The complete genome sequence of the meat-borne lactic acid bacterium Lactobacillus sakei 23K

Nature Biotechnology

Volumn 23, Issue 12, 2005, Pages 1527-1533

  Chaillou, Stéphane ^a   Champomier Vergès, Marie Christine ^a   Cornet, Monique ^a   Crutz Le Coq, Anne Marie ^a   Dudez, Anne Marie ^a   Martin, Véronique ^a   Beaufils, Sophie ^a   Darbon Rongère, Emmanuelle ^a   Bossy, Robert ^b   Loux, Valentin ^b   Zagorec, Monique ^a  

^a CEMAGREF   (France)

^b INRA Institut National de la Recherche Agronomique   (France)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIOLOGY; BIOFILMS; FERMENTATION; MEATS; MICROORGANISMS; OXYGEN;

LACTIC ACID BACTERIUM LACTOBACILLUS SAKEI;

GENES;

ARTICLE; BIOFILM; CELL AGGREGATION; CHROMOSOME; ENVIRONMENT; FOOD PROCESSING; GENE EXPRESSION; GENE SEQUENCE; GENOME ANALYSIS; LACTIC ACID BACTERIUM; LACTOBACILLUS SAKEI; MEAT; NUCLEOTIDE SEQUENCE; OXIDATION REDUCTION REACTION; PREDICTION; PRIORITY JOURNAL;

ANIMALS; BACTERIAL PROTEINS; BASE SEQUENCE; CHROMOSOME MAPPING; FOOD MICROBIOLOGY; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION; GENOME, BACTERIAL; LACTIC ACID; LACTOBACILLUS; MEAT; MOLECULAR SEQUENCE DATA; SIGNAL TRANSDUCTION;

BACTERIA (MICROORGANISMS); LACTOBACILLUS SAKEI;

EID: 28644443758     PISSN: 10870156     EISSN: 15461696     Source Type: Journal    
DOI: 10.1038/nbt1160     Document Type: Article

References (50)

1. Devlieghere, F., Vermeiren, L. & Debevere, J. New preservation technologies: possibilities and limitations. Int. Dairy J. 14, 273-285 (2004).
2. Vermeiren, L., Devlieghere, F. & Debevere, J. Evaluation of meat born lactic acid bacteria as protective cultures for the biopreservation of cooked meat products. Int. J. Food Microbiol. 96, 149-164 (2004).
3. Bredholt, S., Nesbakken, T. & Holck, A. Industrial application of an antilisterial strain of Lactobacillus sakei as a protective culture and its effect on the sensory acceptability of cooked, sliced, vacuum-packaged meats. Int. J. Food Microbiol. 66, 191-196 (2001).
4. Vold, L., Holck, A., Wasteson, Y. & Nissen, H. High levels background flora inhibits growth of Escherichia coli 0157H7 in ground beef. Int. J. Food Microbiol. 56, 219-225 (2000).
5. Walter, J. et al. Detection of Lactobacilli, Pediococcus, Leuconostoc, and Weisella species in Human feces by using group-specific PCR primers and denaturing gradient gel electrophoresis. Appl. Environ. Microbiol. 67, 2578-2585 (2001).
6. Dal Bello, F., Walter, J., Hammes, W.P. & Hertel, C. Increased complexity of the species composition of lactic acid bacteria in Human feces revealed by alternative incubation condition. Microb. Ecol. 45, 455-463 (2003).
7. Hammes, W.P., Bantleon, A. & Min, S. Lactic acid bacteria in meat fermentation. FEMS Microbiol. Rev. 87, 165-174 (1990).
8. Champomier-Vergès, M., Chaillou, S., Cornet, M. & Zagorec, M. Lactobacillus sakei: recent developments and future prospects. Res. Micobiol. 153, 115-123 (2002).
9. Gram, L. & Dalgaard, P. Fish spoilage bacteria - problems and solutions. Curr. Opin. Biotechnol. 13, 262-266 (2002).
10. Klappenbach, J.A., Dunbar, J.M. & Schmidt, T.M. rRNA operon copy number reflects ecological strategies of bacteria. Appl. Environ. Microbiol. 66, 1328-1333 (2000).
11. Zalkin, H. & Nygaard, P. in Escherichia coli and Salmonella typhimurium. Cellular and Molecular Biology edn. 2 (eds. Neidhardt F.C. et al.) 561-579, (ASM Press, Washington, DC, 1996).
12. Schuch, R., Garibian, A., Saxild, H.H., Piggot, P. & Nygaard, P. Nucleosides as a carbon source in Bacillus subtilis: characterization of the drm-pupG operon. Microbiol. 145, 2957-2966 (1999).
13. Gill, C.O. in Meat microbiology (ed. Brown, M.H.) 225-264 (Applied Science Publishers, New York, 1982).
14. Weber, J., Kayser, A. & Rinas, U. Metabolic flux analysis of Escherichia coli in glucose-limited continuous culture. Dynamic response to famine and feast, activation of the methylglyoxal pathway and oscillatory behaviour. Microbiol. 151, 707-716 (2005).
15. Zúniga, M., Champomier-Vergès, M., Zagorec, M. & Pérez-Martínez, G. Structural and functional analysis of the gene cluster encoding the enzymes of the arginine deiminase pathway of Lactobacillus sakei. J. Bacteriol. 180, 4154-4159 (1998).
16. Champomier-Vergès, M. et al. Relationships between arginine degradation, pH and survival in Lactobacillus sakei. FEMS Microbiol. Lett. 180, 297-304 (1999).
17. McGraw, W.T., Potempa, J., Farley, D. & Travis, J. Purification, characterization and sequence analysis of a potential virulence factor from Porphyromonas gingivalis, peptitylarginine deiminase. Infect. Immun. 67, 3248-3256 (1999).
18. Masson, F., Talon, R. & Montel, M.C. Histamine and tyramine production by bacteria from meat products. Int. J. Food Microbiol. 32, 199-207 (1996).
19. Bardócz, S. Polyamines in foods and their consequences for food quality and human health. Trends Food Sci. Technol. 6, 341-346 (1995).
20. Angelidis, A. & Smith, G.M. Three transporters mediate uptake of glycine betaine and carnitine by Listeria monocytogenes in response to hyperosmotic stress. Appl. Environ. Microbiol. 69, 1013-1022 (2003).
21. Angelidis, A. & Smith, G.M. Role of the glycine and carnitine transporters in adaptation of Listeria monocytogenes to chill stress in defined medium. Appl. Environ. Microbiol. 69, 7492-7498 (2003).
22. Marceau, A., Zagorec, M., Chaillou, S., Méra, T. & Champomier-Vergès, M. Evidence for involvement of at least proteins in adaptation of Lactobacillus sakei to cold temperatures and addition of NaCl. Appl. Environ. Microbiol. 70, 7260-7268 (2004).
23. Condon, S. Response of lactic acid bacteria to oxygen. FEMS Microbiol. Rev. 46, 269-280 (1987).
24. Hertel, C., Schmidt, G., Fischer, M., Oellers, K. & Hammes, W.P. Oxygen-dependent regulation of the expression of the catalase gene katA of Lactobacillus sakei LTH677. Appl. Environ. Microbiol. 64, 1359-1365 (1998).
25. Gopal, S. A multidomain fusion protein in Listeria monocytogenes catalyzes the two primary activities for glutathione biosynthesis. J. Bacteriol. 187, 3839-3847 (2005).
26. Davidson, P.M. in Food Microbiology, Fundamentals and Frontiers, edn. 1 (eds. Boyle, M.P., Beuchat, L.R. & Montville, T.J.) 520-549 (ASM Press, Washington, DC, 1997).
27. Pandey, A., Bringel, F. & Meyer, J.M. Iron requirement and search for siderophores in lactic acid bacteria. Appl. Microbiol. Biotechnol. 40, 735-739 (1994).
28. Mansuy, D. The great diversity of reactions catalyzed by cytochromes P450. Comp. Biochem. Physiol. C 121, 5-14 (1998).
29. Horsburgh, M.J., Clements, M.O., Crossley, H., Ingham, E. & Foster, S.J. PerR controls oxidative stress resistance and iron storage proteins and is required for virulence in Staphylococcus aureus. Infect. Immun. 69, 3744-3754 (2001).
30. Rea, R.B., Gahan, C.G.M. & Hill, C. Disruption of putative regulatory loci in Listeria monocytogenes demonstrates a significant role for Fur and PerR in virulence. Infect. Immun. 72, 717-727 (2004).
31. Pridmore, R.D. et al. The genome sequence of the probiotic intestinal bacterium Lactobacillus johnsonii NCC 533. Proc. Natl. Acad. Sci. USA 101, 2512-2517 (2004).
32. Altermann, E. et al. Complete genome sequence of the probiotic lactic acid bacterium Lactobacillus acidophilus NCFM. Proc. Natl. Acad. Sci. USA 102, 3906-3912 (2005).
33. Cucarella, C. et al. Bap, a Staphylococcus aureus surface protein involved in biofilm formation. J. Bacteriol. 183, 2888-2896 (2001).
34. Sillanpää, J. et al. Characterization of the collagen-binding S-layer protein CbsA of Lactobacillus crispatus. J. Bacteriol. 182, 6440-6450 (2000).
35. Ventura, M., Jankovic, I., Walker, D.C., Pridmore, R.D. & Zink, R. Identification and characterization of novel proteins in Lactobacillus johnsonii and Lactobacillus gasseri. Appl. Environ. Microbiol. 68, 6172-6181 (2002).
36. Jonquières, R., Bierne, H., Fiedler, F., Gounon, P. & Cossart, P. Interaction between the protein InIB of Listeria monocytogenes and lipoteichoic acid: a novel mechanism of protein association at the surface of Gram-positive bacteria. Mol. Microbiol. 34, 902-914 (1999).
37. Kleerebezem, M. et al. Complete genome sequence of Lactobacillus plantarum WCFS1. Proc. Natl. Acad. Sci. USA 100, 1900-1995 (2004).
38. T surface protein Cpf mediating coaggregation with and aggregation among pathogens. Appl. Environ. Microbiol. 70, 7078-7085 (2004).
39. Møretrø, T. et al. Sakacin P non-producing Lactobacillus sakei strains contain homologs of the sakacin P gene clusters. Res. Microbiol. 146, 949-960 (2005).
40. Chung, K.T., Dickson, J.S. & Crouse, J.D. Attachment and proliferation of bacteria on meat. J. Food Prot. 52, 173-177 (1989).
41. Fleischmann, R.D. et al. Whole genome random sequencing and assembly of Haemophilus influenzae Rd. Science 269, 496-512 (1995).
42. Dudez, A.M. et al. Physical and genetic map of the Lactobacillus sakei 23K chromosome. Microbiol. 148, 421-431 (2002).
43. Ewing, B., Hillier, L., Wendl, M.C. & Green, P. Base-calling of automated sequencer traces using Phred. I accuracy assessment. Genome Res. 8, 175-185 (1998).
44. Gordon, D., Abajian, C. & Green, P. Consed: a graphical tool for sequence finishing. Genome Res. 8, 198-202 (1998).
45. Hoebeke, M., Nicolas, P. & Bessières, P. Simultaneous exploration of multiple genomes and computer analysis results. Bioinformatics 19, 859-864 (2003).
46. Chetouani, F., Glaser, P. & Kunst, F. FindTarget: software for substractive genome analysis. Microbiol. 147, 2643-2649 (2001).
47. Altschul, S.F., Gish, W., Miller, W., Myers, E.W. & Lipman, D.J. Basic Local Alignment Search Tool. J. Mol. Biol. 215, 403-410 (1990).
48. Saier, M.H., Jr. A functional phylogenetic classification system for transmembrane solute transporters. Microbiol. Mol. Biol. Rev. 64, 354-411 (2000).
49. De Man, J.C., Rogosa, M. & Sharpe, M.E. A medium for the cultivation of lactobacilli. J. Appl. Bact. 23, 130-135 (1960).
50. Skaugen, M. & Nes, I.F. Transposition in Lactobacillus sakei: inactivation of a second lactocin S operon by the insertion of IS1520, a new member of the IS3 family of insertion sequences. Microbiol. 146, 1163-1169 (2000).