A5088030110- Microbial Community Ecology and Physiology
- Genomics and Phylogenetic Studies
- Marine Sponges and Natural Products
- Marine and coastal plant biology
- Coral and Marine Ecosystems Studies
- Microbial Natural Products and Biosynthesis
- Gut microbiota and health
- Aquaculture disease management and microbiota
- Marine Biology and Ecology Research
- Bacteriophages and microbial interactions
- Bacterial biofilms and quorum sensing
- Coastal wetland ecosystem dynamics
- Soil Carbon and Nitrogen Dynamics
- Synthetic Organic Chemistry Methods
- Seaweed-derived Bioactive Compounds
- Methane Hydrates and Related Phenomena
- Antibiotic Resistance in Bacteria
- Marine Biology and Environmental Chemistry
- CRISPR and Genetic Engineering
- Evolution and Genetic Dynamics
- Ocular Surface and Contact Lens
- Molecular Biology Techniques and Applications
- Biotechnology and Related Fields
- Ocular Infections and Treatments
- Bioeconomy and Sustainability Development
UNSW Sydney
2016-2025
Environmental Earth Sciences
2017-2025
Sydney Institute of Marine Science
2020
Gold Coast Health
2020
John Wiley & Sons (United States)
2019
Ecological Society of America
2019
Institute of Technology Carlow
2015
Muséum national d'Histoire naturelle
2014
J. Craig Venter Institute
2009
Metagenomics applies a suite of genomic technologies and bioinformatics tools to directly access the genetic content entire communities organisms. The field metagenomics has been responsible for substantial advances in microbial ecology, evolution, diversity over past 5 10 years, many research laboratories are actively engaged it now. With growing numbers activities also comes plethora methodological knowledge expertise that should guide future developments field. This review summarizes...
The principles underlying the assembly and structure of complex microbial communities are an issue long-standing concern to field ecology. We previously analyzed community membership bacterial associated with green macroalga Ulva australis , proposed a competitive lottery model for colonization algal surface in attempt explain surprising lack similarity species composition across different samples. Here we extend previous study by investigating link between function these communities, using...
Many marine bacteria have evolved to grow optimally at either high (copiotrophic) or low (oligotrophic) nutrient concentrations, enabling different species colonize distinct trophic habitats in the oceans. Here, we compare genome sequences of two bacteria, Photobacterium angustum S14 and Sphingopyxis alaskensis RB2256, that serve as useful model organisms for copiotrophic oligotrophic modes life specifically relate genomic features strategy these define their molecular mechanisms adaptation....
Abstract Sponges (phylum Porifera) are early-diverging metazoa renowned for establishing complex microbial symbioses. Here we present a global Porifera microbiome survey, set out to establish the ecological and evolutionary drivers of these host–microbe interactions. We show that sponges reservoir exceptional diversity major contributors total world’s oceans. Little commonality in species composition or structure is evident across phylum, although symbiont communities characterized by...
Sequencing of 16S rRNA genes has become a powerful technique to study microbial communities and their responses towards changing environmental conditions in various ecosystems. Several tools have been developed for the prediction functional profiles from gene sequencing data, because numerous questions ecosystem ecology require knowledge community functions addition taxonomic composition. However, accuracy these relies on information derived genomes available public databases, which are...
Microorganisms often form symbiotic relationships with eukaryotes, and the complexity of these can range from those one single dominant symbiont to associations hundreds species. Microbial symbionts occupying equivalent niches in different eukaryotic hosts may share functional aspects, convergent genome evolution has been reported for simple systems insects. However, complex communities, it is largely unknown how prevalent equivalence whether functions are conducted by evolutionarily...
Many biochars have a complex carbon lattice structure with aromatic and aliphatic domains, acidic basic groups, vacancies, metallic non-metallic elements, free radicals. Biochars also separate mineral oxide, silicate salt phases, small large organic molecules. In the rhizosphere, such constituents can be involved in chemical biological processes along soil–microbe–plant continuum, including nutrient cycling, metal chelation stabilization, redox reactions, radical scavenging. It is...
Viruses are abundant ubiquitous members of microbial communities and in the marine environment affect population structure nutrient cycling by infecting lysing primary producers. Antarctic lakes microbially dominated ecosystems supporting truncated food webs which viruses exert a major influence on loop. Here we report discovery virophage (relative recently described Sputnik virophage) that preys phycodnaviruses infect prasinophytes (phototrophic algae). By performing metaproteogenomic...
Article17 July 2012Open Access Global biogeography of SAR11 marine bacteria Mark V Brown School Biotechnology and Biomolecular Sciences, The University New South Wales, Sydney, Australia Evolution Ecology Research Centre, Search for more papers by this author Federico M Lauro Matthew Z DeMaere Les Muir CSIRO Marine Atmospheric Research, Castray Esplanade, Hobart, Tasmania, David Wilkins Torsten Thomas Centre Bio-Innovation, Martin J Riddle Australian Antarctic Division, Channel Highway,...
Marine sponges (phylum Porifera) are a diverse, phylogenetically deep-branching clade known for forming intimate partnerships with complex communities of microorganisms. To date, 16S rRNA gene sequencing studies have largely utilised different extraction and amplification methodologies to target the microbial limited number sponge species, severely limiting comparative analyses diversity structure. Here, we provide an extensive standardised dataset that will facilitate microbiome comparisons...
To determine if there is a core ocular surface microbiome and whether are microbial community changes over time, the conjunctiva of 45 healthy subjects were sampled at three time points months processed using culture-dependent -independent methods. Contaminant taxa removed linear regression model abundances in negative controls as predictor subject samples. Both cultured cell counts sequencing indicated low biomass on surface. No species was found all times or any one time. After removal...
Coral reefs are facing unprecedented pressure on local and global scales. Sensitive rapid markers for ecosystem stress urgently needed to underpin effective management restoration strategies. Although the fundamental contribution of microbes stability functioning coral is widely recognised, it remains unclear how different reef microbiomes respond environmental perturbations whether sensitive enough predict anomalies that can lead stress. However, lack microbial baselines hinders our ability...
The dichotomy between high microbial abundance (HMA) and low (LMA) sponges has been observed in sponge-microbe symbiosis, although the extent of this pattern remains poorly unknown. We characterized differences microbiomes HMA (n = 19) LMA 17) (575 specimens) present Sponge Microbiome Project. were associated with richer more diverse than sponges, as indicated by comparison alpha diversity metrics. Microbial community structures differed considering Operational Taxonomic Units (OTU)...
Despite advances in sequencing, lack of standardization makes comparisons across studies challenging and hampers insights into the structure function microbial communities multiple habitats on a planetary scale. Here we present multi-omics analysis diverse set 880 community samples collected for Earth Microbiome Project. We include amplicon (16S, 18S, ITS) shotgun metagenomic sequence data, untargeted metabolomics data (liquid chromatography-tandem mass spectrometry gas chromatography...
The deep sea harbors the majority of microbial biomass in ocean and is a key site for organic matter (OM) remineralization storage biosphere. Microbial metabolism greatly controlled by generally depleted but periodically fluctuating supply OM. Currently, little known about metabolic potentials dominant deep-sea microbes to cope with variable OM inputs, especially those living hadal trenches-the deepest part ocean.In this study, we report first extensive examination sediment Chloroflexi,...
Since its introduction a decade ago, whole-genome shotgun sequencing (WGS) has been the main approach for producing cost-effective and high-quality genome sequence data. Until now, Sanger technology that served as platform WGS not truly challenged by emerging technologies. The recent of pyrosequencing-based 454 (454 Life Sciences, Branford, CT) offers very promising alternative incorporation in WGS. In this study, we evaluated utility cost-effectiveness hybrid using 3730xl data to generate...
We generated draft genome sequences for two cold-adapted Archaea, Methanogenium frigidum and Methanococcoides burtonii, to identify genotypic characteristics that distinguish them from Archaea with a higher optimal growth temperature (OGT). Comparative genomics revealed trends in amino acid tRNA composition, structural features of proteins. Proteins the are characterized by content noncharged polar acids, particularly Gln Thr lower hydrophobic Leu. Sequence data nine methanogen genomes (OGT...