• 7138 Citations
20052020

Research output per year

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Research Output

2020

Application of the Dynamic Gastrointestinal Simulator (simgi®) to assess the impact of probiotic supplementation in the metabolism of grape polyphenols

Gil-Sánchez, I., Cueva, C., Tamargo, A., Quintela, J. C., de la Fuente, E., Walker, A. W., Moreno-Arribas, M. V. & Bartolomé, B., Mar 2020, In : Food Research International. 129, 108790.

Research output: Contribution to journalArticle

Lung function and microbiota diversity in cystic fibrosis

Cuthbertson, L., Walker, A. W., Oliver, A. E., Rogers, G. B., Rivett, D. W., Hampton, T. H., Ashare, A., Elborn, S., De Soyza, A., Carroll, M., Hoffman, L. R., Lanyon, C., Moskowitz, S., O'Toole, G., Parkhill, J., Planet, P. J., Teneback, C., Tunney, M., Zuckerman, J., Bruce, K. D. & 1 others, van der Gast, C., 2 Apr 2020, In : Microbiome. 8, 45.

Research output: Contribution to journalArticle

Open Access
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1 Downloads (Pure)
Open Access
2019

A Lot on Your Plate? Well-to-Well Contamination as an Additional Confounder in Microbiome Sequence Analyses

Walker, A. W., 31 Jul 2019, In : mSystems. 4, 4, 3 p., e00362-19.

Research output: Contribution to journalComment/debate

Open Access
File
2 Citations (Scopus)
1 Downloads (Pure)

Colitis susceptibility in mice with reactive oxygen species deficiency is mediated by mucus barrier and immune defense defects

Aviello, G., Singh, A. K., O’Neill, S., Conroy, E., Gallagher, W., D’Agostino, G., Walker, A. W., Bourke, B., Scholz, D. & Knaus, U. G., Nov 2019, In : Mucosal Immunology. 12, p. 1316-1326 11 p.

Research output: Contribution to journalArticle

1 Citation (Scopus)

Compendium of 4,941 rumen metagenome-assembled genomes for rumen microbiome biology and enzyme discovery

Stewart, R. D., Auffret, M. D., Warr, A., Walker, A. W., Roehe, R. & Watson, M., Aug 2019, In : Nature Biotechnology. 37, p. 953–961 9 p.

Research output: Contribution to journalArticle

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

Food additives: Assessing the impact of exposure to permitted emulsifiers on bowel and metabolic health – introducing the FADiets study

Partridge, D., Lloyd, K. A., Rhodes, J. M., Walker, A. W., Johnstone, A. M. & Campbell, B. J., 1 Dec 2019, In : Nutrition Bulletin. 44, 4, p. 329-349 21 p.

Research output: Contribution to journalArticle

Open Access
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1 Downloads (Pure)

Identification of Rumen Microbial Genes Involved in Pathways Linked to Appetite, Growth, and Feed Conversion Efficiency in Cattle

Lima, J., Auffret, M. D., Stewart, R. D., Dewhurst, R. J., Duthie, C-A., Snelling, T. J., Walker, A. W., Freeman, T. C., Watson, M. & Roehe, R., 8 Aug 2019, In : Frontiers in Genetics. 10, 701.

Research output: Contribution to journalArticle

Open Access
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1 Downloads (Pure)

Impact of carbohydrate substrate complexity on the diversity of the human colonic microbiota

Chung, W. S. F., Walker, A. W., Vermeiren, J., Sheridan, P. O., Bosscher, D., Garcia-Campayo, V., Parkhill, J., Flint, H. J. & Duncan, S. H., 1 Jan 2019, In : FEMS Microbiology Ecology. 95, 1, fiy201.

Research output: Contribution to journalArticle

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

Temporal stability of the rumen microbiota in beef cattle, and response to diet and supplements

Snelling, T. J., Auffret, M. D., Duthie, C-A., Stewart, R. D., Watson, M., Dewhurst, R. J., Roehe, R. & Walker, A. W., 19 Nov 2019, In : Animal Microbiome. 1, 1, 14 p., 16.

Research output: Contribution to journalArticle

Open Access
File
1 Downloads (Pure)
2018

Assembly of 913 microbial genomes from metagenomic sequencing of the cow rumen

Stewart, R. D., Auffret, M. D., Warr, A., Wiser, A. H., Press, M. O., Langford, K. W., Liachko, I., Snelling, T. J., Dewhurst, R. J., Walker, A. W., Roehe, R. & Watson, M., 28 Feb 2018, In : Nature Communications. 9, p. 1-11 11 p., 870.

Research output: Contribution to journalArticle

Open Access
File
84 Citations (Scopus)
14 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
5 Citations (Scopus)
4 Downloads (Pure)
Open Access
File
10 Citations (Scopus)
6 Downloads (Pure)

Gut microbiota trajectory in early life may predict development of celiac disease

Olivares, M., Walker, A. W., Capilla, A., Benitez-Paez, A., Palau, F., Parkhill, J., Castillejo, G. & Sanz, Y., 20 Feb 2018, In : Microbiome. 6, 36.

Research output: Contribution to journalArticle

Open Access
File
26 Citations (Scopus)
10 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
15 Citations (Scopus)
11 Downloads (Pure)

Studying the microbiome and its complexities: an interview with Alan Walker

Walker, A. W., 1 Nov 2018, In : BMC Biology. 16, 1, 2 p., 134.

Research output: Contribution to journalArticle

Open Access
File
4 Downloads (Pure)

The Impact of NOD2 Variants on Fecal Microbiota in Crohn’s Disease and Controls Without Gastrointestinal Disease

Kennedy, N. A., Lamb, C. A., Berry, S. H., Walker, A. W., Mansfield, J., Parkes, M., Simpkins, R., Tremelling, M., Nutland, S., UK IBD Genetics Consortium, Parkhill, J., Probert, C., Hold, G. L. & Lees, C. W., Mar 2018, In : Inflammatory Bowel Diseases. 24, 3, p. 583-592 10 p.

Research output: Contribution to journalArticle

Open Access
File
11 Citations (Scopus)
6 Downloads (Pure)
2017

A non-endoscopic device to sample the oesophageal microbiota: a case-control study

Elliott, D. R. F., Walker, A. W., O’Donovan, M., Parkhill, J. & Fitzgerald, R. C., Jan 2017, In : The Lancet Gastroenterology & Hepatology. 2, 1, p. 32-42 11 p.

Research output: Contribution to journalArticle

Open Access
File
24 Citations (Scopus)
9 Downloads (Pure)

Bacterial microbiota of the upper respiratory tract and childhood asthma

Depner, M., Ege, M. J., Cox, M. J., Dwyer, S., Walker, A. W., Birzele, L. T., Genuneit, J., Horak, E., Braun-Fahrländer, C., Danielewicz, H., Maier, R. M., Moffatt, M. F., Cookson, W. O., Heederik, D., von Mutius, E. & Legatzki, A., 1 Mar 2017, In : Journal of Allergy and Clinical Immunology. 139, 3, p. 826–834 9 p.

Research output: Contribution to journalArticle

67 Citations (Scopus)

Dietary Uncoupling of Gut Microbiota and Energy Harvesting from Obesity and Glucose Tolerance in Mice

Dalby, M. J., Ross, A. W., Walker, A. W. & Morgan, P. J., 7 Nov 2017, In : Cell Reports. 21, 6, p. 1521-1533 13 p.

Research output: Contribution to journalArticle

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

Shotgun metagenomics, from sampling to analysis

Quince, C., Walker, A. W., Simpson, J. T., Loman, N. J. & Segata, N., 12 Sep 2017, In : Nature Biotechnology. 35, 9, p. 833-844 12 p.

Research output: Contribution to journalArticle

Open Access
File
178 Citations (Scopus)
44 Downloads (Pure)

TPL-2 restricts Ccl24-dependent immunity to Heligmosomoides polygyrus

Kannan, Y., Entwistle, L. J., Pelly, V. S., Perez-Lloret, J., Walker, A. W., Ley, S. C. & Wilson, M. S., 31 Jul 2017, In : PLoS Pathogens. 13, 7, 21 p., e1006536.

Research output: Contribution to journalArticle

Open Access
File
1 Citation (Scopus)
4 Downloads (Pure)
2016

Assessment of the influence of intrinsic environmental and geographical factors on the bacterial ecology of pit latrines

Torondel, B., Ensink, J. H. J., Gundogdu, O., Ijaz, U. Z., Parkhill, J., Abdelahi, F., Nguyen, V-A., Sudgen, S., Gibson, W., Walker, A. W. & Quince, C., Mar 2016, In : Microbial Biotechnology. 9, 2, p. 209-223 15 p.

Research output: Contribution to journalArticle

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

Chemokine (C-C Motif) Receptor 2 Mediates Dendritic Cell Recruitment to the Human Colon but Is Not Responsible for Differences Observed in Dendritic Cell Subsets, Phenotype, and Function Between the Proximal and Distal Colon

Bernardo, D., Durant, L., Mann, E. R., Bassity, E., Montalvillo, E., Man, R., Vora, R., Reddi, D., Bayiroglu, F., Fernández-Salazar, L., English, N. R., Peake, S. T. C., Landy, J., Lee, G. H., Malietzis, G., Siaw, Y. H., Murugananthan, A. U., Hendy, P., Sánchez-Recio, E., Phillips, R. K. S. & 10 others, Garrote, J. A., Scott, P., Parkhill, J., Paulsen, M., Hart, A. L., Al-Hassi, H. O., Arranz, E., Walker, A. W., Carding, S. R. & Knight, S. C., Jan 2016, In : CMGH Cellular and Molecular Gastroenterology and Hepatology. 2, 1, p. 22-39.e5 23 p.

Research output: Contribution to journalArticle

Open Access
File
15 Citations (Scopus)
6 Downloads (Pure)
1 Citation (Scopus)

Individual-specific changes in the human gut microbiota after challenge with enterotoxigenic Escherichia coli and subsequent ciprofloxacin treatment

Pop, M., Paulson, J. N., Chakraborty, S., Astrovskaya, I., Lindsay, B. R., Li, S., Corrada Bravo, H., Harro, C., Parkhill, J., Walker, A. W., Walker, R. I., Sack, D. A. & Stine, O. C., 8 Jun 2016, In : BMC Genomics. 17, p. 1-11 11 p., 440.

Research output: Contribution to journalArticle

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

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
120 Citations (Scopus)
6 Downloads (Pure)

Respiratory microbiota resistance and resilience to pulmonary exacerbation and subsequent antimicrobial intervention

Cuthbertson, L., Rogers, G. B., Walker, A. W., Oliver, A., Green, L. E., Daniels, T. W. V., Carroll, M. P., Parkhill, J., Bruce, K. D. & van der Gast, C. J., May 2016, In : The ISME Journal. 10, 5, p. 1081-1091 11 p.

Research output: Contribution to journalArticle

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

Studying the human microbiota

Walker, A. W., Jun 2016, Microbiota of the Human Body: Implications in Health and Disease. Schwiertz, A. (ed.). Switzerland: Springer International Publishing, p. 5-32 28 p. (Advances in Experimental Medicine and Biology; vol. 902).

Research output: Chapter in Book/Report/Conference proceedingChapter

12 Citations (Scopus)

The Ecological Dynamics of Fecal Contamination and Salmonella Typhi and Salmonella Paratyphi A in Municipal Kathmandu Drinking Water

Karkey, A., Jombart, T., Walker, A. W., Thompson, C. N., Torres, A., Dongol, S., Tran Vu Thieu, N., Pham Thanh, D., Tran Thi Ngoc, D., Voong Vinh, P., Singer, A. C., Parkhill, J., Thwaites, G., Basnyat, B., Ferguson, N. & Baker, S., 6 Jan 2016, In : PLoS Neglected Tropical Diseases. 10, 1, p. 1-18 18 p., e0004346.

Research output: Contribution to journalArticle

Open Access
File
30 Citations (Scopus)
8 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
45 Citations (Scopus)
4 Downloads (Pure)
2015

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., 22 Jun 2015, In : Microbiome. 3, 26.

Research output: Contribution to journalArticle

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

ARK: Aggregation of Reads by K-Means for Estimation of Bacterial Community Composition

Koslicki, D., Chatterjee, S., Shahrivar, D., Walker, A. W., Francis, S. C., Fraser, L. J., Vehkaperä, M., Lan, Y. & Corander, J., 23 Oct 2015, In : PloS ONE. 10, 10, e0140644.

Research output: Contribution to journalArticle

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

Implications of multiple freeze-thawing on respiratory samples for culture-independent analyses

Cuthbertson, L., Rogers, G. B., Walker, A. W., Oliver, A., Hoffman, L. R., Carroll, M. P., Parkhill, J., Bruce, K. D. & van der Gast, C. J., Jul 2015, In : Journal of cystic fibrosis : official journal of the European Cystic Fibrosis Society. 14, 4, p. 464-467 4 p.

Research output: Contribution to journalArticle

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

Interleukin 6 Increases Production of Cytokines by Colonic Innate Lymphoid Cells in Mice and Patients With Chronic Intestinal Inflammation

Powell, N., Lo, J. W., Biancheri, P., Vossenkämper, A., Pantazi, E., Walker, A. W., Stolarczyk, E., Ammoscato, F., Goldberg, R., Scott, P., Canavan, J. B., Perucha, E., Garrido-Mesa, N., Irving, P. M., Sanderson, J. D., Hayee, B., Howard, J. K., Parkhill, J., MacDonald, T. T. & Lord, G. M., Aug 2015, In : Gastroenterology. 149, 2, p. 456-467 12 p.

Research output: Contribution to journalArticle

Open Access
File
38 Citations (Scopus)
325 Downloads (Pure)

Microbiota that affect risk for shigellosis in children in low-income countries

Lindsay, B., Oundo, J., Hossain, M. A., Antonio, M., Tamboura, B., Walker, A. W., Paulson, J. N., Parkhill, J., Omore, R., Faruque, A. S. G., Das, S. K., Ikumapayi, U. N., Adeyemi, M., Sanogo, D., Saha, D., Sow, S., Farag, T. H., Nasrin, D., Li, S., Panchalingam, S. & 8 others, Levine, M. M., Kotloff, K., Magder, L. S., Hungerford, L., Sommerfelt, H., Pop, M., Nataro, J. P. & Stine, O. C., Feb 2015, In : Emerging Infectious Diseases. 21, 2, p. 242-250 9 p.

Research output: Contribution to journalArticle

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

The Intestinal Microbiota Contributes to the Ability of Helminths to Modulate Allergic Inflammation

Zaiss, M. M., Rapin, A., Lebon, L., Dubey, L. K., Mosconi, I., Sarter, K., Piersigilli, A., Menin, L., Walker, A. W., Rougemont, J., Paerewijck, O., Geldhof, P., McCoy, K. D., Macpherson, A. J., Croese, J., Giacomin, P. R., Loukas, A., Junt, T., Marsland, B. J. & Harris, N. L., 17 Nov 2015, In : Immunity. 43, 5, p. 998-1010 13 p.

Research output: Contribution to journalArticle

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

TLR Signaling Modulates Side Effects of Anticancer Therapy in the Small Intestine

Frank, M., Hennenberg, E. M., Eyking, A., Rünzi, M., Gerken, G., Scott, P., Parkhill, J., Walker, A. W. & Cario, E., 15 Feb 2015, In : The Journal of Immunology. 194, 4, p. 1983-1995 13 p.

Research output: Contribution to journalArticle

45 Citations (Scopus)

Variable alterations of the microbiota, without metabolic or immunological change, following faecal microbiota transplantation in patients with chronic pouchitis

Landy, J., Walker, A. W., Li, J. V., Al-Hassi, H. O., Ronde, E., English, N. R., Mann, E. R., Bernardo, D., McLaughlin, S. D., Parkhill, J., Ciclitira, P. J., Clark, S. K., Knight, S. C. & Hart, A. L., 12 Aug 2015, In : Scientific Reports. 5, 10 p., 12955.

Research output: Contribution to journalArticle

Open Access
File
33 Citations (Scopus)
29 Downloads (Pure)

Whole Genome Amplification of Single Bacterial Cells

Scott, P. & Walker, A. W., 21 Nov 2015, Hydrocarbon and Lipid Microbiology Protocols: Isolation and Cultivation. McGenity, T. J., Timmis, K. N. & Nogales Fernández, B. (eds.). Humana Press, p. 29-41 13 p. (Springer Protocols Handbooks).

Research output: Chapter in Book/Report/Conference proceedingChapter

2014

Adding genomic 'foliage' to the tree of life

Walker, A., Feb 2014, In : Nature Reviews Microbiology. 12, 2, 78.

Research output: Contribution to journalArticle

8 Citations (Scopus)

Diarrhea in young children from low-income countries leads to large-scale alterations in intestinal microbiota composition

Pop, M., Walker, A. W., Paulson, J., Lindsay, B., Antonio, M., Hossain, M. A., Oundo, J., Tamboura, B., Mai, V., Astrovskaya, I., Bravo, H., Rance, R., Stares, M., Levine, M. M., Panchalingam, S., Kotloff, K., Ikumapayi, U. N., Ebruke, C., Adeyemi, M., Ahmed, D. & 15 others, Ahmed, F., Alam, M., Amin, R., Siddiqui, S., Ochieng, J. B., Ouma, E., Juma, J., Mailu, E., Omore, R., Morris, J. G., Breiman, R. F., Saha, D., Parkhill, J., Nataro, J. P. & Stine, O. C., 27 Jun 2014, In : Genome Biology. 15, 6, R76.

Research output: Contribution to journalArticle

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

Phylogeny, culturing, and metagenomics of the human gut microbiota

Walker, A. W., Duncan, S. H., Louis, P. & Flint, H. J., May 2014, In : Trends in Microbiology. 22, 5, p. 267-274 8 p.

Research output: Contribution to journalLiterature review

86 Citations (Scopus)

Reagent and laboratory contamination can critically impact sequence-based microbiome analyses

Salter, S. J., Cox, M. J., Turek, E. M., Calus, S. T., Cookson, W. O., Moffatt, M. F., Turner, P., Parkhill, J., Loman, N. J. & Walker, A. W., 12 Nov 2014, In : BMC Biology. 12, 1, 87.

Research output: Contribution to journalArticle

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

The human microbiota and pathogen interactions

Walker, A. W., 15 Oct 2014, Molecular Medical Microbiology. Tang, Y-W., Sussman, M., Liu, D., Poxton, I. & Schwartzman, J. (eds.). 2 ed. Academic Press, Vol. 1. p. 347-356 10 p. 19

Research output: Chapter in Book/Report/Conference proceedingChapter

1 Citation (Scopus)

The impact of different DNA extraction kits and laboratories upon the assessment of human gut microbiota composition by 16S rRNA gene sequencing

Kennedy, N. A., Walker, A. W., Berry, S. H., Duncan, S. H., Farquarson, F. M., Louis, P., Thomson, J. M., Satsangi, J., Flint, H. J., Parkhill, J., Lees, C. W., Hold, G. L. & UK IBD Genetics Consortium, 24 Feb 2014, In : PloS ONE. 9, 2, e88982.

Research output: Contribution to journalArticle

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

Time between Collection and Storage Significantly Influences Bacterial Sequence Composition in Sputum Samples from Cystic Fibrosis Respiratory Infections

Cuthbertson, L., Rogers, G. B., Walker, A. W., Oliver, A., Hafiz, T., Hoffman, L. R., Carroll, M. P., Parkhill, J., Bruce, K. D. & van der Gast, C. J., Aug 2014, In : Journal of Clinical Microbiology. 52, 8, p. 3011-3016 6 p.

Research output: Contribution to journalArticle

Open Access
File
21 Citations (Scopus)
4 Downloads (Pure)
2013

Deep-sea striving

Walker, A., Jun 2013, In : Nature Reviews Microbiology. 11, 6, 364.

Research output: Contribution to journalArticle

Enhanced susceptibility to Citrobacter rodentium infection in microRNA-155-deficient mice

Clare, S., John, V., Walker, A. W., Hill, J. L., Abreu-Goodger, C., Hale, C., Goulding, D., Lawley, T. D., Mastroeni, P., Frankel, G., Enright, A. J., Vigorito, E. & Dougan, G., Mar 2013, In : Infection and Immunity. 81, 3, p. 723-732 10 p.

Research output: Contribution to journalArticle

24 Citations (Scopus)