Analysis of rumen microbial populations in lactating dairy cattle fed diets varying in carbohydrate profiles and Saccharomyces cerevisiae fermentation product

Journal of Dairy Science

Volumn 96, Issue 9, 2013, Pages 5872-5881

  Mullins, C R ^a,d   Mamedova, L K ^a   Carpenter, A J ^a   Ying, Y ^b,e   Allen, M S ^b   Yoon, I ^c   Bradford, B J ^a  

^a KANSAS STATE UNIVERSITY   (United States)

^b MICHIGAN STATE UNIVERSITY   (United States)

^c Diamond V   (United States)

^d GPS Dairy Consulting   (United States)

^e PENNSYLVANIA STATE UNIVERSITY   (United States)

Author keywords

Microbial DNA; Quantitative real time PCR; Rumen

Indexed keywords

ANIMALIA; BACTERIA (MICROORGANISMS); BOS; BOVINAE; EUBACTERIUM RUMINANTIUM; FIBROBACTER SUCCINOGENES; RUMINOCOCCUS ALBUS; SACCHAROMYCES CEREVISIAE;

BACTERIAL DNA;

ANIMAL; ANIMAL DISEASE; ARTICLE; CARBOHYDRATE DIET; CATTLE; DIET; DRUG EFFECT; FEMALE; FERMENTATION; GENETICS; LACTATION; METABOLISM; MICROBIAL DNA; MICROBIOLOGY; MICROFLORA; QUANTITATIVE REAL-TIME PCR; REAL TIME POLYMERASE CHAIN REACTION; RUMINANT STOMACH; SACCHAROMYCES CEREVISIAE;

MICROBIAL DNA; QUANTITATIVE REAL-TIME PCR; RUMEN;

ANIMALS; CATTLE; DIET; DIETARY CARBOHYDRATES; DNA, BACTERIAL; FEMALE; FERMENTATION; LACTATION; MICROBIOTA; REAL-TIME POLYMERASE CHAIN REACTION; RUMEN; SACCHAROMYCES CEREVISIAE;

EID: 84882847543     PISSN: 00220302     EISSN: 15253198     Source Type: Journal    
DOI: 10.3168/jds.2013-6775     Document Type: Article

References (46)

1. Allen M.S., Ying Y. Effects of Saccharomyces cerevisiae fermentation product on ruminal starch digestion are dependent upon dry matter intake for lactating cows. J. Dairy Sci 2012, 95:6591-6605.
2. Bekele A.Z., Koike S., Kobayashi Y. Genetic diversity and diet specificity of ruminal Prevotella revealed by 16S rRNA gene-based analysis. FEMS Microbiol. Lett 2010, 305:49-57.
3. Belanche A., Doreau M., Edwards J.E., Moorby J.M., Pinloche E., Newbold C.J. Shifts in the rumen microbiota due to the type of carbohydrate and level of protein ingested by dairy cattle are associated with changes in rumen fermentation. J. Nutr 2012, 142:1684-1692.
4. Blanch M., Calsamiglia S., DiLorenzo N., DiCostanzo A., Muetzel S., Wallace R.J. Physiological changes in rumen fermentation during acidosis induction and its control using a multivalent polyclonal antibody preparation in heifers. J. Anim. Sci 2009, 87:1722-1730.
5. Brulc J.M., Antonopoulos D.A., Berg Miller M.E., Wilson M.K., Yannarell A.C., Dinsdale E.A., Edwards R.E., Frank E.D., Emerson J.B., Wacklin P., Coutinho P.M., Henrissat B., Nelson K.E., White B.A. Gene-centric metagenomics of the fiber-adherent bovine rumen microbiome reveals forage specific glycoside hydrolases. Proc. Natl. Acad. Sci. USA 2009, 106:1948-1953.
6. Bryant M.P., Robinson I.M. Effects of diet, time after feeding, and position sampled on numbers of viable bacteria in the bovine rumen. J. Dairy Sci 1968, 51:1950-1955.
7. Cecava M.J., Merchen N.R., Gay L.C., Berger L.L. Composition of ruminal bacteria harvested from steers as influenced by dietary energy level, feeding frequency, and isolation techniques. J. Dairy Sci 1990, 73:2480-2488.
8. Clark J.H., Klusmeyer T.H., Cameron M.R. Microbial protein synthesis and flows of nitrogen fractions to the duodenum of dairy cows. J. Dairy Sci 1992, 75:2304-2323.
9. Craig W.M., Broderick G.A., Ricker D.B. Quantitation of microorganisms associated with the particulate phase of ruminal ingesta. J. Nutr 1987, 117:56-62. b.
10. Craig W.M., Brown D.R., Broderick G.A., Ricker D.B. Post-prandial compositional changes of fluid- and particle-associated ruminal microorganisms. J. Anim. Sci 1987, 65:1042-1048. a.
11. Dehority B.A. Rumen Microbiology 2003, Nottingham University Press, Nottingham, UK.
12. Denman S.E., McSweeney C.S. Development of a real-time PCR assay for monitoring anaerobic fungal and cellulolytic bacterial populations within the rumen. FEMS Microbiol. Ecol 2006, 58:572-582.
13. Dewhurst R.J., Davies D.R., Merry R.J. Microbial protein supply from the rumen. Anim. Feed Sci. Technol 2000, 85:1-21.
14. Firkins J.L., Berger L.L., Merchen N.R., Fahey G.C., Mulvaney R.L. Ruminal nitrogen metabolism in steers as affected by feed intake and dietary urea concentration. J. Dairy Sci 1987, 70:2302-2311.
15. González J., Arroyo J.M., Ouarti M., Guevara-Gonzalez J., Rodriguez C.A., Alvir M.R., Moya V.J., Piquer O. Composition of free and adherent ruminal bacteria: Inaccuracy of the microbial nutrient supply estimates obtained using free bacteria as reference samples and [15]N as the marker. Animal 2012, 6:468-475.
16. Hungate R.E. The Rumen and Its Microbes 1966, Academic Press, New York, NY.
17. Jami E., Mizrahi I. Composition and similarity of bovine rumen microbiota across individual animals. PLoS ONE 2012, 7:e33306.
18. Khafipour E., Li S., Plaizier J.C., Krause D.O. Rumen microbiome composition determined using two nutritional models of subacute ruminal acidosis. Appl. Environ. Microbiol 2009, 75:7115-7124.
19. Kim M., Morrison M., Yu Z. Status of the phylogenetic diversity census of ruminal microbiomes. FEMS Microbiol. Ecol 2011, 76:49-63.
20. Klieve A.V., Hennessy D., Ouwerkerk D., Forster R.J., Mackie R.I., Attwood G.T. Establishing populations of Megasphaera elsdenii YE 34 and Butyrivibrio fibrisolvens YE 44 in the rumen of cattle fed high grain diets. J. Appl. Microbiol 2003, 95:621-630.
21. Kong Y., Teather R., Forster R. Composition, spatial distribution, and diversity of bacterial communities in the rumen of cows fed different forages. FEMS Microbiol. Ecol 2010, 74:612-622.
22. Legay-Carmier F., Bauchart D. Distribution of bacteria in the rumen contents of dairy cowsgiven a diet supplemented with soyabean oil. Br. J. Nutr 1989, 61:725-740.
23. Li M., Penner G.B., Hernandez-Sanabria E., Oba M., Guan L.L. Effects of sampling location and time, and host animal on assessment of bacterial diversity and fermentation parameters in the bovine rumen. J. Appl. Microbiol 2009, 107:1924-1934.
24. Li R.W., Wu S., Baldwin R.L.V.I., Li W., Li C. Perturbation dynamics of the rumen microbiota in response to exogenous butyrate. PLoS ONE 2012, 7:e29392.
25. -δδC(T) method. Methods 2001, 25:402-408.
26. Martin C., Bernard L., Michalet-Doreau B. Influence of sampling time and diet on amino acid composition of protozoal and bacterial fractions from bovine ruminal contents. J. Anim. Sci 1996, 74:1157-1163.
27. Martin C., Michalet-Doreau B. Variations in mass and enzyme activity of rumen microorganisms: Effect of barley and buffer supplements. J. Sci. Food Agric 1995, 67:407-413.
28. Martin C., Williams A.G., Michalet-Doreau B. Isolation and characteristics of the protozoal and bacterial fractions from bovine ruminal contents. J. Anim. Sci 1994, 72:2962-2968.
29. Merry R.J., McAllan A.B. A comparison of the chemical composition of mixed bacteria harvested from the liquid and solid fractions of rumen digesta. Br. J. Nutr 1983, 50:701-709.
30. Mohammed R., Stevenson D.M., Weimer P.J., Penner G.B., Beauchemin K.A. Individual animal variability in ruminal bacterial communities and ruminal acidosis in primiparous Holstein cows during the periparturient period. J. Dairy Sci 2012, 95:6716-6730.
31. Mullins C.R., Grigsby K.N., Anderson D.E., Titgemeyer E.C., Bradford B.J. Effects of feeding increasing levels of wet corn gluten feed on production and ruminal fermentation in lactating dairy cows. J. Dairy Sci 2010, 93:5329-5337.
32. Pitta D.W., Pinchak W.E., Dowd S.E., Osterstock J., Gontcharova V., Youn E., Dorton K., Yoon I., Min B.R., Fulford J.D., Wickersham T.A., Malinowski D.P. Rumen bacterial diversity dynamics associated with changing from Bermudagrass hay to grazed winter diets. Microb. Ecol 2010, 59:511-522.
33. Ramirez H.A.R., Nestor K., Tedeschi L.O., Callaway T.R., Dowd S.E., Fernando S.C., Kononoff P.J. The effect of brown midrib corn silage and dried distillers' grains with solubles on milk production, nitrogen utilization and microbial community structure in dairy cows. Can. J. Anim. Sci 2012, 92:365-380.
34. Rodríguez-Prado M., Calsamiglia S., Ferret A. Effects of fiber content and particle size of forage on the flow of microbial amino acids from continuous culture fermenters. J. Dairy Sci 2004, 87:1413-1424.
35. Russell J.B. Rumen Microbiology and its Role in Ruminant Nutrition 2002, J.B. Russell, Ithaca, NY.
36. Stevenson D.M., Weimer P. Dominance of Prevotella and low abundance of classical ruminal bacterial species in the bovine rumen revealed by relative quantification real-time PCR. Appl. Microbiol. Biotechnol 2007, 75:165-174.
37. Stiverson J., Morrison M., Yu Z. Populations of select cultured and uncultured bacteria in the rumen of sheep and the effect of diets and ruminal fractions. Int. J. Microbiol 2011, 2011:750613.
38. Tajima K., Aminov R.I., Nagamine T., Matsui H., Nakamura M., Benno Y. Diet-dependent shifts in the bacterial population of the rumen revealed with real-time PCR. Appl. Environ. Microbiol 2001, 67:2766-2774.
39. Vincente F., Guada J.A., Surra J., Balcells J., Castrillo C. Microbial contribution to duodenal purine flow in fattening cattle given concentrate diets, estimated by purine N labeling ([15]N) of different microbial fractions. Anim. Sci 2004, 78:159-167.
40. Weimer P.J. Manipulating ruminal fermentation: A microbial ecological perspective. J. Anim. Sci 1998, 76:3114-3122.
41. Weimer P.J., Stevenson D.M., Mantovani H.C., Man S.L.C. Host specificity of the ruminal bacterial community in the dairy cow following near-total exchange of ruminal contents. J. Dairy Sci 2010, 93:5902-5912. a.
42. Weimer P.J., Stevenson D.M., Mertens D.R. Shifts in bacterial community composition in the rumen of lactating dairy cows under milk fat-depressing conditions. J. Dairy Sci 2010, 93:265-278. b.
43. Weimer P.J., Waghorn G.C., Odt C.L., Mertens D.R. Effect of diet on populations of three species of ruminal cellulolytic bacteria in lactating dairy cows. J. Dairy Sci 1999, 82:122-134.
44. Welkie D.G., Stevenson D.M., Weimer P.J. ARISA analysis of ruminal bacterial community dynamics in lactating dairy cows during the feeding cycle. Anaerobe 2010, 16:94-100.
45. Wood J., Scott K.P., Avguštin G., Newbold C.J., Flint H.J. Estimation of the relative abundance of different Bacteroides and Prevotella ribotypes in gut samples by restriction enzyme Profiling of PCR-amplified 16S rRNA gene sequences. Appl. Environ. Microbiol 1998, 64:3683-3689.
46. Yu Z., Morrison M. Improved extraction of PCR-quality community DNA from digesta and fecal samples. Biotechniques 2004, 36:808-812.