Peter R. Flanagan
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View article: Deletion of the Candida albicans TLO gene family using CRISPR-Cas9 mutagenesis allows characterisation of functional differences in α-, β- and γ- TLO gene function
Deletion of the Candida albicans TLO gene family using CRISPR-Cas9 mutagenesis allows characterisation of functional differences in α-, β- and γ- TLO gene function Open
The Candida albicans genome contains between ten and fifteen distinct TLO genes that all encode a Med2 subunit of Mediator. In order to investigate the biological role of Med2/Tlo in C . albicans we deleted all fourteen TLO genes using CRI…
View article: Investigation of genomic mutations and their association with phenotypic resistance to new and repurposed drugs in <i>Mycobacterium tuberculosis</i> complex clinical isolates
Investigation of genomic mutations and their association with phenotypic resistance to new and repurposed drugs in <i>Mycobacterium tuberculosis</i> complex clinical isolates Open
Background WGS has the potential to detect resistance-associated mutations and guide treatment of MDR TB. However, the knowledge base to confidently interpret mutations associated with the new and repurposed drugs is sparse, and phenotypic…
View article: Stress- and metabolic responses of Candida albicans require Tor1 kinase N-terminal HEAT repeats
Stress- and metabolic responses of Candida albicans require Tor1 kinase N-terminal HEAT repeats Open
Whether to commit limited cellular resources toward growth and proliferation, or toward survival and stress responses, is an essential determination made by Target of Rapamycin Complex 1 (TORC1) for a eukaryotic cell in response to favorab…
View article: Stress- and metabolic responses of <i>Candida albicans</i> require Tor1 kinase N-terminal HEAT repeats
Stress- and metabolic responses of <i>Candida albicans</i> require Tor1 kinase N-terminal HEAT repeats Open
Whether to commit limited cellular resources toward growth and proliferation, or toward survival and stress responses, is an essential determination made by Target of Rapamycin Complex 1 (TORC1) for a eukaryotic cell in response to favorab…
View article: Draft Genome Sequences of Clinical Respiratory Isolates of Mycobacterium goodii Recovered in Ireland
Draft Genome Sequences of Clinical Respiratory Isolates of Mycobacterium goodii Recovered in Ireland Open
Here, we describe the draft genomes of five Mycobacterium goodii isolates that were recovered from respiratory clinical specimens in Ireland. Currently, one complete genome and one draft genome exist publicly for M. goodii .
View article: False detection of rifampicin resistance using Xpert® MTB/RIF Ultra assay due to an A451V mutation in <i>Mycobacterium tuberculosis</i>
False detection of rifampicin resistance using Xpert® MTB/RIF Ultra assay due to an A451V mutation in <i>Mycobacterium tuberculosis</i> Open
Background In a 12 month period, three Irish-born adult cases with pulmonary TB were initially diagnosed by Xpert® MTB/RIF Ultra assay, which detected a rifampicin resistance-conferring mutation prompting treatment as potential MDR cases. …
View article: Overcoming the Challenges of Pyrazinamide Susceptibility Testing in Clinical Mycobacterium tuberculosis Isolates
Overcoming the Challenges of Pyrazinamide Susceptibility Testing in Clinical Mycobacterium tuberculosis Isolates Open
Pyrazinamide (PZA) is one of the first-line agents used for the treatment of tuberculosis. However, current phenotypic PZA susceptibility testing in the Bactec MGIT 960 system is unreliable, and false resistance is well documented.
View article: Genomic Analysis of Mycobacterium abscessus Complex Isolates Collected in Ireland between 2006 and 2017
Genomic Analysis of Mycobacterium abscessus Complex Isolates Collected in Ireland between 2006 and 2017 Open
Members of the Mycobacterium abscessus complex (MABC) are multidrug-resistant nontuberculous mycobacteria and cause opportunistic pulmonary infections in individuals with cystic fibrosis (CF). In this study, genomic analysis of MABC isolat…
View article: Characteristics of Platelet Lysate Compared to Autologous and Allogeneic Serum Eye Drops
Characteristics of Platelet Lysate Compared to Autologous and Allogeneic Serum Eye Drops Open
Platelet lysates may serve as an efficient and reliable source of human growth factors for the treatment of ocular surface diseases.
View article: First description of arginine catabolic mobile element (ACME) type VI harboring the kdp operon only in Staphylococcus epidermidis using short and long read whole genome sequencing: Further evidence of ACME diversity
First description of arginine catabolic mobile element (ACME) type VI harboring the kdp operon only in Staphylococcus epidermidis using short and long read whole genome sequencing: Further evidence of ACME diversity Open
The arginine catabolic mobile element (ACME) was first described in methicillin-resistant Staphylococcus aureus and is considered to enhance transmission, persistence and survival. Subsequently ACMEs were shown to be more prevalent in the …
View article: Candida albicans TLOs and fitness: phenotypic analysis of a TLO null strain of C. albicans generated via CRISPR-Cas9 mutagenesis
Candida albicans TLOs and fitness: phenotypic analysis of a TLO null strain of C. albicans generated via CRISPR-Cas9 mutagenesis Open
Background Candida albicansis a fungus that is both a commensal and opportunistic pathogenic in humans. Genomic analysis has highlighted the expansion of the telomere associated ORF (TLO) gene family as unique in C. albicans . In C. albica…
View article: Expansion of the TLO gene family enhances the virulence of Candida species
Expansion of the TLO gene family enhances the virulence of Candida species Open
The TLO genes are a family of subtelomeric ORFs in the fungal pathogens Candida albicans and C. dubliniensis encoding a subunit of the Mediator complex homologous to Med2. The more virulent pathogen C. albicans has 15 copies of the gene wh…
View article: The Candida albicans TOR-Activating GTPases Gtr1 and Rhb1 Coregulate Starvation Responses and Biofilm Formation
The Candida albicans TOR-Activating GTPases Gtr1 and Rhb1 Coregulate Starvation Responses and Biofilm Formation Open
Candida albicans is the major fungal pathogen of humans and is responsible for a wide range of infections, including life-threatening systemic infections in susceptible hosts. Target of rapamycin complex 1 (TORC1) is an essential regulator…
View article: Phosphate is the third nutrient monitored by TOR in <i>Candida albicans</i> and provides a target for fungal-specific indirect TOR inhibition
Phosphate is the third nutrient monitored by TOR in <i>Candida albicans</i> and provides a target for fungal-specific indirect TOR inhibition Open
Significance The human fungal pathogen Candida albicans uses the Target of Rapamycin (TOR) signaling pathway to contend with varying host environments and thereby, regulate cell growth. Seeking unknown components of the C. albicans TOR pat…
View article: Phosphate is the third nutrient monitored by TOR in<i>Candida albicans</i>and provides a target for fungal-specific indirect TOR inhibition
Phosphate is the third nutrient monitored by TOR in<i>Candida albicans</i>and provides a target for fungal-specific indirect TOR inhibition Open
The TOR pathway regulates morphogenesis and responses to host cells in the fungal pathogen Candida albicans . Eukaryotic TOR complex 1 (TORC1) induces growth and proliferation in response to nitrogen and carbon source availability. Our unb…
View article: Structured Observations Reveal Slow HIV-1 CTL Escape
Structured Observations Reveal Slow HIV-1 CTL Escape Open
The existence of viral variants that escape from the selection pressures imposed by cytotoxic T-lymphocytes (CTLs) in HIV-1 infection is well documented, but it is unclear when they arise, with reported measures of the time to escape in in…