Mark B. Schultz
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View article: First documentation of putative mating behavior in blue sharks ( <i>Prionace glauca</i> ) reveals a potential reproductive area in the Northeast Atlantic
First documentation of putative mating behavior in blue sharks ( <i>Prionace glauca</i> ) reveals a potential reproductive area in the Northeast Atlantic Open
Reproductive behavior in sharks remains poorly understood, with direct observations of mating reported in only a few species. The blue shark (Prionace glauca) is a widely distributed, placental viviparous species, yet direct evidence of ma…
View article: An ISO-certified genomics workflow for identification and surveillance of antimicrobial resistance
An ISO-certified genomics workflow for identification and surveillance of antimicrobial resistance Open
Realising the promise of genomics to revolutionise identification and surveillance of antimicrobial resistance (AMR) has been a long-standing challenge in clinical and public health microbiology. Here, we report the creation and validation…
View article: Epidemiology of carbapenem resistant Acinetobacter baumannii in New Zealand
Epidemiology of carbapenem resistant Acinetobacter baumannii in New Zealand Open
Carbapenem resistant Acinetobacter baumannii have limited treatment options and a propensity to cause hospital outbreaks. In recent years an increase in their detection has been observed in New Zealand. This study aimed to describe the mol…
View article: Bridging the gap between bioinformatics and the clinical and public health microbiology laboratory: An ISO-accredited genomics workflow for antimicrobial resistance
Bridging the gap between bioinformatics and the clinical and public health microbiology laboratory: An ISO-accredited genomics workflow for antimicrobial resistance Open
Realising the promise of genomics to revolutionise routine AMR diagnosis and surveillance has been a long-standing challenge in clinical and public health microbiology. We have directly addressed this issue by creating and validating abrit…
View article: GISAID’s Role in Pandemic Response
GISAID’s Role in Pandemic Response Open
GISAID Global Data Science Initiative. Munich, Germany / Bioinformatics Institute. Agency for Science Technology and Research. Singapore.
View article: Validation of a single-step, single-tube reverse transcription loop-mediated isothermal amplification assay for rapid detection of SARS-CoV-2 RNA
Validation of a single-step, single-tube reverse transcription loop-mediated isothermal amplification assay for rapid detection of SARS-CoV-2 RNA Open
Introduction. The SARS-CoV-2 pandemic of 2020 has resulted in unparalleled requirements for RNA extraction kits and enzymes required for virus detection, leading to global shortages. This has necessitated the exploration of alternative dia…
View article: Search and Contain: Impact of an Integrated Genomic and Epidemiological Surveillance and Response Program for Control of Carbapenemase-producing <i>Enterobacterales</i>
Search and Contain: Impact of an Integrated Genomic and Epidemiological Surveillance and Response Program for Control of Carbapenemase-producing <i>Enterobacterales</i> Open
Background Multiresistant organisms (MROs) pose a critical threat to public health. Population-based programs for control of MROs such as carbapenemase-producing Enterobacterales (CPE) have emerged and evaluation is needed. We assessed the…
View article: Tracking the COVID-19 pandemic in Australia using genomics
Tracking the COVID-19 pandemic in Australia using genomics Open
BACKGROUND: Whole-genome sequencing of pathogens can improve resolution of outbreak clusters and define possible transmission networks. We applied high-throughput genome sequencing of SARS-CoV-2 to 75% of cases in the State of Victoria (po…
View article: Validation of a single-step, single-tube reverse transcription-loop-mediated isothermal amplification assay for rapid detection of SARS-CoV-2 RNA
Validation of a single-step, single-tube reverse transcription-loop-mediated isothermal amplification assay for rapid detection of SARS-CoV-2 RNA Open
2. Abstract Introduction The SARS-CoV-2 pandemic of 2020 has resulted in unparalleled requirements for RNA extraction kits and enzymes required for virus detection, leading to global shortages. This has necessitated the exploration of alte…
View article: Isolation and rapid sharing of the 2019 novel coronavirus ( <scp>SARS</scp> ‐CoV‐2) from the first patient diagnosed with <scp>COVID</scp> ‐19 in Australia
Isolation and rapid sharing of the 2019 novel coronavirus ( <span>SARS</span> ‐CoV‐2) from the first patient diagnosed with <span>COVID</span> ‐19 in Australia Open
The ability to rapidly identify, propagate, and internationally share our SARS-CoV-2 isolate is an important step in collaborative scientific efforts to deal effectively with this international public health emergency by developing better …
View article: Genomic investigation of Staphylococcus aureus recovered from Gambian women and newborns following an oral dose of intra-partum azithromycin
Genomic investigation of Staphylococcus aureus recovered from Gambian women and newborns following an oral dose of intra-partum azithromycin Open
Background Oral azithromycin given during labour reduces carriage of bacteria responsible for neonatal sepsis, including Staphylococcus aureus. However, there is concern that this may promote drug resistance. Objectives Here, we combine ge…
View article: Genomics for Molecular Epidemiology and Detecting Transmission of Carbapenemase-Producing <i>Enterobacterales</i> in Victoria, Australia, 2012 to 2016
Genomics for Molecular Epidemiology and Detecting Transmission of Carbapenemase-Producing <i>Enterobacterales</i> in Victoria, Australia, 2012 to 2016 Open
Carbapenemase-producing Enterobacterales (CPE) are being increasingly reported in Australia, and integrated clinical and genomic surveillance is critical to effectively manage this threat. We sought to systematically characterize CPE in Vi…
View article: Corrigendum: Five decades of genome evolution in the globally distributed, extensively antibiotic-resistant Acinetobacter baumannii global clone 1
Corrigendum: Five decades of genome evolution in the globally distributed, extensively antibiotic-resistant Acinetobacter baumannii global clone 1 Open
Microbiology Society journals contain high-quality research papers and topical review articles. We are a not-for-profit publisher and we support and invest in the microbiology community, to the benefit of everyone. This supports our princi…
View article: Reconstruction of the Genomes of Drug-Resistant Pathogens for Outbreak Investigation through Metagenomic Sequencing
Reconstruction of the Genomes of Drug-Resistant Pathogens for Outbreak Investigation through Metagenomic Sequencing Open
The study results reported here perfectly demonstrate the power and promise of clinical metagenomics to recover genome sequences of important drug-resistant bacteria and to rapidly provide rich data that inform outbreak investigations and …
View article: The changing landscape of vancomycin-resistant Enterococcus faecium in Australia: a population-level genomic study
The changing landscape of vancomycin-resistant Enterococcus faecium in Australia: a population-level genomic study Open
Emerging vanA-VREfm in Australia is polyclonal, indicating repeat introductions of vanA-VREfm into hospitals and subsequent dissemination. The close relationship to global strains reinforces the need for ongoing screening and control of VR…
View article: The changing landscape of VREfm in Victoria, Australia: a State-wide genomic snapshot
The changing landscape of VREfm in Victoria, Australia: a State-wide genomic snapshot Open
Vancomycin-resistant Enterococcus faecium (VREfm) represent a major source of nosocomial infection worldwide. In Australia, the vanB genotype is dominant; however there has been a recent increase in the predominantly plasmid-encoded vanA g…
View article: Genomic Exploration of Within-Host Microevolution Reveals a Distinctive Molecular Signature of Persistent<i>Staphylococcus aureus</i>Bacteraemia
Genomic Exploration of Within-Host Microevolution Reveals a Distinctive Molecular Signature of Persistent<i>Staphylococcus aureus</i>Bacteraemia Open
Background Large-scale genomic studies of within-host evolution during Staphylococcus aureus bacteraemia (SAB) are needed to understanding bacterial adaptation underlying persistence and thus refining the role of genomics in management of …
View article: Comprehensive antibiotic-linked mutation assessment by Resistance Mutation Sequencing (RM-seq)
Comprehensive antibiotic-linked mutation assessment by Resistance Mutation Sequencing (RM-seq) Open
Acquired mutations are a major mechanism of bacterial antibiotic resistance generation and dissemination, and can arise during treatment of infections. Early detection of sub-populations of resistant bacteria harbouring defined resistance …
View article: Translating genomics into practice for real-time surveillance and response to carbapenemase-producing Enterobacteriaceae: evidence from a complex multi-institutional KPC outbreak
Translating genomics into practice for real-time surveillance and response to carbapenemase-producing Enterobacteriaceae: evidence from a complex multi-institutional KPC outbreak Open
Background Until recently, Klebsiella pneumoniae carbapenemase (KPC)-producing Enterobacteriaceae were rarely identified in Australia. Following an increase in the number of incident cases across the state of Victoria, we undertook a real-…
View article: Additional file 1: of Comprehensive antibiotic-linked mutation assessment by resistance mutation sequencing (RM-seq)
Additional file 1: of Comprehensive antibiotic-linked mutation assessment by resistance mutation sequencing (RM-seq) Open
Table S1. Primer sequences used for mutation reconstruction and RM-seq. Table S2. Whole genome sequencing and SNP/indel calling of reconstructed rpoB mutants. Table S3. Rifampicin and daptomycin MIC of reconstructed mutants. Table S4. Char…
View article: Additional file 3: of Genomic exploration of sequential clinical isolates reveals a distinctive molecular signature of persistent Staphylococcus aureus bacteraemia
Additional file 3: of Genomic exploration of sequential clinical isolates reveals a distinctive molecular signature of persistent Staphylococcus aureus bacteraemia Open
Table S2. List of 182 variants identified in 32 isolates (after excluding unrelated strains). (XLSX 25 kb)
View article: Additional file 4: of Genomic exploration of sequential clinical isolates reveals a distinctive molecular signature of persistent Staphylococcus aureus bacteraemia
Additional file 4: of Genomic exploration of sequential clinical isolates reveals a distinctive molecular signature of persistent Staphylococcus aureus bacteraemia Open
Table S3. List of 81 mutations with predicted modification of protein sequences with COG annotation. (XLSX 18 kb)
View article: Additional file 1: of Genomic exploration of sequential clinical isolates reveals a distinctive molecular signature of persistent Staphylococcus aureus bacteraemia
Additional file 1: of Genomic exploration of sequential clinical isolates reveals a distinctive molecular signature of persistent Staphylococcus aureus bacteraemia Open
Table S1. Microbiological data and sequence metrics of S. aureus isolates included in the study. (XLSX 26 kb)
View article: Topical Antibiotic Use Coselects for the Carriage of Mobile Genetic Elements Conferring Resistance to Unrelated Antimicrobials in Staphylococcus aureus
Topical Antibiotic Use Coselects for the Carriage of Mobile Genetic Elements Conferring Resistance to Unrelated Antimicrobials in Staphylococcus aureus Open
Topical antibiotics, such as mupirocin and fusidic acid, are commonly used in the prevention and treatment of skin infections, particularly those caused by staphylococci. However, the widespread use of these agents is associated with incre…