Photo of Em P Alan Mc Carthy

Em P Alan Mc Carthy B.Sc., Ph.D.

Emeritus Professor of Microbiology IVES Professional Services

Publications

2020

Impact of Temperature, Nutrients and Heavy Metals on Bacterial Diversity and Ecosystem Functioning Studied by Freshwater Microcosms and High-Throughput DNA Sequencing (Journal article)

Yuan, T., McCarthy, A. J., Zhang, Y., & Sekar, R. (2020). Impact of Temperature, Nutrients and Heavy Metals on Bacterial Diversity and Ecosystem Functioning Studied by Freshwater Microcosms and High-Throughput DNA Sequencing. CURRENT MICROBIOLOGY, 77(11), 3512-3525. doi:10.1007/s00284-020-02138-5

DOI: 10.1007/s00284-020-02138-5

The Site-Specific Recombination System of theEscherichia coliBacteriophage phi 24(B) (Journal article)

Mohaisen, M. R., McCarthy, A. J., Adriaenssens, E. M., & Allison, H. E. (2020). The Site-Specific Recombination System of theEscherichia coliBacteriophage phi 24(B). FRONTIERS IN MICROBIOLOGY, 11. doi:10.3389/fmicb.2020.578056

DOI: 10.3389/fmicb.2020.578056

Changes in Fungal Community Structure in Freshwater Canals across a Gradient of Urbanization (Journal article)

Yuan, T., Zhang, H., Feng, Q., Wu, X., Zhang, Y., McCarthy, A. J., & Sekar, R. (2020). Changes in Fungal Community Structure in Freshwater Canals across a Gradient of Urbanization. Water, 12(7), 1917. doi:10.3390/w12071917

DOI: 10.3390/w12071917

2019

Next-generation sequencing reveals fecal contamination and potentially pathogenic bacteria in a major inflow river of Taihu Lake (Journal article)

McCarthy, A. J. (2019). Next-generation sequencing reveals fecal contamination and potentially pathogenic bacteria in a major inflow river of Taihu Lake. Environmental Pollution, 254(B). doi:10.1016/j.envpol.2019.113108

DOI: 10.1016/j.envpol.2019.113108

Urbanization Impacts the Physicochemical Characteristics and Abundance of Fecal Markers and Bacterial Pathogens in Surface Water (Journal article)

Yuan, T., Vadde, K. K., Tonkin, J. D., Wang, J., Lu, J., Zhang, Z., . . . Sekar, R. (2019). Urbanization Impacts the Physicochemical Characteristics and Abundance of Fecal Markers and Bacterial Pathogens in Surface Water. INTERNATIONAL JOURNAL OF ENVIRONMENTAL RESEARCH AND PUBLIC HEALTH, 16(10). doi:10.3390/ijerph16101739

DOI: 10.3390/ijerph16101739

Quantification of Microbial Source Tracking and Pathogenic Bacterial Markers in Water and Sediments of Tiaoxi River (Taihu Watershed) (Journal article)

Vadde, K. K., McCarthy, A. J., Rong, R., & Sekar, R. (2019). Quantification of Microbial Source Tracking and Pathogenic Bacterial Markers in Water and Sediments of Tiaoxi River (Taihu Watershed). FRONTIERS IN MICROBIOLOGY, 10. doi:10.3389/fmicb.2019.00699

DOI: 10.3389/fmicb.2019.00699

2018

Viromic Analysis of Wastewater Input to a River Catchment Reveals a Diverse Assemblage of RNA Viruses. (Journal article)

Adriaenssens, E. M., Farkas, K., Harrison, C., Jones, D. L., Allison, H. E., & McCarthy, A. J. (2018). Viromic Analysis of Wastewater Input to a River Catchment Reveals a Diverse Assemblage of RNA Viruses. MSYSTEMS, 3(3). doi:10.1128/mSystems.00025-18

DOI: 10.1128/msystems.00025-18

Assessment of Water Quality and Identification of Pollution Risk Locations in Tiaoxi River (Taihu Watershed), China (Journal article)

Vadde, K. K., Wang, J., Cao, L., Yuan, T., McCarthy, A. J., & Sekar, R. (2018). Assessment of Water Quality and Identification of Pollution Risk Locations in Tiaoxi River (Taihu Watershed), China. Water, 10(2). doi:10.3390/w10020183

DOI: 10.3390/w10020183

2017

Lignocellulose-Degrading Microbial Communities in Landfill Sites Represent a Repository of Unexplored Biomass-Degrading Diversity (Journal article)

Ransom-Jones, E., McCarthy, A. J., Haldenby, S., Doonan, J., & McDonald, J. E. (2017). Lignocellulose-Degrading Microbial Communities in Landfill Sites Represent a Repository of Unexplored Biomass-Degrading Diversity. mSphere, 2(4). doi:10.1128/mSphere.00300-17

DOI: 10.1128/mSphere.00300-17

50 important research questions in microbial ecology. (Journal article)

Antwis, R. E., Griffiths, S. M., Harrison, X. A., Aranega-Bou, P., Arce, A., Bettridge, A. S., . . . Sutherland, W. J. (2017). Fifty important research questions in microbial ecology. FEMS MICROBIOLOGY ECOLOGY, 93(5). doi:10.1093/femsec/fix044

DOI: 10.1093/femsec/fix044

Shigatoxin encoding bacteriophage ?24B modulates bacterial metabolism to raise antimicrobial tolerance (Journal article)

Holt, G., Lodge, J., McCarthy, A. J., Graham, A., Young, G., Bridge, S., . . . Smith, D. L. (2017). Shigatoxin encoding bacteriophage ?24B modulates bacterial metabolism to raise antimicrobial tolerance. Scientific Reports, 7. doi:10.1038/srep40424

DOI: 10.1038/srep40424

2016

Development and evaluation of a molecular diagnostic method to rapidly detect Histoplasma capsulatum var. farciminosum, the causative agent of epizootic lymphangitis, in equine clinical samples. (Journal article)

Scantlebury, C. E., Pinchbeck, G., Loughnane, P., Aklilu, N., Ashine, T., Stringer, A., . . . McCarthy, A. (2016). Development and evaluation of a molecular diagnostic method to rapidly detect Histoplasma capsulatum var. farciminosum, the causative agent of epizootic lymphangitis, in equine clinical samples.. Journal of Clinical Microbiology, 54(12), 2990-2999. doi:10.1128/JCM.00896-16

DOI: 10.1128/JCM.00896-16

Unexpected removal of the most neutral cationic pharmaceutical in river waters (Journal article)

Tappin, A. D., Loughnane, J. P., McCarthy, A. J., & Fitzsimons, M. F. (2016). Unexpected removal of the most neutral cationic pharmaceutical in river waters. Environmental Chemistry Letters, 14(4), 455-465. doi:10.1007/s10311-016-0582-2

DOI: 10.1007/s10311-016-0582-2

Characterising the canine oral microbiome by direct sequencing of reverse-transcribed rRNA molecules (Journal article)

McDonald, J. E., Larsen, N., Pennington, A., Connolly, J., Wallis, C., Rooks, D. J., . . . Allison, H. E. (2016). Characterising the canine oral microbiome by direct sequencing of reverse-transcribed rRNA molecules. PLoS ONE, 11(6). doi:10.1371/journal.pone.0157046

DOI: 10.1371/journal.pone.0157046

2015

Transcriptomic Analysis of Shiga-Toxigenic Bacteriophage Carriage Reveals a Profound Regulatory Effect on Acid Resistance in Escherichia coli (Journal article)

Veses-Garcia, M., Liu, X., Rigden, D. J., Kenny, J. G., McCarthy, A. J., & Allison, H. E. (2015). Transcriptomic Analysis of Shiga-Toxigenic Bacteriophage Carriage Reveals a Profound Regulatory Effect on Acid Resistance in Escherichia coli. Applied and Environmental Microbiology, 81(23), 8118-8125. doi:10.1128/AEM.02034-15

DOI: 10.1128/AEM.02034-15

Anoxic Biodegradation of Isosaccharinic Acids at Alkaline pH by Natural Microbial Communities (Journal article)

Pan, C., Rout, S. P., Charles, C. J., Doulgeris, C., McCarthy, A., Rooks, D., . . . Humphreys, P. N. (2015). Anoxic Biodegradation of Isosaccharinic Acids at Alkaline pH by Natural Microbial Communities. PLoS ONE, 10(9). doi:10.1371/journal.pone.0137682

DOI: 10.1371/journal.pone.0137682

2014

Bacterio-plankton transformation of diazepam and 2-amino-5-chlorobenzophenone in river waters (Journal article)

Tappin, A., Loughnane, J. P., McCarthy, A. J., & Fitzsimons, M. (2014). Bacterio-plankton transformation of diazepam and 2-amino-5-chlorobenzophenone in river waters. Environmental Science: Processes and Impacts, 16(10), 2227-2236. doi:10.1039/C4EM00306C

DOI: 10.1039/C4EM00306C

2013

Antimicrobial Resistance in Some Gram-Negative Bacteria Isolated from the Bovine Ejaculate (Journal article)

Kilburn, C., Rooks, D. J., McCarthy, A. J., & Murray, R. D. (2013). Antimicrobial Resistance in Some Gram-Negative Bacteria Isolated from the Bovine Ejaculate. Reproduction in Domestic Animals, 48(3), 525-528. doi:10.1111/rda.12127

DOI: 10.1111/rda.12127

Mining Metagenomic Datasets for Cellulases (Journal article)

Rooks, D. J., & McCarthy, A. J. (2013). Mining Metagenomic Datasets for Cellulases. Unknown Journal, 1-6. doi:10.1007/978-1-4614-6418-1_738-1

DOI: 10.1007/978-1-4614-6418-1_738-1

2012

Short communication: Characterization of Shiga toxin 2-carrying bacteriophages induced from Shiga-toxigenic Escherichia coli isolated from Italian dairy products (Journal article)

Volponi, G., Rooks, D. J., Smith, D. L., Picozzi, C., Allison, H. E., Vigentini, I., . . . McCarthy, A. J. (2012). Short communication: Characterization of Shiga toxin 2-carrying bacteriophages induced from Shiga-toxigenic Escherichia coli isolated from Italian dairy products. JOURNAL OF DAIRY SCIENCE, 95(12), 6949-6956. doi:10.3168/jds.2012-5831

DOI: 10.3168/jds.2012-5831

Development and application of a method for the purification of free shigatoxigenic bacteriophage from environmental samples (Journal article)

Rooks, D. J., Libberton, B., Woodward, M. J., Allison, H. E., & McCarthy, A. J. (2012). Development and application of a method for the purification of free shigatoxigenic bacteriophage from environmental samples. JOURNAL OF MICROBIOLOGICAL METHODS, 91(2), 240-245. doi:10.1016/j.mimet.2012.08.017

DOI: 10.1016/j.mimet.2012.08.017

Comparative genomics of Shiga toxin encoding bacteriophages (Journal article)

Smith, D. L., Rooks, D. J., Fogg, P. C. M., Darby, A. C., Thomson, N. R., McCarthy, A. J., & Allison, H. E. (2012). Comparative genomics of Shiga toxin encoding bacteriophages. BMC GENOMICS, 13. doi:10.1186/1471-2164-13-311

DOI: 10.1186/1471-2164-13-311

Importance of Micromonospora spp. as Colonizers of Cellulose in Freshwater Lakes as Demonstrated by Quantitative Reverse Transcriptase PCR of 16S rRNA (Journal article)

de Menezes, A. B., McDonald, J. E., Allison, H. E., & McCarthy, A. J. (2012). Importance of Micromonospora spp. as Colonizers of Cellulose in Freshwater Lakes as Demonstrated by Quantitative Reverse Transcriptase PCR of 16S rRNA. APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 78(9), 3495-3499. doi:10.1128/AEM.07314-11

DOI: 10.1128/AEM.07314-11

The microbial ecology of anaerobic cellulose degradation in municipal waste landfill sites: evidence of a role for fibrobacters (Journal article)

McDonald, J. E., Houghton, J. N. I., Rooks, D. J., Allison, H. E., & McCarthy, A. J. (2012). The microbial ecology of anaerobic cellulose degradation in municipal waste landfill sites: evidence of a role for fibrobacters. ENVIRONMENTAL MICROBIOLOGY, 14(4), 1077-1087. doi:10.1111/j.1462-2920.2011.02688.x

DOI: 10.1111/j.1462-2920.2011.02688.x

Identification of genes expressed in cultures of E. coli lysogens carrying the Shiga toxin-encoding prophage Phi 24(B) (Journal article)

Riley, L. M., Veses-Garcia, M., Hillman, J. D., Handfield, M., McCarthy, A. J., & Allison, H. E. (2012). Identification of genes expressed in cultures of E. coli lysogens carrying the Shiga toxin-encoding prophage Phi 24(B). BMC MICROBIOLOGY, 12. doi:10.1186/1471-2180-12-42

DOI: 10.1186/1471-2180-12-42

Removal of atrazine from river waters by indigenous microorganisms (Journal article)

Tappin, A. D., Loughnane, J. P., McCarthy, A. J., & Fitzsimons, M. F. (2012). Removal of atrazine from river waters by indigenous microorganisms. Environmental Chemistry Letters, 10(1), 89-96. doi:10.1007/s10311-011-0332-4

DOI: 10.1007/s10311-011-0332-4

Cumulative effect of prophage burden on Shiga toxin production in Escherichia coli (Journal article)

Fogg, P. C. M., Saunders, J. R., McCarthy, A. J., & Allison, H. E. (2012). Cumulative effect of prophage burden on Shiga toxin production in Escherichia coli. MICROBIOLOGY-SGM, 158, 488-497. doi:10.1099/mic.0.054981-0

DOI: 10.1099/mic.0.054981-0

The Fibrobacteres: an important phylum of cellulose-degrading bacteria. (Journal article)

Ransom-Jones, E., Jones, D. L., McCarthy, A. J., & McDonald, J. E. (2012). The Fibrobacteres: an important phylum of cellulose-degrading bacteria.. Microbial ecology, 63(2), 267-281. doi:10.1007/s00248-011-9998-1

DOI: 10.1007/s00248-011-9998-1

Metagenomic Approaches to the Discovery of Cellulases (Journal article)

Rooks, D. J., McDonald, J. E., & McCarthy, A. J. (2012). Metagenomic Approaches to the Discovery of Cellulases. Methods in Enzymology, 510, 375-394.

Methods for the Isolation of Cellulose-Degrading Microorganisms (Journal article)

McDonald, J. E., Rooks, D. J., & McCarthy, A. J. (2012). Methods for the Isolation of Cellulose-Degrading Microorganisms. Methods in Enzymology, 510, 349-374.

2011

Characterization of the relationship between integrase, excisionase and antirepressor activities associated with a superinfecting Shiga toxin encoding bacteriophage (Journal article)

Fogg, P. C. M., Rigden, D. J., Saunders, J. R., McCarthy, A. J., & Allison, H. E. (2011). Characterization of the relationship between integrase, excisionase and antirepressor activities associated with a superinfecting Shiga toxin encoding bacteriophage. NUCLEIC ACIDS RESEARCH, 39(6), 2116-2129. doi:10.1093/nar/gkq923

DOI: 10.1093/nar/gkq923

2010

454-Pyrosequencing: A Molecular Battiscope for Freshwater Viral Ecology (Journal article)

Rooks, D. J., Smith, D. L., McDonald, J. E., Woodward, M. J., McCarthy, A. J., & Allison, H. E. (2010). 454-Pyrosequencing: A Molecular Battiscope for Freshwater Viral Ecology. GENES, 1(2), 210-226. doi:10.3390/genes1020210

DOI: 10.3390/genes1020210

Bacteriophage Lambda: a Paradigm Revisited (Journal article)

Fogg, P. C. M., Allison, H. E., Saunders, J. R., & McCarthy, A. J. (2010). Bacteriophage Lambda: a Paradigm Revisited. JOURNAL OF VIROLOGY, 84(13), 6876-6879. doi:10.1128/JVI.02177-09

DOI: 10.1128/JVI.02177-09

Development and validation of a qPCR-based method for quantifying Shiga toxin-encoding and other lambdoid bacteriophages (Journal article)

Rooks, D. J., Yan, Y., McDonald, J. E., Woodward, M. J., McCarthy, A. J., & Allison, H. E. (2010). Development and validation of a qPCR-based method for quantifying Shiga toxin-encoding and other lambdoid bacteriophages. ENVIRONMENTAL MICROBIOLOGY, 12(5), 1194-1204. doi:10.1111/j.1462-2920.2010.02162.x

DOI: 10.1111/j.1462-2920.2010.02162.x

High-Throughput Method for Rapid Induction of Prophages from Lysogens and Its Application in the Study of Shiga Toxin-Encoding Escherichia coli Strains (Journal article)

McDonald, J. E., Smith, D. L., Fogg, P. C. M., McCarthy, A. J., & Allison, H. E. (2010). High-Throughput Method for Rapid Induction of Prophages from Lysogens and Its Application in the Study of Shiga Toxin-Encoding Escherichia coli Strains. APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 76(7), 2360-2365. doi:10.1128/AEM.02923-09

DOI: 10.1128/AEM.02923-09

Composition of the Landfill Microbial Community as Determined by Application of Domain- and Group-Specific 16S and 18S rRNA-Targeted Oligonucleotide Probes (Journal article)

McDonald, J. E., Allison, H. E., & McCarthy, A. J. (2010). Composition of the Landfill Microbial Community as Determined by Application of Domain- and Group-Specific 16S and 18S rRNA-Targeted Oligonucleotide Probes. APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 76(4), 1301-1306. doi:10.1128/AEM.01783-09

DOI: 10.1128/AEM.01783-09

Identification of Carbohydrate Metabolism Genes in the Metagenome of a Marine Biofilm Community Shown to Be Dominated by Gammaproteobacteria and Bacteroidetes (Journal article)

Edwards, J. L., Smith, D. L., Connolly, J., McDonald, J. E., Cox, M. J., Joint, I., . . . McCarthy, A. J. (n.d.). Identification of Carbohydrate Metabolism Genes in the Metagenome of a Marine Biofilm Community Shown to Be Dominated by Gammaproteobacteria and Bacteroidetes. Genes, 1(3), 371-384. doi:10.3390/genes1030371

DOI: 10.3390/genes1030371

2009

Molecular Biological Detection and Quantification of Novel Fibrobacter Populations in Freshwater Lakes (Journal article)

McDonald, J. E., de Menezes, A. B., Allison, H. E., & McCarthy, A. J. (2009). Molecular Biological Detection and Quantification of Novel Fibrobacter Populations in Freshwater Lakes. APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 75(15), 5148-5152. doi:10.1128/AEM.00701-09

DOI: 10.1128/AEM.00701-09

2008

Cellulose Degradation by Micromonosporas Recovered from Freshwater Lakes and Classification of These Actinomycetes by DNA Gyrase B Gene Sequencing (Journal article)

de Menezes, A. B., Lockhart, R. J., Cox, M. J., Allison, H. E., & McCarthy, A. J. (2008). Cellulose Degradation by Micromonosporas Recovered from Freshwater Lakes and Classification of These Actinomycetes by DNA Gyrase B Gene Sequencing. APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 74(22), 7080-7084. doi:10.1128/AEM.01092-08

DOI: 10.1128/AEM.01092-08

Detection of novel Fibrobacter populations in landfill sites and determination of their relative abundance via quantitative PCR (Journal article)

McDonald, J. E., Lockhart, R. J., Cox, M. J., Allison, H. E., & McCarthy, A. J. (2008). Detection of novel Fibrobacter populations in landfill sites and determination of their relative abundance via quantitative PCR. ENVIRONMENTAL MICROBIOLOGY, 10(5), 1310-1319. doi:10.1111/j.1462-2920.2007.01544.x

DOI: 10.1111/j.1462-2920.2007.01544.x

2007

Multilocus characterization scheme for Shiga toxin-encoding bacteriophages (Journal article)

Smith, D. L., Wareing, B. M., Fogg, P. C. M., Riley, L. M., Spencer, M., Cox, M. J., . . . Allison, H. E. (2007). Multilocus characterization scheme for Shiga toxin-encoding bacteriophages. APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 73(24), 8032-8040. doi:10.1128/AEM.01278-07

DOI: 10.1128/AEM.01278-07

Identification of multiple integration sites for Stx-phage Phi 24(B) in the Escherichia coli genome, description of a novel integrase and evidence for a functional anti-repressor (Journal article)

Fogg, P. C. M., Gossage, S. M., Smith, D. L., Saunders, J. R., McCarthy, A. J., & Allison, H. E. (2007). Identification of multiple integration sites for Stx-phage Phi 24(B) in the Escherichia coli genome, description of a novel integrase and evidence for a functional anti-repressor. MICROBIOLOGY-SGM, 153, 4098-4110. doi:10.1099/mic.0.2007/011205-0

DOI: 10.1099/mic.0.2007/011205-0

Short-tailed Stx phages exploit the conserved YaeT protein to disseminate Shiga Toxin genes among enterobacteria (Journal article)

Smith, D. L., James, C. E., Sergeant, M. J., Yaxian, Y., Saunders, J. R., McCarthy, A. J., & Allison, H. E. (2007). Short-tailed Stx phages exploit the conserved YaeT protein to disseminate Shiga Toxin genes among enterobacteria. JOURNAL OF BACTERIOLOGY, 189(20), 7223-7233. doi:10.1128/JB.00824-07

DOI: 10.1128/JB.00824-07

Identification of multiple integration sites for Stx-phage F24B in the Escherichia coli genome, description of a novel integrase and evidence for a functional anti-repressor (Journal article)

Smith, D., Saunders, J., McCarthy, A., Allison, H., Gossage, S., & Fogg, P. (2007). Identification of multiple integration sites for Stx-phage F24B in the Escherichia coli genome, description of a novel integrase and evidence for a functional anti-repressor. Microbiology, 153(12), 4098-4110. doi:10.1099/mic.0.2007/011205

DOI: 10.1099/mic.0.2007/011205

2006

Molecular Biological Detection of Anaerobic Gut Fungi (Neocallimastigales) from Landfill Sites (Journal article)

Lockhart, R. J., Van Dyke, M. I., Beadle, I. R., Humphreys, P., & McCarthy, A. J. (2006). Molecular Biological Detection of Anaerobic Gut Fungi (Neocallimastigales) from Landfill Sites. Applied and Environmental Microbiology, 72(8), 5659-5661. doi:10.1128/aem.01057-06

DOI: 10.1128/aem.01057-06

2005

Survival of a Shiga toxin-encoding bacteriophage in a compost model (Journal article)

Johannessen, G. S., James, C. E., Allison, H. E., Smith, D. L., Saunders, J. R., & McCarthy, A. J. (2005). Survival of a Shiga toxin-encoding bacteriophage in a compost model. FEMS MICROBIOLOGY LETTERS, 245(2), 369-375. doi:10.1016/j.femsle.2005.03.031

DOI: 10.1016/j.femsle.2005.03.031

The impact of sludge amendment on methanogen community structure in an upland soil (Journal article)

Sheppard, S. K., McCarthy, A. J., Loughnane, J. P., Gray, N. D., Head, I. M., & Lloyd, D. (2005). The impact of sludge amendment on methanogen community structure in an upland soil. Applied Soil Ecology, 28(2), 147-162. doi:10.1016/j.apsoil.2004.07.004

DOI: 10.1016/j.apsoil.2004.07.004

Response of the soil bacterial community to perturbation (Chapter)

McCarthy, A. J., Gray, N. D., Curtis, T. P., & Head, I. M. (2005). Response of the soil bacterial community to perturbation. In N. Webb (Ed.), Biological diversity and function in soils (pp. 273-291). Cambridge: Cambridge Universty Press.

2003

Immunity profiles of wild-type and recombinant Shiga-Like toxin-encoding bacteriophages and characterization of novel double lysogens (Journal article)

Allison, H. E., Sergeant, M. J., James, C. E., Saunders, J. R., Smith, D. L., Sharp, R. J., . . . McCarthy, A. J. (2003). Immunity profiles of wild-type and recombinant Shiga-Like toxin-encoding bacteriophages and characterization of novel double lysogens. INFECTION AND IMMUNITY, 71(6), 3409-3418. doi:10.1128/IAI.71.6.3409-3418.2003

DOI: 10.1128/IAI.71.6.3409-3418.2003

Effects of soil improvement treatments on bacterial community structure and soil processes in an upland grassland soil. (Journal article)

Gray, N. D., Hastings, R. G., Sheppard, S. K., Loughnane, P., Lloyd, D., McCarthy, A. J., & Head, I. M. (2003). Effects of soil improvement treatments on bacterial community structure and soil processes in an upland grassland soil.. FEMS Microbiology Ecology, 46, 11-22.

Molecular genetic analysis of the ammonia-oxidizing bacterial community in a defined hypereutrophic freshwater lake (Chapter)

Whitby, C. W., Meade, R. A., Hall, G., Saumders, J. R., Pickup, R. W., & McCarthy, A. J. (2003). Molecular genetic analysis of the ammonia-oxidizing bacterial community in a defined hypereutrophic freshwater lake. In R. S. Hails, J. E. Beringer, & H. C. J. Godfray (Eds.), Genes in the Environment (pp. 167-186). Oxford: Blackwell.

2002

Molecular Biological Detection and Characterization of Clostridium Populations in Municipal Landfill Sites (Journal article)

Van Dyke, M. I., & McCarthy, A. J. (2002). Molecular Biological Detection and Characterization of Clostridium Populations in Municipal Landfill Sites. Applied and Environmental Microbiology, 68(4), 2049-2053. doi:10.1128/aem.68.4.2049-2053.2002

DOI: 10.1128/aem.68.4.2049-2053.2002

Rapid reductive dehalogenation of pentachlorophenol by farmyard manure compost (Journal article)

Jaspers, C. J., Ewbank, G., McCarthy, A. J., & & Penninckx, M. J. (2002). Rapid reductive dehalogenation of pentachlorophenol by farmyard manure compost. Journal of Applied Microbiology, 92(1), 127-133.

2001

Lytic and lysogenic infection of diverse Escherichia coli and Shigella strains with a verocytotoxigenic bacteriophage (Journal article)

James, C. E., Stanley, K. N., Allison, H. E., Flint, H. J., Stewart, C. S., Sharp, R. J., . . . McCarthy, A. J. (2001). Lytic and lysogenic infection of diverse Escherichia coli and Shigella strains with a verocytotoxigenic bacteriophage. APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 67(9), 4335-4337. doi:10.1128/AEM.67.9.4335-4337.2001

DOI: 10.1128/AEM.67.9.4335-4337.2001

Phage-mediated transfer of virulence genes (Journal article)

Saunders, J. R., Allison, H., James, C. E., McCarthy, A. J., & Sharp, R. (2001). Phage-mediated transfer of virulence genes. JOURNAL OF CHEMICAL TECHNOLOGY AND BIOTECHNOLOGY, 76(7), 662-666. doi:10.1002/jctb.437

DOI: 10.1002/jctb.437

13C incorporation into DNA as a means of identifying the active components of ammonia-oxidizer populations (Journal article)

Whitby, C. B., Hall, G., Pickup, R., Saunders, J. R., Ineson, P., Parekh, N. R., & McCarthy, A. (2001). 13C incorporation into DNA as a means of identifying the active components of ammonia-oxidizer populations. Letters in Applied Microbiology, 32(6), 398-401. doi:10.1046/j.1472-765x.2001.00930.x

DOI: 10.1046/j.1472-765x.2001.00930.x

A comparison of ammonia-oxidiser populations in eutrophic and oligotrophic basins of a large freshwater lake (Journal article)

Whitby, C. B., Saunders, J. R., Pickup, R. W., & McCarthy, A. J. (2001). A comparison of ammonia-oxidiser populations in eutrophic and oligotrophic basins of a large freshwater lake. Antonie Van Leuwenhoek Journal of Microbiology, 79(2), 179-188. Retrieved from http://www.kluweronline.com/issn/0003-6072

Metabolism of pentachlorophenol by the compost actinomycete, Saccharomonospora viridis (Journal article)

Webb, M. D., Ewbank, G., Perkins, J., & McCarthy, A. J. (2001). Metabolism of pentachlorophenol by the compost actinomycete, Saccharomonospora viridis. Soil Biology and Biochemistry, 33(14), 1903-1914.

Molecular biological characterisation of the functional communities in anaerobic digesters. (Conference Paper)

Malhotra, S., Snape, J. R., & McCarthy, A. J. (2001). Molecular biological characterisation of the functional communities in anaerobic digesters.. In 9th World Congress of Anaerobic Digestion (pp. 321-324). Oxford: Blackwells.

The relationship between messenger RNA and growth rate in Listeria monocytogenes: implications for detection using molecular biological techniques (Journal article)

Milner, M., Saunders, J. R., & McCarthy, A. J. (2001). The relationship between messenger RNA and growth rate in Listeria monocytogenes: implications for detection using molecular biological techniques. Microbiology, 147, 2689-2696. Retrieved from http://mic.sgmjournals.org/