Derek Fairley
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View article: Combining analysis of individual and wastewater whole genome sequencing improves SARS-CoV-2 surveillance
Combining analysis of individual and wastewater whole genome sequencing improves SARS-CoV-2 surveillance Open
Effective pathogen surveillance is critical for public health decision-making, with both individual and environmental monitoring playing essential roles. While wastewater (WW) and individual whole genome sequencing (WGS) have been used to …
View article: Acinetobacter baumannii Clinical Isolates Resist Complement-Mediated Lysis by Inhibiting the Complement Cascade and Improperly Depositing MAC
Acinetobacter baumannii Clinical Isolates Resist Complement-Mediated Lysis by Inhibiting the Complement Cascade and Improperly Depositing MAC Open
Introduction: Acinetobacter baumannii is a gram-negative opportunistic bacterium that causes life-threatening infections in immunocompromised hosts. The complement system is a critical mechanism of innate immunity that protects the human b…
View article: SARS-CoV-2 introductions to the island of Ireland: a phylogenetic and geospatiotemporal study of infection dynamics
SARS-CoV-2 introductions to the island of Ireland: a phylogenetic and geospatiotemporal study of infection dynamics Open
Background Ireland’s COVID-19 response combined extensive SARS-CoV-2 testing to estimate incidence, with whole genome sequencing (WGS) for genome surveillance. As an island with two political jurisdictions―Northern Ireland (NI) and Republi…
View article: Wastewater monitoring of human and avian influenza A viruses in Northern Ireland: a genomic surveillance study
Wastewater monitoring of human and avian influenza A viruses in Northern Ireland: a genomic surveillance study Open
Department of Health for Northern Ireland.
View article: Rosin as a natural alternative for the effective disinfection of ESKAPE pathogens and <i>Clostridioides difficile</i> spores
Rosin as a natural alternative for the effective disinfection of ESKAPE pathogens and <i>Clostridioides difficile</i> spores Open
Aim Hospital-acquired infections (HAIs) caused by antimicrobial-resistant ESKAPE pathogens are a significant concern for the healthcare industry, with an estimated cost of up to $45 billion per year in the US alone. Clostridioides difficil…
View article: ‘One Health’ Genomic Surveillance of Avian and Human Influenza A Viruses Through Environmental Wastewater Monitoring
‘One Health’ Genomic Surveillance of Avian and Human Influenza A Viruses Through Environmental Wastewater Monitoring Open
Background Influenza A viruses (IAV) are significant pathogens of humans and other animals. Although endemic in humans and birds, novel IAV strains can emerge, jump species, and cause epidemics, like the latest variant of H5N1. Wastewater-…
View article: SARS-CoV-2 introductions to the island of Ireland
SARS-CoV-2 introductions to the island of Ireland Open
Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) has had an unprecedented impact on the people of Ireland as waves of infection spread across the island during the global coronavirus disease 2019 (COVID-19) pandemic. Viral whol…
View article: ‘If I am on ART, my new-born baby should be put on treatment immediately’: Exploring the acceptability, and appropriateness of Cepheid Xpert HIV-1 Qual assay for early infant diagnosis of HIV in Malawi
‘If I am on ART, my new-born baby should be put on treatment immediately’: Exploring the acceptability, and appropriateness of Cepheid Xpert HIV-1 Qual assay for early infant diagnosis of HIV in Malawi Open
Early infant diagnosis of HIV (EID-HIV) is key to reducing paediatric HIV mortality. Traditional approaches for diagnosing HIV in exposed infants are usually unable to optimally contribute to EID. Point-of-care testing such as Cepheid Xper…
View article: Valaciclovir for Epstein-Barr Virus Suppression in Moderate-to-Severe COPD
Valaciclovir for Epstein-Barr Virus Suppression in Moderate-to-Severe COPD Open
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View article: ‘If I am on ART, my new-born baby should be put on treatment immediately’: Exploring the acceptability, and appropriateness of Cepheid Xpert HIV-1 Qual assay for early infant diagnosis of HIV in Malawi
‘If I am on ART, my new-born baby should be put on treatment immediately’: Exploring the acceptability, and appropriateness of Cepheid Xpert HIV-1 Qual assay for early infant diagnosis of HIV in Malawi Open
Early infant diagnosis of HIV (EID-HIV) is key to reducing paediatric HIV mortality. Traditional approaches for diagnosing HIV in exposed infants are usually unable to optimally contribute to EID. Point-of-care testing such as Cepheid Xper…
View article: Investigation of hospital discharge cases and SARS-CoV-2 introduction into Lothian care homes
Investigation of hospital discharge cases and SARS-CoV-2 introduction into Lothian care homes Open
View article: Terrisporobacter hibernicus sp. nov., isolated from bovine faeces in Northern Ireland
Terrisporobacter hibernicus sp. nov., isolated from bovine faeces in Northern Ireland Open
A new species of Terrisporobacter , a Gram-positive, spore-forming anaerobic group, proposed name Terrisporobacter hibernicus sp. nov., was isolated in Northern Ireland from bovine faeces collected in 2016. Designated as MCA3 T , cells of …
View article: ‘One Health’ Genomic Surveillance of Avian and Human Influenza a Viruses Through Environmental Wastewater Monitoring
‘One Health’ Genomic Surveillance of Avian and Human Influenza a Viruses Through Environmental Wastewater Monitoring Open
View article: Publisher Correction: SARS-CoV-2 Omicron is an immune escape variant with an altered cell entry pathway
Publisher Correction: SARS-CoV-2 Omicron is an immune escape variant with an altered cell entry pathway Open
View article: Costing and cost-effectiveness of Cepheid Xpert HIV -1 Qual Assay using whole blood protocol versus PCR by Abbott Systems in Malawi
Costing and cost-effectiveness of Cepheid Xpert HIV -1 Qual Assay using whole blood protocol versus PCR by Abbott Systems in Malawi Open
Background Timely diagnosis of HIV in infants and children is an urgent priority. In Malawi, 40,000 infants annually are HIV exposed. However, gold standard polymerase-chain-reaction (PCR) based testing requires centralised laboratories, c…
View article: Evolutionary remodelling of N‐terminal domain loops fine‐tunes <scp>SARS‐CoV</scp>‐2 spike
Evolutionary remodelling of N‐terminal domain loops fine‐tunes <span>SARS‐CoV</span>‐2 spike Open
View article: SARS-CoV-2 lineage dynamics in England from September to November 2021: high diversity of Delta sub-lineages and increased transmissibility of AY.4.2
SARS-CoV-2 lineage dynamics in England from September to November 2021: high diversity of Delta sub-lineages and increased transmissibility of AY.4.2 Open
View article: Genomic epidemiology of SARS-CoV-2 in a university outbreak setting and implications for public health planning
Genomic epidemiology of SARS-CoV-2 in a university outbreak setting and implications for public health planning Open
View article: SARS-CoV-2 Omicron is an immune escape variant with an altered cell entry pathway
SARS-CoV-2 Omicron is an immune escape variant with an altered cell entry pathway Open
View article: Long Term Virucidal Activity of Rosin Soap on Surfaces
Long Term Virucidal Activity of Rosin Soap on Surfaces Open
Microbiocidal products for decontaminating both animate and inanimate surfaces that may act as vectors for disease transmission are a well-established method for inactivating viruses of clinical significance. There are a wide variety of su…
View article: Diagnostic value of mid-regional pro-Adrenomedullin as a biomarker of invasive bacterial infection in children: a systematic review
Diagnostic value of mid-regional pro-Adrenomedullin as a biomarker of invasive bacterial infection in children: a systematic review Open
View article: Mini-XT, a miniaturized tagmentation-based protocol for efficient sequencing of SARS-CoV-2
Mini-XT, a miniaturized tagmentation-based protocol for efficient sequencing of SARS-CoV-2 Open
Background The COVID-19 pandemic has highlighted the importance of whole genome sequencing (WGS) of SARS-CoV-2 to inform public health policy. By enabling definition of lineages it facilitates tracking of the global spread of the virus. Th…
View article: Genomic assessment of quarantine measures to prevent SARS-CoV-2 importation and transmission
Genomic assessment of quarantine measures to prevent SARS-CoV-2 importation and transmission Open
View article: Comparison of SARS-CoV-2 Evolution in Paediatric Primary Airway Epithelial Cell Cultures Compared with Vero-Derived Cell Lines
Comparison of SARS-CoV-2 Evolution in Paediatric Primary Airway Epithelial Cell Cultures Compared with Vero-Derived Cell Lines Open
SARS-CoV-2 can efficiently infect both children and adults, albeit with morbidity and mortality positively associated with increasing host age and presence of co-morbidities. SARS-CoV-2 continues to adapt to the human population, resulting…
View article: Clinical Isolates of Acinetobacter spp. Are Highly Serum Resistant Despite Efficient Recognition by the Complement System
Clinical Isolates of Acinetobacter spp. Are Highly Serum Resistant Despite Efficient Recognition by the Complement System Open
Gram-negative bacteria from the genus Acinetobacter are responsible for life-threating hospital-related infections such as pneumonia, septicemia, and meningitis, especially in immunocompromised patients. Worryingly, Acinetobacter have beco…
View article: Additional file 1 of Mini-XT, a miniaturized tagmentation-based protocol for efficient sequencing of SARS-CoV-2
Additional file 1 of Mini-XT, a miniaturized tagmentation-based protocol for efficient sequencing of SARS-CoV-2 Open
Additional file 1. Reagents required for the Mini-XT protocol.
View article: Rosin Soap Exhibits Virucidal Activity
Rosin Soap Exhibits Virucidal Activity Open
Viruses remain a significant cause of human disease and death, most notably illustrated through the current coronavirus disease 2019 (COVID-19) pandemic. Control of virus infection continues to pose a significant global health challenge to…
View article: Hospital admission and emergency care attendance risk for SARS-CoV-2 delta (B.1.617.2) compared with alpha (B.1.1.7) variants of concern: a cohort study
Hospital admission and emergency care attendance risk for SARS-CoV-2 delta (B.1.617.2) compared with alpha (B.1.1.7) variants of concern: a cohort study Open
View article: Mini-XT, a miniaturized tagmentation-based protocol for efficient sequencing of SARS-CoV-2
Mini-XT, a miniaturized tagmentation-based protocol for efficient sequencing of SARS-CoV-2 Open
Introduction The COVID-19 pandemic has highlighted the importance of whole genome sequencing (WGS) of SARS-CoV-2 to inform public health policy. By enabling definition of lineages it facilitates tracking of the global spread of the virus. …
View article: Rosin Soap Exhibits Virucidal Activity
Rosin Soap Exhibits Virucidal Activity Open
Chemical methods of virus inactivation are used routinely to prevent viral transmission in both a personal hygiene capacity but also in at-risk environments like hospitals. Several ‘virucidal’ products exist, including hand soaps, gels and…