A5061444276- Genomics and Phylogenetic Studies
- Antibiotic Resistance in Bacteria
- Microbial Community Ecology and Physiology
- Bacterial Genetics and Biotechnology
- Algal biology and biofuel production
- Plant-Microbe Interactions and Immunity
- Bacteriophages and microbial interactions
- Plant Pathogenic Bacteria Studies
- Vibrio bacteria research studies
- Legume Nitrogen Fixing Symbiosis
- Bacterial biofilms and quorum sensing
- Methane Hydrates and Related Phenomena
- RNA and protein synthesis mechanisms
- Metabolomics and Mass Spectrometry Studies
- Microbial Metabolic Engineering and Bioproduction
- Mycobacterium research and diagnosis
- Drug Transport and Resistance Mechanisms
- Protist diversity and phylogeny
- Botulinum Toxin and Related Neurological Disorders
- Clostridium difficile and Clostridium perfringens research
- Antimicrobial Resistance in Staphylococcus
- Gut microbiota and health
- Aquaculture disease management and microbiota
- Biofuel production and bioconversion
- Trace Elements in Health
Macquarie University
2015-2024
ARC Centre of Excellence in Synthetic Biology
2021-2024
IE University
2020
St. Francis Xavier University
2018
Western Sydney University
2015
Australian Genome Research Facility
2011
Australian Wine Research Institute
2011
The University of Sydney
1999-2007
We provide here a comparative genome analysis of ten strains within the Pseudomonas fluorescens group including seven new genomic sequences. These exhibit diverse spectrum traits involved in biological control and other multitrophic interactions with plants, microbes, insects. Multilocus sequence placed three sub-clades, which was reinforced by high levels synteny, size core genomes, relatedness orthologous genes between sub-clade. The heterogeneity P. reflected large its pan-genome, makes...
All cellular life contains an extensive array of membrane transport proteins. The vast majority these transporters have not been experimentally characterized. We developed a bioinformatic pipeline to identify and annotate complete sets in any sequenced genome. This is now fully automated enabling it better keep pace with the accelerating rate genome sequencing. manuscript describes TransportDB 2.0 (http://www.membranetransport.org/transportDB2/), completely updated version TransportDB, which...
Pseudomonas aeruginosa PA7 is a non-respiratory human isolate from Argentina that multiresistant to antibiotics. We first sequenced gyrA, gyrB, parC, parE, ampC, ampR, and several housekeeping genes found taxonomic outlier. report here the complete sequence of 6,588,339 bp genome, which has only about 95% overall identity other strains. multiple novel genomic islands total 51 occupied regions plasticity. These include antibiotic resistance genes, parts transposons, prophages, pKLC102-related...
Abstract Plastic pollution is a global threat to marine ecosystems. litter can leach variety of substances into environments; however, virtually nothing known regarding how this affects photosynthetic bacteria at the base food web. To address this, we investigated effect plastic leachate exposure on Prochlorococcus , widely considered most abundant organism Earth and vital contributors primary production carbon cycling. Two strains representing distinct ecotypes were exposed from common...
Summary Pseudomonas is a large and diverse genus of Gammaproteobacteria . To provide framework for discovery evolutionary taxonomic relationships these bacteria, we compared the genomes type strains 163 species 3 additional subspecies , including 118 sequenced herein. A maximum likelihood phylogeny 166 based on protein sequences 100 single‐copy orthologous genes revealed thirteen groups composed two to sixty three each. Pairwise average nucleotide identities alignment fractions were...
ABSTRACT Bacillus megaterium is deep-rooted in the phylogeny, making it an evolutionarily key species and of particular importance understanding genome evolution, dynamics, plasticity bacilli. B. a commercially available, nonpathogenic host for biotechnological production several substances, including vitamin B 12 , penicillin acylase, amylases. Here, we report analysis first complete sequences two important strains, plasmidless strain DSM319 QM B1551, which harbors seven indigenous...
The GacS/GacA signal transduction system is a central regulator in Pseudomonas spp., including the biological control strain P. fluorescens Pf-5, which controls production of secondary metabolites and exoenzymes that suppress plant pathogens. A whole genome oligonucleotide microarray was developed for Pf-5 used to assess global transcriptomic consequences gacA mutation Pf-5. In cultures at transition from exponential stationary growth phase, GacA significantly influenced transcript levels...
Abstract Metagenomic data sets were generated from samples collected along a coastal to open ocean transect between Southern California Bight and Current waters during seasonal upwelling event, providing an opportunity examine the impact of episodic pulses cold nutrient-rich water into surface microbial communities. The set consists ∼5.8 million predicted proteins across seven sites, three different size classes: 0.1–0.8, 0.8–3.0 3.0–200.0 μm. Taxonomic metabolic analyses suggest that...
ABSTRACT Acinetobacter baumannii has become a major problem in the clinical setting with prevalence of infections caused by multidrug-resistant strains on increase. Nevertheless, only limited number molecular mechanisms involved success A. as human pathogen have been described. In this study, we examined virulence features hypermotile derivative strain ATCC 17978, which was found to display enhanced adherence pneumocytes and elevated levels lethality toward Caenorhabditis elegans nematodes....
Plants live in association with microorganisms that positively influence plant development, vigor, and fitness response to pathogens abiotic stressors. The bulk of the microbiome is concentrated belowground at root-soil interface. Plant roots secrete carbon-rich rhizodeposits containing primary secondary low molecular weight metabolites, lysates, mucilages. These exudates provide nutrients for soil modulate their affinity host plants, but details this process are largely unresolved. We...
Many sequenced strains of Acinetobacter baumannii are established nosocomial pathogens capable resistance to multiple antimicrobials. Community-acquired A. in contrast, comprise a minor proportion all infections and highly susceptible antimicrobial treatment. However, these also present acute clinical manifestations associated with high reported rates mortality. We report the complete 3.70 Mbp genome D1279779, previously isolated from bacteraemic infection an Indigenous Australian; this...
The Inland Pacific Northwest (IPNW) encompasses 1.6 million cropland hectares and is a major wheat-producing area in the western United States. climate throughout region semi-arid, making availability of water significant challenge for IPNW agriculture. Much attention has been given to uncovering effects stress on physiology wheat dynamics its soilborne diseases. In contrast, impact soil moisture establishment activity microbial communities rhizosphere dryland remains poorly understood. We...
Summary Bacillus pseudofirmus OF4 is an extreme but facultative alkaliphile that grows non‐fermentatively in a pH range from 7.5 to above 11.4 and can withstand large sudden increases external pH. It model organism for studies of bioenergetics at high pH, which energy demands are higher than neutral because both cytoplasmic homeostasis ATP synthesis require more energy. The also tolerates > 9.0 values the capacity exceeded, manages other stresses exacerbated alkaline e.g. sodium,...
Staphylococcus capitis is an opportunistic pathogen of the coagulase negative staphylococci (CoNS). Functional genomic studies S. have thus far been limited by a lack available complete genome sequences. Here, we determined closed and methylome using Single Molecule Real Time (SMRT) sequencing. The strain, AYP1020, harbors single circular chromosome 2.44 Mb encoding 2304 predicted proteins, which smallest all staphylococcal genomes sequenced to date. AYP1020 two large mobile genetic...
Multidrug efflux pumps provide clinically significant levels of drug resistance in a number Gram-negative hospital-acquired pathogens. These pathogens frequently carry dozens genes encoding putative multidrug pumps. However, it can be difficult to determine how many these actually mediate antimicrobial efflux, and even more challenging identify the regulatory proteins that control expression In this study, we developed an innovative high-throughput screening method, combining transposon...
Substrates of most transport proteins have not been identified, limiting our understanding their role in physiology and disease. Traditional identification methods use assays with radioactive compounds, but they are technically challenging many compounds unavailable form or prohibitively expensive, precluding large-scale trials. Here, we present a high-throughput screening method that can identify candidate substrates from libraries unlabeled compounds. The assay is based on the principle...
The first row transition metal ions zinc and copper are essential to the survival of many organisms, although in excess these associated with significant toxicity. Here, we examined impact stress on Acinetobacter baumannii, a common opportunistic pathogen. We show that extracellular induces copper-specific depletion phenotype A. baumannii ATCC 17978. Supplementation not only fails rescue this phenotype, but further exacerbates depletion. Extensive analysis 17978 genome identified 13 putative...
ABSTRACT Studies of the Vibrio cholerae population, using molecular typing techniques, have shown existence several pathogenic clones, mainly sixth-pandemic, seventh-pandemic, and U.S. Gulf Coast clones. However, relationship clones to environmental V. isolates remains unclear. A previous study determine phylogeny by sequencing asd (aspartate semialdehyde dehydrogenase) gene showed that had very different sequences which fell into separate lineages in population. As trees drawn from a single...
In addition to harbouring intestinal symbionts, some animal species also possess intracellular symbiotic microbes. The relative contributions of gut-resident and symbionts host metabolism, how they coevolve are not well understood. Cockroaches the termite Mastotermes darwiniensis present a unique opportunity examine evolution spatially separated as harbour gut symbiont Blattabacterium cuenoti . genomes B. from M. social wood-feeding cockroach Cryptocercus punctulatus each missing most...
Summary Located in the Northern Territory of Australia, Ranger uranium mine is directly adjacent to UNESCO World Heritage listed Kakadu National Park, with rehabilitation targets needed ensure site can be incorporated into park following mine's closure 2026. This study aimed understand impact concentration on microbial communities, order identify and describe potential breakpoints ecosystem services. first report situ deployment uranium‐spiked sediments along a gradient (0–4000 mg U kg −1 ),...