Research Portal

Professor James McDonald

Honorary Professor

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ORCID: 0000-0002-6328-3752

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/

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  1. 2018
  2. Published

    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 Sept 2018, In: Science of the Total Environment. 634, p. 1174 1183 p.

    Research output: Contribution to journal › Article › peer-review

  3. Published

    Integrated multi-omic analysis of host-microbiota interactions in acute oak decline

    Broberg, M., Doonan, J., Mundt, F. & McDonald, J., 30 Jan 2018, In: Microbiome. 6, 21.

    Research output: Contribution to journal › Article › peer-review

  4. Published

    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, In: The ISME Journal. 12, p. 386-399

    Research output: Contribution to journal › Article › peer-review

  5. 2017
  6. Published

    A communal catalogue reveals Earth's multiscale microbial diversity

    Thompson, L. R., Sanders, J. G., McDonald, D., Amir, A., Ladau, J., Locey, K. J., Prill, R. J., Tripathi, A., Gibbons, S. M., Ackermann, G., Navas-Molina, J. A., Janssen, S., Kopylova, E., Vazquez-Baeza, Y., Gonzalez, A., Morton, J. T., Mirarab, S., Xu, Z. Z., Jiang, L., Haroon, M. F., Kanbar, J., Zhu, Q., Song, S. J., Kosciolek, T., Bokulich, N. A., Lefler, J., Brislawn, C. J., Humphrey, G., Owens, S. M., Hampton-Marcell, J., Berg-Lyons, D., McKenzie, V., Fierer, N., Fuhrman, J. A., Clauset, A., Stevens, R. L., Shade, A., Pollard, K. S., Goodwin, K. D., Jansson, J. K., Gilbert, J. A., Knight, R., Agosto Rivera, J. L., Al-Moosawi, L., Alverdy, J., Amato, K. R., Andras, J., Angenent, L. T., Antonopoulos, D. A., Apprill, A., Armitage, D., Ballantine, K., Bárta, J., Baum, J. K., Berry, A., Bhatnagar, A., Bhatnagar, M., Biddle, J. F., Bittner, L., Boldgiv, B., Bottos, E., Boyer, D. M., Braun, J., Brazelton, W., Brearley, F. Q., Campbell, A. H., Caporaso, J. G., Cardona, C., Carroll, J., Cary, S. C., Casper, B. B., Charles, T. C., Chu, H., Claar, D. C., Clark, R. G., Clayton, J. B., Clemente, J. C., Cochran, A., Coleman, M. L., Collins, G., Colwel, R. R., Contreras, M., Crary, B. B., Creer, S., Cristol, D. A., Crump, B. C., Cui, D., Daly, S. E., Davalos, L., Dawson, R. D., Defazio, J., Delsuc, F., Dionisi, H. M., Dominguez-Bello, M. G., Dowell, R., Dubinsky, E. A., Dunn, P. O., Ercolini, D., Espinoza, R. E., Ezenwa, V., Fenner, N., Findlay, H. S., Fleming, I. D., Fogliano, V., Forsman, A., Freeman, C., Friedman, E. S., Galindo, G., Garcia, L., Garcia-Amado, M. A., Garshelis, D., Gasser, R. B., Gerdts, G., Gibson, M. K., Gifford, I., Gill, R. T., Giray, T., Gittel, A., Golyshin, P., Gong, D., Grossart, H-P., Guyton, K., Haig, S-J., Hale, V., Hall, R. S., Hallam, S. J., Handley, K. M., Hasan, N. A., Haydon, S. R., Hickman, J. E., Hidalgo, G., Hofmockel, K. S., Hooker, J., Hulth, S., Hultman, J., Hyde, E., Ibáñez-Álamo, J. D., Jastrow, J. D., Jex, A. R., Johnson, L. S., Johnston, E. R., Joseph, S., Jurburg, S. D., Jurelevicius, D., Karlsson, A., Karlsson, R., Kauppinen, S., Kellogg, C. T. E., Kennedy, S. J., Kerkhof, L. J., King, G. M., Kling, G. W., Koehler, A. V., Krezalek, M., Kueneman, J., Lamendella, R., Landon, E. M., Lane-deGraaf, K., LaRoche, J., Larsen, P., Laverock, B., Lax, S., Lentino, M., Levin, I. I., Liancourt, P., Liang, W., Linz, A. M., Lipson, D. A., Liu, Y., Lladser, M. E., Lozada, M., Spirito, C. M., MacCormack, W. P., MacRae-Crerar, A., Magris, M., Martín-Platero, A. M., Martín-Vivaldi, M., Martínez, L. M., Martínez-Bueno, M., Marzinelli, E. M., Mason, O. U., Mayer, G. D., McDevitt-Irwin, J. M., McDonald, J., McGuire, K. L., McMahon, K. D., McMinds, R., Medina, M., Mendelson, J. R., Metcalf, J. L., Meyer, F., Michelangeli, F., Miller, K., Mills, D. A., Minich, J., Mocali, S., Moitinho-Silva, L., Moore, A., Morgan-Kiss, R. M., Munroe, P., Myrold, D., Neufeld, J. D., Ni, Y., Nicol, G. W., Nielsen, S., Nissimov, J. I., Niu, K., Nolan, M. J., Noyce, K., O’Brien, S. L., Okamoto, N., Orlando, L., Ortiz Castellano, Y., Osuolale, O., Oswald, W., Parnell, J., Peralta-Sánchez, J. M., Petraitis, P., Pfister, C., Pilon-Smits, E., Piombino, P., Pointing, S. B., Pollock, F. J., Potter, C., Prithiviraj, B., Quince, C., Rani, A., Ranjan, R., Rao, S., Rees, A. P., Richardson, M., Riebesell, U., Robinson, C., Rockne, K. J., Rodriguezl, S. M., Rohwer, F., Roundstone, W., Safran, R. J., Sangwan, N., Sanz, V., Schrenk, M., Schrenzel, M. D., Scott, N. M., Seger, R. L., Seguin-Orlando, A., Seldin, L., Seyler, L. M., Shakhsheer, B., Sheets, G. M., Shen, C., Shi, Y., Shin, H., Shogan, B. D., Shutler, D., Siegel, J., Simmons, S., Sjöling, S., Smith, D. P., Soler, J. J., Sperling, M., Steinberg, P. D., Stephens, B., Stevens, M. A., Taghavi, S., Tai, V., Tait, K., Tan, C. L., Tas, N., Taylor, D. L., Thomas, T., Timling, I., Turner, B. L., Urich, T., Ursell, L. K., van der Lelie, D., Van Treuren, W., van Zwieten, L., Vargas-Robles, D., Vega Thurber, R., Vitaglione, P., Walker, D. A., Walters, W. A., Wang, S., Wang, T., Weave, T., Webster, N. S., Wehrle, B., Weisenhorn, P., Weiss, S., Werner, J. J., West, K., Whitehead, A., Whitehead, S. R., Whittingham, L. A., Willerslev, E., Williams, A. E., Wood, S. A., Woodhams, D. C., Yang, Y., Zaneveld, J., Zarraonaindia, I., Zhang, Q. & Zhao, H., 23 Nov 2017, In: Nature. 551, 7681, p. 457-+

    Research output: Contribution to journal › Article › peer-review

  7. Published

    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., Oct 2017, In: Frontiers in Microbiology. 8, 1996.

    Research output: Contribution to journal › Article › peer-review

  8. Published

    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., Sept 2017, In: Food and Environmental Virology. 9, 3, p. 342-349

    Research output: Contribution to journal › Article › peer-review

  9. Published

    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., Sept 2017, In: Scientific Reports. 7, 11314.

    Research output: Contribution to journal › Article › peer-review

  10. Published

    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., Aug 2017, In: mSphere. 2, 4, e00300.

    Research output: Contribution to journal › Article › peer-review

  11. Taxonomy and identification of bacteria associated with acute oak decline

    Brady, C., Arnold, D., McDonald, J. & Denman, S., Jul 2017, In: World Journal of Microbiology and Biotechnology. 33, 7, p. 143

    Research output: Contribution to journal › Review article › peer-review

  12. Published

    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 Jun 2017, In: PLoS ONE. 12, 6, e0178390.

    Research output: Contribution to journal › Article › peer-review

  13. Published

    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., Jun 2017, In: Food and Environmental Virology. 9, 2, p. 123-141

    Research output: Contribution to journal › Article › peer-review

  14. Published

    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., May 2017, In: Fems Microbiology Ecology. 93, 5, fix044.

    Research output: Contribution to journal › Article › peer-review

  15. Published

    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 Jan 2017, In: Frontiers in Microbiology. 6, p. 1-12 53.

    Research output: Contribution to journal › Article › peer-review

  16. Published

    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 Jan 2017, In: Forestry. 90, 1, p. 148-161

    Research output: Contribution to journal › Article › peer-review

  17. 2016
  18. Published

    Decay rates of faecal indicator bacteria from sewage and ovine faeces in brackish and freshwater microcosms with contrasting suspended particulate matter concentrations

    Perkins, T. L., Perrow, K. A., Rajko-Nenow, P., Jago, C. F., Jones, D. L., Malham, S. K. & McDonald, J. E., 1 Dec 2016, In: Science of the Total Environment. 572, p. 1645-1652

    Research output: Contribution to journal › Article › peer-review

  19. Published

    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 Dec 2016, In: Science of the Total Environment. 572, p. 1586-1600

    Research output: Contribution to journal › Article › peer-review

  20. Published

    Shotgun Metagenomic Sequencing Analysis of Soft-Rot Enterobacteriaceae in Polymicrobial Communities

    Doonan, J., Denman, S., McDonald, J. & Golyshin, P., 30 Nov 2016, Metagenomics. Streit, W. R. & Daniel, R. (eds.). Springer New York, Vol. 1539. p. 85-97 (Methods in Molecular Biology; vol. 1539).

    Research output: Chapter in Book/Report/Conference proceeding › Chapter

  21. Published

    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 Nov 2016, In: Water Research. 105, November, p. 241-250

    Research output: Contribution to journal › Article › peer-review

  22. Published

    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 Nov 2016, In: Frontiers in Microbiology.

    Research output: Contribution to journal › Article › peer-review

  23. Published

    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 Oct 2016, In: Systematic and Applied Microbiology. 39, 7, p. 484-490

    Research output: Contribution to journal › Article › peer-review

  24. Published

    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 Sept 2016, In: Genome Announcements. 4, 5, e0098516.

    Research output: Contribution to journal › Article › peer-review

  25. Published

    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 Jun 2016, In: PLoS ONE. 11, 6, e0157046.

    Research output: Contribution to journal › Article › peer-review

  26. 2015
  27. Published

    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 Dec 2015, In: Estuarine, Coastal and Shelf Science. 169, p. 119-135

    Research output: Contribution to journal › Article › peer-review

  28. Published

    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 Jan 2015, In: Science of the Total Environment. 511, p. 703-710

    Research output: Contribution to journal › Article › peer-review

  29. Published

    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 Jan 2015, In: Journal of Applied Microbiology. 118, 1, p. 193-201 9 p.

    Research output: Contribution to journal › Article › peer-review

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