Professor James McDonald

Honorary Professor

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/

  1. 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 gyfnodolynErthygladolygiad gan gymheiriaid

  2. 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 gyfnodolynErthygladolygiad gan gymheiriaid

  3. Cyhoeddwyd

    Using chemical, microbial and fluorescence techniques to understand contaminant sources and pathways to wetlands in a conservation site

    Rhymes, J. M., Rhymes, J., Jones, L., Lapworth, D. J., White, D., Fenner, N., McDonald, J. E. & Perkins, T. L., 20 Ion 2015, Yn: Science of the Total Environment. 511, t. 703-710

    Allbwn ymchwil: Cyfraniad at gyfnodolynErthygladolygiad gan gymheiriaid

  4. Cyhoeddwyd

    Using a systematic approach to synthesize existing knowledge on Gymnopus fusipes ( syn . Collybia fusipes ), the cause of Collybia root rot

    Pettifor, B., McDonald, J. & Denman, S., Hyd 2022, Yn: Forest Pathology. 52, 5, t. 1 - 14 e12766.

    Allbwn ymchwil: Cyfraniad at gyfnodolynErthygl adolyguadolygiad gan gymheiriaid

  5. Cyhoeddwyd

    Use of Mytilus edulis biosentinels to investigate spatial patterns of norovirus and faecal indicator organism contamination around coastal sewage discharges

    Winterbourn, J., Clements, K., Lowther, J. A., Malham, S., McDonald, J. & Jones, D., 15 Tach 2016, Yn: Water Research. 105, November, t. 241-250

    Allbwn ymchwil: Cyfraniad at gyfnodolynErthygladolygiad gan gymheiriaid

  6. Cyhoeddwyd

    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 gyfnodolynErthygladolygiad gan gymheiriaid

  7. 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. 203

    Allbwn ymchwil: Cyfraniad at gyfnodolynErthygladolygiad gan gymheiriaid

  8. Cyhoeddwyd

    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. 1077-1087

    Allbwn ymchwil: Cyfraniad at gyfnodolynErthygladolygiad gan gymheiriaid

  9. Cyhoeddwyd

    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 gyfnodolynErthygladolygiad gan gymheiriaid

  10. 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. 2145-2155

    Allbwn ymchwil: Cyfraniad at gyfnodolynErthygladolygiad gan gymheiriaid

  11. Cyhoeddwyd

    The Fibrobacteres: an Important Phylum of Cellulose-Degrading Bacteria

    Ransom-Jones, E., Jones, D., McCarthy, A. J. & McDonald, J. E., Chwef 2012, Yn: Microbial Ecology. 63, 2, t. 267-281

    Allbwn ymchwil: Cyfraniad at gyfnodolynErthygladolygiad gan gymheiriaid

  12. 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. 143

    Allbwn ymchwil: Cyfraniad at gyfnodolynErthygl adolyguadolygiad gan gymheiriaid

  13. Cyhoeddwyd

    Survival of Brenneria goodwinii and Gibbsiella quercinecans, Associated with Acute Oak Decline, in Rainwater and Forest Soil

    Pettifor, B. J., Doonan, J., Denman, S. & McDonald, J., Maw 2020, Yn: Systematic and Applied Microbiology. 43, 2

    Allbwn ymchwil: Cyfraniad at gyfnodolynErthygladolygiad gan gymheiriaid

  14. Cyhoeddwyd

    Subtle shifts in microbial communities occur alongside the release of carbon induced by drought and rewetting in contrasting peatland ecosystems

    Potter, C., Freeman, C., Golyshin, P., Ackerman, G., Fenner, N., McDonald, J., Ehbair, A., Jones, T., Murphy, L. & Creer, S., Medi 2017, Yn: Scientific Reports. 7, 11314.

    Allbwn ymchwil: Cyfraniad at gyfnodolynErthygladolygiad gan gymheiriaid

  15. Cyhoeddwyd

    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. 1586-1600

    Allbwn ymchwil: Cyfraniad at gyfnodolynErthygladolygiad gan gymheiriaid

  16. E-gyhoeddi cyn argraffu

    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 gyfnodolynErthygladolygiad gan gymheiriaid

  17. 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 CynhadleddPennod

  18. Cyhoeddwyd

    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 gyfnodolynErthygladolygiad gan gymheiriaid

  19. Cyhoeddwyd

    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 gyfnodolynErthygl adolyguadolygiad gan gymheiriaid

  20. Cyhoeddwyd

    Sediment Composition Influences Spatial Variation in the Abundance of Human Pathogen Indicator Bacteria within an Estuarine Environment

    Perkins, T. L., Clements, K., Baas, J. H., Jago, C. F., Jones, D. L., Malham, S. K. & McDonald, J. E., 14 Tach 2014, Yn: PLoS ONE. 9, 11

    Allbwn ymchwil: Cyfraniad at gyfnodolynErthygladolygiad gan gymheiriaid

  21. Cyhoeddwyd

    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 gyfnodolynErthygladolygiad gan gymheiriaid

  22. 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. 33391-33401

    Allbwn ymchwil: Cyfraniad at gyfnodolynErthygladolygiad gan gymheiriaid

  23. Cyhoeddwyd

    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 gyfnodolynErthygladolygiad gan gymheiriaid

  24. Cyhoeddwyd

    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 gyfnodolynErthygladolygiad gan gymheiriaid

  25. Cyhoeddwyd

    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 gyfnodolynErthygladolygiad gan gymheiriaid

  26. Cyhoeddwyd

    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 gyfnodolynErthygladolygiad gan gymheiriaid

  27. Cyhoeddwyd

    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. 5148-5152

    Allbwn ymchwil: Cyfraniad at gyfnodolynErthygladolygiad gan gymheiriaid

  28. Cyhoeddwyd

    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. 386-399

    Allbwn ymchwil: Cyfraniad at gyfnodolynErthygladolygiad gan gymheiriaid

  29. Cyhoeddwyd

    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 gyfnodolynErthygladolygiad gan gymheiriaid

  30. Cyhoeddwyd

    Metagenomic approaches to the discovery of cellulases

    Rooks, D. J., McDonald, J. E. & McCarthy, A. J., 2012, Yn: Methods in Enzymology. 510, t. 375-94 20 t.

    Allbwn ymchwil: Cyfraniad at gyfnodolynErthygladolygiad gan gymheiriaid

  31. Cyhoeddwyd

    Lignocellulose-Degrading Microbial Communities in Landfill Sites Represent a Repository of Unexplored Biomass- Degrading Diversity Emma

    Ransom-Jones, E., McCarthy, AJ., Haldenby, S., Doonan, J. & McDonald, JE., Awst 2017, Yn: mSphere. 2, 4, e00300.

    Allbwn ymchwil: Cyfraniad at gyfnodolynErthygladolygiad gan gymheiriaid

  32. 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. 484-490

    Allbwn ymchwil: Cyfraniad at gyfnodolynErthygladolygiad gan gymheiriaid

  33. 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 gyfnodolynErthygladolygiad gan gymheiriaid

  34. Cyhoeddwyd

    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 gyfnodolynErthygladolygiad gan gymheiriaid

  35. Cyhoeddwyd

    Importance of Micromonospora spp. as colonizers of cellulose in freshwater lakes as demonstrated by quantitative reverse transcriptase PCR of 16S rRNA

    de Menezes, A. B., McDonald, J. E., Allison, H. E. & McCarthy, A. J., Mai 2012, Yn: Applied and Environmental Microbiology. 78, 9, t. 3495-9 5 t.

    Allbwn ymchwil: Cyfraniad at gyfnodolynErthygladolygiad gan gymheiriaid

  36. Cyhoeddwyd

    Impact of climate change on UK estuaries: A review of past trends and potential projections

    Robins, P. E., Skov, M. W., Lewis, M. J., Gimenez, L., Davies, A. G., Malham, S. K., Neill, S. P., McDonald, J. E., Whitton, T. A., Jackson, S. E. & Jago, C. F., 17 Rhag 2015, Yn: Estuarine, Coastal and Shelf Science. 169, t. 119-135

    Allbwn ymchwil: Cyfraniad at gyfnodolynErthygladolygiad gan gymheiriaid

  37. Cyhoeddwyd

    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 gyfnodolynErthygladolygiad gan gymheiriaid

  38. 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 gyfnodolynErthygladolygiad gan gymheiriaid

  39. Cyhoeddwyd

    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. 148-161

    Allbwn ymchwil: Cyfraniad at gyfnodolynErthygladolygiad gan gymheiriaid

  40. 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 gyfnodolynErthygladolygiad gan gymheiriaid

  41. Cyhoeddwyd

    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. 2360-2365

    Allbwn ymchwil: Cyfraniad at gyfnodolynErthygladolygiad gan gymheiriaid

  42. 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 gyfnodolynErthygladolygiad gan gymheiriaid

  43. Cyhoeddwyd

    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 gyfnodolynErthygladolygiad gan gymheiriaid

  44. Cyhoeddwyd

    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 gyfnodolynErthygladolygiad gan gymheiriaid

  45. Cyhoeddwyd

    Evaluation of spatial contamination patterns for norovirus and faecal indicator bacteria near to a coastal sewage discharge using Mytilus edulis as biosentinels

    Winterbourn, J. B., Clements, K., Malham, S., McDonald, J. & Jones, D. L., Ion 2013, 92 McLeod et al (eds.). Proc. 9th Int. Conf. Molluscan Shellfish Safety . t. 89-92

    Allbwn ymchwil: Pennod mewn Llyfr/Adroddiad/Trafodion CynhadleddCyfraniad i Gynhadledd

  46. 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. 342-349

    Allbwn ymchwil: Cyfraniad at gyfnodolynErthygladolygiad gan gymheiriaid

  47. 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 gyfnodolynErthygladolygiad gan gymheiriaid

  48. Cyhoeddwyd

    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. 54-69

    Allbwn ymchwil: Cyfraniad at gyfnodolynErthygladolygiad gan gymheiriaid

  49. Cyhoeddwyd

    E. coli Is a Poor End-Product Criterion for Assessing the General Microbial Risk Posed From Consuming Norovirus Contaminated Shellfish

    Sharp, J. H., Clements, K., Diggens, M., McDonald, J. E., Malham, S. K. & Jones, D. L., 19 Chwef 2021, Yn: Frontiers in Microbiology. 12, t. 608888

    Allbwn ymchwil: Cyfraniad at gyfnodolynErthygladolygiad gan gymheiriaid

  50. Cyhoeddwyd

    Draft Genome Sequence of Clostridium sp. strain W14A isolated from a cellulose-degrading biofilm in a landfill leachate microcosm

    Ransom-Jones, E. & McDonald, J., 22 Medi 2016, Yn: Genome Announcements. 4, 5, e0098516.

    Allbwn ymchwil: Cyfraniad at gyfnodolynErthygladolygiad gan gymheiriaid

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