New approaches narrow global species estimates for beetles, insects, and terrestrial arthropods
- Stork, Nigel, McBroom, James, Gely, Claire, Hamilton, Andrew
- Authors: Stork, Nigel , McBroom, James , Gely, Claire , Hamilton, Andrew
- Date: 2015
- Type: Text , Journal article
- Relation: Proceedings of the National Academy of Sciences of the United States of America Vol. 112, no. 24 (2015), p. 7519-7523
- Full Text: false
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- Description: It has been suggested that we do not know within an order of magnitude the number of all species on Earth [May RM (1988) Science 241(4872):1441-1449]. Roughly 1.5 million valid species of all organisms have been named and described [Costello MJ, Wilson S, Houlding B (2012) Syst Biol 61(5):871-883]. Given Kingdom Animalia numerically dominates this list and virtually all terrestrial vertebrates have been described, the question of how many terrestrial species exist is all but reduced to one of how many arthropod species there are. With beetles alone accounting for about 40% of all described arthropod species, the truly pertinent question is how many beetle species exist. Here we present four new and independent estimates of beetle species richness, which produce a mean estimate of 1.5 million beetle species. We argue that the surprisingly narrow range (0.9-2.1 million) of these four autonomous estimates - derived from host-specificity relationships, ratios with other taxa, plant:beetle ratios, and a completely novel body-size approach - represents a major advance in honing in on the richness of this most significant taxon, and is thus of considerable importance to the debate on how many species exist. Using analogous approaches, we also produce independent estimates for all insects, mean: 5.5 million species (range 2.6-7.8 million), and for terrestrial arthropods, mean: 6.8 million species (range 5.9-7.8 million), which suggest that estimates for the world's insects and their relatives are narrowing considerably. © 2015, National Academy of Sciences. All rights reserved.
- Iqbal, Abeda Muhammad, Khan, Adnan Shahid, Bashir, Farrukh, Senin, Aslan Amat
- Authors: Iqbal, Abeda Muhammad , Khan, Adnan Shahid , Bashir, Farrukh , Senin, Aslan Amat
- Date: 2015
- Type: Text , Journal article
- Relation: Asian Social Science Vol. 11, no. 13 (2015), p. 45-60
- Full Text: false
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- Description: National innovation system (NIS) is an essential, effective and dynamic factor for the development of the nation. Despite the enormous research activities on NIS, there have been certain issues still remaining in this domain specially, in developing countries. Several articles have been published to deal with the factors affecting NIS of Malaysia but the role of research collaboration between university and industry (UIRC) on NIS is totally unattended in mainstream literature. Thus, the objective of this study is to determine the influence of UIRC on the NIS of Malaysia. Additionally, this study aims to indicate the current innovation performance and to identify the existing constraints of NIS. For the purpose of system modeling, system thinking approach is used to conceptualize and analyze the effect of UIRC on NIS. The result of this research shows that constraints of UIRC in Malaysia negatively influence on the success of NIS. © 2015, Asian Social Science. All right reserved.
Sexual abuse as the core transgression of childhood innocence : Unintended consequences for care leavers
- Authors: Golding, Frank
- Date: 2018
- Type: Text , Journal article
- Relation: Journal of Australian Studies Vol. 42, no. 2 (2018), p. 191-203
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- Description: The decision of the Gillard government to establish a royal commission in 2012 was acclaimed by care leavers. However, they were soon disillusioned: it was not the royal commission for which they had long struggled. Its terms of reference were too broad, encompassing a range of institutions never before the subject of official inquiries, yet also too narrowly focused on sexual abuse. Care leavers who suffered other forms of abuse were excluded. This paper argues that, while care leaver advocacy contributed to the decision to establish a royal commission, the agenda was a product of other pressures fuelled by state-based inquiries about cover-ups of sexual abuse of children, particularly by clergy. Sexual abuse could no longer be regarded as a sin to be handled in-house by institutions but a crime for which the state carried superordinate responsibility. The government had to intervene to address society’s “ultimate collective shame”. The Royal Commission into Institutional Responses to Child Sexual Abuse has made a massive contribution to our understanding of child sexual abuse and to reforms in child protection policy and practice. But its mandate created unintended consequences, and questions remain about the unmet needs of care leavers who suffered other forms of abuse.
- Authors: Golding, Frank
- Date: 2018
- Type: Text , Journal article
- Relation: Journal of Australian Studies Vol. 42, no. 2 (2018), p. 191-203
- Full Text:
- Reviewed:
- Description: The decision of the Gillard government to establish a royal commission in 2012 was acclaimed by care leavers. However, they were soon disillusioned: it was not the royal commission for which they had long struggled. Its terms of reference were too broad, encompassing a range of institutions never before the subject of official inquiries, yet also too narrowly focused on sexual abuse. Care leavers who suffered other forms of abuse were excluded. This paper argues that, while care leaver advocacy contributed to the decision to establish a royal commission, the agenda was a product of other pressures fuelled by state-based inquiries about cover-ups of sexual abuse of children, particularly by clergy. Sexual abuse could no longer be regarded as a sin to be handled in-house by institutions but a crime for which the state carried superordinate responsibility. The government had to intervene to address society’s “ultimate collective shame”. The Royal Commission into Institutional Responses to Child Sexual Abuse has made a massive contribution to our understanding of child sexual abuse and to reforms in child protection policy and practice. But its mandate created unintended consequences, and questions remain about the unmet needs of care leavers who suffered other forms of abuse.
- Panthi, Saroj, Khanal, Gopal, Acharya, Krishna, Aryal, Achyut, Srivathsa, Arjun
- Authors: Panthi, Saroj , Khanal, Gopal , Acharya, Krishna , Aryal, Achyut , Srivathsa, Arjun
- Date: 2017
- Type: Text , Journal article
- Relation: PLoS ONE Vol. 12, no. 7 (2017), p. 1-14
- Full Text: false
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- Description: Protected areas are key to preserving biodiversity and maintaining ecosystem services. However, their ability to ensure long-term survival of threatened andendangered species varies across countries, regions and landscapes. Distribution surveys can beparticularly important for assessing the value of protected areas, and gauging their efficacy incatering to species-specific requirements. We assessed the conservation value of one such reserve for a charismatic yet globally endangered species, the red panda Ailurus fulgens, in the light of on-going land-use transformation in Nepal. We conducted field surveys forindirect signs of red pandas along forest trails in 25-km2 sampling grid cells (n = 54) of Dhorpatan Hunting Reserve, and confronted a set of ecological hypotheses to the data using hierarchical occupancy models. We estimated overall occupancy at Ψ(SE) = 0.41 (0.007), with relatively high site-level detectability [p = 0.93 (SE = 0.001)]. Our results show that despitebeing a subsistence form of small-scale resource use, extraction of bamboo and livestock grazing negatively affected panda occurrence, albeit at different intensities. The amount of bamboo cover, rather than the overall proportion of forest cover, had greater influence on the panda occurrence. Despite availability of bamboo cover, areas with bamboo extraction and anthropogenic disturbances were less likely to be occupied by pandas. Together, these results suggest that long-term persistence of red pandas in this reserve and elsewhere across the species' range will require preventing commercial extraction of bamboo, coupled with case-specific regulation of anthropogenic exploitation of red panda habitats. © 2017 Panthi et al.This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
- Colombage, Sisira, Maslyuk, Svetlana, Taha, Roshaiza
- Authors: Colombage, Sisira , Maslyuk, Svetlana , Taha, Roshaiza
- Date: 2015
- Type: Text , Journal article
- Relation: The Journal of Developing Areas Vol. 49, no. 4 (2015), p. 89-107
- Full Text: false
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- Description: Traditional growth literature advocated the role of fiscal policy in establishing economic growth (Mckinnon, 1973; Schumpeter, 1911; Shaw, 1973; Solow, 1956; Zagler and Durnecker, 2003), but it did not consider the role of the stock market and the financial intermediation as the potential determinants of growth. Among those few economic theories explaining the stock market and taxation as joint determinants of the economic growth are the Levine’s (1991) endogenous growth models (EGM), which suggests that economic growth is strongly influenced by the stock market and tax policy, and the Laffer - Khaldun curve, which demonstrates that reduced tax rates on investment income would stimulate economic growth which in turn generate more tax revenue and possibly even compensate for tax incentives given on investment. We investigate ten Developing Asia nations over the period 1990 to 2008. To study differences among the countries, the study sub-divides Developing Asia into East Asia Pacific (China, Thailand, Malaysia, Indonesia, Taiwan, Philippines) and South Asia (Bangladesh, India, Pakistan, Sri Lanka). Our motivation to choose these particular countries has been influenced by the rapid expansion of the stock markets and the rise in economic growth over the entire sample period. We employ panel unit root tests, Pedroni cointegration tests and panel Granger causality tests to estimate both short and long run causal relationships between stock market, tax revenue and economic growth. Data used included logged values of GDP to proxy economic growth, total tax revenue and stock market capitalization taken as a percentage of GDP to proxy tax revenue and stock market respectively. Findings provide evidence in support of Laffer-Khaldun curve and the Levine’s (1991) EGM: stock market and tax revenue do have an impact on economic growth even though the impact might be somewhat small or in some cases even negative. This can be due to country- specific characteristics that make a successful transition from stock market and tax revenue to economic growth more difficult (i.e., corruption, difficulties in obtaining credit at the personal level, inflation). In the short run results demonstrate the existence of causal linkages (varying directions) for the countries in East Asia Pacific and South Asia. In the long run, for all the examined sub-samples the direction of relationship runs from i) economic growth and tax revenue to stock market; and ii) economic growth and stock market to tax revenue. For policy implementation, these results indicate that in order to promote economic growth, governments of ten Developing Asia should improve the channels between the stock market, taxation policy and economic growth by developing stock market liquidity and by identifying growth-oriented tax reform strategies.
'Language can not encompass being' : Poststructuralism and postmodernism
- Authors: Cooper, Simon
- Date: 2016
- Type: Text , Journal article
- Relation: Arena Journal Vol. , no. 45/46 (2016), p. 28-50
- Full Text: false
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- Description: Writing in 2016, it's sometimes hard to believe the influence that poststructuralist and postmodernist 'theory' had on university and intellectual culture in the 1980s and 1990s. Virtually every humanities and social-science department (and even some science departments) either adopted or at the very least was forced to confront the body of work of half a dozen (mainly) French thinkers and the English-speaking colleagues who took up the implications of their work. In the United States, the United Kingdom and Australia, 'theory' was deeply polarizing - either the high point of intellectual virtuosity, the voice of a new politics or a nihilistic assault on Western culture. English and Philosophy departments fractured or split entirely, newly formed cultural-studies journals enthusiastically applied theory's insights to the quotidian world, academic publication expanded massively. Outside the academy, theory was often denounced in the mainstream media as being meaningless jargon or politically dangerous, or both at the same time, while the theorists themselves retained a cult status both inside and outside the academy.
- Davis, Jenny, O'Grady, Anthony, Dale, Allan, Arthington, Angela, Gell, Peter, Driver, Patrick, Bond, Nick, Casanova, Michelle, Finlayson, C. Max, Watts, Robyn, Capon, Samantha, Nagelkerken, Ivan, Tingley, Reid, Fry, Brian, Page, Timothy, Specht, Alison
- Authors: Davis, Jenny , O'Grady, Anthony , Dale, Allan , Arthington, Angela , Gell, Peter , Driver, Patrick , Bond, Nick , Casanova, Michelle , Finlayson, C. Max , Watts, Robyn , Capon, Samantha , Nagelkerken, Ivan , Tingley, Reid , Fry, Brian , Page, Timothy , Specht, Alison
- Date: 2015
- Type: Text , Journal article
- Relation: Science of the Total Environment Vol. 534, no. (2015), p. 65-78
- Full Text: false
- Reviewed:
- Description: Intensification of the use of natural resources is a world-wide trend driven by the increasing demand for water, food, fibre, minerals and energy. These demands are the result of a rising world population, increasing wealth and greater global focus on economic growth. Land use intensification, together with climate change, is also driving intensification of the global hydrological cycle. Both processes will have major socio-economic and ecological implications for global water availability. In this paper we focus on the implications of land use intensification for the conservation and management of freshwater ecosystems using Australia as an example. We consider this in the light of intensification of the hydrologic cycle due to climate change, and associated hydrological scenarios that include the occurrence of more intense hydrological events (extreme storms, larger floods and longer droughts). We highlight the importance of managing water quality, the value of providing environmental flows within a watershed framework and the critical role that innovative science and adaptive management must play in developing proactive and robust responses to intensification. We also suggest research priorities to support improved systemic governance, including adaptation planning and management to maximise freshwater biodiversity outcomes while supporting the socio-economic objectives driving land use intensification. Further research priorities include: i) determining the relative contributions of surface water and groundwater in supporting freshwater ecosystems; ii) identifying and protecting freshwater biodiversity hotspots and refugia; iii) improving our capacity to model hydro-ecological relationships and predict ecological outcomes from land use intensification and climate change; iv) developing an understanding of long term ecosystem behaviour; and v) exploring systemic approaches to enhancing governance systems, including planning and management systems affecting freshwater outcomes. A major policy challenge will be the integration of land and water management, which increasingly are being considered within different policy frameworks. © Published by Elsevier B.V.
Partitioning of metals in a degraded acid sulfate soil landscape : Influence of tidal re-inundation
- Claff, Salirian, Sullivan, Leigh, Burton, Edward, Bush, Richard, Johnston, Scott
- Authors: Claff, Salirian , Sullivan, Leigh , Burton, Edward , Bush, Richard , Johnston, Scott
- Date: 2011
- Type: Text , Journal article
- Relation: Chemosphere Vol. 85, no. 8 (2011), p. 1220-1226
- Full Text: false
- Reviewed:
- Description: The oxidation and acidification of sulfidic soil materials results in the re-partitioning of metals, generally to more mobile forms. In this study, we examine the partitioning of Fe, Cr, Cu, Mn, Ni and Zn in the acidified surface soil (0-0.1. m) and the unoxidised sub-soil materials (1.3-1.5. m) of an acid sulfate soil landscape. Metal partitioning at this acidic site was then compared to an adjacent site that was previously acidified, but has since been remediated by tidal re-inundation. Differences in metal partitioning were determined using an optimised six-step sequential extraction procedure which targets the " labile" , " acid-soluble" , " organic" , " crystalline oxide" , " pyritic" and " residual" fractions. The surficial soil materials of the acidic site had experienced considerable losses of Cr, Cu, Mn and Ni compared to the underlying parent material due to oxidation and acidification, yet only minor losses of Fe and Zn. In general, the metals most depleted from the acidified surface soil materials exhibited the greatest sequestration in the surface soil materials of the tidally remediated site. An exception to this was iron, which accumulated to highly elevated concentrations in the surficial soil materials of the tidally remediated site. The " acid-soluble" , " organic" and " pyritic" fractions displayed the greatest increase in metals following tidal remediation. This study demonstrates that prolonged tidal re-inundation of severely acidified acid sulfate soil landscapes leads to the immobilisation of trace metals through the surficial accumulation of iron oxides, organic material and pyrite. © 2011 Elsevier Ltd.
Anxiety and Depression After a Cardiac Event: Prevalence and Predictors
- Murphy, Barbara, Le Grande, Michael, Alvarenga, Marlies, Worcester, Marian, Jackson, Alun
- Authors: Murphy, Barbara , Le Grande, Michael , Alvarenga, Marlies , Worcester, Marian , Jackson, Alun
- Date: 2020
- Type: Text , Journal article
- Relation: Frontiers in Psychology Vol. 10, no. (2020), p.
- Full Text:
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- Description: Introduction: Patients who are anxious or depressed after an acute cardiac event are at increased risk of a subsequent event and premature death. It is therefore important to identify these patients early in order to initiate supportive or even preventive measures. In the present study, we report on the prevalence of anxiety and depression during the first 12 months after an acute cardiac event, and the patient characteristics predictive of increased anxiety and depression risk in early and late convalescence. Methods: We recruited a sample of 911 patients with acute myocardial infarction (AMI), acute coronary syndrome (ACS), and/or unstable angina (UA), and/or undergoing coronary artery bypass graft surgery (CABGS). Patients completed the Hospital Anxiety and Depression Scale (HADS) close to the time of their event, and again during early (2–4 months post-event) and late (6–12 months post-event) convalescence. Using HADS-A and HADS-D cut-offs of 8+, prevalence rates for anxiety, depression, and comorbid anxiety and depression were determined for each timepoint. Chi-square tests and odds ratios were used to identify baseline patient characteristics associated with increased anxiety and depression risk over 12 months. Results: Anxiety rates were 43, 28, and 27% at the time of the event, early, and late convalescence. Depression rates were 22, 17, and 15%, respectively. Factors consistently associated with increased anxiety and depression risk were history of depression, financial strain, poor self-rated health, low socioeconomic status, younger age (<55 years), and smoking. Obesity, diabetes, and social isolation (living alone or being unpartnered) were identified as important albeit less significant risk factors. Neither sex nor event type were predictive of anxiety or depression. Conclusion: This large patient sample provided the opportunity to identify rates of anxiety and depression during the 12 months after a cardiac event and key patient characteristics for increased risk. These risk factors are easily identifiable at the time of the event, and could be used to guide the targeting of support programs for patients at risk. © Copyright © 2020 Murphy, Le Grande, Alvarenga, Worcester and Jackson.
- Authors: Murphy, Barbara , Le Grande, Michael , Alvarenga, Marlies , Worcester, Marian , Jackson, Alun
- Date: 2020
- Type: Text , Journal article
- Relation: Frontiers in Psychology Vol. 10, no. (2020), p.
- Full Text:
- Reviewed:
- Description: Introduction: Patients who are anxious or depressed after an acute cardiac event are at increased risk of a subsequent event and premature death. It is therefore important to identify these patients early in order to initiate supportive or even preventive measures. In the present study, we report on the prevalence of anxiety and depression during the first 12 months after an acute cardiac event, and the patient characteristics predictive of increased anxiety and depression risk in early and late convalescence. Methods: We recruited a sample of 911 patients with acute myocardial infarction (AMI), acute coronary syndrome (ACS), and/or unstable angina (UA), and/or undergoing coronary artery bypass graft surgery (CABGS). Patients completed the Hospital Anxiety and Depression Scale (HADS) close to the time of their event, and again during early (2–4 months post-event) and late (6–12 months post-event) convalescence. Using HADS-A and HADS-D cut-offs of 8+, prevalence rates for anxiety, depression, and comorbid anxiety and depression were determined for each timepoint. Chi-square tests and odds ratios were used to identify baseline patient characteristics associated with increased anxiety and depression risk over 12 months. Results: Anxiety rates were 43, 28, and 27% at the time of the event, early, and late convalescence. Depression rates were 22, 17, and 15%, respectively. Factors consistently associated with increased anxiety and depression risk were history of depression, financial strain, poor self-rated health, low socioeconomic status, younger age (<55 years), and smoking. Obesity, diabetes, and social isolation (living alone or being unpartnered) were identified as important albeit less significant risk factors. Neither sex nor event type were predictive of anxiety or depression. Conclusion: This large patient sample provided the opportunity to identify rates of anxiety and depression during the 12 months after a cardiac event and key patient characteristics for increased risk. These risk factors are easily identifiable at the time of the event, and could be used to guide the targeting of support programs for patients at risk. © Copyright © 2020 Murphy, Le Grande, Alvarenga, Worcester and Jackson.
Confirmatory factor analysis and exploratory structural equation modelling of the factor structure of the depression anxiety and stress scales-21
- Gomez, Rapson, Stavropoulos, Vasileios, Griffiths, Mark
- Authors: Gomez, Rapson , Stavropoulos, Vasileios , Griffiths, Mark
- Date: 2020
- Type: Text , Journal article
- Relation: Plos One Vol. 15, no. 6 (Jun 2020), p. 16
- Full Text:
- Reviewed:
- Description: The Depression Anxiety and Stress Scales-21 (DASS-21) involves a simple structure first-order three-factor oblique model, with factors for depression, anxiety, and stress. Recently, concerns have been raised over the value of using confirmatory factor analysis (CFA) for studying the factor structure of scales in general. However, such concerns can be circumvented using exploratory structural equation modeling (ESEM). Consequently, the present study used CFA and ESEM with target rotation to examine the factor structure of the DASS-21 among an adult community. It compared first-order CFA, ESEM with target rotation, bi-factor CFA (BCFA), and bi-factor BESEM with target rotation models with group/specific factors for depression, anxiety, and stress. A total of 738 adults (males = 374, and females = 364; M = 25.29 years; SD = 7.61 years) completed the DASS-21. While all models examined showed good global fit values, one or more of the group/specific factors in the BCFA, ESEM with target rotation and BESEM with target rotation models were poorly defined. As the first-order CFA model was most parsimonious, with well-defined factors that were also supported in terms of their reliabilities and validities, this model was selected as the preferred DASS-21 model. The implications of the findings for use and revision of the DASS-21 are discussed.
- Authors: Gomez, Rapson , Stavropoulos, Vasileios , Griffiths, Mark
- Date: 2020
- Type: Text , Journal article
- Relation: Plos One Vol. 15, no. 6 (Jun 2020), p. 16
- Full Text:
- Reviewed:
- Description: The Depression Anxiety and Stress Scales-21 (DASS-21) involves a simple structure first-order three-factor oblique model, with factors for depression, anxiety, and stress. Recently, concerns have been raised over the value of using confirmatory factor analysis (CFA) for studying the factor structure of scales in general. However, such concerns can be circumvented using exploratory structural equation modeling (ESEM). Consequently, the present study used CFA and ESEM with target rotation to examine the factor structure of the DASS-21 among an adult community. It compared first-order CFA, ESEM with target rotation, bi-factor CFA (BCFA), and bi-factor BESEM with target rotation models with group/specific factors for depression, anxiety, and stress. A total of 738 adults (males = 374, and females = 364; M = 25.29 years; SD = 7.61 years) completed the DASS-21. While all models examined showed good global fit values, one or more of the group/specific factors in the BCFA, ESEM with target rotation and BESEM with target rotation models were poorly defined. As the first-order CFA model was most parsimonious, with well-defined factors that were also supported in terms of their reliabilities and validities, this model was selected as the preferred DASS-21 model. The implications of the findings for use and revision of the DASS-21 are discussed.
The politics of race, nationhood and hindu nationalism: The case of Gujarat riots of 2002
- Authors: Patil, Tejaswini
- Date: 2017
- Type: Text , Journal article , Review
- Relation: Asian Journal of Social Science Vol. 45, no. 1-2 (2017), p. 27-54
- Full Text: false
- Reviewed:
- Description: The discussion on Hindu-Muslim conflict in India has revolved around religious or ethno-nationalist explanations. Employing the Gujarat riots of 2002 as a case study, I argue that dominant (Hindu) nationalism is linked to the ideas of "race" and has its roots in Brahminical notions of Aryanism and colonial racism. The categories of "foreign, hypermasculine, terrorist Other" widely prevalent in the characterisation of the Muslim Other, are not necessarily produced due to religious differences. Instead, social and cultural cleavages propagated by Hindu nationalists have their origins in race theory that accommodates purity, lineage, classification and hierarchy as part of the democratic discourses that pervade the modern nation-state. It focuses on how the state and non-state actors create discursive silences and normalise violence against minority communities by embodying emotions of fear, hate and anger among its participants to protect Hindu nationalism. © Copyright 2017 by Koninklijke Brill NV, Leiden, The Netherlands.
- Barbieri, Diego, Lou, Baowen, Passavanti, Marco, Hui, Cang, Lessa, Daniela, Maharaj, Brij, Banerjee, Arunabha, Wang, Fusong, Chang, Kevin, Naik, Bhaven, Yu, Lei, Liu, Zhuangzhuang, Sikka, Gaurav, Tucker, Andrew, Mirhosseini, Ali, Naseri, Sahra, Qiao, Yaning, Gupta, Akshay, Abbas, Montasir, Fang, Kevin, Ghasemi, Navid, Peprah, Prince, Goswami, Shubham, Hessami, Amir, Agarwal, Nithin, Lam, Louisa, Adomako, Solomon
- Authors: Barbieri, Diego , Lou, Baowen , Passavanti, Marco , Hui, Cang , Lessa, Daniela , Maharaj, Brij , Banerjee, Arunabha , Wang, Fusong , Chang, Kevin , Naik, Bhaven , Yu, Lei , Liu, Zhuangzhuang , Sikka, Gaurav , Tucker, Andrew , Mirhosseini, Ali , Naseri, Sahra , Qiao, Yaning , Gupta, Akshay , Abbas, Montasir , Fang, Kevin , Ghasemi, Navid , Peprah, Prince , Goswami, Shubham , Hessami, Amir , Agarwal, Nithin , Lam, Louisa , Adomako, Solomon
- Date: 2020
- Type: Text , Journal article , Data article
- Relation: Data in Brief Vol. 32, (2020)
- Full Text: false
- Reviewed:
- Description: The dataset deals with the air quality perceived by citizens before and during the enforcement of COVID-19 restrictions in ten countries around the world: Australia, Brazil, China, Ghana, India, Iran, Italy, Norway, South Africa and the United States. An online survey conveniently translated into Chinese, English, Italian, Norwegian, Persian, Portuguese collected information regarding the perceived quality of air pollution according to a Likert scale. The questionnaire was distributed between 11-05-2020 and 31-05-2020 and 9 394 respondents took part. Both the survey and the dataset (stored in a Microsoft Excel Worksheet) are available in a public repository. The collected data offer the people's subjective perspectives related to the objective improvement in air quality occurred during the COVID-19 restrictions. Furthermore, the dataset can be used for research studies involving the reduction in air pollution as experienced, to a different extent, by populations of all the ten countries. © 2020 The Author(s)
Genetic aetiology of self-harm ideation and behaviour
- Campos, Adrian, Verweij, Karin, Statham, Dixie, Madden, Pamela, Maciejewski, Dominique, Davis, Katrina, John, Ann, Hotopf, Matthew, Heath, Andrew, Martin, Nicholas, Rentería, Miguel
- Authors: Campos, Adrian , Verweij, Karin , Statham, Dixie , Madden, Pamela , Maciejewski, Dominique , Davis, Katrina , John, Ann , Hotopf, Matthew , Heath, Andrew , Martin, Nicholas , Rentería, Miguel
- Date: 2020
- Type: Text , Journal article
- Relation: Scientific Reports Vol. 10, no. 1 (2020), p.
- Full Text:
- Reviewed:
- Description: Family studies have identified a heritable component to self-harm that is partially independent from comorbid psychiatric disorders. However, the genetic aetiology of broad sense (non-suicidal and suicidal) self-harm has not been characterised on the molecular level. In addition, controversy exists about the degree to which suicidal and non-suicidal self-harm share a common genetic aetiology. In the present study, we conduct genome-wide association studies (GWAS) on lifetime self-harm ideation and self-harm behaviour (i.e. any lifetime self-harm act regardless of suicidal intent) using data from the UK Biobank (n > 156,000). We also perform genome wide gene-based tests and characterize the SNP heritability and genetic correlations between these traits. Finally, we test whether polygenic risk scores (PRS) for self-harm ideation and self-harm behaviour predict suicide attempt, suicide thoughts and non-suicidal self-harm (NSSH) in an independent target sample of 8,703 Australian adults. Our GWAS results identified one genome-wide significant locus associated with each of the two phenotypes. SNP heritability (hsnp2) estimates were ~10%, and both traits were highly genetically correlated (LDSC rg > 0.8). Gene-based tests identified seven genes associated with self-harm ideation and four with self-harm behaviour. Furthermore, in the target sample, PRS for self-harm ideation were significantly associated with suicide thoughts and NSSH, and PRS for self-harm behaviour predicted suicide thoughts and suicide attempt. Follow up regressions identified a shared genetic aetiology between NSSH and suicide thoughts, and between suicide thoughts and suicide attempt. Evidence for shared genetic aetiology between NSSH and suicide attempt was not statistically significant. © 2020, The Author(s).
- Description: This research was conducted using data from the UK Biobank resource under application number 25331. AC-G is supported by a UQ Research Training Scholarship from The University of Queensland (UQ). MER thanks the support of the NHMRC and Australian Research Council (ARC), and National Health and Medical Research Council (NHMRC) through a Research Fellowship (GNT1102821) and NHMRC Centre for Research Excellence in Suicide Prevention (GNT1042580). This research was made possible thanks to support from the US National Institutes of Health (grants AA013326, AA07535, AA0758O, AA07728, AA10249, AA13320, AA13321, AA14041, AA11998, AA17688, DA00272, DA012854, DA07261, DA018267, DA018660, DA23668 and DA019951); the Australian National Health and Medical Research Council (241944, 339462, 389927, 389875, 389891, 389892, 389938, 442915, 442981, 496739, 552485, 552498, 628911 1047956); the Australian Research Council (A7960034, A79906588, A79801419, DP0770096, DP0212016 and DP0343921).
- Authors: Campos, Adrian , Verweij, Karin , Statham, Dixie , Madden, Pamela , Maciejewski, Dominique , Davis, Katrina , John, Ann , Hotopf, Matthew , Heath, Andrew , Martin, Nicholas , Rentería, Miguel
- Date: 2020
- Type: Text , Journal article
- Relation: Scientific Reports Vol. 10, no. 1 (2020), p.
- Full Text:
- Reviewed:
- Description: Family studies have identified a heritable component to self-harm that is partially independent from comorbid psychiatric disorders. However, the genetic aetiology of broad sense (non-suicidal and suicidal) self-harm has not been characterised on the molecular level. In addition, controversy exists about the degree to which suicidal and non-suicidal self-harm share a common genetic aetiology. In the present study, we conduct genome-wide association studies (GWAS) on lifetime self-harm ideation and self-harm behaviour (i.e. any lifetime self-harm act regardless of suicidal intent) using data from the UK Biobank (n > 156,000). We also perform genome wide gene-based tests and characterize the SNP heritability and genetic correlations between these traits. Finally, we test whether polygenic risk scores (PRS) for self-harm ideation and self-harm behaviour predict suicide attempt, suicide thoughts and non-suicidal self-harm (NSSH) in an independent target sample of 8,703 Australian adults. Our GWAS results identified one genome-wide significant locus associated with each of the two phenotypes. SNP heritability (hsnp2) estimates were ~10%, and both traits were highly genetically correlated (LDSC rg > 0.8). Gene-based tests identified seven genes associated with self-harm ideation and four with self-harm behaviour. Furthermore, in the target sample, PRS for self-harm ideation were significantly associated with suicide thoughts and NSSH, and PRS for self-harm behaviour predicted suicide thoughts and suicide attempt. Follow up regressions identified a shared genetic aetiology between NSSH and suicide thoughts, and between suicide thoughts and suicide attempt. Evidence for shared genetic aetiology between NSSH and suicide attempt was not statistically significant. © 2020, The Author(s).
- Description: This research was conducted using data from the UK Biobank resource under application number 25331. AC-G is supported by a UQ Research Training Scholarship from The University of Queensland (UQ). MER thanks the support of the NHMRC and Australian Research Council (ARC), and National Health and Medical Research Council (NHMRC) through a Research Fellowship (GNT1102821) and NHMRC Centre for Research Excellence in Suicide Prevention (GNT1042580). This research was made possible thanks to support from the US National Institutes of Health (grants AA013326, AA07535, AA0758O, AA07728, AA10249, AA13320, AA13321, AA14041, AA11998, AA17688, DA00272, DA012854, DA07261, DA018267, DA018660, DA23668 and DA019951); the Australian National Health and Medical Research Council (241944, 339462, 389927, 389875, 389891, 389892, 389938, 442915, 442981, 496739, 552485, 552498, 628911 1047956); the Australian Research Council (A7960034, A79906588, A79801419, DP0770096, DP0212016 and DP0343921).
Designing multi-agent system organisations for flexible runtime behaviour
- Keogh, Kathleen, Sonenberg, Liz
- Authors: Keogh, Kathleen , Sonenberg, Liz
- Date: 2020
- Type: Text , Journal article
- Relation: Applied Sciences (Switzerland) Vol. 10, no. 15 (2020), p.
- Full Text:
- Reviewed:
- Description: We address the challenge of multi-agent system (MAS) design for organisations of agents acting in dynamic and uncertain environments where runtime flexibility is required to enable improvisation through sharing knowledge and adapting behaviour. We identify behavioural features that correspond to runtime improvisation by agents in a MAS organisation and from this analysis describe the OJAzzIC meta-model and an associated design method. We present results from simulation scenarios, varying both problem complexity and the level of organisational support provided in the design, to show that increasing design time guidance in the organisation specification can enable runtime flexibility afforded to agents and improve performance. Hence the results demonstrate the usefulness of the constructs captured in the OJAzzIC meta-model. © 2020 by the authors.
- Authors: Keogh, Kathleen , Sonenberg, Liz
- Date: 2020
- Type: Text , Journal article
- Relation: Applied Sciences (Switzerland) Vol. 10, no. 15 (2020), p.
- Full Text:
- Reviewed:
- Description: We address the challenge of multi-agent system (MAS) design for organisations of agents acting in dynamic and uncertain environments where runtime flexibility is required to enable improvisation through sharing knowledge and adapting behaviour. We identify behavioural features that correspond to runtime improvisation by agents in a MAS organisation and from this analysis describe the OJAzzIC meta-model and an associated design method. We present results from simulation scenarios, varying both problem complexity and the level of organisational support provided in the design, to show that increasing design time guidance in the organisation specification can enable runtime flexibility afforded to agents and improve performance. Hence the results demonstrate the usefulness of the constructs captured in the OJAzzIC meta-model. © 2020 by the authors.
Learning large margin multiple granularity features with an improved siamese network for person re-identification
- Li, Da-Xiang, Fei, Gy, Teng, Shyh
- Authors: Li, Da-Xiang , Fei, Gy , Teng, Shyh
- Date: 2020
- Type: Text , Journal article
- Relation: Symmetry-Basel Vol. 12, no. 1 (Jan 2020), p. 16
- Full Text:
- Reviewed:
- Description: Person re-identification (Re-ID) is a non-overlapping multi-camera retrieval task to match different images of the same person, and it has become a hot research topic in many fields, such as surveillance security, criminal investigation, and video analysis. As one kind of important architecture for person re-identification, Siamese networks usually adopt standard softmax loss function, and they can only obtain the global features of person images, ignoring the local features and the large margin for classification. In this paper, we design a novel symmetric Siamese network model named Siamese Multiple Granularity Network (SMGN), which can jointly learn the large margin multiple granularity features and similarity metrics for person re-identification. Firstly, two branches for global and local feature extraction are designed in the backbone of the proposed SMGN model, and the extracted features are concatenated together as multiple granularity features of person images. Then, to enhance their discriminating ability, the multiple channel weighted fusion (MCWF) loss function is constructed for the SMGN model, which includes the verification loss and identification loss of the training image pair. Extensive comparative experiments on four benchmark datasets (CUHK01, CUHK03, Market-1501 and DukeMTMC-reID) show the effectiveness of our proposed method and its performance outperforms many state-of-the-art methods.
- Authors: Li, Da-Xiang , Fei, Gy , Teng, Shyh
- Date: 2020
- Type: Text , Journal article
- Relation: Symmetry-Basel Vol. 12, no. 1 (Jan 2020), p. 16
- Full Text:
- Reviewed:
- Description: Person re-identification (Re-ID) is a non-overlapping multi-camera retrieval task to match different images of the same person, and it has become a hot research topic in many fields, such as surveillance security, criminal investigation, and video analysis. As one kind of important architecture for person re-identification, Siamese networks usually adopt standard softmax loss function, and they can only obtain the global features of person images, ignoring the local features and the large margin for classification. In this paper, we design a novel symmetric Siamese network model named Siamese Multiple Granularity Network (SMGN), which can jointly learn the large margin multiple granularity features and similarity metrics for person re-identification. Firstly, two branches for global and local feature extraction are designed in the backbone of the proposed SMGN model, and the extracted features are concatenated together as multiple granularity features of person images. Then, to enhance their discriminating ability, the multiple channel weighted fusion (MCWF) loss function is constructed for the SMGN model, which includes the verification loss and identification loss of the training image pair. Extensive comparative experiments on four benchmark datasets (CUHK01, CUHK03, Market-1501 and DukeMTMC-reID) show the effectiveness of our proposed method and its performance outperforms many state-of-the-art methods.
Synthesis of water treatment sludge ash-based geopolymers in an Amazonian context
- Santos, Gessica, Melo Filho, Joao, Pinheiro, Mauricio, Manzato, Lizandro
- Authors: Santos, Gessica , Melo Filho, Joao , Pinheiro, Mauricio , Manzato, Lizandro
- Date: 2019
- Type: Text , Journal article
- Relation: Journal of Environmental Management Vol. 249, no. (Nov 2019), p. 8
- Full Text: false
- Reviewed:
- Description: Water treatment plants (WTP) in the City of Manaus, Brazil, generate tons of sludge daily, which are then disposed of in landfills and main watercourses, particularly two important Amazonian Rivers: the blackwater Negro River and the pale sandy-colored water Solimoes River. Because WTP-based sludges are rich in silicon and aluminum, they have been employed in the synthesis of geopolymers - alkaline activated inorganic polymers consisting of silicate and aluminosilicate chains. This paper reports the results of a geopolymeric synthesis process in which calcined sludge was explored as a source of silica and alumina. In this research, a laboratory testing program was developed to characterize the waste material generated from a water treatment plant in Manaus, whose intake water is influenced by the above referred rivers. Sample preparation involved kiln drying at 110 degrees C for 8 h, grinding in ball mill for 2 h, and calcination at 750 degrees C for 6 h. The calcined sludge was used as precursor, and potassium hydroxide added as activating alkali. Two geopolymers, one from each sludge source, were prepared following identical procedures. The chemical, compositional, morphological, thermal and mechanical properties of the fresh and hardened geopolymers were characterized. The geopolymers reached uniaxial compressive strengths of over 50 MPa at 28 days. Calcination conveyed more refined properties to the sludge-based geopolymers, akin to metakaolin-based geopolymers. The results presented herein support the technical feasibility of geopolymer synthesis in the lab scale.
- Wong, Vanessa, Johnston, Scott, Burton, Edward, Bush, Richard, Sullivan, Leigh, Slavich, Peter
- Authors: Wong, Vanessa , Johnston, Scott , Burton, Edward , Bush, Richard , Sullivan, Leigh , Slavich, Peter
- Date: 2011
- Type: Text , Journal article
- Relation: Science of the Total Environment Vol. 409, no. 24 (2011), p. 5368-5375
- Full Text: false
- Reviewed:
- Description: Episodic hypoxic events can occur following summer floods in sub-tropical estuaries of eastern Australia. These events can cause deoxygenation of waterways and extensive fish mortality. Here, we present a conceptual model that links key landscape drivers and biogeochemical processes which contribute to post-flood hypoxic events. The model provides a framework for examining the nature of anthropogenic forcing. Modification of estuarine floodplain surface hydrology through the construction of extensive drainage networks emerges as a major contributing factor to increasing the frequency, magnitude and duration of hypoxic events. Forcing occurs in two main ways. Firstly, artificial drainage of backswamp wetlands initiates drier conditions which cause a shift in vegetation assemblages from wetland-dominant species to dryland-dominant species. These species, which currently dominate the floodplain, are largely intolerant of inundation and provide abundant labile substrate for decomposition following flood events. Decomposition of this labile carbon pool consumes oxygen in the overlying floodwaters, and results in anoxic conditions and waters with excess deoxygenation potential (DOP). Carbon metabolism can be strongly coupled with microbially-mediated reduction of accumulated Fe and Mn oxides, phases which are common on these coastal floodplain landscapes. Secondly, artificial drainage enhances discharge rates during the flood recession phase. Drains transport deoxygenated high DOP floodwaters rapidly from backswamp wetlands to the main river channel to further consume oxygen. This process effectively displaces the natural carbon metabolism processes from floodplain wetlands to the main channel. Management options to reduce the impacts of post-flood hypoxia include i) remodifying drainage on the floodplain to promote wetter conditions, thereby shifting vegetation assemblages towards inundation-tolerant species, and ii) strategic retention of floodwaters in the backswamp wetlands to reduce the volume and rate during the critical post-flood recession phase. © 2011 Elsevier B.V.
- Brown, Stuart, Versace, Vincent, Laurenson, Laurie, Ierodiaconou, Daniel, Fawcett, Jonathon, Salzman, Scott
- Authors: Brown, Stuart , Versace, Vincent , Laurenson, Laurie , Ierodiaconou, Daniel , Fawcett, Jonathon , Salzman, Scott
- Date: 2012
- Type: Text , Journal article
- Relation: Environmental Modeling and Assessment Vol. 17, no. 3 (2012), p. 241-254
- Full Text: false
- Reviewed:
- Description: Traditional regression techniques such as ordinary least squares (OLS) are often unable to accurately model spatially varying data and may ignore or hide local variations in model coefficients. A relatively new technique, geographically weighted regression (GWR) has been shown to greatly improve model performance compared to OLS in terms of higher R 2 and lower corrected Akaike information criterion (AIC C). GWR models have the potential to improve reliabilities of the identified relationships by reducing spatial autocorrelations and by accounting for local variations and spatial non-stationarity between dependent and independent variables. In this study, GWR was used to examine the relationship between land cover, rainfall and surface water habitat in 149 sub-catchments in a predominately agricultural region covering 2.6 million ha in southeast Australia. The application of the GWR models revealed that the relationships between land cover, rainfall and surface water habitat display significant spatial non-stationarity. GWR showed improvements over analogous OLS models in terms of higher R 2 and lower AIC C. The increased explanatory power of GWR was confirmed by the results of an approximate likelihood ratio test, which showed statistically significant improvements over analogous OLS models. The models suggest that the amount of surface water area in the landscape is related to anthropogenic drainage practices enhancing runoff to facilitate intensive agriculture and increased plantation forestry. However, with some key variables not present in our analysis, the strength of this relationship could not be qualified. GWR techniques have the potential to serve as a useful tool for environmental research and management across a broad range of scales for the investigation of spatially varying relationships. © 2011 Springer Science+Business Media B.V.
Trans-ethnic kidney function association study reveals putative causal genes and effects on kidney-specific disease aetiologies
- Morris, Andrew, Le, Thu, Wu, Haojia, Akbarov, Artur, van der Most, Peter, Hemani, Gibran, Smith, George, Mahajan, Anubha, Gaulton, Kyle, Nadkarni, Girish, Valladares-Salgado, Adan, Wacher-Rodarte, Niels, Mychaleckyj, Josyf, Dueker, Nicole, Guo, Xiuqing, Hai, Yang, Haessler, Jeffrey, Kamatani, Yoichiro, Stilp, Adrienne, Zhu, Gu, Cook, James, Arnlov, Johan, Blanton, Susan, de Borst, Martin, Bottinger, Erwin, Buchanan, Thomas, Cechova, Sylvia, Charchar, Fadi, Chu, Pei-Lun, Damman, Jeffrey, Eales, James, Gharavi, Ali, Giedraitis, Vilmantas, Heath, Andrew, Ipp, Eli, Kiryluk, Krzysztof, Kramer, Holly, Kubo, Michiaki, Larsson, Anders, Lindgren, Cecilia, Lu, Yingchang, Madden, Pamela, Montgomery, Grant, Papanicolaou, George, Raffel, Leslie, Sacco, Ralph, Sanchez, Elena, Stark, Holger, Sundstrom, Johan, Taylor, Kent, Xiang, Anny, Zivkovic, Aleksandra, Lind, Lars, Ingelsson, Erik, Martin, Nicholas, Whitfield, John, Cai, Jianwen, Laurie, Cathy, Okada, Yukinori, Matsuda, Koichi, Kooperberg, Charles, Chen, Yii-Der, Rundek, Tatjana, Rich, Stephen, Loos, Ruth, Parra, Esteban, Cruz, Miguel, Rotter, Jerome, Snieder, Harold, Tomaszewski, Maciej, Humphreys, Benjamin, Franceschini, Nora
- Authors: Morris, Andrew , Le, Thu , Wu, Haojia , Akbarov, Artur , van der Most, Peter , Hemani, Gibran , Smith, George , Mahajan, Anubha , Gaulton, Kyle , Nadkarni, Girish , Valladares-Salgado, Adan , Wacher-Rodarte, Niels , Mychaleckyj, Josyf , Dueker, Nicole , Guo, Xiuqing , Hai, Yang , Haessler, Jeffrey , Kamatani, Yoichiro , Stilp, Adrienne , Zhu, Gu , Cook, James , Arnlov, Johan , Blanton, Susan , de Borst, Martin , Bottinger, Erwin , Buchanan, Thomas , Cechova, Sylvia , Charchar, Fadi , Chu, Pei-Lun , Damman, Jeffrey , Eales, James , Gharavi, Ali , Giedraitis, Vilmantas , Heath, Andrew , Ipp, Eli , Kiryluk, Krzysztof , Kramer, Holly , Kubo, Michiaki , Larsson, Anders , Lindgren, Cecilia , Lu, Yingchang , Madden, Pamela , Montgomery, Grant , Papanicolaou, George , Raffel, Leslie , Sacco, Ralph , Sanchez, Elena , Stark, Holger , Sundstrom, Johan , Taylor, Kent , Xiang, Anny , Zivkovic, Aleksandra , Lind, Lars , Ingelsson, Erik , Martin, Nicholas , Whitfield, John , Cai, Jianwen , Laurie, Cathy , Okada, Yukinori , Matsuda, Koichi , Kooperberg, Charles , Chen, Yii-Der , Rundek, Tatjana , Rich, Stephen , Loos, Ruth , Parra, Esteban , Cruz, Miguel , Rotter, Jerome , Snieder, Harold , Tomaszewski, Maciej , Humphreys, Benjamin , Franceschini, Nora
- Date: 2019
- Type: Text , Journal article
- Relation: Nature Communications Vol. 10, no. 1 (2019), p. 1-14
- Full Text:
- Reviewed:
- Description: Chronic kidney disease (CKD) affects ~10% of the global population, with considerable ethnic differences in prevalence and aetiology. We assemble genome-wide association studies of estimated glomerular filtration rate (eGFR), a measure of kidney function that defines CKD, in 312,468 individuals of diverse ancestry. We identify 127 distinct association signals with homogeneous effects on eGFR across ancestries and enrichment in genomic annotations including kidney-specific histone modifications. Fine-mapping reveals 40 high-confidence variants driving eGFR associations and highlights putative causal genes with cell-type specific expression in glomerulus, and in proximal and distal nephron. Mendelian randomisation supports causal effects of eGFR on overall and cause-specific CKD, kidney stone formation, diastolic blood pressure and hypertension. These results define novel molecular mechanisms and putative causal genes for eGFR, offering insight into clinical outcomes and routes to CKD treatment development.
- Authors: Morris, Andrew , Le, Thu , Wu, Haojia , Akbarov, Artur , van der Most, Peter , Hemani, Gibran , Smith, George , Mahajan, Anubha , Gaulton, Kyle , Nadkarni, Girish , Valladares-Salgado, Adan , Wacher-Rodarte, Niels , Mychaleckyj, Josyf , Dueker, Nicole , Guo, Xiuqing , Hai, Yang , Haessler, Jeffrey , Kamatani, Yoichiro , Stilp, Adrienne , Zhu, Gu , Cook, James , Arnlov, Johan , Blanton, Susan , de Borst, Martin , Bottinger, Erwin , Buchanan, Thomas , Cechova, Sylvia , Charchar, Fadi , Chu, Pei-Lun , Damman, Jeffrey , Eales, James , Gharavi, Ali , Giedraitis, Vilmantas , Heath, Andrew , Ipp, Eli , Kiryluk, Krzysztof , Kramer, Holly , Kubo, Michiaki , Larsson, Anders , Lindgren, Cecilia , Lu, Yingchang , Madden, Pamela , Montgomery, Grant , Papanicolaou, George , Raffel, Leslie , Sacco, Ralph , Sanchez, Elena , Stark, Holger , Sundstrom, Johan , Taylor, Kent , Xiang, Anny , Zivkovic, Aleksandra , Lind, Lars , Ingelsson, Erik , Martin, Nicholas , Whitfield, John , Cai, Jianwen , Laurie, Cathy , Okada, Yukinori , Matsuda, Koichi , Kooperberg, Charles , Chen, Yii-Der , Rundek, Tatjana , Rich, Stephen , Loos, Ruth , Parra, Esteban , Cruz, Miguel , Rotter, Jerome , Snieder, Harold , Tomaszewski, Maciej , Humphreys, Benjamin , Franceschini, Nora
- Date: 2019
- Type: Text , Journal article
- Relation: Nature Communications Vol. 10, no. 1 (2019), p. 1-14
- Full Text:
- Reviewed:
- Description: Chronic kidney disease (CKD) affects ~10% of the global population, with considerable ethnic differences in prevalence and aetiology. We assemble genome-wide association studies of estimated glomerular filtration rate (eGFR), a measure of kidney function that defines CKD, in 312,468 individuals of diverse ancestry. We identify 127 distinct association signals with homogeneous effects on eGFR across ancestries and enrichment in genomic annotations including kidney-specific histone modifications. Fine-mapping reveals 40 high-confidence variants driving eGFR associations and highlights putative causal genes with cell-type specific expression in glomerulus, and in proximal and distal nephron. Mendelian randomisation supports causal effects of eGFR on overall and cause-specific CKD, kidney stone formation, diastolic blood pressure and hypertension. These results define novel molecular mechanisms and putative causal genes for eGFR, offering insight into clinical outcomes and routes to CKD treatment development.
Molecular phylogeny of Burkholderia pseudomallei from a remote region of Papua New Guinea
- Baker, Anthony, Pearson, Talima, Price, Erin, Dale, Julia, Keim, Paul, Hornstra, Heidie, Greenhill, Andrew, Padilla, Gabriel, Warner, Jeffrey
- Authors: Baker, Anthony , Pearson, Talima , Price, Erin , Dale, Julia , Keim, Paul , Hornstra, Heidie , Greenhill, Andrew , Padilla, Gabriel , Warner, Jeffrey
- Date: 2011
- Type: Text , Journal article
- Relation: PLoS ONE Vol. 6, no. 3 (2011), p.
- Full Text:
- Reviewed:
- Description: Background: The island of New Guinea is located midway between the world's two major melioidosis endemic regions of Australia and Southeast Asia. Previous studies in Papua New Guinea have demonstrated autochthonous melioidosis in Balimo, Western province. In contrast to other regions of endemicity, isolates recovered from both environmental and clinical sources demonstrate narrow genetic diversity over large spatial and temporal scales. Methodology/Principal Findings: We employed molecular typing techniques to determine the phylogenetic relationships of these isolates to each other and to others worldwide to aid in understanding the origins of the Papua New Guinean isolates. Multi-locus sequence typing of the 39 isolates resolved three unique sequence types. Phylogenetic reconstruction and Structure analysis determined that all isolates were genetically closer to those from Australia than those from Southeast Asia. Gene cluster analysis however, identified a Yersinia-like fimbrial gene cluster predominantly found among Burkholderia pseudomallei derived from Southeast Asia. Higher resolution VNTR typing and phylogenetic reconstruction of the Balimo isolates resolved 24 genotypes with long branch lengths. These findings are congruent with long term persistence in the region and a high level of environmental stability. Conclusions/Significance: Given that anthropogenic influence has been hypothesized as a mechanism for the dispersal of B. pseudomallei, these findings correlate with limited movement of the indigenous people in the region. The palaeogeographical and anthropogenic history of Australasia and the results from this study indicate that New Guinea is an important region for the further study of B. pseudomallei origins and dissemination.
- Authors: Baker, Anthony , Pearson, Talima , Price, Erin , Dale, Julia , Keim, Paul , Hornstra, Heidie , Greenhill, Andrew , Padilla, Gabriel , Warner, Jeffrey
- Date: 2011
- Type: Text , Journal article
- Relation: PLoS ONE Vol. 6, no. 3 (2011), p.
- Full Text:
- Reviewed:
- Description: Background: The island of New Guinea is located midway between the world's two major melioidosis endemic regions of Australia and Southeast Asia. Previous studies in Papua New Guinea have demonstrated autochthonous melioidosis in Balimo, Western province. In contrast to other regions of endemicity, isolates recovered from both environmental and clinical sources demonstrate narrow genetic diversity over large spatial and temporal scales. Methodology/Principal Findings: We employed molecular typing techniques to determine the phylogenetic relationships of these isolates to each other and to others worldwide to aid in understanding the origins of the Papua New Guinean isolates. Multi-locus sequence typing of the 39 isolates resolved three unique sequence types. Phylogenetic reconstruction and Structure analysis determined that all isolates were genetically closer to those from Australia than those from Southeast Asia. Gene cluster analysis however, identified a Yersinia-like fimbrial gene cluster predominantly found among Burkholderia pseudomallei derived from Southeast Asia. Higher resolution VNTR typing and phylogenetic reconstruction of the Balimo isolates resolved 24 genotypes with long branch lengths. These findings are congruent with long term persistence in the region and a high level of environmental stability. Conclusions/Significance: Given that anthropogenic influence has been hypothesized as a mechanism for the dispersal of B. pseudomallei, these findings correlate with limited movement of the indigenous people in the region. The palaeogeographical and anthropogenic history of Australasia and the results from this study indicate that New Guinea is an important region for the further study of B. pseudomallei origins and dissemination.