All Outputs (26)

Modelling the impact of wastewater flows and management practices on antimicrobial resistance in dairy farms (2024)
Journal Article

Dairy slurry is a major source of environmental contamination with antimicrobial resistant genes and bacteria. We developed mathematical models and conducted on-farm research to explore the impact of wastewater flows and management practices on antim... Read More about Modelling the impact of wastewater flows and management practices on antimicrobial resistance in dairy farms.

A core genome multi-locus sequence typing scheme for Streptococcus uberis: an evolution in typing a genetically diverse pathogen (2024)
Journal Article

Streptococcus uberis is a globally endemic and poorly controlled cause of bovine mastitis impacting the sustainability of the modern dairy industry. A core genome was derived from 579 newly sequenced S. uberis isolates, along with 305 publicly availa... Read More about A core genome multi-locus sequence typing scheme for Streptococcus uberis: an evolution in typing a genetically diverse pathogen.

Lack of detection of SARS-CoV-2 in wildlife from Kerala, India in 2020–21 (2024)
Journal Article

Spillover of SARS-CoV-2 into a variety of wild and domestic animals has been an ongoing feature of the human pandemic. The establishment of a new reservoir in white-tailed deer in North America and increasing divergence of the viruses circulating in... Read More about Lack of detection of SARS-CoV-2 in wildlife from Kerala, India in 2020–21.

Advances in the understanding, detection and management of equine strangles (2023)
Journal Article

Streptococcus equi subspecies equi (S. equi) is the causative organism of the upper respiratory disease of equids, strangles, characterised by pyrexia, lymphadenopathy and mucopurulent nasal discharge. Strangles was first reported over 750 years ago... Read More about Advances in the understanding, detection and management of equine strangles.

Sarbecoviruses of British Horseshoe Bats; Sequence Variation and Epidemiology (2023)
Journal Article

Horseshoe bats are the natural hosts of the Sarbecovirus subgenus that includes SARS-CoV and SARS-CoV- 2. Despite the devastating impact of the COVID-19 pandemic, there is still little known about the underlying epidemiology and virology of sarbecovi... Read More about Sarbecoviruses of British Horseshoe Bats; Sequence Variation and Epidemiology.

RNA-Seq of untreated wastewater to assess COVID-19 and emerging and endemic viruses for public health surveillance (2023)
Journal Article

Background: The COVID-19 pandemic showcased the power of genomic sequencing to tackle the emergence and spread of infectious diseases. However, metagenomic sequencing of total microbial RNAs in wastewater has the potential to assess multiple infectio... Read More about RNA-Seq of untreated wastewater to assess COVID-19 and emerging and endemic viruses for public health surveillance.

High genetic diversity and zoonotic potential of Staphylococcus aureus strains recovered from bovine intramammary infections in Colombians dairy herds (2022)
Journal Article

Genotyping of Staphylococcus aureus isolated from mastitis has become a fundamental tool to understand its complex epidemiology and to evaluate spillover events. The aim of this study was to describe the frequency of genotypes of the S. aureus strain... Read More about High genetic diversity and zoonotic potential of Staphylococcus aureus strains recovered from bovine intramammary infections in Colombians dairy herds.

Genome Reference Assembly for Bottlenecked Southern Australian Koalas (2022)
Journal Article

Koala populations show marked differences in inbreeding levels and in the presence or absence of the endogenous Koala retrovirus (KoRV). These genetic differences among populations may lead to severe disease impacts threatening koala population viabi... Read More about Genome Reference Assembly for Bottlenecked Southern Australian Koalas.

Natural Mycoplasma Infection Reduces Expression of Pro-Inflammatory Cytokines in Response to Ovine Footrot Pathogens (2022)
Journal Article

The impact of glutaraldehyde based footbaths on Dichelobacter nodosus prevalence and the antimicrobial resistant community of the ovine interdigital skin (2022)
Journal Article

Ovine footrot, is a highly contagious polymicrobial bacterial infection, primarily caused by Dichelobacter nodosus. Preventative bactericidal footbaths are commonly used in the sheep industry to reduce the spread of bacteria. However, their effect on... Read More about The impact of glutaraldehyde based footbaths on Dichelobacter nodosus prevalence and the antimicrobial resistant community of the ovine interdigital skin.

A Trifecta of New Insights into Ovine Footrot for Infection Drivers, Immune Response, and Host-Pathogen Interactions (2021)
Journal Article

Footrot is a polymicrobial infectious disease in sheep causing severe lameness, leading to one of the industry’s largest welfare problems. The complex etiology of footrot makes in situ or in vitro investigations difficult. Computational methods offer... Read More about A Trifecta of New Insights into Ovine Footrot for Infection Drivers, Immune Response, and Host-Pathogen Interactions.

A paradox in bacterial pathogenesis: Activation of the local macrophage inflammasome is required for virulence of streptococcus uberis (2020)
Journal Article

© 2020 by the authors. Licensee MDPI, Basel, Switzerland. Streptococcus uberis is a common cause of intramammary infection and mastitis in dairy cattle. Unlike other mammary pathogens, S. uberis evades detection by mammary epithelial cells, and the h... Read More about A paradox in bacterial pathogenesis: Activation of the local macrophage inflammasome is required for virulence of streptococcus uberis.

Complete genome sequence of Streptococcus agalactiae strain 01173, isolated from Kuwaiti wild fish (2020)
Journal Article

© 2020 Santi et al. Here, we report the complete genome of piscine Streptococcus agalactiae 01173 serotype Ia, which was generated using long-read sequencing technology. The bacteria were isolated from wild fish displaying signs of streptococcosis, f... Read More about Complete genome sequence of Streptococcus agalactiae strain 01173, isolated from Kuwaiti wild fish.

Characterisation of Listeria monocytogenes isolates from cattle using a bovine caruncular epithelial cell model (2020)
Journal Article

© 2020 Listeria monocytogenes is an important foodborne pathogen in human and veterinary health, causing significant morbidity and mortality including abortion. It has a particular tropism for the gravid uterus, however, the route of infection in rep... Read More about Characterisation of Listeria monocytogenes isolates from cattle using a bovine caruncular epithelial cell model.

Metagenomics Reveals Impact of Geography and Acute Diarrhoeal Disease on the Central Indian Human Gut Microbiome (2020)
Journal Article

Background: The Central Indian gut microbiome remains grossly understudied. Herein, we sought to investigate the burden of antimicrobial resistance and diarrhoeal diseases, particularly Clostridioides difficile, in rural-agricultural and urban popula... Read More about Metagenomics Reveals Impact of Geography and Acute Diarrhoeal Disease on the Central Indian Human Gut Microbiome.

Metagenomics reveals impact of geography and acute diarrheal disease on the Central Indian human gut microbiome (2020)
Journal Article

© 2020, © 2020 The Author(s). Published with license by Taylor & Francis Group, LLC. Background: The Central Indian gut microbiome remains grossly understudied. Herein, we sought to investigate the burden of antimicrobial resistance and diarrheal d... Read More about Metagenomics reveals impact of geography and acute diarrheal disease on the Central Indian human gut microbiome.

Genomic heterogeneity of Dichelobacter nodosus within and between UK sheep flocks and between age groups within a flock (2020)
Journal Article

Background Footrot and interdigital dermatitis are endemic infectious diseases in all sheep farming regions, impairing welfare and production. The development of efficacious vaccines against the primary causative pathogen has been hampered by the ex... Read More about Genomic heterogeneity of Dichelobacter nodosus within and between UK sheep flocks and between age groups within a flock.

Genetic diversity of Koala retrovirus env gene subtypes: insights into northern and southern koala populations (2019)
Journal Article

Koala retrovirus (KoRV) is a recently endogenised retrovirus associated with neoplasia and immunosuppression in koala populations. The virus is known to display sequence variability and to be present at varying prevalence in different populations, wi... Read More about Genetic diversity of Koala retrovirus env gene subtypes: insights into northern and southern koala populations.

Molecular variability of Streptococcus uberis isolates from intramammary infections in Canadian dairy farms from the Maritime region (2019)
Journal Article

The primary objective of this study was to explore the variability of Streptococcus uberis (S. uberis) isolates by extracting multilocus sequence typing (MLST) data from whole-genome sequencing. The secondary objective was to determine the distributi... Read More about Molecular variability of Streptococcus uberis isolates from intramammary infections in Canadian dairy farms from the Maritime region.

DirtyGenes: testing for significant changes in gene or bacterial population compositions from a small number of samples (2019)
Journal Article

High throughput genomics technologies are applied widely to microbiomes in humans, animals, soil and water, to detect changes in bacterial communities or the genes they carry, between different environments or treatments. We describe a method to test... Read More about DirtyGenes: testing for significant changes in gene or bacterial population compositions from a small number of samples.