Quantification of ruminal Clostridium proteoclasticum by real-time PCR using a molecular beacon approach

Journal of Applied Microbiology

Volumn 103, Issue 4, 2007, Pages 1251-1261

  Paillard, D ^a   McKain, N ^a   Rincon, M T ^a   Shingfield, K J ^b   Givens, D I ^c   Wallace, R J ^a  

^a ROWETT RESEARCH INSTITUTE   (United Kingdom)

^b ANIMAL PRODUCTION RESEARCH   (Finland)

^c UNIVERSITY OF READING   (United Kingdom)

Author keywords

Biohydrogenation; Butyrivibrio; Clostridium proteoclasticum; Molecular beacon; Quantification; Real time PCR; Rumen; Stearic acid producers

Indexed keywords

CLOSTRIDIUM; GENES; LINOLEIC ACID; NUTRITION; POLYMERASE CHAIN REACTION; POLYUNSATURATED FATTY ACIDS; RNA; STEARIC ACID;

BIOHYDROGENATION; BUTYRIVIBRIO; CLOSTRIDIUM PROTEOCLASTICUM; DIGESTA; MOLECULAR BEACON; QUANTIFICATION; REAL TIME POLYMERASE CHAIN REACTIONS; RUMEN; STEARIC ACID PRODUCER; VACCENIC ACID;

PROBES;

DYE; POLYUNSATURATED FATTY ACID; RIBOSOME RNA; VACCENIC ACID;

ASSAY; BACTERIUM; CARBOXYLIC ACID; METABOLITE; MOLECULAR ANALYSIS; POLYMERASE CHAIN REACTION; QUANTITATIVE ANALYSIS; REAL TIME;

ARTICLE; BACTERIAL FLORA; BACTERIAL GENE; BACTERIAL STRAIN; BEEF CATTLE; BUTYRIVIBRIO; CLOSTRIDIUM; CLOSTRIDIUM PROTEOCLASTICUM; CONTROLLED STUDY; COW; GENE SEQUENCE; GENETIC ANALYSIS; LACTATION; MILK; NONHUMAN; QUANTITATIVE ANALYSIS; REAL TIME POLYMERASE CHAIN REACTION; RUMEN MICROORGANISM;

ANIMALIA; BACTERIA (MICROORGANISMS); BUTYRIVIBRIO; CLOSTRIDIUM PROTEOCLASTICUM;

EID: 34848849004     PISSN: 13645072     EISSN: 13652672     Source Type: Journal    
DOI: 10.1111/j.1365-2672.2007.03349.x     Document Type: Article

References (39)

1. Cole, J.R., Chai, B., Farris, R.J., Wang, Q., Kulam, S.A., McGarrell, D.M., et al. (2005) The Ribosomal Database Project (RDP-II): sequences and tools for high-throughput rRNA analysis. Nucleic Acids Res 33, D294 D296.
2. Forster, R.J., Teather, R.M., Gong, J. Deng, S.J. (1996) 16S rDNA analysis of Butyrivibrio fibrisolvens: phylogenetic position and relation to butyrate-producing anaerobic bacteria from the rumen of white-tailed deer. Lett Appl Microbiol 23, 218 222.
3. Forster, R.J., Gong, J. Teather, R.M. (1997) Group-specific 16S rRNA hybridization probes for determinative and community structure studies of Butyrivibrio fibrisolvens in the rumen. Appl Environ Microbiol 63, 1256 1260.
4. Givens, D.I. Shingfield, K.J. (2004) Food derived from animals: the impact of animal nutrition on their nutritive value and ability to sustain long-term health. Nutr Bull 29, 325 332.
5. 9-desaturase. J Nutr 130, 2285 2291.
6. Harfoot, C.G. Hazlewood, G.P. (1997) Lipid metabolism in the rumen. In The Rumen Microbial Ecosystem ed. Hobson, P.N. Stewart, C.S. pp. 382 426. London : Chapman & Hall.
7. Hobson, P.N. (1969) Rumen bacteria. In Methods in Microbiology ed. Norris, J.R. Ribbons, D.W. pp. 133 139. London : Academic Press.
8. Kemp, P., White, R.W. Lander, D.J. (1975) The hydrogenation of unsaturated fatty acids by five bacterial isolates from the sheep rumen, including a new species. J Gen Microbiol 90, 100 114.
9. Kobayashi, Y., Forster, R.J. Teather, R.M. (2000) Development of a competitive polymerase chain reaction assay for the ruminal bacterium Butyrivibrio fibrisolvens OB156 and its use for tracking an OB156-derived recombinant. FEMS Microbiol Lett 188, 185 190.
10. Koike, S. Kobayashi, Y. (2001) Development and use of competitive PCR assays for the rumen cellulolytic bacteria: Fibrobacter succinogenes, Ruminococcus albus and Ruminococcus flavefaciens. FEMS Microbiol Lett 204, 361 366.
11. Kopecny, J., Zorec, M., Mrazek, J., Kobayashi, Y. Marinsek-Logar, R. (2003) Butyrivibrio hungatei sp. nov. and Pseudobutyrivibrio xylanivorans sp. nov., butyrate-producing bacteria from the rumen. Int J Syst Evol Microbiol 53, 201 209.
12. Krause, D.O., Dalrymple, B.P., Smith, W.J., Mackie, R.I. McSweeney, C.S. (1999) 16S rDNA sequencing of Ruminococcus albus and Ruminococcus flavefaciens: design of a signature probe and its application in adult sheep. Microbiology 145, 1797 1807.
13. Kritchevsky, D. (2000) Antimutagenic and some other effects of conjugated linoleic acid. Br J Nutr 83, 459 465.
14. Liavonchanka, A., Hornung, E., Feussner, I. Rudolph, M.G. (2006) Structure and mechanism of the Propionibacterium acnes polyunsaturated fatty acid isomerase. Proc Natl Acad Sci USA 103, 2576 2581.
15. Littell, R.C., Milliken, G.A., Stroup, W.W. Wolfinger, R.D. (1996) SAS® System for Mixed Models. 50. Cary, NC : SAS Institute Inc.
16. Maeda, H., Fujimoto, C., Haruki, Y., Maeda, T., Kokeguchi, S., Petelin, M., et al. (2003) Quantitative real-time PCR using TaqMan and SYBR Green for Actinobacillus actinomycetemcomitans, Porphyromonas gingivalis, Prevotella intermedia, tetQ gene and total bacteria. FEMS Immunol Med Microbiol 39, 81 86.
17. Menotti, A., Kromhout, D., Blackburn, H., Fidanza, F., Buzina, R. Nissinen, A. (1999) Food intake patterns and 25-year mortality from coronary heart disease: cross-cultural correlations in the Seven Countries Study. The Seven Countries Study Research Group. Eur J Epidemiol 15, 507 515.
18. Mohammadi, T., Reesink, H.W., Vandenbroucke-Grauls, C.M. Savelkoul, P.H. (2003) Optimization of real-time PCR assay for rapid and sensitive detection of eubacterial 16S ribosomal DNA in platelet concentrates. J Clin Microbiol 41, 4796 4798.
19. Mrazek, J. Kopecny, J. (2001) Development of competitive PCR for detection of Butyrivibrio fibrisolvens in the rumen. Folia Microbiol (Praha) 46, 63 65.
20. Muetzel, S., Paillard, D. Wallace, R.J. (2006) Evaluation of three techniques for the extraction of DNA from rumen fluid. Reprod Nutr Dev 46 (Suppl 1 S23.
21. Ouwerkerk, D., Klieve, A.V. Forster, R.J. (2002) Enumeration of Megasphaera elsdenii in rumen contents by real-time Taq nuclease assay. J Appl Microbiol 92, 753 758.
22. Paillard, D., McKain, N., Chaudhary, L.C., Walker, N.D., Pizette, F., Koppova, I., McEwan, N.R., Kopečný, J., et al. (2007) Relation between phylogenetic position, lipid metabolism and butyrate production by different Butyrivibrio-like bacteria from the rumen. Antonie Van Leeuwenhoek (in press). Epub ahead of print 1 Nov 2006.
23. Palmquist, D.L., Lock, A.L., Shingfield, K.J. Bauman, D.E. (2005) Biosynthesis of conjugated linoleic acid in ruminants and humans. In Advances in Food and Nutrition Research Vol. 50, ed. Taylor, S.-L. pp. 179 217. San Diego : Academic Press.
24. Poddar, S.K. (2000) Symmetric vs asymmetric PCR and molecular beacon probe in the detection of a target gene of adenovirus. Mol Cell Probes 14, 25 32.
25. Poddar, S.K. (2003) Detection and discrimination of B. pertussis and B. holmesii by real-time PCR targeting IS481 using a beacon probe and probe-target melting analysis. Mol Cell Probes 17, 91 98.
26. Polan, C.E., McNeill, J.J. Tove, S.B. (1964) Biohydrogenation of unsaturated fatty acids by rumen bacteria. J Bacteriol 88, 1056 1064.
27. Reilly, K. Attwood, G.T. (1998) Detection of Clostridium proteoclasticum and closely related strains in the rumen by competitive PCR. Appl Environ Microbiol 64, 907 913.
28. Schofield, P., Pell, A.N. Krause, D.O. (1997) Molecular beacons: trial of a fluorescence-based solution hybridization technique for ecological studies with ruminal bacteria. Appl Environ Microbiol 63, 1143 1147.
29. Tajima, K., Aminov, R.I., Nagamine, T., Matsui, H., Nakamura, M. Benno, Y. (2001) Diet-dependent shifts in the bacterial population of the rumen revealed with real-time PCR. Appl Environ Microbiol 67, 2766 2774.
30. Tyagi, S. Kramer, F.R. (1996) Molecular beacons: probes that fluoresce upon hybridization. Nat Biotechnol 14, 303 308.
31. Vessby, B., Unsitupa, M., Hermansen, K., Riccardi, G., Rivellese, A.A., Tapsell, L.C., et al. (2001) Substituting dietary saturated for monounsaturated fat impairs insulin sensitivity in healthy men and women: The KANWU Study. Diabetologia 44, 312 319.
32. Vet, J.A. Marras, S.A. (2004) Design and optimization of molecular beacon real-time polymerase chain reaction assays. In Oligonucleotide Synthesis: Methods and Applications. ed. Herdewijn, P. pp. 273 290. Totowa, NJ : Humana Press, Inc.
33. van de Vossenberg, J.L. Joblin, K.N. (2003) Biohydrogenation of C18 unsaturated fatty acids to stearic acid by a strain of Butyrivibrio hungatei from the bovine rumen. Lett Appl Microbiol 37, 424 428.
34. Wahle, K.W., Heys, S.D. Rotondo, D. (2004) Conjugated linoleic acids: are they beneficial or detrimental to health? Prog Lipid Res 43, 553 587.
35. Wallace, R.J. Brammall, M. (1985) The role of different species of bacteria in the hydrolysis of protein in the rumen. J Gen Microbiol 131, 821 832.
36. Wallace, R.J., Chaudhary, L.C., McKain, N., McEwan, N.R., Richardson, A.J., Vercoe, P.E., Walker, N.D. Paillard, D. (2006) Clostridium proteoclasticum: a ruminal bacterium that forms stearic acid from linoleic acid. FEMS Microbiol Lett 265, 195 201.
37. Whigham, L.D., Cook, M.E. Atkinson, R.L. (2000) Conjugated linoleic acid: implications for human health. Pharmacol Res 42, 503 510.
38. Willems, A., Amat-Marco, M. Collins, M.D. (1996) Phylogenetic analysis of Butyrivibrio strains reveals three distinct groups of species within the Clostridium subphylum of the Gram-positive bacteria. Int J Syst Bacteriol 46, 195 199.
39. Yaqoob, P., Tricon, S., Burdge, G.C. Calder, P.C. (2006) Conjugated linoleic acids (CLAs) and health. In Improving the Fat Content of Foods ed. Williams, C.M. Buttriss, J. pp. 182 209. Cambridge : Woodhead Publishing Limited.