ORCID Profile
0000-0001-5082-1630
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Analytical Chemistry | Separation Science
Publisher: American Society for Microbiology
Date: 03-2017
DOI: 10.1128/AEM.02786-16
Abstract: Brochothrix thermosphacta is a dominant but poorly studied meat spoilage organism. It is a close relative of the foodborne pathogen Listeria monocytogenes , and Brochothrix constitutes the second genus in the Listeriaceae family. Here, the genomes of 12 B. thermosphacta strains were sequenced, assembled into draft genomes, characterized, and compared with the genomes of Brochothrix c estris and L. monocytogenes . Phenotypic properties including biogenic amine production and antibiotic and heavy metal susceptibilities were tested. Comparative genomic analyses revealed a high degree of similarity among the B. thermosphacta strains, with bacteriophage genes constituting a significant proportion of the accessory genome. Genes for the production of the malodorous compounds acetate, acetoin, butanediol, and fatty acids were found, as were stress response regulatory genes, which likely play important roles in the spoilage process. Amino acid decarboxylases were not identified in the genomes, and phenotypic testing confirmed their absence. Orthologs of Listeria virulence proteins involved in virulence regulation, intracellular survival, and surface protein anchoring were found however, key virulence genes were absent. Analysis of antibiotic susceptibility showed that strains were sensitive to the four tested antibiotics, except for one tetracycline-resistant isolate with plasmid-mediated tetracycline resistance genes. Strains tolerated higher levels of copper and cobalt than of cadmium although not at concentrations high enough to categorize the strains as being resistant. This study provides insight into the Brochothrix genome, links previous phenotypic data and data provided here to the gene inventory, and identifies genes that may contribute to the persistence of this organism in the food chain. IMPORTANCE Despite increasing knowledge and advances in food preservation techniques, microbial spoilage of foods causes substantial losses, with negative social and economic consequences. To better control the contamination and microbial spoilage of foods, fundamental knowledge of the biology of key spoilage bacteria is crucial. As a common meat spoilage organism, B. thermosphacta contributes substantially to spoilage-associated losses. Nonetheless, this organism and particularly its genome remain largely unstudied. This study contributes to improving our knowledge of the Brochothrix genus. Spoilage-relevant pathways and genes that may play a role in the survival of this organism in a food processing environment were identified, linking previous phenotypic data and data provided here to the gene inventory of Brochothrix and establishing parallels to and differences from the closely related foodborne pathogen L. monocytogenes .
Publisher: Springer Science and Business Media LLC
Date: 03-08-2012
DOI: 10.1007/S00216-012-6268-0
Abstract: Capillary electrophoresis (CE) has been the principle system for nucleic acid analysis since the early 1990s due to its inherent advantages such as fast analysis time, high resolution and efficiency, minimal s le requirement, high detection sensitivity, and automation. In the past few decades, microbial community fingerprinting methods such as terminal restriction fragment length polymorphism and single-stranded conformation polymorphism (SSCP) have migrated to CE to utilize its advantages over conventional slab gel electrophoresis. Recently, a gel-based direct rRNA fingerprint method was demonstrated. Different from other existing microbial community characterization approaches, this novel approach is polymerase chain reaction free and capable of providing information on the relative abundance of rRNA from in idual phylotypes in low- ersity s les. As a gel-based method, it has a long analysis time and relatively large reagent and s le requirements. Here, we addressed these limitations by transferring the RNA fingerprint approach to the CE platform. Analysis time significantly improved from 24 h to 60 min, and the use of a fluorescently labeled hybridization probe as the detection strategy decreased the s le requirement by ten-fold. The combination of fast analysis time, low s le requirement, and sensitive fluorescence detection makes CE-RNA-SSCP an appealing new approach for characterizing low- ersity microbial communities.
Publisher: Springer Science and Business Media LLC
Date: 18-06-2011
Publisher: American Society for Microbiology
Date: 2001
DOI: 10.1128/AAC.45.1.181-186.2001
Abstract: To provide novel data relating to the dispositions, effects, and toxicities of the artemisinin derivatives in severe malaria, we studied 30 Vietnamese adults with slide-positive falciparum malaria treated with intravenous artesunate. Twelve patients with complications (severe group 1) and 8 patients without complications but requiring parenteral therapy (moderately severe group 2) received 120 mg of artesunate by injection, and 10 patients with moderately severe complications (group 3) were given 240 mg by infusion. Serial concentrations of artesunate and its active metabolite dihydroartemisinin in plasma were measured by high-performance liquid chromatography. The time to 50% parasite clearance (PCT 50 ) was determined from serial parasite densities. Full clinical (including neurological) assessments were performed at least daily. In noncompartmental pharmacokinetic analyses, group mean artesunate half-lives ( t 1/2 ) were short (range, 2.3 to 4.3 min). The dihydroartemisinin t 1/2 (range, 40 to 64 min), clearance (range, 0.73 to 1.01 liters/h/kg), and volume of distribution (range, 0.77 to 1.01 liters/kg) were also similar both across the three patient groups ( P 0.1) and to previously reported values for patients with uncomplicated malaria. Parasite clearance was prompt (group median PCT 50 range 6 to 9 h) and clinical recovery was complete under all three regimens. These data indicate that the pharmacokinetics of artesunate and dihydroartemisinin are not influenced by the severity of malaria. Since the pharmacokinetic parameters for both artesunate and dihydroartemisinin were similar regardless of whether injection or infusion was used, artesunate can be considered a prodrug that is converted stoichiometrically to dhydroartemisinin. Conventional doses of artesunate are safe and effective when given to patients with complications of falciparum malaria.
Publisher: Oxford University Press (OUP)
Date: 08-2200
DOI: 10.1111/JAM.13530
Abstract: To investigate selected factors of two nonaerated compost teas (NCT) and mechanisms that influence the restriction of several fungal potato pathogens. Two NCTs, made from either commercial compost, (CCT) or vineyard compost (VCT), were tested for their ability to suppress potato pathogens. The VCT was more suppressive than CCT to mycelial growth of Alternaria solani and Rhizoctonia solani isolate 299, but not for R. solani isolate 422. Metagenomic studies of microbial ersity revealed that the CCT had higher fungal and bacterial ersity and richness than the VCT. Use of CCT significantly reduced lesion area of Alternaria alternata on detached leaves, however, a gum adjuvant did not lead to significantly greater control. Scanning microscopy showed that the spatial distribution of microbes from the CCT was altered with gum addition, to resemble what may have been a microbial biofilm. We confirmed that each NCT could suppress the mycelial growth of selected potato pathogens in culture, and CCT reduced A. alternata lesions on detached leaves. Factors including concentration, microbial communities and physio-chemical properties could not be consistently linked to NCT efficacy. This study particularly highlights the application of scanning microscopy to study the interaction between pathogens and putative NCT microbes on foliar surfaces. This adds insight to mechanisms of NCT efficacy, along with physico-chemical and microbial characterization of the teas. This study shows the potential for the use of NCTs as a crop protection tool of low-cost which could be of particular benefit in smallholder agriculture.
Publisher: Wiley
Date: 02-1998
DOI: 10.1046/J.1365-2125.1998.00655.X
Abstract: To obtain comprehensive pharmacokinetic and pharmacodynamic data for artesunate (ARTS) and its active metabolite dihydroartemisinin (DHA) following i.v. and oral administration of ARTS to patients with acute, uncomplicated falciparum malaria. Twenty-six Vietnamese patients with falciparum malaria were randomized to receive either i.v. ARTS (120 mg group 1) or oral ARTS (100 mg group 2), with the alternative preparation given 8 h later in an open crossover design. Mefloquine (750 mg) was administered at 24 h. Plasma concentrations of ARTS and DHA were determined by h.p.l.c. assay. Pharmacokinetic parameters were calculated by non-compartmental methods. The time to 50% parasite clearance (PCT50) was calculated by linear interpolation of parasite density determinations. Linear least squares and multiple linear regression analyses were used to evaluate pharmacokinetic-pharmacodynamic relationships. Following i.v. bolus, ARTS had a peak concentration of 29.5 microM (11 mg l[-1]), elimination t1/2 = 2.7 min, CL = 2.33 l h(-1) kg(-1) and V = 0.14 l kg(-1). The Cmax for DHA was 9.3 microM (2.64 mg l[-1]), t1/2 = 40 min, CL =0.75 l h(-1) kg(-1) and V = 0.76 l kg(-1). Following oral ARTS, relative bioavailability of DHA was 82%, Cmax was 2.6 microM (0.74 mg l[-1]), t1/2 = 39 min, and MAT = 67 min. Overall, the PCT50 and fever clearance time (FCT) were 6.5 h and 24 h, respectively. There was no correlation between PCT50 or FCT and AUC, Cmax or MRT for DHA. Despite rapid clearance of ARTS and DHA in patients with uncomplicated falciparum malaria, prompt parasite and fever clearance were achieved. High relative bioavailability of DHA following oral ARTS administration, and clinical outcomes comparable with those after i.v. ARTS, support the use of the oral formulation in the primary care setting.
Publisher: Elsevier BV
Date: 09-2014
DOI: 10.1016/J.JENVMAN.2014.04.019
Abstract: Accidental fuel spills on world heritage subantarctic Macquarie Island have caused considerable contamination. Due to the island's high latitude position, its climate, and its fragile ecosystem, traditional methods of remediation are unsuitable for on-site clean up. We investigated the tolerance of a subantarctic native tussock grass, Poa foliosa (Hook. f.), to Special Antarctic Blend (SAB) diesel fuel and its potential to reduce SAB fuel contamination via phytoremediation. Toxicity of SAB fuel to P. foliosa was assessed in an 8 month laboratory growth trial under growth conditions which simulated the island's environment. Single seedlings were planted into 1 L pots of soil spiked with SAB fuel at concentrations of 1000, 5 000, 10,000, 2000 and 40,000 mg/kg (plus control). Plants were harvested at 0, 2, 4 and 8 months and a range of plant productivity endpoints were measured (biomass production, plant morphology and photosynthetic efficiency). Poa foliosa was highly tolerant across all SAB fuel concentrations tested with respect to biomass, although higher concentrations of 20,000 and 40,000 mg SAB/kg soil caused slight reductions in leaf length, width and area. To assess the phytoremediation potential of P. foliosa (to 10 000 mg/kg), soil from the planted pots was compared with that from paired unplanted pots at each SAB fuel concentration. The effect of the plant on SAB fuel concentrations and the associated microbial communities found within the soil (total heterotrophs and hydrocarbon degraders) were compared between planted and unplanted treatments at the 0, 2, 4 and 8 month harvest periods. The presence of plants resulted in significantly less SAB fuel in soils at 2 months and a return to background concentration by 8 months. Microbes did not appear to be the sole driving force behind the observed hydrocarbon loss. This study provides evidence that phytoremediation using P. foliosa is a valuable remediation option for use at Macquarie Island, and may be applicable to the management of fuel spills in other cold climate regions.
Publisher: Elsevier BV
Date: 10-2020
Publisher: Elsevier BV
Date: 12-2012
Abstract: The potential of a near infrared spectroscopy (NIR) method to detect as well as predict microbial spoilage on Atlantic salmon (Salmo salar) was investigated. Principal component analysis (PCA) of the NIR spectra showed clear separation between the fresh salmon fillets and those stored for nine days at 4°C indicating that NIR could detect spoilage. A partial least squares regression (PLS) prediction model for total aerobic plate counts after nine days was established using the NIR spectra collected when the fish was fresh to predict the number of bacteria that would be present nine days later. The calibration equation was good (R(2) = 0.95 and RMSE = 0.12 log cfu/g) although the error of the validation curve was larger (R(2) = 0.64 and RMSE = 0.32 log cfu/g). These results indicate that with further model development, it may be possible to use NIR to predict bacterial numbers, and hence shelf-life, in Atlantic salmon and other seafood.
Publisher: Springer Science and Business Media LLC
Date: 18-06-2004
Publisher: Elsevier BV
Date: 12-2011
DOI: 10.1016/J.SCITOTENV.2011.09.013
Abstract: Diesels and lubricants used at research stations can persist in terrestrial and marine sediments for decades, but knowledge of their effects on the surrounding environments is limited. In a 5 year in situ investigation, marine sediment spiked with Special Antarctic Blend (SAB) diesel was placed on the seabed of O'Brien Bay near Casey Station, Antarctica and s led after 5, 56, 65, 104 and 260 weeks. The rates and possible mechanisms of removal of the diesel from the marine sediments are presented here. The hydrocarbons within the spiked sediment were removed at an overall rate of 4.7mg total petroleum hydrocarbons kg(-1) sediment week(-1), or 245mgkg(-1)year(-1), although seasonal variation was evident. The concentration of total petroleum hydrocarbons fell markedly from 2020±340mgkg(-1) to 800±190mgkg(-1), but after 5 years the spiked sediment was still contaminated relative to natural organic matter (160±170mgkg(-1)). Specific compounds in SAB diesel preferentially decreased in concentration, but not as would be expected if biodegradation was the sole mechanism responsible. Naphthalene was removed more readily than n-alkanes, suggesting that aqueous dissolution played a major role in the reduction of SAB diesel. 1,3,5,7-Teramethyladamantane and 1,3-dimethyladamantane were the most recalcitrant isomers in the spiked marine sediment. Dissolution of aromatic compounds from marine sediment increases the availability of more soluble, aromatic compounds in the water column. This could increase the area of contamination and potentially broaden the region impacted by ecotoxicological effects from shallow sediment dwelling fauna, as noted during biodegradation, to shallow (<19m) water dwelling fauna.
Publisher: Elsevier BV
Date: 08-2020
Publisher: Springer Science and Business Media LLC
Date: 20-06-2013
Publisher: Elsevier BV
Date: 12-2012
DOI: 10.1016/J.CHROMA.2012.08.017
Abstract: Over the past two decades, capillary electrophoresis (CE) has been the subject of extensive development and progress in various DNA based sieving electrophoresis applications, namely Sanger sequencing, forensic short tandem repeat (STR) analysis, clinical genotype screening (SNP), and phylogenetic fingerprinting. Yet, this trend has not been emulated in the RNA field. This review will highlight the development and key analysis parameters of RNA electrophoresis by CE and provide possible explanations for the low research interest in this area.
Publisher: Springer Science and Business Media LLC
Date: 23-04-2015
DOI: 10.1007/S11356-015-4438-2
Abstract: A permeable reactive barrier (PRB) was installed during 2005/2006 to intercept, capture and degrade a fuel spill at the Main Power House, Casey Station, Antarctica. Here, evaluation of the performance of the PRB is conducted via interpretation of total petroleum hydrocarbon (TPH) concentrations, degradation indices and most probable number (MPN) counts of total heterotroph and fuel degrading microbial populations. Results indicate that locations which contained the lowest TPH concentrations also exhibited the highest levels of degradation and numbers of fuel degrading microbes, based on the degradation indices and MPN methods selected. This provides insights to the most appropriate reactive materials for use in PRB's in cold and nutrient-limited environments.
Publisher: Oxford University Press (OUP)
Date: 07-2003
Publisher: Springer Science and Business Media LLC
Date: 10-03-2017
Publisher: Springer Science and Business Media LLC
Date: 31-08-2006
DOI: 10.1007/S00248-006-9131-Z
Abstract: A real-time polymerase chain reaction (PCR) method to quantify the proportion of microorganisms containing alkane monooxygenase was developed and used to follow changes in the microbial community in hydrocarbon-contaminated Antarctic soil during a bioremediation field trial. Assays for the alkB and rpoB genes were validated and found to be both sensitive and reproducible (less than 2% intrarun variation and 25-38% interrun variation). Results from the real-time PCR analysis were compared to analysis of the microbial population by a culture-based technique [most probable number (MPN) counts]. Both types of analysis indicated that fertilizer addition to hydrocarbon-contaminated soil stimulated the indigenous bacterial population within 1 year. The proportion of alkB containing microorganisms was positively correlated to the concentration of n-alkanes in the soil. After the concentration of n-alkanes in the soil decreased, the proportion of alkane-degrading microorganisms decreased, but the proportion of total hydrocarbon-degrading microorganisms increased, indicating another shift in the microbial community structure and ongoing biodegradation.
Publisher: Elsevier BV
Date: 08-2005
Publisher: Elsevier BV
Date: 04-2007
DOI: 10.1016/J.MARPOLBUL.2006.11.018
Abstract: Clean sediment collected from O'Brien Bay, East Antarctica, was artificially contaminated with a mix of Special Antarctic Blend diesel fuel and lubricating oil and deployed in two uncontaminated locations (O'Brien and Sparkes Bays) and a previously contaminated bay (Brown Bay) to evaluate whether a history of prior contamination would influence the biodegradation process. Detailed analysis of the hydrocarbon composition in the sediment after 11 weeks revealed different patterns of degradation in each bay. Biodegradation indices showed that hydrocarbon biodegradation occurred in all three bays but was most extensive in Brown Bay. This study shows that even within a relatively small geographical area, the longevity of hydrocarbons in Antarctic marine sediments can be variable. Our results are consistent with faster natural attenuation of spilt oil at sites with previous exposure to oil but further work is needed to confirm this. Such information would be useful when evaluating the true risk and longevity of oils spills.
Publisher: International Union of Crystallography (IUCr)
Date: 11-05-2012
Publisher: Cambridge University Press (CUP)
Date: 17-08-2005
DOI: 10.1017/S0954102005002786
Abstract: A field experiment investigating the effect of oil contamination on benthic microbial communities was conducted near Casey Station, East Antarctica. Defaunated sediment was treated with a mixture of Special Antarctic Blend diesel and lubricating oil and deployed in three different bays for eleven weeks. A molecular fingerprinting technique, denaturing gradient gel electrophoresis (DGGE), was used to investigate the microbial community structure. The variation between replicate s les within treatment groups indicates that the benthic microbial populations are very erse and evenly distributed. Comparisons to determine the significance of both deployment location and hydrocarbon treatment showed that the greatest effect was from a combination of location and treatment. Detailed analysis suggests that subtle differences may be obscured by variability introduced by PCR and gel stages in DGGE, undermining this experimental approach. It is concluded that both location and hydrocarbon contamination influenced the development of the microbial communities but that the effect of hydrocarbon treatment varied with location. This has important implications for the design of future experiments on the effect of hydrocarbons on benthic communities, especially if it is intended to generalize the conclusions drawn from site specific studies.
Publisher: Elsevier BV
Date: 11-2010
Publisher: Inter-Research Science Center
Date: 10-2010
DOI: 10.3354/AME01441
Publisher: American Chemical Society (ACS)
Date: 30-07-2015
DOI: 10.1021/ACS.JPROTEOME.5B00241
Abstract: The extremely psychrophilic proteorhodopsin-containing bacterial species Psychroflexus torquis is considered to be a model sea-ice microorganism, which has adapted to an epiphytic lifestyle. So far, not much is known about proteorhodopsin-based phototrophy and associated life strategies of sea ice bacteria, although it has been previously shown that P. torquis can gain growth advantage from light using a proteorhodopsin proton pump, the activity of which is influenced by environmental salinity. The comprehensive quantitative proteomic study performed here indicated that P. torquis responds to changing salinity and illumination conditions. Proteins in the electron-transfer chain were down-regulated at a suboptimal salinity level, TonB-dependent transporters increased in abundance under supra-optimal salinity and decreased under suboptimal salinity. In addition, several anaplerotic CO2 fixation proteins and three putative light sensing proteins that contain PAS and GAF domains became more abundant under illumination. Furthermore, central metabolic pathways (TCA and glycolysis) were also induced by both salinity stress and illumination. The data suggest that P. torquis responded to changes in both light energy and salinity to modulate membrane and central metabolic proteins that are involved in energy production as well as nutrient uptake and gliding motility processes that would be especially advantageous during the polar summer ice algal bloom.
Publisher: Elsevier BV
Date: 03-2018
DOI: 10.1016/J.IJFOODMICRO.2018.01.005
Abstract: Pseudomonas are common spoilage agents of aerobically stored fresh foods. Their ability to cause spoilage is species- and may be strain-specific. To improve our understanding of the meat and milk spoilage agents Pseudomonas fragi and Pseudomonas lundensis, we sequenced the genomes of 12 P. fragi and seven P. lundensis isolates. These genomes provided a dataset for genomic analyses. Key volatile organic compounds (VOCs) produced or metabolised by the isolates were determined during their growth on a beef paste and where possible, metabolic activity was associated with gene repertoire. Genome analyses showed that the isolates included in this work may belong to more than two Pseudomonas species with possible spoilage potential. Pan-genome analyses demonstrated a high degree of ersity among the P. fragi and genetic flexibility and ersity may be traits of both species. Growth of the P. lundensis isolates was characterised by the production of large amounts of 1-undecene, 5-methyl-2-hexanone and methyl-2-butenoic acid. P. fragi isolates produced extensive amounts of methyl and ethyl acetate and the production of methyl esters predominated over ethyl esters. Some of the P. fragi produced extremely low levels of VOCs, highlighting the importance of strain-specific studies in food matrices. Furthermore, although usually not considered to be denitrifiers, all isolates generated molecular nitrogen, indicating that at least some steps of this pathway are intact.
Publisher: Oxford University Press (OUP)
Date: 2014
DOI: 10.1093/GBE/EVT209
Publisher: Wiley
Date: 06-2001
DOI: 10.1046/J.1365-2125.2001.01395.X
Abstract: To obtain comprehensive bioavailability data for artesunate (ARTS) and its active metabolite dihydroartemisinin (DHA) following their separate oral administration to Vietnamese volunteers and to patients with acute, uncomplicated falciparum malaria. Volunteers were randomized to receive either i.v. ARTS (120 mg) followed by oral ARTS (150 mg) 8 h later (Group 1, n = 10), or i.v. ARTS (120 mg) followed by oral DHA (120 mg) 8 h later. Patients, also received oral ARTS (150 mg Group 3, n = 8) or DHA (120 mg Group 2, n = 7), in a randomized cross-over study design. Multiple blood s les were collected after each administration and plasma ARTS and/or DHA concentrations were determined by h.p.l.c. Pharmacokinetic descriptors were obtained from noncompartmental analysis and bioavailability was calculated from AUC data. In the patients, the time to 50% parasite clearance (PCT50) and fever clearance time (FCT) also were measured. In Group 1 (volunteers), the mean (95% CI) absolute bioavailability of oral ARTS was 80% (62,98%), while in Group 2 (volunteers), the bioavailability of oral DHA was 45% (34,56%). In the patients (Group 3), the bioavailability of oral DHA relative to oral ARTS was 88% (49,127%). The median PCT50 and FCT were 2.3 and 28 h, respectively. The study shows that the absolute bioavailability of DHA was significantly lower than that for ARTS in healthy volunteers. The bioavailability of ARTS in volunteers was consistent with previous studies in patients with uncomplicated falciparum malaria. The dose-normalized Cmax and AUC(0,infinity) for DHA were significantly greater in patients with falciparum malaria than in healthy volunteers. The high relative bioavailability of DHA in the patients may have been due to lower first-pass clearance. We conclude that, for the treatment of malaria, DHA is likely to be a suitable oral substitute for ARTS. Based on our mean AUC measurements, it appears that equal doses of DHA and ARTS (mg basis) should give equivalent systemic exposure to bioactive DHA in uncomplicated falciparum malaria.
Publisher: Wiley
Date: 09-1998
No related organisations have been discovered for Shane Powell.
Start Date: 04-2023
End Date: 04-2027
Amount: $478,589.00
Funder: Australian Research Council
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