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Publications

Antimicrobial activity of polymyxin A, and characterisation of the cognate biosynthetic gene cluster within the genome of the producing Paenibacillus polymyxa

McLeman A et al, (2026) bioRxiv

https://doi.org/10.64898/2026.05.29.728749

Salmonella Genomic Markers for Risk to Food Safety

Waters EV et al, (2026) bioRxiv

https://doi.org/10.64898/2026.03.27.714810

Rapid Preparation of Electrocompetent Listeria monocytogenes and enhancement of transformation efficiency with cAMP supplementation

Gutierrez AV et al, (2026) Journal of Food Protection100753

https://www.sciencedirect.com/science/article/pii/S0362028X2600058X?via%3Dihub

Biocontrol mechanisms and antimicrobial gene expression of Bacillus 63–10 and impact on microbial ecosystems of fruit; quality and shelf life

Patumporn Manowan, et al, ScienceDirect.

https://www.sciencedirect.com/science/article/abs/pii/S0956713525000295

Interlaboratory evaluation of high molecular weight DNA extraction methods for long-read sequencing and structural variant analysis

Devonshire AS et al, (2025) BMC Genomics 26:698

https://link.springer.com/article/10.1186/s12864-025-11792-7

Large-scale genomic characterisation of phage-plasmids in clinical Enterobacteriaceae isolates

Nair S et al, (2025) bioRxiv

https://www.biorxiv.org/content/10.1101/2025.09.12.675607v1

Characterization of a Listeria monocytogenes plasmid with antibiotic and stress resistance genes

Barker CR et al, (2025) Microbial Genomics Volume 11, Issue 7, 11:001445

https://www.microbiologyresearch.org/content/journal/mgen/10.1099/mgen.0.001445

Population structure and gene flux of Listeria monocytogenes ST121 reveal prophages as a candidate driver of adaptation and persistence in food production environments

Ana Victoria Gutiérrez, et al, Microbial Genomics.

https://www.microbiologyresearch.org/content/journal/mgen/10.1099/mgen.0.001397

Comparative genomics of blood and faecal E. coli and K. pneumoniae isolates from neonates with bloodstream infections in Tanzania

Goodman RN et al, (2025) Nature Communications Biology Volume 8, Article number 1603

https://www.nature.com/articles/s42003-025-09008-5

Genomic diversity of non-typhoidal Salmonella found in patients suffering from gastroenteritis in Norfolk, UK

Steven J Rudder, et al, bioarxiv.

https://www.biorxiv.org/content/10.1101/2025.03.06.641842v1

Hybrid strains of enterotoxigenic/Shiga toxin-producing Escherichia coli, United Kingdom, 2014–2023

Ella V. Rodwell et al., Journal of Medical Microbiology 2025;74:001946

Publications/Rodwell et al 2025.pdf

Parental germline mosaicism in genome-wide phased de novo variants: recurrence risk assessment and implications for precision genetic counselling

Francois Lecoquierre, et al, Research Square

https://www.researchsquare.com/article/rs-4874550/v1

Phage-plasmid borne methionine tRNA ligase mediates epidemiologically relevant antimicrobial persistence

Yi L Tam, et al, medRxiv

https://www.medrxiv.org/content/10.1101/2024.10.27.24316207v1

Comparative evaluation of commercial DNA isolation approaches for nanopore-only bacterial genome assembly and plasmid recovery

Worarat Kruasuwan, et al, Scientific Reports, 14, Article number: 27672

https://www.nature.com/articles/s41598-024-78066-2

Molecular mechanisms of re-emerging chloramphenicol susceptibility in extended-spectrum beta-lactamase producing Enterobacterales

Fabrice E Graf, et al, bioRxiv

https://doi.org/10.1101/2023.11.16.567242

From Acute to Persistent Infection: Revealing Phylogenomic Variations in Salmonella Agona

Emma V Waters, et al, bioArxiv

https://www.biorxiv.org/content/10.1101/2024.07.03.601855v1

Re-analysis of an outbreak of Shiga toxin-producing Escherichia coli O157:H7 associated with raw drinking milk using Nanopore sequencing

David R. Greig, et al, scientific reports

https://www.nature.com/articles/s41598-024-54662-0

FakA impacts antiseptic susceptibility in Staphylococcus aureus and Enterococcus faecalis

Maria Solsona Gaya et al, bioRxiv

https://www.biorxiv.org/content/10.1101/2024.02.13.580087v1.full

Development of pBACpAK entrapment vector derivatives to detect intracellular transfer of mobile genetic elements within chloramphenicol resistant bacterial isolates

Richard N. Goodman et al, Journal of Microbiological Methods

https://doi.org/10.1016/j.mimet.2023.106813

Surveillance of antimicrobial resistant Shiga toxin-producing E. coli O157:H7 in England, 2016–2020

David R. Greig, Journal of Antimicrobial Chemotherapy

High diagnostic potential of short and long read genome sequencing with transcriptome analysis in exome-negative developmental disorders

Lecoquierre et al, Human Genetics

https://link.springer.com/article/10.1007/s00439-023-02553-1

Uropathogenic Escherichia coli population structure and antimicrobial susceptibility in Norfolk, UK

Carter C et al, bioRXiv

https://www.biorxiv.org/content/10.1101/2023.03.24.533965v1

Multi-omics responses in tree swallow (Tachycineta bicolor) nestlings from the Maumee Area of Concern, Maumee River, Ohio

Tseng YT et al, Science of the Total Environment 856(2): 159130

https://www.sciencedirect.com/science/article/abs/pii/S0048969722062295?via%3Dihub

Intracellular Transposition of Mobile Genetic Elements Associated with the Colistin Resistance Gene mcr-1

Goodman RN et al, Microbiology Spectrum

https://journals.asm.org/doi/10.1128/spectrum.03278-22

Characterization of a P1-bacteriophage-like plasmid (phage-plasmid) harbouring bla CTX-M-15 in Salmonella enterica serovar Typhi

Greig DR et al, Microbial Genomics Volume 8, Issue 12

https://www.microbiologyresearch.org/content/journal/mgen/10.1099/mgen.0.000913

Outbreak of sexually transmitted, extensively drug-resistant Shigella sonnei in the UK, 2021-22: a descriptive epidemiological study

Charles H et al, The Lancet Infectious Diseases

https://www.thelancet.com/journals/laninf/article/PIIS1473-3099(22)00370-X

Dynamics of Salmonella enterica and antimicrobial resistance in the Brazilian poultry industry and global impacts on public health

Alikhan NF et al, PLOS Genetics 18(6): e1010174

https://journals.plos.org/plosgenetics/article?id=10.1371/journal.pgen.1010174#abstract1

Impact of Salmonella genome rearrangement on gene expression

Waters EV et al, Evolution Letters. Volume 6, Issue 6

https://academic.oup.com/evlett/article/6/6/426/6975861?login=false

Use of Nanopore Sequencing to Characterise the Genomic Architecture of Mobile Genetic Elements Encoding blaCTX-M-15 in Escherichia coli Causing Travellers’ Diarrhoea Bird MT

Bird MT et al, Front. Microbiol. Volume 13, Article 862234

https://doi.org/10.3389/fmicb.2022.862234

First identification of bla NDM-5 producing Escherichia coli from neonates and a HIV infected adult in Tanzania

Manyahi J et al, Journal of Medical Microbiology. Volume 71, Issue 2

https://www.microbiologyresearch.org/content/journal/jmm/10.1099/jmm.0.001513#tab2

Characterization of a pESI-like plasmid and analysis of multidrug-resistant Salmonella enterica Infantis isolates in England and Wales

Lee WWY et al, Microbial Genomics. Volume 7, Issue 10

https://www.microbiologyresearch.org/content/journal/mgen/10.1099/mgen.0.000658

Analysis of a small outbreak of Shiga toxin-producing Escherichia coli O157:H7 using long-read sequencing

Greig DR et al, Microbial Genomics. Volume 7, Issue 3

https://www.microbiologyresearch.org/content/journal/mgen/10.1099/mgen.0.000545?crawler=true

Acquisition and loss of CTX-M plasmids in Shigella species associated with MSM transmission in the UK

Locke R et al. Microbial Genomics. Volume 7, Issue 8

https://www.microbiologyresearch.org/content/journal/mgen/10.1099/mgen.0.000644

Determination of complete chromosomal haplotypes by bulk DNA sequencing

Tourdot RW et al, Genome Biology. Volume 22, Article 139

https://genomebiology.biomedcentral.com/articles/10.1186/s13059-021-02330-1

Nucleic Acid Ratio Determination (Patent Application)

Pub. No.: US 2020/0199651

https://patents.justia.com/patent/20200199651

Complete Genome Assemblies of the Rare Salmonella enterica Serovar Adjame Using Nanopore and Illumina Sequence Reads

Gao R et al, Microbiology Resource Announcements. Volume: 9, Issue: 35

https://mra.asm.org/content/9/35/e00280-20

Emergence of ciprofloxacin heteroresistance in foodborne Salmonella enterica serovar Agona.

Zhang CZ et al, Journal of Antimicrobial Chemotherapy

https://academic.oup.com/jac/advance-article-abstract/doi/10.1093/jac/dkaa288/5880198?redirectedFrom=fulltext

Emergence of Resistance to Fluoroquinolones and Third-generation Cephalosporins in Salmonella Typhi in Lahore, Pakistan

Rasheed F et al, medRxiv

https://doi.org/10.1101/2020.02.12.20020578