., L. Wang, K. V. Singh, B. E. Murray, and G. M. Weinstock. 2002. Involvement of PhoP-PhoS homologs in Enterococcus faecalis virulence. Infect. Immun. 70:1991-1996.
39. Walker, D. C., K. Aojama, and T. R. Klaenhammer. 1996. Electrotransformation of Lactobacillus acidophilus group A1. FEMS Microbiol. Lett. 138:233-237.
40. Walker, D. C., and T. R. Klaenhammer. 1994. Isolation of a novel IS3 group insertion element and construction of an integration vector for Lactobacillus spp. J. Bacteriol. 176:5330-5340.
41. West, A. H., and A. M. Stock. 2001. Histidine kinases and response regulator proteins in two component signaling systems. Trends Biochem. Sci. 26:369-376.