Blood and saliva-derived exomes from healthy Caucasian subjects do not display overt evidence of somatic mosaicism
- Hall, Nathan, Mamrot, Jared, Frampton, Chris, Read, Prue, Steele, Edward, Bischoff, Robert, Lindley, Robyn
- Authors: Hall, Nathan , Mamrot, Jared , Frampton, Chris , Read, Prue , Steele, Edward , Bischoff, Robert , Lindley, Robyn
- Date: 2020
- Type: Text , Journal article
- Relation: Mutation Research - Fundamental and Molecular Mechanisms of Mutagenesis Vol. 821, no. (2020), p.
- Full Text:
- Reviewed:
- Description: Somatic mosaicism is a normal occurrence during development in the tissues and organs. As part of establishing a “healthy population “(HP) background or base-line, we investigated whether such mosaicism can be routinely detected in the circulating DNA secured from a rigorously designed healthy human liquid biopsy clinical trial (saliva, blood). We deployed next generation (NG) whole exome sequencing (WES) at median exome coverage rates of 97.2 % (-to-30x) and 70.0 % (-to-100x). We found that somatic mosaicism is not detectable by such standard bulk WES sequencing assays in saliva and blood DNA in 24 normal healthy Caucasians of both sexes from 18 to 60 years of age. We conclude that for circulating DNA using standard WES no novel somatic mutational variants can be detected in protein-coding regions of normal healthy subjects. This implies that the extent within normal tissues of somatic mosaicism must be at a lower level, below the detection threshold, for these circulating DNA WES read depths. © 2020 The Author(s)
- Authors: Hall, Nathan , Mamrot, Jared , Frampton, Chris , Read, Prue , Steele, Edward , Bischoff, Robert , Lindley, Robyn
- Date: 2020
- Type: Text , Journal article
- Relation: Mutation Research - Fundamental and Molecular Mechanisms of Mutagenesis Vol. 821, no. (2020), p.
- Full Text:
- Reviewed:
- Description: Somatic mosaicism is a normal occurrence during development in the tissues and organs. As part of establishing a “healthy population “(HP) background or base-line, we investigated whether such mosaicism can be routinely detected in the circulating DNA secured from a rigorously designed healthy human liquid biopsy clinical trial (saliva, blood). We deployed next generation (NG) whole exome sequencing (WES) at median exome coverage rates of 97.2 % (-to-30x) and 70.0 % (-to-100x). We found that somatic mosaicism is not detectable by such standard bulk WES sequencing assays in saliva and blood DNA in 24 normal healthy Caucasians of both sexes from 18 to 60 years of age. We conclude that for circulating DNA using standard WES no novel somatic mutational variants can be detected in protein-coding regions of normal healthy subjects. This implies that the extent within normal tissues of somatic mosaicism must be at a lower level, below the detection threshold, for these circulating DNA WES read depths. © 2020 The Author(s)
Risk assessment of SARS-CoV-2 in Antarctic wildlife
- Barbosa, Andres, Varsani, Arvind, Morandini, Virginia, Grimaldi, Wray, Vanstreels, Ralph, Diaz, Julia, Boulinier, Thierry, Dewar, Meagan, González-Acuña, Daniel, Gray, Rachael, McMahon, Clive, Miller, Gary, Power, Michelle, Gamble, Amandine, Wille, Michelle
- Authors: Barbosa, Andres , Varsani, Arvind , Morandini, Virginia , Grimaldi, Wray , Vanstreels, Ralph , Diaz, Julia , Boulinier, Thierry , Dewar, Meagan , González-Acuña, Daniel , Gray, Rachael , McMahon, Clive , Miller, Gary , Power, Michelle , Gamble, Amandine , Wille, Michelle
- Date: 2021
- Type: Text , Journal article
- Relation: Science of the Total Environment Vol. 755, no. 2 (2021), p. 1-8
- Full Text:
- Reviewed:
- Description: The coronavirus disease 2019 (COVID-19) pandemic is caused by the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2). This pathogen has spread rapidly across the world, causing high numbers of deaths and significant social and economic impacts. SARS-CoV-2 is a novel coronavirus with a suggested zoonotic origin with the potential for cross-species transmission among animals. Antarctica can be considered the only continent free of SARS-CoV-2. Therefore, concerns have been expressed regarding the potential human introduction of this virus to the continent through the activities of research or tourism to minimise the effects on human health, and the potential for virus transmission to Antarctic wildlife. We assess the reverse-zoonotic transmission risk to Antarctic wildlife by considering the available information on host susceptibility, dynamics of the infection in humans, and contact interactions between humans and Antarctic wildlife. The environmental conditions in Antarctica seem to be favourable for the virus stability. Indoor spaces such as those at research stations, research vessels or tourist cruise ships could allow for more transmission among humans and depending on their movements between different locations the virus could be spread across the continent. Among Antarctic wildlife previous in silico analyses suggested that cetaceans are at greater risk of infection whereas seals and birds appear to be at a low infection risk. However, caution needed until further research is carried out and consequently, the precautionary principle should be applied. Field researchers handling animals are identified as the human group posing the highest risk of transmission to animals while tourists and other personnel pose a significant risk only when in close proximity (< 5 m) to Antarctic fauna. We highlight measures to reduce the risk as well as identify of knowledge gaps related to this issue. © 2020 The Authors
- Authors: Barbosa, Andres , Varsani, Arvind , Morandini, Virginia , Grimaldi, Wray , Vanstreels, Ralph , Diaz, Julia , Boulinier, Thierry , Dewar, Meagan , González-Acuña, Daniel , Gray, Rachael , McMahon, Clive , Miller, Gary , Power, Michelle , Gamble, Amandine , Wille, Michelle
- Date: 2021
- Type: Text , Journal article
- Relation: Science of the Total Environment Vol. 755, no. 2 (2021), p. 1-8
- Full Text:
- Reviewed:
- Description: The coronavirus disease 2019 (COVID-19) pandemic is caused by the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2). This pathogen has spread rapidly across the world, causing high numbers of deaths and significant social and economic impacts. SARS-CoV-2 is a novel coronavirus with a suggested zoonotic origin with the potential for cross-species transmission among animals. Antarctica can be considered the only continent free of SARS-CoV-2. Therefore, concerns have been expressed regarding the potential human introduction of this virus to the continent through the activities of research or tourism to minimise the effects on human health, and the potential for virus transmission to Antarctic wildlife. We assess the reverse-zoonotic transmission risk to Antarctic wildlife by considering the available information on host susceptibility, dynamics of the infection in humans, and contact interactions between humans and Antarctic wildlife. The environmental conditions in Antarctica seem to be favourable for the virus stability. Indoor spaces such as those at research stations, research vessels or tourist cruise ships could allow for more transmission among humans and depending on their movements between different locations the virus could be spread across the continent. Among Antarctic wildlife previous in silico analyses suggested that cetaceans are at greater risk of infection whereas seals and birds appear to be at a low infection risk. However, caution needed until further research is carried out and consequently, the precautionary principle should be applied. Field researchers handling animals are identified as the human group posing the highest risk of transmission to animals while tourists and other personnel pose a significant risk only when in close proximity (< 5 m) to Antarctic fauna. We highlight measures to reduce the risk as well as identify of knowledge gaps related to this issue. © 2020 The Authors
Extraction and processing of real time strain of embedded FBG sensors using a fixed filter FBG circuit and an artificial neural network
- Kahandawa, Gayan, Epaarachchi, Jayantha, Wang, Hao, Canning, John, Lau, Alan
- Authors: Kahandawa, Gayan , Epaarachchi, Jayantha , Wang, Hao , Canning, John , Lau, Alan
- Date: 2013
- Type: Text , Journal article
- Relation: Measurement: Journal of the International Measurement Confederation Vol. 46, no. 10 (2013), p. 4045-4051
- Full Text:
- Reviewed:
- Description: Fibre Bragg Grating (FBG) sensors have been used in the development of structural health monitoring (SHM) and damage detection systems for advanced composite structures over several decades. Unfortunately, to date only a handful of appropriate configurations and algorithm sare available for using in SHM systems have been developed. This paper reveals a novel configuration of FBG sensors to acquire strain reading and an integrated statistical approach to analyse data in real time. The proposed configuration has proven its capability to overcome practical constraints and the engineering challenges associated with FBG-based SHM systems. A fixed filter decoding system and an integrated artificial neural network algorithm for extracting strain from embedded FBG sensor were proposed and experimentally proved. Furthermore, the laboratory level experimental data was used to verify the accuracy of the system and it was found that the error levels were less than 0.3% in predictions. The developed SMH system using this technology has been submitted to US patent office and will be available for use of aerospace applications in due course. © 2013 Elsevier Ltd. All rights reserved.
- Authors: Kahandawa, Gayan , Epaarachchi, Jayantha , Wang, Hao , Canning, John , Lau, Alan
- Date: 2013
- Type: Text , Journal article
- Relation: Measurement: Journal of the International Measurement Confederation Vol. 46, no. 10 (2013), p. 4045-4051
- Full Text:
- Reviewed:
- Description: Fibre Bragg Grating (FBG) sensors have been used in the development of structural health monitoring (SHM) and damage detection systems for advanced composite structures over several decades. Unfortunately, to date only a handful of appropriate configurations and algorithm sare available for using in SHM systems have been developed. This paper reveals a novel configuration of FBG sensors to acquire strain reading and an integrated statistical approach to analyse data in real time. The proposed configuration has proven its capability to overcome practical constraints and the engineering challenges associated with FBG-based SHM systems. A fixed filter decoding system and an integrated artificial neural network algorithm for extracting strain from embedded FBG sensor were proposed and experimentally proved. Furthermore, the laboratory level experimental data was used to verify the accuracy of the system and it was found that the error levels were less than 0.3% in predictions. The developed SMH system using this technology has been submitted to US patent office and will be available for use of aerospace applications in due course. © 2013 Elsevier Ltd. All rights reserved.
Looking beyond people, equipment and environment : Is a systems theory model of accident causation required to understand injuries and near misses during outdoor activities?
- Goode, Natassia, Salmon, Paul, Lenne, Michael, Finch, Caroline
- Authors: Goode, Natassia , Salmon, Paul , Lenne, Michael , Finch, Caroline
- Date: 2015
- Type: Text , Conference paper
- Relation: 6th International Conference on Applied Human Factors and Ergonomics (Ahfe 2015) and the Affiliated Conferences, Ahfe 2015; Las Vegas, USA; 26th-30th July 2015; published in Procedia Manufacturing Vol. 3, p. 1125-1131
- Relation: http://purl.org/au-research/grants/nhmrc/1058737
- Full Text:
- Reviewed:
- Description: The National Incident Database (NID) provides a standardised, industry-wide, approach to incident reporting for the outdoor sector in New Zealand (NZ). The aim of this study was to determine whether the NID contributing factor categories (i. e. people, equipment and environment) are sufficient for classifying the data that has been collected on accident causation by the NID, or whether a systems theory framework is required. A sample of injury and near miss reports (n = 228) were extracted from the NID and analysed. All contributing factors identified were classified according to Rasmussen's (1997) Risk Management Framework (RRMF), which was adapted to describe the " led outdoor activity system". In total, 58 different contributing factor categories were identified across the 228 incidents. Factors were classified across all levels of the framework, which indicates that the NID categories are inadequate. The findings also demonstrate that RRMF is appropriate for classifying the contributing factors involved in less severe injuries and near misses that do not have in-depth investigations associated with them. (C) 2015 The Authors. Published by Elsevier B.V.
- Authors: Goode, Natassia , Salmon, Paul , Lenne, Michael , Finch, Caroline
- Date: 2015
- Type: Text , Conference paper
- Relation: 6th International Conference on Applied Human Factors and Ergonomics (Ahfe 2015) and the Affiliated Conferences, Ahfe 2015; Las Vegas, USA; 26th-30th July 2015; published in Procedia Manufacturing Vol. 3, p. 1125-1131
- Relation: http://purl.org/au-research/grants/nhmrc/1058737
- Full Text:
- Reviewed:
- Description: The National Incident Database (NID) provides a standardised, industry-wide, approach to incident reporting for the outdoor sector in New Zealand (NZ). The aim of this study was to determine whether the NID contributing factor categories (i. e. people, equipment and environment) are sufficient for classifying the data that has been collected on accident causation by the NID, or whether a systems theory framework is required. A sample of injury and near miss reports (n = 228) were extracted from the NID and analysed. All contributing factors identified were classified according to Rasmussen's (1997) Risk Management Framework (RRMF), which was adapted to describe the " led outdoor activity system". In total, 58 different contributing factor categories were identified across the 228 incidents. Factors were classified across all levels of the framework, which indicates that the NID categories are inadequate. The findings also demonstrate that RRMF is appropriate for classifying the contributing factors involved in less severe injuries and near misses that do not have in-depth investigations associated with them. (C) 2015 The Authors. Published by Elsevier B.V.
Uncovering genetic mechanisms of kidney aging through transcriptomics, genomics, and epigenomics
- Rowland, Joshua, Akbarov, Artur, Eales, James, Xu, Xiaoguang, Dormer, John, Guo, Hui, Denniff, Matthew, Jiang, Xiao, Ranjzad, Parisa, Nazgiewicz, Alicja, Prestes, Priscilla, Antczak, Andrzej, Szulinska, Monika, Wise, Ingrid, Zukowska-Szczechowska, Ewa, Bogdanski, Pawel, Woolf, Adrian, Samani, Nilesh, Charchar, Fadi, Tomaszewski, Maciej
- Authors: Rowland, Joshua , Akbarov, Artur , Eales, James , Xu, Xiaoguang , Dormer, John , Guo, Hui , Denniff, Matthew , Jiang, Xiao , Ranjzad, Parisa , Nazgiewicz, Alicja , Prestes, Priscilla , Antczak, Andrzej , Szulinska, Monika , Wise, Ingrid , Zukowska-Szczechowska, Ewa , Bogdanski, Pawel , Woolf, Adrian , Samani, Nilesh , Charchar, Fadi , Tomaszewski, Maciej
- Date: 2019
- Type: Text , Journal article
- Relation: Kidney International Vol. 95, no. 3 (2019), p. 624-635
- Full Text:
- Reviewed:
- Description: Nephrons scar and involute during aging, increasing the risk of chronic kidney disease. Little is known, however, about genetic mechanisms of kidney aging. We sought to define the signatures of age on the renal transcriptome using 563 human kidneys. The initial discovery analysis of 260 kidney transcriptomes from the TRANScriptome of renaL humAn TissuE Study (TRANSLATE) and the Cancer Genome Atlas identified 37 age-associated genes. For 19 of those genes, the association with age was replicated in 303 kidney transcriptomes from the Nephroseq resource. Surveying 42 nonrenal tissues from the Genotype–Tissue Expression project revealed that, for approximately a fifth of the replicated genes, the association with age was kidney-specific. Seventy-three percent of the replicated genes were associated with functional or histological parameters of age-related decline in kidney health, including glomerular filtration rate, glomerulosclerosis, interstitial fibrosis, tubular atrophy, and arterial narrowing. Common genetic variants in four of the age-related genes, namely LYG1, PPP1R3C, LTF and TSPYL5, correlated with the trajectory of age-related changes in their renal expression. Integrative analysis of genomic, epigenomic, and transcriptomic information revealed that the observed age-related decline in renal TSPYL5 expression was determined both genetically and epigenetically. Thus, this study revealed robust molecular signatures of the aging kidney and new regulatory mechanisms of age-related change in the kidney transcriptome.
- Authors: Rowland, Joshua , Akbarov, Artur , Eales, James , Xu, Xiaoguang , Dormer, John , Guo, Hui , Denniff, Matthew , Jiang, Xiao , Ranjzad, Parisa , Nazgiewicz, Alicja , Prestes, Priscilla , Antczak, Andrzej , Szulinska, Monika , Wise, Ingrid , Zukowska-Szczechowska, Ewa , Bogdanski, Pawel , Woolf, Adrian , Samani, Nilesh , Charchar, Fadi , Tomaszewski, Maciej
- Date: 2019
- Type: Text , Journal article
- Relation: Kidney International Vol. 95, no. 3 (2019), p. 624-635
- Full Text:
- Reviewed:
- Description: Nephrons scar and involute during aging, increasing the risk of chronic kidney disease. Little is known, however, about genetic mechanisms of kidney aging. We sought to define the signatures of age on the renal transcriptome using 563 human kidneys. The initial discovery analysis of 260 kidney transcriptomes from the TRANScriptome of renaL humAn TissuE Study (TRANSLATE) and the Cancer Genome Atlas identified 37 age-associated genes. For 19 of those genes, the association with age was replicated in 303 kidney transcriptomes from the Nephroseq resource. Surveying 42 nonrenal tissues from the Genotype–Tissue Expression project revealed that, for approximately a fifth of the replicated genes, the association with age was kidney-specific. Seventy-three percent of the replicated genes were associated with functional or histological parameters of age-related decline in kidney health, including glomerular filtration rate, glomerulosclerosis, interstitial fibrosis, tubular atrophy, and arterial narrowing. Common genetic variants in four of the age-related genes, namely LYG1, PPP1R3C, LTF and TSPYL5, correlated with the trajectory of age-related changes in their renal expression. Integrative analysis of genomic, epigenomic, and transcriptomic information revealed that the observed age-related decline in renal TSPYL5 expression was determined both genetically and epigenetically. Thus, this study revealed robust molecular signatures of the aging kidney and new regulatory mechanisms of age-related change in the kidney transcriptome.
Geoelectrical prospecting of glauberite deposits in the Ebro basin (Spain)
- Guinea, Ander, Playà, Elisabet, Rivero, Lluís, Salvany, Josep
- Authors: Guinea, Ander , Playà, Elisabet , Rivero, Lluís , Salvany, Josep
- Date: 2014
- Type: Text , Journal article
- Relation: Engineering Geology Vol. 174, no. (2014), p. 73-86
- Full Text:
- Reviewed:
- Description: Glauberite (Na2Ca[SO4]2) is an evaporitic mineral which is used in the industries of detergents, paper, glass, pharmacy, etc. Glauberite rocks are seldom found cropping out because they are very sensitive to weathering processes; for this reason their prospection is conducted by means of boreholes. Nowadays, geophysical techniques are not used to support the characterization of glauberite deposits due to the lack of knowledge of their physical properties.In this study geoelectrical methods are proposed as alternative techniques in the early stages of glauberite prospecting. Several glauberite units have been studied in different parts of the Ebro basin (Spain) by means of electrical resistivity tomography sections. The electrical resistivity range showed by glauberite deposits has been found to be low (10–100Ω·m) when the matrix component (clay and microcrystalline carbonates) is above 45% of the bulk composition of the rock. This type of rocks has been studied in Montes de Torrero (Zaragoza) and is the most common glauberite deposit case. Besides matrix-rich glauberite rocks, an exceptional case of a pure glauberite layer has been studied in Alcanadre (La Rioja). From this site, it has been estimated that deposits with glauberite crystal fraction close to 100% show a resistivity range of at least 3×103Ω·m.Using this extreme value as reference, the Hashin–Shtrikman bounds have been calculated for glauberite rocks considering that they are constituted of four phases (glauberite, gypsum, anhydrite and matrix). When the matrix fraction represents 45% or more of the bulk rock, the resistivity range will be that of the lower Hashin–Shtrikman bound, which is similar for any combination of sulfate (glauberite, gypsum and/or anhydrite) composition; hence, it can be considered as a two-phase system (matrix and sulfate). For rocks with less than 30% of matrix fraction, the upper Hashin–Shtrikman bound trend must be considered; however, the resistivity values overlap, making it impossible to establish a classification. Between 30 and 45% of matrix fraction, there is a transitional domain.Additionally, some theoretical models representing the most common structures in sulfate rocks have been elaborated in order to help in the interpretation of the inverted resistivity images obtained from the field data. Some artifacts generated by the complexity of the resistivity distribution of the terrain have been identified in both data sets. •Glauberite deposits are studied by means of electrical resistivity tomography.•The results of electrical imaging are compared with borehole cores.•Models representing typical structures in sulfates are compared with field results.•The electrical response of glauberite rocks for different compositions is defined.
- Authors: Guinea, Ander , Playà, Elisabet , Rivero, Lluís , Salvany, Josep
- Date: 2014
- Type: Text , Journal article
- Relation: Engineering Geology Vol. 174, no. (2014), p. 73-86
- Full Text:
- Reviewed:
- Description: Glauberite (Na2Ca[SO4]2) is an evaporitic mineral which is used in the industries of detergents, paper, glass, pharmacy, etc. Glauberite rocks are seldom found cropping out because they are very sensitive to weathering processes; for this reason their prospection is conducted by means of boreholes. Nowadays, geophysical techniques are not used to support the characterization of glauberite deposits due to the lack of knowledge of their physical properties.In this study geoelectrical methods are proposed as alternative techniques in the early stages of glauberite prospecting. Several glauberite units have been studied in different parts of the Ebro basin (Spain) by means of electrical resistivity tomography sections. The electrical resistivity range showed by glauberite deposits has been found to be low (10–100Ω·m) when the matrix component (clay and microcrystalline carbonates) is above 45% of the bulk composition of the rock. This type of rocks has been studied in Montes de Torrero (Zaragoza) and is the most common glauberite deposit case. Besides matrix-rich glauberite rocks, an exceptional case of a pure glauberite layer has been studied in Alcanadre (La Rioja). From this site, it has been estimated that deposits with glauberite crystal fraction close to 100% show a resistivity range of at least 3×103Ω·m.Using this extreme value as reference, the Hashin–Shtrikman bounds have been calculated for glauberite rocks considering that they are constituted of four phases (glauberite, gypsum, anhydrite and matrix). When the matrix fraction represents 45% or more of the bulk rock, the resistivity range will be that of the lower Hashin–Shtrikman bound, which is similar for any combination of sulfate (glauberite, gypsum and/or anhydrite) composition; hence, it can be considered as a two-phase system (matrix and sulfate). For rocks with less than 30% of matrix fraction, the upper Hashin–Shtrikman bound trend must be considered; however, the resistivity values overlap, making it impossible to establish a classification. Between 30 and 45% of matrix fraction, there is a transitional domain.Additionally, some theoretical models representing the most common structures in sulfate rocks have been elaborated in order to help in the interpretation of the inverted resistivity images obtained from the field data. Some artifacts generated by the complexity of the resistivity distribution of the terrain have been identified in both data sets. •Glauberite deposits are studied by means of electrical resistivity tomography.•The results of electrical imaging are compared with borehole cores.•Models representing typical structures in sulfates are compared with field results.•The electrical response of glauberite rocks for different compositions is defined.
Livestock grazing effects on riparian bird breeding behaviour in agricultural landscapes
- Hansen, Birgita, Fraser, Hannah, Jones, Christopher
- Authors: Hansen, Birgita , Fraser, Hannah , Jones, Christopher
- Date: 2019
- Type: Text , Journal article
- Relation: Agriculture, Ecosystems and Environment Vol. 270-271, no. (2019), p. 93-102
- Full Text:
- Reviewed:
- Description: Globally, many bird species that rely on native woodland or forest environments are declining due to vegetation clearing for livestock pastures and cereal cropping. In many landscapes, woodland remnants are restricted to waterways and roadsides in narrow, sometimes degraded patches, and not all patches can necessarily provide the resources required to support bird populations. This study investigated the influence of livestock grazing and vegetation characteristics on bird breeding activity in riparian zones in northern Victoria, Australia, where much of the landscape is used for production and has experienced significant loss of woodland. Birds were broadly categorised as ‘woodland’ or ‘non-woodland’ species, based on dependency on woodlands for breeding. The majority of woodland species detected were relatively common, and where riparian zones were heavily grazed, there was significantly lower woodland bird breeding activity compared to non-woodland bird breeding activity (the latter increasing with grazing intensity). Woodland and non-woodland birds had consistently opposite responses to grazing intensity, vegetation and landscape characteristics, suggesting that the factors influencing breeding differ markedly between these two groups. Thus, where riparian zones are intensively grazed, the bird community shifts from predominantly woodland to largely non-woodland species. This has implications for the conservation of both rare and common woodland bird species in southern Australia. Simple changes in land management, for example, livestock exclusion from important breeding habitat, may confer large gains for population persistence of woodland bird species.
- Authors: Hansen, Birgita , Fraser, Hannah , Jones, Christopher
- Date: 2019
- Type: Text , Journal article
- Relation: Agriculture, Ecosystems and Environment Vol. 270-271, no. (2019), p. 93-102
- Full Text:
- Reviewed:
- Description: Globally, many bird species that rely on native woodland or forest environments are declining due to vegetation clearing for livestock pastures and cereal cropping. In many landscapes, woodland remnants are restricted to waterways and roadsides in narrow, sometimes degraded patches, and not all patches can necessarily provide the resources required to support bird populations. This study investigated the influence of livestock grazing and vegetation characteristics on bird breeding activity in riparian zones in northern Victoria, Australia, where much of the landscape is used for production and has experienced significant loss of woodland. Birds were broadly categorised as ‘woodland’ or ‘non-woodland’ species, based on dependency on woodlands for breeding. The majority of woodland species detected were relatively common, and where riparian zones were heavily grazed, there was significantly lower woodland bird breeding activity compared to non-woodland bird breeding activity (the latter increasing with grazing intensity). Woodland and non-woodland birds had consistently opposite responses to grazing intensity, vegetation and landscape characteristics, suggesting that the factors influencing breeding differ markedly between these two groups. Thus, where riparian zones are intensively grazed, the bird community shifts from predominantly woodland to largely non-woodland species. This has implications for the conservation of both rare and common woodland bird species in southern Australia. Simple changes in land management, for example, livestock exclusion from important breeding habitat, may confer large gains for population persistence of woodland bird species.
Non-functional regression : A new challenge for neural networks
- Vamplew, Peter, Dazeley, Richard, Foale, Cameron, Choudhury, Tanveer
- Authors: Vamplew, Peter , Dazeley, Richard , Foale, Cameron , Choudhury, Tanveer
- Date: 2018
- Type: Text , Journal article
- Relation: Neurocomputing Vol. 314, no. (2018), p. 326-335
- Full Text:
- Reviewed:
- Description: This work identifies an important, previously unaddressed issue for regression based on neural networks – learning to accurately approximate problems where the output is not a function of the input (i.e. where the number of outputs required varies across input space). Such non-functional regression problems arise in a number of applications, and can not be adequately handled by existing neural network algorithms. To demonstrate the benefits possible from directly addressing non-functional regression, this paper proposes the first neural algorithm to do so – an extension of the Resource Allocating Network (RAN) which adds additional output neurons to the network structure during training. This new algorithm, called the Resource Allocating Network with Varying Output Cardinality (RANVOC), is demonstrated to be capable of learning to perform non-functional regression, on both artificially constructed data and also on the real-world task of specifying parameter settings for a plasma-spray process. Importantly RANVOC is shown to outperform not just the original RAN algorithm, but also the best possible error rates achievable by any functional form of regression.
- Authors: Vamplew, Peter , Dazeley, Richard , Foale, Cameron , Choudhury, Tanveer
- Date: 2018
- Type: Text , Journal article
- Relation: Neurocomputing Vol. 314, no. (2018), p. 326-335
- Full Text:
- Reviewed:
- Description: This work identifies an important, previously unaddressed issue for regression based on neural networks – learning to accurately approximate problems where the output is not a function of the input (i.e. where the number of outputs required varies across input space). Such non-functional regression problems arise in a number of applications, and can not be adequately handled by existing neural network algorithms. To demonstrate the benefits possible from directly addressing non-functional regression, this paper proposes the first neural algorithm to do so – an extension of the Resource Allocating Network (RAN) which adds additional output neurons to the network structure during training. This new algorithm, called the Resource Allocating Network with Varying Output Cardinality (RANVOC), is demonstrated to be capable of learning to perform non-functional regression, on both artificially constructed data and also on the real-world task of specifying parameter settings for a plasma-spray process. Importantly RANVOC is shown to outperform not just the original RAN algorithm, but also the best possible error rates achievable by any functional form of regression.
Adaptive weighted non-parametric background model for efficient video coding
- Chakraborty, Subrata, Paul, Manoranjan, Murshed, Manzur, Ali, Mortuza
- Authors: Chakraborty, Subrata , Paul, Manoranjan , Murshed, Manzur , Ali, Mortuza
- Date: 2017
- Type: Text , Journal article
- Relation: Neurocomputing Vol. 226, no. (2017), p. 35-45
- Full Text:
- Reviewed:
- Description: Dynamic background frame based video coding using mixture of Gaussian (MoG) based background modelling has achieved better rate distortion performance compared to the H.264 standard. However, they suffer from high computation time, low coding efficiency for dynamic videos, and prior knowledge requirement of video content. In this paper, we introduce the application of the non-parametric (NP) background modelling approach for video coding domain. We present a novel background modelling technique, called weighted non-parametric (WNP) which balances the historical trend and the recent value of the pixel intensities adaptively based on the content and characteristics of any particular video. WNP is successfully embedded into the latest HEVC video coding standard for better rate-distortion performance. Moreover, a novel scene adaptive non-parametric (SANP) technique is also developed to handle video sequences with high dynamic background. Being non-parametric, the proposed techniques naturally exhibit superior performance in dynamic background modelling without a priori knowledge of video data distribution.
- Authors: Chakraborty, Subrata , Paul, Manoranjan , Murshed, Manzur , Ali, Mortuza
- Date: 2017
- Type: Text , Journal article
- Relation: Neurocomputing Vol. 226, no. (2017), p. 35-45
- Full Text:
- Reviewed:
- Description: Dynamic background frame based video coding using mixture of Gaussian (MoG) based background modelling has achieved better rate distortion performance compared to the H.264 standard. However, they suffer from high computation time, low coding efficiency for dynamic videos, and prior knowledge requirement of video content. In this paper, we introduce the application of the non-parametric (NP) background modelling approach for video coding domain. We present a novel background modelling technique, called weighted non-parametric (WNP) which balances the historical trend and the recent value of the pixel intensities adaptively based on the content and characteristics of any particular video. WNP is successfully embedded into the latest HEVC video coding standard for better rate-distortion performance. Moreover, a novel scene adaptive non-parametric (SANP) technique is also developed to handle video sequences with high dynamic background. Being non-parametric, the proposed techniques naturally exhibit superior performance in dynamic background modelling without a priori knowledge of video data distribution.
Antimicrobial sensitivity trends and virulence genes in Shigella spp. from the Oceania region
- Malau, Elisheba, Ford, Rebecca, Valcanis, Mary, Jennison, Amy, Mosse, Jenny, Bean, David, Yoannes, Mition, Pomat, William, Horwood, Paul, Greenhill, Andrew
- Authors: Malau, Elisheba , Ford, Rebecca , Valcanis, Mary , Jennison, Amy , Mosse, Jenny , Bean, David , Yoannes, Mition , Pomat, William , Horwood, Paul , Greenhill, Andrew
- Date: 2018
- Type: Text , Journal article
- Relation: Infection, Genetics and Evolution Vol. 64, no. (2018), p. 52-56
- Full Text:
- Reviewed:
- Description: Shigella is a common cause of diarrhoea in Papua New Guinea (PNG) and other Oceania countries. However, little is known about the strains causing infection. Archived Shigella isolates (n = 72) were obtained from research laboratories in PNG and reference laboratories in Australia. Shigella virulence genes were detected by PCR, and antimicrobial susceptibility was determined by disk diffusion. The ipaH virulence gene was present in all 72 isolates. The prevalence of other virulence genes was variable, with ial, invE, ipaBCD, sen/ospD3 and virF present in 60% of isolates and set1A and set1B genes present in 42% of isolates. Most S. flexneri isolates contained genes encoding enterotoxin 1 and/or enterotoxin 2. Resistance to antibiotics was common, with 51/72 isolates resistant to 2–4 antimicrobials. A greater proportion of bacteria isolated since 2010 (relative to pre-2010 isolates) were resistant to commonly used antibiotics such as ampicillin, chloramphenicol, tetracycline, and trimethoprim-sulfamethoxazole; suggesting that antimicrobial resistance (AMR) in Shigella is increasing over time in the Oceania region. There is a need for improved knowledge regarding Shigella circulation in the Oceania region and further monitoring of AMR patterns. © 2018 Elsevier B.V.
- Authors: Malau, Elisheba , Ford, Rebecca , Valcanis, Mary , Jennison, Amy , Mosse, Jenny , Bean, David , Yoannes, Mition , Pomat, William , Horwood, Paul , Greenhill, Andrew
- Date: 2018
- Type: Text , Journal article
- Relation: Infection, Genetics and Evolution Vol. 64, no. (2018), p. 52-56
- Full Text:
- Reviewed:
- Description: Shigella is a common cause of diarrhoea in Papua New Guinea (PNG) and other Oceania countries. However, little is known about the strains causing infection. Archived Shigella isolates (n = 72) were obtained from research laboratories in PNG and reference laboratories in Australia. Shigella virulence genes were detected by PCR, and antimicrobial susceptibility was determined by disk diffusion. The ipaH virulence gene was present in all 72 isolates. The prevalence of other virulence genes was variable, with ial, invE, ipaBCD, sen/ospD3 and virF present in 60% of isolates and set1A and set1B genes present in 42% of isolates. Most S. flexneri isolates contained genes encoding enterotoxin 1 and/or enterotoxin 2. Resistance to antibiotics was common, with 51/72 isolates resistant to 2–4 antimicrobials. A greater proportion of bacteria isolated since 2010 (relative to pre-2010 isolates) were resistant to commonly used antibiotics such as ampicillin, chloramphenicol, tetracycline, and trimethoprim-sulfamethoxazole; suggesting that antimicrobial resistance (AMR) in Shigella is increasing over time in the Oceania region. There is a need for improved knowledge regarding Shigella circulation in the Oceania region and further monitoring of AMR patterns. © 2018 Elsevier B.V.
Improved depth coding for HEVC focusing on depth edge approximation
- Podder, Pallab, Paul, Manoranjan, Rahaman, Motiur, Murshed, Manzur
- Authors: Podder, Pallab , Paul, Manoranjan , Rahaman, Motiur , Murshed, Manzur
- Date: 2017
- Type: Text , Journal article , acceptedVersion
- Relation: Signal Processing: Image Communication Vol. 55, no. (2017), p. 80-92
- Full Text:
- Reviewed:
- Description: The latest High Efficiency Video Coding (HEVC) standard has greatly improved the coding efficiency compared to its predecessor H.264. An important share of which is the adoption of hierarchical block partitioning structures and an extended number of modes. The structure of existing inter-modes is appropriate mainly to handle the rectangular and square aligned motion patterns. However, they could not be suitable for the block partitioning of depth objects having partial foreground motion with irregular edges and background. In such cases, the HEVC reference test model (HM) normally explores finer level block partitioning that requires more bits and encoding time to compensate large residuals. Since motion detection is the underlying criteria for mode selection, in this work, we use the energy concentration ratio feature of phase correlation to capture different types of motion in depth object. For better motion modeling focusing at depth edges, the proposed technique also uses an extra pattern mode comprising a group of templates with various rectangular and non-rectangular object shapes and edges. As the pattern mode could save bits by encoding only the foreground areas and beat all other inter-modes in a block once selected, the proposed technique could improve the rate-distortion performance. It could also reduce encoding time by skipping further branching using the pattern mode and selecting a subset of modes using innovative pre-processing criteria. Experimentally it could save 29% average encoding time and improve 0.10 dB Bjontegaard Delta peak signal-to-noise ratio compared to the HM.
- Authors: Podder, Pallab , Paul, Manoranjan , Rahaman, Motiur , Murshed, Manzur
- Date: 2017
- Type: Text , Journal article , acceptedVersion
- Relation: Signal Processing: Image Communication Vol. 55, no. (2017), p. 80-92
- Full Text:
- Reviewed:
- Description: The latest High Efficiency Video Coding (HEVC) standard has greatly improved the coding efficiency compared to its predecessor H.264. An important share of which is the adoption of hierarchical block partitioning structures and an extended number of modes. The structure of existing inter-modes is appropriate mainly to handle the rectangular and square aligned motion patterns. However, they could not be suitable for the block partitioning of depth objects having partial foreground motion with irregular edges and background. In such cases, the HEVC reference test model (HM) normally explores finer level block partitioning that requires more bits and encoding time to compensate large residuals. Since motion detection is the underlying criteria for mode selection, in this work, we use the energy concentration ratio feature of phase correlation to capture different types of motion in depth object. For better motion modeling focusing at depth edges, the proposed technique also uses an extra pattern mode comprising a group of templates with various rectangular and non-rectangular object shapes and edges. As the pattern mode could save bits by encoding only the foreground areas and beat all other inter-modes in a block once selected, the proposed technique could improve the rate-distortion performance. It could also reduce encoding time by skipping further branching using the pattern mode and selecting a subset of modes using innovative pre-processing criteria. Experimentally it could save 29% average encoding time and improve 0.10 dB Bjontegaard Delta peak signal-to-noise ratio compared to the HM.
Multi-modal reliability analysis of slope stability
- Reale, Cormac, Gavin, Kenneth, Prendergast, Luke, Xue, Jianfeng
- Authors: Reale, Cormac , Gavin, Kenneth , Prendergast, Luke , Xue, Jianfeng
- Date: 2016
- Type: Text , Conference proceedings
- Relation: 6th Transport Research Arena; Warsaw, Poland; 18th-21st April 2016; published inTransportation Research Procedia Vol. 14, p. 2468-2476
- Full Text:
- Reviewed:
- Description: Probabilistic slope stability analysis typically requires an optimisation technique to locate the most probable slip surface. However, for many slopes particularly those containing many different soil layers or benches several distinct critical slip surfaces may exist. Furthermore, in large slopes these critical slip surfaces may be located at significant distances from each other. In such circumstances, finding and rehabilitating the most probable failure surface is of little merit, as rehabilitating that surface does not improve the safety of the slope as a whole. Unfortunately, existing slip surface search techniques were developed to converge on one global minimum. Therefore, to implement such methods to evaluate the stability of a slope with multiple failure mechanisms requires the user to define probable slip locations prior to calculation. This requires extensive engineering experience and places undue responsibility on the engineer in question. This paper proposes the use of a locally informed particle swarm optimisation method which is able to simultaneously converge to multiple critical slip surfaces. This optimisation model when combined with a reliability analysis is able to define all areas of concern within a slope. A case study of a railway slope is presented which highlights the benefits of the model over single objective optimisation models. The approach is of particular benefit when evaluating the stability of large existing slopes with complicated stratigraphy as these slopes are likely to contain multiple viable slip surfaces. © 2016 The Authors.
- Authors: Reale, Cormac , Gavin, Kenneth , Prendergast, Luke , Xue, Jianfeng
- Date: 2016
- Type: Text , Conference proceedings
- Relation: 6th Transport Research Arena; Warsaw, Poland; 18th-21st April 2016; published inTransportation Research Procedia Vol. 14, p. 2468-2476
- Full Text:
- Reviewed:
- Description: Probabilistic slope stability analysis typically requires an optimisation technique to locate the most probable slip surface. However, for many slopes particularly those containing many different soil layers or benches several distinct critical slip surfaces may exist. Furthermore, in large slopes these critical slip surfaces may be located at significant distances from each other. In such circumstances, finding and rehabilitating the most probable failure surface is of little merit, as rehabilitating that surface does not improve the safety of the slope as a whole. Unfortunately, existing slip surface search techniques were developed to converge on one global minimum. Therefore, to implement such methods to evaluate the stability of a slope with multiple failure mechanisms requires the user to define probable slip locations prior to calculation. This requires extensive engineering experience and places undue responsibility on the engineer in question. This paper proposes the use of a locally informed particle swarm optimisation method which is able to simultaneously converge to multiple critical slip surfaces. This optimisation model when combined with a reliability analysis is able to define all areas of concern within a slope. A case study of a railway slope is presented which highlights the benefits of the model over single objective optimisation models. The approach is of particular benefit when evaluating the stability of large existing slopes with complicated stratigraphy as these slopes are likely to contain multiple viable slip surfaces. © 2016 The Authors.
On topology optimization and canonical duality method
- Authors: Gao, David
- Date: 2018
- Type: Text , Journal article
- Relation: Computer Methods in Applied Mechanics and Engineering Vol. 341, no. (2018), p. 249-277
- Full Text:
- Reviewed:
- Description: Topology optimization for general materials is correctly formulated as a bi-level knapsack problem, which is considered to be NP-hard in global optimization and computer science. By using canonical duality theory (CDT) developed by the author, the linear knapsack problem can be solved analytically to obtain global optimal solution at each design iteration. Both uniqueness, existence, and NP-hardness are discussed. The novel CDT method for general topology optimization is refined and tested by both 2-D and 3-D benchmark problems. Numerical results show that without using filter and any other artificial technique, the CDT method can produce exactly 0-1 optimal density distribution with almost no checkerboard pattern. Its performance and novelty are compared with the popular SIMP and BESO approaches. Additionally, some mathematical and conceptual mistakes in literature are explicitly addressed. A brief review on the canonical duality theory for modeling multi-scale complex systems and for solving general nonconvex/discrete problems are given in Appendix. This paper demonstrates a simple truth: elegant designs come from correct model and theory. © 2018
- Authors: Gao, David
- Date: 2018
- Type: Text , Journal article
- Relation: Computer Methods in Applied Mechanics and Engineering Vol. 341, no. (2018), p. 249-277
- Full Text:
- Reviewed:
- Description: Topology optimization for general materials is correctly formulated as a bi-level knapsack problem, which is considered to be NP-hard in global optimization and computer science. By using canonical duality theory (CDT) developed by the author, the linear knapsack problem can be solved analytically to obtain global optimal solution at each design iteration. Both uniqueness, existence, and NP-hardness are discussed. The novel CDT method for general topology optimization is refined and tested by both 2-D and 3-D benchmark problems. Numerical results show that without using filter and any other artificial technique, the CDT method can produce exactly 0-1 optimal density distribution with almost no checkerboard pattern. Its performance and novelty are compared with the popular SIMP and BESO approaches. Additionally, some mathematical and conceptual mistakes in literature are explicitly addressed. A brief review on the canonical duality theory for modeling multi-scale complex systems and for solving general nonconvex/discrete problems are given in Appendix. This paper demonstrates a simple truth: elegant designs come from correct model and theory. © 2018
Land rebound after banning deep groundwater extraction in Changzhou, China
- Wang, Guang-ya, Zhu, Jin-qi, You, Greg, Yu, Jun, Gong, Xu-long, Li, Wei, Gou, Fu-gang
- Authors: Wang, Guang-ya , Zhu, Jin-qi , You, Greg , Yu, Jun , Gong, Xu-long , Li, Wei , Gou, Fu-gang
- Date: 2017
- Type: Text , Journal article
- Relation: Engineering Geology Vol. 229, no. (2017), p. 13-20
- Full Text:
- Reviewed:
- Description: More than 30 years groundwater overdraft had resulted in hydraulic head declined from near the ground surface to 85 m deep in the second confined aquifer (CA2) in Changzhou, and lead to regional land subsidence from 1970's to early 2000's. After banning deep groundwater extraction was banned in 2000, the hydraulic head of CA2 had recovered to 37.6 m in Changzhou by the end of 2013. Based on several stages first and second order leveling results and long term monitoring data from the multi-strata borehole extensometer station (BES), it was revealed that the land subsidence is attributed to the compression of both aquifers and aquitards in the porous aquifer system. The spatial characteristics of subsidence are related not only to hydraulic head pattern in the area, but also to the thickness and compressibility of different soil strata, and distance from the aquifer. Since banning deep groundwater extraction, the ground uplifted 37.22 mm (5.4% of the pre subsidence) at BES, Changzhou due to the hydraulic head recovering. Strata compression and rebound was recorded as: the upper most stratum, and the underlying aquitard of CA2, and the upper CA3 are still in the compression process, the lower CA3 layer and the upper most segment of aquitard of CA2 rebounded about 90% of the pre compression recorded since 1984, and the CA2 and its adjacent overlying aquitard rebounded 3.8%–9.7% of the pre compression. © 2017 Elsevier B.V.
- Authors: Wang, Guang-ya , Zhu, Jin-qi , You, Greg , Yu, Jun , Gong, Xu-long , Li, Wei , Gou, Fu-gang
- Date: 2017
- Type: Text , Journal article
- Relation: Engineering Geology Vol. 229, no. (2017), p. 13-20
- Full Text:
- Reviewed:
- Description: More than 30 years groundwater overdraft had resulted in hydraulic head declined from near the ground surface to 85 m deep in the second confined aquifer (CA2) in Changzhou, and lead to regional land subsidence from 1970's to early 2000's. After banning deep groundwater extraction was banned in 2000, the hydraulic head of CA2 had recovered to 37.6 m in Changzhou by the end of 2013. Based on several stages first and second order leveling results and long term monitoring data from the multi-strata borehole extensometer station (BES), it was revealed that the land subsidence is attributed to the compression of both aquifers and aquitards in the porous aquifer system. The spatial characteristics of subsidence are related not only to hydraulic head pattern in the area, but also to the thickness and compressibility of different soil strata, and distance from the aquifer. Since banning deep groundwater extraction, the ground uplifted 37.22 mm (5.4% of the pre subsidence) at BES, Changzhou due to the hydraulic head recovering. Strata compression and rebound was recorded as: the upper most stratum, and the underlying aquitard of CA2, and the upper CA3 are still in the compression process, the lower CA3 layer and the upper most segment of aquitard of CA2 rebounded about 90% of the pre compression recorded since 1984, and the CA2 and its adjacent overlying aquitard rebounded 3.8%–9.7% of the pre compression. © 2017 Elsevier B.V.
Newly qualified graduate nurses’ experiences of workplace incivility in Australian hospital settings
- Mammen, Bindu, Hills, Danny, Lam, Louisa
- Authors: Mammen, Bindu , Hills, Danny , Lam, Louisa
- Date: 2018
- Type: Text , Journal article
- Relation: Collegian Vol. 25, no. 6 (2018), p. 591-599
- Full Text:
- Reviewed:
- Description: Background: Workplace incivility is a well-documented issue of concern known to negatively impact on new graduate nurses’ confidence, which in turn may affect the quality of patient care. However, there is lack of qualitative research that solely focuses on workplace incivility experiences of new graduate registered nurses enrolled in graduate nurse programs. Aim: This paper aims to explore new graduate nurses’ experiences of workplace incivility while enrolled in graduate nurse programs Method: A descriptive-qualitative method was used to discover the ‘who, what, and where’ of events and experiences, and assist in understanding the perceptions of newly qualified nurses, through face-to-face, in-depth interviews. After transcription, the interviews were analysed by thematic analysis. Findings: Four major themes emerged: ‘realising vulnerability’ ‘sensing self actualisation’ ‘changing expectations’ and ‘yearning for respect, support & information’. Discussion: Our interpretations of what participants said suggest that workplace incivility is an extant issue in nurses’ supportive graduate year, with the temporary employment status offered by the graduate nurse program being identified as a major contributing factor. Paradoxically, the relatively short duration of clinical rotation was also found to be a morale booster, as the new graduate nurses knew that any conflict experienced would cease, which therefore acted as a decisive factor for their continuation in nursing. Conclusion: This study has provided more depth and insight into the experiences of incivility experienced by new graduate nurses, highlighting that the role of temporary employment as a major causative element for exposure to workplace incivility. Graduate nurse programs could be strengthened, with additional support provided for each rotation and throughout the graduate year.
Newly qualified graduate nurses’ experiences of workplace incivility in Australian hospital settings
- Authors: Mammen, Bindu , Hills, Danny , Lam, Louisa
- Date: 2018
- Type: Text , Journal article
- Relation: Collegian Vol. 25, no. 6 (2018), p. 591-599
- Full Text:
- Reviewed:
- Description: Background: Workplace incivility is a well-documented issue of concern known to negatively impact on new graduate nurses’ confidence, which in turn may affect the quality of patient care. However, there is lack of qualitative research that solely focuses on workplace incivility experiences of new graduate registered nurses enrolled in graduate nurse programs. Aim: This paper aims to explore new graduate nurses’ experiences of workplace incivility while enrolled in graduate nurse programs Method: A descriptive-qualitative method was used to discover the ‘who, what, and where’ of events and experiences, and assist in understanding the perceptions of newly qualified nurses, through face-to-face, in-depth interviews. After transcription, the interviews were analysed by thematic analysis. Findings: Four major themes emerged: ‘realising vulnerability’ ‘sensing self actualisation’ ‘changing expectations’ and ‘yearning for respect, support & information’. Discussion: Our interpretations of what participants said suggest that workplace incivility is an extant issue in nurses’ supportive graduate year, with the temporary employment status offered by the graduate nurse program being identified as a major contributing factor. Paradoxically, the relatively short duration of clinical rotation was also found to be a morale booster, as the new graduate nurses knew that any conflict experienced would cease, which therefore acted as a decisive factor for their continuation in nursing. Conclusion: This study has provided more depth and insight into the experiences of incivility experienced by new graduate nurses, highlighting that the role of temporary employment as a major causative element for exposure to workplace incivility. Graduate nurse programs could be strengthened, with additional support provided for each rotation and throughout the graduate year.
Workplace aggression experiences and responses of Victorian nurses, midwives and care personnel
- Hills, Danny, Lam, Louisa, Hills, Sharon
- Authors: Hills, Danny , Lam, Louisa , Hills, Sharon
- Date: 2018
- Type: Text , Journal article
- Relation: Collegian Vol. 25, no. 6 (2018), p. 575-582
- Full Text:
- Reviewed:
- Description: Background: Workplace aggression is a major work health and safety, and public health concern. To date, there has been limited investigation of population level exposure and responses to workplace aggression from all sources, and little evidence on the experiences, reporting and support-seeking behaviour of nurses, midwives and care personnel in Australian settings. Aim: To determine the 12-month prevalence of aggression experienced by nurses, midwives and care personnel from sources external and internal to the organisation, and the reporting behaviours and support sought from employers, health services, Trade Unions, work health and safety agencies, police and legal services. Methods: An online survey of the membership of the Australian Nursing and Midwifery Federation – Victorian Branch was conducted between 1 st May and 30th June 2017. Findings: In the previous 12 months, 96.5% of respondents experienced workplace aggression, with 90.9% experiencing aggression from external sources and 72.3% from internal sources. A majority indicated they just accepted incidents of aggression, and most rarely or never took time off work, sought medical or psychological treatment, or sought organisational or other institutional support, advice or action. Levels of satisfaction with institutional services were mostly neutral to poor. Discussion: Victorian nurses, midwives and care personnel work in aggressive and violent workplaces. The incivility endemic in health care likely sets the climate for the generation of and exposure to so much explicit aggression and violence. It appears that any systems or processes instituted to protect health care personnel from harm are failing. Conclusion: More targeted and effectively operationalised legislation, incentives and penalties are likely required. Further research may elaborate the extent of the impact of exposure to workplace aggression over time.
- Authors: Hills, Danny , Lam, Louisa , Hills, Sharon
- Date: 2018
- Type: Text , Journal article
- Relation: Collegian Vol. 25, no. 6 (2018), p. 575-582
- Full Text:
- Reviewed:
- Description: Background: Workplace aggression is a major work health and safety, and public health concern. To date, there has been limited investigation of population level exposure and responses to workplace aggression from all sources, and little evidence on the experiences, reporting and support-seeking behaviour of nurses, midwives and care personnel in Australian settings. Aim: To determine the 12-month prevalence of aggression experienced by nurses, midwives and care personnel from sources external and internal to the organisation, and the reporting behaviours and support sought from employers, health services, Trade Unions, work health and safety agencies, police and legal services. Methods: An online survey of the membership of the Australian Nursing and Midwifery Federation – Victorian Branch was conducted between 1 st May and 30th June 2017. Findings: In the previous 12 months, 96.5% of respondents experienced workplace aggression, with 90.9% experiencing aggression from external sources and 72.3% from internal sources. A majority indicated they just accepted incidents of aggression, and most rarely or never took time off work, sought medical or psychological treatment, or sought organisational or other institutional support, advice or action. Levels of satisfaction with institutional services were mostly neutral to poor. Discussion: Victorian nurses, midwives and care personnel work in aggressive and violent workplaces. The incivility endemic in health care likely sets the climate for the generation of and exposure to so much explicit aggression and violence. It appears that any systems or processes instituted to protect health care personnel from harm are failing. Conclusion: More targeted and effectively operationalised legislation, incentives and penalties are likely required. Further research may elaborate the extent of the impact of exposure to workplace aggression over time.
Factor Structure of the Sleep Disturbance Scale for Children (SDSC) in those with Attention Deficit and Hyperactivity Disorder (ADHD)
- Mancini, Vincent, Rudaizky, Daniel, Pearcy, Benjamin, Marriner, Angela, Pestell, Carmela, Gomez, Rapson, Bucks, Romola, Chen, Wai
- Authors: Mancini, Vincent , Rudaizky, Daniel , Pearcy, Benjamin , Marriner, Angela , Pestell, Carmela , Gomez, Rapson , Bucks, Romola , Chen, Wai
- Date: 2019
- Type: Text , Journal article
- Relation: Sleep Medicine: X Vol. 1, no. (2019), p.
- Full Text:
- Reviewed:
- Description: Objective: To examine the factor structure of the Sleep Disorder Scale for Children (SDSC) in children and adolescents with attention deficit and hyperactivity disorder (ADHD). Method: The caregivers of 307 children with ADHD completed the SDSC. Standard and bifactor confirmatory factor analysis (CFA) evaluated the goodness-of-fit of competing factor structures. Results: The original and unidimensional factor structure produced sub-optimal fit. Bifactor exploratory factor analysis (EFA) was performed to examine the underlying structure of the SDSC. A revised bifactor solution comprising six-specific factors and a general factor was identified. A nested version of this model was deemed to be the preferred model, which also demonstrated good psychometric properties. Conclusion: There is evidence of a ‘general sleep difficulties’ factor in children with ADHD. Four of the six original factors were replicated in this study. However, the revised factor structure suggests that clinicians should be cautious of the utility of subscale scores pending further validation in ADHD samples. © 2019
- Authors: Mancini, Vincent , Rudaizky, Daniel , Pearcy, Benjamin , Marriner, Angela , Pestell, Carmela , Gomez, Rapson , Bucks, Romola , Chen, Wai
- Date: 2019
- Type: Text , Journal article
- Relation: Sleep Medicine: X Vol. 1, no. (2019), p.
- Full Text:
- Reviewed:
- Description: Objective: To examine the factor structure of the Sleep Disorder Scale for Children (SDSC) in children and adolescents with attention deficit and hyperactivity disorder (ADHD). Method: The caregivers of 307 children with ADHD completed the SDSC. Standard and bifactor confirmatory factor analysis (CFA) evaluated the goodness-of-fit of competing factor structures. Results: The original and unidimensional factor structure produced sub-optimal fit. Bifactor exploratory factor analysis (EFA) was performed to examine the underlying structure of the SDSC. A revised bifactor solution comprising six-specific factors and a general factor was identified. A nested version of this model was deemed to be the preferred model, which also demonstrated good psychometric properties. Conclusion: There is evidence of a ‘general sleep difficulties’ factor in children with ADHD. Four of the six original factors were replicated in this study. However, the revised factor structure suggests that clinicians should be cautious of the utility of subscale scores pending further validation in ADHD samples. © 2019
High CD26 and low CD94 expression identifies an IL-23 responsive Vδ2+ T Cell subset with a MAIT cell-like transcriptional profile
- Wragg, Kathleen, Tan, Hyon, Kristensen, Anne, Nguyen-Robertson, Catriona, Kelleher, Anthony, Parsons, Matthew, Wheatley, Adam, Berzins, Stuart, Pellicci, Daniel, Kent, Stephen, Juno, Jennifer
- Authors: Wragg, Kathleen , Tan, Hyon , Kristensen, Anne , Nguyen-Robertson, Catriona , Kelleher, Anthony , Parsons, Matthew , Wheatley, Adam , Berzins, Stuart , Pellicci, Daniel , Kent, Stephen , Juno, Jennifer
- Date: 2020
- Type: Text , Journal article
- Relation: Cell Reports Vol. 31, no. 11 (2020), p.
- Full Text:
- Reviewed:
- Description: Vδ2+ T cells play a critical role in immunity to micro-organisms and cancer but exhibit substantial heterogeneity in humans. Here, we demonstrate that CD26 and CD94 define transcriptionally, phenotypically, and functionally distinct Vδ2+ T cell subsets. Despite distinct antigen specificities, CD26hiCD94lo Vδ2+ cells exhibit substantial similarities to CD26hi mucosal-associated invariant T (MAIT) cells, although CD26− Vδ2+ cells exhibit cytotoxic, effector-like profiles. At birth, the Vδ2+Vγ9+ population is dominated by CD26hiCD94lo cells; during adolescence and adulthood, Vδ2+ cells acquire CD94/NKG2A expression and the relative frequency of the CD26hiCD94lo subset declines. Critically, exposure of the CD26hiCD94lo subset to phosphoantigen in the context of interleukin-23 (IL-23) and CD26 engagement drives the acquisition of a cytotoxic program and concurrent loss of the MAIT cell-like phenotype. The ability to modulate the cytotoxic potential of CD26hiCD94lo Vδ2+ cells, combined with their adenosine-binding capacity, may make them ideal targets for immunotherapeutic expansion and adoptive transfer. Wragg et al. identify a population of human gd T cells with striking similarities to MAIT cells. These cells dominate the cord blood Vd2 population and upregulate an effector-like program upon antigen and IL-23 stimulation, providing a potential mechanism by which cytotoxic Vd2 cells may accumulate during adolescence and adulthood. © 2020
- Description: National Health and Medical Research Council, NHMRC
- Authors: Wragg, Kathleen , Tan, Hyon , Kristensen, Anne , Nguyen-Robertson, Catriona , Kelleher, Anthony , Parsons, Matthew , Wheatley, Adam , Berzins, Stuart , Pellicci, Daniel , Kent, Stephen , Juno, Jennifer
- Date: 2020
- Type: Text , Journal article
- Relation: Cell Reports Vol. 31, no. 11 (2020), p.
- Full Text:
- Reviewed:
- Description: Vδ2+ T cells play a critical role in immunity to micro-organisms and cancer but exhibit substantial heterogeneity in humans. Here, we demonstrate that CD26 and CD94 define transcriptionally, phenotypically, and functionally distinct Vδ2+ T cell subsets. Despite distinct antigen specificities, CD26hiCD94lo Vδ2+ cells exhibit substantial similarities to CD26hi mucosal-associated invariant T (MAIT) cells, although CD26− Vδ2+ cells exhibit cytotoxic, effector-like profiles. At birth, the Vδ2+Vγ9+ population is dominated by CD26hiCD94lo cells; during adolescence and adulthood, Vδ2+ cells acquire CD94/NKG2A expression and the relative frequency of the CD26hiCD94lo subset declines. Critically, exposure of the CD26hiCD94lo subset to phosphoantigen in the context of interleukin-23 (IL-23) and CD26 engagement drives the acquisition of a cytotoxic program and concurrent loss of the MAIT cell-like phenotype. The ability to modulate the cytotoxic potential of CD26hiCD94lo Vδ2+ cells, combined with their adenosine-binding capacity, may make them ideal targets for immunotherapeutic expansion and adoptive transfer. Wragg et al. identify a population of human gd T cells with striking similarities to MAIT cells. These cells dominate the cord blood Vd2 population and upregulate an effector-like program upon antigen and IL-23 stimulation, providing a potential mechanism by which cytotoxic Vd2 cells may accumulate during adolescence and adulthood. © 2020
- Description: National Health and Medical Research Council, NHMRC
Breeding home range movements of pre-fledged brolga chicks, Antigone rubicunda (Gruidae) in Victoria, Australia - Implications for wind farm planning and conservation
- Veltheim, Inka, Cook, Simon, Palmer, Grant, Hill, F.A. Richard, McCarthy, Michael
- Authors: Veltheim, Inka , Cook, Simon , Palmer, Grant , Hill, F.A. Richard , McCarthy, Michael
- Date: 2019
- Type: Text , Journal article
- Relation: Global Ecology and Conservation Vol. 20, no. (Oct 2019), p. 17
- Full Text:
- Reviewed:
- Description: Built infrastructure, such as wind farms and power lines, can impair wildlife movement. These barriers may displace individuals from important habitats due to direct mortality or disturbance. Understanding animal movement patterns can help avoid such impacts and manage population level effects. Avoiding impacts and implementing mitigation strategies is difficult when movement and home range information is lacking. Impact at breeding sites may negatively affect population recruitment. The number of wind farm developments is increasing in southern Australia within the core range of the south-eastern brolga (Antigone rubicunda) population. The main threats to this wetland bird include habitat loss, chick predation and collisions with power lines and fences. Wind farms may increase collision and mortality risk, and habitat displacement but the impact is difficult to assess or mitigate, as movement patterns and home range size are unknown. We deployed 11 GPS transmitters on pre-fledged brolga chicks at breeding sites in 2010-2012, including one at a wind farm, to investigate movement and home range use of brolga chicks. Brolga chicks moved 442m on average, to and from night roost wetlands (range: 0m-1964 m). The average breeding home range was 232 ha, estimated with a Brownian bridge movement model at 95% UD, but varied greatly between individuals (70 ha-523 ha). Brolgas used either single or multiple wetlands, and those using multiple wetlands either switched between them or relocated permanently. Information from this study can be used to design turbine-free buffers at brolga breeding sites and to manage breeding wetlands. (c) 2019 Published by Elsevier B.V. This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/).
- Authors: Veltheim, Inka , Cook, Simon , Palmer, Grant , Hill, F.A. Richard , McCarthy, Michael
- Date: 2019
- Type: Text , Journal article
- Relation: Global Ecology and Conservation Vol. 20, no. (Oct 2019), p. 17
- Full Text:
- Reviewed:
- Description: Built infrastructure, such as wind farms and power lines, can impair wildlife movement. These barriers may displace individuals from important habitats due to direct mortality or disturbance. Understanding animal movement patterns can help avoid such impacts and manage population level effects. Avoiding impacts and implementing mitigation strategies is difficult when movement and home range information is lacking. Impact at breeding sites may negatively affect population recruitment. The number of wind farm developments is increasing in southern Australia within the core range of the south-eastern brolga (Antigone rubicunda) population. The main threats to this wetland bird include habitat loss, chick predation and collisions with power lines and fences. Wind farms may increase collision and mortality risk, and habitat displacement but the impact is difficult to assess or mitigate, as movement patterns and home range size are unknown. We deployed 11 GPS transmitters on pre-fledged brolga chicks at breeding sites in 2010-2012, including one at a wind farm, to investigate movement and home range use of brolga chicks. Brolga chicks moved 442m on average, to and from night roost wetlands (range: 0m-1964 m). The average breeding home range was 232 ha, estimated with a Brownian bridge movement model at 95% UD, but varied greatly between individuals (70 ha-523 ha). Brolgas used either single or multiple wetlands, and those using multiple wetlands either switched between them or relocated permanently. Information from this study can be used to design turbine-free buffers at brolga breeding sites and to manage breeding wetlands. (c) 2019 Published by Elsevier B.V. This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/).
Defining and classifying aggression and violence in health care work
- Authors: Hills, Danny
- Date: 2018
- Type: Text , Journal article
- Relation: Collegian Vol. 25, no. 6 (2018), p. 607-612
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- Description: Background: There is considerable contention in defining workplace aggression, especially in health care. This can lead to challenges in effectively researching workplace aggression, and ensuring a sound basis for developing strategies to prevent and minimise its likelihood and consequences. Aim: The aim of this discussion paper is to provide a pragmatic definition of workplace aggression, based on a contemporary conceptualisation of human aggression, followed by a discussion on key classifications of workplace aggression. Methods: The argument presented draws on theoretical and applied literature to develop a case for adopting a pragmatic definition of aggression, with key classification components. Findings and Discussion: A highly practical conceptualisation of workplace aggression differentiates two main forms – verbal or written and physical aggression – and two main source groups – internal (co-workers) and external (patients, their relatives or carers and others external to the workplace). Conclusion: Clarity and consensus on defining and classifying workplace aggression, should provide a sound and coherent basis for researchers, policy makers, clinicians and health care organisations to successfully prevent and minimise this challenging and serious work health and safety concern. © 2018 Australian College of Nursing Ltd
- Authors: Hills, Danny
- Date: 2018
- Type: Text , Journal article
- Relation: Collegian Vol. 25, no. 6 (2018), p. 607-612
- Full Text:
- Reviewed:
- Description: Background: There is considerable contention in defining workplace aggression, especially in health care. This can lead to challenges in effectively researching workplace aggression, and ensuring a sound basis for developing strategies to prevent and minimise its likelihood and consequences. Aim: The aim of this discussion paper is to provide a pragmatic definition of workplace aggression, based on a contemporary conceptualisation of human aggression, followed by a discussion on key classifications of workplace aggression. Methods: The argument presented draws on theoretical and applied literature to develop a case for adopting a pragmatic definition of aggression, with key classification components. Findings and Discussion: A highly practical conceptualisation of workplace aggression differentiates two main forms – verbal or written and physical aggression – and two main source groups – internal (co-workers) and external (patients, their relatives or carers and others external to the workplace). Conclusion: Clarity and consensus on defining and classifying workplace aggression, should provide a sound and coherent basis for researchers, policy makers, clinicians and health care organisations to successfully prevent and minimise this challenging and serious work health and safety concern. © 2018 Australian College of Nursing Ltd