Unique aspects of fiber degradation by the ruminal ethanologen Ruminococcus albus 7 revealed by physiological and transcriptomic analysis
Abstract
Bacteria in the genus Ruminococcus are ubiquitous members of the mammalian gastrointestinal tract. In particular, they are important in ruminants where they digest a wide range of plant cell wall polysaccharides. For example, Ruminococcus albus 7 is a primary cellulose degrader that produces acetate usable by its bovine host. Moreover, it is one of the few organisms that ferments cellulose to form ethanol at mesophilic temperatures in vitro. The mechanism of cellulose degradation by R. albus 7 is not well-defined and is thought to involve pilin-like proteins, unique carbohydrate-binding domains, a glycocalyx, and cellulosomes. We used a combination of comparative genomics, fermentation analyses, and transcriptomics to further clarify the cellulolytic and fermentative potential of R. albus 7. A comparison of the R. albus 7 genome sequence against the genome sequences of related bacteria that either encode or do not encode cellulosomes revealed that R. albus 7 does not encode for most canonical cellulosomal components. Fermentation analysis of R. albus 7 revealed the ability to produce ethanol and acetate on a wide range of fibrous substrates in vitro. Global transcriptomic analysis of R. albus 7 grown at identical dilution rates on cellulose and cellobiose in a chemostat showed that this bacterium,more »
- Authors:
-
- Univ. of Wisconsin, Madison, WI (United States). Dept. of Bacteriology
- Univ. of Wisconsin, Madison, WI (United States). Dept. of Biostatistics and Medical Informatics
- US Dept. of Agriculture-Agricultural Research Services (USDA-ARS), Madison, WI (United States). US Dairy Forage Research Center
- Univ. of Wisconsin, Madison, WI (United States). Dept. of Bacteriology; US Dept. of Agriculture-Agricultural Research Services (USDA-ARS), Madison, WI (United States). US Dairy Forage Research Center
- Publication Date:
- Research Org.:
- Univ. of Wisconsin, Madison, WI (United States)
- Sponsoring Org.:
- USDOE Office of Science (SC), Biological and Environmental Research (BER); National Institutes of Health (NIH); USDA
- OSTI Identifier:
- 1454420
- Grant/Contract Number:
- SC0008104; GM102756
- Resource Type:
- Accepted Manuscript
- Journal Name:
- BMC Genomics
- Additional Journal Information:
- Journal Volume: 15; Journal Issue: 1; Journal ID: ISSN 1471-2164
- Publisher:
- Springer
- Country of Publication:
- United States
- Language:
- English
- Subject:
- 09 BIOMASS FUELS; 59 BASIC BIOLOGICAL SCIENCES; Ruminococcus albus; Cellulose utilization; Ethanol production
Citation Formats
Christopherson, Melissa R., Dawson, John A., Stevenson, David M., Cunningham, Andrew C., Bramhacharya, Shanti, Weimer, Paul J., Kendziorski, Christina, and Suen, Garret. Unique aspects of fiber degradation by the ruminal ethanologen Ruminococcus albus 7 revealed by physiological and transcriptomic analysis. United States: N. p., 2014.
Web. doi:10.1186/1471-2164-15-1066.
Christopherson, Melissa R., Dawson, John A., Stevenson, David M., Cunningham, Andrew C., Bramhacharya, Shanti, Weimer, Paul J., Kendziorski, Christina, & Suen, Garret. Unique aspects of fiber degradation by the ruminal ethanologen Ruminococcus albus 7 revealed by physiological and transcriptomic analysis. United States. https://doi.org/10.1186/1471-2164-15-1066
Christopherson, Melissa R., Dawson, John A., Stevenson, David M., Cunningham, Andrew C., Bramhacharya, Shanti, Weimer, Paul J., Kendziorski, Christina, and Suen, Garret. Thu .
"Unique aspects of fiber degradation by the ruminal ethanologen Ruminococcus albus 7 revealed by physiological and transcriptomic analysis". United States. https://doi.org/10.1186/1471-2164-15-1066. https://www.osti.gov/servlets/purl/1454420.
@article{osti_1454420,
title = {Unique aspects of fiber degradation by the ruminal ethanologen Ruminococcus albus 7 revealed by physiological and transcriptomic analysis},
author = {Christopherson, Melissa R. and Dawson, John A. and Stevenson, David M. and Cunningham, Andrew C. and Bramhacharya, Shanti and Weimer, Paul J. and Kendziorski, Christina and Suen, Garret},
abstractNote = {Bacteria in the genus Ruminococcus are ubiquitous members of the mammalian gastrointestinal tract. In particular, they are important in ruminants where they digest a wide range of plant cell wall polysaccharides. For example, Ruminococcus albus 7 is a primary cellulose degrader that produces acetate usable by its bovine host. Moreover, it is one of the few organisms that ferments cellulose to form ethanol at mesophilic temperatures in vitro. The mechanism of cellulose degradation by R. albus 7 is not well-defined and is thought to involve pilin-like proteins, unique carbohydrate-binding domains, a glycocalyx, and cellulosomes. We used a combination of comparative genomics, fermentation analyses, and transcriptomics to further clarify the cellulolytic and fermentative potential of R. albus 7. A comparison of the R. albus 7 genome sequence against the genome sequences of related bacteria that either encode or do not encode cellulosomes revealed that R. albus 7 does not encode for most canonical cellulosomal components. Fermentation analysis of R. albus 7 revealed the ability to produce ethanol and acetate on a wide range of fibrous substrates in vitro. Global transcriptomic analysis of R. albus 7 grown at identical dilution rates on cellulose and cellobiose in a chemostat showed that this bacterium, when growing on cellulose, utilizes a carbohydrate-degrading strategy that involves increased transcription of the rare carbohydrate-binding module (CBM) family 37 domain and the tryptophan biosynthetic operon. Our data suggest that R. albus 7 does not use canonical cellulosomal components to degrade cellulose, but rather up-regulates the expression of CBM37-containing enzymes and tryptophan biosynthesis. This study contributes to a revised model of carbohydrate degradation by this key member of the rumen ecosystem.},
doi = {10.1186/1471-2164-15-1066},
journal = {BMC Genomics},
number = 1,
volume = 15,
place = {United States},
year = {Thu Dec 04 00:00:00 EST 2014},
month = {Thu Dec 04 00:00:00 EST 2014}
}
Web of Science
Works referenced in this record:
EBSeq: an empirical Bayes hierarchical model for inference in RNA-seq experiments
journal, February 2013
- Leng, Ning; Dawson, John A.; Thomson, James A.
- Bioinformatics, Vol. 29, Issue 8
Characterization of the Cellulolytic Complex (Cellulosome) from Ruminococcus albus
journal, January 2000
- Ohara, Hiroki; Karita, Shuichi; Kimura, Tetsuya
- Bioscience, Biotechnology, and Biochemistry, Vol. 64, Issue 2
Design and validation of 16S rRNA probes to enumerate members of the Clostridium leptum subgroup in human faecal microbiota
journal, July 2005
- Lay, Christophe; Sutren, Malene; Rochet, Violaine
- Environmental Microbiology, Vol. 7, Issue 7
Complete Genome of the Cellulolytic Ruminal Bacterium Ruminococcus albus 7
journal, September 2011
- Suen, G.; Stevenson, D. M.; Bruce, D. C.
- Journal of Bacteriology, Vol. 193, Issue 19
Improving Microbial Genome Annotations in an Integrated Database Context
journal, February 2013
- Chen, I-Min A.; Markowitz, Victor M.; Chu, Ken
- PLoS ONE, Vol. 8, Issue 2
Fermentation of a Bacterial Cellulose/Xylan Composite by Mixed Ruminal Microflora: Implications for the Role of Polysaccharide Matrix Interactions in Plant Cell Wall Biodegradability
journal, May 2000
- Weimer, Paul J.; Hackney, John M.; Jung, Hans-Joachim G.
- Journal of Agricultural and Food Chemistry, Vol. 48, Issue 5
Fast and accurate short read alignment with Burrows-Wheeler transform
journal, May 2009
- Li, H.; Durbin, R.
- Bioinformatics, Vol. 25, Issue 14
Combined prediction of Tat and Sec signal peptides with hidden Markov models
journal, September 2010
- Bagos, Pantelis G.; Nikolaou, Elisanthi P.; Liakopoulos, Theodore D.
- Bioinformatics, Vol. 26, Issue 22
Differential expression analysis for sequence count data
journal, October 2010
- Anders, Simon; Huber, Wolfgang
- Genome Biology, Vol. 11, Issue 10
Populations of Select Cultured and Uncultured Bacteria in the Rumen of Sheep and the Effect of Diets and Ruminal Fractions
journal, January 2011
- Stiverson, Jill; Morrison, Mark; Yu, Zhongtang
- International Journal of Microbiology, Vol. 2011
A human gut microbial gene catalogue established by metagenomic sequencing
journal, March 2010
- Qin, Junjie; Li, Ruiqiang; Raes, Jeroen
- Nature, Vol. 464, Issue 7285
Adherence of the Gram-Positive BacteriumRuminococcus albus to Cellulose and Identification of a Novel Form of Cellulose-Binding Protein Which Belongs to the Pil Family of Proteins
journal, November 1998
- Pegden, Randall S.; Larson, Marilynn A.; Grant, Richard J.
- Journal of Bacteriology, Vol. 180, Issue 22
Feedback control of morphogenesis in fungi by aromatic alcohols
journal, May 2006
- Chen, H.
- Genes & Development, Vol. 20, Issue 9
Polysaccharide utilization by gut bacteria: potential for new insights from genomic analysis
journal, February 2008
- Flint, Harry J.; Bayer, Edward A.; Rincon, Marco T.
- Nature Reviews Microbiology, Vol. 6, Issue 2
Colorimetric Method for Determination of Sugars and Related Substances
journal, March 1956
- DuBois, Michel.; Gilles, K. A.; Hamilton, J. K.
- Analytical Chemistry, Vol. 28, Issue 3, p. 350-356
Cell Surface Enzyme Attachment Is Mediated by Family 37 Carbohydrate-Binding Modules, Unique to Ruminococcus albus
journal, October 2008
- Ezer, A.; Matalon, E.; Jindou, S.
- Journal of Bacteriology, Vol. 190, Issue 24
Salinity tolerance mechanisms of an Arctic Pelagophyte using comparative transcriptomic and gene expression analysis
journal, May 2022
- Freyria, Nastasia J.; Kuo, Alan; Chovatia, Mansi
- Communications Biology, Vol. 5, Issue 1
Fermentation of Insoluble Cellulose by Continuous Cultures of
Ruminococcus albus
journal, November 1988
- Pavlostathis, Spyros G.; Miller, Terry L.; Wolin, Meyer J.
- Applied and Environmental Microbiology, Vol. 54, Issue 11
Diversity and Strain Specificity of Plant Cell Wall Degrading Enzymes Revealed by the Draft Genome of Ruminococcus flavefaciens FD-1
journal, August 2009
- Berg Miller, Margret E.; Antonopoulos, Dionysios A.; Rincon, Marco T.
- PLoS ONE, Vol. 4, Issue 8
PICRUSt2 for prediction of metagenome functions
journal, June 2020
- Douglas, Gavin M.; Maffei, Vincent J.; Zaneveld, Jesse R.
- Nature Biotechnology, Vol. 38, Issue 6
The leucine-rich repeat as a protein recognition motif
journal, December 2001
- Kobe, B.
- Current Opinion in Structural Biology, Vol. 11, Issue 6
The Complete Genome Sequence of Fibrobacter succinogenes S85 Reveals a Cellulolytic and Metabolic Specialist
journal, April 2011
- Suen, Garret; Weimer, Paul J.; Stevenson, David M.
- PLoS ONE, Vol. 6, Issue 4
BESC knowledgebase public portal
journal, January 2012
- Syed, M. H.; Karpinets, T. V.; Parang, M.
- Bioinformatics, Vol. 28, Issue 5
Rumen Cellulosomics: Divergent Fiber-Degrading Strategies Revealed by Comparative Genome-Wide Analysis of Six Ruminococcal Strains
journal, July 2014
- Dassa, Bareket; Borovok, Ilya; Ruimy-Israeli, Vered
- PLoS ONE, Vol. 9, Issue 7
NMR study of cellulose and wheat straw degradation by Ruminococcus albus 20: Degradation of wheat straw by R. albus
journal, June 2008
- Matulova, Maria; Nouaille, Régis; Capek, Peter
- FEBS Journal, Vol. 275, Issue 13
Feedback control of morphogenesis in fungi by aromatic alcohols
journal, May 2006
- Chen, H.
- Genes & Development, Vol. 20, Issue 9
Dominant and diet-responsive groups of bacteria within the human colonic microbiota
journal, August 2010
- Walker, Alan W.; Ince, Jennifer; Duncan, Sylvia H.
- The ISME Journal, Vol. 5, Issue 2
Identification of target genes conferring ethanol stress tolerance to Saccharomyces cerevisiae based on DNA microarray data analysis
journal, August 2007
- Hirasawa, Takashi; Yoshikawa, Katsunori; Nakakura, Yuki
- Journal of Biotechnology, Vol. 131, Issue 1
Genome analyses highlight the different biological roles of cellulases
journal, January 2012
- Medie, Felix Mba; Davies, Gideon J.; Drancourt, Michel
- Nature Reviews Microbiology, Vol. 10, Issue 3
Assessment of metabolic diversity within the intestinal microbiota from healthy humans using combined molecular and cultural approaches: Metabolic diversity of gut microbiota from healthy humans
journal, December 2008
- Chassard, Christophe; Scott, Karen P.; Marquet, Perrine
- FEMS Microbiology Ecology, Vol. 66, Issue 3
Ruminococcus albus 8 Mutants Defective in Cellulose Degradation Are Deficient in Two Processive Endocellulases, Cel48A and Cel9B, Both of Which Possess a Novel Modular Architecture
journal, December 2003
- Devillard, E.; Goodheart, D. B.; Karnati, S. K. R.
- Journal of Bacteriology, Vol. 186, Issue 1
An efficient algorithm for large-scale detection of protein families
journal, April 2002
- Enright, A. J.
- Nucleic Acids Research, Vol. 30, Issue 7
Adhesion to cellulose by Ruminococcus albus: a combination of cellulosomes and Pil-proteins?
journal, April 2000
- Morrison, M.
- FEMS Microbiology Letters, Vol. 185, Issue 2
Phylogenetic diversity of bacterial communities in bovine rumen as affected by diets and microenvironments
journal, September 2011
- Kim, Minseok; Morrison, Mark; Yu, Zhongtang
- Folia Microbiologica, Vol. 56, Issue 5
Copaifera spp. oleoresins impair Toxoplasma gondii infection in both human trophoblastic cells and human placental explants
journal, September 2020
- Teixeira, Samuel Cota; de Souza, Guilherme; Borges, Bruna Cristina
- Scientific Reports, Vol. 10, Issue 1
Noncellulosomal cohesin- and dockerin-like modules in the three domains of life
journal, February 2009
- Peer, Ayelet; Smith, Steven P.; Bayer, Edward A.
- FEMS Microbiology Letters, Vol. 291, Issue 1
Kinetics of Cellulose Digestion by Fibrobacter succinogenes S85.
journal, January 1997
- Maglione, G.; Russell, J. B.; Wilson, D. B.
- Applied and environmental microbiology, Vol. 63, Issue 2
pH dynamics and bacterial community composition in the rumen of lactating dairy cows
journal, January 2010
- Palmonari, A.; Stevenson, D. M.; Mertens, D. R.
- Journal of Dairy Science, Vol. 93, Issue 1
Characterization of the Cellulolytic Complex (Cellulosome) from Ruminococcus albus
journal, January 2000
- Ohara, Hiroki; Karita, Shuichi; Kimura, Tetsuya
- Bioscience, Biotechnology, and Biochemistry, Vol. 64, Issue 2
EBSeq: an empirical Bayes hierarchical model for inference in RNA-seq experiments
journal, February 2013
- Leng, Ning; Dawson, John A.; Thomson, James A.
- Bioinformatics, Vol. 29, Issue 8
Design and validation of 16S rRNA probes to enumerate members of the Clostridium leptum subgroup in human faecal microbiota
journal, July 2005
- Lay, Christophe; Sutren, Malene; Rochet, Violaine
- Environmental Microbiology, Vol. 7, Issue 7
Diversity and Strain Specificity of Plant Cell Wall Degrading Enzymes Revealed by the Draft Genome of Ruminococcus flavefaciens FD-1
journal, August 2009
- Berg Miller, Margret E.; Antonopoulos, Dionysios A.; Rincon, Marco T.
- PLoS ONE, Vol. 4, Issue 8
Specialized cell surface structures in cellulolytic bacteria.
journal, August 1987
- Lamed, R.; Naimark, J.; Morgenstern, E.
- Journal of Bacteriology, Vol. 169, Issue 8
Combined prediction of Tat and Sec signal peptides with hidden Markov models
journal, September 2010
- Bagos, Pantelis G.; Nikolaou, Elisanthi P.; Liakopoulos, Theodore D.
- Bioinformatics, Vol. 26, Issue 22
Ultrastructure and adhesion properties of Ruminococcus albus
journal, April 1975
- Patterson, H.; Irvin, R.; Costerton, J. W.
- Journal of Bacteriology, Vol. 122, Issue 1
Bacteria, Colonic Fermentation, and Gastrointestinal Health
journal, January 2012
- Macfarlane, George T.; Macfarlane, Sandra
- Journal of AOAC International, Vol. 95, Issue 1
Fast and accurate short read alignment with Burrows-Wheeler transform
journal, May 2009
- Li, H.; Durbin, R.
- Bioinformatics, Vol. 25, Issue 14
Polysaccharide utilization by gut bacteria: potential for new insights from genomic analysis
journal, February 2008
- Flint, Harry J.; Bayer, Edward A.; Rincon, Marco T.
- Nature Reviews Microbiology, Vol. 6, Issue 2
An efficient algorithm for large-scale detection of protein families
journal, April 2002
- Enright, A. J.
- Nucleic Acids Research, Vol. 30, Issue 7
Global Gene Expression Patterns in Clostridium thermocellum as Determined by Microarray Analysis of Chemostat Cultures on Cellulose or Cellobiose
journal, December 2010
- Riederer, Allison; Takasuka, Taichi E.; Makino, Shin-ichi
- Applied and Environmental Microbiology, Vol. 77, Issue 4
Dominant and diet-responsive groups of bacteria within the human colonic microbiota
journal, August 2010
- Walker, Alan W.; Ince, Jennifer; Duncan, Sylvia H.
- The ISME Journal, Vol. 5, Issue 2
A human gut microbial gene catalogue established by metagenomic sequencing
journal, March 2010
- Qin, Junjie; Li, Ruiqiang; Raes, Jeroen
- Nature, Vol. 464, Issue 7285
Studies of the Extracellular Glycocalyx of the Anaerobic Cellulolytic Bacterium Ruminococcus albus 7
journal, October 2006
- Weimer, P. J.; Price, N. P. J.; Kroukamp, O.
- Applied and Environmental Microbiology, Vol. 72, Issue 12
Targeted A-to-G base editing of chloroplast DNA in plants
journal, December 2022
- Mok, Young Geun; Hong, Sunghyun; Bae, Su-Ji
- Nature Plants, Vol. 8, Issue 12
Fermentation of a Bacterial Cellulose/Xylan Composite by Mixed Ruminal Microflora: Implications for the Role of Polysaccharide Matrix Interactions in Plant Cell Wall Biodegradability
journal, May 2000
- Weimer, Paul J.; Hackney, John M.; Jung, Hans-Joachim G.
- Journal of Agricultural and Food Chemistry, Vol. 48, Issue 5
Cellulosomes: Highly Efficient Nanomachines Designed to Deconstruct Plant Cell Wall Complex Carbohydrates
journal, June 2010
- Fontes, Carlos M. G. A.; Gilbert, Harry J.
- Annual Review of Biochemistry, Vol. 79, Issue 1
Phylogenetic diversity of bacterial communities in bovine rumen as affected by diets and microenvironments
journal, September 2011
- Kim, Minseok; Morrison, Mark; Yu, Zhongtang
- Folia Microbiologica, Vol. 56, Issue 5
Bioconductor : open software development for computational biology and bioinformatics
text, January 2004
- C., Gentleman, Robert; J., Carey, Vincent; M., Bates, Douglas
- BioMed Central
Sequence of egV and Properties of EgV, a Ruminococcus albus Endoglucanase Containing a Dockerin Domain
journal, January 2000
- Ohara, Hiroki; Noguchi, Jyunko; Karita, Shuichi
- Bioscience, Biotechnology, and Biochemistry, Vol. 64, Issue 1
Subcellular distribution of glycanases and related components in Ruminococcus albus SY3 and their role in cell adhesion to cellulose
journal, October 2001
- Miron, J.; Jacobovitch, J.; Bayer, E. A.
- Journal of Applied Microbiology, Vol. 91, Issue 4
Expression of 17 Genes in Clostridium thermocellum ATCC 27405 during Fermentation of Cellulose or Cellobiose in Continuous Culture
journal, August 2005
- Stevenson, D. M.; Weimer, P. J.
- Applied and Environmental Microbiology, Vol. 71, Issue 8
The Complete Genome Sequence of Fibrobacter succinogenes S85 Reveals a Cellulolytic and Metabolic Specialist
journal, April 2011
- Suen, Garret; Weimer, Paul J.; Stevenson, David M.
- PLoS ONE, Vol. 6, Issue 4
Effect of Phenotypic Residual Feed Intake and Dietary Forage Content on the Rumen Microbial Community of Beef Cattle
journal, May 2012
- Carberry, Ciara A.; Kenny, David A.; Han, Sukkyan
- Applied and Environmental Microbiology, Vol. 78, Issue 14
BESC knowledgebase public portal
journal, January 2012
- Syed, M. H.; Karpinets, T. V.; Parang, M.
- Bioinformatics, Vol. 28, Issue 5
Microbial Cellulose Utilization: Fundamentals and Biotechnology
journal, September 2002
- Lynd, L. R.; Weimer, P. J.; van Zyl, W. H.
- Microbiology and Molecular Biology Reviews, Vol. 66, Issue 3, p. 506-577
Unconventional Mode of Attachment of the Ruminococcus flavefaciens Cellulosome to the Cell Surface
journal, November 2005
- Rincon, M. T.; Cepeljnik, T.; Martin, J. C.
- Journal of Bacteriology, Vol. 187, Issue 22
Adhesion to cellulose by Ruminococcus albus : a combination of cellulosomes and Pil-proteins?
journal, April 2000
- Morrison, Mark; Miron, Joshua
- FEMS Microbiology Letters, Vol. 185, Issue 2
pH dynamics and bacterial community composition in the rumen of lactating dairy cows
journal, January 2010
- Palmonari, A.; Stevenson, D. M.; Mertens, D. R.
- Journal of Dairy Science, Vol. 93, Issue 1
A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding
journal, May 1976
- Bradford, Marion M.
- Analytical Biochemistry, Vol. 72, Issue 1-2
Dominance of Prevotella and low abundance of classical ruminal bacterial species in the bovine rumen revealed by relative quantification real-time PCR
journal, January 2007
- Stevenson, David M.; Weimer, Paul J.
- Applied Microbiology and Biotechnology, Vol. 75, Issue 1
Effect of 3-Phenylpropanoic Acid on Capsule and Cellulases of
Ruminococcus albus
8
journal, July 1984
- Stack, Robert J.; Hungate, Robert E.
- Applied and Environmental Microbiology, Vol. 48, Issue 1
Assessment of metabolic diversity within the intestinal microbiota from healthy humans using combined molecular and cultural approaches: Metabolic diversity of gut microbiota from healthy humans
journal, December 2008
- Chassard, Christophe; Scott, Karen P.; Marquet, Perrine
- FEMS Microbiology Ecology, Vol. 66, Issue 3
Genome analyses highlight the different biological roles of cellulases
journal, January 2012
- Medie, Felix Mba; Davies, Gideon J.; Drancourt, Michel
- Nature Reviews Microbiology, Vol. 10, Issue 3
Identification of target genes conferring ethanol stress tolerance to Saccharomyces cerevisiae based on DNA microarray data analysis
journal, August 2007
- Hirasawa, Takashi; Yoshikawa, Katsunori; Nakakura, Yuki
- Journal of Biotechnology, Vol. 131, Issue 1
Bioconductor: open software development for computational biology and bioinformatics
journal, September 2004
- Gentleman, Robert C.; Carey, Vincent J.; Bates, Douglas M.
- Genome Biology, Vol. 5, Issue 10, p. R80
A novel family of carbohydrate-binding modules identified with Ruminococcus albus proteins
journal, April 2004
- Xu, Qi; Morrison, Mark; Nelson, Karen E.
- FEBS Letters, Vol. 566, Issue 1-3
The Carbohydrate-Active EnZymes database (CAZy): an expert resource for Glycogenomics
journal, January 2009
- Cantarel, B. L.; Coutinho, P. M.; Rancurel, C.
- Nucleic Acids Research, Vol. 37, Issue Database
InterPro: the integrative protein signature database
journal, January 2009
- Hunter, S.; Apweiler, R.; Attwood, T. K.
- Nucleic Acids Research, Vol. 37, Issue Database
Rumen Cellulosomics: Divergent Fiber-Degrading Strategies Revealed by Comparative Genome-Wide Analysis of Six Ruminococcal Strains
journal, July 2014
- Dassa, Bareket; Borovok, Ilya; Ruimy-Israeli, Vered
- PLoS ONE, Vol. 9, Issue 7
Proteome‐wide systems analysis of a cellulosic biofuel‐producing microbe
journal, January 2011
- Tolonen, Andrew C.; Haas, Wilhelm; Chilaka, Amanda C.
- Molecular Systems Biology, Vol. 7, Issue 1
The Ruminococcus albus pilA1-pilA2 locus: expression and putative role of two adjacent pil genes in pilus formation and bacterial adhesion to cellulose
journal, April 2005
- Rakotoarivonina, H.
- Microbiology, Vol. 151, Issue 4
Populations of Select Cultured and Uncultured Bacteria in the Rumen of Sheep and the Effect of Diets and Ruminal Fractions
journal, January 2011
- Stiverson, Jill; Morrison, Mark; Yu, Zhongtang
- International Journal of Microbiology, Vol. 2011
Effect of 3-Phenylpropanoic Acid on Capsule and Cellulases of
Ruminococcus albus
8
journal, July 1984
- Stack, Robert J.; Hungate, Robert E.
- Applied and Environmental Microbiology, Vol. 48, Issue 1
A novel family of carbohydrate-binding modules identified with Ruminococcus albus proteins
journal, April 2004
- Xu, Qi; Morrison, Mark; Nelson, Karen E.
- FEBS Letters, Vol. 566, Issue 1-3
Adhesion to cellulose by Ruminococcus albus : a combination of cellulosomes and Pil-proteins?
journal, April 2000
- Morrison, Mark; Miron, Joshua
- FEMS Microbiology Letters, Vol. 185, Issue 2
Ultrastructure and adhesion properties of Ruminococcus albus
journal, April 1975
- Patterson, H.; Irvin, R.; Costerton, J. W.
- Journal of Bacteriology, Vol. 122, Issue 1
Fermentation of Insoluble Cellulose by Continuous Cultures of
Ruminococcus albus
journal, November 1988
- Pavlostathis, Spyros G.; Miller, Terry L.; Wolin, Meyer J.
- Applied and Environmental Microbiology, Vol. 54, Issue 11
Proteome‐wide systems analysis of a cellulosic biofuel‐producing microbe
journal, January 2011
- Tolonen, Andrew C.; Haas, Wilhelm; Chilaka, Amanda C.
- Molecular Systems Biology, Vol. 7, Issue 1
The Ruminococcus albus pilA1-pilA2 locus: expression and putative role of two adjacent pil genes in pilus formation and bacterial adhesion to cellulose
journal, April 2005
- Rakotoarivonina, H.
- Microbiology, Vol. 151, Issue 4
Specialized cell surface structures in cellulolytic bacteria.
journal, August 1987
- Lamed, R.; Naimark, J.; Morgenstern, E.
- Journal of Bacteriology, Vol. 169, Issue 8
A segmented gas/liquid delivery system for continuous culture of microorganisms on insoluble substrates and its use for growth of Ruminococcus flavefaciens on cellulose
journal, November 1991
- Weimer, Paul J.; Shi, Yan; Odt, Christine L.
- Applied Microbiology and Biotechnology, Vol. 36, Issue 2
Colorimetric Method for Determination of Sugars and Related Substances
journal, March 1956
- DuBois, Michel.; Gilles, K. A.; Hamilton, J. K.
- Analytical Chemistry, Vol. 28, Issue 3, p. 350-356
Competition among three predominant ruminal cellulolytic bacteria in the absence or presence of non-cellulolytic bacteria
journal, January 2001
- Chen, Junqin; Weimer, Paul J.
- Microbiology, Vol. 147, Issue 1
Measurement of carboxymethylcellulase activity
journal, September 1960
- Miller, Gail Lorenz; Blum, Robert; Glennon, William E.
- Analytical Biochemistry, Vol. 1, Issue 2
Kinetics of Cellulose Digestion by Fibrobacter succinogenes S85.
journal, January 1997
- Maglione, G.; Russell, J. B.; Wilson, D. B.
- Applied and environmental microbiology, Vol. 63, Issue 2
The Carbohydrate-Active EnZymes database (CAZy): an expert resource for Glycogenomics
journal, January 2009
- Cantarel, B. L.; Coutinho, P. M.; Rancurel, C.
- Nucleic Acids Research, Vol. 37, Issue Database
InterPro: the integrative protein signature database
journal, January 2009
- Hunter, S.; Apweiler, R.; Attwood, T. K.
- Nucleic Acids Research, Vol. 37, Issue Database
Works referencing / citing this record:
Microbial succession in the gastrointestinal tract of dairy cows from 2 weeks to first lactation
journal, January 2017
- Dill-McFarland, Kimberly A.; Breaker, Jacob D.; Suen, Garret
- Scientific Reports, Vol. 7, Issue 1
Response of Gut Microbiota to Dietary Fiber and Metabolic Interaction With SCFAs in Piglets
journal, September 2018
- Liu, Boshuai; Wang, Wenjing; Zhu, Xiaoyan
- Frontiers in Microbiology, Vol. 9
Regulatory Properties of the ADP-Glucose Pyrophosphorylase from the Clostridial Firmicutes Member Ruminococcus albus
journal, June 2018
- Cereijo, Antonela E.; Asencion Diez, Matías D.; Ballicora, Miguel A.
- Journal of Bacteriology, Vol. 200, Issue 17
Microbial succession in the gastrointestinal tract of dairy cows from 2 weeks to first lactation
journal, January 2017
- Dill-McFarland, Kimberly A.; Breaker, Jacob D.; Suen, Garret
- Scientific Reports, Vol. 7, Issue 1
The Ruminococci: key symbionts of the gut ecosystem
journal, February 2018
- La Reau, Alex J.; Suen, Garret
- Journal of Microbiology, Vol. 56, Issue 3
Comparing the Microbial Community in Four Stomach of Dairy Cattle, Yellow Cattle and Three Yak Herds in Qinghai-Tibetan Plateau
journal, July 2019
- Xin, Jinwei; Chai, Zhixin; Zhang, Chengfu
- Frontiers in Microbiology, Vol. 10
Bacterial colonisation of reeds and cottonseed hulls in the rumen of Tarim red deer (Cervus elaphus yarkandensis)
journal, April 2019
- Qian, Wenxi; Ao, Weiping; Jia, Cunhui
- Antonie van Leeuwenhoek, Vol. 112, Issue 9
Comparing the Microbial Community in Four Stomach of Dairy Cattle, Yellow Cattle and Three Yak Herds in Qinghai-Tibetan Plateau
journal, July 2019
- Xin, Jinwei; Chai, Zhixin; Zhang, Chengfu
- Frontiers in Microbiology, Vol. 10
Regulation of CD4+CD8−CD25+ and CD4+CD8+CD25+ T cells by gut microbiota in chicken
journal, June 2018
- Lee, In Kyu; Gu, Min Jeong; Ko, Kwang Hyun
- Scientific Reports, Vol. 8, Issue 1
Zinc AA supplementation alters yearling ram rumen bacterial communities but zinc sulfate supplementation does not1
journal, December 2018
- Ishaq, Suzanne L.; Page, Chad M.; Yeoman, Carl J.
- Journal of Animal Science, Vol. 97, Issue 2
Intestinal permeability in the pathogenesis of liver damage: From non-alcoholic fatty liver disease to liver transplantation
journal, September 2019
- Nicoletti, Alberto; Ponziani, Francesca Romana; Biolato, Marco
- World Journal of Gastroenterology, Vol. 25, Issue 33
Taxonomic and functional assessment using metatranscriptomics reveals the effect of Angus cattle on rumen microbial signatures
journal, October 2019
- Neves, A. L. A.; Chen, Y.; Lê Cao, K. -A.
- animal, Vol. 14, Issue 4
Enhancing the Resolution of Rumen Microbial Classification from Metatranscriptomic Data Using Kraken and Mothur
journal, December 2017
- Neves, Andre L. A.; Li, Fuyong; Ghoshal, Bibaswan
- Frontiers in Microbiology, Vol. 8
Progressive Colonization of Bacteria and Degradation of Rice Straw in the Rumen by Illumina Sequencing
journal, November 2017
- Cheng, Yanfen; Wang, Ying; Li, Yuanfei
- Frontiers in Microbiology, Vol. 8
Sequence-based analysis of the genus Ruminococcus resolves its phylogeny and reveals strong host association
journal, December 2016
- La Reau, Alex J.; Meier-Kolthoff, Jan P.; Suen, Garret
- Microbial Genomics, Vol. 2, Issue 12
Redundancy, resilience, and host specificity of the ruminal microbiota: implications for engineering improved ruminal fermentations
journal, April 2015
- Weimer, Paul J.
- Frontiers in Microbiology, Vol. 6
The severity of nonalcoholic fatty liver disease is associated with gut dysbiosis and shift in the metabolic function of the gut microbiota: Boursier et al.
journal, January 2016
- Boursier, Jérôme; Mueller, Olaf; Barret, Matthieu
- Hepatology, Vol. 63, Issue 3
The Planktonic Core Microbiome and Core Functions in the Cattle Rumen by Next Generation Sequencing
journal, September 2018
- Wirth, Roland; Kádár, Gyula; Kakuk, Balázs
- Frontiers in Microbiology, Vol. 9