Microbial Communities in the Food Chain

Lead Research Organisation: Institute of Food Research
Department Name: Contracts

Abstract

We will explore the chicken gut microbiome using culture-based and sequence-based approaches. We will document the microbial ecology of Salmonella and E. coli in the food chain to prime novel ecological and synthetic biology strategies for preventing the spread of pathogens and AMR.

Publications

10 25 50
 
Description Novel bacterial species identified in the chicken gut
Display of useful enzymes on the bacterial flagellum
Exploitation Route Identification of novel species in the chicken gut will inform all future studies on this microbiome; might allow identification of novel probiotics
Smart probiotics could perhaps be developed incorporating enhanced flagellar display
Sectors Agriculture, Food and Drink,Pharmaceuticals and Medical Biotechnology

 
Description Health and Social Care Committee
Geographic Reach National 
Policy Influence Type Gave evidence to a government review
 
Description Hosting PHE students
Geographic Reach Local/Municipal/Regional 
Policy Influence Type Influenced training of practitioners or researchers
Impact Have hosted multiple students working with Public Health England at my institute for training in bioinformatics.
 
Description POSTnote on AMR
Geographic Reach National 
Policy Influence Type Gave evidence to a government review
URL https://researchbriefings.parliament.uk/ResearchBriefing/Summary/POST-PN-0595
 
Description Characterisation of large flagellins 
Organisation Imperial College London
Department Imperial College Business School
Country United Kingdom 
Sector Academic/University 
PI Contribution Laboratory and bioinformatics work on large flagellins
Collaborator Contribution Laboratory and bioinformatics work on large flagellins
Impact http://pubmed.org/30462661,29258714
Start Year 2018
 
Description Chicken gut metagenome 
Organisation London School of Hygiene and Tropical Medicine (LSHTM)
Department Department of Pathogen Molecular Biology
Country United Kingdom 
Sector Academic/University 
PI Contribution We have agreed to perform metagenomic sequencing of chicken samples
Collaborator Contribution They have agreed to supply the chciken samples
Impact None yet.
Start Year 2018
 
Description Chicken gut microbiome investigations 
Organisation Earlham Institute
Country United Kingdom 
Sector Academic/University 
PI Contribution We have performed metagenome sequencing on chicken faecal samples
Collaborator Contribution Roberto La Ragione and his team have provided us with chicken faecal samples
Impact Generation of metagenome sequences and metagenome-assembled genomes from chicken faeces
Start Year 2019
 
Description Chicken gut microbiome investigations 
Organisation University of Surrey
Department School of Veterinary Medicine
Country United Kingdom 
Sector Academic/University 
PI Contribution We have performed metagenome sequencing on chicken faecal samples
Collaborator Contribution Roberto La Ragione and his team have provided us with chicken faecal samples
Impact Generation of metagenome sequences and metagenome-assembled genomes from chicken faeces
Start Year 2019
 
Description Gambian Chicken metagenomics 
Organisation London School of Hygiene and Tropical Medicine (LSHTM)
Country United Kingdom 
Sector Academic/University 
PI Contribution Metagenomic sequencing of chicken and guinea fowl caecal samples
Collaborator Contribution Harvesting and supply of relevant samples.
Impact No publication outputs so far, but sequences have been generated
Start Year 2017
 
Description AMR workshop Canada 
Form Of Engagement Activity A formal working group, expert panel or dialogue
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Policymakers/politicians
Results and Impact "Towards a Human and Animal Health Risk Assessment for Foodborne and Environmental Antimicrobial Resistance", International Expert Workshop, 3-7 March 2019. The workshop comprised 40 international experts on AMR; projected outcomes include a publication.
Year(s) Of Engagement Activity 2019
 
Description Campylobacter research discussion with 2 Sisters Food Group 
Form Of Engagement Activity Participation in an open day or visit at my research institution
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Industry/Business
Results and Impact Discussion with Directors of 2 Sisters about potential areas of collaboration with the aim to investigate the diversity and spread of Campylobacter in poultry and food.
Year(s) Of Engagement Activity 2018