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References (56)
-
M. Korhonen, S. Ahvenjärvi, A. Vanhatalo, P. Huhtanen (2002)
Supplementing barley or rapeseed meal to dairy cows fed grass-red clover silage: II. Amino acid profile of microbial fractions.Journal of animal science, 80 8
-
H. Verseveld, W. Röling (2004)
Section 7 update: Cluster analysis and statistical comparison of molecular community profile data -
R. Amann, W. Ludwig, K. Schleifer (1995)
Phylogenetic identification and in situ detection of individual microbial cells without cultivation.Microbiological reviews, 59 1
-
Ø. Hammer, D. Harper, P. Ryan (2001)
PAST: paleontological statistics software package for education and data analysis version 2.09 -
M. Ranilla, M. Carro (2003)
Diet and procedures used to detach particle-associated microbes from ruminal digesta influence chemical composition of microbes and estimation of microbial growth in Rusitec fermenters.Journal of animal science, 81 2
-
A. Dohrmann, C. Tebbe (2004)
Section 3 update: Microbial community analysis by PCR-single-strand conformation polymorphism (PCR-SSCP) -
F. Wintzingerode, U. Göbel, E. Stackebrandt (1997)
Determination of microbial diversity in environmental samples: pitfalls of PCR-based rRNA analysis.FEMS microbiology reviews, 21 3
-
M. Bryant, L. Burkey (1953)
Numbers and Some Predominant Groups of Bacteria in the Rumen of Cows Fed Different RationsJournal of Dairy Science, 36
-
J. Czerkawski, G. Breckenridge (1977)
Design and development of a long-term rumen simulation technique (Rusitec)British Journal of Nutrition, 38
-
D. Stahl, Berdena Flesher, H. Mansfield, Leslie Montgomery (1988)
Use of phylogenetically based hybridization probes for studies of ruminal microbial ecologyApplied and Environmental Microbiology, 54
-
F. Mathieu-Daudé, R. Cheng, J. Welsh, Michael McClelland (1996)
Screening of differentially amplified cDNA products from RNA arbitrarily primed PCR fingerprints using single strand conformation polymorphism (SSCP) gels.Nucleic acids research, 24 8
-
W. Ludwig, O. Strunk, Ralf Westram, L. Richter, H. Meier, Yadhukumar, Arno Buchner, Tina Lai, Susanne Steppi, Gangolf Jobb, Wolfram Förster, Igor Brettske, Stefan Gerber, Anton Ginhart, Oliver Gross, Silke Grumann, Stefan Hermann, R. Jost, A. König, T. Liß, Ralph Lüssmann, M. May, Björn Nonhoff, B. Reichel, R. Strehlow, A. Stamatakis, Norbert Stuckmann, Alexander Vilbig, M. Lenke, T. Ludwig, A. Bode, K. Schleifer (2004)
ARB: a software environment for sequence data.Nucleic acids research, 32 4
-
S. Prevot, J. Sénaud, J. Bohatier, G. Prensier (1994)
Variation in the Composition of the Ruminal Bacterial Microflora during the Adaptation Phase in an Artificial Fermentor (Rusitec)Zoological Science, 11
-
P. Hobson, C. Stewart (1997)
The Rumen Microbial Ecosystem -
J. Boguhn, H. Kluth, M. Rodehutscord (2006)
Effect of total mixed ration composition on amino acid profiles of different fractions of ruminal microbes in vitro.Journal of dairy science, 89 5
-
B. Dehority, C. Orpin (1997)
Development of, and natural fluctuations in, rumen microbial populations -
A. Krave, B. Lin, M. Braster, A. Laverman, N. Straalen, W. Röling, H. Verseveld (2002)
Stratification and seasonal stability of diverse bacterial communities in a Pinus merkusii (pine) forest soil in central Java, Indonesia.Environmental microbiology, 4 6
-
J. Kruskal (1964)
Nonmetric multidimensional scaling: A numerical methodPsychometrika, 29
-
D. Kamra (2005)
Rumen microbial ecosystemCurrent Science, 89
-
F. Schwieger, C. Tebbe (1998)
A New Approach To Utilize PCR–Single-Strand-Conformation Polymorphism for 16S rRNA Gene-Based Microbial Community AnalysisApplied and Environmental Microbiology, 64
-
J. Boguhn, H. Kluth, M. Rodehutscord (2006)
Effect of total mixed ration composition on fermentation and efficiency of ruminal microbial crude protein synthesis in vitro.Journal of dairy science, 89 5
-
H. Minato, T. Suto (1979)
TECHNIQUE FOR FRACTIONATION OF BACTERIA IN RUMEN MICROBIAL ECOSYSTEM. III. ATTACHMENT OF BACTERIA ISOLATED FROM BOVINE RUMEN TO STARCH GRANULES IN VITRO AND ELUTION OF BACTERIA ATTACHED THEREFROMJournal of General and Applied Microbiology, 25
-
R. Großkopf, P. Janssen, W. Liesack (1998)
Diversity and Structure of the Methanogenic Community in Anoxic Rice Paddy Soil Microcosms as Examined by Cultivation and Direct 16S rRNA Gene Sequence RetrievalApplied and Environmental Microbiology, 64
-
(1978)
Use of the Rumen Simulation Technique (Rusitec) to study the distribution of microbial matter in the solid and liquid phases of the reaction mixture; sequestration of micro-organisms -
K. Sejrsen, T. Hvelplund, M. Nielsen (2006)
Ruminant physiology : digestion, metabolism and impact of nutrition on gene expression, immunology and stress -
W. Weisburg, S. Barns, D. Pelletier, S. Goodison (1991)
16S ribosomal DNA amplification for phylogenetic studyJournal of Bacteriology, 173
-
(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 -
K. Clarke (1993)
Non‐parametric multivariate analyses of changes in community structureAustral Ecology, 18
-
M. Brandt, K. Rohr (2009)
[The quantification of nitrogen metabolism in the forestomachs of dairy cows. 1. The examination of microbial nitrogen with 15 nitrogen as a marker].Zeitschrift fur Tierphysiologie, Tierernahrung und Futtermittelkunde, 46 1-2
-
G. Muyzer, E. Waal, A. Uitterlinden (1993)
Profiling of complex microbial populations by denaturing gradient gel electrophoresis analysis of polymerase chain reaction-amplified genes coding for 16S rRNAApplied and Environmental Microbiology, 59
-
R. Ferguson, E. Buckley, A. Palumbo (1984)
Response of marine bacterioplankton to differential filtration and confinementApplied and Environmental Microbiology, 47
-
Ø. Hammer, D. Harper, P. Ryan (2001)
PAST: PALEONTOLOGICAL STATISTICAL SOFTWARE PACKAGE FOR EDUCATION AND DATA ANALYSISPalaeontologia Electronica, 4
-
(2006)
Characterisation and quantification of the microbial populations of the rumen -
G. Olsen, D. Lane, S. Giovannoni, N. Pace, D. Stahl (1986)
Microbial ecology and evolution: a ribosomal RNA approach.Annual review of microbiology, 40
-
(2004)
In vitro-Untersuchungen zum Einfluss der Rationszusammensetzung auf die Synthese und das Aminosäurenmuster des mikrobiellen Proteins im Pansen [Dissertation -
M. Whitford, R. Forster, C. Beard, J. Gong, R. Teather (1998)
Phylogenetic analysis of rumen bacteria by comparative sequence analysis of cloned 16S rRNA genes.Anaerobe, 4 3
-
J. Czerkawski, G. Breckenridge (1978)
Use of the Rumen Simulation Technique (Rusitec) to study the distribution of microbial matter in the solid and liquid phases of the reaction [proceedings].The Proceedings of the Nutrition Society, 37 3
-
K. Clarke, R. Green (1988)
Statistical Design And Analysis For A Biological Effects StudyMarine Ecology Progress Series, 46
-
(2004)
Genetic profiles of rumen microbial communities: A cultivation independent technique to study the effect of feeding -
Marti Anderson, J. Robinson (2003)
Generalized discriminant analysis based on distancesAustralian & New Zealand Journal of Statistics, 45
-
(2004)
In vitro-Untersuchungen zum Einfluss der Rationszusammensetzung auf die Synthese und das Aminosa¨urenmuster des mikrobiellen Proteins im Pansen -
A. Reysenbach, L. Giver, G. Wickham, N. Pace (1992)
Differential amplification of rRNA genes by polymerase chain reactionApplied and Environmental Microbiology, 58
-
B. Bassam, Gustavo Caetano‐Anollés, P. Gresshoff (1991)
Fast and sensitive silver staining of DNA in polyacrylamide gels.Analytical biochemistry, 196 1
-
(2005)
PERMANOVA: a FORTRAN computer program for permutational multivariate analysis of variance -
E. Strobel, K. Seeling, C. Tebbe (2008)
Diversity responses of rumen microbial communities to Fusarium-contaminated feed, evaluated with rumen simulating technology.Environmental microbiology, 10 2
-
E. Stackebrandt, M. Goodfellow (1991)
Nucleic acid techniques in bacterial systematics -
M. Koch, E. Strobel, C. Tebbe, J. Heritage, G. Breves, K. Huber (2006)
Transgenic maize in the presence of ampicillin modifies the metabolic profile and microbial population structure of bovine rumen fluid in vitroBritish Journal of Nutrition, 96
-
Marti Anderson (2001)
A new method for non-parametric multivariate analysis of variance in ecology -
D. Stahl (1991)
Development and application of nucleic acid probes -
(1981)
Beiträge zur Quantifizierung der N-Umsetzungen in den Vormägen von Milchkühen 1 -
R. Wallace (1994)
Ruminal microbiology, biotechnology, and ruminant nutrition: progress and problems.Journal of animal science, 72 11
-
N. Larsen, Karl Fogel (1994)
The Ribosomal Database Project.Nucleic acids research, 22 17
-
G. Gizzi, R. Zanchi, F. Sciaraffia (1998)
Comparison of microbiological and fermentation parameters obtained with an improved rumen in vitro technique with those obtained in vivoAnimal Feed Science and Technology, 73
-
C. Rodríguez, J. González, M. Alvir, J. Repetto, C. Centeno, F. Lamrani (2000)
Composition of bacteria harvested from the liquid and solid fractions of the rumen of sheep as influenced by feed intake.The British journal of nutrition, 84 3
-
(1981)
Beitra¨ge zur Quantifizierung der N-Umsetzungen in den Vorma¨gen von Milchku¨hen 1. Mitteilung: Bestimmung des Mikrobenstickstoffs im Duodenalchymus mit Hilfe von 15N -
V. Farrelly, F. Rainey, E. Stackebrandt (1995)
Effect of genome size and rrn gene copy number on PCR amplification of 16S rRNA genes from a mixture of bacterial speciesApplied and Environmental Microbiology, 61
- Publisher
- Taylor & Francis
- Copyright
- Copyright Taylor & Francis Group, LLC
- ISSN
- 1477-2817
- eISSN
- 1745-039X
- DOI
- 10.1080/17450390802453443
- pmid
- 19143229
- Publisher site
- See Article on Publisher Site
Abstract
Changes of the rumen microbial community structure, as it can be established with a rumen simulation technique (RUSITEC) were studied using PCR and single-strand conformation polymorphism (SSCP) of small subunit rDNA genes (SSU rDNA). Four total mixed rations were incubated and two ammonia levels in the artificial saliva were applied. Three replicated vessels were used for each treatment. Mixed microbial fractions were isolated by stepwise centrifugation from the liquid fraction (reference microbes, RM) and from the solids of the feed residues (solid-associated microbes, SAM). PCR-primers targeting archaea, fibrobacter, clostridia, and bacteria, respectively, were applied to represent the individual taxonomic groups by SSCP profiles. These SSCP profiles were converted into a binary matrix and distances among treatments were visualised by non-metric multidimensional scaling. Between replicates belonging to one treatment only small differences were found, indicating a high reproducibility of the RUSITEC and the chosen SSCP method. The ammonia concentration seems to be affecting the SSCP profiles. Great differences occurred between RM and SAM, especially for profiles targeting bacteria and clostridia. Differences in the profiles of RM were also found between mixed rations that contained the same feedstuffs in different ratios and between rations with similar nutrient content but based on different feedstuffs. In conclusion, the PCR-SSCP-based technique in conjunction with non-metric multidimensional scaling was sufficiently sensitive to detect and compare changes in composition of rumen microbial community structure in vitro as affected by diet and other environmental factors.
Journal
Archives of Animal Nutrition – Taylor & Francis
Published: Dec 1, 2008
Keywords: rumen; microoganisms; communities; polymerase chain reaction; scaling