Professor James McDonald
Honorary Professor

Dolenni cyswllt
Contact info
James McDonald is Professor of microbial ecology at Bangor University.
Current research themes include microbiome analysis of biomass-degrading microorganisms for biofuels and biotechnology, high-throughput methods for the detection of human pathogens in aquatic environments, and microbiome analysis of the complex tree disease, Acute Oak Decline.
His group applies a combination of microbiological culture techniques and contemporary ‘omics’ technologies (e.g. genomics, metagenomics, metatranscriptomics and metaproteomics) to address these research themes.
Location: 2nd Floor ECW Building
Tel: +44 (0)1248 383077
Personal webpage: https://www.jamesmcdonaldlab.com/
- Cyhoeddwyd
Tracing the fate of wastewater viruses reveals catchment-scale virome diversity and connectivity
Adriaenssens, E. M., Farkas, K., McDonald, J. E., Jones, D. L., Allison, H. E. & McCarthy, A. J., 15 Medi 2021, Yn: Water Research. 203Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid
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Improving quantification of bivalve larvae in mixed plankton samples using qPCR: A case study on Mytilus edulis
Alexander, J., Malham, S., Smyth, D., Webb, J., Fidler, D., Bayford, P., McDonald, J. & Le Vay, L., 15 Chwef 2021, Yn: Aquaculture. 532, 736003.Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid
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Fifty important research questions in microbial ecology
Antwis, R. E., Griffiths, S. M., Harrison, X. A., Aranega-Bou, P., Arce, A., Bettridge, A. S., Brailsford, F., de Menezes, A., Devaynes, A., Forbes, K. M., Fry, E. L., Goodhead, I., Haskell, E., Heys, C., James, C., Johnston, S. R., Lewis, G. R., Lewis, Z., Macey, M. C., McCarthy, A., McDonald, J., Mejia-Florez, N. L., O'Brien, D., Orland, C., Pautasso, M., Reid, W. D. K., Robinson, H. A., Wilson, K. & Sutherland, W. J., Mai 2017, Yn: Fems Microbiology Ecology. 93, 5, fix044.Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid
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Impact of Sediment Concentration on the Survival of Wastewater-Derived blaCTX-M-15-Producing E. coli, and the Implications for Dispersal into Estuarine Waters
Bashawri, Y. M. A., Robins, P., Jones, D. L., McDonald, J., Cooper, D. & Williams, P., 19 Hyd 2020, Yn: International Journal of Environmental Research and Public Health. 17, 20, 15 t., 7608.Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid
Taxonomy and identification of bacteria associated with acute oak decline
Brady, C., Arnold, D., McDonald, J. & Denman, S., Gorff 2017, Yn: World Journal of Microbiology and Biotechnology. 33, 7, t. 143Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl adolygu › adolygiad gan gymheiriaid
- Cyhoeddwyd
Integrated multi-omic analysis of host-microbiota interactions in acute oak decline
Broberg, M., Doonan, J., Mundt, F. & McDonald, J., 30 Ion 2018, Yn: Microbiome. 6, 21.Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid
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Extraction of Microbial and Host DNA, RNA, and Proteins from Oak Bark Tissue
Broberg, M. & McDonald, J., 5 Chwef 2019, Yn: Methods and Protocols. 2, 1, 15.Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid
- Cyhoeddwyd
Soil metabolomics - current challenges and future perspectives
Brown, R., Reay, M. K., Centler, F., Chadwick, D., Bull, I. D., McDonald, J., Evershed, R. P. & Jones, D. L., 1 Meh 2024, Yn: Soil Biology and Biochemistry. 109382.Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid
- Cyhoeddwyd
A multiplex real‐time PCR assay enables simultaneous rapid detection and quantification of bacteria associated with acute oak decline
Crampton, B. G., Plummer, S., Kaczmarek, M., McDonald, J. & Denman, S., Medi 2020, Yn: Plant Pathology. 69, 7, t. 1301-1310 10 t.Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid
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Identification of Armillaria species on declined oak in Britain: implications for oak health
Denman, S., Barrett, G., Kirk, S. A., McDonald, J. & Coetzee, M. P. A., 7 Ion 2017, Yn: Forestry. 90, 1, t. 148-161Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid
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Microbiome and infectivity studies reveal complex polyspecies tree disease in Acute Oak Decline
Denman, S., Doonan, J., Ransom-Jones, E., Broberg, M., Plummer, S., Kirk, S. A., Scarlett, K., Griffiths, A., Kaczmarek, M., Foster, J., Peace, A., Golyshin, P., Hassard, F., Brown, N., Kenny, J. G. & McDonald, J., 2018, Yn: The ISME Journal. 12, t. 386-399Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid
- Cyhoeddwyd
Isolation studies reveal a shift in the cultivable microbiome of oak affected with Acute Oak Decline
Denman, S., Plummer, S., Peace, A. & McDonald, J., 1 Hyd 2016, Yn: Systematic and Applied Microbiology. 39, 7, t. 484-490Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid
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The intergenic transcribed spacer region 1 as a molecular marker for identification and discrimination of Enterobacteriaceae associated with acute oak decline
Doonan, J., Denman, S., Gertler, C., Pachebat, J. A., Golyshin, P. N. & McDonald, J. E., 1 Ion 2015, Yn: Journal of Applied Microbiology. 118, 1, t. 193-201 9 t.Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid
- Cyhoeddwyd
Genomic analysis of bacteria in the Acute Oak Decline pathobiome
Doonan, J., Denman, S., Pachebat, J. A. & McDonald, J., 8 Ion 2019, Yn: Microbial Genomics. 5, 1, 15 t.Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid
- Cyhoeddwyd
Host–microbiota–insect interactions drive emergent virulence in a complex tree disease
Doonan, J., Broberg, M., Denman, S. & McDonald, J., 26 Awst 2020, Yn: Proceedings of the Royal Society B: Biological Sciences. 287, 1933, 20200956.Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid
- Cyhoeddwyd
Shotgun Metagenomic Sequencing Analysis of Soft-Rot Enterobacteriaceae in Polymicrobial Communities
Doonan, J., Denman, S., McDonald, J. & Golyshin, P., 30 Tach 2016, Metagenomics. Streit , W. R. & Daniel, R. (gol.). Springer New York, Cyfrol 1539. t. 85-97 (Methods in Molecular Biology; Cyfrol 1539).Allbwn ymchwil: Pennod mewn Llyfr/Adroddiad/Trafodion Cynhadledd › Pennod
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Identification of carbohydrate metabolism genes in the metagenome of a marine biofilm community shown to be dominated by gammaproteobacteria and bacteroidetes
Edwards, J. L., Smith, D. L., Connolly, J., McDonald, J. E., Cox, M. J., Joint, I., Edwards, C. & McCarthy, A. J., 26 Hyd 2010, Yn: Genes. 1, 3, t. 371-84 14 t.Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid
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Taxonomic description and genome sequence of Anaerorudis cellulosivorans gen. Nov. sp. nov., a novel cellulose- and Xylan-degrading bacterium of the Bacteroidota phylum isolated from a lab-scale methanogenic landfill bioreactor digesting municipal solid waste
El Houari, A., Carpenter, M., Chaplin, D., Golyshin, P. & McDonald, J., 1 Maw 2025, Yn: Systematic and Applied Microbiology. 49, 2, 126590.Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid
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Spatial patterns and environmental constraints on ecosystem services at a catchment scale
Emmett, B., Cooper, D., Smart, S., Jackson, B., Thomas, A., Cosby, B., Evans, C., Glanville, H., McDonald, J., Malham, S., Marshall, M., Jarvis, S., Rajko-Nenow, P., Webb, G. P., Ward, S., Rowe, E., Jones, L., Vanbergen, E. J., Keith, A., Carter, H., Pereira, M. G., Hughes, S., Lebron, I., Wade, A. & Jones, D., 1 Rhag 2016, Yn: Science of the Total Environment. 572, t. 1586-1600Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid
- Cyhoeddwyd
Evaluation of Molecular Methods for the Detection and Quantification of Pathogen-Derived Nucleic Acids in Sediment
Farkas, K., Hassard, F., McDonald, J., Malham, S. & Jones, D., 24 Ion 2017, Yn: Frontiers in Microbiology. 6, t. 1-12 53.Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid
- Cyhoeddwyd
Wastewater and public health: the potential of wastewater surveillance for monitoring COVID-19
Farkas, K., Hillary, L., Malham, S., McDonald, J. & Jones, D. L., Hyd 2020, Yn: Current Opinion in Environmental Science & Health. 17, t. 14-20 7 t.Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid
- Cyhoeddwyd
Evaluation of Two Triplex One-Step qRT-PCR Assays for the Quantification of Human Enteric Viruses in Environmental Samples
Farkas, K., Peters, D. E., McDonald, J., de Rougemont, A., Malham, S. & Jones, D., Medi 2017, Yn: Food and Environmental Virology. 9, 3, t. 342-349Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid
- Cyhoeddwyd
Viral indicators for tracking domestic wastewater contamination in the aquatic environment
Farkas, K., Walker, D., Adriaenssens, E., McDonald, J., Hillary, L., Malham, S. & Jones, D. L., 15 Awst 2020, Yn: Water Research. 181, 115926.Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid
- Cyhoeddwyd
Seasonal and diurnal surveillance of treated and untreated wastewater for human enteric viruses
Farkas, K., Marshall, M., Cooper, D., McDonald, J. E., Malham, S. K., Peters, D. E., Maloney, J. D. & Jones, D. L., Tach 2018, Yn: Environmental Science and Pollution Research. 25, 33, t. 33391-33401Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid
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Concentration and quantification of SARS-CoV-2 RNA in wastewater using polyethylene glycol-based concentration and qRT-PCR
Farkas, K., Hillary, L., Thorpe, J., Walker, D., Lowther, J. A., McDonald, J., Malham, S. & Jones, D. L., 23 Chwef 2021, Yn: Methods and Protocols. 4, 1, 10 t., 17.Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid
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Two-Step Concentration of Complex Water Samples for the Detection of Viruses
Farkas, K., McDonald, J., Malham, S. & Jones, D. L., 10 Medi 2018, Yn: Methods and Protocols. 1, 3, 35.Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid
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Critical Evaluation of CrAssphage as a Molecular Marker for Human-Derived Wastewater Contamination in the Aquatic Environment
Farkas, K., Adriaenssens, E. M., Walker, D. I., McDonald, J., Malham, S. & Jones, D. L., 1 Meh 2019, Yn: Food and Environmental Virology. 11, 2, t. 113-119Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid
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Concentration and Quantification of SARS-CoV-2 RNA in Wastewater Using Polyethylene Glycol-Based Concentration and qRT-PCR.(vol 4, 17, 2021)
Farkas, K., Hillary, L. S., Thorpe, J., Walker, D. I., Lowther, J. A., McDonald, J. E., Malham, S. K. & Jones, D. L., 12 Tach 2021, Yn: Methods and Protocols. 4, 4Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid
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Shifts in Soil Structure, Biological, and Functional Diversity Under Long-Term Carbon Deprivation
George, P. B. L., Fidler, D. B., Van Nostrand, J. D., Atkinson, J. A., Mooney, S. J., Creer, S., Griffiths, R. I., McDonald, J. E., Robinson, D. A. & Jones, D. L., 14 Medi 2021, Yn: Frontiers in Microbiology. 12, 735022.Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid
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Bioreduction of Sheep Carcasses Effectively Contains and Reduces Pathogen Levels under Operational and Simulated Breakdown Conditions
Golyshin, P., Gwyther, C. L., Jones, D. L., Golyshin, P. N., Edwards-Jones, G., McKillen, J., McNair, I., McDonald, J. E. & Williams, A. P., 21 Mai 2013, Yn: Environmental Science and Technology. 47, 10, t. 5267–5275Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid
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Physicochemical Factors Influence the Abundance and Culturability of Human Enteric Pathogens and Fecal Indicator Organisms in Estuarine Water and Sediment
Hassard, F., Andrews, A., Jones, D. L., Parsons, L., Jones, V., Cox, B. A., Daldorph, P., Brett, H., McDonald, J. & Malham, S., Hyd 2017, Yn: Frontiers in Microbiology. 8, 1996.Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid
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Abundance and Distribution of Enteric Bacteria and Viruses in Coastal and Estuarine Sediments—a Review
Hassard, F., Gwyther, C. L., Farkas, K., Andrews, A., Jones, V., Cox, B., Brett, H., Jones, D., McDonald, J. & Malham, S., 1 Tach 2016, Yn: Frontiers in Microbiology.Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid
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Critical Review on the Public Health Impact of Norovirus Contamination in Shellfish and the Environment: A UK Perspective
Hassard, F., Sharp, J., Taft, H., Le Vay, L., Harris, J., McDonald, J., Tuson, K., Wilson, J., Jones, D. & Malham, S., Meh 2017, Yn: Food and Environmental Virology. 9, 2, t. 123-141Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid
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Monitoring SARS-CoV-2 in municipal wastewater to evaluate the success of lockdown measures for controlling COVID-19 in the UK
Hillary, L. S., Farkas, K., Maher, K. H., Lucaci, A., Thorpe, J., Distaso, M. A., Gaze, W. H., Paterson, S., Burke, T., Connor, T. R., McDonald, J. E., Malham, S. K. & Jones, D. L., 15 Gorff 2021, Yn: Water Research. 200, t. 117214 1 t.Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid
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RNA-viromics reveals diverse communities of soil RNA viruses with the potential to affect grassland ecosystems across multiple trophic levels
Hillary, L. S., Adriaenssens, E. M., Jones, D. L. & McDonald, J. E., 8 Ebr 2022, Yn: ISME Communications. 2, 1, t. 34 34.Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid
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Shedding of SARS-CoV-2 in feces and urine and its potential role in person-to-person transmission and the environment-based spread of COVID-19
Jones, D. L., Baluja, M. Q., Graham, D. W., Corbishley, A., McDonald, J. E., Malham, S. K., Hillary, L. S., Connor, T. R., Gaze, W. H., Moura, I. B., Wilcox, M. H. & Farkas, K., 20 Rhag 2020, Yn: Science of the Total Environment. 749, 141364.Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl adolygu › adolygiad gan gymheiriaid
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Multilocus sequence typing provides insights into the population structure and evolutionary potential of Brenneria goodwinii, associated with acute oak decline
Kaczmarek, M., Mullett, M. S., McDonald, J. & Denman, S., 1 Meh 2017, Yn: PLoS ONE. 12, 6, e0178390.Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid
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A comparison of precipitation and filtration-based SARS-CoV-2 recovery methods and the influence of temperature, turbidity, and surfactant load in urban wastewater
Kevill, J. L., Pellett, C., Farkas, K., Brown, M. R., Bassano, I., Denise, H., McDonald, J. E., Malham, S. K., Porter, J., Warren, J., Evens, N. P., Paterson, S., Singer, A. C. & Jones, D. L., 20 Chwef 2022, Yn: Science of the Total Environment. 808, 151916.Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid
- Cyhoeddwyd
The interaction of human microbial pathogens, particulate material and nutrients in estuarine environments and their impacts on recreational and shellfish waters
Malham, S. K., Rajko-Nenow, P., Howlett, E., Tuson, K. E., Perkins, T. L., Pallett, D. W., Wang, H., Jago, C. F., Jones, D. L. & McDonald, J. E., 7 Gorff 2014, Yn: Environmental Science: Processes and Impacts. 16, t. 2145-2155Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid
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Multi-scale influences on Escherichia coli concentrations in shellfish: From catchment to estuary
Malham, S., Taft, H., Farkas, K., Ladd, C., Seymour, M., Robins, P., Jones, D. L., McDonald, J., Le Vay, L. & Jones, L., 1 Chwef 2025, Yn: Environmental Pollution. 125476.Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid
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Seasonal and spatial dynamics of enteric viruses in wastewater and in riverine and estuarine receiving waters
Malham, S., Farkas, K., McDonald, J., Jones, D. L., Cooper, D. & de Rougemont, A., 1 Medi 2018, Yn: Science of the Total Environment. 634, t. 1174 1183 t.Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid
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The microbial ecology of anaerobic cellulose degradation in municipal waste landfill sites: evidence of a role for fibrobacters
McDonald, J. E., Houghton, J. N., Rooks, D. J., Allison, H. E. & McCarthy, A. J., 1 Ebr 2012, Yn: Environmental Microbiology. 14, 4, t. 1077-1087Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid
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Detection of novel Fibrobacter populations in landfill sites and determination of their relative abundance via quantitative PCR.
McDonald, J. E., Lockhart, R. J., Cox, M. J., Allison, H. E. & McCarthy, A. J., 1 Mai 2008, Yn: Environmental Microbiology. 10, 5, t. 2360-2365Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid
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Composition of the landfill microbial community as determined by application of domian- and group-specific 16s and 18s rRNA-targeted oligonucleotide probes.
McDonald, J. E., Allison, H. E. & McCarthy, A. J., 1 Chwef 2010, Yn: Applied and Environmental Microbiology. 76, 4, t. 1301-1306Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid
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Enhancing first year undergraduate student engagement via the School of Biological Sciences tutorials module
McDonald, J. E. & Robinson, R. L., 1 Gorff 2014, Yn: Bioscience Education. 22, 1, t. 54-69Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid
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Molecular biological detection and quantification of novel Fibrobacter populations in freshwater lakes.
McDonald, J. E., De Menezes, A. B., Allison, H. E. & McCarthy, A. J., 1 Awst 2009, Yn: Applied and Environmental Microbiology. 75, 15, t. 5148-5152Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid
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High-Throughput Method for Rapid Induction of Prophages from Lysogens and Its Application in the Study of Shiga Toxin-Encoding Escherichia coli Strains
McDonald, J. E., Smith, D. L., Fogg, P. C., McCarthy, A. J. & Allison, H. E., 1 Ebr 2010, Yn: Applied and Environmental Microbiology. 76, 7, t. 2360-2365Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid
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Characterising the Canine Oral Microbiome by Direct Sequencing of Reverse-Transcribed rRNA Molecules
McDonald, J., Larsen, N., Pennington, A., Connolly, J., Wallis, C., Rooks, D. J., Hall, N., McCarthy, A. J. & Allison, H. E., 8 Meh 2016, Yn: PLoS ONE. 11, 6, e0157046.Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid
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Application of ecological and evolutionary theory to microbiome community dynamics across systems
McDonald, J., Marchesi, J. R. & Koskella, B., 23 Rhag 2020, Yn: Proceedings of the Royal Society B: Biological Sciences. 287, 1941, 20202886.Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid
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Methods for the isolation of cellulose-degrading microorganisms
McDonald, J. E., Rooks, D. J. & McCarthy, A. J., 2012, Yn: Methods in Enzymology. 510, t. 349-74 26 t.Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid