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Research Output 2005 2019

83 Citations (Scopus)
5 Downloads (Pure)

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
Bifidobacterium
rRNA Genes
Polymerase Chain Reaction
Feces
DNA
53 Citations (Scopus)
4 Downloads (Pure)

A common genomic framework for a diverse assembly of plasmids in the symbiotic nitrogen fixing bacteria

Crossman, L. C., Castillo-Ramírez, S., McAnnula, C., Lozano, L., Vernikos, G. S., Acosta, J. L., Ghazoui, Z. F., Hernández-González, I., Meakin, G., Walker, A. W., Hynes, M. F., Young, J. P. W., Downie, J. A., Romero, D., Johnston, A. W. B., Dávila, G., Parkhill, J. & González, V., 2 Jul 2008, In : PloS ONE. 3, 7, p. e2567 9 p.

Research output: Contribution to journalArticle

Open Access
File
nitrogen-fixing bacteria
Bacteria
plasmids
Plasmids
Nitrogen
8 Citations (Scopus)

Adding genomic 'foliage' to the tree of life

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

Research output: Contribution to journalArticle

Metagenomics
Ribosomal RNA
Surveys and Questionnaires
8 Citations (Scopus)

A glut from the gut: metagenomics takes a giant step foward

Walker, A., May 2010, In : Nature Reviews Microbiology. 8, 5, p. 315 1 p.

Research output: Contribution to journalArticle

Metagenomics
Genome
Bacteria

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
Microbiota
Biomass
Sequence Analysis
Decontamination
Artifacts
16 Citations (Scopus)
7 Downloads (Pure)

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
Microbiota
Case-Control Studies
Adenocarcinoma
Equipment and Supplies
Barrett Esophagus
199 Citations (Scopus)

Antibiotic treatment of Clostridium difficile carrier mice triggers a supershedder state, spore-mediated transmission, and severe disease in immunocompromised hosts

Lawley, T. D., Clare, S., Walker, A. W., Goulding, D., Stabler, R. A., Croucher, N., Mastroeni, P., Scott, P., Raisen, C., Mottram, L., Fairweather, N. F., Wren, B. W., Parkhill, J. & Dougan, G., Sep 2009, In : Infection and Immunity. 77, 9, p. 3661-3669 9 p.

Research output: Contribution to journalArticle

Clostridium difficile
Immunocompromised Host
Spores
Anti-Bacterial Agents
Clostridium Infections
2 Citations (Scopus)
3 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
bacterial communities
Agglomeration
Chemical analysis
Cluster Analysis
Compressed sensing
43 Citations (Scopus)
13 Downloads (Pure)

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
Microbial Genome
Metagenomics
sequencing
genome
Rumen
8 Citations (Scopus)
4 Downloads (Pure)

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
Toilet Facilities
Ecology
Chemical analysis
Decomposition
Sanitation
51 Citations (Scopus)

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

Microbiota
Moraxella
Respiratory System
Asthma
Nose
19 Citations (Scopus)
3 Downloads (Pure)

Bayesian estimation of bacterial community composition from 454 sequencing data

Cheng, L., Walker, A. W. & Corander, J., Jul 2012, In : Nucleic Acids Research. 40, 12, p. 5240-5249 10 p.

Research output: Contribution to journalArticle

Open Access
File
Cluster Analysis
Statistical Models
rRNA Genes
Polymerase Chain Reaction
14 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 othersGarrote, 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
CCR Receptors
Dendritic Cells
Colon
Phenotype
Microbiota
34 Citations (Scopus)
4 Downloads (Pure)

Comparing the microbiota of the cystic fibrosis lung and human gut

Rogers, G. B., Carroll, M. P., Hoffman, L. R., Walker, A. W., Fine, D. A. & Bruce, K. D., 1 May 2010, In : Gut Microbes. 1, 2, p. 85-93 9 p.

Research output: Contribution to journalLiterature review

Open Access
File
Microbiota
Cystic Fibrosis
Lung
Infection
Microbiology
1 Downloads (Pure)

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., 2 Aug 2019, In : Nature Biotechnology. 37, p. 953–961 9 p.

Research output: Contribution to journalArticle

Open Access
File
Metagenome
Microbiota
Rumen
Enzymes
Genes

Deep-sea striving

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

Research output: Contribution to journalArticle

82 Citations (Scopus)
4 Downloads (Pure)

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 othersAhmed, 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
intestinal microorganisms
Diarrhea
diarrhea
income
Microbiota
2 Citations (Scopus)
2 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
Inulin
Cecum
Dietary Fiber
Obesity
Esters
31 Citations (Scopus)
6 Downloads (Pure)

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
Energy harvesting
High Fat Diet
Nutrition
Obesity
Diet
4 Citations (Scopus)
5 Downloads (Pure)
Open Access
File
Endotoxemia
Acute-Phase Proteins
High Fat Diet
Obesity
Diet
4 Citations (Scopus)

Does my genome look big in this?

Walker, A. & Langridge, G., Dec 2008, In : Nature Reviews Microbiology. 6, 12, p. 878-879 2 p.

Research output: Contribution to journalArticle

Genome
677 Citations (Scopus)

Dominant and diet-responsive groups of bacteria within the human colonic microbiota

Walker, A. W., Ince, J., Duncan, S. H., Webster, L., Holtrop, G., Ze, X., Brown, D., Stares, M. D., Scott, P., Bergerat, A., Louis, P., McIntosh, F., Johnstone, A. M., Lobley, G. E., Parkhill, J. & Flint, H. J., Feb 2011, In : The ISME Journal. 5, 2, p. 220-230 11 p.

Research output: Contribution to journalArticle

1 Citation (Scopus)
23 Citations (Scopus)

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

Citrobacter rodentium
MicroRNAs
Infection
Germinal Center
Humoral Immunity
11 Citations (Scopus)

Faecal matters

Walker, A., Cerdeño-Tárraga, A. & Bentley, S., Aug 2006, In : Nature Reviews Microbiology. 4, 8, p. 572-3 2 p.

Research output: Contribution to journalArticle

11 Citations (Scopus)

Fibrinogen-binding and platelet-aggregation activities of a Lactobacillus salivarius septicaemia isolate are mediated by a novel fibrinogen-binding protein

Collins, J., van Pijkeren, J-P., Svensson, L., Claesson, M. J., Sturme, M., Li, Y., Cooney, J. C., van Sinderen, D., Walker, A. W., Parkhill, J., Shannon, O. & O'Toole, P. W., Sep 2012, In : Molecular Microbiology. 85, 5, p. 862-877 16 p.

Research output: Contribution to journalArticle

Platelet Aggregation
Fibrinogen
Sepsis
Carrier Proteins
Probiotics
34 Citations (Scopus)

Fighting obesity with bacteria

Walker, A. W. & Parkhill, J., 6 Sep 2013, In : Science. 341, 6150, p. 1069-1070 2 p.

Research output: Contribution to journalArticle

158 Citations (Scopus)

Gut inflammation can boost horizontal gene transfer between pathogenic and commensal Enterobacteriaceae

Stecher, B., Denzler, R., Maier, L., Bernet, F., Sanders, M. J., Pickard, D. J., Barthel, M., Westendorf, A. M., Krogfelt, K. A., Walker, A. W., Ackermann, M., Dobrindt, U., Thomson, N. R. & Hardt, W-D., 24 Jan 2012, In : PNAS. 109, 4, p. 1269-1274 6 p.

Research output: Contribution to journalArticle

Horizontal Gene Transfer
Enterobacteriaceae
Inflammation
Foster Home Care
Bacteriocin Plasmids
5 Citations (Scopus)

Gut metagenomics goes viral

Walker, A., Dec 2010, In : Nature Reviews Microbiology. 8, 12, p. 841 1 p.

Research output: Contribution to journalArticle

Metagenomics
Bacteriology
Genome
Viruses
Research
17 Citations (Scopus)
9 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
Celiac Disease
Microbiota
Gastrointestinal Microbiome
Bifidobacterium
Enterococcus
317 Citations (Scopus)
4 Downloads (Pure)

High-throughput clone library analysis of the mucosa-associated microbiota reveals dysbiosis and differences between inflamed and non-inflamed regions of the intestine in inflammatory bowel disease

Walker, A. W., Sanderson, J. D., Churcher, C., Parkes, G. C., Hudspith, B. N., Rayment, N., Brostoff, J., Parkhill, J., Dougan, G. & Petrovska, L., 10 Jan 2011, In : BioMed Central Microbiology. 11, 12 p., 7.

Research output: Contribution to journalArticle

Open Access
File
Dysbiosis
Microbiota
Inflammatory Bowel Diseases
Crohn Disease
Intestines

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
File
Microbial Genes
Rumen
Appetite
Microbiota
Growth

Ileal pouch microbial diversity

McLaughlin, S. D., Walker, A. W., Churcher, C., Clark, S. K., Tekkis, P. P., Johnson, M. W., Parkhill, J., Ciclitira, P. J., Dougan, G., Nicholls, R. J. & Petrovska, L., Oct 2011, In : Annals of Surgery. 254, 4, p. 669-670 2 p.

Research output: Contribution to journalLetter

2 Citations (Scopus)

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
Inulin
Microbiota
carbohydrate
Carbohydrates
Bioreactors
14 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
Sputum
Microbiota
rRNA Genes
Practice Guidelines
Cystic Fibrosis
14 Citations (Scopus)
5 Downloads (Pure)

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
Enterotoxigenic Escherichia coli
Ciprofloxacin
Diarrhea
Microbiota
16S Ribosomal RNA
30 Citations (Scopus)
324 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
Interleukin-6
Lymphocytes
Cytokines
Inflammation
Colon
190 Citations (Scopus)

Intestinal colonization resistance

Lawley, T. D. & Walker, A. W., Jan 2013, In : Immunology. 138, 1, p. 1-11 11 p.

Research output: Contribution to journalLiterature review

Microbiota
Ecosystem
Anti-Bacterial Agents
Inflammation
Volatile Fatty Acids
1 Citation (Scopus)

Intestinal Microbiology and Ecology in Inflammatory Bowel Disease

Walker, A. W., 24 Jan 2012, Crohn's Disease and Ulcerative Colitis. Baumgart, D. C. (ed.). Springer Science+Business Media, p. 85-95 11 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Microbiota
Microbiology
Ecology
Inflammatory Bowel Diseases
Human Body

It's hip to be square!

Crossman, L. C. & Walker, A., Jun 2007, In : Nature Reviews Microbiology. 5, 6, p. 400-401 2 p.

Research output: Contribution to journalArticle

29 Citations (Scopus)

Lung infections in cystic fibrosis: deriving clinical insight from microbial complexity

Rogers, G. B., Stressmann, F. A., Walker, A. W., Carroll, M. P. & Bruce, K. D., Mar 2010, In : Expert Review of Molecular Diagnostics. 10, 2, p. 187-196 10 p.

Research output: Contribution to journalLiterature review

Cystic Fibrosis
Lung
Infection
Coinfection
Bacterial Infections
11 Citations (Scopus)
4 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 othersLevine, 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
Bacillary Dysentery
Shigella
Microbiota
Diarrhea
Lactobacillus
4 Citations (Scopus)

Milk and two oligosaccharides

Walker, A., Jul 2009, In : Nature Reviews Microbiology. 7, 7, p. 483 1 p.

Research output: Contribution to journalArticle

Oligosaccharides
Milk
Genome
97 Citations (Scopus)
5 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
Inulin
Dietary Fiber
intestinal microorganisms
Prebiotics
inulin
2 Citations (Scopus)

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., 21 Dec 2006, Avian Gut Function in Health and Disease. Perry, G. (ed.). Wallingford, United Kingdom: CABI Publishing, p. 107-123 (Poultry Science Symposium Series; vol. 28).

Research output: Chapter in Book/Report/Conference proceedingChapter

microbial ecology
digestive system
Bacteroides
dietary carbohydrate
Firmicutes
2 Citations (Scopus)

Opportunity knocks

Seth-Smith, H. & Walker, A., Sep 2008, In : Nature Reviews Microbiology. 6, 9, p. 652-653 2 p.

Research output: Contribution to journalArticle

Genome
132 Citations (Scopus)
3 Downloads (Pure)

Partitioning core and satellite taxa from within cystic fibrosis lung bacterial communities

van der Gast, C. J., Walker, A. W., Stressmann, F. A., Rogers, G. B., Scott, P., Daniels, T. W., Carroll, M. P., Parkhill, J. & Bruce, K. D., May 2011, In : The ISME Journal. 5, 5, p. 780-791 12 p.

Research output: Contribution to journalArticle

Open Access
File
cystic fibrosis
bacterial communities
Cystic Fibrosis
partitioning
lungs
62 Citations (Scopus)
3 Downloads (Pure)

Patent human infections with the whipworm, Trichuris trichiura, are not associated with alterations in the faecal microbiota

Cooper, P., Walker, A. W., Reyes, J., Chico, M., Salter, S. J., Vaca, M. & Parkhill, J., 4 Oct 2013, In : PloS ONE. 8, 10, 12 p., e76573.

Research output: Contribution to journalArticle

Open Access
File
Trichuris trichiura
Trichuris
Anthelmintics
Microbiota
patents
312 Citations (Scopus)