Life Sciences Commons^™

Complete Genome Sequences Of Evolutionary Clade C-Iii Strains Of Clostridioides (Clostridium) Difficile Isolated From The Environment In Western Australia, Nirajmohan Shivaperumal, Natasza M. R. Hain-Saunders, Barbara J. Chang, Thomas V. Riley, Daniel R. Knight

Research outputs 2022 to 2026

Clostridioides (Clostridium) difficile in the environment is thought to contribute to C. difficile infection in community settings. Here, we provide complete genome assemblies for two esculin hydrolysis-negative strains of C. difficile that were isolated from soils in Western Australia; the strains produce white colonies on chromogenic media and belong to evolutionarily divergent clade C-III.

Heterogeneous Tidal Marsh Soil Organic Carbon Accumulation Among And Within Temperate Estuaries In Australia, Connor Gorham, Paul S. Lavery, Jeffrey J. Kelleway, Pere Masque, Oscar Serrano

Research outputs 2014 to 2021

The scarcity of data on tidal marsh soil accumulation rates (SAR) and soil organic carbon accumulation rates (CAR) globally precludes a comprehensive assessment of the role of tidal marshes in climate change mitigation and adaptation. Particularly few data exist from the southern hemisphere and for Australia in particular, which contains ~24% of globally recognised tidal marsh extent. Here we estimate SAR and CAR over the last 70 years using 210Pb-based geochronologies in temperate estuarine tidal marsh ecosystems in southern Western Australia (WA). Specifically, we assessed tidal marsh ecosystems situated in two geomorphic settings (marine vs. fluvial deltas) within 10 wave-dominated, …

Contribution Of Seagrass Blue Carbon Toward Carbon Neutral Policies In A Touristic And Environmentally-Friendly Island, Camila Bedulli, Paul S. Lavery, Matt Harvey, Carlos M. Duarte, Oscar Serrano

Research outputs 2014 to 2021

Estimates of organic carbon (C_org) storage by seagrass meadows which consider inter-habitat variability are essential to understand their potential to sequester carbon dioxide (CO₂) and derive robust global and regional estimates of blue carbon storage. In this study, we provide baseline estimates of seagrass extent, and soil C_org stocks and accumulation rates from different seagrass habitats at Rottnest Island (in Amphibolis spp., Posidonia spp., Halophila ovalis, and mixed Posidonia/Amphibolis spp. meadows). The C_org stocks in 0.5 m thick seagrass soil deposits, derived from 24 cores, were 5.1 ± 0.7 kg C_org m^{–2 …}

Organic Chemistry Insights For The Exceptional Soil Carbon Storage Of The Seagrass Posidonia Australis, Oscar Serrano, Mohammad Rozaimi, Paul Lavery, Ronald J. Smernik

Research outputs 2014 to 2021

The high organic carbon (OC) stores in seagrass meadows have led to their recognition as significant Blue Carbon sinks, though the diagenetic conditions that enable OC retention in seagrass soils remain poorly understood. In this study, seagrass soils were sampled from a Posidonia australis meadow in Oyster Harbour (Albany; south-western Australia) to investigate the preservation of sedimentary OC. We analysed soil characteristics (colour, grain size and redox potential), radiocarbon age, and characterised the soil organic matter (OM) using solid state CP/MAS 13C NMR spectroscopy to examine the preservation of OM down the soil profile. There was minimal change in organic …

An Investigation Into The Spatial Distribution, Habitat Selection And Resource Usage Of The Red Fox (Vulpes Vulpes) Inhabiting Urban Reserves Within Perth, Western Australia, Michael Thomas Main

Theses: Doctorates and Masters

I attempted to track a population of urban foxes in Kings Park, but due to collar failure, only one collar was retrieved. The GPS telemetry data from this fox produced home range estimates for minimum convex polygon (MCP) and kernel density (KD) of 0.302 km² and 0.331 km², respectively. The fox was predominantly active at night, with a ten-fold increase in movement during nocturnal periods when compared to daytime movements. Roads and man-made tracks were important for facilitating movement of the fox through its home range, with almost 97% of location fixes recorded within 100m of these features. The fox …

Tropicalisation Of Temperate Seagrass Meadows In Western Australia: Predicting The Impact Of Tropical Herbivorous Fishes On Temperate Seagrass Meadows, Maria Samsonova

Theses: Doctorates and Masters

Rising sea temperatures through climate change produce shifts in the distribution of tropical species to temperate regions, a process termed “tropicalisation”. The poleward expansion of tropical herbivores into temperate seagrass meadows is predicted to increase grazing pressure and alter ecosystem services and processes in these seagrass systems. This study attempted to examine the effects of tropicalisation on temperate seagrass meadows along the western coast of Australia, where the increasing abundance of tropical consumers such as the herbivorous Siganus fuscescens has already been documented. Through the assessment of fish assemblages in seagrass meadows and the grazing levels on seagrass in 2001 …

Quantifying The Heterogeneity Of The Immunoglobulin G N-Glycome In An Ageing Australian Population: The Busselton Healthy Ageing Study, Alyce Russell

Theses: Doctorates and Masters

The use of immunoglobulin G N-glycomics to study chronic non-communicable disorders and other complex phenotypes emerged following the Human Genome Project. The consortium discovered that most phenotypes were too complex to be explained by genetics alone. Thus, the biological importance of epigenetics was recognised; heritable modifications to gene expression rather than the genome itself. Nglycosylation is a form of epigenetic regulation known as a post-translational modification. It stabilises the immunoglobulin G structure and alters downstream responses elicited by the antibody and is extensively studied as a candidate biomarker in the post-genomic era.

The N-glycosylation of immunoglobulin G itself is complex, …

Non-Song Vocalizations Of Humpback Whales In Western Australia, Angela Recalde-Salas, Christine Erbe, Chandra Salgado Kent, Miles Parsons

Research outputs 2014 to 2021

This study presents non-song vocalizations of humpback whales (Megaptera novaeangliae) from two migratory areas off the Western Australian coast: Geographe Bay and Port Hedland. A total of 220 sounds were identified as non-song sounds in 193 h of recordings reviewed. Of those, 68 were measured and qualitatively classified into 17 groups using their spectral features. One group (HW-02) had a high level of variation in terms of spectral slope. However, further classification using statistical classification methods was not possible because of the small sample size. Non-song sound frequencies varied from 9 Hz to 6 kHz, with the majority of sounds …

Snp Population Genetic Data For The Seagrass Halodule Uninervis From Pilbara Region, Western Australia, Kathryn Margaret Mcmahon, Richard Evans

Research Datasets

This dataset contains 80 SNP loci from 15 locations with 25-47 samples per locations. Each column contains data from two alleles. All genotyped samples are included. Prior to population genetic analysis clone mates were identified and removed.

Subcontinental Heat Wave Triggers Terrestrial And Marine, Multi-Taxa Responses, Katinka X. Ruthrof, David D. Breshears, Joseph B. Fontaine, Ray H. Froend, George Matusick, Jatin Kala, Ben P. Miller, Patrick J. Mitchell, Shaun K. Wilson, Mike Van Keulen, Neal J. Enright, Darin J. Law, Thomas Wernberg, Giles E. St. J. Hardy

Research outputs 2014 to 2021

Heat waves have profoundly impacted biota globally over the past decade, especially where their ecological impacts are rapid, diverse, and broad-scale. Although usually considered in isolation for either terrestrial or marine ecosystems, heat waves can straddle ecosystems of both types at subcontinental scales, potentially impacting larger areas and taxonomic breadth than previously envisioned. Using climatic and multi-species demographic data collected in Western Australia, we show that a massive heat wave event straddling terrestrial and maritime ecosystems triggered abrupt, synchronous, and multi-trophic ecological disruptions, including mortality, demographic shifts and altered species distributions. Tree die-off and coral bleaching occurred concurrently in response …

The Value Of Animal Behaviour As A Bio-Indicator Of Restoration Quality, Floyd Holmes

Theses: Doctorates and Masters

Woodland restoration is a complex endeavour, and restoration ecology as a scientific discipline requires constant re-assessments and adjustments if it is to improve outcomes and better provide for biodiversity. The promise of effective restoration is often used to justify destructive processes that affect many of the world’s ecosystems. It is therefore imperative that those promises can be met, which comes down to restoration ecologists’ and land managers’ capacity to predict and facilitate desirable ecological changes in a timely and socio-economically responsible manner. As perspectives have changed, and knowledge has been gained over the past few decades there have been several …

Antibiotic Resistance In Gram Negative Bacteria Isolated From Fish Sold In Western Australia, Hannah Kathleen Robinson

Theses: Doctorates and Masters

Background Information The global misuse and overuse of antibiotics in human medicine and the animal production industry is contributing to the development of antibiotic resistance in bacteria. This is a serious threat to modern medicine and public health. Antibiotic resistant organisms can cause severe infections in humans which are difficult to treat, and in some cases impossible to resolve which can lead to premature death. Several studies have been conducted across the globe to assess the use of antibiotics in the seafood industry and the associated health risks, however, limited studies have recently explored this risk in an Australian setting. …

Across The Indian Ocean: A Remarkable Example Of Trans-Oceanic Dispersal In An Austral Mygalomorph Spider [Dataset], Sophie E. Harrison, Mark S. Harvey, Steven J.B. Cooper, Andrew D. Austin, Michael G. Rix

Research Datasets

The Migidae are a family of austral trapdoor spiders known to show a highly restricted and disjunct distribution pattern. Here, we aim to investigate the phylogeny and historical biogeography of the group, which was previously thought to be vicariant in origin, and examine the biogeographic origins of the genus Moggridgea using a dated multi-gene phylogeny. Moggridgea specimens were sampled from southern Australia and Africa, and Bertmainus was sampled from Western Australia. Sanger sequencing methods were used to generate a robust six marker molecular dataset consisting of the nuclear genes 18S rRNA, 28S rRNA, ITS rRNA, XPNPEP3 and H3 and the …

Across The Indian Ocean: A Remarkable Example Of Trans-Oceanic Dispersal In An Austral Mygalomorph Spider, Sophie E. Harrison, Mark S. Harvey, Steve J.B. Cooper, Andrew D. Austin, Michael G. Rix

Research outputs 2014 to 2021

The Migidae are a family of austral trapdoor spiders known to show a highly restricted and disjunct distribution pattern. Here, we aim to investigate the phylogeny and historical biogeography of the group, which was previously thought to be vicariant in origin, and examine the biogeographic origins of the genus Moggridgea using a dated multi-gene phylogeny. Moggridgea specimens were sampled from southern Australia and Africa, and Bertmainus was sampled from Western Australia. Sanger sequencing methods were used to generate a robust six marker molecular dataset consisting of the nuclear genes 18S rRNA, 28S rRNA, ITS rRNA, XPNPEP3 and H3 and the …

Biodiversity Monitoring Using Environmental Dna: Can It Detect All Fish Species In A Waterbody And Is It Cost Effective For Routine Monitoring?, Lia Smith

Theses: Doctorates and Masters

The challenges associated with environmental monitoring such as the impact on the environment and the financial costs are problems we face when trying to conserve freshwater systems around the world. The need for precise and accurate results that are cost effective is important so that we can achieve our conservation goals.

The overall aim of this study was to explore Next-Generation - metabarcoding for the detection of feral and native freshwater fish species based on the DNA shed by individual organisms into the water column. Cytochrome c oxidase I (COI) primers were developed for this study using DNA from six …

Nocturnal Roost Tree, Roost Site And Landscape Characteristics Of Carnaby's Black-Cockatoo (Calyptorynchus Latirostris) On The Swan Coastal Plain, Candice Le Roux

Theses: Doctorates and Masters

There is limited information on communal roosting in parrot species of Western Australia and other parts of the world. Carnaby’s Black-Cockatoo is an endangered species that forms large nocturnal communal roosts, and for this reason they are an ideal model species to test the characteristics or factors that are associated with roost sites. Known roost sites distributed across the Swan Coastal Plain were identified and selected through the Great Cocky Count project. A minimum of five and maximum of ten individual trees were assessed at 11 roost sites with an overall total of 95 roost trees sampled. I determined the …

Ecology Of Feral Cats Felis Catus And Their Prey In Relation To Shrubland Fire Regimes, Tim S. Doherty

Theses: Doctorates and Masters

Invasive predators are major drivers of global biodiversity loss and their impacts may be worsened by other disturbances such as fire. I examined how the fire history of shrublands influences the ecology of feral cats Felis catus, dingoes Canis dingo and their prey species in Western Australia’s northern Wheatbelt region.

A review of the literature revealed that feral cats inhabit a diverse range of ecosystems worldwide, but are generally recorded most often in habitat types characterised by a mixture of plant growth forms close to ground level. Cat habitat use is influenced by predation/competition, prey availability, shelter availability and …

The Reliability Of An Adolescent Dietary Pattern Identified Using Reduced-Rank Regression: Comparison Of A Ffq And 3 D Food Record, Geeta Appannah, Gerda K. Pot, Therese A. O'Sullivan, Wendy H. Oddy, Susan A. Jebb, Gina L. Ambrosini

Research outputs 2014 to 2021

Despite the increasing use of dietary patterns (DP) to study diet and health outcomes, relatively few studies have examined the reliability of DP using different dietary assessment methods. Reduced-rank regression (RRR) is an emerging statistical method that incorporates a priori information to characterise DP related to specific outcomes of interest. The aim of the present study was to compare DP identified using the RRR method in a FFQ with those in a 3 d food record (FR). Participants were 783 adolescents from the Western Australian Pregnancy (Raine) Cohort Study who completed both a FFQ and FR at 14 years of …

Systematics And Biogeography Of The Australian Burrowing Freshwater Crayfish Genus Engaewa Riekk (Decapoda: Parastacidae), Quinton Burnham

Theses: Doctorates and Masters

The overall aim of this study was to explore the systematics and biogeographic patterns of the freshwater crayfish genus Engaewa Riek, a strongly burrowing freshwater crayfish restricted to the coastal corner of south-western Australia (SWA). The genus Engaewa is a Gondwanan relict with great potential as a marker of historical processes, due to its high habitat specificity and low dispersal ability. This study comprises an extensive taxonomic and phylogenetic revision of the genus Engaewa (using both molecular and morphological data), a detailed study of its distribution and uses the knowledge gained to explore biogeographic patterns in the biodiversity hotspot of …

Fate Of Eucalyptus Marginata Seed From Canopy-Store To Emergence In The Northern Jarrah Forests Of Western Australia: Research To Help Improve Regeneration Following Shelterwood Treatment, Jeffrey Cargill

Theses: Doctorates and Masters

The establishment of seedling regeneration is a key process in and indicator of ecologically sustainable forest management. The availability of seed and the creation of a suitable seedbed are recognised as important factors limiting seedling recruitment. A silvicultural method commonly used across northern and eastern jarrah forest blocks is shelterwood cutting. The primary objective of treating jarrah forest to shelterwood is to promote seedling regeneration in areas lacking sufficient advanced growth. Despite the widespread and progressive implementation of the shelterwood method, its application in jarrah forest has shown varying degrees of success.

This thesis sought to investigate and better understand …

Release Of Dissolved Organic Carbon From Seagrass Wrack And Its Implications For Trophic Connectivity, Paul S. Lavery, Kathryn M. Mcmahon, Julia Weyers, Mary C. Boyce, Carolyn Elizabeth Oldham

Research outputs 2013

ABSTRACT: The export of old leaves and stems (wrack) from seagrass meadows provides a mechanism for trophic connectivity among coastal ecosystems. As little of this wrack is consumed by mesograzers, leached dissolved organic carbon (DOC) may determine the importance of wrack as a trophic subsidy. However, few studies have examined the effect of seagrass type or age on the release of DOC or its bioavailability. We examined the amount and composition of DOC released from different wrack: Posidonia sinuosa, Amphibolis antarctica and the alga Laurencia sp. We then examined the effect of age on DOC leaching from P. sinuosa wrack. …

Wounded Kelps: Patterns And Susceptibility To Breakage, Thibaut De Bettignies, Mads Thomsen, Thomas Wernberg

Research outputs 2012

Kelps are highly productive seaweeds predominantly found in wave-exposed environments. Physical and biological processes such as sand abrasion, whiplash and grazing can wound kelp tissue, potentially weakening its ability to withstand wave forces. Despite the ecological importance of kelp tissue loss, few studies have quantified wounding patterns in kelps or how wounding might affect the biomechanical properties of kelps. We quantified the prevalence of wounds on 360 Ecklonia radiata kelps collected across 3 different reef lines (levels of wave exposure) in April (autumn), June (early winter), August (winter) and October (early spring) (i.e. before, during and after peak wave activity). …

Drift Algae, An Invasive Snail And Elevated Temperature Reduce Ecological Performance Of A Warm-Temperate Seagrass, Through Additive Effects, H Hoffle, Thomas Wernberg, Mads Thomsen, M Holmer

Research outputs 2012

Seagrasses are under pressure from multiple concurrent threats, including rising temperatures, invasive species and nutrient-driven algal accumulations. We quantified the abundance of drift algae and the invasive snail Batillaria australis in 3 Halophila ovalis seagrass beds in the Swan River Estuary (Perth, Western Australia), and tested in an aquarium experiment for interactive effects of temperature (21 vs. 27°C), cover of drift algae Chaetomorpha linum (0 vs. 1.4 kg fresh wt m -2) and presence (0 vs. 120 snails m -2) of B. australis on the ecological performance of H. ovalis. The survey showed that drift algae varied considerably between sites …

Fussy Feeders: Phyllosoma Larvae Of The Western Rocklobster (Panulirus Cygnus) Demonstrate Prey Preference, M I Saunders, P A Thompson, A G Jeffs, Christin Sawstrom, N Sachlikidis, L E Beckley, A M Waite

Research outputs 2012

The Western Rocklobster (Panulirus cygnus) is the most valuable single species fishery in Australia and the largest single country spiny lobster fishery in the world. In recent years a well-known relationship between oceanographic conditions and lobster recruitment has become uncoupled, with significantly lower recruitment than expected, generating interest in the factors influencing survival and development of the planktonic larval stages. The nutritional requirements and wild prey of the planktotrophic larval stage (phyllosoma) of P. cygnus were previously unknown, hampering both management and aquaculture efforts for this species. Ship-board feeding trials of wild-caught mid-late stage P. cygnus phyllosoma in the eastern …

The Impact Of Black Swan (Cygnus Atratus) Grazing On The Seagrass Halophila Ovalis In The Lower Swan River Estuary, Gary Choney

Theses: Doctorates and Masters

Grazing is an important ecosystem process, influencing community structure and rates of ecosystem processes. Although grazing on seagrasses is generally considered to be minor in many temperate regions of the world, waterfowl are often considered significant grazers in temperate lagoons and estuaries. This study examined spatial and temporal variation in swan abundance, grazing pressure and the impact grazing has on seagrass. Little is known on how grazing rates vary on larger water bodies in the southern hemisphere at different times of year and whether temporal changes in grazing rates affect the ability of seagrasses to tolerate grazing. The plant response …

Turban Snails As Habitat For Foliose Algae: Contrasting Geographical Patterns In Species Richness, Thomas Wernberg, Fernando Tuya, Mads Thomsen, Gary Kendrick

Research outputs pre 2011

Understanding patterns of species richness is a major goal for ecologists, especially in space-limited habitats where many organisms live on top of others (epibiosis, e.g. by algae growing on gastropods in marine environments). We tested the hypotheses that species richness of epiflora on the gastropod Turbo torquatus would not differ between regions with similarly rich algal floras, and that epifloral richness would increase with increasing gastropod size. Macroalgal floras of Hamelin Bay (HB), Marmion (M), Jurien Bay (JB) and Kalbarri (K), Western Australia, ranged from ~20 to 40 species reef–1 (JB = HB = M ≥ K). Epiflora on small …

Trophic Implications Of Light Reductions For Amphibolis Griffithii Seagrass Fauna, Adam Gartner

Theses: Doctorates and Masters

The ongoing threat of seagrass loss from reduced light availability, coupled with our lack of knowledge of associated trophic responses has motivated this characterization of the flow-on effects of light reductions to Amphibolis griffithii seagrass fauna. Recently, field manipulations of varying light reductions, induced disturbances in a A. griffithii seagrass meadow that have been shown to effect potential food resources and the structural complexity of seagrass habitats for macroinvertebrates. This offered the opportunity to assess the flow-on effects to seagrass for fauna, a topic that has seldom been examined. This study investigated the effects of different light reduction intensity (high: …

Historical Datasets Of Dugong (Dugong Dugon) Observations In The Kimberley Region Of Western Australia - Data Report - Report No. 2008-03, David K. Holley, R. I.T. Prince

Research outputs pre 2011

Research Need and Objective :

Many sections of the northern WA coastline have become heavily industrialised in the last three decades particularly throughout the Pilbara region where offshore and onshore oil and gas exploration and processing facilities are abundant. There have been recent moves to develop similar industry along the Kimberley coast to access the Browse Basin, a 140,000 Km2 offshore gas field approximately 300km off the Kimberley Coast. This has resulted in extensive debate and the need to define the natural values of this region, which is considered to be one of the world’s most ecologically diverse (WWF 2008). …

A Comparison Of Logging And Fire Disturbance On Biophysical Attributes Of The Northern Jarrah Forest, Alexander W. Watson

Theses: Doctorates and Masters

Ecologically sustainable forest management (ESFM) serves dual purposes: 1) to ensure the conservation of biodiversity, and 2) in production forest (forest managed for the production of timber and woodchips), to maintain an economically viable timber industry in perpetuity. A central axiom of ESFM is that any manipulation of a forest ecosystem should emulate the `natural' disturbance patterns of the forest. This is based on the assumption that forest communities have evolved with endogenous disturbance regimes and will be better able to cope if exogenous disturbance (e.g., logging) remains within natural levels and spatial and temporal bounds of intensity. The objective …

A Comparison Of Seagrass Communities At Varying Proximity To A Low-Density Mussel-Line Aquaculture In King George Sound, Western Australia, John A. Eyres

Theses: Doctorates and Masters

Increasingly mussel-line aquaculture is recognised as a potential threat to seagrass. Sites suitable for mussel-line aquaculture are often in sheltered waters containing seagrass. Despite this; few studies have examined the risk of mussel-line aquaculture to seagrass ecosystems. The objective of this study is to determine how low-density, mussel-line aquaculture might influence the underlying seagrass ecosystem.