Professor James McDonald

• PhD: Microbial Ecology
  University of Liverpool,
• BSc: Microbiology with Industrial Experience
  University of Manchester,

2024

• PublishedSoil 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 Jun 2024, In: Soil Biology and Biochemistry. 109382.
  Research output: Contribution to journal › Article › peer-review

2022

• PublishedA 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 Feb 2022, In: Science of the Total Environment. 808, 151916.
  Research output: Contribution to journal › Article › peer-review
• PublishedRNA-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 Apr 2022, In: ISME Communications. 2, 1, p. 34 34.
  Research output: Contribution to journal › Article › peer-review
• PublishedUsing 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., Oct 2022, In: Forest Pathology. 52, 5, p. 1 - 14 e12766.
  Research output: Contribution to journal › Review article › peer-review

2021

• PublishedBacterial biota of forest trees
  Pettifor, B. & McDonald, J., Aug 2021, Forest Microbiology: Tree Microbiome: Phyllosphere, Endosphere and Rhizosphere. Asiegbu, F. O. & Kovalchuk, A. (eds.). 1 ed. Academic Press, Elsevier, Vol. 1. p. 161 - 173 12 p.
  Research output: Chapter in Book/Report/Conference proceeding › Chapter › peer-review
• PublishedConcentration 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 Nov 2021, In: Methods and Protocols. 4, 4
  Research output: Contribution to journal › Article › peer-review
• PublishedConcentration 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 Feb 2021, In: Methods and Protocols. 4, 1, 10 p., 17.
  Research output: Contribution to journal › Article › peer-review
• PublishedE. 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 Feb 2021, In: Frontiers in Microbiology. 12, p. 608888
  Research output: Contribution to journal › Article › peer-review
• PublishedImproving 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 Feb 2021, In: Aquaculture. 532, 736003.
  Research output: Contribution to journal › Article › peer-review
• PublishedMonitoring 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 Jul 2021, In: Water Research. 200, p. 117214 1 p.
  Research output: Contribution to journal › Article › peer-review
• PublishedShifts 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 Sept 2021, In: Frontiers in Microbiology. 12, 735022.
  Research output: Contribution to journal › Article › peer-review
• PublishedTracing 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 Sept 2021, In: Water Research. 203
  Research output: Contribution to journal › Article › peer-review

2020

• PublishedA 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., Sept 2020, In: Plant Pathology. 69, 7, p. 1301-1310 10 p.
  Research output: Contribution to journal › Article › peer-review
• PublishedApplication of ecological and evolutionary theory to microbiome community dynamics across systems
  McDonald, J., Marchesi, J. R. & Koskella, B., 23 Dec 2020, In: Proceedings of the Royal Society B: Biological Sciences. 287, 1941, 20202886.
  Research output: Contribution to journal › Article › peer-review
• PublishedHost–microbiota–insect interactions drive emergent virulence in a complex tree disease
  Doonan, J., Broberg, M., Denman, S. & McDonald, J., 26 Aug 2020, In: Proceedings of the Royal Society B: Biological Sciences. 287, 1933, 20200956.
  Research output: Contribution to journal › Article › peer-review
• PublishedImpact 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 Oct 2020, In: International Journal of Environmental Research and Public Health. 17, 20, 15 p., 7608.
  Research output: Contribution to journal › Article › peer-review
• PublishedShedding 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 Dec 2020, In: Science of the Total Environment. 749, 141364.
  Research output: Contribution to journal › Review article › peer-review
• PublishedSurvival 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., Mar 2020, In: Systematic and Applied Microbiology. 43, 2
  Research output: Contribution to journal › Article › peer-review
• PublishedViral 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 Aug 2020, In: Water Research. 181, 115926.
  Research output: Contribution to journal › Article › peer-review
• PublishedWastewater and public health: the potential of wastewater surveillance for monitoring COVID-19
  Farkas, K., Hillary, L., Malham, S., McDonald, J. & Jones, D. L., Oct 2020, In: Current Opinion in Environmental Science & Health. 17, p. 14-20 7 p.
  Research output: Contribution to journal › Article › peer-review

2019

• PublishedCritical 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 Jun 2019, In: Food and Environmental Virology. 11, 2, p. 113-119
  Research output: Contribution to journal › Article › peer-review
• PublishedExtraction of Microbial and Host DNA, RNA, and Proteins from Oak Bark Tissue
  Broberg, M. & McDonald, J., 5 Feb 2019, In: Methods and Protocols. 2, 1, 15.
  Research output: Contribution to journal › Article › peer-review
• PublishedGenomic analysis of bacteria in the Acute Oak Decline pathobiome
  Doonan, J., Denman, S., Pachebat, J. A. & McDonald, J., 8 Jan 2019, In: Microbial Genomics. 5, 1, 15 p.
  Research output: Contribution to journal › Article › peer-review

2018

• PublishedIntegrated 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
• PublishedMicrobiome 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
• PublishedSeasonal 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., Nov 2018, In: Environmental Science and Pollution Research. 25, 33, p. 33391-33401
  Research output: Contribution to journal › Article › peer-review
• PublishedSeasonal 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
• PublishedTwo-Step Concentration of Complex Water Samples for the Detection of Viruses
  Farkas, K., McDonald, J., Malham, S. & Jones, D. L., 10 Sept 2018, In: Methods and Protocols. 1, 3, 35.
  Research output: Contribution to journal › Article › peer-review

2017

• PublishedA 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
• PublishedCritical 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
• PublishedEvaluation 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
• PublishedEvaluation 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
• PublishedFifty 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
• PublishedIdentification 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
• PublishedLignocellulose-Degrading Microbial Communities in Landfill Sites Represent a Repository of Unexplored Biomass- Degrading Diversity Emma
  Ransom-Jones, E., McCarthy, A., Haldenby, S., Doonan, J. & McDonald, J., Aug 2017, In: mSphere. 2, 4, e00300.
  Research output: Contribution to journal › Article › peer-review
• PublishedMultilocus 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
• PublishedPhysicochemical 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
• PublishedSubtle 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
• PublishedTaxonomy 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

2016

• PublishedAbundance 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
• PublishedCharacterising 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
• PublishedDecay 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
• PublishedDraft 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
• PublishedIsolation 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
• PublishedShotgun 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
• PublishedSpatial 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
• PublishedUse 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

2015

• PublishedImpact 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
• PublishedThe 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
• PublishedUsing 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

2014

• PublishedDeveloping Skills in Second Year Biological Science Undergraduates
  Robinson, R. L. & McDonald, J. E., 1 Jul 2014, In: Bioscience Education. 22, 1, p. 42-53
  Research output: Contribution to journal › Article › peer-review
• PublishedDistribution and diversity of members of the bacterial phylum Fibrobacteres in environments where cellulose degradation occurs
  Ransom-Jones, E., Jones, D. L., Edwards, A. & McDonald, J. E., 17 Jul 2014, In: Systematic and Applied Microbiology. 37, 7, p. 502-509
  Research output: Contribution to journal › Article › peer-review
• PublishedEnhancing first year undergraduate student engagement via the School of Biological Sciences tutorials module
  McDonald, J. E. & Robinson, R. L., 1 Jul 2014, In: Bioscience Education. 22, 1, p. 54-69
  Research output: Contribution to journal › Article › peer-review
• PublishedSediment 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 Nov 2014, In: PLoS ONE. 9, 11
  Research output: Contribution to journal › Article › peer-review
• PublishedThe 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 Jul 2014, In: Environmental Science: Processes and Impacts. 16, p. 2145-2155
  Research output: Contribution to journal › Article › peer-review

2013

• PublishedBioreduction 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 May 2013, In: Environmental Science and Technology. 47, 10, p. 5267–5275
  Research output: Contribution to journal › Article › peer-review
• PublishedEvaluation 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., Jan 2013, 92 McLeod et al (eds.). Proc. 9th Int. Conf. Molluscan Shellfish Safety . p. 89-92
  Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

2012

• PublishedImportance 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., May 2012, In: Applied and Environmental Microbiology. 78, 9, p. 3495-9 5 p.
  Research output: Contribution to journal › Article › peer-review
• PublishedMetagenomic approaches to the discovery of cellulases
  Rooks, D. J., McDonald, J. E. & McCarthy, A. J., 2012, In: Methods in Enzymology. 510, p. 375-94 20 p.
  Research output: Contribution to journal › Article › peer-review
• PublishedMethods for the isolation of cellulose-degrading microorganisms
  McDonald, J. E., Rooks, D. J. & McCarthy, A. J., 2012, In: Methods in Enzymology. 510, p. 349-74 26 p.
  Research output: Contribution to journal › Article › peer-review
• PublishedThe Fibrobacteres: an Important Phylum of Cellulose-Degrading Bacteria
  Ransom-Jones, E., Jones, D., McCarthy, A. J. & McDonald, J. E., Feb 2012, In: Microbial Ecology. 63, 2, p. 267-281
  Research output: Contribution to journal › Article › peer-review
• PublishedThe 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 Apr 2012, In: Environmental Microbiology. 14, 4, p. 1077-1087
  Research output: Contribution to journal › Article › peer-review

2010

• Published454-pyrosequencing: a molecular battiscope for freshwater viral ecology
  Rooks, D. J., Smith, D. L., McDonald, J. E., Woodward, M. J., McCarthy, A. J. & Allison, H. E., 21 Jul 2010, In: Genes. 1, 2, p. 210-26 17 p.
  Research output: Contribution to journal › Article › peer-review
• PublishedComposition 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 Feb 2010, In: Applied and Environmental Microbiology. 76, 4, p. 1301-1306
  Research output: Contribution to journal › Article › peer-review
• PublishedDevelopment and validation of a qPCR-based method for quantifying Shiga toxin-encoding and other lambdoid bacteriophages.
  Rooks, D. J., Yan, Y., McDonald, J. E., Woodward, M. J., McCarthy, A. J. & Allison, H. E., 1 May 2010, In: Environmental Microbiology. 12, 5, p. 1194-1204
  Research output: Contribution to journal › Article › peer-review
• PublishedHigh-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 Apr 2010, In: Applied and Environmental Microbiology. 76, 7, p. 2360-2365
  Research output: Contribution to journal › Article › peer-review
• PublishedIdentification 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 Oct 2010, In: Genes. 1, 3, p. 371-84 14 p.
  Research output: Contribution to journal › Article › peer-review

2009

• PublishedMolecular 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 Aug 2009, In: Applied and Environmental Microbiology. 75, 15, p. 5148-5152
  Research output: Contribution to journal › Article › peer-review

2008

• PublishedDetection 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 May 2008, In: Environmental Microbiology. 10, 5, p. 2360-2365
  Research output: Contribution to journal › Article › peer-review

2022

• BU-IIA Funded Project: Exploring technology transfer options for microbial bioaugmentation of anaerobic waste biomass conversion to biogas

  The overarching aim of this application is to build on our current work on the EU SYNBIOGAS project which is developing engineered microbial communities to enhance waste biomass conversion to biomass. This proposal, which will fund additional plant-scale bioaugmentation of anaerobic digestion processes and techno-economic assessment of the bioprocess, enables us to increase our research activity at TRL6 and build a roadmap for technology adoption by our industrial partners. The project will facilitate applications for follow-on-funding, generate REF-relevant impact and provide possibilities for commercialisation. The project aligns directly with the University’s Strategy 2030 and the RWIF strategic priorities. 

  Funding awarded through the Bangor University Innovation and Impact Award (Research Wales Innovation Funding). Value = £42,055

  1 Apr 2022 – 31 Mar 2023

  Activity: Other (Contributor)

• HEFCW HEIR bridging funding for R44R06 / F008297 (BB/T011076/1)

  01/05/2021 – 31/08/2021 (Finished)

• HEFCW HEIR bridging funding for R44R13/ F008616 (BB/T01069X/1)

  01/05/2021 – 01/08/2022 (Finished)

• BACSTOP

  01/09/2020 – 28/08/2024 (Finished)

• FUTURE OAK: Engineering the oak microbiome to future-proof an arboreal icon

  01/09/2020 – 06/12/2024 (Finished)

• KESS II Phd with Woodland Heritage BUK2213

  01/08/2020 – 15/02/2024 (Finished)

• SYNBIOGAS

  01/01/2020 – 10/07/2024 (Finished)

• Collibya and oak decline

  01/01/2019 – 27/07/2023 (Finished)

• Oak Declines PDRA - Kajamuhan

  01/03/2018 – 30/06/2021 (Finished)

• Fungal genomics PDRA

  01/11/2017 – 01/08/2022 (Finished)

• Mortality of UK plantation oak

  01/10/2017 – 01/08/2022 (Finished)

• Gene expression analysis of microorganisms in Acute Oak Decline

  01/05/2016 – 01/08/2019 (Finished)

• Andrew Griffiths AOD RO post

  01/03/2016 – 31/10/2017 (Finished)

• Identification, ecology and function of Armillaria species associated with oak

  01/10/2015 – 01/08/2019 (Finished)

• A systems approach to understanding microorganisms in Acute Oak Decline

  01/05/2015 – 15/07/2017 (Finished)

• Characterisation of the Fibrobacteres phylum

  01/07/2014 – 28/02/2021 (Finished)

• Identification, Ecology and Function of Armillaria species (PDRA)

  01/01/2014 – 31/05/2017 (Finished)

• DEFRA-Plant Health

  01/01/2013 – 31/07/2016 (Finished)

• Genomic analysis of bacterial species associated with Acute Oak Decline

  01/10/2012 – 31/08/2016 (Finished)

• The microbial decomposition of cellulose in the environment

  01/10/2011 – 30/09/2012 (Finished)

• Anaerobic fungi: life beyond the herbivore gut?

  01/06/2011 – 31/08/2011 (Finished)

• Pathogen survival in flocs

  01/06/2011 – 31/08/2011 (Finished)

• Systematics of Anaerobic fungi (Neocallimastigales)

  01/06/2011 – 27/02/2012 (Finished)

• Determination of the phenotypic taxonomy of the bacterial phylum Fibrobacteres

  01/09/2010 – 30/06/2013 (Finished)