51cg

Dr Petra Louis

Dr Petra Louis
Dr Petra Louis
Dr Petra Louis

Senior Research Fellow

51cg
Email Address
p.louis@abdn.ac.uk
Telephone Number
+44 (0)1224 438735
Office Address

Dr. Petra Louis

Microbiology Group

Gut Health Theme

The Rowett Institute

51cg

Foresterhill

Aberdeen AB25 2ZD

School/Department
School of Medicine, Medical Sciences and Nutrition

Biography

Petra Louis is a molecular microbiologist with an interest in the human gut microbiota, diet and health. She obtained her Diploma in Biology and PhD in Microbiology from the University of Bonn, Germany, where she conducted research on osmoadaptation in halophilic bacteria. She undertook post-doctoral research at the 51cg on stress responses in Escherichia coli and on RNA secondary structure melting during translation in yeast, before taking up a position as principal investigator at the Rowett Institute in Aberdeen in 2002.

Her research concentrates on the metabolism of the microbial community that inhabits the human intestine and how it can be modulated by diet to improve human health, with a particular emphasis on short-chain fatty acid production from dietary non-digestible carbohydrates. She utilises a wide range of technical approaches, including strictly anaerobic microbiology, molecular microbial community analysis, -omics technologies and mathematical modelling, to investigate which microbes are instrumental for primary fibre degradation and how different microbial community members interact with each other during fibre breakdown and fermentation product formation. Her work contributes to the development of effective and personalised nutritional strategies to improve human health via actions of the gut microbiota.

 

Qualifications

  • Diploma Biology 
    1992 - University of Bonn, Germany 
  • PhD Microbiology 
    1996 - Univesity of Bonn, Germany 

Prizes and Awards

PhD thesis award of the German Society for General and Applied Microbiology (VAAM) 1996

Clarivate (Web of Science) highly cited researcher: 2018-2025

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

Research

Research Overview

The microbial community in the human large intestine consists of a diverse range of bacteria that break down complex nutrients of dietary and host origin. The members of this ecosystem form a complex metabolic network in which the product of one group can serve as substrate for another group. Overall, this leads to the accumulation of mainly three organic acids, acetate, propionate and butyrate, which are partially absorbed by the colon and serve as an additional energy source for the human host. Butyrate is of special interest, as it serves as the preferred energy source for the colonic wall and thus contributes to the proper functioning of the gut. It has also been claimed to be protective against colon cancer and inflammatory bowel disease through effects on host gene expression and cellular development of the colon. Propionate also influences host physiology and its potential effects on host satiety is of particular interest in view of the current obesity epidemic.

Dietary intakes can influence the microbial gut community and shift the balance between different functional bacterial groups, with potential consequences for host health. Our research concentrates on the microbial metabolism of dietary non-digestible carbohydrates, with a particular emphasis on short-chain fatty acid production. We utilise are wide range of technical approaches, including strictly anaerobic microbiology of pure strains and mixed microbial consortia, molecular microbial community analysis of in vitro and human dietary studies, -omics technologies, enzymology and mathematical modelling.

 

Research Specialisms

  • Microbiology
  • Biochemistry
  • Molecular Biology
  • Ecology

Our research specialisms are based on the Higher Education Classification of Subjects (HECoS) which is , published under the licence.

Publications

Page 1 of 3 Results 1 to 50 of 120

  • Noncanonical Surface Glycoconjugates from Bacteroides stercoris DSM 19555 Reprogram Innate Immune Responses

    De Simone Carone, L., De Chiara, S., Mercogliano, M., Olmeo, F., Mazziotti, V., Silipo, A., Farquharson, F., Louis, P., Molinaro, A., Di Lorenzo, F.
    JACS Au, vol. 6, no. 8, pp. 4763–4775
    Contributions to Journals: Articles
  • Predicting responses to prebiotic fibres: linking microbiota, function and clinical outcomes

    Cantu-Jungles, T., Kok, C. R., Armet, A. M., David, L. A., Gibbons, S. M., Lindemann, S. R., Louis, P., Walter, J., Hamaker, B., Hutkins, R.
    Nature Reviews Microbiology
    Contributions to Journals: Articles
  • Metabolism of β-mannans by representative, understudied Bacillota species from the human colon

    Lo, G., La Rosa, S. L., Westereng, B., Pope, P. B., Louis, P., Sabater, C., Duncan, S. H.
    FEMS Microbiology Ecology, vol. 102, no. 7, fiag063
    Contributions to Journals: Articles
  • Big breakfast diet composition impacts on appetite control and gut health: a randomised weight loss trial in adults with overweight or obesity

    Fyfe, C., Donachie, G., Louis, P., Horgan, G., Mayer, C., Ruddick-Collins, L., Farquharson, F., Walker, A., Johnstone, A.
    British Journal of Nutrition, vol. 135, no. 11, pp. 1258-1272
    Contributions to Journals: Articles
  • Integrating microbiomes into One Health: insights from the 2025 One Health World Microbiome Partnership Summit

    Affagard, H., Benamouzig, R., Bork, P., Bull, C. T., Clement, K., de Montera, B., De Vos, W. M., Dominguez-Bello, M. G., Dore, J., Fontaine, F., Gao, G. F., Henn, M., Holmes, E., Karciauskate, I., Knight, R., Koren, O., Louis, P., Maguin, E., McAllister, T. A., Ohno, H., Ortmann, A. C., Parizeau, M. H., Pesant, S., Prescott, S. L., Proctor, L. M., Raes, J., Rocke, E., Sanabria-Gomez, J., Segata, N., Sergaki, C., Sessitsch, A., Stumpf, R. M., Tiensin, T., Versalovic, J., Vincent, C., Wannerberger, K., Wannous, C., Zhao, L., Zwart, H., Proctor, L. M., One Health World Microbiome Partnership Summit Writing Group
    The Lancet Microbe, vol. 7, no. 4, 101319
    Contributions to Journals: Comments and Debates
  • Decoding a Gut Commensal Signal: Structural and Immunological Profiling of Segatella copri Lipopolysaccharide

    De Simone Carone, L., Barra, G., Cirella, R., Ziaco, M., Mercogliano, M., Olmeo, F., Andretta, E., Mazziotti, V., Fusco, C., D’Ippolito, G., Duda, K. A., Farquharson, F., Louis, P., Fontana, A., Silipo, A., Molinaro, A., Chiodo, F., Di Lorenzo, F.
    Angewandte Chemie, vol. 64, no. 48, e202512947
    Contributions to Journals: Articles
  • Gut microbiota-derived short-chain fatty acids and their role in human health and disease

    Mukhopadhya, I., Louis, P.
    Nature Reviews Microbiology, vol. 23, pp. 635-651
    Contributions to Journals: Review articles
  • Roles of human colonic bacteria in pectin utilization and associated cross-feeding networks revealed using synthetic co-cultures

    Solvang, M., Farquharson, F. M., Horgan, G., Pisano, S., Holck, J., Zeuner, B., Russell, W. R., Louis, P.
    Microbiology , vol. 171, no. 5, 001559
    Contributions to Journals: Articles
  • Fava bean and buckwheat are sustainable food sources which support satiety and beneficially modulate several biomarkers, bacteria and metabolites associated with human health

    Neacsu, M., Sayegh, M., Vaughan, N., Duncan, G., Cantlay, L., Anderson, S., Henderson, D., Fyfe, C., Farquharson, F., Saibu, S., Horgan, G., Louis, P., Johnstone, A., Russell, W.
    European Journal of Nutrition, vol. 64, 211
    Contributions to Journals: Articles
  • Dietary fibre optimisation in support of global health

    Ramsteijn, A., Louis, P.
    Microbial Biotechnology, vol. 17, no. 8, pp. e14542
    Contributions to Journals: Articles
  • Why does increased microbial fermentation in the human colon shift toward butyrate?

    Flint, H. J., Louis, P., Duncan, S.
    AIMS Microbiology, vol. 10, no. 2, pp. 311-319
    Contributions to Journals: Articles
  • Gorse (Ulex europeaus) wastes with 5,6-dimethyl benzimidazole supplementation can support growth of vitamin B12 producing commensal gut microbes

    Iyer, A., Soto Martín, E. C., Cameron, G. A., Louis, P., Duncan, S. H., Bestwick, C. S., Russell, W. R.
    PloS ONE, vol. 19, no. 2, e0290052
    Contributions to Journals: Articles
  • Habitual consumption of high-fibre bread fortified with bean hulls increased plasma indole-3-propionic concentration and decreased putrescine and deoxycholic acid faecal concentrations in healthy volunteers

    Sayegh, M., Ni, Q. Q., Ranawana, V., Raikos, V., Hayward, N. J., Hayes, H., Duncan, G., Cantlay, L., Farquharson, F., Solvang, M., Horgan, G., Louis, P., Russell, W., Clegg, M., Thies, F., Neacsu, M.
    British Journal of Nutrition, vol. 130, no. 9, pp. 1521-1536
    Contributions to Journals: Articles
  • Effect of feed concentration and residence time on anaerobic fermentation in CSTR and SBR to produce short-chain organic acids

    Simonetti, S., Collie-Duguid, E., Fernandez Martin, C., Louis, P., Pu, J., Smith, E., Dionisi, D.
    Journal of Environmental Chemical Engineering, vol. 11, no. 5, 110461
    Contributions to Journals: Articles
  • Beyond purified dietary fibre supplements: compositional variation between cell wall fibre from different plants influences human faecal microbiota activity and growth in vitro

    Solvang, M., Farquharson, F., Sanhueza, D., Horgan, G., Russell, W., Louis, P.
    Environmental Microbiology, vol. 25, no. 8, pp. 1484-1504
    Contributions to Journals: Articles
  • Process-based modelling of Microbial community dynamics in the human colon

    Kettle, H., Louis, P., Flint, H. J.
    Journal of the Royal Society Interface, vol. 19, no. 195, 20220489
    Contributions to Journals: Articles
  • Microbial lactate utilisation and the stability of the gut microbiome

    Louis, P., Duncan, S., Sheridan, P., Walker, A., Flint, H. J.
    Gut Microbiome, vol. 3, e3
    Contributions to Journals: Articles
  • Long-term personalized low FODMAP diet improves symptoms and maintains luminal Bifidobacteria abundance in irritable bowel syndrome

    Staudacher, H. M., Rossi, M., Kaminski, T., Dimidi, E., Ralph, F. S., Wilson, B., Dallimer, M., Wilson, B., Martin, L. D., Louis, P., Lomer, M. C., Irving, P. M., Whelan, K.
    Neurogastroenterology and Motility, vol. 34, no. 4, e14241
    Contributions to Journals: Articles
  • Higher total faecal short-chain fatty acid 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
  • Distribution, organization and expression of genes concerned with anaerobic lactate utilization in human intestinal bacteria

    Sheridan, P., Louis, P., Tsompanidou, E., Shaw, S., Harmsen, H. J. M., Duncan, S., Flint, H. J., Walker, A.
    Microbial Genomics, vol. 8, no. 1, 000739
    Contributions to Journals: Articles
  • Immune Responsiveness to LPS Determines Risk of Childhood Wheeze and Asthma in 17q21 Risk Allele Carriers

    Illi, S., Depner, M., Pfefferle, P. I., Renz, H., Roduit, C., Taft, D. H., Kalanetra, K. M., Mills, D. A., Farquharson, F. M., Louis, P., Schmausser-Hechfellner, E., Divaret-Chauveau, A., Lauener, R., Karvonen, A. M., Pekkanen, J., Kirjavainen, P. V., Roponen, M., Riedler, J., Kabesch, M., Schaub, B., von Mutius, E., PASTURE Study Group
    American journal of respiratory and critical care medicine, vol. 205, no. 6, pp. 641-650
    Contributions to Journals: Articles
  • Dietary fibre complexity and its influence on functional groups of the human gut microbiota

    Louis, P., Solvang, M., Duncan, S., Walker, A., Mukhopadhya, I.
    Proceedings of the Nutrition Society, vol. 80, no. 4, pp. 386–397
    Contributions to Journals: Articles
  • Prebiotic fructans have greater impact on luminal microbiology and CD3+ T cells in healthy siblings than patients with Crohn’s disease: a pilot study investigating the potential for primary prevention of inflammatory bowel disease

    Hedin, C. R., McCarthy, N. E., Louis, P., Farquharson, F., McCartney, S., Stagg, A. J., Lindsay, J. O., Whelan, K.
    Clinical Nutrition, vol. 40, no. 8, pp. 5009-5019
    Contributions to Journals: Articles
  • Human gut Faecalibacterium prausnitzii deploy a highly efficient conserved system to cross-feed on β-mannan-derived oligosaccharides

    Lindstad, L. J., Lo, G., Leivers, S., Lu, Z., Michalak, L., Pereira, G. V., Røhr, ?. K., Martens, E. C., McKee, L. S., Louis, P., Duncan, S. H., Westereng, B., Pope, P. B., La Rosa, S. L.
    mBio, vol. 12, no. 3, e03628-20
    Contributions to Journals: Articles
  • Maturation of the gut microbiome during the first year of life contributes to the protective farm effect on childhood asthma

    Depner, M., Hazard Taft, D., Kirjavainen, P. V., Kalanetra, K. M., Karvonen, A. M., Peschel, S., Schmausser-Hechfellner, E., Roduit, C., Frei, R., Lauener, R., Divaret-Chauveau, A., Dalphin, J., Riedler, J., Roponen, M., Kabesch, M., Renz, H., Pekkanen, J., Farquharson, F., Louis, P., Mills, D., von Mutius, E., Ege, M. J.
    Nature Medicine, vol. 26, pp. 1766-1775
    Contributions to Journals: Articles
  • Prevalent Human Gut Bacteria Hydrolyse and Metabolise Important Food-Derived Mycotoxins and Masked Mycotoxins

    Daud, N., Currie, V., Duncan, G., Farquharson, F., Yoshinari, T., Louis, P., Gratz, S.
    Toxins, vol. 12, no. 10, 654
    Contributions to Journals: Articles
  • Pivotal roles for pH, lactate and lactate-utilizing bacteria in the stability of a human colonic microbial ecosystem

    Wang, S. P., Rubio, L. A., Duncan, S. H., Donachie, G. E., Holtrop, G., Lo, G., Farquharson, F. M., Wagner, J., Parkhill, J., Louis, P., Walker, A., Flint, H. J.
    mSystems, vol. 5, no. 5, e00645-20
    Contributions to Journals: Articles
  • Comparative genetic and physiological characterisation of Pectinatus species reveals shared tolerance to beer-associated stressors but halotolerance specific to pickle-associated strains

    Kramer, T., Kelleher, P., Meer, J. v. d., O'Sullivan, T., Geertman, J. A., Duncan, S. H., Flint, H. J., Louis, P.
    Food Microbiology, vol. 90, 103462
    Contributions to Journals: Articles
  • Vitamin biosynthesis by human gut butyrate-producing bacteria and cross-feeding in synthetic microbial communities

    Soto Martin, E., Warnke, I., Farquharson, F., Christodoulou, M., Horgan, G., Derrien, M., Faurie, J., Flint, H. J., Duncan, S., Louis, P.
    mBio, vol. 11, no. 4, e00886-20
    Contributions to Journals: Articles
  • Analysis of 1321 Eubacterium rectale genomes from metagenomes uncovers complex phylogeographic population structure and subspecies functional adaptations

    Karcher, N., Pasolli, E., Asnicar, F., Huang, K. D., Tett, A., Manara, S., Armanini, F., Bain, D., Duncan, S. H., Louis, P., Zolfo, M., Manghi, P., Valles-Colomer, M., Raffaetà, R., Rota-Stabelli, O., Collado, M. C., Zeller, G., Falush, D., Maixner, F., Walker, A. W., Huttenhower, C., Segata, N.
    Genome Biology, vol. 21, 138
    Contributions to Journals: Articles
  • β-glucan is a major growth substrate for human gut bacteria related to Coprococcus eutactus

    Alessi, A. M., Gray, V., Farquharson, F. M., Flores-López, A., Shaw, S., Stead, D., Wegmann, U., Shearman, C., Gasson, M., Collie-Duguid, E. S., Flint, H. J., Louis, P.
    Environmental Microbiology, vol. 22, no. 6, pp. 2150-2164
    Contributions to Journals: Articles
  • Feasibility of microwave-assisted pre-treatment of lignocellulosic feedstocks to produce added-value chemicals and materials

    Biti, S. B., Dionisi, D., Louis, P., Fernandez Martin, C.
    Contributions to Conferences: Oral Presentations
  • Anthocyanin-enriched bilberry extract attenuates glycaemic response in overweight volunteers without changes in insulin

    Alnajjar, M., Barik, S. K., Bestwick, C., Campbell, F., Cruickshank, M., Farquharson, F., Holtrop, G., Horgan, G., Louis, P., Moar, K., Russell, W. R., Scobbie, L., Hoggard, N.
    Journal of Functional Foods, vol. 64, 103597
    Contributions to Journals: Articles
  • Comparison of meat versus soya based high-protein diets on faecal microbiota and microbial metabolites

    Gratz, S. W., Scobbie, L., Richardson, A. J., Zhang, X., Fyfe, C., Farquharson, F. M., Duncan, G., Filipe, J., Zhu, W. Y., Johnstone, A. M., Louis, P., Russell, W. R.
    Proceedings of the Nutrition Society, vol. 79, no. OCE3
    Contributions to Journals: Abstracts
  • Flintibacter

    Louis, P., Lo, G., Kramer, T., Duncan, S.
    Chapters in Books, Reports and Conference Proceedings: Entries for Encyclopedias and Dictionaries
  • Randomised clinical trial: Bifidobacterium lactis NCC2818 probiotic vs placebo, and impact on gut transit time, symptoms, and gut microbiology in chronic constipation

    Dimidi, E., Zdanaviciene, A., Christodoulides, S., Taheri, S., Louis, P., Duncan, P. I., Emami, N., Crabbé, R., De Castro, C. A., McLean, P., Bergonzelli, G. E., Whelan, K., Mark Scott, S.
    Alimentary Pharmacology & Therapeutics, vol. 49, no. 3, pp. 251-264
    Contributions to Journals: Articles
  • The effect of prunes on stool output, gut transit time and gastrointestinal microbiota: a randomised controlled trial

    Lever, E., Scott, S. M., Louis, P., Emery, P. W., Whelan, K.
    Clinical Nutrition, vol. 38, no. 1, pp. 165-173
    Contributions to Journals: Articles
  • Formate cross-feeding and cooperative metabolic interactions revealed by transcriptomics in co-cultures of acetogenic and amylolytic human colonic bacteria

    Laverde Gomez, J. A., Mukhopadhya, I., Duncan, S. H., Louis, P., Shaw, S., Collie-Duguid, E., Crost, E., Juge, N., Flint, H. J.
    Environmental Microbiology, vol. 21, no. 1, pp. 259-271
    Contributions to Journals: Articles
  • Dietary fibers inhibit obesity in mice, but host responses in the cecum and liver appear unrelated to fiber-specific changes in cecal bacterial taxonomic composition

    Drew, J. E., Reichardt, N., Williams, L. M., Mayer, C., Walker, A. W., Farquharson, A. J., Kastora, S., Farquharson, F., Milligan, G., Morrison, D. J., Preston, T., Flint, H. J., Louis, P.
    Scientific Reports, vol. 8, 15566
    Contributions to Journals: Articles
  • microPop: modelling microbial populations and communities in R

    Kettle, H., Holtrop, G., Louis, P. G. H., Flint, H. J.
    Methods in Ecology and Evolution, vol. 9, no. 2, pp. 399-409
    Contributions to Journals: Articles
  • Mutual Interaction of Phenolic Compounds and Microbiota: Metabolism of Complex Phenolic Apigenin-C- and Kaempferol-O-Derivatives by Human Fecal Samples

    Vollmer, M., Esders, S., Farquharson, F. M., Neugart, S., Duncan, S., Schreiner, M., Louis, P., Maul, R., Rohn, S.
    Journal of Agricultural and Food Chemistry, vol. 66, no. 2, pp. 485–497
    Contributions to Journals: Articles
  • Porcine small and large intestinal microbiota rapidly hydrolyze the masked mycotoxin deoxynivalenol-3-glucoside and release deoxynivalenol in spiked batch cultures in vitro

    Gratz, S., Currie, V., Richardson, A., Duncan, G., Holtrop, G., Farquharson, F., Louis, P., Pinton, P., Oswald, I. P.
    Applied and Environmental Microbiology, vol. 84, no. 2, pp. 1-9
    Contributions to Journals: Articles
  • Sporulation capability and amylosome conservation among diverse human colonic and rumen isolates of the keystone starch-degrader Ruminococcus bromii

    Mukhopadhya, I., Morais, S., Laverde-Gomez, J., Sheridan, P. O., Walker, A. W., Kelly, W., Klieve, A. V., Ouwerkerk, D., Duncan, S. H., Louis, P., Koropatkin, N., Cockburn, D., Kibler, R., Cooper, P. J., Sandoval, C., Crost, E., Juge, N., Bayer, E. A., Flint, H. J.
    Environmental Microbiology, vol. 20, pp. 324-336
    Contributions to Journals: Articles
  • Specific substrate-driven changes in human faecal microbiota composition contrast with functional redundancy in short-chain fatty acid production

    Reichardt, N., Vollmer, M., Holtrop, G., Farquharson, F. M., Wefers, D., Bunzel, M., Duncan, S. H., Drew, J. E., Williams, L. M., Milligan, G., Preston, T., Morrison, D., Flint, H. J., Louis, P.
    The ISME Journal, vol. 12, pp. 610-622
    Contributions to Journals: Articles
  • Different Substrate Preferences Help Closely Related Bacteria To Coexist in the Gut

    Louis, P.
    mBio, vol. 8, no. 6, pp. 1-4
    Contributions to Journals: Comments and Debates
  • Prebiotic potential of pectin and pectic oligosaccharides to promote anti-inflammatory commensal bacteria in the human colon

    Chung, W. S. F., Meijerink, M., Zeuner, B., Holck, J., Louis, P., Meyer, A. S., Wells, J. M., Flint, H. J., Duncan, S. H.
    FEMS Microbiology Ecology, vol. 93, no. 11, pp. 1-9
    Contributions to Journals: Articles
  • Chlorogenic acid versus amaranth's caffeoylisocitric acid – Gut microbial degradation of caffeic acid derivatives

    Vollmer, M., Schröter, D., Esders, S., Neugart, S., Farquharson, F. M., Duncan, S. H., Schreiner, M., Louis, P., Maul, R., Rohn, S.
    Food Research International, vol. 100, no. 3, pp. 375-384
    Contributions to Journals: Articles
  • Diet Low in FODMAPs Reduces Symptoms in Patients with Irritable Bowel Syndrome and Probiotic Restores Bifidobacterium Species: a Randomized Controlled Trial

    Staudacher, H., Lomer, M., Farquharson, F., Louis, P., Fava, F., Franciosi, E., Scholz, M., Tuohy, K., Lindsay, J. O., Irving, P., Whelan, K.
    Gastroenterology, vol. 153, no. 4, pp. 936-947
    Contributions to Journals: Articles
  • The impact of nutrition on intestinal bacterial communities

    Flint, H. J., Duncan, S. H., Louis, P.
    Current Opinion in Microbiology, vol. 38, pp. 59-65
    Contributions to Journals: Literature Reviews
  • Formation of propionate and butyrate by the human colonic microbiota

    Louis, P., Flint, H. J.
    Environmental Microbiology, vol. 19, no. 1, pp. 29-41
    Contributions to Journals: Literature Reviews
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