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2020
Can rumen bacteria communicate to each other?
Won, M.-Y., Oyama, L. B., Courtney, S. J., Creevey, C. J. & Huws, S. A., 21 Feb 2020, In: Microbiome. 8, 1, p. 23 8 p., 23.Research output: Contribution to journal › Article › peer-review
Open AccessFile73 Citations (Scopus)186 Downloads (Pure) -
Cut-lengths of perennial ryegrass leaf-blades influences in vitro fermentation by the anaerobic fungus neocallimastix frontalis
Jimenez, H. R., Edwards, J. E., Sanderson, R., Kingston-Smith, A. H., McEwan, N. R. & Theodorou, M. K., 11 Nov 2020, In: Microorganisms. 8, 11, 15 p., 1774.Research output: Contribution to journal › Article › peer-review
Open AccessFile7 Citations (Scopus)173 Downloads (Pure) -
2019
A multi-kingdom study reveals the plasticity of the rumen microbiota in response to a shift from non-grazing to grazing diets in sheep
Belanche Gracia, A., Kingston-Smith, A., Griffith, G. & Newbold, C., 11 Feb 2019, In: Frontiers in Microbiology. 10, FEB, 17 p., 122.Research output: Contribution to journal › Article › peer-review
Open AccessFile65 Citations (Scopus)224 Downloads (Pure) -
Comparative metagenomic and metatranscriptomic analyses reveal the breed effect on the rumen microbiome and its associations with feed efficiency in beef cattle
Li, F., Hitch, T., Chen, Y., Creevey, C. & Guan, L. L., 14 Jan 2019, In: Microbiome. 7, p. 6 21 p.Research output: Contribution to journal › Article › peer-review
Open AccessFile213 Citations (Scopus)253 Downloads (Pure) -
2018
Analysis of the rumen microbiome and metabolome to study the effect of an antimethanogenic treatment applied in early life of kid goats
Abecia, L., Martinez Fernandez, G., Waddams, K., Martín-García, A. I., Pinloche, E., Creevey, C., Denman, S. E., Newbold, C. J. & Yáñez-Ruiz, D. R., 09 Oct 2018, In: Frontiers in Microbiology. 9, OCT, 2227.Research output: Contribution to journal › Article › peer-review
Open AccessFile32 Citations (Scopus)425 Downloads (Pure) -
CowPI: A rumen microbiome focussed version of the PICRUSt functional inference software
Wilkinson, T., Huws, S., Edwards, J. E., Kingston-Smith, A., Siu-Ting, K., Hughes, M., Rubino, F., Friedersdorff, M. & Creevey, C., 25 May 2018, In: Frontiers in Microbiology. 9, 1095.Research output: Contribution to journal › Article › peer-review
Open AccessFile132 Citations (Scopus)230 Downloads (Pure) -
Cultivation and sequencing of rumen microbiome members from the Hungate1000 Collection
Seshadri, R., Leahy, S. C., Attwood, G. T., Teh, K. H., Lambie, S. C., Cookson, A. L., Eloe-Fadrosh, E. A., Pavlopoulos, G. A., Hadjithomas, M., Varghese, N. J., Paez-Espino, D., Palevich, N., Janssen, P. H., Ronimus, R. S., Noel, S., Soni, P., Reilly, K., Atherly, T., Ziemer, C. & Wright, A.-D. & 37 others, , 19 Mar 2018, In: Nature Biotechnology. 36, p. 359-367 9 p., 4110.Research output: Contribution to journal › Article › peer-review
Open AccessFile479 Citations (Scopus)277 Downloads (Pure) -
Deep sequence analysis reveals the ovine rumen as a reservoir of antibiotic resistance genes
Hitch, T., Thomas, B. J., Friedersdorff, J. C. A., Ougham, H. & Creevey, C., 01 Apr 2018, In: Environmental Pollution. 235, p. 571-575 5 p.Research output: Contribution to journal › Article › peer-review
Open AccessFile35 Citations (Scopus)229 Downloads (Pure) -
Meta-proteomics of rumen microbiota indicates niche compartmentalisation and functional dominance in a limited number of metabolic pathways between abundant bacteria
Hart, E., Creevey, C. J., Hitch, T. & Kingston-Smith, A., 12 Jul 2018, In: Scientific Reports. 8, 10504.Research output: Contribution to journal › Article › peer-review
Open AccessFile66 Citations (Scopus)161 Downloads (Pure) -
Polyomic tools for an emerging livestock parasite, the rumen fluke Calicophoron daubneyi; identifying shifts in rumen functionality
Huson, K. M., Morphew, R., Allen, N., Hegarty, M., Worgan, H., Girdwood, S., Jones, E. L., Phillips, H., Vickers, M., Swain, M., Smith, D., Kingston-Smith, A. & Brophy, P., 04 Dec 2018, In: Parasites & Vectors. 11, 1, 22 p., 617.Research output: Contribution to journal › Article › peer-review
Open AccessFile13 Citations (Scopus)417 Downloads (Pure) -
Spherical: an iterative workflow for assembling metagenomic datasets
Hitch, T. C. A. & Creevey, C. J., 24 Jan 2018, In: BMC Bioinformatics. 19, 1, 20.Research output: Contribution to journal › Article › peer-review
Open AccessFile6 Citations (Scopus)154 Downloads (Pure) -
Using 'Omic Approaches to Compare Temporal Bacterial Colonization of Lolium perenne, Lotus corniculatus and Trifolium pratense in the Rumen
Elliott, C., Edwards, J., Wilkinson, T., Allison, G., McCaffrey, K., Scott, M., Rees Stevens, P., Kingston-Smith, A. & Huws, S., 19 Sept 2018, In: Frontiers in Microbiology. 9, SEP, 2184.Research output: Contribution to journal › Article › peer-review
Open AccessFile20 Citations (Scopus)202 Downloads (Pure) -
2017
A pilot study using metagenomic sequencing of the sputum microbiome suggests potential bacterial biomarkers for lung cancer
Cameron, S., Lewis, K. E., Huws, S., Hegarty, M., Lewis, P. D., Pachebat, J. A. & Mur, L., 25 May 2017, In: PLoS ONE. 12, 5, 17 p., e0177062.Research output: Contribution to journal › Article › peer-review
Open AccessFile160 Citations (Scopus)301 Downloads (Pure) -
A systems biology approach reveals differences in the dynamics of colonization and degradation of grass vs. hay by rumen microbes with minor effects of vitamin E supplementation
Belanche Gracia, A., Newbold, C., Lin, W., Rees Stevens, P. & Kingston-Smith, A., 03 Aug 2017, In: Frontiers in Microbiology. 8, 01456.Research output: Contribution to journal › Article › peer-review
Open AccessFile33 Citations (Scopus)226 Downloads (Pure) -
Buwchitin: A Ruminal Peptide with Antimicrobial Potential against Enterococcus faecalis
Oyama, L. B., Crochet, J.-A., Edwards, J. E., Girdwood, S., Cookson, A., Fernandez-Fuentes, N., Hilpert, K., Golyshin, P. N., Golyshina, O. V., Privé, F., Hess, M., Mantovani, H. C., Creevey, C. & Huws, S., 12 Jul 2017, In: Frontiers in Chemistry. 5, 51.Research output: Contribution to journal › Article › peer-review
Open AccessFile22 Citations (Scopus)191 Downloads (Pure) -
Divergent functional isoforms drive niche specialisation for nutrient acquisition and use in rumen microbiome
Rubino, F., Carberry, C. A., Waters, S. M., Kenny, D. A., McCabe, M. & Creevey, C., 01 Apr 2017, In: ISME Journal. 11, 4, p. 932-944 13 p.Research output: Contribution to journal › Article › peer-review
Open AccessFile67 Citations (Scopus)201 Downloads (Pure) -
Improving the antiprotozoal effect of saponins in the rumen by combination with glycosidase inhibiting inimosugars or by modification of their chemical structure
Ramos Morales, E., De La Fuente Oliver, G., Nash, R. J., Braganca, R., Duval, S., Bouillon, M. E., Lahmann, M. & Newbold, C., 08 Sept 2017, In: PLoS ONE. 12, 9, 0184517.Research output: Contribution to journal › Article › peer-review
Open AccessFile13 Citations (Scopus)121 Downloads (Pure) -
Nitric Oxide Has a Concentration-Dependent Effect on the Cell Cycle Acting via EIN2 in Arabidopsis thaliana Cultured Cells
Novikova, G. V., Mur, L., Nosov, A. V., Fomenkov, A. A., Mironov, K. S., Mamaeva, A. S., Shilov, E. S., Rakitin, V. Y. & Hall, M., 10 Mar 2017, In: Frontiers in Physiology. 8, 142.Research output: Contribution to journal › Article › peer-review
Open AccessFile20 Citations (Scopus)220 Downloads (Pure) -
The rumen microbiome: An underexplored resource for novel antimicrobial discovery
Oyama, L. B., Girdwood, S. E., Cookson, A. R., Fernandez-fuentes, N., Privé, F., Vallin, H. E., Wilkinson, T. J., Golyshin, P. N., Golyshina, O. V., Mikut, R., Hilpert, K., Richards, J., Wootton, M., Edwards, J. E., Maresca, M., Perrier, J., Lundy, F. T., Luo, Y., Zhou, M. & Hess, M. & 3 others, , 01 Dec 2017, In: npj Biofilms and Microbiomes. 3, 9 p., 33.Research output: Contribution to journal › Article › peer-review
Open AccessFile54 Citations (Scopus)206 Downloads (Pure) -
2016
An Integrated Multi-Omics Approach Reveals the Effects of Supplementing Grass or Grass Hay with Vitamin E on the Rumen Microbiome and Its Function
Belanche Gracia, A., Kingston-Smith, A. & Newbold, C., 10 Jun 2016, In: Frontiers in Microbiology. 7, JUN, 905.Research output: Contribution to journal › Article › peer-review
Open AccessFile21 Citations (Scopus)218 Downloads (Pure) -
An ultra-high density genetic linkage map of perennial ryegrass (Lolium perenne) using genotyping by sequencing (GBS) based on a reference shotgun genome assembly
Velmurugan, J., Mollison, E., Barth, S., Marshall, D., Milne, L., Creevey, C., Lynch, B., Meally, H., McCabe, M. & Milbourne, D., 01 Jul 2016, In: Annals of Botany. 118, 1, p. 71-87 17 p.Research output: Contribution to journal › Article › peer-review
Open AccessFile22 Citations (Scopus)252 Downloads (Pure) -
Effects and mode of action of chitosan and ivy fruit saponins on the microbiome, fermentation and methanogenesis in the rumen simulation technique
Belanche Gracia, A., Pinloche, E., Preskett, D. & Newbold, C. J., 01 Jan 2016, In: FEMS Microbiology Ecology. 92, 1, fiv 160.Research output: Contribution to journal › Article › peer-review
Open AccessFile111 Citations (Scopus)206 Downloads (Pure) -
In vitro screening of natural feed additives from crustaceans, diatoms, seaweeds and plant extracts to manipulate rumen fermentation
Belanche Gracia, A., Ramos Morales, E. & Newbold, C. J., 31 May 2016, In: Journal of the Science of Food and Agriculture. 96, 9, p. 3069-3078 10 p.Research output: Contribution to journal › Article › peer-review
Open AccessFile67 Citations (Scopus)639 Downloads (Pure) -
MitiGate; an online meta-analysis database for quantification of mitigation strategies for enteric methane emissions
Veneman, J. B., Saetnan, E., Clare, A. & Newbold, C., 01 Dec 2016, In: Science of the Total Environment. 572, p. 1166-1174 9 p.Research output: Contribution to journal › Article › peer-review
Open AccessFile19 Citations (Scopus)600 Downloads (Pure) -
Terminator Operon Reporter: Combining a transcription termination switch with reporter technology for improved gene synthesis and synthetic biology applications
Zampini, M., Mur, L., Rees Stevens, P., Pachebat, J. A., Newbold, C., Hayes, F. & Kingston-Smith, A., 25 May 2016, In: Scientific Reports. 6, 1 p., 26572.Research output: Contribution to journal › Article › peer-review
Open AccessFile3 Citations (Scopus)239 Downloads (Pure) -
The effects of PPO activity on the proteome of ingested red clover and implications for improving the nutrition of grazing cattle
Hart, E., Onime, L. A., Davies, T., Morphew, R. & Kingston-Smith, A., 01 Jun 2016, In: Journal of Proteomics. 141, p. 67-76 10 p.Research output: Contribution to journal › Article › peer-review
Open AccessFile24 Citations (Scopus)282 Downloads (Pure) -
Transcriptomics of liver and muscle in Holstein cows genetically divergent for fertility highlight differences in nutrient partitioning and inflammation processes.
Moran, B., Cummins, S., Creevey, C. & Butler, S., 11 Aug 2016, In: BMC Genomics. 17, 1, 603.Research output: Contribution to journal › Article › peer-review
Open AccessFile23 Citations (Scopus)153 Downloads (Pure) -
2015
A metabolomic study in oats (Avena sativa) highlights a drought tolerance mechanism based upon salicylate signalling pathways and the modulation of carbon, antioxidant and photo-oxidative metabolism
Sánchez-Martín, J., Heald, J., Kingston-Smith, A., Winters, A., Rubiales, D., Sanz, M., Mur, L. A. J. & Prats, E., 03 Jun 2015, In: Plant, Cell and Environment. 38, 7, p. 1434-1452 19 p.Research output: Contribution to journal › Article › peer-review
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Disaggregated N2O emission factors in China based on cropping parameters create a robust approach to the IPCC Tier 2 methodology
Shepherd, A., Yan, X., Nayak, D., Newbold, J., Moran, D., Dhanoa, M. S., Smith, P. & Cardenas, L., 01 Dec 2015, In: Atmospheric Environment. 122, p. 272-281 10 p.Research output: Contribution to journal › Article › peer-review
Open AccessFile31 Citations (Scopus)244 Downloads (Pure) -
Does Dietary Mitigation of Enteric Methane Production Affect Rumen Function and Animal Productivity in Dairy Cows?
Veneman, J. B., Muetzel, S., Hart, K. J., Faulkner, C. L., Moorby, J. M., Perdok, H. B., Newbold, C. J. & Balcazar, J. L. (Editor), 28 Oct 2015, In: PLoS ONE. 10, 10, 18 p., e0140282.Research output: Contribution to journal › Article › peer-review
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Effect of progressive inoculation of fauna-free sheep with holotrich protozoa and total-fauna on rumen fermentation, microbial diversity and methane emissions
Belanche Gracia, A., de la Fuente, G. & Newbold, C. J., 03 Feb 2015, In: FEMS Microbiology Ecology. 91, 3Research output: Contribution to journal › Article › peer-review
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Horizontal gene flow from Eubacteria to Archaebacteria and what it means for our understanding of Eukaryogenesis
Akanni, W. A., Siu-Ting, K., Creevey, C., McInerney, J. O., Wilkinson, M., Foster, P. G. & Pisani, D., 26 Sept 2015, In: Philosophical Transactions B: Biological Sciences. 370, 1678, 20140337.Research output: Contribution to journal › Article › peer-review
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Implementing and testing Bayesian and Maximum likelihood supertree methods in phylogenetics
Akanni, W. A., Wilkinson, M., Creevey, C., Foster, P. & Pisani, D., 05 Aug 2015, In: Royal Society Open Science. 2, 9 p., 140436.Research output: Contribution to journal › Article › peer-review
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Management opportunities to mitigate greenhouse gas emissions from Chinese agriculture
Nayak, D. R., Saetnan, E., Cheng, K., Wang, W., Koslowski, F., Cheng, Y.-F., Zhu, W. Y., Wang, J.-K., Liu, J.-X., Moran, D., Cardenas, L., Newbold, J., Pan, G., Lu, Y. & Smith, P., 01 Nov 2015, In: Agriculture, Ecosystems and Environment. 209, p. 108-124 17 p.Research output: Contribution to journal › Article › peer-review
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Manipulating rumen microbiome and fermentation through interventions during early life: a review: Rumen manipulation in early life
Yanez-ruiz, D. R., Abecia, L. & Newbold, C. J., 14 Oct 2015, In: Frontiers in Microbiology. 6Research output: Contribution to journal › Article › peer-review
Open AccessFile294 Citations (Scopus)170 Downloads (Pure) -
RapGene: a fast and accurate strategy for synthetic gene assembly in Escherichia coli
Zampini, M., Rees Stevens, P., Pachebat, J., Kingston-Smith, A., Mur, L. & Hayes, F., 11 Jun 2015, In: Scientific Reports. 5, 11302.Research output: Contribution to journal › Article › peer-review
Open AccessFile7 Citations (Scopus)188 Downloads (Pure) -
Response of the rumen archaeal and bacterial populations to anti-methanogenic organosulphur compounds in continuous-culture fermenters
Martínez-Fernández, G., Abecia, L., Martín-García, A. I., Ramos-Morales, E., Denman, S. E., Newbold, C. J., Molina-Alcaide, E. & Yáñez-Ruiz, D. R., Aug 2015, In: FEMS Microbiology Ecology. 91, 8, fiv079.Research output: Contribution to journal › Article › peer-review
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The Role of Ciliate Protozoa in the Rumen
Newbold, C. J., De La Fuente, G., Belanche, A., Ramos-morales, E. & Mcewan, N. R., 26 Nov 2015, In: Frontiers in Microbiology. 6, 1313.Research output: Contribution to journal › Article › peer-review
Open AccessFile517 Citations (Scopus)345 Downloads (Pure) -
2014
Anaerobic fungi (phylum Neocallimastigomycota): advances in understanding their taxonomy, life cycle, ecology, role and biotechnological potential
Gruninger, R. J., Puniya, A. K., Callaghan, T. M., Edwards, J. E., Youssef, N., Dagar, S. S., Fliegerova, K., Griffith, G. W., Forster, R., Tsang, A., McAllister, T. & Elshahed, M. S., 01 Oct 2014, In: FEMS Microbiology Ecology. 90, 1, p. 1-17 17 p.Research output: Contribution to journal › Article › peer-review
Open AccessFile306 Citations (Scopus)174 Downloads (Pure) -
An Antimethanogenic Nutritional Intervention in Early Life of Ruminants Modifies Ruminal Colonization by Archaea
Abecia, L., Waddams, K. E., Martinez Fernandez, G., Martin-Garcia, A. I., Ramos Morales, E., Newbold, C. J. & Yáñez-Ruiz, D. R., 01 Jan 2014, In: Archaea. 2014, 841463.Research output: Contribution to journal › Article › peer-review
Open AccessFile78 Citations (Scopus)198 Downloads (Pure) -
Characterisation of the Faecal Bacterial Community in Adult and Elderly Horses Fed a High Fibre, High Oil or High Starch Diet Using 454 Pyrosequencing
Dougal, K., De La Fuente Oliver, G., Harris, P. A., Girdwood, S. E., Pinloche, E., Geor, R. J., Nielsen, B. D., Schott, H. C., Elzinga, S. & Newbold, C. J., 04 Feb 2014, In: PLoS ONE. 9, 2, 9 p., e87424.Research output: Contribution to journal › Article › peer-review
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Concatabominations: Identifying Unstable Taxa in Morphological Phylogenetics using a Heuristic Extension to Safe Taxonomic Reduction
Siu-Ting, K., Pisani, D., Creevey, C. J. & Wilkinson, M., 02 Sept 2014, In: Systematic Biology.Research output: Contribution to journal › Article › peer-review
Open AccessFile14 Citations (Scopus)164 Downloads (Pure) -
Determining the culturability of the rumen bacterial microbiome
Creevey, C. J., Kelly, W. J., Henderson, G. & Leahy, S. C., 01 Sept 2014, In: Microbial Biotechnology. 7, 5, p. 467-479 13 p.Research output: Contribution to journal › Article › peer-review
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Differential Colonization of Plant Parts by the Rumen Microbiota is likely to be due to Different Forage Chemistries
Huws, S. A., Mayorga, O. L., Theodorou, M. K., Kim, E. J., Cookson, A., Newbold, J. & Kingston-Smith, A. H., 07 Feb 2014, In: Journal of Microbial and Biochemical Technology. 6, 2, p. 80-86Research output: Contribution to journal › Article › peer-review
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Diversity and Community Composition of Methanogenic Archaea in the Rumen of Scottish Upland Sheep Assessed by Different Methods
Snelling, T. J., Genç, B., Mckain, N., Watson, M., Waters, S. M., Creevey, C. J. & Wallace, R. J., 24 Sept 2014, In: PLoS ONE. 9, 9, e106491.Research output: Contribution to journal › Article › peer-review
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eggNOG v4.0: Nested orthology inference across 3686 organisms
Powell, S., Forslund, K., Szklarczyk, D., Trachana, K., Roth, A., Huerta-Cepas, J., Gabaldón, T., Rattei, T., Creevey, C., Kuhn, M., Jensen, L. J., von Mering, C. & Bork, P., 01 Jan 2014, In: Nucleic Acids Research. 42, D1, p. D231-D239 9 p.Research output: Contribution to journal › Article › peer-review
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Feeding management in early life influences microbial colonisation and fermentation in the rumen of newborn goat kids
Abecia, L., Ramos Morales, E., Martinez-Fernandez, G., Arco, A., Martin-Garcia, A. I., Newbold, C. J. & Yáñez-Ruiz, D. R., 23 Jul 2014, In: Animal Production Science. 54, 9, p. 1449-1454 6 p.Research output: Contribution to journal › Article › peer-review
64 Citations (Scopus) -
Genome sequence of Ensifer adhaerens OV14 provides insights into its ability as a novel vector for the genetic transformation of plant genomes
Rudder, S., Doohan, F., Creevey, C. J., Wendt, T. & Mullins, E., 07 Apr 2014, In: BMC Genomics. 15, 1, 268.Research output: Contribution to journal › Article › peer-review
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L.U.St: a tool for approximated maximum likelihood supertree reconstruction
Akanni, W. A., Creevey, C. J., Wilkinson, M. & Pisani, D., 01 Jan 2014, In: BMC Bioinformatics. 15, 1, 183.Research output: Contribution to journal › Article › peer-review
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Measurement of rumen dry matter and neutral detergent fiber degradability of feeds by Fourier-transform infrared spectroscopy
Belanche Gracia, A., Weisbjerg, M. R., Allison, G. G., Newbold, J. & Moorby, J. M., 10 Apr 2014, In: Journal of Dairy Science. 97, 4, p. 2361-2375 15 p.Research output: Contribution to journal › Article › peer-review
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