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  • Harry Flint
2020

Evaluation of bacterial biomarkers to aid in challenging inflammatory bowel diseases diagnostics and subtype classification

Lopez-Siles, M., Aldeguer, X., Sabat-Mir, M., Serra-Pagès, M., Duncan, S. H., Flint, H. J., Garcia-Gil, L. J. & Martinez-Medina, M., 12 May 2020, In : World Journal of Gastrointestinal Pathophysiology. 11, 3, p. 64-77 14 p.

Research output: Contribution to journalArticle

Open Access
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7 Downloads (Pure)

Nondigestible Carbohydrates Affect Metabolic Health and Gut Microbiota in Overweight Adults after Weight Loss

Johnstone, A. M., Kelly, J., Ryan, S., Romero-Gonzalez, R., McKinnon, H., Fyfe, C., Naslund, E., Lopez-Nicolas, R., Bosscher, D., Bonnema, A., Frontela-Saseta, C., Ros-Berruezo, G., Horgan, G., Ze, X., Harrold, J., Halford, J., Gratz, S. W., Duncan, S. H., Shirazi-Beechey, S. & Flint, H. J., Jul 2020, In : The Journal of Nutrition. 150, 7, p. 1859-1870 12 p.

Research output: Contribution to journalArticle

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., 8 Sep 2020, In : mSystems.

Research output: Contribution to journalArticle

Open Access
Open Access
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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-M., Flint, H. J., Duncan, S. & Louis, P., Jul 2020, In : mBio. 11, 4, 18 p., e00886-20.

Research output: Contribution to journalArticle

Open Access
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11 Downloads (Pure)

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. SR., Flint, H. J. & Louis, P., Jun 2020, In : Environmental Microbiology. 22, 6, p. 2150-2164 15 p.

Research output: Contribution to journalArticle

Open Access
File
1 Citation (Scopus)
1 Downloads (Pure)
2018

Cultivation and sequencing of rumen microbiome members from the Hungate1000 Collection

Seshadri, R., Leahy, S. C., Attwood, G. T., Teh, K. H., Lambie, S. C., Cookson, A. L., Eloe-Fadrosh, E. A., Pavlopoulos, G. A., Hadjithomas, M., Varghese, N. J., Paez-Espino, D., Perry, R., Henderson, G., Creevey, C. J., Terrapon, N., Lapebie, P., Drula, E., Lombard, V., Rubin, E., Kyrpides, N. C. & 31 others, Henrissat, B., Woyke, T., Ivanova, N. N., Kelly, W. J., Palevic, N., Janssen, P. H., Ronimus, R. S., Noel, S., Soni, P., Reilly, K., Atherly, T., Ziemer, C., Wright, A. D., Ishaq, S., Cotta, M., Thompson, S., Crosley, K., McKain, N., Wallace, R. J., Flint, H. J., Martin, J. C., Forster, R. J., Gruninger, R. J., McAllister, T., Gilbert, R., Ouwerkerk, D. J., Gilbert, R., Ouwerkerk, D. J., Klieve, A. J., Jassim, R. A. & Hungate1000 project collaborators, 19 Mar 2018, In : Nature Biotechnology. 36, 4, p. 359-367 9 p.

Research output: Contribution to journalReview article

Open Access
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84 Citations (Scopus)
8 Downloads (Pure)

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-D., Walker, A. W., Farquharson, A. J., Kastora, S., Farquharson, F., Milligan, G., Morrison, D. J., Preston, T., Flint, H. J. & Louis, P., 22 Oct 2018, In : Scientific Reports. 8, 15566.

Research output: Contribution to journalArticle

Open Access
File
8 Citations (Scopus)
5 Downloads (Pure)

Mechanistic insights into the cross-feeding of Ruminococcus gnavus and Ruminococcus bromii on host and dietary carbohydrates

Crost, E. H., Le Gall, G., Laverde-Gomez, J. A., Mukhopadhya, I., Flint, H. J. & Juge, N., 5 Nov 2018, In : Frontiers in Microbiology. 9, 2558.

Research output: Contribution to journalArticle

Open Access
File
17 Citations (Scopus)
6 Downloads (Pure)

microPop: modelling microbial populations and communities in R

Kettle, H., Holtrop, G., Louis, P. G. H. & Flint, H. J., Feb 2018, In : Methods in Ecology and Evolution. 9, 2, p. 399-409 11 p.

Research output: Contribution to journalArticle

Open Access
File
4 Citations (Scopus)
10 Downloads (Pure)

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., 2018, In : The ISME Journal. 12, p. 610-622 13 p.

Research output: Contribution to journalArticle

Open Access
File
45 Citations (Scopus)
13 Downloads (Pure)

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., Jan 2018, In : Environmental Microbiology. 20, p. 324-336 13 p.

Research output: Contribution to journalArticle

Open Access
File
18 Citations (Scopus)
12 Downloads (Pure)
2017

Complexity of the Ruminococcus flavefaciens FD-1 cellulosome reflects an expansion of family-related protein-protein interactions

Israeli-Ruimy, V., Bule, P., Jindou, S., Dassa, B., Moraïs, S., Borovok, I., Barak, Y., Slutzki, M., Hamberg, Y., Cardoso, V., Alves, V. D., Najmudin, S., White, B. A., Flint, H. J., Gilbert, H. J., Lamed, R., Fontes, C. M. G. A. & Bayer, E. A., 10 Feb 2017, In : Scientific Reports. 7, 42355.

Research output: Contribution to journalArticle

Open Access
File
14 Citations (Scopus)
11 Downloads (Pure)

Discovery of a novel lantibiotic nisin O from Blautia obeum A2-162, isolated from the human 2 gastrointestinal tract

Hatziioanou, D., Gherghisan-Filip, C., Saalbach, G., Horn, N., Wegmann, U., Duncan, S. H., Flint, H. J., Mayer, M. J. & Narbad, A., 1 Sep 2017, In : Microbiology . 163, 9, p. 1292-1305 14 p.

Research output: Contribution to journalArticle

Open Access
File
15 Citations (Scopus)
5 Downloads (Pure)

Formation of propionate and butyrate by the human colonic microbiota

Louis, P. & Flint, H. J., Jan 2017, In : Environmental Microbiology. 19, 1, p. 29-41 13 p.

Research output: Contribution to journalLiterature review

Open Access
File
300 Citations (Scopus)
10 Downloads (Pure)

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., 1 Nov 2017, In : FEMS Microbiology Ecology. 93, 11, p. 1-9 9 p., fix127.

Research output: Contribution to journalArticle

Open Access
File
59 Citations (Scopus)
10 Downloads (Pure)

The impact of nutrition on intestinal bacterial communities

Flint, H. J., Duncan, S. H. & Louis, P., Aug 2017, In : Current Opinion in Microbiology. 38, p. 59-65 7 p.

Research output: Contribution to journalLiterature review

43 Citations (Scopus)

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-E., 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. & 38 others, 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., 2017, In : Nature Biotechnology. 35, p. 1069–1076 8 p.

Research output: Contribution to journalArticle

164 Citations (Scopus)
2016

Challenges in microbial ecology: building predictive understanding of community function and dynamics

Widder, S., Allen, R. J., Pfeiffer, T., Curtis, T. P., Wiuf, C., Sloan, W. T., Cordero, O. X., Brown, S. P., Momeni, B., Shou, W., Kettle, H., Flint, H. J., Haas, A. F., Laroche, B., Kreft, J-U., Rainey, P. B., Freilich, S., Schuster, S., Milferstedt, K., van der Meer, J. R. & 11 others, Groszkopf, T., Huisman, J., Free, A., Picioreanu, C., Quince, C., Klapper, I., Labarthe, S., Smets, B. F., Wang, H., Soyer, O. S. & Isaac Newton Institute Fellows, Nov 2016, In : The ISME Journal. 10, 11, p. 2557-2568 12 p.

Research output: Contribution to journalArticle

Open Access
File
241 Citations (Scopus)
6 Downloads (Pure)

Changes in the Abundance of Faecalibacterium prausnitzii Phylogroups I and II in the Intestinal Mucosa of Inflammatory Bowel Disease and Patients with Colorectal Cancer

Lopez-Siles, M., Martinez-Medina, M., Surís-Valls, R., Aldeguer, X., Sabat-Mir, M., Duncan, S. H., Flint, H. J. & Garcia-Gil, L. J., Jan 2016, In : Inflammatory Bowel Diseases. 22, 1, p. 28-41 14 p.

Research output: Contribution to journalArticle

35 Citations (Scopus)

Comparative metabolomics in vegans and omnivores reveal constraints on diet-dependent gut microbiota metabolite production

Wu, G. D., Compher, C., Chen, E. Z., Smith, S. A., Shah, R. D., Bittinger, K., Chehoud, C., Albenberg, L. G., Nessel, L., Gilroy, E., Star, J., Weljie, A. M., Flint, H. J., Metz, D. C., Bennett, M. J., Li, H., Bushman, F. D. & Lewis, J. D., Jan 2016, In : Gut. 65, 1, p. 63-72 10 p.

Research output: Contribution to journalArticle

Open Access
200 Citations (Scopus)
1 Citation (Scopus)

Enzymatic profiling of cellulosomal enzymes from the human gut bacterium, Ruminococcus champanellensis, reveals a fine-tuned system for cohesin-dockerin recognition

Morais, S., David, Y. B., Bensoussan, L., Duncan, S. H., Koropatkin, N. M., Martens, E. C., Flint, H. J. & Bayer, E. A., Feb 2016, In : Environmental Microbiology. 18, 2, p. 542-556 15 p.

Research output: Contribution to journalArticle

Open Access
File
26 Citations (Scopus)
6 Downloads (Pure)

Faecalibacterium prausnitzii A2-165 has a high capacity to induce IL-10 in human and murine dendritic cells and modulates T cell responses

Rossi, O., van Berkel, L. A., Chain, F., Tanweer Khan, M., Taverne, N., Sokol, H., Duncan, S. H., Flint, H. J., Harmsen, H. J. M., Langella, P., Samsom, J. N. & Wells, J. M., Jan 2016, In : Scientific Reports. 6, p. 1-12 12 p., 18507.

Research output: Contribution to journalArticle

Open Access
File
79 Citations (Scopus)
6 Downloads (Pure)

Gut microbial metabolites in health and disease

Flint, H. J., 2016, In : Gut Microbes. 7, 3, p. 187-188 2 p.

Research output: Contribution to journalEditorial

6 Citations (Scopus)

How to Manipulate the Microbiota: Prebiotics

Louis, P., Flint, H. J. & Michel, C., 2016, Microbiota of the Human Body: Implications in Health and Disease. Schwiertz, A. (ed.). Switzerland: Springer , p. 119-142 24 p. ( Advances in Experimental Medicine and Biology; vol. 902).

Research output: Chapter in Book/Report/Conference proceedingChapter

27 Citations (Scopus)

Lysozyme activity of the Ruminococcus champanellensis cellulosome

Moraïs, S., Cockburn, D. W., Ben-David, Y., Koropatkin, N. M., Martens, E. C., Duncan, S. H., Flint, H. J., Mizrahi, I. & Bayer, E. A., Dec 2016, In : Environmental Microbiology. 18, 12, p. 5112–5122 11 p.

Research output: Contribution to journalArticle

7 Citations (Scopus)

Modulation of the human gut microbiota by dietary fibres occurs at the species level

Chung, W. S. F., Walker, A. W., Louis, P., Parkhill, J., Vermeiren, J., Bosscher, D., Duncan, S. H. & Flint, H. J., 11 Jan 2016, In : BMC Biology. 14, 3.

Research output: Contribution to journalArticle

Open Access
File
132 Citations (Scopus)
7 Downloads (Pure)

Oral treatment with Eubacterium hallii improves insulin sensitivity in db/db mice

Udayappan, S., Manneras-Holm, L., Chaplin-Scott, A., Belzer, C., Herrema, H., Dallinga-Thie, G. M., Stroes, E. S. G., Groen, A. K., Flint, H. J., Backhed, F., de Vos, W. M., Nieuwdorp, M. & Duncan, S. H., 6 Jul 2016, In : NPJ biofilms and microbiomes. 2, 16009.

Research output: Contribution to journalArticle

Open Access
File
48 Citations (Scopus)
5 Downloads (Pure)

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

Sheridan, P. O., 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., 9 Feb 2016, In : Microbial Genomics. 2, 2, p. 1-16 16 p., 43.

Research output: Contribution to journalArticle

Open Access
File
62 Citations (Scopus)
7 Downloads (Pure)

Wheat bran promotes enrichment within the human colonic microbiota of butyrate-producing bacteria that release ferulic acid

Duncan, S. H., Russell, W. R., Quartieri, A., Rossi, M., Parkhill, J., Walker, A. W. & Flint, H. J., 8 Jul 2016, In : Environmental Microbiology. 18, 7, p. 2214-2225 12 p.

Research output: Contribution to journalArticle

Open Access
File
51 Citations (Scopus)
5 Downloads (Pure)