DGGE and real-time PCR analysis of lactic acid bacteria in bacterial communities of the phyllosphere of lettuce

Molecular Nutrition and Food Research

Volumn 52, Issue 5, 2008, Pages 614-623

  Zwielehner, Jutta ^a   Handschur, Michael ^a   Michaelsen, Astrid ^a   Irez, Selen ^a   Demel, Michael ^a   Denner, Ewald B M ^b   Haslberger, Alexander G ^a  

^a UNIVERSITY OF VIENNA   (Austria)

^b UNIVERSITY OF VETERINARY MEDICINE   (Austria)

Author keywords

DGGE; Lactic acid bacteria; Organic agriculture; Phyllosphere; RT PCR

Indexed keywords

BACTERIA (MICROORGANISMS); LACTOBACILLUS; LACTUCA; LEUCONOSTOC; MYCOBACTERIUM; PANTOEA AGGLOMERANS; PSEUDOMONAS; PSEUDOMONAS FLAVESCENS;

BACTERIAL DNA; BACTERIAL RNA; RNA 16S;

ARTICLE; BACILLACEAE; DNA FINGERPRINTING; GENETICS; ISOLATION AND PURIFICATION; LACTOBACILLUS; LETTUCE; METHODOLOGY; MICROBIOLOGY; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION;

BACILLACEAE; DNA FINGERPRINTING; DNA, BACTERIAL; LACTOBACILLUS; LETTUCE; REVERSE TRANSCRIPTASE POLYMERASE CHAIN REACTION; RNA, BACTERIAL; RNA, RIBOSOMAL, 16S;

EID: 48649083170     PISSN: 16134125     EISSN: 16134133     Source Type: Journal    
DOI: 10.1002/mnfr.200700158     Document Type: Article

References (41)

1. Lindow, S. E., Brandl, M. T., Minireview: Microbiology of the phyllosphere. Environ. Microb. 2003, 69, 1875-1883.
2. Yang, C. H., Crowley, D. E., Borneman, J., Keen, N. T., Microbial phyllosphere populations are more complex than previously realized. Microb. Ecol. 2000, 98, 3889-3894.
3. Handschur, M., Pinar, G., Gallist, B., Lubitz, W., Haslberger, A. G., Culture free DGGE and cloning based monitoring of changes in bacterial communities of salad due to processing. Food Chem. Toxicol. 2006, 43, 1595-1605.
4. Kuffner, M., Pinar, G., Hace, K., Handschur, M., Haslberger, A. G., DGGE-fingerprinting of arable soils shows differences in microbial community structure of conventional and organic farming systems. JFAE 2004, 2, 259-267.
5. Phillips, C. A., Harrison, M. A., Comparison of the microflora on organically and conventionally grown spring mix from a California processor. J. Food Prot. 2005, 68, 1143-1146.
6. Weiss, A., Hertel, C., Grothe, S., Ha, D., Hammes, W. P., Characterization of the microbiota of sprouts and their potential for application as protective cultures. Syst. Appl. Microbiol. 2007, 30, 483-493.
7. Manani, T. A., Collison, E. K., Mpuchane, S., Microflora of minimally processed frozen vegetables sold in Gaborone, Botswana. J. Food Prot. 2006, 69, 2581-2586.
8. Wei, H., Wolf, G., Hammes, W. P., Indigenous microorganisms from iceberg lettuce with adherence and antagonistic potential for use as protective culture. Innov. Food Sci. Emerg. Technol. 2006, 7, 294-301.
9. Heilig, H. G. H. J., Zoetendal, E. G., Vaughan, E. E., Marteau, P., et al., Molecular diversity of Lactobacillus spp. and other lactic acid bacteria in the human intestine as determined by specific amplification of 16S ribosomal DNA. Appl. Environ. Microbiol. 2002, 68, 114-123.
10. Karimi, O., Peata, A. S., Probiotics: Isolated bacteria strain or mixtures of different strains? Drug Today 2003, 39, 565-597.
11. Dal Bello, F., Hertel, C., Oral cavity as natural reservoir for intestinal lactobacilli. Syst. Appl. Microbiol. 2006, 29, 69-76.
12. Prescott, S. L., Bjorksten, B., Probiotics for the prevention or treatment of allergic diseases. J. Allergy Clin. Immunol. 2007, 119, 192-198.
13. Clavel, T., Haller, D., Molecular interactions between bacteria, the epithelium, and the mucosal immune system in the intestinal tract: Implications for chronic inflammation. Curr. Issues Intest. Microbiol. 2007, 8, 25-43.
14. R development core team, 2006. R: A language and environment for statistical computing. R foundation for statistical computing, Vienna, Austria. ISBN 3-900051-07-0; http:// www.R-project.org.
15. Muyzer, G., DeWaal, W. C., Uitterlinden, A. G., Profiling of complex microbial populations by denaturing gradient gel electrophoresis analysis of polymerase chain reaction-amplified genes coding for 16S rRNA. Appl. Environ. Microbiol. 1993, 59, 695-700.
16. Heuer, H., Hartung, K., Wieland, G., Kramer, I., Smalla, K., Polynucleotide probes that target a hypervariable region of 16S rRNA genes to identify bacterial isolates corresponding to bands of community fingerprints. Appl. Environ. Microbiol. 1999, 65, 1045-1049.
17. Neefs, J. M., Van de Peer, Y., Hendriks, L., De Wachter, R., Compilation of small ribosomal subunit RNA sequences. Nucleic Acids Res. 1990, 18, 2237-2317.
18. Harmsen, H. J., Gibson, G. R., Elfferich, P., Raangs, G. C. et al., Comparison of viable cell counts and fluorescence in situ hybridization using specific rRNA-based probes for the quantification of human fecal bacteria. FEMS Microbiol. Lett. 2000, 182, 125-129.
19. Walter, J., Hertel, C., Tannock, G. W., Lis, C. L., Munro, K., et al., Detection of Lactobacillus, Pediococcus, Leuconostoc and Weissella species in human feces by using group-specific PCR primers and denaturing gradient gel electrophoresis. Appl. Environ. Microbiol. 2001, 67, 2578-2585.
20. Haarman, K., Knol, J., Quantitative real-time PCR analysis of fecal lactobacillus species in infants receiving a prebiotic infant formula. Appl. Environ. Microbiol. 2006, 72, 2359-2365.
21. Cole, J. R., Chai, B., Marsh, T. L., Farris, R. J., Wang, Q., et al., The ribosomal database project (RDP-II): Previewing a new autoaligner that allows regular updates and the new prokaryotic taxonomy. Nucleic Acids Res. 2003, 31, 442-443.
22. Zoetendal, E. G., Ben-Amor, K., Akkermans, A. D., Abee, T., de Vos, W. M., DNA isolation protocols affect the detection limit of PCR approaches of bacteria in samples from the human gastrointestinal tract. Syst. Appl. Microbiol. 2001, 24, 405-410.
23. Wilcks, A., vanHoek, A. H. A. M., Joosten, R. G., Jacobsen, B. B. L., Aarts, H. J., Persistence of DNA studied in different ex vivo and in vivo rat models simulating the human gut situation. Food Chem. Toxicol. 2004, 42, 493-502.
24. Clark, P. O., Hull, S. R., Leach, F. R., Stability of Bacillus subtilis DNA in the environment. Curr. Microbiol. 1979, 2, 119-121.
25. Wintzingerode, F. V., Gobel, U. B., Stackebrandt, B., Determination of microbial diversity in environmental samples: Pitfalls of PCR-based rRNA analysis. FEMS Microbiol. Rev. 1997, 21, 213-229.
26. Eom, H. J., Seo, D. M., Selection of psychrotrophic Leuconostoc spp. producing highly active dextransucrase from lactate fermented vegetables. Int. J. Food Microbiol. 2007, 117, 61-67.
27. Barrangou, R., Yoon, S. S., Breidt, F., Jr., Fleming, H. P., Klaenhammer, T. R., Identification and characterization of Leuconostoc fallax strains isolated from an industrial sauerkraut fermentation. Appl. Environ. Microbiol. 2002, 68, 28-84.
28. Singh, R., Kansal, V. K., Augmentation of immune response in mice fed with dhi: A fermented milk containing Leuconostoc citrovorum and Lactococcus lactis. Milchwirtschaft 2003, 58, 480-482.
29. Meroth, C. B., Walter, J., Hertel, C., Brandt, M. J., Hammes, W. P., Monitoring the bacterial population dynamics in sourdough fermentation processes by using PCR-denaturing gradient gel electrophoresis. Appl. Environ. Microbiol. 2003, 69, 475-482.
30. Simpson, J. M., McCracken, V. J., Gaskins, H. R., Mackie, R. I., Denaturing gradient gel electrophoresis analysis of 16S ribosomal DNA amplicons to monitor changes in fecal bacterial populations of weaning pigs after Introduction of Lactobacillus reuteri Strain MM53. Appl. Environ. Microbiol. 2000, 66, 4705-4714.
31. Peran, L., Sierra, S., Comalada, M., Lara-Villoslada, F., A comparative study of the preventative effects exerted by two probiotics, Lactobacillus reuteri and Lactobacillus fermentum, in the trinitrobenzenesulfonic acid model of rat colitis. Br. J. Nutr. 2007, 97, 96-103.
32. Vishnivetskaya, T. A., Petrova, M. A., Urbance, J., Ponder, M., et al., Bacterial community in ancient Siberian permafrost as characterized by culture and culture-independent methods. Astrobiology 2006, 6, 400-414.
33. Yuan, I., Xu, J., Millar, B. C., Dooley, J. S., et al., Molecular identification of environmental bacteria in indoor air in the domestic home: Description of a new species of Exiguobacterium. Int. J. Environ. Health Res. 2007, 17, 75-82.
34. Rodrigues, D. F., Goris, J., Vishnivetskaya, T., Gilichinsky, D., et al., Characterization of Exiguobacterium isolates from the Siberian permafrost. Description of Exiguobacterium sibiricum sp. nov. Extremophiles 2006, 10, 285-294.
35. Chaturvedi, P., Shivahi, S., Exiguobacterium indicum sp. nov., a psychrophilic bacterium from the Hamta glacier of the Himalayan mountain ranges of India. Int. J. Evol. Microbiol. 2006, 56, 2765-2770.
36. Koseki, S., Isobe, S., Effect of ozonated water treatment on microbial control and on browning of iceberg lettuce (Lactuca sativa L.). J. Food Prot. 2006, 69, 154-160.
37. Probiotics in food. Health and nutritional properties and guidelines for evaluation. FAO Food and Nutrition Paper 85, FAO and WHO 2006.
38. Abschlussbericht der Arbeitsgruppe "Probiotische Mikroorganismenkulturen in Lebensmitteln" am BgVV Oktober 1999.
39. Tannock, G.W. (Ed.), Probiotics: A Critical Review, Horizon Scientific Press, Norwich 1999.
40. Rautava, S., Ruuskanen, O., Ouwehand, A., Salminen, S., Isolauri, E., The hygiene hypothesis of atopic disease: An extended version. J. Pediatr. Gastroenterol. Nutr. 2004, 38, 378-388.
41. Wills-Karp, M., Santeliz, J., Karp, C. L., The germless theory of allergic disease: Revisiting the hygiene hypothesis. Nat. Rev. Immunol. 2001, 1, 69-75.