Morphological and physiological adaptations to waterlogging by Eucalyptus seedlings from the semi-arid Pilbara, Western Australia
- Florentine, Singarayer, Fox, John
- Authors: Florentine, Singarayer , Fox, John
- Date: 2002
- Type: Text , Journal article
- Relation: The Journal of the Royal Society of Western Australia Vol. 85, no. (2002), p. 61-70
- Full Text:
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- Description: This study was undertaken to investigate the adaptation to long term waterlogging of semi-arid eucalyptus species. Long-term waterlogging of Eucalyptus victrix seedlings significantly increases seedling stem diameter. Flooding reduces photosynthesis, transpiration and stomatal conductance. Flooding does not increase shoot fresh or dry weight of 4-, 8- or 17- week old seedlings. Leaf emergence may be stimulated for flooded seedlings compared with unflooded seedlings. Root dry weight is not significantly greater for 17- week old flooded plants than 13- week old seedlings. We suggest that maintenance of a high root/shoot ratio is a drought adaptation. Furthermore, a comparative study of flood tolerance in semi-arid eucalypt species suggests that those species intolerant of flooding seldom express morphological adaptations and fail to recover from physiological damage. Flooding significantly reduced the transpiration rate and stomatal conduct of all three species. Diurnal transpiration, stomatal conductance and leaf water potential of E. terminalis and E. leucophloia were significantly different between treatment (flooding) and control seedlings.
- Description: C1
- Description: 2003000132
- Authors: Florentine, Singarayer , Fox, John
- Date: 2002
- Type: Text , Journal article
- Relation: The Journal of the Royal Society of Western Australia Vol. 85, no. (2002), p. 61-70
- Full Text:
- Reviewed:
- Description: This study was undertaken to investigate the adaptation to long term waterlogging of semi-arid eucalyptus species. Long-term waterlogging of Eucalyptus victrix seedlings significantly increases seedling stem diameter. Flooding reduces photosynthesis, transpiration and stomatal conductance. Flooding does not increase shoot fresh or dry weight of 4-, 8- or 17- week old seedlings. Leaf emergence may be stimulated for flooded seedlings compared with unflooded seedlings. Root dry weight is not significantly greater for 17- week old flooded plants than 13- week old seedlings. We suggest that maintenance of a high root/shoot ratio is a drought adaptation. Furthermore, a comparative study of flood tolerance in semi-arid eucalypt species suggests that those species intolerant of flooding seldom express morphological adaptations and fail to recover from physiological damage. Flooding significantly reduced the transpiration rate and stomatal conduct of all three species. Diurnal transpiration, stomatal conductance and leaf water potential of E. terminalis and E. leucophloia were significantly different between treatment (flooding) and control seedlings.
- Description: C1
- Description: 2003000132
Herbicides have negligible effects on ants and springtails in an Australian wheat field
- Greenslade, Penelope, Reid, Ian, Packer, Ian
- Authors: Greenslade, Penelope , Reid, Ian , Packer, Ian
- Date: 2010
- Type: Text , Journal article
- Relation: Soil Biology and Biochemistry Vol. 42, no. 7 (2010), p. 1172-1175
- Full Text:
- Reviewed:
- Description: The effects of herbicides applied to a direct drilled and traditionally tilled wheat field on trap catches of the abundant Collembola and Formicidae were examined. Significantly higher abundances of Collembola and species richness of ants were found on the direct-drilled plots. A significant effect of the herbicides, bromoxynil (C7H3Br2NO) and hoegrass (diclofop-methyl), on the activity of two of the fourteen species of surface-dwelling Collembola was detected but no effect was observed on surface-active Formicidae. Jeannenotia stachi numbers were significantly more reduced on the direct-drilled compared to the traditionally tilled plot after herbicide treatment possibly because of higher predator abundance on the latter. In the short term, herbicides have a minimal effect on most species of surface-active arthropods although Collembola were more adversely affected than Formicidae. © 2010 Elsevier Ltd. All rights reserved.
- Authors: Greenslade, Penelope , Reid, Ian , Packer, Ian
- Date: 2010
- Type: Text , Journal article
- Relation: Soil Biology and Biochemistry Vol. 42, no. 7 (2010), p. 1172-1175
- Full Text:
- Reviewed:
- Description: The effects of herbicides applied to a direct drilled and traditionally tilled wheat field on trap catches of the abundant Collembola and Formicidae were examined. Significantly higher abundances of Collembola and species richness of ants were found on the direct-drilled plots. A significant effect of the herbicides, bromoxynil (C7H3Br2NO) and hoegrass (diclofop-methyl), on the activity of two of the fourteen species of surface-dwelling Collembola was detected but no effect was observed on surface-active Formicidae. Jeannenotia stachi numbers were significantly more reduced on the direct-drilled compared to the traditionally tilled plot after herbicide treatment possibly because of higher predator abundance on the latter. In the short term, herbicides have a minimal effect on most species of surface-active arthropods although Collembola were more adversely affected than Formicidae. © 2010 Elsevier Ltd. All rights reserved.
Leaf litter decomposition and utilisation by macroinvertebrates in a central Victorian River in Australia
- Jmck, Jayawardana, Westbrooke, Martin, Wilson, Michael
- Authors: Jmck, Jayawardana , Westbrooke, Martin , Wilson, Michael
- Date: 2010
- Type: Text , Journal article
- Relation: Victorian Naturalist Vol. 127, no. 4 (2010), p. 104-114
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- Reviewed:
- Description: This study suggested that long-term persistence of willow roots can provide a positive effect on aquatic communities until the new native vegetation cover establishes. Leaf type has no significant influence over taxa richness; however their availability and persistence in the system has a significant effect on macroinvertebrate abundance in these streams. A combination of Phragmites reeds with Leptospermum and CalUstemon shrubs in revegetation programs will ensure a persistent supply of leaf litter to macroinvertebrate communities in these streams thus should be retained until native canopy cover eg. Eucalyptus spp. is re-established.
- Authors: Jmck, Jayawardana , Westbrooke, Martin , Wilson, Michael
- Date: 2010
- Type: Text , Journal article
- Relation: Victorian Naturalist Vol. 127, no. 4 (2010), p. 104-114
- Full Text:
- Reviewed:
- Description: This study suggested that long-term persistence of willow roots can provide a positive effect on aquatic communities until the new native vegetation cover establishes. Leaf type has no significant influence over taxa richness; however their availability and persistence in the system has a significant effect on macroinvertebrate abundance in these streams. A combination of Phragmites reeds with Leptospermum and CalUstemon shrubs in revegetation programs will ensure a persistent supply of leaf litter to macroinvertebrate communities in these streams thus should be retained until native canopy cover eg. Eucalyptus spp. is re-established.
Nitrate import-export dynamics in groundwater interacting with surface-water in a wet-tropical environment
- Rasiah, Velu, Armour, John, Cogle, A.L., Florentine, Singarayer
- Authors: Rasiah, Velu , Armour, John , Cogle, A.L. , Florentine, Singarayer
- Date: 2010
- Type: Text , Journal article
- Relation: Australian Journal of Soil Research Vol. 48, no. 4 (2010), p. 361-370
- Full Text:
- Reviewed:
- Description: Solute import-export dynamics in groundwater (GW) systems interacting with surface-water are complex, particularly under farming systems receiving high fertiliser/pesticide inputs in high rainfall regions. We investigated whether any linkage existed between nitrate-N in: (i) leachate (LC) collected at similar to 1m depth under banana (Musa) and that in GW, and (ii) GW and drain-water (DW). We also assessed the hazard/risk of the concentrations against the trigger values proposed for the sustainable health of different aquatic ecosystems. The LC, GW, and DW samples were collected at short intervals during 3 consecutive rainy seasons (January-July) from a similar to 300-ha banana farm in the wet tropical Tully River Catchment in north-east Queensland, Australia. Water samples were analysed for nitrate-N, dissolved organic carbon, and electrical conductivity. The coefficients of variation, ranging from 13 to 132%, obtained for solute concentrations in LC, GW, and DW indicated large within-and between-season temporal variations. The mean nitrate-N concentrations in LC, GW, and DW were 5320, 4135, and 1976 mu g/L, respectively, and were orders of magnitude higher than the trigger values proposed for the sustainable health of most of the neighbouring aquatic ecosystems. Significant positive associations, with correlation coefficients ranging from 0.56 to 0.96, existed between rainfall received and LC volume collected, and between LC volume and solute concentration, including nitrate-N, in the LC. Similar associations existed between the solutes in (i) LC and GW and (ii) GW and DW. From these associations we conclude the unused/under-utilised nitrate that leached below the root-zone was imported into the GW by the percolating rainwater and was exported into the drain via GW base-flow discharge.
- Description: 2003008225
- Authors: Rasiah, Velu , Armour, John , Cogle, A.L. , Florentine, Singarayer
- Date: 2010
- Type: Text , Journal article
- Relation: Australian Journal of Soil Research Vol. 48, no. 4 (2010), p. 361-370
- Full Text:
- Reviewed:
- Description: Solute import-export dynamics in groundwater (GW) systems interacting with surface-water are complex, particularly under farming systems receiving high fertiliser/pesticide inputs in high rainfall regions. We investigated whether any linkage existed between nitrate-N in: (i) leachate (LC) collected at similar to 1m depth under banana (Musa) and that in GW, and (ii) GW and drain-water (DW). We also assessed the hazard/risk of the concentrations against the trigger values proposed for the sustainable health of different aquatic ecosystems. The LC, GW, and DW samples were collected at short intervals during 3 consecutive rainy seasons (January-July) from a similar to 300-ha banana farm in the wet tropical Tully River Catchment in north-east Queensland, Australia. Water samples were analysed for nitrate-N, dissolved organic carbon, and electrical conductivity. The coefficients of variation, ranging from 13 to 132%, obtained for solute concentrations in LC, GW, and DW indicated large within-and between-season temporal variations. The mean nitrate-N concentrations in LC, GW, and DW were 5320, 4135, and 1976 mu g/L, respectively, and were orders of magnitude higher than the trigger values proposed for the sustainable health of most of the neighbouring aquatic ecosystems. Significant positive associations, with correlation coefficients ranging from 0.56 to 0.96, existed between rainfall received and LC volume collected, and between LC volume and solute concentration, including nitrate-N, in the LC. Similar associations existed between the solutes in (i) LC and GW and (ii) GW and DW. From these associations we conclude the unused/under-utilised nitrate that leached below the root-zone was imported into the GW by the percolating rainwater and was exported into the drain via GW base-flow discharge.
- Description: 2003008225
Association of genetic variation with systolic and diastolic blood pressure among African Americans: the Candidate Gene Association Resource study
- Fox, Ervin, Young, J. Hunter, Li, Yali, Dreisbach, Albert, Charchar, Fadi
- Authors: Fox, Ervin , Young, J. Hunter , Li, Yali , Dreisbach, Albert , Charchar, Fadi
- Date: 2011
- Type: Text , Journal article
- Relation: Human molecular genetics Vol. 20, no. 11 (June 2011), p. 2273
- Full Text:
- Reviewed:
- Description: The prevalence of hypertension in African Americans (AAs) is higher than in other US groups; yet, few have performed genome-wide association studies (GWASs) in AA. Among people of European descent, GWASs have identified genetic variants at 13 loci that are associated with blood pressure. It is unknown if these variants confer susceptibility in people of African ancestry. Here, we examined genome-wide and candidate gene associations with systolic blood pressure (SBP) and diastolic blood pressure (DBP) using the Candidate Gene Association Resource (CARe) consortium consisting of 8591 AAs. Genotypes included genome-wide single-nucleotide polymorphism (SNP) data utilizing the Affymetrix 6.0 array with imputation to 2.5 million HapMap SNPs and candidate gene SNP data utilizing a 50K cardiovascular gene-centric array (ITMAT-Broad-CARe [IBC] array). For Affymetrix data, the strongest signal for DBP was rs10474346 (P= 3.6 × 10−8) located near GPR98 and ARRDC3. For SBP, the strongest signal was rs2258119 in C21orf91 (P= 4.7 × 10−8). The top IBC association for SBP was rs2012318 (P= 6.4 × 10−6) near SLC25A42 and for DBP was rs2523586 (P= 1.3 × 10−6) near HLA-B. None of the top variants replicated in additional AA (n = 11 882) or European-American (n = 69 899) cohorts. We replicated previously reported European-American blood pressure SNPs in our AA samples (SH2B3, P= 0.009; TBX3-TBX5, P= 0.03; and CSK-ULK3, P= 0.0004). These genetic loci represent the best evidence of genetic influences on SBP and DBP in AAs to date. More broadly, this work supports that notion that blood pressure among AAs is a trait with genetic underpinnings but also with significant complexity.
- Authors: Fox, Ervin , Young, J. Hunter , Li, Yali , Dreisbach, Albert , Charchar, Fadi
- Date: 2011
- Type: Text , Journal article
- Relation: Human molecular genetics Vol. 20, no. 11 (June 2011), p. 2273
- Full Text:
- Reviewed:
- Description: The prevalence of hypertension in African Americans (AAs) is higher than in other US groups; yet, few have performed genome-wide association studies (GWASs) in AA. Among people of European descent, GWASs have identified genetic variants at 13 loci that are associated with blood pressure. It is unknown if these variants confer susceptibility in people of African ancestry. Here, we examined genome-wide and candidate gene associations with systolic blood pressure (SBP) and diastolic blood pressure (DBP) using the Candidate Gene Association Resource (CARe) consortium consisting of 8591 AAs. Genotypes included genome-wide single-nucleotide polymorphism (SNP) data utilizing the Affymetrix 6.0 array with imputation to 2.5 million HapMap SNPs and candidate gene SNP data utilizing a 50K cardiovascular gene-centric array (ITMAT-Broad-CARe [IBC] array). For Affymetrix data, the strongest signal for DBP was rs10474346 (P= 3.6 × 10−8) located near GPR98 and ARRDC3. For SBP, the strongest signal was rs2258119 in C21orf91 (P= 4.7 × 10−8). The top IBC association for SBP was rs2012318 (P= 6.4 × 10−6) near SLC25A42 and for DBP was rs2523586 (P= 1.3 × 10−6) near HLA-B. None of the top variants replicated in additional AA (n = 11 882) or European-American (n = 69 899) cohorts. We replicated previously reported European-American blood pressure SNPs in our AA samples (SH2B3, P= 0.009; TBX3-TBX5, P= 0.03; and CSK-ULK3, P= 0.0004). These genetic loci represent the best evidence of genetic influences on SBP and DBP in AAs to date. More broadly, this work supports that notion that blood pressure among AAs is a trait with genetic underpinnings but also with significant complexity.
Gene regulatory network modeling via global optimization of high-order dynamic Bayesian network
- Nguyen, Vinh, Chetty, Madhu, Coppel, Ross, Wangikar, Pramod
- Authors: Nguyen, Vinh , Chetty, Madhu , Coppel, Ross , Wangikar, Pramod
- Date: 2012
- Type: Text , Journal article
- Relation: BMC Bioinformatics Vol. 13, no. 131 (2012), p. 1-16
- Full Text:
- Reviewed:
- Description: Abstract Background Dynamic Bayesian network (DBN) is among the mainstream approaches for modeling various biological networks, including the gene regulatory network (GRN). Most current methods for learning DBN employ either local search such as hill-climbing, or a meta stochastic global optimization framework such as genetic algorithm or simulated annealing, which are only able to locate sub-optimal solutions. Further, current DBN applications have essentially been limited to small sized networks. Results To overcome the above difficulties, we introduce here a deterministic global optimization based DBN approach for reverse engineering genetic networks from time course gene expression data. For such DBN models that consist only of inter time slice arcs, we show that there exists a polynomial time algorithm for learning the globally optimal network structure. The proposed approach, named GlobalMIT+, employs the recently proposed information theoretic scoring metric named mutual information test (MIT). GlobalMIT+ is able to learn high-order time delayed genetic interactions, which are common to most biological systems. Evaluation of the approach using both synthetic and real data sets, including a 733 cyanobacterial gene expression data set, shows significantly improved performance over other techniques. Conclusions Our studies demonstrate that deterministic global optimization approaches can infer large scale genetic networks.
- Authors: Nguyen, Vinh , Chetty, Madhu , Coppel, Ross , Wangikar, Pramod
- Date: 2012
- Type: Text , Journal article
- Relation: BMC Bioinformatics Vol. 13, no. 131 (2012), p. 1-16
- Full Text:
- Reviewed:
- Description: Abstract Background Dynamic Bayesian network (DBN) is among the mainstream approaches for modeling various biological networks, including the gene regulatory network (GRN). Most current methods for learning DBN employ either local search such as hill-climbing, or a meta stochastic global optimization framework such as genetic algorithm or simulated annealing, which are only able to locate sub-optimal solutions. Further, current DBN applications have essentially been limited to small sized networks. Results To overcome the above difficulties, we introduce here a deterministic global optimization based DBN approach for reverse engineering genetic networks from time course gene expression data. For such DBN models that consist only of inter time slice arcs, we show that there exists a polynomial time algorithm for learning the globally optimal network structure. The proposed approach, named GlobalMIT+, employs the recently proposed information theoretic scoring metric named mutual information test (MIT). GlobalMIT+ is able to learn high-order time delayed genetic interactions, which are common to most biological systems. Evaluation of the approach using both synthetic and real data sets, including a 733 cyanobacterial gene expression data set, shows significantly improved performance over other techniques. Conclusions Our studies demonstrate that deterministic global optimization approaches can infer large scale genetic networks.
A model of the circadian clock in the cyanobacterium Cyanothece sp. ATCC 51142
- Nguyen, Vinh, Chetty, Madhu, Coppel, Ross, Gaudana, Sandeep, Wangikar, Pramod
- Authors: Nguyen, Vinh , Chetty, Madhu , Coppel, Ross , Gaudana, Sandeep , Wangikar, Pramod
- Date: 2013
- Type: Text , Journal article
- Relation: BMC Bioinformatics Vol. 14, no. (Supplement 2) (2013), p. s14-1-s14-9
- Full Text:
- Reviewed:
- Description: Background The over consumption of fossil fuels has led to growing concerns over climate change and global warming. Increasing research activities have been carried out towards alternative viable biofuel sources. Of several different biofuel platforms, cyanobacteria possess great potential, for their ability to accumulate biomass tens of times faster than traditional oilseed crops. The cyanobacterium Cyanothece sp. ATCC 51142 has recently attracted lots of research interest as a model organism for such research. Cyanothece can perform efficiently both photosynthesis and nitrogen fixation within the same cell, and has been recently shown to produce biohydrogen--a byproduct of nitrogen fixation--at very high rates of several folds higher than previously described hydrogen-producing photosynthetic microbes. Since the key enzyme for nitrogen fixation is very sensitive to oxygen produced by photosynthesis, Cyanothece employs a sophisticated temporal separation scheme, where nitrogen fixation occurs at night and photosynthesis at day. At the core of this temporal separation scheme is a robust clocking mechanism, which so far has not been thoroughly studied. Understanding how this circadian clock interacts with and harmonizes global transcription of key cellular processes is one of the keys to realize the inherent potential of this organism. Results In this paper, we employ several state of the art bioinformatics techniques for studying the core circadian clock in Cyanothece sp. ATCC 51142, and its interactions with other key cellular processes. We employ comparative genomics techniques to map the circadian clock genes and genetic interactions from another cyanobacterial species, namely Synechococcus elongatus PCC 7942, of which the circadian clock has been much more thoroughly investigated. Using time series gene expression data for Cyanothece, we employ gene regulatory network reconstruction techniques to learn this network de novo, and compare the reconstructed network against the interactions currently reported in the literature. Next, we build a computational model of the interactions between the core clock and other cellular processes, and show how this model can predict the behaviour of the system under changing environmental conditions. The constructed models significantly advance our understanding of the Cyanothece circadian clock functional mechanisms.
- Authors: Nguyen, Vinh , Chetty, Madhu , Coppel, Ross , Gaudana, Sandeep , Wangikar, Pramod
- Date: 2013
- Type: Text , Journal article
- Relation: BMC Bioinformatics Vol. 14, no. (Supplement 2) (2013), p. s14-1-s14-9
- Full Text:
- Reviewed:
- Description: Background The over consumption of fossil fuels has led to growing concerns over climate change and global warming. Increasing research activities have been carried out towards alternative viable biofuel sources. Of several different biofuel platforms, cyanobacteria possess great potential, for their ability to accumulate biomass tens of times faster than traditional oilseed crops. The cyanobacterium Cyanothece sp. ATCC 51142 has recently attracted lots of research interest as a model organism for such research. Cyanothece can perform efficiently both photosynthesis and nitrogen fixation within the same cell, and has been recently shown to produce biohydrogen--a byproduct of nitrogen fixation--at very high rates of several folds higher than previously described hydrogen-producing photosynthetic microbes. Since the key enzyme for nitrogen fixation is very sensitive to oxygen produced by photosynthesis, Cyanothece employs a sophisticated temporal separation scheme, where nitrogen fixation occurs at night and photosynthesis at day. At the core of this temporal separation scheme is a robust clocking mechanism, which so far has not been thoroughly studied. Understanding how this circadian clock interacts with and harmonizes global transcription of key cellular processes is one of the keys to realize the inherent potential of this organism. Results In this paper, we employ several state of the art bioinformatics techniques for studying the core circadian clock in Cyanothece sp. ATCC 51142, and its interactions with other key cellular processes. We employ comparative genomics techniques to map the circadian clock genes and genetic interactions from another cyanobacterial species, namely Synechococcus elongatus PCC 7942, of which the circadian clock has been much more thoroughly investigated. Using time series gene expression data for Cyanothece, we employ gene regulatory network reconstruction techniques to learn this network de novo, and compare the reconstructed network against the interactions currently reported in the literature. Next, we build a computational model of the interactions between the core clock and other cellular processes, and show how this model can predict the behaviour of the system under changing environmental conditions. The constructed models significantly advance our understanding of the Cyanothece circadian clock functional mechanisms.
Chemical characterization of MEA degradation in PCC pilot plants operating in Australia
- Cruickshank, Alicia, Verheyen, Vincent, Adeloju, Samuel, Meuleman, Erik, Chaffee, Alan, Cottrell, Aaron, Feron, Paul
- Authors: Cruickshank, Alicia , Verheyen, Vincent , Adeloju, Samuel , Meuleman, Erik , Chaffee, Alan , Cottrell, Aaron , Feron, Paul
- Date: 2013
- Type: Text , Journal article
- Relation: Energy Procedia Vol. 37, no. (2013), p. 877-882
- Full Text:
- Reviewed:
- Description: An important step towards commercial scale post-combustion CO2 capture from coal-fired power stations is understanding solvent degradation. Laboratory scale trials have identified three main solvent degradation pathways for 30% MEA: oxidative degradation, carbamate polymerization and formation of heat stable salts. This paper probes the semi-volatile organic compounds produced from a single batch of 30% MEA which was used to capture CO2 from a black coal-fired power station (Tarong, Queensland, Australia) for approximately 700 hours, followed by 500 hours at the brown coal-fired power station (Loy Yang, Victoria, Australia). Comparisons are made between the compounds identified in this aged solvent system with MEA degradation reactions described in literature. Most of semi-volatile compounds tentatively identified by GC/MS have previously been reported in laboratory scale degradation trials. Our preliminary results show low levels of degradation products were present in samples after its use in the pilot plant at Tarong (black coal) and consequent 13 months storage, but much higher concentrations were later found in the same solvent during its at use in the pilot plant at Loy Yang Power (brown coal). Further work includes identifying the cause of poor GC/MS repeatability and investigating the relative rates of reactions described in literature. The impact of inorganic anions and dissolved metals on MEA degradation will also be explored.
- Authors: Cruickshank, Alicia , Verheyen, Vincent , Adeloju, Samuel , Meuleman, Erik , Chaffee, Alan , Cottrell, Aaron , Feron, Paul
- Date: 2013
- Type: Text , Journal article
- Relation: Energy Procedia Vol. 37, no. (2013), p. 877-882
- Full Text:
- Reviewed:
- Description: An important step towards commercial scale post-combustion CO2 capture from coal-fired power stations is understanding solvent degradation. Laboratory scale trials have identified three main solvent degradation pathways for 30% MEA: oxidative degradation, carbamate polymerization and formation of heat stable salts. This paper probes the semi-volatile organic compounds produced from a single batch of 30% MEA which was used to capture CO2 from a black coal-fired power station (Tarong, Queensland, Australia) for approximately 700 hours, followed by 500 hours at the brown coal-fired power station (Loy Yang, Victoria, Australia). Comparisons are made between the compounds identified in this aged solvent system with MEA degradation reactions described in literature. Most of semi-volatile compounds tentatively identified by GC/MS have previously been reported in laboratory scale degradation trials. Our preliminary results show low levels of degradation products were present in samples after its use in the pilot plant at Tarong (black coal) and consequent 13 months storage, but much higher concentrations were later found in the same solvent during its at use in the pilot plant at Loy Yang Power (brown coal). Further work includes identifying the cause of poor GC/MS repeatability and investigating the relative rates of reactions described in literature. The impact of inorganic anions and dissolved metals on MEA degradation will also be explored.
Description of a robust interception trap for collecting airborne arthropods in climatically challenging regions
- Farrow, Roger, Greenslade, Penelope
- Authors: Farrow, Roger , Greenslade, Penelope
- Date: 2013
- Type: Text , Journal article
- Relation: Antarctic Science Vol. 25, no. 5 (2013), p. 657-662
- Full Text:
- Reviewed:
- Description: An interception trap to collect airborne arthropods under extreme weather conditions is described. The trap, constructed from durable materials, is operated by wind pressure. It consists of a funnel of fine brass gauze mounted inside a cylinder of stainless steel that rotates into the wind on a mast at 1.5 m from the ground. The gauze funnel terminates in a removable, propanol-filled, collecting bottle into which airborne material accumulates. The counterbalanced cylinder rotates around a central shaft on roller bearings and faces into the wind. Two traps were successfully operated continuously for four and five years, respectively, on sub-Antarctic Macquarie Island and have collected large numbers of airborne arthropods and other biological material over this period. © 2013 Antarctic Science Ltd.
- Description: C1
- Authors: Farrow, Roger , Greenslade, Penelope
- Date: 2013
- Type: Text , Journal article
- Relation: Antarctic Science Vol. 25, no. 5 (2013), p. 657-662
- Full Text:
- Reviewed:
- Description: An interception trap to collect airborne arthropods under extreme weather conditions is described. The trap, constructed from durable materials, is operated by wind pressure. It consists of a funnel of fine brass gauze mounted inside a cylinder of stainless steel that rotates into the wind on a mast at 1.5 m from the ground. The gauze funnel terminates in a removable, propanol-filled, collecting bottle into which airborne material accumulates. The counterbalanced cylinder rotates around a central shaft on roller bearings and faces into the wind. Two traps were successfully operated continuously for four and five years, respectively, on sub-Antarctic Macquarie Island and have collected large numbers of airborne arthropods and other biological material over this period. © 2013 Antarctic Science Ltd.
- Description: C1
Incorporating time-delays in S-System model for reverse engineering genetic networks
- Chowdhury, Ahsan, Chetty, Madhu, Nguyen, Vinh
- Authors: Chowdhury, Ahsan , Chetty, Madhu , Nguyen, Vinh
- Date: 2013
- Type: Text , Journal article
- Relation: BMC Bioinformatics Vol. 14, no. (2013), p. 1-22
- Full Text:
- Reviewed:
- Description: Background In any gene regulatory network (GRN), the complex interactions occurring amongst transcription factors and target genes can be either instantaneous or time-delayed. However, many existing modeling approaches currently applied for inferring GRNs are unable to represent both these interactions simultaneously. As a result, all these approaches cannot detect important interactions of the other type. S-System model, a differential equation based approach which has been increasingly applied for modeling GRNs, also suffers from this limitation. In fact, all S-System based existing modeling approaches have been designed to capture only instantaneous interactions, and are unable to infer time-delayed interactions. Results In this paper, we propose a novel Time-Delayed S-System (TDSS) model which uses a set of delay differential equations to represent the system dynamics. The ability to incorporate time-delay parameters in the proposed S-System model enables simultaneous modeling of both instantaneous and time-delayed interactions. Furthermore, the delay parameters are not limited to just positive integer values (corresponding to time stamps in the data), but can also take fractional values. Moreover, we also propose a new criterion for model evaluation exploiting the sparse and scale-free nature of GRNs to effectively narrow down the search space, which not only reduces the computation time significantly but also improves model accuracy. The evaluation criterion systematically adapts the max-min in-degrees and also systematically balances the effect of network accuracy and complexity during optimization. Conclusion The four well-known performance measures applied to the experimental studies on synthetic networks with various time-delayed regulations clearly demonstrate that the proposed method can capture both instantaneous and delayed interactions correctly with high precision. The experiments carried out on two well-known real-life networks, namely IRMA and SOS DNA repair network in Escherichia coli show a significant improvement compared with other state-of-the-art approaches for GRN modeling.
- Authors: Chowdhury, Ahsan , Chetty, Madhu , Nguyen, Vinh
- Date: 2013
- Type: Text , Journal article
- Relation: BMC Bioinformatics Vol. 14, no. (2013), p. 1-22
- Full Text:
- Reviewed:
- Description: Background In any gene regulatory network (GRN), the complex interactions occurring amongst transcription factors and target genes can be either instantaneous or time-delayed. However, many existing modeling approaches currently applied for inferring GRNs are unable to represent both these interactions simultaneously. As a result, all these approaches cannot detect important interactions of the other type. S-System model, a differential equation based approach which has been increasingly applied for modeling GRNs, also suffers from this limitation. In fact, all S-System based existing modeling approaches have been designed to capture only instantaneous interactions, and are unable to infer time-delayed interactions. Results In this paper, we propose a novel Time-Delayed S-System (TDSS) model which uses a set of delay differential equations to represent the system dynamics. The ability to incorporate time-delay parameters in the proposed S-System model enables simultaneous modeling of both instantaneous and time-delayed interactions. Furthermore, the delay parameters are not limited to just positive integer values (corresponding to time stamps in the data), but can also take fractional values. Moreover, we also propose a new criterion for model evaluation exploiting the sparse and scale-free nature of GRNs to effectively narrow down the search space, which not only reduces the computation time significantly but also improves model accuracy. The evaluation criterion systematically adapts the max-min in-degrees and also systematically balances the effect of network accuracy and complexity during optimization. Conclusion The four well-known performance measures applied to the experimental studies on synthetic networks with various time-delayed regulations clearly demonstrate that the proposed method can capture both instantaneous and delayed interactions correctly with high precision. The experiments carried out on two well-known real-life networks, namely IRMA and SOS DNA repair network in Escherichia coli show a significant improvement compared with other state-of-the-art approaches for GRN modeling.
Local immune responses of the Chinese water buffalo, Bubalus bubalis, against Schistosoma japonicum larvae: crucial insights for vaccine design
- McWilliam, Hamish, Piedrafita, David, Li, Yuesheng, Zheng, Mao, He, Yongkang, Yu, Xinling, McManus, Donald, Meeusen, Els
- Authors: McWilliam, Hamish , Piedrafita, David , Li, Yuesheng , Zheng, Mao , He, Yongkang , Yu, Xinling , McManus, Donald , Meeusen, Els
- Date: 2013
- Type: Text , Journal article
- Relation: PLoS Neglected Tropical Diseases. Vol.7, no.9(Art.No: e2460) (2013), p. 1-11
- Full Text:
- Reviewed:
- Description: Asian schistosomiasis is a zoonotic parasitic disease infecting up to a million people and threatening tens of millions more. Control of this disease is hindered by the animal reservoirs of the parasite, in particular the water buffalo (Bubalus bubalis), which is responsible for significant levels of human transmission. A transmission-blocking vaccine administered to buffaloes is a realistic option which would aid in the control of schistosomiasis. This will however require a better understanding of the immunobiology of schistosomiasis in naturally exposed buffaloes, particularly the immune response to migrating schistosome larvae, which are the likely targets of an anti-schistosome vaccine. To address this need we investigated the immune response at the major sites of larval migration, the skin and the lungs, in previously exposed and re-challenged water buffaloes. In the skin, a strong allergic-type inflammatory response occurred, characterised by leukocyte and eosinophil infiltration including the formation of granulocytic abscesses. Additionally at the local skin site, interleukin-5 transcript levels were elevated, while interleukin-10 levels decreased. In the skin-draining lymph node (LN) a predominant type-2 profile was seen in stimulated cells, while in contrast a type-1 profile was detected in the lung draining LN, and these responses occurred consecutively, reflecting the timing of parasite migration. The intense type-2 immune response at the site of cercarial penetration is significantly different to that seen in naive and permissive animal models such as mice, and suggests a possible mechanism for immunity. Preliminary data also suggest a reduced and delayed immune response occurred in buffaloes given high cercarial challenge doses compared with moderate infections, particularly in the skin. This study offers a deeper understanding into the immunobiology of schistosomiasis in a natural host, which may aid in the future design of more effective vaccines.
- Authors: McWilliam, Hamish , Piedrafita, David , Li, Yuesheng , Zheng, Mao , He, Yongkang , Yu, Xinling , McManus, Donald , Meeusen, Els
- Date: 2013
- Type: Text , Journal article
- Relation: PLoS Neglected Tropical Diseases. Vol.7, no.9(Art.No: e2460) (2013), p. 1-11
- Full Text:
- Reviewed:
- Description: Asian schistosomiasis is a zoonotic parasitic disease infecting up to a million people and threatening tens of millions more. Control of this disease is hindered by the animal reservoirs of the parasite, in particular the water buffalo (Bubalus bubalis), which is responsible for significant levels of human transmission. A transmission-blocking vaccine administered to buffaloes is a realistic option which would aid in the control of schistosomiasis. This will however require a better understanding of the immunobiology of schistosomiasis in naturally exposed buffaloes, particularly the immune response to migrating schistosome larvae, which are the likely targets of an anti-schistosome vaccine. To address this need we investigated the immune response at the major sites of larval migration, the skin and the lungs, in previously exposed and re-challenged water buffaloes. In the skin, a strong allergic-type inflammatory response occurred, characterised by leukocyte and eosinophil infiltration including the formation of granulocytic abscesses. Additionally at the local skin site, interleukin-5 transcript levels were elevated, while interleukin-10 levels decreased. In the skin-draining lymph node (LN) a predominant type-2 profile was seen in stimulated cells, while in contrast a type-1 profile was detected in the lung draining LN, and these responses occurred consecutively, reflecting the timing of parasite migration. The intense type-2 immune response at the site of cercarial penetration is significantly different to that seen in naive and permissive animal models such as mice, and suggests a possible mechanism for immunity. Preliminary data also suggest a reduced and delayed immune response occurred in buffaloes given high cercarial challenge doses compared with moderate infections, particularly in the skin. This study offers a deeper understanding into the immunobiology of schistosomiasis in a natural host, which may aid in the future design of more effective vaccines.
Interleukin-6 inhibition of peroxisome proliferator-activated receptor alpha expression is mediated by JAK2- and PI3K-induced STAT1/3 in HepG2 hepatocyte cells
- Chew, Guatsiew, Myers, Stephen, Shu-Chien, A. C., Muhammad, Tengku
- Authors: Chew, Guatsiew , Myers, Stephen , Shu-Chien, A. C. , Muhammad, Tengku
- Date: 2014
- Type: Text , Journal article
- Relation: Molecular and Cellular Biochemistry Vol. 388, no. 1-2 (2014), p. 25-37
- Full Text:
- Reviewed:
- Description: Interleukin-6 (IL-6) is the major activator of the acute phase response (APR). One important regulator of IL-6-activated APR is peroxisome proliferator-activated receptor alpha (PPAR
- Authors: Chew, Guatsiew , Myers, Stephen , Shu-Chien, A. C. , Muhammad, Tengku
- Date: 2014
- Type: Text , Journal article
- Relation: Molecular and Cellular Biochemistry Vol. 388, no. 1-2 (2014), p. 25-37
- Full Text:
- Reviewed:
- Description: Interleukin-6 (IL-6) is the major activator of the acute phase response (APR). One important regulator of IL-6-activated APR is peroxisome proliferator-activated receptor alpha (PPAR
Acute whole body UVA irradiation combined with nitrate ingestion enhances time trial performance in trained cyclists
- Muggeridge, David, Sculthorpe, Nicholas, Grace, Fergal, Willis, Gareth, Thornhill, Laurence, Weller, Richard, James, Philip, Easton, Chris
- Authors: Muggeridge, David , Sculthorpe, Nicholas , Grace, Fergal , Willis, Gareth , Thornhill, Laurence , Weller, Richard , James, Philip , Easton, Chris
- Date: 2015
- Type: Text , Journal article
- Relation: Nitric Oxide : Biology and Chemistry Vol. 48, no. (2015), p. 3-9
- Full Text:
- Reviewed:
- Description: Dietary nitrate supplementation has been shown to increase nitric oxide (NO) metabolites, reduce blood pressure (BP) and enhance exercise performance. Acute exposure to ultraviolet (UV)-A light also increases NO bioavailability and reduces BP. We conducted a randomized, counterbalanced placebo-controlled trial to determine the effects of UV-A light alone and in combination with nitrate on the responses to sub-maximal steady-state exercise and time trial (TT) performance. Nine cyclists (VO2max 53.1 +/- 4.4 ml/kg/min) completed five performance trials comprising 10 min submaximal steady-state cycling followed by a 16.1 km TT. Following a familiarization the final four trials were preceded, in random order, by either (1) Nitrate gels (NIT) + UV-A, (2) Placebo (PLA) + UV-A, (3) NIT + Sham light (SHAM) and (4) PLA + SHAM (control). The NIT gels (2 x 60 ml gels, ~8.1 mmol nitrate) or a low-nitrate PLA were ingested 2.5 h prior to the trial. The light exposure consisted of 20 J/cm(2) whole body irradiation with either UV-A or SHAM light. Plasma nitrite was measured pre- and post-irradiation and VO2 was measured continuously during steady-state exercise. Plasma nitrite was higher for NIT + SHAM (geometric mean (95% CI), 332 (292-377) nM; P = 0.029) and NIT + UV-A (456 (312-666) nM; P = 0.014) compared to PLA + SHAM (215 (167-277) nM). Differences between PLA + SHAM and PLA + UV-A (282 (248-356) nM) were small and non-significant. During steady-state exercise VO2 was reduced following NIT + UVA (P = 0.034) and tended to be lower in NIT + SHAM (P = 0.086) but not PLA + UV-A (P = 0.381) compared to PLA + SHAM. Performance in the TT was significantly faster following NIT + UV-A (mean +/- SD 1447 +/- 41 s P = 0.005; d = 0.47), but not PLA + UV-A (1450 +/- 40 s; d = 0.41) or NIT + SHAM (1455 +/- 47 s; d = 0.28) compared to PLA + SHAM (1469 +/- 52 s). These findings demonstrate that exposure to UV-A light alone does not alter the physiological responses to exercise or improve performance in a laboratory setting. A combination of UV-A and NIT, however, does improve cycling TT performance in this environment, which may be due to a larger increase in NO availability.
- Authors: Muggeridge, David , Sculthorpe, Nicholas , Grace, Fergal , Willis, Gareth , Thornhill, Laurence , Weller, Richard , James, Philip , Easton, Chris
- Date: 2015
- Type: Text , Journal article
- Relation: Nitric Oxide : Biology and Chemistry Vol. 48, no. (2015), p. 3-9
- Full Text:
- Reviewed:
- Description: Dietary nitrate supplementation has been shown to increase nitric oxide (NO) metabolites, reduce blood pressure (BP) and enhance exercise performance. Acute exposure to ultraviolet (UV)-A light also increases NO bioavailability and reduces BP. We conducted a randomized, counterbalanced placebo-controlled trial to determine the effects of UV-A light alone and in combination with nitrate on the responses to sub-maximal steady-state exercise and time trial (TT) performance. Nine cyclists (VO2max 53.1 +/- 4.4 ml/kg/min) completed five performance trials comprising 10 min submaximal steady-state cycling followed by a 16.1 km TT. Following a familiarization the final four trials were preceded, in random order, by either (1) Nitrate gels (NIT) + UV-A, (2) Placebo (PLA) + UV-A, (3) NIT + Sham light (SHAM) and (4) PLA + SHAM (control). The NIT gels (2 x 60 ml gels, ~8.1 mmol nitrate) or a low-nitrate PLA were ingested 2.5 h prior to the trial. The light exposure consisted of 20 J/cm(2) whole body irradiation with either UV-A or SHAM light. Plasma nitrite was measured pre- and post-irradiation and VO2 was measured continuously during steady-state exercise. Plasma nitrite was higher for NIT + SHAM (geometric mean (95% CI), 332 (292-377) nM; P = 0.029) and NIT + UV-A (456 (312-666) nM; P = 0.014) compared to PLA + SHAM (215 (167-277) nM). Differences between PLA + SHAM and PLA + UV-A (282 (248-356) nM) were small and non-significant. During steady-state exercise VO2 was reduced following NIT + UVA (P = 0.034) and tended to be lower in NIT + SHAM (P = 0.086) but not PLA + UV-A (P = 0.381) compared to PLA + SHAM. Performance in the TT was significantly faster following NIT + UV-A (mean +/- SD 1447 +/- 41 s P = 0.005; d = 0.47), but not PLA + UV-A (1450 +/- 40 s; d = 0.41) or NIT + SHAM (1455 +/- 47 s; d = 0.28) compared to PLA + SHAM (1469 +/- 52 s). These findings demonstrate that exposure to UV-A light alone does not alter the physiological responses to exercise or improve performance in a laboratory setting. A combination of UV-A and NIT, however, does improve cycling TT performance in this environment, which may be due to a larger increase in NO availability.
Cloning, expression, purification and crystallographic studies of galectin-11 from domestic sheep (Ovis aries)
- Sakthivel, Dhanasekaran, Littler, Dene, Shahine, Adam, Troy, Sally, Johnson, Matthew, Rossjohn, Jamie, Piedrafita, David, Beddoe, Travis
- Authors: Sakthivel, Dhanasekaran , Littler, Dene , Shahine, Adam , Troy, Sally , Johnson, Matthew , Rossjohn, Jamie , Piedrafita, David , Beddoe, Travis
- Date: 2015
- Type: Text , Journal article
- Relation: Acta Crystallographica Section:F Structural Biology Communications Vol. 71, no. (2015), p. 993-997
- Full Text:
- Reviewed:
- Description: Galectins are an evolutionarily conserved family of proteins that translate glycan recognition into cellular effects. Galectin-11 is a unique member of the galectin family that is only expressed in ruminants such as sheep, goat and cattle and that plays a critical role in several important biological processes, such as reproduction and parasite-mediated innate immune responses. Currently, these two areas are of major importance for the sustainability of ruminant livestock production. Despite the emerging biological significance of galectin-11, no structural information is available. It is expected that structural studies will unravel the functional mechanisms of galectin-11 activity. Here, the expression, purification and crystallization of the ruminant-specific galectin-11 from domestic sheep and the collection of X-ray data to 2.0 Å resolution are reported. © 2015.
- Authors: Sakthivel, Dhanasekaran , Littler, Dene , Shahine, Adam , Troy, Sally , Johnson, Matthew , Rossjohn, Jamie , Piedrafita, David , Beddoe, Travis
- Date: 2015
- Type: Text , Journal article
- Relation: Acta Crystallographica Section:F Structural Biology Communications Vol. 71, no. (2015), p. 993-997
- Full Text:
- Reviewed:
- Description: Galectins are an evolutionarily conserved family of proteins that translate glycan recognition into cellular effects. Galectin-11 is a unique member of the galectin family that is only expressed in ruminants such as sheep, goat and cattle and that plays a critical role in several important biological processes, such as reproduction and parasite-mediated innate immune responses. Currently, these two areas are of major importance for the sustainability of ruminant livestock production. Despite the emerging biological significance of galectin-11, no structural information is available. It is expected that structural studies will unravel the functional mechanisms of galectin-11 activity. Here, the expression, purification and crystallization of the ruminant-specific galectin-11 from domestic sheep and the collection of X-ray data to 2.0 Å resolution are reported. © 2015.
- Florentine, Singarayer, Milberg, Per, Di Stefano, Julian, Westbrooke, Martin, Graz, Patrick
- Authors: Florentine, Singarayer , Milberg, Per , Di Stefano, Julian , Westbrooke, Martin , Graz, Patrick
- Date: 2015
- Type: Text , Journal article
- Relation: Journal of Arid Environments Vol. 121, no. October (2015), p. 7-14
- Full Text:
- Reviewed:
- Description: Australian arid vegetation has evolved within highly variable environments characterised by low rainfall and sporadic fire events. Episodic high rainfall events are a significant factor in plant species recruitment, but their unpredictability makes them difficult to study. We report on the response of vascular plants to a major rainfall event and flood in an arid region of south-eastern Australia. Fire that occurred two months before the flood was incorporated into the study. Paired fenced and unfenced plots were established at control locations and also in areas that had been either flooded, burnt, or flooded and burnt. Objectives were to quantify the long-term effects of fire, flood and vertebrate herbivory, and their interactions, on vegetation composition, plant life forms and species diversity. We found that relative to controls (i) there was a significant effect of flooding on vegetation composition, (ii) changes in life form abundance were driven by flooding and grazing, (iii) there was a strong positive relationship between grazer exclusion and species diversity that was maintained over time and (iv) there was little effect of fire. Understanding the long-term effects of both natural disturbances and vertebrate herbivory will benefit plant conservation in the arid zone. © 2015 Elsevier Ltd.
Generation of a Novel Bacteriophage Library displaying scFv antibody fragments from the natural Buffalo host to identify antigens from adult Schistosoma japonicum for diagnostic development
- Hosking, Christopher, McWilliam, Hamish, Driguez, Patrick, Piedrafita, David, Li, Yuesheng, McManus, Donald, Ilag, Leodevico, Meeusen, Els, De Veer, Michael
- Authors: Hosking, Christopher , McWilliam, Hamish , Driguez, Patrick , Piedrafita, David , Li, Yuesheng , McManus, Donald , Ilag, Leodevico , Meeusen, Els , De Veer, Michael
- Date: 2015
- Type: Text , Journal article
- Relation: PLoS Neglected Tropical Diseases Vol. 9, no. 12 (2015), p. 1-20
- Full Text:
- Reviewed:
- Description: The development of effective diagnostic tools will be essential in the continuing fight to reduce schistosome infection; however, the diagnostic tests available to date are generally laborious and difficult to implement in current parasite control strategies. We generated a series of single-chain antibody Fv domain (scFv) phage display libraries from the portal lymph node of field exposed water buffaloes, Bubalus bubalis, 11–12 days post challenge with Schistosoma japonicum cercariae. The selected scFv-phages showed clear enrichment towards adult schistosomes and excretory-secretory (ES) proteins by immunofluorescence, ELISA and western blot analysis. The enriched libraries were used to probe a schistosome specific protein microarray resulting in the recognition of a number of proteins, five of which were specific to schistosomes, with RNA expression predominantly in the adult life-stage based on interrogation of schistosome expressed sequence tags (EST). As the libraries were enriched by panning against ES products, these antigens may be excreted or secreted into the host vasculature and hence may make good targets for a diagnostic assay. Further selection of the scFv library against infected mouse sera identified five soluble scFv clones that could selectively recognise soluble whole adult preparations (SWAP) relative to an irrelevant protein control (ovalbumin). Furthermore, two of the identified scFv clones also selectively recognised SWAP proteins when spiked into naïve mouse sera. These host B-cell derived scFvs that specifically bind to schistosome protein preparations will be valuable reagents for further development of a cost effective point-of-care diagnostic test. © 2015 Hosking et al.
- Authors: Hosking, Christopher , McWilliam, Hamish , Driguez, Patrick , Piedrafita, David , Li, Yuesheng , McManus, Donald , Ilag, Leodevico , Meeusen, Els , De Veer, Michael
- Date: 2015
- Type: Text , Journal article
- Relation: PLoS Neglected Tropical Diseases Vol. 9, no. 12 (2015), p. 1-20
- Full Text:
- Reviewed:
- Description: The development of effective diagnostic tools will be essential in the continuing fight to reduce schistosome infection; however, the diagnostic tests available to date are generally laborious and difficult to implement in current parasite control strategies. We generated a series of single-chain antibody Fv domain (scFv) phage display libraries from the portal lymph node of field exposed water buffaloes, Bubalus bubalis, 11–12 days post challenge with Schistosoma japonicum cercariae. The selected scFv-phages showed clear enrichment towards adult schistosomes and excretory-secretory (ES) proteins by immunofluorescence, ELISA and western blot analysis. The enriched libraries were used to probe a schistosome specific protein microarray resulting in the recognition of a number of proteins, five of which were specific to schistosomes, with RNA expression predominantly in the adult life-stage based on interrogation of schistosome expressed sequence tags (EST). As the libraries were enriched by panning against ES products, these antigens may be excreted or secreted into the host vasculature and hence may make good targets for a diagnostic assay. Further selection of the scFv library against infected mouse sera identified five soluble scFv clones that could selectively recognise soluble whole adult preparations (SWAP) relative to an irrelevant protein control (ovalbumin). Furthermore, two of the identified scFv clones also selectively recognised SWAP proteins when spiked into naïve mouse sera. These host B-cell derived scFvs that specifically bind to schistosome protein preparations will be valuable reagents for further development of a cost effective point-of-care diagnostic test. © 2015 Hosking et al.
Increased expression of telomere-regulating genes in endurance athletes with long leukocyte telomeres
- Denham, Joshua, O'Brien, Brendan, Prestes, Priscilla, Brown, Nicholas, Charchar, Fadi
- Authors: Denham, Joshua , O'Brien, Brendan , Prestes, Priscilla , Brown, Nicholas , Charchar, Fadi
- Date: 2015
- Type: Text , Journal article
- Relation: Journal of Applied Physiology Vol. 120, no. 2 (2015), p. 148-158
- Relation: http://purl.org/au-research/grants/nhmrc/1009490
- Full Text:
- Reviewed:
- Description: Leukocyte telomeres shorten with age, and excessive shortening is associated with age-related cardiometabolic diseases. Exercise training may prevent disease through telomere length maintenance although the optimal amount of exercise that attenuates telomere attrition is unknown. Furthermore, the underlying molecular mechanisms responsible for the enhanced telomere maintenance observed in endurance athletes is poorly understood. We quantified the leukocyte telomere length and analyzed the expression of telomere-regulating genes in endurance athletes and healthy controls (both n = 61), using quantitative PCR. We found endurance athletes have significantly longer (7.1%, 208-416 nt) leukocyte telomeres and upregulated TERT (2.0-fold) and TPP1 (1.3-fold) mRNA expression compared with controls in age-adjusted analysis. The telomere length and telomere-regulating gene expression differences were no longer statistically significant after adjustment for resting heart rate and relative (V) over dotO(2 max) (all P > 0.05). Resting heart rate emerged as an independent predictor of leukocyte telomere length and TERT and TPP1 mRNA expression in stepwise regression models. To gauge whether volume of exercise was associated with leukocyte telomere length, we divided subjects into running and cycling tertiles (distance covered per week) and found individuals in the middle and highest tertiles had longer telomeres than individuals in the lowest tertile. These data emphasize the importance of cardiorespiratory fitness and exercise training in the prevention of biological aging. They also support the concept that moderate amounts of exercise training protects against biological aging, while higher amounts may not elicit additional benefits.
- Authors: Denham, Joshua , O'Brien, Brendan , Prestes, Priscilla , Brown, Nicholas , Charchar, Fadi
- Date: 2015
- Type: Text , Journal article
- Relation: Journal of Applied Physiology Vol. 120, no. 2 (2015), p. 148-158
- Relation: http://purl.org/au-research/grants/nhmrc/1009490
- Full Text:
- Reviewed:
- Description: Leukocyte telomeres shorten with age, and excessive shortening is associated with age-related cardiometabolic diseases. Exercise training may prevent disease through telomere length maintenance although the optimal amount of exercise that attenuates telomere attrition is unknown. Furthermore, the underlying molecular mechanisms responsible for the enhanced telomere maintenance observed in endurance athletes is poorly understood. We quantified the leukocyte telomere length and analyzed the expression of telomere-regulating genes in endurance athletes and healthy controls (both n = 61), using quantitative PCR. We found endurance athletes have significantly longer (7.1%, 208-416 nt) leukocyte telomeres and upregulated TERT (2.0-fold) and TPP1 (1.3-fold) mRNA expression compared with controls in age-adjusted analysis. The telomere length and telomere-regulating gene expression differences were no longer statistically significant after adjustment for resting heart rate and relative (V) over dotO(2 max) (all P > 0.05). Resting heart rate emerged as an independent predictor of leukocyte telomere length and TERT and TPP1 mRNA expression in stepwise regression models. To gauge whether volume of exercise was associated with leukocyte telomere length, we divided subjects into running and cycling tertiles (distance covered per week) and found individuals in the middle and highest tertiles had longer telomeres than individuals in the lowest tertile. These data emphasize the importance of cardiorespiratory fitness and exercise training in the prevention of biological aging. They also support the concept that moderate amounts of exercise training protects against biological aging, while higher amounts may not elicit additional benefits.
Interval between infections and viral hierarchy are determinants of viral interference following influenza virus infection in a ferret model
- Laurie, Karen, Guarnaccia, Teagan, Carolan, Louise, Yan, Aada, Aban, Malet, Petrie, Stephen, Cao, Pengxing, Heffernan, Jane, McVernon, Jodie, Mosse, Jennifer, Kelso, Anne, McCaw, James, Barr, Ian
- Authors: Laurie, Karen , Guarnaccia, Teagan , Carolan, Louise , Yan, Aada , Aban, Malet , Petrie, Stephen , Cao, Pengxing , Heffernan, Jane , McVernon, Jodie , Mosse, Jennifer , Kelso, Anne , McCaw, James , Barr, Ian
- Date: 2015
- Type: Text , Journal article
- Relation: Journal of Infectious Diseases Vol. 212, no. 10 (2015), p. 1701-1710
- Full Text:
- Reviewed:
- Description: Background. Epidemiological studies suggest that, following infection with influenza virus, there is a short period during which a host experiences a lower susceptibility to infection with other influenza viruses. This viral interference appears to be independent of any antigenic similarities between the viruses. We used the ferret model of human influenza to systematically investigate viral interference. Methods. Ferrets were first infected then challenged 1-14 days later with pairs of influenza A(H1N1)pdm09, influenza A(H3N2), and influenza B viruses circulating in 2009 and 2010. Results. Viral interference was observed when the interval between initiation of primary infection and subsequent challenge was <1 week. This effect was virus specific and occurred between antigenically related and unrelated viruses. Coinfections occurred when 1 or 3 days separated infections. Ongoing shedding from the primary virus infection was associated with viral interference after the secondary challenge. Conclusions. The interval between infections and the sequential combination of viruses were important determinants of viral interference. The influenza viruses in this study appear to have an ordered hierarchy according to their ability to block or delay infection, which may contribute to the dominance of different viruses often seen in an influenza season.
- Authors: Laurie, Karen , Guarnaccia, Teagan , Carolan, Louise , Yan, Aada , Aban, Malet , Petrie, Stephen , Cao, Pengxing , Heffernan, Jane , McVernon, Jodie , Mosse, Jennifer , Kelso, Anne , McCaw, James , Barr, Ian
- Date: 2015
- Type: Text , Journal article
- Relation: Journal of Infectious Diseases Vol. 212, no. 10 (2015), p. 1701-1710
- Full Text:
- Reviewed:
- Description: Background. Epidemiological studies suggest that, following infection with influenza virus, there is a short period during which a host experiences a lower susceptibility to infection with other influenza viruses. This viral interference appears to be independent of any antigenic similarities between the viruses. We used the ferret model of human influenza to systematically investigate viral interference. Methods. Ferrets were first infected then challenged 1-14 days later with pairs of influenza A(H1N1)pdm09, influenza A(H3N2), and influenza B viruses circulating in 2009 and 2010. Results. Viral interference was observed when the interval between initiation of primary infection and subsequent challenge was <1 week. This effect was virus specific and occurred between antigenically related and unrelated viruses. Coinfections occurred when 1 or 3 days separated infections. Ongoing shedding from the primary virus infection was associated with viral interference after the secondary challenge. Conclusions. The interval between infections and the sequential combination of viruses were important determinants of viral interference. The influenza viruses in this study appear to have an ordered hierarchy according to their ability to block or delay infection, which may contribute to the dominance of different viruses often seen in an influenza season.
Tracking a century of change in trophic structure and dynamics in a floodplain wetland: Integrating palaeoecological and palaeoisotopic evidence
- Kattel, Giri, Gell, Peter, Perga, Marie-Elodie, Jeppesen, Erik, Grundell, Rosie, Weller, Sandra, Zawadzki, Atun, Barry, Linda
- Authors: Kattel, Giri , Gell, Peter , Perga, Marie-Elodie , Jeppesen, Erik , Grundell, Rosie , Weller, Sandra , Zawadzki, Atun , Barry, Linda
- Date: 2015
- Type: Text , Journal article
- Relation: Freshwater Biology Vol. 60, no. 4 (2015), p. 711-723
- Full Text:
- Reviewed:
- Description: The palaeoecological assessment, and the use of stable isotopes of carbon in subfossils of herbivores and omnivores, represents a novel approach to understand transitions in past food-web structure and the dynamics of lake ecosystems in response to natural perturbations and human impacts. Combined with records of subfossil assemblages of cladocerans and chironomids, it may be possible to decipher whether changes are attributable to external forces or internally derived system shifts. A sediment record taken from the shallow (2.3 m depth) Kings Billabong in the River Murray floodplain (Australia) was analysed to explore changes in trophic dynamics over the past century. The palaeoecological assessment revealed that littoral assemblages of cladocerans and benthic diatoms were gradually replaced by planktonic (planktonic and facultative planktonic) assemblages after river regulation in the 1920s. The stable isotopic composition of carbon (
- Authors: Kattel, Giri , Gell, Peter , Perga, Marie-Elodie , Jeppesen, Erik , Grundell, Rosie , Weller, Sandra , Zawadzki, Atun , Barry, Linda
- Date: 2015
- Type: Text , Journal article
- Relation: Freshwater Biology Vol. 60, no. 4 (2015), p. 711-723
- Full Text:
- Reviewed:
- Description: The palaeoecological assessment, and the use of stable isotopes of carbon in subfossils of herbivores and omnivores, represents a novel approach to understand transitions in past food-web structure and the dynamics of lake ecosystems in response to natural perturbations and human impacts. Combined with records of subfossil assemblages of cladocerans and chironomids, it may be possible to decipher whether changes are attributable to external forces or internally derived system shifts. A sediment record taken from the shallow (2.3 m depth) Kings Billabong in the River Murray floodplain (Australia) was analysed to explore changes in trophic dynamics over the past century. The palaeoecological assessment revealed that littoral assemblages of cladocerans and benthic diatoms were gradually replaced by planktonic (planktonic and facultative planktonic) assemblages after river regulation in the 1920s. The stable isotopic composition of carbon (
Blooms of cyanobacteria in a temperate Australian lagoon system post and prior to European settlement
- Cook, Perran, Jennings, Miles, Holland, Daryl, Beardall, John, Briles, Christy, Zawadzki, Atun, Doan, Phuong, Mills, Keely, Gell, Peter
- Authors: Cook, Perran , Jennings, Miles , Holland, Daryl , Beardall, John , Briles, Christy , Zawadzki, Atun , Doan, Phuong , Mills, Keely , Gell, Peter
- Date: 2016
- Type: Text , Journal article
- Relation: Biogeosciences Vol. 13, no. 12 (2016), p. 3677-3686
- Full Text:
- Reviewed:
- Description: Blooms of noxious N2 fixing cyanobacteria such as Nodularia spumigena are a recurring problem in some estuaries; however, the historic occurrence of such blooms in unclear in many cases. Here we report the results of a palaeoecological study on a temperate Australian lagoon system (the Gippsland Lakes) where we used stable isotopes and pigment biomarkers in dated cores as proxies for eutrophication and blooms of cyanobacteria. Pigment proxies show a clear signal, with an increase in cyanobacterial pigments (echinenone, canthaxanthin and zeaxanthin) in the period coinciding with recent blooms. Another excursion in these proxies was observed prior to the opening of an artificial entrance to the lakes in 1889, which markedly increased the salinity of the Gippsland Lakes. A coincident increase in the sediment organic-carbon content in the period prior to the opening of the artificial entrance suggests that the bottom waters of the lakes were more stratified and hypoxic, which would have led to an increase in the recycling of phosphorus. After the opening of the artificial entrance, there was a ∼60-year period with low values for the cyanobacterial proxies as well as a low sediment organic-carbon content suggesting a period of low bloom activity associated with the increased salinity of the lakes. During the 1940s, the current period of re-eutrophication commenced, as indicated by a steadily increasing sediment organic-carbon content and cyanobacterial pigments. We suggest that increasing nitrogen inputs from the catchment led to the return of hypoxia and increased phosphorus release from the sediment, which drove the re-emergence of cyanobacterial blooms. © 2016 Author(s).
- Authors: Cook, Perran , Jennings, Miles , Holland, Daryl , Beardall, John , Briles, Christy , Zawadzki, Atun , Doan, Phuong , Mills, Keely , Gell, Peter
- Date: 2016
- Type: Text , Journal article
- Relation: Biogeosciences Vol. 13, no. 12 (2016), p. 3677-3686
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- Description: Blooms of noxious N2 fixing cyanobacteria such as Nodularia spumigena are a recurring problem in some estuaries; however, the historic occurrence of such blooms in unclear in many cases. Here we report the results of a palaeoecological study on a temperate Australian lagoon system (the Gippsland Lakes) where we used stable isotopes and pigment biomarkers in dated cores as proxies for eutrophication and blooms of cyanobacteria. Pigment proxies show a clear signal, with an increase in cyanobacterial pigments (echinenone, canthaxanthin and zeaxanthin) in the period coinciding with recent blooms. Another excursion in these proxies was observed prior to the opening of an artificial entrance to the lakes in 1889, which markedly increased the salinity of the Gippsland Lakes. A coincident increase in the sediment organic-carbon content in the period prior to the opening of the artificial entrance suggests that the bottom waters of the lakes were more stratified and hypoxic, which would have led to an increase in the recycling of phosphorus. After the opening of the artificial entrance, there was a ∼60-year period with low values for the cyanobacterial proxies as well as a low sediment organic-carbon content suggesting a period of low bloom activity associated with the increased salinity of the lakes. During the 1940s, the current period of re-eutrophication commenced, as indicated by a steadily increasing sediment organic-carbon content and cyanobacterial pigments. We suggest that increasing nitrogen inputs from the catchment led to the return of hypoxia and increased phosphorus release from the sediment, which drove the re-emergence of cyanobacterial blooms. © 2016 Author(s).