Influence of detachment procedure and diet on recovery of solid-associated bacteria from sheep ruminal digesta and representativeness of bacterial isolates as assessed by automated ribosomal intergenic spacer analysis-polymerase chain reaction

Journal of Dairy Science

Volumn 92, Issue 11, 2009, Pages 5659-5668

  Ramos, S ^a   Tejido, M L ^a   Ranilla, M J ^a   Martinez M E ^a   Saro, C ^a   Carro, M D ^a  

^a UNIVERSITY OF LEÓN   (Spain)

Author keywords

15N; Bacterial diversity; Detachment procedure; Solid associated bacteria

Indexed keywords

BACTERIA (MICROORGANISMS); MEDICAGO SATIVA; OVIS ARIES;

EID: 70350328288     PISSN: 00220302     EISSN: 15253198     Source Type: Journal    
DOI: 10.3168/jds.2009-2273     Document Type: Article

References (38)

1. AOAC. 1999. Official Methods of Analysis, 16th ed. 5th rev. Association of Official Analytical Chemists International, Gaithersburg, MD.
2. Carro, M. D., and E. L. Miller. 1999. Effect of supplementing a fibre basal diet with different nitrogen forms on ruminal fermentation and microbial growth in an in vitro semi-continuous culture system (RUSITEC). Br. J. Nutr. 82:149-157.
3. 15N and purine bases) and bacterial isolates for the estimation of rumen microbial protein synthesis. Anim. Sci. 75:315-321.
4. Cecava, M. J., N. R. Merchen, L. C. Gay, and L. L. Berger. 1990. Composition of ruminal bacteria harvested from steers as influenced by dietary energy level, feeding frequency, and isolation techniques. J. Dairy Sci. 73:2480-2488.
5. Clark, J. H., T. H. Klusmeyer, and M. R. Cameron. 1992. Microbial protein synthesis and flows of nitrogen fractions to the duodenum of dairy cows. J. Dairy Sci. 75:2304-2323.
6. Craig, W. M., G. A. Broderick, and D. B. Ricker. 1987. Quantization of microorganisms associated with the particulate phase of ruminal ingesta. J. Nutr. 117:56-62.
7. Danovaro, R., G. M. Luna, A. Dell'Anno, and B. Pietrangeli. 2006. Comparison of two fingerprinting techniques, terminal restriction fragment length polymorphism and automated ribosomal intergenic spacer analysis, for determination of bacterial diversity in aquatic environments. Appl. Environ. Microbiol. 72:5982-5989.
8. Faichney, G. J. 1975. The use of markers to partition digestion within the gastro-intestinal tract of ruminants. Pages 277-291 in Digestion and Metabolism in the Ruminant. A. C. I. Warner and I. W. McDonald, ed. University of New England Publishing Unit, Armidale, NSW, Australia.
9. Ha, J. K., and J. J. Kennelly. 1984. Influence of freeze storage on nucleic acid concentrations in bacterial and duodenal digesta. Can. J. Anim. Sci. 64:791-793.
10. Hsu, J. T., and G. C. Fahey Jr. 1989. Effects of centrifugation speed and freezing on the composition of ruminal bacterial samples collected from defaunated sheep. J. Dairy Sci. 73:149-152.
11. Ipharraguerre, I. R., S. M. Reynal, M. Liñeiro, G. A. Broderick, and J. H. Clark. 2007. A comparison of sampling sites, digesta and microbial markers, and microbial references for assessing the postruminal supply of nutrients in dairy cows. J. Dairy Sci. 90:1904-1919.
12. Karnati, S. K. R., J. T. Sylvester, S. M. Noftsger, Z. Yu, N. R. St-Pierre, and J. L. Firkins. 2007. Assessment of ruminal bacterial populations and protozoal generation time in cows fed different methionine sources. J. Dairy Sci. 90:798-809.
13. Leedle, J. A. Z., M. P. Bryant, and R. B. Hespell. 1982. Diurnal variations in bacterial numbers and fluid paramenters in ruminal contents of animals fed low-or high-forage diets. Appl. Environ. Microbiol. 44:402-412.
14. Legay-Carmier, F., and D. Bauchart. 1989. Distribution of bacteria in the rumen contents of dairy cows given a diet supplemented with soya-bean oil. Br. J. Nutr. 61:725-740.
15. Martín-Orúe, S. M., J. Balcells, F. Zakraoui, and C. Castrillo. 1998. Quantification and chemical composition of mixed bacteria harvested from solid fractions of rumen digesta: Effect of detachment procedure. Anim. Feed Sci. Technol. 71:269-282.
16. Martínez, M. E., M. J. Ranilla, S. Ramos, M. L. Tejido, C. Saro, and M. D. Carro. 2009. Evaluation of procedures for detaching particle-associated microbes from forage and concentrate incubated in Rusitec fermenters: Efficiency of recovery and representativeness of microbial isolates. J. Anim. Sci. 87:2064-2072.
17. McAllan, A. B., and R. H. Smith. 1977. Some effects of variation in carbohydrate and nitrogen intakes on the chemical composition of mixed rumen bacteria from young steers. Br. J. Nutr. 37:55-61.
18. Merry, R. J., and A. B. McAllan. 1983. A comparison of the chemical composition of mixed bacteria harvested from the liquid and solid fractions of rumen digesta. Br. J. Nutr. 50:701-709.
19. Minato, H., and T. Suto. 1978. Technique for fractionation of bacteria in rumen microbial ecosystem. II. Attachment of bacteria isolated from bovine rumen to cellulose powder in vitro and elution of bacteria attached therefrom. J. Gen. Appl. Microbiol. 24:1-16.
20. Molina-Alcaide, E., A. Moumen, I. Martin Garcia, and M. D. Carro. 2009. Comparison of bacterial pellets and microbial markers for the estimation of the microbial nitrogen and amino acids flows from single flow continuous culture fermenters fed diets containing two-stage olive cake. J. Anim. Physiol. Anim. Nutr. (Berl.) 93:527-537.
21. NRC. 1985. Nutrient Requirements of Sheep. 6th ed. National Academy Press, Washington, DC.
22. Olubobokun, J. A., and W. M. Craig. 1990. Quantity and characteristics of microorganisms associated with ruminal fluid or particles. J. Anim. Sci. 68:3360-3370.
23. Olubobokun, J. A., W. M. Craig, and W. A. Nipper. 1988. Characteristics of protozoal and bacterial fractions from microorganisms associated with ruminal fluid or particles. J. Anim. Sci. 66:2701-2710.
24. Pérez, J. F., M. Fondevila, J. Balcells, and J. A. Guada. 1998. Composition of liquid-and particle-associated bacteria and their contribution to the rumen outflow. Aust. J. Agric. Res. 49:907-914.
25. Prevot, S., J. Senaud, and G. Prensier. 1994. Variation in the composition of the ruminal bacterial microflora during the adaptation phase in an artificial fermenter (Rusitec). Zoolog. Sci. 11:871-882.
26. Ranilla, M. J., and M. D. Carro. 2003. Diet and procedures used to detach particulate-associated microbes from ruminal digesta influence chemical composition of microbes and estimation of microbial growth in Rusitec fermenters. J. Anim. Sci. 81:537-544.
27. Rasmussen, M. A., B. A. White, and R. B. Hespell. 1989. Improved assay for quantitating adherence of ruminal bacteria to cellulose. Appl. Environ. Microbiol. 55:2089-2091.
28. Roger, V., G. Fonty, S. Komisarczuk-Bony, and P. Gouet. 1990. Effects of physicochemical factors on the adhesion to cellulose Avicel of the ruminal bacteria Ruminococcus flavefaciens and Fibrobacter succinogenes subsp. succinogenes. Appl. Environ. Microbiol. 56:3081-3087.
29. Shannon, C. E., and W. Weaver. 1949. The Mathematical Theory of Communication. University of Illinois Press, Urbana, IL.
30. Stebulis, S., D. M. Stevenson, G. Rosa, and R. R. Grummer. 2008. Use of ARISA to monitor shifts in rumen microbial populations caused by changes in diet. J. Dairy Sci. 91(Suppl. 1):89. (Abstr.)
31. Sylvester, J. T., S. K. R. Karnati, Z. Yu, C. J. Newbold, and J. L. Firkins. 2005. Evaluation of a real-time PCR assay for measuring the ruminal pool and duodenal flow of protozoal nitrogen. J. Dairy Sci. 88:2083-2095.
32. Trabalza-Marinucci, M., C. Poncet, E. Delval, and G. Fonty. 2005. Evaluation of techniques to detach particle-associated microorganisms from rumen contents. Anim. Feed Sci. Technol. 125:1-16.
33. Udén, P., P. E. Colucci, and P. J. Van Soest. 1980. Investigation of chromium, cerium and cobalt as markers in digesta. Rates of passage studies. J. Sci. Food Agric. 31:625-632.
34. Van Soest, P. J., J. B. Robertson, and B. A. Lewis. 1991. Methods for dietary fiber, neutral detergent fiber, and nonstarch polysaccharides in relation to animal nutrition. J. Dairy Sci. 74:3583-3597.
35. Whitehouse, N. L., V. M. Olson, C. G. Schwab, W. R. Chesbro, K. D. Cunningham, and T. Lykos. 1994. Improved techniques for dissociating particle-associated mixed ruminal microorganisms from ruminal digesta solids. J. Anim. Sci. 72:1335-1343.
36. Williams, C. H. D., D. J. David, and O. Iismaa. 1962. The determination of chromic oxide in faeces samples by atomic absorption spectrophotometry. J. Agric. Sci. 59:381-385.
37. Yang, W. Z., K. A. Beauchemin, and L. M. Rode. 2001. Effect of dietary factors on distribution and chemical composition of liquid-or solid-associated bacterial populations in the rumen of dairy cows. J. Anim. Sci. 79:2736-2746.
38. Yu, Z., and M. Morrison. 2004. Improved extraction of PCR-quality community DNA from digesta and fecal samples. Biotechniques 36:808-812.