Physical Sciences and Mathematics Commons^™

Gut Microbial Communities Of Hybridising Pygmy Angelfishes Reflect Species Boundaries, Megan J. Huggett, Jean-Paul A. Hobbs, Federico Vitelli, Michael Stat, Tane H. Sinclair-Taylor, Michael Bunce, Joseph D. Dibattista

Research outputs 2022 to 2026

Hybridisation and introgression of eukaryotic genomes can generate new species or subsume existing ones, with direct and indirect consequences for biodiversity. An understudied component of these evolutionary forces is their potentially rapid effect on host gut microbiomes, and whether these pliable microcosms may serve as early biological indicators of speciation. We address this hypothesis in a field study of angelfishes (genus Centropyge), which have one of the highest prevalence of hybridisation within coral reef fish. In our study region of the Eastern Indian Ocean, the parent fish species and their hybrids cohabit and display no differences in their diet, behaviour, …

Seagrass Posidonia Escarpments Support High Diversity And Biomass Of Rocky Reef Fishes, Oscar Serrano Gras, Karina Inostroza, Glenn Hyndes, Alan M. Friedlander, Eduard Serrano, Caitlin Rae, Enric Ballesteros

Research outputs 2022 to 2026

Although seagrass meadows form a relatively homogenous habitat, escarpments, which form three-dimensional structures and originate from the erosion of seagrass peat, can provide important habitat for reef fishes. Here, we compare fish assemblages and habitat structural complexity among seagrass Posidonia australis escarpments and canopies, as well as limestone reef habitats, to understand the role of seagrass escarpments as reef fish habitat in Shark Bay, Western Australia. The total number of fish species, fish biomass, and top predator biomass were significantly higher in seagrass escarpments and reef habitats than in seagrass canopies due to lower habitat structural complexity and thus becoming …

Breeding And Feeding Habitat Selection By An Island Endemic Bird May Increase Its Vulnerability To Climate Change, Paul M. Radley, Eddie J. B. Van Etten, David Blake, Robert A. Davis

Research outputs 2014 to 2021

Characterizing patterns of habitat use is an important first step for effective conservation planning. Species restricted to low-lying islands are at greatest risk from climate change-related sea level rise, and requirements for breeding and foraging habitat may determine their risk from tidal inundation. The endangered Micronesian Scrubfowl (Megapodius laperouse senex) is a model species for understanding these impacts. This species faces the cumulative challenges of tourist visitation, invasive species, and rising sea levels, yet little is understood about its habitat use in the Rock Islands Southern Lagoon Conservation Area (RISL) of Palau. We studied the habitat requirements of this mound-nesting …

Proteome And Nutritional Shifts Observed In Hordein Double-Mutant Barley Lines, Utpal Bose, Angéla Juhász, Ronald Yu, Mahya Bahmani, Keren Byrne, Malcolm Blundell, James A. Broadbent, Crispin A. Howitt, Michelle L. Colgrave

Research outputs 2014 to 2021

Lysine is the most limiting essential amino acid in cereals, and efforts have been made over the decades to improve the nutritional quality of these grains by limiting storage protein accumulation and increasing lysine content, while maintaining desired agronomic traits. The single lys3 mutation in barley has been shown to significantly increase lysine content but also reduces grain size. Herein, the regulatory effect of the lys3 mutation that controls storage protein accumulation as well as a plethora of critically important processes in cereal seeds was investigated in double mutant barley lines. This was enabled through the generation of three hordein …

Led Illumination Spectrum Manipulation For Increasing The Yield Of Sweet Basil (Ocimum Basilicum L.), Md Momtazur Rahman, Mikhail Vasiliev, Kamal Alameh

Research outputs 2014 to 2021

© 2021 by the authors. Licensee MDPI, Basel, Switzerland. Manipulation of the LED illumination spectrum can enhance plant growth rate and development in grow tents. We report on the identification of the illumination spectrum required to significantly enhance the growth rate of sweet basil (Ocimum basilicum L.) plants in grow tent environments by controlling the LED wavebands illuminating the plants. Since the optimal illumination spectrum depends on the plant type, this work focuses on identifying the illumination spectrum that achieves significant basil biomass improvement compared to improvements reported in prior studies. To be able to optimize the illumination spectrum, several …

Breeding And Feeding Habitat Selection By An Island Endemic Bird May Increase Its Vulnerability To Climate Change [Dataset], Paul Radley, Eddie Van Etten, David Blake, Robert Davis

Research Datasets

Characterising patterns of habitat use is an important first step for effective conservation planning. Species restricted to low-lying islands are at greatest risk from climate change-related sea level rise, and requirements for breeding and foraging habitat may determine their risk from tidal inundation. The endangered Micronesian Scrubfowl (Megapodius laperouse senex) is a model species for understanding these impacts. This species faces the cumulative challenges of tourist visitation, invasive species, and rising sea levels, yet little is understood about its habitat use in the Rock Islands Southern Lagoon Conservation Area (RISL) of Palau. We studied the habitat requirements of …

A Novel Method For Detecting Morphologically Similar Crops And Weeds Based On The Combination Of Contour Masks And Filtered Local Binary Pattern Operators, Vi Nguyen Thanh Le, Selam Ahderom, Beniamin Apopei, Kamal Alameh

Research outputs 2014 to 2021

Background: Weeds are a major cause of low agricultural productivity. Some weeds have morphological features similar to crops, making them difficult to discriminate. Results: We propose a novel method using a combination of filtered features extracted by combined Local Binary Pattern operators and features extracted by plant-leaf contour masks to improve the discrimination rate between broadleaf plants. Opening and closing morphological operators were applied to filter noise in plant images. The images at 4 stages of growth were collected using a testbed system. Mask-based local binary pattern features were combined with filtered features and a coefficient k. The classification of …

Toward Collaborative Open Data Science In Metabolomics Using Jupyter Notebooks And Cloud Computing, Kevin M. Mendez, Leighton Pritchard, Stacey N. Reinke, David I. Broadhurst

Research outputs 2014 to 2021

Background

A lack of transparency and reporting standards in the scientific community has led to increasing and widespread concerns relating to reproduction and integrity of results. As an omics science, which generates vast amounts of data and relies heavily on data science for deriving biological meaning, metabolomics is highly vulnerable to irreproducibility. The metabolomics community has made substantial efforts to align with FAIR data standards by promoting open data formats, data repositories, online spectral libraries, and metabolite databases. Open data analysis platforms also exist; however, they tend to be inflexible and rely on the user to adequately report their methods …

Australian Vegetated Coastal Ecosystems As Global Hotspots For Climate Change Mitigation, Oscar Serrano, Catherine E. Lovelock, Trisha B. Atwood, Peter I. Macreadie, Robert Canto, Stuart Phinn, Ariane Arias-Ortiz, Le Bai, Jeff Baldock, Camila Bedulli, Paul Carnell, Rod M. Connolly, Paul Donaldson, Alba Esteban, Carolyn J. Ewers Lewis, Bradley D. Eyre, Matthew A. Hayes, Pierre Horwitz, Lindsay B. Hutley, Christopher R. J. Kavazos, Jeffrey J. Kelleway, Gary A. Kendrick, Kieryn Kilminster, Anna Lafratta, Shing Lee, Paul S. Lavery, Damien T. Maher, Núria Marbà, Pere Masque, Miguel A. Mateo, Richard Mount, Peter J. Ralph, Chris Roelfsema, Mohammad Rozaimi, Radhiyah Ruhon, Cristian Salinas, Jimena Samper-Villarreal, Jonathan Sanderman, Christian J. Sanders, Isaac Santos, Chris Sharples, Andrew D. L. Steven, Toni Cannard, Stacey M. Trevathan-Tackett, Carlos M. Duarte

Research outputs 2014 to 2021

Policies aiming to preserve vegetated coastal ecosystems (VCE; tidal marshes, mangroves and seagrasses) to mitigate greenhouse gas emissions require national assessments of blue carbon resources. Here, we present organic carbon (C) storage in VCE across Australian climate regions and estimate potential annual CO₂ emission benefits of VCE conservation and restoration. Australia contributes 5–11% of the C stored in VCE globally (70–185 Tg C in aboveground biomass, and 1,055–1,540 Tg C in the upper 1 m of soils). Potential CO₂ emissions from current VCE losses are estimated at 2.1–3.1 Tg CO₂-e yr^-1, increasing annual CO …

Seagrass Soil Archives Reveal Centennial-Scale Metal Smelter Contamination While Acting As Natural Filters, Anna Lafratta, O Serrano, Pere Masque, Miguel Mateo, Milena Fernandes, Sam Gaylard, Paul Lavery

Research outputs 2014 to 2021

The upper Spencer Gulf in South Australia hosts the world's largest single stream Pb-Zn smelter, which has caused environmental and health issues related to elevated metal concentrations in the surrounding environment. The area also has extensive seagrass meadows, occupying >4000 km². We reconstructed the fluxes of heavy metals over the last ~3000 years through a multi-parameter study of the soil archives formed by the seagrass Posidonia australis. Pb, Zn and Cd concentrations increased up to 9-fold following the onset of smelter operations in the 1880s, and the stable Pb isotopic signatures confirmed the smelter has been the main …

Effective Plant Discrimination Based On The Combination Of Local Binary Pattern Operators And Multiclass Support Vector Machine Methods, Vi N T Le, Beniamin Apopei, Kamal Alameh

Research outputs 2014 to 2021

Accurate crop and weed discrimination plays a critical role in addressing the challenges of weed management in agriculture. The use of herbicides is currently the most common approach to weed control. However, herbicide resistant plants have long been recognised as a major concern due to the excessive use of herbicides. Effective weed detection techniques can reduce the cost of weed management and improve crop quality and yield. A computationally efficient and robust plant classification algorithm is developed and applied to the classification of three crops: Brassica napus (canola), Zea mays (maize/corn), and radish. The developed algorithm is based on the …

Species Distribution Model Of Invasive Alien Species Acacia Nilotica For Central-Eastern Indonesia Using Biodiversity Climate Change Virtual Laboratory (Bccvl), Sutomo, Eddie Van Etten

Research outputs 2014 to 2021

Climate change may facilitate alien species invasion into new areas. This study uses Biodiversity and Climate Change Virtual Laboratory to develop a species distribution model (SDM) of Acacia nilotica (L.) Willd. ex Delile. based upon its naturalized distribution to project the potential distribution of A. nilotica throughout tropical environment of Indonesia under current and future climate conditions. Global biodiversity information facility database was utilized to obtain the species occurrences data. The climate factors were precipitation and temperature layers, available in Worldclim current conditions (1950-2000) at 2.5 arcmin. We used Generalized Linear Model. The result was then projected to the year …

Asal Usul Formasi Savana: Tinjauan Dari Nusa Tenggara Timur Dan Hasil Penelitian Di Baluran Jawa Timur [Origin Of Savanna Formation: Literature Review From East Nusa Tenggara And Research Results From Baluran East Java Indonesia], Sutomo

Research outputs 2014 to 2021

Savannas are ecosystems mostly confined to tropical and subtropical regions that are characterized by a continuous cover of C₄ grasses that have different characteristics based on seasonality and where woody plants are also an important feature, but with sparse cover and no closed canopy. This is common formation in the driest part of Indonesia such as East Nusa Tenggara, however savana can also be found in Java Island: Baluran Savanna in East Java. There has been considerable amount of debat among scientists, botanists in Indonesia regarding the origin of Indonesian savanna. Using literature study and also field observation at …

Do Water Buffalo Facilitate Dispersal Of Invasive Alien Tree Species Acacia Nilotica In Bekol Savanna Baluran National Park?, Sutomo

Research outputs 2014 to 2021

Invasion of Acacia nilotica in Baluran National Park, East Java Province, Indonesia, has caused significant loss to savanna cover which is the main natural feature of the park. This study aimed to describe whether water buffalo may play a role in the dispersal of Acacia nilotica seed in Bekol Savanna usinganalysis of buffalo stools/scats, observations and seed experiments. In total there were 30 plots set up around the Bekol Savanna to collect buffalo stools. In addition,A. nilotica pods matured from its trees were collected, as controls. Germination tests were conducted on seeds that were extracted from the collected stools …

Soil Seed Banks Of Fringing Salt Lake Vegetation In Arid Western Australia - Density, Composition And Implications For Postmine Restoration Using Topsoil, Eddie J. Van Etten, Brett Neasham, Sarah Dalgleish

Research outputs 2014 to 2021

Although studies of seed banks in arid ecosystems are commonplace, they are lacking for the large arid zone of Western Australia. Across the six major plant communities fringing a large salt lake within this zone, topsoil (0-5 cm depth) was collected from 12 to 36 sites per community. Samples were dried, spread out on a bed of vermiculite in seedling trays and placed in a well-watered glasshouse to determine the readily germinable component of the soil seed bank. Subsamples of topsoil were treated with smoke water, hot water or flooding to help determine seed bank of species with dormancy mechanisms. …

Geospatial Data Pre-Processing On Watershed Datasets: A Gis Approach, Sreedhar Nallan, Leisa Armstrong, Barry Croke, Amiya K. Tripathy

Research outputs 2014 to 2021

Spatial data mining helps to identify interesting patterns from the spatial data sets. However, geo spatial data requires substantial data pre-processing before data can be interrogated further using data mining techniques. Multi-dimensional spatial data has been used to explain the spatial analysis and SOLAP for pre-processing data. This paper examines some of the methods for pre-processing of the data using Arc GIS 10.2 and Spatial Analyst with a case study dataset of a watershed.

A Genetic Algorithm-Based Feature Selection, Oluleye H. Babatunde, Leisa Armstrong, Jinsong Leng, Dean Diepeveen

Research outputs 2014 to 2021

This article details the exploration and application of Genetic Algorithm (GA) for feature selection. Particularly a binary GA was used for dimensionality reduction to enhance the performance of the concerned classifiers. In this work, hundred (100) features were extracted from set of images found in the Flavia dataset (a publicly available dataset). The extracted features are Zernike Moments (ZM), Fourier Descriptors (FD), Lengendre Moments (LM), Hu 7 Moments (Hu7M), Texture Properties (TP) and Geometrical Properties (GP). The main contributions of this article are (1) detailed documentation of the GA Toolbox in MATLAB and (2) the development of a GA-based feature …

Application Of Cellular Neural Networks And Naive Bayes Classifier In Agriculture, Oluleye H. Babatunde, Leisa Armstrong, Jinsong Leng, Dean Diepeveen

Research outputs 2014 to 2021

This article describes the use of Cellular Neural Networks (a class of Ordinary Differential Equation (ODE)), Fourier Descriptors (FD) and NaiveBayes Classifier (NBC) for automatic identification of images of plant leaves. The novelty of this article is seen in the use of CNN for image segmentation and a combination FDs with NBC. The main advantage of the segmentation method is the computation speed compared with other edge operators such as canny, sobel, Laplacian of Gaussian (LoG). The results herein show the potential of the methods in this paper for examining different agricultural images and distinguishing between different crops and weeds …

Decision Support System Data For Farmer Decision Making, Pornchai Taechatanasat, Leisa Armstrong

Research outputs 2014 to 2021

The capacity of farmers and agricultural scientists to be able to make in-season decisions is dependent on accurate climate, soil and plant data. This paper will provide a review of the types of environmental and crop data that can be collected by sensors which can used for decision support systems (DSS) or be further interrogated for real time data mining and analysis. This paper also presents a review of the data requirements for agricultural decision making by firstly reviewing decision support frameworks and agricultural DSSs, data acquisition, sensors for data acquisition and examples of data incorporation for agricultural DSSs.

The Application Of A Visual Data Mining Framework To Determine Soil, Climate And Land-Use Relationships, Yunous Vagh

Research outputs 2012

In this research study, the methodology of action research dynamics and a case study was employed in constructing a visual data mining framework for the processing and analysis of geographic land-use data in an agricultural context. The geographic data was made up of a digital elevation model (DEM), soil and land use profiles that were juxtaposed with previously captured climatic data from fixed weather stations in Australia. In this pilot study, monthly rainfall profiles for a selected study area were used to identify areas of soil variability. The rainfall was sampled for the beginning (April) of the rainy season for …