List of works - Alan Walker

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

scientific article published on 25 June 2019

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

scientific article

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

scientific article published on 01 May 2010

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

scientific article published on 12 November 2016

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

scientific article published on 23 October 2015

Adding genomic 'foliage' to the tree of life

scientific article published on 01 February 2014

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

scientific article published on 29 June 2009

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

scientific article published on 28 February 2018

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

scientific article published on 15 February 2016

Bacterial microbiota of the upper respiratory tract and childhood asthma

scientific article

Bayesian estimation of bacterial community composition from 454 sequencing data

scientific article

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

scientific article

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

scientific article published on 25 September 2019

Comparing the microbiota of the cystic fibrosis lung and human gut.

scientific article published on 29 January 2010

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

scientific article published on 02 August 2019

Deep-sea striving ⬇️

scientific article published on May 13, 2013

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

scientific article

Diet induced obesity is independent of metabolic endotoxemia and TLR4 signalling, but markedly increases hypothalamic expression of the acute phase protein, SerpinA3N

scientific article published in Scientific Reports

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

scientific article published in November 2017

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

scientific article published in Scientific Reports

Does my genome look big in this?

scientific article published in December 2008

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

scientific article

Editorial: further evidence that proton pump inhibitors may impact on the gut microbiota

scientific article published in May 2016

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

scientific article published on 21 December 2012

Exclusive enteral nutrition mediates gut microbial and metabolic changes that are associated with remission in children with Crohn's disease

scientific article published on 03 November 2020

Faecal matters

scholarly article by Alan Walker et al published August 2006 in Nature Reviews Microbiology

Fibrinogen-binding and platelet-aggregation activities of aLactobacillus salivariussepticaemia isolate are mediated by a novel fibrinogen-binding protein

article

Fighting Obesity with Bacteria

scientific article published in Science

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

scientific article published on 9 January 2012

Gut metagenomics goes viral

scientific article published on 09 November 2010

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

scientific article published on 20 February 2018

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

scientific article

Human gut bifidobacteria inhibit the growth of the opportunistic fungal pathogen <i>Candida albicans</i>

scientific article published in 2022

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

scientific article published on 08 August 2019

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

article

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

scientific article

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

scientific article

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

scientific article

Intestinal colonization resistance

scientific article published on January 2013

It's hip to be square!

scientific article published on 01 June 2007

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

scientific article published on March 2010

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

scientific article

Milk and two oligosaccharides

scientific article published on 01 July 2009

Modulating the early-life gut microbiota using pro-, pre-, and synbiotics to improve gut health, child development, and growth

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

scientific article

Molecular diversity, cultivation, and improved detection by fluorescent in situ hybridization of a dominant group of human gut bacteria related to Roseburia spp. or Eubacterium rectale

scientific article

Objections to the proposed reclassification of Eubacterium rectale as Agathobacter rectalis

scientific article

Opportunity knocks

scientific article published on 01 September 2008

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

scientific article

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

scientific article

Phylogeny, culturing, and metagenomics of the human gut microbiota

scientific article published on 31 March 2014

Pivotal Roles for pH, Lactate, and Lactate-Utilizing Bacteria in the Stability of a Human Colonic Microbial Ecosystem

scientific article published on 08 September 2020

Probiotics stick it to the man

scientific article published on 01 December 2009

Questioning the fetal microbiome illustrates pitfalls of low-biomass microbial studies

scientific article published in 2023

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

scientific article

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

scientific article published on 10 November 2015

Review article: faecal transplantation therapy for gastrointestinal disease

scientific article published on 20 June 2011

Salmonella enterica serovar typhimurium exploits inflammation to compete with the intestinal microbiota

scientific article

Say hello to our little friends

scientific article published on 01 August 2007

Selective colonization of insoluble substrates by human faecal bacteria

scientific article published in March 2007

Sequencing ancient calcified dental plaque shows changes in oral microbiota with dietary shifts of the Neolithic and Industrial revolutions

scientific article published on 17 February 2013

Shotgun metagenomics, from sampling to analysis

scientific article published on September 2017

Single-cell genomics

article

Singled out

scientific article published on 16 June 2011

Special issue: The Human Intestinal Microbiota

scientific article published in November 2010

Sporulation capability and amylosome conservation among diverse human colonic and rumen isolates of the keystone starch-degrader Ruminococcus bromii.

scientific article published on 21 November 2017

Studies on the effect of system retention time on bacterial populations colonizing a three-stage continuous culture model of the human large gut using FISH techniques

scientific article published in February 2006

Studying the Human Microbiota

scientific article

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

scientific article published on 01 November 2018

Survey of culture, goldengate assay, universal biosensor assay, and 16S rRNA Gene sequencing as alternative methods of bacterial pathogen detection

scientific article

TPL-2 restricts Ccl24-dependent immunity to Heligmosomoides polygyrus.

scientific article

Targeted restoration of the intestinal microbiota with a simple, defined bacteriotherapy resolves relapsing Clostridium difficile disease in mice

scientific article

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

scientific article

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

scholarly article by Nicholas A. Kennedy et al published 16 February 2018 in Inflammatory Bowel Diseases

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

scientific article published on 27 October 2015

The bacteriology of pouchitis: a molecular phylogenetic analysis using 16S rRNA gene cloning and sequencing

scientific article published on July 2010

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

scientific article

The species composition of the human intestinal microbiota differs between particle-associated and liquid phase communities

scientific article

The transcription factor T-bet regulates intestinal inflammation mediated by interleukin-7 receptor+ innate lymphoid cells.

scientific article published on 11 October 2012

Therapeutic modulation of intestinal dysbiosis

scientific article published on 24 September 2012

This place is big enough for both of us.

scientific article published in February 2007

Time between collection and storage significantly influences bacterial sequence composition in sputum samples from cystic fibrosis respiratory infections

scientific article

Urbane decay

scientific article published on 01 October 2007

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

scientific article

Welcome to the plasmidome ⬇️

scientific article published on May 14, 2012

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

scientific article published on 04 December 2015

List of works by Alan Walker

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

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

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

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

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

Adding genomic 'foliage' to the tree of life

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

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

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

Bacterial microbiota of the upper respiratory tract and childhood asthma

Bayesian estimation of bacterial community composition from 454 sequencing data

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

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

Comparing the microbiota of the cystic fibrosis lung and human gut.

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

Deep-sea striving ⬇️

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

Diet induced obesity is independent of metabolic endotoxemia and TLR4 signalling, but markedly increases hypothalamic expression of the acute phase protein, SerpinA3N

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

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

Does my genome look big in this?

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

Editorial: further evidence that proton pump inhibitors may impact on the gut microbiota

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

Exclusive enteral nutrition mediates gut microbial and metabolic changes that are associated with remission in children with Crohn's disease

Faecal matters

Fibrinogen-binding and platelet-aggregation activities of aLactobacillus salivariussepticaemia isolate are mediated by a novel fibrinogen-binding protein

Fighting Obesity with Bacteria

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

Gut metagenomics goes viral

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

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

Human gut bifidobacteria inhibit the growth of the opportunistic fungal pathogen <i>Candida albicans</i>

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

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

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

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

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

Intestinal colonization resistance

It's hip to be square!

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

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

Milk and two oligosaccharides

Modulating the early-life gut microbiota using pro-, pre-, and synbiotics to improve gut health, child development, and growth

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

Molecular diversity, cultivation, and improved detection by fluorescent in situ hybridization of a dominant group of human gut bacteria related to Roseburia spp. or Eubacterium rectale

Objections to the proposed reclassification of Eubacterium rectale as Agathobacter rectalis

Opportunity knocks

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

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

Phylogeny, culturing, and metagenomics of the human gut microbiota

Pivotal Roles for pH, Lactate, and Lactate-Utilizing Bacteria in the Stability of a Human Colonic Microbial Ecosystem

Probiotics stick it to the man

Questioning the fetal microbiome illustrates pitfalls of low-biomass microbial studies

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

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

Review article: faecal transplantation therapy for gastrointestinal disease

Salmonella enterica serovar typhimurium exploits inflammation to compete with the intestinal microbiota

Say hello to our little friends

Selective colonization of insoluble substrates by human faecal bacteria

Sequencing ancient calcified dental plaque shows changes in oral microbiota with dietary shifts of the Neolithic and Industrial revolutions

Shotgun metagenomics, from sampling to analysis

Single-cell genomics

Singled out

Special issue: The Human Intestinal Microbiota

Sporulation capability and amylosome conservation among diverse human colonic and rumen isolates of the keystone starch-degrader Ruminococcus bromii.

Studies on the effect of system retention time on bacterial populations colonizing a three-stage continuous culture model of the human large gut using FISH techniques

Studying the Human Microbiota

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

Survey of culture, goldengate assay, universal biosensor assay, and 16S rRNA Gene sequencing as alternative methods of bacterial pathogen detection

TPL-2 restricts Ccl24-dependent immunity to Heligmosomoides polygyrus.

Targeted restoration of the intestinal microbiota with a simple, defined bacteriotherapy resolves relapsing Clostridium difficile disease in mice

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

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

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

The bacteriology of pouchitis: a molecular phylogenetic analysis using 16S rRNA gene cloning and sequencing

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

The species composition of the human intestinal microbiota differs between particle-associated and liquid phase communities

The transcription factor T-bet regulates intestinal inflammation mediated by interleukin-7 receptor+ innate lymphoid cells.