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Professor Karen Scott

Professor Karen Scott
Professor Karen Scott
Professor Karen Scott

Personal Chair

About
Email Address
k.scott@abdn.ac.uk
Office Address

Microbial Ecology Group
Rowett Institute
University of Aberdeen
Foresterhill Campus
Aberdeen
Scotland, UK


AB25 2ZD

 

School/Department
School of Medicine, Medical Sciences and Nutrition

Biography

I gained my BSc (Hons 2:i) in Biochemistry from the University of Aberdeen before continuing to my PhD (Molecular Biology of plant viruses) at what was then the Scottish Crop Research Institute in Invergowrie, Dundee. After my PhD I returned to Aberdeen to the Rowett Institute and have been been an active researcher here ever since.

Memberships and Affiliations

Internal Memberships

I am Rowett Institute Theme lead for Equality, Diversity and Inclusivity, and co-lead of the Rowett Athena Swan, Equality and Diversity Team.

I am co-director of the University of Aberdeen Centre for Bacteria in Health and Disease.

I am the Institute Biological Safety Advisor.

I am the primary supervisor for 3 PhD students and the co-supervisor for a further  2 PhD students.

External Memberships
  • I am one of the Board of Directors of ISAPP (International Scientific Association for Probiotics and Prebiotics), the foremost organisation in the world promoting the science behind probiotics and prebiotics (https://isappscience.org/). Served as President from 2016-2019.

  • Chair of organising committee for the biennial International Gut Microbiology symposium [Rowett/INRAE conference] 2016- present

  • Current Chair of Global Grants for Gut Health Award Panel; committee member since 2018
  • Previously Member of the organising committee for the Wellcome Trust Gut Microbiome annual conference (2014-2018); International Human Microbiome Conference (2020-2022)
  • Member of ILSI Prebiotic Expert Groups on "short chain fatty acids" and "gut microbiota and nutrients" 2016-2019
  • Editor of Microbiology journal (2016 - 2018)
  •  
  • External PhD student examiner (1 - 2 students per year) for various universities within UK or Europe.
  • Regularly invited to review grant proposals submitted to International award bodies, and scientific manuscripts

Prizes and Awards

Clarivate Highly cited researcher 2022, 2022.

Member of the Rowett Gut Microbiology Group who were runners up in the International Global Grants for Gut Health Nature Awards Research Group Prize 2023 - read more HERE,

Research

Research Overview

Investigations into the development and evolution of the gut microbiota

The human large intestine is home to the largest and most diverse group of bacteria in the human body. These bacteria play an important role in maintaining human health, fermenting plant fibres and other non-digestible carbohydrates, and releasing compounds that have direct or indirect benefits to human health. Understanding the impact of specific dietary components on gut bacteria will help us to formulate health advice for the general population.

Key Research Interests are:

  • the molecular mechanisms by which specific bacteria utilise different dietary components including prebiotics and fibre
  • the importance of diet in modulating both the composition and activity of the microbiota
  • understanding the sequential colonisation and longitudinal development of the microbiota through life
  • investigating the health benefits that can be derived from increased consumption of oats and barley. The impact of these dietary components are assessed in vitro using bacterial mono- and co-culture, aswell as using mixed batch culture and fermentor systems.  Human studies have also been done to ascertain the effects in vivo.

  • the role of the gut microbiota in the carriage, evolution and dissemination of antimicrobial resistance genes

  • co-localisation of antimicrobial and other resistance genes on transmissible conjugative transposons. These resistance genes are also useful genetic markers to investigate gene function in key gut anaerobes, and to perfrom genetic manipulation experiments.

  • identifying new commensal bacteria suitable for development as next generation probiotics

Research Areas

Biological and Environmental Sciences

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Biomedical Sciences

View Research Area

Nutrition and Health

View Research Area

Research Specialisms

  • Biomedical Sciences
  • Microbiology
  • Bioinformatics

Our research specialisms are based on the Higher Education Classification of Subjects (HECoS) which is HESA open data, published under the Creative Commons Attribution 4.0 International licence.

Current Research

1. Assessing the prevalence and evolution of antibiotic resistance genes in bacteria resident in the gut, and entering from the food chain

2. Effect of different cereals as dietary components on the gut microbiota.

3. Manipulation of anaerobic gut bacteria

4. investigating possible members of the gut microbiota as potential probiotics

 

Collaborations

Through the RESAS work I collaborate with scientists at JHI (Kelly Houston, Nicola Holden), the Moredun (Eleanor Watson), SRUC (Nicola Holden, Judith Evans) and UHI (Peter Martin).

I also collaborate on various projects with other scientists from different Universities (UK and EU) who have mutual interests in the activity of the gut microbiota, or in the prevalence and spread of antibiotic resistance genes.

Supervision

PhD student supervision:

2010 – 2014 Joint studentship with University College Cork, Genetic Manipulation of anaerobic gut bacteria

2011-2015 RESAS cereal SP, Realizing the potential of cereal products to benefit human health

2011 – 2015 GTbiologics/Sulsa, The role of the gut microbiota in inflammatory bowel disease

2017 – 2020 Elphinstone award, Spread of antibiotic resistance through the food chain

2017 – 2021 A Vogel, Prebiotic treatment to alleviate IBS

2017 – 2021 Jordanian govt, Impact of antibiotic treatment on the evolution of mosaic genes

2018 – 2021 Kuwait govt, Health impacts of B-glucan

2020 – 2023 EastBio PhD student, Impact of bile salt hydrolase activities of specific gut bacteria on energy balance

2021-2025 Eastbio PhD student, Carriage of antimicrobial resistance genes by Campylobacter isolates from wildlife

Funding and Grants

  • Scottish Government funded HEI Partnership grant - A systems wide approach to the control of Campyobacter in the food chain (focussing on the presence of antibiotic resistance genes)
  • Scottish Government theme funding for RI
  • Commercial funding from Vogel to investigate the effect of a specific prebiotic on gut health
  • Commercial funding to perform anaerobic bacterial isolations
  • Several foreign government funded PhD studentships
  • Tenovus and NHS Endowment trust funding for various collaborative projects
Teaching

Teaching Responsibilities

I am responsible for teaching various units on the composition and function of the gut microbiota to MSc students and undergraduate 2nd year Medical students. I am also involved in supporting the general science and microbiology undergraduate teaching in the University, contributing to both lecturing and practical course teaching. I also contribute a section on Gut Microbiology to the successful Nutrition and Wellbeing MOOC, accessible learning for anyone interested.

Publications

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  • Butyrate-producing bacteria as probiotic supplement: beneficial effects on metabolism and modulation of behavior in an obesity mouse model

    Garcia-Serrano, A. M., Skoug, C., Axling, U., Korhonen, E. R., Teixeira, C., Ahrén, I. L., Mukhopadhya, I., Boteva, N., Martin, J., Scott, K., Gratz, S., Stenkula, K. G., Holm, C., Duarte, J. M.
    Working Papers: Preprint Papers

  • Establishing genetic manipulation for novel strains of human gut bacteria

    Sheridan, P. O., Odat, M. A., Scott, K. P.
    Microbiome Research Reports, vol. 2, no. 1
    Contributions to Journals: Articles

  • Comparison of microbial signatures between paired faecal and rectal biopsy samples from healthy volunteers using next-generation sequencing and culturomics

    Mukhopadhya, I., Martin, J. C., Shaw, S., McKinley, A. J., Gratz, S. W., Scott, K. P.
    Microbiome, vol. 10, no. 1, 171
    Contributions to Journals: Articles

  • Higher total faecal short chain fatty concentrations correlate with increasing proportions of butyrate and decreasing proportions of branched chain fatty acids across multiple human studies

    Scott, K., LaBouyer, M., Holtrop, G., Horgan, G., Gratz, S., Belenguer, A., Smith, N., Walker, A., Duncan, S., Johnstone, A., Louis, P., Flint, H. J.
    Gut Microbiome, vol. 3, e2
    Contributions to Journals: Articles

  • Changes in the gut microbiota of Nigerian infants within the first year of life

    Oyedemi, O. T., Shaw, S., Martin, J., Ayeni, F. A., Scott, K.
    PloS ONE, vol. 17, no. 3, e0265123
    Contributions to Journals: Articles

  • Editors’ Prelude to Microbiome Research Reports

    Ventura, M., van Sinderen, D., Turroni, F., Milani, C., Munoz, J., Haller, D., Ross, R. P., Collado, M. C., Allen-Vercoe, E., Del Rio, D., Altermann, E., Katayama, T., Zoetendal, E. G., Belzer, C., Mena, P., Im, S. H., Gueimonde, M., Margolles, A., Ruiz, L., Lacroix, C., Stanton, C., Barbara, G., Saminen, S., Scott, K. P., Barrangou, R., Bottacini, F., Marco, M. L.
    Microbiome Research Reports, vol. 1, no. 1, 1
    Contributions to Journals: Editorials

  • The International Scientific Association for Probiotics and Prebiotics (ISAPP) consensus statement on the definition and scope of synbiotics

    Swanson, K. S., Gibson, G. R., Hutkins, R., Reimer, R. A., Reid, G., Verbeke, K., Scott, K. P., Holscher, H. D., Azad, M. B., Delzenne, N. M., Sanders, M. E.
    Nature Reviews Gastroenterology & Hepatology, vol. 17, no. 11, pp. 687-701
    Contributions to Journals: Articles

  • Daily Fermented Whey Consumption Alters the Fecal Short-Chain Fatty Acid Profile in Healthy Adults

    Smith, N. M., Maloney, N. G., Shaw, S., Horgan, G., Fyfe, C., Martin, J. C., Suter, A., Scott, K. P., Johnstone, A. M.
    Frontiers in Nutrition, vol. 7, pp. 165
    Contributions to Journals: Articles

  • Conjugation Protocol Optimised for Roseburia inulinivorans and Eubacterium rectale

    Sheridan, P. O., Martin, J. C., Scott, K. P.
    Bio-protocol, vol. 10, no. 7, e3575
    Contributions to Journals: Articles

  • Developments in understanding and applying prebiotics in research and practice: an ISAPP conference paper

    Scott, K. P., Grimaldi, R., Cunningham, M., Sarbini, S. R., Wijeyesekera, A., Tang, M. L., Lee, J. C., Yau, Y. F., Ansell, J., Theis, S., Yang, K., Menon, R., Arfsten, J., Manurung, S., Gourineni, V., Gibson, G. R.
    Journal of Applied Microbiology, vol. 128, no. 4, pp. 934-949
    Contributions to Journals: Articles

  • Increased wholegrain intake does not reduce blood pressure and other markers of cardiovascular disease risk in unmedicated pre-hypertensive/stage 1 hypertensive volunteers

    Amadi, I. G., Scott, K., Moir, S., Horgan, G., Martin, J., MacLeod, M. J., Thies, F.
    Nutrition Society Live 2020, E789
    Contributions to Journals: Abstracts

  • Short chain fatty acids in human gut and metabolic health

    Blaak, E. E., Canfora, E., Theis, S., Frost, G., Groen, A., Mithieux, G., Nauta, A., Scott, K., Stahl, B., van Harsselaar, J., van Tol, R., Verbeke, K.
    Beneficial Microbes, vol. 11, no. 5, pp. 411-455
    Contributions to Journals: Articles

  • Heterologous gene expression in the human gut bacteria Eubacterium rectale and Roseburia inulinivorans by means of conjugative plasmids

    Sheridan, P. O., Martin, J. C., Minton, N. P., Flint, H. J., O'Toole, P. W., Scott, K. P.
    Anaerobe, vol. 59, pp. 131-140
    Contributions to Journals: Articles

  • The impact of antimicrobials on gut bacteria: an interview with Karen Scott

    Scott, K. P.
    Future Microbiology, vol. 14, no. 13, pp. 1081-1082
    Contributions to Journals: Articles

  • The Ageing Gut-Brain Study: Exploring the role of the gut microbiota in dementia

    Johnstone, A. M., Donaldson, A. I. C., Scott, K. P., Myint, P. K.
    Nutrition Bulletin, vol. 44, no. 2, pp. 145-153
    Contributions to Journals: Articles

  • Gut microbiota functions: metabolism of nutrients and other food components

    Rowland, I., Gibson, G., Heinken, A., Scott, K., Swann, J., Thiele, I., Tuhoy, K.
    European Journal of Nutrition, vol. 57, no. 1, pp. 1-24
    Contributions to Journals: Articles

  • Assessment of the microbiological safety of fermented milk (nunu) in Northern Ghana and the influence of hygiene training

    Daari, K., Poobalan, A., Scott, K., McNeill, G.
    Contributions to Conferences: Papers

  • Strain-level metagenomic analysis of the fermented dairy beverage nunu highlights potential food safety risks

    Walsh, A. M., Crispie, F., Daari, K., O’Sullivan, O., Martin, J. C., Arthur, C. T., Claesson, M. J., Scott, K. P., Cotter, P. D.
    Applied and Environmental Microbiology, vol. 83, no. 16, e01144-17
    Contributions to Journals: Articles

  • 16S sequencing and functional analysis of the fecal microbiome during treatment of newly diagnosed pediatric inflammatory bowel disease

    Ashton, J. J., Colquhoun, C. M., Cleary, D. W. .., Coelho, T., Haggarty, R., Mulder, I., Batra, A., Afzal, N. A., Beattie, R. M., Scott, K. P., Ennis, S.
    Medicine, vol. 96, no. 26, pp. 1-10
    Contributions to Journals: Articles

  • The agronomic performance and nutritional content of oat and barley varieties grown in a northern maritime environment depends on variety and growing conditions

    Chappell, A., Scott, K. P., Griffiths, I. A., Cowan, A. A., Hawes, C., Wishart, J., Martin, P.
    Journal of Cereal Science, vol. 74, pp. 1-10
    Contributions to Journals: Articles

  • Expert consensus document: The International Scientific Association for Probiotics and Prebiotics (ISAPP) consensus statement on the definition and scope of prebiotics

    Gibson, G. R., Hutkins, R., Sanders, M. E., Prescott, S. L., Reimer, R. A., Salminen, S. J., Scott, K., Stanton, C., Swanson, K. S., Cani, P. D., Verbeke, K., Reid, G.
    Nature Reviews Gastroenterology & Hepatology, vol. 14, pp. 491-502
    Contributions to Journals: Articles

  • Towards standards for human fecal sample processing in metagenomic studies

    Costea, P. I., Zeller, G., Sunagawa, S., Pelletier, E., Alberti, A., Levenez, F., Tramontano, M., Driessen, M., Hercog, R., Jung, F., Kultima, J. R., Hayward, M. R., Coelho, L. P., Allen-Vercoe, E., Bertrand, L., Blaut, M., Brown, J. R. M., Carton, T., Cools-Portier, S., Daigneault, M., Derrien, M., Druesne, A., de Vos, W. M., Finlay, B. B., Flint, H. J., Guarner, F., Hattori, M., Heilig, H., Luna, R. A., van Hylckama Vlieg, J., Junick, J., Klymiuk, I., Langella, P., Le Chatelier, E., Mai, V., Manichanh, C., Martin, J. C., Mery, C., Morita, H., O'Toole, P. W., Orvain, C., Patil, K. R., Penders, J., Persson, S., Pons, N., Popova, M., Salonen, A., Saulnier, D., Scott, K. P., Singh, B., Slezak, K., Veiga, P., Versalovic, J., Zhao, L., Zoetendal, E. G., Ehrlich, S. D., Dore, J., Bork, P.
    Nature Biotechnology, vol. 35, pp. 1069–1076
    Contributions to Journals: Articles

  • Objections to the proposed reclassification of Eubacterium rectale as Agathobacter rectalis

    Sheridan, P. O., Duncan, S. H., Walker, A. W., Scott, K. P., Louis, P., Flint, H. J.
    International Journal of Systematic and Evolutionary Microbiology, vol. 66, no. 5, pp. 2106-2106
    Contributions to Journals: Letters

  • Polysaccharide utilization loci and nutritional specialization in a dominant group of butyrate-producing human colonic Firmicutes

    Sheridan, P., Martin, J. C., Lawley, T. D., Browne, H. P., Harris, H. M. B., Bernalier-Donadille, A., Duncan, S. H., O'Toole, P. W., Scott, K. P., Flint, H. J.
    Microbial Genomics, vol. 2, no. 2, 43
    Contributions to Journals: Articles

  • Probiotic nomenclature matters

    Hill, C., Scott, K., Klaenhammer, T. R., Quigley, E., Sanders, M. E.
    Gut Microbes, vol. 7, no. 1, pp. 1-2
    Contributions to Journals: Comments and Debates

  • Altered Colonic Bacterial Fermentation as a Potential Pathophysiological Factor in Irritable Bowel Syndrome

    Ringel-Kulka, T., Choi, C. H., Temas, D., Kim, A., Maier, D. M., Scott, K., Galanko, J. A., Ringel, Y.
    The American journal of gastroenterology, vol. 110, no. 9, pp. 1339-1346
    Contributions to Journals: Articles

  • First-Pass Meconium Samples from Healthy Term Vaginally-Delivered Neonates: An Analysis of the Microbiota

    Hansen, R., Scott, K. P., Khan, S., Martin, J. C., Berry, S. H., Stevenson, M., Okpapi, A., Munro, M. J., Hold, G. L.
    PloS ONE, vol. 10, no. 7, e0133320
    Contributions to Journals: Articles

  • 16S rRNA gene-based profiling of the human infant gut microbiota is strongly influenced by sample processing and PCR primer choice

    Walker, A. W., Martin, J. C., Scott, P., Parkhill, J., Flint, H. J., Scott, K. P.
    Microbiome, vol. 3, 26
    Contributions to Journals: Articles

  • The effect of in vitro fermentation of oats (Avena sativa) and barley (Hordeum vulgare) on the faecal gut microbiota

    Chappell, A. J., Thies, F., Martin, P., Flint, H. J., Scott, K. P.
    Proceedings of the Nutrition Society, vol. 74, no. OCE1, pp. E32-E32
    Contributions to Journals: Abstracts

  • Links between diet, gut microbiota composition and gut metabolism

    Flint, H. J., Duncan, S. H., Scott, K. P., Louis, P.
    Proceedings of the Nutrition Society, vol. 74, no. 1, pp. 13-22
    Contributions to Journals: Literature Reviews

  • Increased oats' consumption does not reduce cardiovascular disease risk markers in middle-aged healthy volunteers

    Mills, L. M., Scott, K. P., Thies, F.
    Proceedings of the Nutrition Society, vol. 74, no. OCE1, pp. E74-E74
    Contributions to Journals: Abstracts

  • Fermentation of oats (Avena sativa) by the faecal microbiota using an in vitro colonic fermentor system

    Chappell, A. J., Thies, F., Martin, P., Flint, H. J., Scott, K. P.
    Proceedings of the Nutrition Society, vol. 74, no. OCE5, pp. E302-E302
    Contributions to Journals: Abstracts

  • Manipulating the gut microbiota to maintain health and treat disease

    Scott, K. P., Antoine, J., Midtvedt, T., van Hemert, S.
    Microbial Ecology in Health and Disease, vol. 26, pp. 25877
    Contributions to Journals: Articles

  • The Microbiota of the Human Gastrointestinal Tract: A Molecular View

    Tuohy, K. M., Scott, K. P.
    Diet-Microbe Interactions in the Gut: Effects on Human Health and Disease. Elsevier Inc., pp. 1-15, 15 pages
    Chapters in Books, Reports and Conference Proceedings: Chapters

  • Impact of a very low-energy diet on the fecal microbiota of obese individuals

    Simões, C. D., Maukonen, J., Scott, K. P., Virtanen, K. A., Pietiläinen, K. H., Saarela, M.
    European Journal of Nutrition, vol. 53, no. 6, pp. 1421-1429
    Contributions to Journals: Articles

  • Phylogenetic distribution of three pathways for propionate production within the human gut microbiota

    Reichardt, N., Duncan, S. H., Young, P., Belenguer, A., McWilliam Leitch, C., Scott, K. P., Flint, H. J., Louis, P.
    The ISME Journal, vol. 8, no. 6, pp. 1323-1335
    Contributions to Journals: Articles

  • Can prebiotics and probiotics improve therapeutic outcomes for undernourished individuals?

    Sheridan, P. O., Bindels, L. B., Saulnier, D. M., Reid, G., Nova, E., Holmgren, K., O'Toole, P. W., Bunn, J., Delzenne, N., Scott, K. P.
    Gut Microbes, vol. 5, no. 1, pp. 74-82
    Contributions to Journals: Articles

  • Prebiotic stimulation of human colonic butyrate-producing bacteria and bifidobacteria, in vitro

    Scott, K. P., Martin, J. C., Duncan, S. H., Flint, H. J.
    FEMS Microbiology Ecology, vol. 87, no. 1, pp. 30-40
    Contributions to Journals: Articles

  • Pro-inflammatory flagellin proteins of prevalent motile commensal bacteria are variably abundant in the intestinal microbiome of elderly humans

    Neville, B. A., Sheridan, P. O., Harris, H. M. B., Coughlan, S., Flint, H. J., Duncan, S. H., Jeffery, I. B., Claesson, M. J., Ross, R. P., Scott, K. P., O'Toole, P. W.
    PloS ONE, vol. 8, no. 7, e68919
    Contributions to Journals: Articles

  • The influence of diet on the gut microbiota

    Scott, K. P., Gratz, S. W., Sheridan, P. O., Flint, H. J., Duncan, S. H.
    Pharmacological Research, vol. 69, no. 1, pp. 52-60
    Contributions to Journals: Literature Reviews

  • Gut microbiota-derived propionate reduces cancer cell proliferation in the liver

    Bindels, L. B., Porporato, P., Dewulf, E. M., Verrax, J., Neyrinck, A. M., Martin, J. C., Scott, K. P., Buc Calderon, P., Feron, O., Muccioli, G. G., Sonveaux, P., Cani, P. D., Delzenne, N. M.
    British Journal of Cancer, vol. 107, no. 8, pp. 1337-1344
    Contributions to Journals: Articles

  • The role of the gut microbiota in nutrition and health

    Flint, H. J., Scott, K. P., Louis, P., Duncan, S. H.
    Nature Reviews Gastroenterology & Hepatology, vol. 9, no. 10, pp. 577-589
    Contributions to Journals: Literature Reviews

  • Microbial degradation of complex carbohydrates in the gut

    Flint, H. J., Scott, K. P., Duncan, S. H., Louis, P., Forano, E.
    Gut Microbes, vol. 3, no. 4, pp. 289-306
    Contributions to Journals: Literature Reviews

  • Restoring specific lactobacilli levels decreases inflammation and muscle atrophy markers in an acute leukemia mouse model

    Bindels, L., Beck, R., Schakman, O., Martin, J. C., de Backer, F., Sohet, F. M., Dewulf, E. M., Pachikian, B. D., Neyrinck, A. M., Thissen, J., Verrax, J., Buc Calderon, P., Pot, B., Grangette, C., Cani, P. D., Scott, K. P., Delzenne, N.
    PloS ONE, vol. 7, no. 6, e37971
    Contributions to Journals: Articles

  • Evaluation of novel assays to assess the influence of different iron sources on the growth of Clostridium difficile

    Cernat, R. C., Scott, K. P.
    Anaerobe, vol. 18, no. 3, pp. 298-304
    Contributions to Journals: Articles

  • Functional dysbiosis within the intestinal microbiota of patients with irritable bowel syndrome

    Chassard, C., Dapoingny, M., Scott, K. P., Crouzet, L., Del'homme, C., Marquet, P., Martin, J. C., Pikering, G., Ardid, D., Eschalier, A., Dubray, C., Flint, H. J., Bernalier-Donadille, A.
    Alimentary Pharmacology & Therapeutics, vol. 35, no. 7, pp. 828-838
    Contributions to Journals: Articles

  • Probiotic and prebiotic claims in Europe: Seeking a clear roadmap

    Guarner, F., Sanders, M. E., Gibson, G., Klaenhammer, T., Cabana, M., Scott, K., Reid, G., Delzenne, N. M., Fahey, G. C., Hill, C.
    British Journal of Nutrition, vol. 106, no. 11, pp. 1765-1767
    Contributions to Journals: Letters

  • Optimization of a high-throughput CTAB-based protocol for the extraction of qPCR-grade DNA from rumen fluid, plant and bacterial pure cultures

    Minas, K., Mcewan, N., Newbold, C., Scott, K. P.
    FEMS Microbiology Letters, vol. 325, no. 2, pp. 162-169
    Contributions to Journals: Articles

  • Nutritional influences on the gut microbiota and the consequences for gastrointestinal health

    Scott, K. P., Duncan, S. H., Louis, P., Flint, H. J.
    The Biochemical society special interest meeting, pp. 1073-1078
    Contributions to Journals: Literature Reviews

  • Micro-organisms in the human gut: diversity and function

    Scott, K. P., Duncan, S. H., Louis, P., Flint, H. J.
    biochemical society focussed meeting, pp. 4-9
    Contributions to Journals: Literature Reviews

  • Substrate-driven gene expression in Roseburia inulinivorans: Importance of inducible enzymes in the utilization of inulin and starch

    Scott, K. P., Martin, J. C., Chassard, C., Clerget, M., Potrykus, J., Campbell, G. P., Mayer, C., Young, P., Rucklidge, G., Ramsay, A. G., Flint, H. J.
    PNAS, vol. 108, no. Supplement 1, pp. 4672-4679
    Contributions to Journals: Articles

  • Distribution of Tetracycline and Erythromycin Resistance Genes Among Human Oral and Fecal Metagenomic DNA

    Seville, L. A., Patterson, A. J., Scott, K. P., Mullany, P., Quail, M. A., Parkhill, J., Ready, D., Wilson, M., Spratt, D., Roberts, A. P.
    Microbial Drug Resistance, vol. 15, no. 3, pp. 159-166
    Contributions to Journals: Articles

  • The Intestinal Microbiota of Irritable Bowel Syndrome Patients Is Characterized By Functional Dysbiosis

    Chassard, C., Dapoigny, M. C., Scott, K. P., Del'Homme, C., Dubray, C., Eschalier, A., Flint, H. J., Bernalier-Donadille, A., Flint, H. J.
    Gastroenterology, vol. 136, no. 5, Supplement 1, pp. A214-A214
    Contributions to Journals: Articles

  • Tetracycline resistome of the organic pig gut

    Kazimierczak, K. A., Scott, K. P., Kelly, D., Aminov, R. I.
    Applied and Environmental Microbiology, vol. 75, no. 6, pp. 1717-1722
    Contributions to Journals: Articles

  • Assessment of metabolic diversity within the intestinal microbiota from healthy humans using combined molecular and cultural approaches

    Chassard, C., Scott, K. P., Marquet, P., Martin, J. C., Del'homme, C., Dapoigny, M., Flint, H. J., Bernalier-Donadille, A.
    FEMS Microbiology Ecology, vol. 66, no. 3, pp. 496-504
    Contributions to Journals: Articles

  • A new tetracycline efflux gene, tet(40), is located in tandem with tet(O/32/O) in a human gut firmicute bacterium and in metagenomic library clones

    Kazimierczak, K. A., Rincon, M. T., Patterson, A. J., Martin, J. C., Young, P., Flint, H. J., Scott, K. P.
    Antimicrobial Agents and Chemotherapy, vol. 52, no. 11, pp. 4001-4009
    Contributions to Journals: Articles

  • Dietary fibre and the gut microbiota

    Scott, K. P., Duncan, S. H., Flint, H. J.
    Nutrition Bulletin, vol. 33, no. 3, pp. 201-211
    Contributions to Journals: Articles

  • Transfer of conjugative elements from rumen and human Firmicutes bacteria to Roseburia inulinivorans

    Scott, K. P., Martin, J. C., Mrazek, J., Flint, H. J.
    Applied and Environmental Microbiology, vol. 74, no. 12, pp. 3915-3917
    Contributions to Journals: Articles

  • Prebiotics and the gut microbiota: Evidence for different modes of action

    Louis, P., Scott, K. P., Duncan, S. H., Flint, H. J.
    NUTRAfoods: International Journal of Science and Marketing for Nutraceutical Actives, Raw Materials, Finish Products, vol. 7, no. 1, pp. 33-39
    Contributions to Journals: Literature Reviews

  • Commensal bacteria in health and disease

    Flint, H. J., Louis, P., Scott, K. P., Duncan, S. H.
    Virulence mechanisms of bacterial pathogens. Brogden, K. A., Minion, F. C., Cornick, N., Stanton, T. B., Zhang, Q., Nolan, L. K., Wannemuehler, M. J. (eds.). 4 edition. ASM Press, pp. 101-114, 4 pages
    Chapters in Books, Reports and Conference Proceedings: Chapters

  • Interactions and competition within the microbial community of the human colon: Links between diet and health

    Flint, H. J., Duncan, S. H., Scott, K. P., Louis, P.
    Environmental Microbiology, vol. 9, no. 5, pp. 1101-1111
    Contributions to Journals: Literature Reviews

  • Understanding the effects of diet on bacterial metabolism in the large intestine

    Louis, P., Scott, K. P., Duncan, S. H., Flint, H. J.
    Journal of Applied Microbiology, vol. 102, no. 5, pp. 1197-1208
    Contributions to Journals: Literature Reviews

  • Distribution of specific tetracycline and erythromycin resistance genes in environmental samples assessed by macroarray detection

    Patterson, A. J., Colangeli, R., Spigaglia, P., Scott, K. P.
    Environmental Microbiology, vol. 9, no. 3, pp. 703-715
    Contributions to Journals: Articles

  • Mosaic Tetracycline Resistance Genes Are Widespread in Human and Animal Fecal Samples

    Patterson, A. J., Rincon, M. T., Flint, H. J., Scott, K. P.
    Antimicrobial Agents and Chemotherapy, vol. 51, no. 3, pp. 1115-1118
    Contributions to Journals: Articles

  • Tetracycline susceptibility of the ingested Lactobacillus acidophilus LaCH-5 and Bifidobacterium animalis subsp lactis Bb-12 strains during antibiotic/probiotic intervention

    Saarela, M., Maukonen, J., Von Wright, A., Vilpponen-Salmela, T., Patterson, A. J., Scott, K. P., Hamynen, H., Matto, J.
    International Journal of Antimicrobial Agents, vol. 29, no. 3, pp. 271-280
    Contributions to Journals: Articles

  • Antibiotics and Resistance Genes: Influencing the Microbial Ecosystem in the Gut

    Kazimierczak, K. A., Scott, K. P.
    Advances in Applied Microbiology, vol. 62, pp. 269-292
    Contributions to Journals: Literature Reviews

  • Molecular approaches to the analysis of gastrointestinal microbial ecosystems

    Flint, H. J., Leitch, E. C. M., Duncan, S. H., Walker, A. W., Patterson, A. J., Rincon, M. T., Scott, K. P., Louis, P. G. H.
    Avian Gut Function in Health and Disease. Perry, G. (ed.). CABI Publishing, pp. 107-123
    Chapters in Books, Reports and Conference Proceedings: Chapters

  • Cell-associated alpha-amylases of butyrate-producing Firmicute bacteria from the human colon

    Ramsay, A. G., Scott, K. P., Martin, J. C., Rincon, M. T., Flint, H. J.
    Microbiology , vol. 152, pp. 3281-3290
    Contributions to Journals: Articles

  • Proposal of Roseburia faecis sp nov., Roseburia hominis sp nov and Roseburia inulinivorans sp nov., based on isolates from human faeces

    Duncan, S. H., Aminov, R. I., Scott, K. P., Louis, P., Stanton, T. B., Flint, H. J.
    International Journal of Systematic and Evolutionary Microbiology, vol. 56, no. 10, pp. 2437-2441
    Contributions to Journals: Articles

  • Comparative analysis of sequences flanking tet(W) resistance genes in multiple species of gut bacteria

    Kazimierczak, K. A., Flint, H. J., Scott, K. P.
    Antimicrobial Agents and Chemotherapy, vol. 50, no. 8, pp. 2632-2639
    Contributions to Journals: Articles

  • Whole-genome transcription profiling reveals genes up-regulated by growth on fucose in the human gut bacterium "Roseburia inulinivorans"

    Scott, K. P., Martin, J. C., Campbell, G. P., Mayer, C., Flint, H. J.
    Journal of Bacteriology, vol. 188, no. 12, pp. 4340-4349
    Contributions to Journals: Articles

  • Hybrid tet genes and tet gene nomenclature: Request for opinions

    Stanton, T. B., Humphrey, S. B., Scott, K. P., Flint, H. J.
    Antimicrobial Agents and Chemotherapy, vol. 49, no. 3, pp. 1265-1266
    Contributions to Journals: Letters

  • Investigating the distribution of antibiotic resistance across Europe by the use of a macroarray system

    Patterson, A. J., Flint, H. J., Scott, K. P.
    6th European Congress of Chemotherapy and Infection/24th Interdisciphinary Meeting of Chimiotherapie Anit-Infections, pp. S150-S150
    Contributions to Journals: Abstracts

  • The Butyrivibrio fibrisolvens tet(W) gene is carried on the novel conjugative transposon TnB1230, which contains duplicated nitroreductase coding sequences

    Melville, C. M., Brunel, R., Flint, H. J., Scott, K. P.
    Journal of Bacteriology, vol. 186, no. 11, pp. 3656-3659
    Contributions to Journals: Articles

  • Characterization of XYN10B, a modular xylanase from the ruminal protozoan Polyplastron multivesiculatum, with a family 22 carbohydrate-binding module that binds to cellulose

    Devillard, E., Bera-Maillet, C., Flint, H. J., Scott, K. P., Newbold, C. J., Wallace, R. J., Jouany, J. P., Forano, E.
    Biochemical Journal, vol. 373, no. 2, pp. 495-503
    Contributions to Journals: Articles

  • Effects of alternative dietary substrates on competition between human colonic bacteria in an anaerobic fermentor system

    Duncan, S. H., Scott, K. P., Ramsay, A. G., Harmsen, H. J. M., Welling, G. W., Stewart, C. S., Flint, H. J.
    Applied and Environmental Microbiology, vol. 69, no. 2, pp. 1136-1142
    Contributions to Journals: Articles

  • Influence of tetracycline exposure on tetracycline resistance and the carriage of tetracycline resistance genes within commensal Escherichia coli populations.

    Blake, D. P., Humphrey, S., Scott, K. P., Hillman, K., Fenlon, D., Low, J.
    Journal of Applied Microbiology, vol. 94, pp. 1087-1097
    Contributions to Journals: Articles

  • Novel tetracycline resistance gene, tet(32), in the Clostridium-related human colonic anaerobe K10 and its transmission in vitro to the rumen anaerobe Butyrivibrio fibrisolvens

    Melville, C. M., Scott, K. P., Mercer, D. K., Flint, H. J.
    Antimicrobial Agents and Chemotherapy, vol. 45, no. 11, pp. 3246-3249
    Contributions to Journals: Articles

  • EndB, a multidomain family 44 cellulase from Ruminococcus flavefaciens 17, binds to cellulose via a novel cellulose-binding module and to another R-flavefaciens protein via a dockerin domain

    Rincon, M. T., McCrae, S. I., Kirby, J., Scott, K. P., Flint, H. J.
    Applied and Environmental Microbiology, vol. 67, no. 10, pp. 4426-4431
    Contributions to Journals: Articles

  • Transformation of an oral bacterium via chromosomal integration of free DNA in the presence of human saliva

    Mercer, D. K., Scott, K. P., Melville, C. M., Glover, L. A., Flint, H. J.
    FEMS Microbiology Letters, vol. 200, pp. 163-167
    Contributions to Journals: Articles

  • Organisation and variable incidence of genes concerned with the utilization of xylans in the rumen cellulolytic bacterium Ruminococcus flavefaciens

    Aurilia, V., Martin, J. C., Scott, K. P., Mercer, D. K., Johnston, M. E. A., Flint, H. J.
    Anaerobe, vol. 6, no. 6, pp. 333-340
    Contributions to Journals: Articles

  • Three multidomain esterases from the cellulolytic rumen anaerobe Ruminococcus flavefaciens 17 that carry divergent dockerin sequences

    Aurilia, V., Martin, J. C., McCrae, S. I., Scott, K. P., Rincon, M. T., Flint, H. J.
    Microbiology , vol. 146, no. 6, pp. 1391-1397
    Contributions to Journals: Articles

  • Occurrence of the new tetracycline resistance gene tet(W) in bacteria from the human gut

    Scott, K. P., Melville, C. M., Barbosa, T. M., Flint, H. J.
    Antimicrobial Agents and Chemotherapy, vol. 44, no. 3, pp. 775-777
    Contributions to Journals: Articles

  • Chromosomal integration of the green fluorescent protein gene in lactic acid bacteria and the survival of marked strains in human gut simulations

    Scott, K. P., Mercer, D. K., Richardson, A. J., Melville, C. M., Glover, L. A., Flint, H. J.
    FEMS Microbiology Letters, vol. 182, no. 1, pp. 23-27
    Contributions to Journals: Articles

  • A xylanase produced by the rumen anaerobic protozoan Polyplastron multivesiculatum shows close sequence similarity to family 11 xylanases from Gram-positive bacteria

    Devillard, E., Newbold, C. J., Scott, K. P., Forano, E., Wallace, R. J., Jouany, J. P., Flint, H. J.
    FEMS Microbiology Letters, vol. 181, no. 1, pp. 145-152
    Contributions to Journals: Articles

  • Natural genetic transformation in the rumen bacterium Streptococcus bovis JB1

    Mercer, D. K., Melville, C. M., Scott, K. P., Flint, H. J.
    FEMS Microbiology Letters, vol. 179, no. 2, pp. 485-490
    Contributions to Journals: Articles

  • Fate of free DNA and transformation of the oral bacterium Streptococcus gordonii DL1 by plasmid DNA in human saliva

    Mercer, D. K., Scott, K. P., Bruce-Johnson, W. A., Glover, L. A., Flint, H. J.
    Applied and Environmental Microbiology, vol. 65, pp. 610
    Contributions to Journals: Articles

  • Estimation of the relative abundance of different Bacteroides and Prevotella ribotypes in gut samples by restriction enzyme profiling of PCR-amplified 16S rRNA gene sequences

    Wood, J., Scott, K. P., Avgustin, G., Newbold, C. J., Flint, H. J.
    Applied and Environmental Microbiology, vol. 64, no. 10, pp. 3683-3689
    Contributions to Journals: Articles

  • The green fluorescent protein as a visible marker for lactic acid bacteria in complex ecosystems

    Scott, K. P., Mercer, D. K., Glover, L. A., Flint, H. J.
    FEMS Microbiology Ecology, vol. 26, no. 3, pp. 219-230
    Contributions to Journals: Articles

  • The fate of Escherichia coli 0157 isolates under simulated rumen conditions and the use of a gfp-labelled isolate for ecological studies

    Duncan, S. H., Scott, K. P., Steward, C. S., Flint, H. J., Thompson-Carter, F., Pennington, T. H.
    Reproduction Nutrition Development, vol. 37, no. Suppl. 1, pp. 31-32
    Contributions to Journals: Articles

  • TRANSFER OF PLASMIDS BETWEEN STRAINS OF ESCHERICHIA-COLI UNDER RUMEN CONDITIONS

    SCOTT, K. P., FLINT, H. J.
    Journal of Applied Bacteriology, vol. 78, no. 2, pp. 189-193
    Contributions to Journals: Articles

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