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Sample records for bacteria predicts environment-specific

  1. Vibration Response Predictions for Heavy Panel Mounted Components from Panel Acreage Environment Specifications

    Science.gov (United States)

    Harrison, Phillip; Frady, Greg; Duvall, Lowery; Fulcher, Clay; LaVerde, Bruce

    2010-01-01

    The development of new launch vehicles in the Aerospace industry often relies on response measurements taken from previously developed vehicles during various stages of liftoff and ascent, and from wind tunnel models. These measurements include sound pressure levels, dynamic pressures in turbulent boundary layers and accelerations. Rigorous statistical scaling methods are applied to the data to derive new environments and estimate the performance of new skin panel structures. Scaling methods have proven to be reliable, particularly for designs similar to the vehicles used as the basis for scaling, and especially in regions of smooth acreage without exterior protuberances or heavy components mounted to the panel. To account for response attenuation of a panel-mounted component due to its apparent mass at higher frequencies, the vibroacoustics engineer often reduces the acreage vibration according to a weight ratio first suggested by Barrett. The accuracy of the reduction is reduced with increased weight of the panel-mounted component, and does not account for low-frequency amplification of the component/panel response as a system. A method is proposed that combines acreage vibration from scaling methods with finite element analysis to account for the frequency-dependent dynamics of heavy panel-mounted components. Since the acreage and mass-loaded skins respond to the same dynamic input pressure, such pressure may be eliminated in favor of a frequency-dependent scaling function applied to the acreage vibration to predict the mass-loaded panel response. The scaling function replaces the Barrett weight ratio, and contains all of the dynamic character of the loaded and unloaded skin panels. The solution simplifies for spatially uncorrelated and fully correlated input pressures. Since the prediction uses finite element models of the loaded and unloaded skins, a rich suite of response data are available to the design engineer, including interface forces, stress and strain

  2. Oasis desert farming selects environment-specific date palm root endophytic communities and cultivable bacteria that promote resistance to drought

    KAUST Repository

    Cherif, Hanene

    2015-07-21

    Oases are desert-farming agro-ecosystems, where date palm (Phoenix dactyliferaL.) plays a keystone role in offsetting the effects of drought and maintaining a suitable microclimate for agriculture. At present, abundance, diversity and plant growth promotion (PGP) of date palm root-associated bacteria remain unknown. Considering the environmental pressure determined by the water scarcity in the desert environments, we hypothesized that bacteria associated with date palm roots improve plant resistance to drought. Here, the ecology of date palm root endophytes from oases in the Tunisian Sahara was studied with emphasis on their capacity to promote growth under drought. Endophytic communities segregated along a north-south gradient in correlation with geo-climatic parameters. Screening of 120 endophytes indicated that date palm roots select for bacteria with multiple PGP traits. Bacteria rapidly cross-colonized the root tissues of different species of plants, including the original Tunisian date palm cultivar, Saudi Arabian cultivars and Arabidopsis. Selected endophytes significantly increased the biomass of date palms exposed to repeated drought stress periods during a 9-month greenhouse experiment. Overall, results indicate that date palm roots shape endophytic communities that are capable to promote plant growth under drought conditions, thereby contributing an essential ecological service to the entire oasis ecosystem. © 2015 Society for Applied Microbiology and John Wiley & Sons Ltd.

  3. Predicting spring barley yield from variety-specific yield potential, disease resistance and straw length, and from environment-specific disease loads and weed pressure

    DEFF Research Database (Denmark)

    Østergård, Hanne; Kristensen, Kristian; Pinnschmidt, Hans O.; Hansen, Preben Klarskov; Hovmøller, Mogens S.

    2008-01-01

    . The extend to which increased susceptibility resulted in increased yield losses in environments with high disease loads of the respective diseases was predicted. The effect of externally determined straw length scores, weighted with weed pressure, was weaker although significant for weeds with......For low-input crop production, well-characterised varieties increase the possibilities of managing diseases and weeds. This analysis aims at developing a framework for analyzing grain yield using external varietal information about disease resistance, weed competitiveness and yield potential and...... quantifying the impact of susceptibility grouping and straw length scores (as a measure for weed competitiveness) for predicting spring barley grain yield under variable biotic stress levels. The study comprised 52 spring barley varieties and 17 environments, i.e., combinations of location, growing system and...

  4. Electron environment specification models for Galileo

    Science.gov (United States)

    Lazaro, Didier; Bourdarie, Sebastien; Hands, Alex; Ryden, Keith; Nieminen, Petteri

    The MEO radiation hazard is becoming an increasingly important consideration with an ever rising number of satellites missions spending most of their time in this environment. This region lies in the heart of the highly dynamic electron radiation belt, where very large radiation doses can be encountered unless proper shielding to critical systems and components is applied. Significant internal charging hazards also arise in the MEO regime. For electron environment specification at Galileo altitude, new models have been developed and implemented: long term effects model for dose evaluation, statistical model for internal charging analysis and latitudinal model for ELDRS analysis. Models outputs, tools and validation with observations (Giove-A data) and existing models (such as FLUMIC) are presented . "Energetic Electron Environment Models for MEO" Co 21403/08/NL/JD in consortium with ONERA, QinetiQ, SSTL and CNES .

  5. Quantitative prediction of genome-wide resource allocation in bacteria.

    Science.gov (United States)

    Goelzer, Anne; Muntel, Jan; Chubukov, Victor; Jules, Matthieu; Prestel, Eric; Nölker, Rolf; Mariadassou, Mahendra; Aymerich, Stéphane; Hecker, Michael; Noirot, Philippe; Becher, Dörte; Fromion, Vincent

    2015-11-01

    Predicting resource allocation between cell processes is the primary step towards decoding the evolutionary constraints governing bacterial growth under various conditions. Quantitative prediction at genome-scale remains a computational challenge as current methods are limited by the tractability of the problem or by simplifying hypotheses. Here, we show that the constraint-based modeling method Resource Balance Analysis (RBA), calibrated using genome-wide absolute protein quantification data, accurately predicts resource allocation in the model bacterium Bacillus subtilis for a wide range of growth conditions. The regulation of most cellular processes is consistent with the objective of growth rate maximization except for a few suboptimal processes which likely integrate more complex objectives such as coping with stressful conditions and survival. As a proof of principle by using simulations, we illustrated how calibrated RBA could aid rational design of strains for maximizing protein production, offering new opportunities to investigate design principles in prokaryotes and to exploit them for biotechnological applications. PMID:26498510

  6. Prediction of lipoprotein signal peptides in Gram-negative bacteria

    DEFF Research Database (Denmark)

    Juncker, Agnieszka; Willenbrock, Hanni; Von Heijne, G.; Brunak, Søren; Nielsen, Henrik; Krogh, Anders Stærmose

    2003-01-01

    A method to predict lipoprotein signal peptides in Gram-negative Eubacteria, LipoP, has been developed. The hidden Markov model (HMM) was able to distinguish between lipoproteins (SPaseII-cleaved proteins), SPaseI-cleaved proteins, cytoplasmic proteins, and transmembrane proteins. This predictor...... predictions by the HMM agree well with the experimentally verified lipoproteins. A neural network-based predictor was developed for comparison, and it gave very similar results. LipoP is available as a Web server at www.cbs.dtu.dk/services/LipoP/....

  7. Predictive and interpretive simulation of green fluorescent protein expression in reporter bacteria.

    Science.gov (United States)

    Leveau, J H; Lindow, S E

    2001-12-01

    We have formulated a numerical model that simulates the accumulation of green fluorescent protein (GFP) in bacterial cells from a generic promoter-gfp fusion. The model takes into account the activity of the promoter, the time it takes GFP to mature into its fluorescent form, the susceptibility of GFP to proteolytic degradation, and the growth rate of the bacteria. From the model, we derived a simple formula with which promoter activity can be inferred easily and quantitatively from actual measurements of GFP fluorescence in growing bacterial cultures. To test the usefulness of the formula, we determined the activity of the LacI-repressible promoter P(A1/O4/O3) in response to increasing concentrations of the inducer IPTG (isopropyl-beta-D-thiogalactopyranoside) and were able to predict cooperativity between the LacI repressors on each of the two operator sites within P(A1/O4/O3). Aided by the model, we also quantified the proteolytic degradation of GFP[AAV], GFP[ASV], and GFP[LVA], which are popular variants of GFP with reduced stability in bacteria. Best described by Michaelis-Menten kinetics, the rate at which these variants were degraded was a function of the activity of the promoter that drives their synthesis: a weak promoter yielded proportionally less GFP fluorescence than a strong one. The degree of disproportionality is species dependent: the effect was more pronounced in Erwinia herbicola than in Escherichia coli. This phenomenon has important implications for the interpretation of fluorescence from bacterial reporters based on these GFP variants. The model furthermore predicted a significant effect of growth rate on the GFP content of individual bacteria, which if not accounted for might lead to misinterpretation of GFP data. In practice, our model will be helpful for prior testing of different combinations of promoter-gfp fusions that best fit the application of a particular bacterial reporter strain, and also for the interpretation of actual GFP

  8. Temperature dependences of growth rates and carrying capacities of marine bacteria depart from metabolic theoretical predictions.

    Science.gov (United States)

    Huete-Stauffer, Tamara Megan; Arandia-Gorostidi, Nestor; Díaz-Pérez, Laura; Morán, Xosé Anxelu G

    2015-10-01

    Using the metabolic theory of ecology (MTE) framework, we evaluated over a whole annual cycle the monthly responses to temperature of the growth rates (μ) and carrying capacities (K) of heterotrophic bacterioplankton at a temperate coastal site. We used experimental incubations spanning 6ºC with bacterial physiological groups identified by flow cytometry according to membrane integrity (live), nucleic acid content (HNA and LNA) and respiratory activity (CTC+). The temperature dependence of μ at the exponential phase of growth was summarized by the activation energy (E), which was variable (-0.52 to 0.72 eV) but followed a seasonal pattern, only reaching the hypothesized value for aerobic heterotrophs of 0.65 eV during the spring bloom for the most active bacterial groups (live, HNA, CTC+). K (i.e. maximum experimental abundance) peaked at 4 × 10(6) cells mL(-1) and generally covaried with μ but, contrary to MTE predictions, it did not decrease consistently with temperature. In the case of live cells, the responses of μ and K to temperature were positively correlated and related to seasonal changes in substrate availability, indicating that the responses of bacteria to warming are far from homogeneous and poorly explained by MTE at our site. PMID:26362925

  9. Composition of symbiotic bacteria predicts survival in Panamanian golden frogs infected with a lethal fungus

    OpenAIRE

    Matthew H Becker; Walke, Jenifer B.; Cikanek, Shawna; Savage, Anna E.; Mattheus, Nichole; Santiago, Celina N.; Minbiole, Kevin P. C.; Harris, Reid N.; Lisa K Belden; Gratwicke, Brian

    2015-01-01

    Symbiotic microbes can dramatically impact host health and fitness, and recent research in a diversity of systems suggests that different symbiont community structures may result in distinct outcomes for the host. In amphibians, some symbiotic skin bacteria produce metabolites that inhibit the growth of Batrachochytrium dendrobatidis (Bd), a cutaneous fungal pathogen that has caused many amphibian population declines and extinctions. Treatment with beneficial bacteria (probiotics) prevents Bd...

  10. Periodontal disease bacteria specific to tonsil in IgA nephropathy patients predicts the remission by the treatment.

    Directory of Open Access Journals (Sweden)

    Yasuyuki Nagasawa

    Full Text Available BACKGROUND: Immunoglobulin (IgA nephropathy (IgAN is the most common form of primary glomerulonephritis in the world. Some bacteria were reported to be the candidate of the antigen or the pathogenesis of IgAN, but systematic analysis of bacterial flora in tonsil with IgAN has not been reported. Moreover, these bacteria specific to IgAN might be candidate for the indicator which can predict the remission of IgAN treated by the combination of tonsillectomy and steroid pulse. METHODS AND FINDINGS: We made a comprehensive analysis of tonsil flora in 68 IgAN patients and 28 control patients using Denaturing gradient gel electrophoresis methods. We also analyzed the relationship between several bacteria specific to the IgAN and the prognosis of the IgAN. Treponema sp. were identified in 24% IgAN patients, while in 7% control patients (P = 0.062. Haemophilus segnis were detected in 53% IgAN patients, while in 25% control patients (P = 0.012. Campylobacter rectus were identified in 49% IgAN patients, while in 14% control patients (P = 0.002. Multiple Cox proportional-hazards model revealed that Treponema sp. or Campylobactor rectus are significant for the remission of proteinuria (Hazard ratio 2.35, p = 0.019. There was significant difference in remission rates between IgAN patients with Treponema sp. and those without the bacterium (p = 0.046, and in remission rates between IgAN patients with Campylobacter rectus and those without the bacterium (p = 0.037 by Kaplan-Meier analysis. Those bacteria are well known to be related with the periodontal disease. Periodontal bacteria has known to cause immune reaction and many diseases, and also might cause IgA nephropathy. CONCLUSION: This insight into IgAN might be useful for diagnosis of the IgAN patients and the decision of treatment of IgAN.

  11. Predictive and Interpretive Simulation of Green Fluorescent Protein Expression in Reporter Bacteria

    OpenAIRE

    Leveau, Johan H. J.; Lindow, Steven E.

    2001-01-01

    We have formulated a numerical model that simulates the accumulation of green fluorescent protein (GFP) in bacterial cells from a generic promoter-gfp fusion. The model takes into account the activity of the promoter, the time it takes GFP to mature into its fluorescent form, the susceptibility of GFP to proteolytic degradation, and the growth rate of the bacteria. From the model, we derived a simple formula with which promoter activity can be inferred easily and quantitatively from actual me...

  12. Composition of symbiotic bacteria predicts survival in Panamanian golden frogs infected with a lethal fungus.

    Science.gov (United States)

    Becker, Matthew H; Walke, Jenifer B; Cikanek, Shawna; Savage, Anna E; Mattheus, Nichole; Santiago, Celina N; Minbiole, Kevin P C; Harris, Reid N; Belden, Lisa K; Gratwicke, Brian

    2015-04-22

    Symbiotic microbes can dramatically impact host health and fitness, and recent research in a diversity of systems suggests that different symbiont community structures may result in distinct outcomes for the host. In amphibians, some symbiotic skin bacteria produce metabolites that inhibit the growth of Batrachochytrium dendrobatidis (Bd), a cutaneous fungal pathogen that has caused many amphibian population declines and extinctions. Treatment with beneficial bacteria (probiotics) prevents Bd infection in some amphibian species and creates optimism for conservation of species that are highly susceptible to chytridiomycosis, the disease caused by Bd. In a laboratory experiment, we used Bd-inhibitory bacteria from Bd-tolerant Panamanian amphibians in a probiotic development trial with Panamanian golden frogs, Atelopus zeteki, a species currently surviving only in captive assurance colonies. Approximately 30% of infected golden frogs survived Bd exposure by either clearing infection or maintaining low Bd loads, but this was not associated with probiotic treatment. Survival was instead related to initial composition of the skin bacterial community and metabolites present on the skin. These results suggest a strong link between the structure of these symbiotic microbial communities and amphibian host health in the face of Bd exposure and also suggest a new approach for developing amphibian probiotics. PMID:25788591

  13. Composition and predicted functional ecology of mussel - associated bacteria in Indonesian marine lakes

    NARCIS (Netherlands)

    Cleary, D.F.R.; Becking, L.E.; Polonia, A.; Freitas, R.M.; Gomes, N.

    2015-01-01

    In the present study, we sampled bacterial communities associated with mussels inhabiting two distinct coastal marine ecosystems in Kalimantan, Indonesia, namely, marine lakes and coastal mangroves. We used 16S rRNA gene pyrosequencing and predicted metagenomic analysis to compare microbial composit

  14. Arginine Patch Predicts the RNA Annealing Activity of Hfq from Gram-Negative and Gram-Positive Bacteria.

    Science.gov (United States)

    Zheng, Amy; Panja, Subrata; Woodson, Sarah A

    2016-06-01

    The Sm-protein Hfq facilitates interactions between small non-coding RNA (sRNA) and target mRNAs. In enteric Gram-negative bacteria, Hfq is required for sRNA regulation, and hfq deletion results in stress intolerance and reduced virulence. By contrast, the role of Hfq in Gram-positive is less established and varies among species. The RNA binding and RNA annealing activity of Hfq from Escherichia coli, Pseudomonas aeruginosa, Listeria monocytogenes, Bacillus subtilis, and Staphylococcus aureus were compared using minimal RNAs and fluorescence spectroscopy. The results show that RNA annealing activity increases with the number of arginines in a semi-conserved patch on the rim of the Hfq hexamer and correlates with the previously reported requirement for Hfq in sRNA regulation. Thus, the amino acid sequence of the arginine patch can predict the chaperone function of Hfq in sRNA regulation in different organisms. PMID:27049793

  15. Application of empirical predictive modeling using conventional and alternative fecal indicator bacteria in eastern North Carolina waters

    Science.gov (United States)

    Gonzalez, Raul; Conn, Kathleen E.; Crosswell, Joey; Noble, Rachel

    2012-01-01

    Coastal and estuarine waters are the site of intense anthropogenic influence with concomitant use for recreation and seafood harvesting. Therefore, coastal and estuarine water quality has a direct impact on human health. In eastern North Carolina (NC) there are over 240 recreational and 1025 shellfish harvesting water quality monitoring sites that are regularly assessed. Because of the large number of sites, sampling frequency is often only on a weekly basis. This frequency, along with an 18–24 h incubation time for fecal indicator bacteria (FIB) enumeration via culture-based methods, reduces the efficiency of the public notification process. In states like NC where beach monitoring resources are limited but historical data are plentiful, predictive models may offer an improvement for monitoring and notification by providing real-time FIB estimates. In this study, water samples were collected during 12 dry (n = 88) and 13 wet (n = 66) weather events at up to 10 sites. Statistical predictive models for Escherichiacoli (EC), enterococci (ENT), and members of the Bacteroidales group were created and subsequently validated. Our results showed that models for EC and ENT (adjusted R2 were 0.61 and 0.64, respectively) incorporated a range of antecedent rainfall, climate, and environmental variables. The most important variables for EC and ENT models were 5-day antecedent rainfall, dissolved oxygen, and salinity. These models successfully predicted FIB levels over a wide range of conditions with a 3% (EC model) and 9% (ENT model) overall error rate for recreational threshold values and a 0% (EC model) overall error rate for shellfish threshold values. Though modeling of members of the Bacteroidales group had less predictive ability (adjusted R2 were 0.56 and 0.53 for fecal Bacteroides spp. and human Bacteroides spp., respectively), the modeling approach and testing provided information on Bacteroidales ecology. This is the first example of a set of successful statistical

  16. Comparative genomic analysis of carbon and nitrogen assimilation mechanisms in three indigenous bioleaching bacteria: predictions and validations

    OpenAIRE

    Ehrenfeld Nicole; Ugalde Juan A; Levicán Gloria; Maass Alejandro; Parada Pilar

    2008-01-01

    Abstract Background Carbon and nitrogen fixation are essential pathways for autotrophic bacteria living in extreme environments. These bacteria can use carbon dioxide directly from the air as their sole carbon source and can use different sources of nitrogen such as ammonia, nitrate, nitrite, or even nitrogen from the air. To have a better understanding of how these processes occur and to determine how we can make them more efficient, a comparative genomic analysis of three bioleaching bacter...

  17. Phylogenomic Analysis and Predicted Physiological Role of the Proton-Translocating NADH:Quinone Oxidoreductase (Complex I) Across Bacteria

    OpenAIRE

    Spero, Melanie A.; Aylward, Frank O.; Currie, Cameron R.; Donohue, Timothy J.

    2015-01-01

    ABSTRACT The proton-translocating NADH:quinone oxidoreductase (complex I) is a multisubunit integral membrane enzyme found in the respiratory chains of both bacteria and eukaryotic organelles. Although much research has focused on the enzyme’s central role in the mitochondrial respiratory chain, comparatively little is known about its role in the diverse energetic lifestyles of different bacteria. Here, we used a phylogenomic approach to better understand the distribution of complex I across ...

  18. Comparative genomic analysis of carbon and nitrogen assimilation mechanisms in three indigenous bioleaching bacteria: predictions and validations

    Directory of Open Access Journals (Sweden)

    Ehrenfeld Nicole

    2008-12-01

    Full Text Available Abstract Background Carbon and nitrogen fixation are essential pathways for autotrophic bacteria living in extreme environments. These bacteria can use carbon dioxide directly from the air as their sole carbon source and can use different sources of nitrogen such as ammonia, nitrate, nitrite, or even nitrogen from the air. To have a better understanding of how these processes occur and to determine how we can make them more efficient, a comparative genomic analysis of three bioleaching bacteria isolated from mine sites in Chile was performed. This study demonstrated that there are important differences in the carbon dioxide and nitrogen fixation mechanisms among bioleaching bacteria that coexist in mining environments. Results In this study, we probed that both Acidithiobacillus ferrooxidans and Acidithiobacillus thiooxidans incorporate CO2 via the Calvin-Benson-Bassham cycle; however, the former bacterium has two copies of the Rubisco type I gene whereas the latter has only one copy. In contrast, we demonstrated that Leptospirillum ferriphilum utilizes the reductive tricarboxylic acid cycle for carbon fixation. Although all the species analyzed in our study can incorporate ammonia by an ammonia transporter, we demonstrated that Acidithiobacillus thiooxidans could also assimilate nitrate and nitrite but only Acidithiobacillus ferrooxidans could fix nitrogen directly from the air. Conclusion The current study utilized genomic and molecular evidence to verify carbon and nitrogen fixation mechanisms for three bioleaching bacteria and provided an analysis of the potential regulatory pathways and functional networks that control carbon and nitrogen fixation in these microorganisms.

  19. Empirical prediction and validation of antibacterial inhibitory effects of various plant essential oils on common pathogenic bacteria.

    Science.gov (United States)

    Akdemir Evrendilek, Gulsun

    2015-06-01

    In this study, fractional compound composition, antioxidant capacity, and phenolic substance content of 14 plant essential oils-anise (Pimpinella anisum), bay leaves (Laurus nobilis), cinnamon bark (Cinnamomum verum), clove (Eugenia caryophyllata), fennel (Foeniculum vulgare), hop (Humulus lupulus), Istanbul oregano (Origanum vulgare subsp. hirtum), Izmir oregano (Origanum onites), mint (Mentha piperita), myrtus (Myrtus communis), orange peel (Citrus sinensis), sage (Salvia officinalis), thyme (Thymbra spicata), and Turkish oregano (Origanum minutiflorum)--were related to inhibition of 10 bacteria through multiple linear or non-linear (M(N)LR) models-four Gram-positive bacteria of Listeria innocua, coagulase-negative staphylococci, Staphylococcus aureus, and Bacillus subtilis, and six Gram-negative bacteria of Yersinia enterocolitica, Salmonella Enteritidis, Salmonella Typhimurium, Proteus mirabilis, Escherichia coli O157:H7, and Klebsiella oxytoca. A total of 65 compounds with different antioxidant capacity, phenolic substance content and antibacterial properties were detected with 14 plant essential oils. The best-fit M(N)LR models indicated that relative to anise essential oil, the essential oils of oreganos, cinnamon, and thyme had consistently high inhibitory effects, while orange peel essential oil had consistently a low inhibitory effect. Regression analysis indicated that beta-bisabolene (Turkish and Istanbul oreganos), and terpinolene (thyme) were found to be the most inhibitory compounds regardless of the bacteria type tested. PMID:25764982

  20. Predicting carriage with extended-spectrum beta-lactamase-producing bacteria at hospital admission : A cross-sectional study

    NARCIS (Netherlands)

    Platteel, T. N.; Leverstein-van Hall, M. A.; Cohen Stuart, J. W.; Thijsen, S. F T; Mascini, E. M.; van Hees, B. C.; Scharringa, J.; Fluit, A. C.; Bonten, M. J M

    2015-01-01

    The prevalence of patients colonized with extended-spectrum beta-lactamase (ESBL)-producing bacteria increases, especially in long-term-care facilities (LTCFs). Identification of ESBL carriers at hospital admission is relevant for infection control measures and antibiotic therapy for nosocomial infe

  1. Like will to like: abundances of closely related species can predict susceptibility to intestinal colonization by pathogenic and commensal bacteria.

    Directory of Open Access Journals (Sweden)

    Bärbel Stecher

    2010-01-01

    Full Text Available The intestinal ecosystem is formed by a complex, yet highly characteristic microbial community. The parameters defining whether this community permits invasion of a new bacterial species are unclear. In particular, inhibition of enteropathogen infection by the gut microbiota ( = colonization resistance is poorly understood. To analyze the mechanisms of microbiota-mediated protection from Salmonella enterica induced enterocolitis, we used a mouse infection model and large scale high-throughput pyrosequencing. In contrast to conventional mice (CON, mice with a gut microbiota of low complexity (LCM were highly susceptible to S. enterica induced colonization and enterocolitis. Colonization resistance was partially restored in LCM-animals by co-housing with conventional mice for 21 days (LCM(con21. 16S rRNA sequence analysis comparing LCM, LCM(con21 and CON gut microbiota revealed that gut microbiota complexity increased upon conventionalization and correlated with increased resistance to S. enterica infection. Comparative microbiota analysis of mice with varying degrees of colonization resistance allowed us to identify intestinal ecosystem characteristics associated with susceptibility to S. enterica infection. Moreover, this system enabled us to gain further insights into the general principles of gut ecosystem invasion by non-pathogenic, commensal bacteria. Mice harboring high commensal E. coli densities were more susceptible to S. enterica induced gut inflammation. Similarly, mice with high titers of Lactobacilli were more efficiently colonized by a commensal Lactobacillus reuteri(RR strain after oral inoculation. Upon examination of 16S rRNA sequence data from 9 CON mice we found that closely related phylotypes generally display significantly correlated abundances (co-occurrence, more so than distantly related phylotypes. Thus, in essence, the presence of closely related species can increase the chance of invasion of newly incoming species into

  2. Prediction of mixture toxicity from the hormesis of a single chemical: A case study of combinations of antibiotics and quorum-sensing inhibitors with gram-negative bacteria.

    Science.gov (United States)

    Wang, Ting; Wang, Dali; Lin, Zhifen; An, Qingqing; Yin, Chunsheng; Huang, Qinghui

    2016-05-01

    The 50% effect level of a single chemical in the real environment is almost impossible to determine at the low exposure concentration, and the prediction of the concentration of a mixture at the 50% effect level from the concentration of a single chemical at the low effect level is even more difficult. The current literature does not address this problem. Thus, to determine solutions for this question, single/mixture chronic toxicities of sulfonamides (SAs) and quorum-sensing inhibitors (QSIs) were determined using Gram-negative bacteria (Vibrio fischeri and E. coli.) and Gram-positive bacteria (B. subtilis) as the target organisms. The results showed that the joint effects of SAs and QSIs were primarily antagonistic responses. In addition, the toxicity mechanisms of mixtures of SAs and QSIs were investigated further, and the results revealed that the chronic joint effects were primarily an antagonistic response due to the QSI competing against acyl-homoserine lactones (AHL) for luxR in V. fischeri and SdiA in E. coli generated by the SAs, leading to negative effects exerted by the QSI-luxR or QSI-SdiA complexes on luxI in V. fischeri or FtsZ in E. coli. This phenomenon eventually weakened the stimulatory effect caused by the SAs. Based on the mixture toxicity mechanism, the relationship between the mixture toxicity and the simulation effect was formulated. PMID:26901472

  3. Multi-Target QSAR Approaches for Modeling Protein Inhibitors. Simultaneous Prediction of Activities Against Biomacromolecules Present in Gram-Negative Bacteria.

    Science.gov (United States)

    Speck-Planche, Alejandro; Cordeiro, M N D S

    2015-01-01

    Drug discovery is aimed at finding therapeutic agents for the treatment of many diverse diseases and infections. However, this is a very slow an expensive process, and for this reason, in silico approaches are needed to rationalize the search for new molecular entities with desired biological profiles. Models focused on quantitative structure-activity relationships (QSAR) have constituted useful complementary tools in medicinal chemistry, allowing the virtual predictions of dissimilar pharmacological activities of compounds. In the last 10 years, multi-target (mt) QSAR models have been reported, representing great advances with respect to those models generated from classical approaches. Thus, mt- QSAR models can simultaneously predict activities against different biological targets (proteins, microorganisms, cell lines, etc.) by using large and heterogeneous datasets of chemicals. The present review is devoted to discuss the most promising mt-QSAR models, particularly those developed for the prediction of protein inhibitors. We also report the first multi-tasking QSAR (mtk-QSAR) model for simultaneous prediction of inhibitors against biomacromolecules (specifically proteins) present in Gram-negative bacteria. This model allowed us to consider both different proteins and multiple experimental conditions under which the inhibitory activities of the chemicals were determined. The mtk-QSAR model exhibited accuracies higher than 98% in both training and prediction sets, also displaying a very good performance in the classification of active and inactive cases that depended on the specific elements of the experimental conditions. The physicochemical interpretations of the molecular descriptors were also analyzed, providing important insights regarding the molecular patterns associated with the appearance/enhancement of the inhibitory potency. PMID:25961517

  4. Recommendations for Guidelines for Environment-Specific Magnetic-Field Measurements, Rapid Program Engineering Project #2

    Energy Technology Data Exchange (ETDEWEB)

    Electric Research and Management, Inc.; IIT Research Institute; Magnetic Measurements; Survey Research Center, University of California; T. Dan Bracken, Inc.

    1997-03-11

    The purpose of this project was to document widely applicable methods for characterizing the magnetic fields in a given environment, recognizing the many sources co-existing within that space. The guidelines are designed to allow the reader to follow an efficient process to (1) plan the goals and requirements of a magnetic-field study, (2) develop a study structure and protocol, and (3) document and carry out the plan. These guidelines take the reader first through the process of developing a basic study strategy, then through planning and performing the data collection. Last, the critical factors of data management, analysis reporting, and quality assurance are discussed. The guidelines are structured to allow the researcher to develop a protocol that responds to specific site and project needs. The Research and Public Information Dissemination Program (RAPID) is based on exposure to magnetic fields and the potential health effects. Therefore, the most important focus for these magnetic-field measurement guidelines is relevance to exposure. The assumed objective of an environment-specific measurement is to characterize the environment (given a set of occupants and magnetic-field sources) so that information about the exposure of the occupants may be inferred. Ideally, the researcher seeks to obtain complete or "perfect" information about these magnetic fields, so that personal exposure might also be modeled perfectly. However, complete data collection is not feasible. In fact, it has been made more difficult as the research field has moved to expand the list of field parameters measured, increasing the cost and complexity of performing a measurement and analyzing the data. The guidelines address this issue by guiding the user to design a measurement protocol that will gather the most exposure-relevant information based on the locations of people in relation to the sources. We suggest that the "microenvironment" become the base unit of area in a study, with

  5. Computational prediction of the Crc regulon identifies genus-wide and species-specific targets of catabolite repression control in Pseudomonas bacteria

    LENUS (Irish Health Repository)

    Browne, Patrick

    2010-11-25

    Abstract Background Catabolite repression control (CRC) is an important global control system in Pseudomonas that fine tunes metabolism in order optimise growth and metabolism in a range of different environments. The mechanism of CRC in Pseudomonas spp. centres on the binding of a protein, Crc, to an A-rich motif on the 5\\' end of an mRNA resulting in translational down-regulation of target genes. Despite the identification of several Crc targets in Pseudomonas spp. the Crc regulon has remained largely unexplored. Results In order to predict direct targets of Crc, we used a bioinformatics approach based on detection of A-rich motifs near the initiation of translation of all protein-encoding genes in twelve fully sequenced Pseudomonas genomes. As expected, our data predict that genes related to the utilisation of less preferred nutrients, such as some carbohydrates, nitrogen sources and aromatic carbon compounds are targets of Crc. A general trend in this analysis is that the regulation of transporters is conserved across species whereas regulation of specific enzymatic steps or transcriptional activators are often conserved only within a species. Interestingly, some nucleoid associated proteins (NAPs) such as HU and IHF are predicted to be regulated by Crc. This finding indicates a possible role of Crc in indirect control over a subset of genes that depend on the DNA bending properties of NAPs for expression or repression. Finally, some virulence traits such as alginate and rhamnolipid production also appear to be regulated by Crc, which links nutritional status cues with the regulation of virulence traits. Conclusions Catabolite repression control regulates a broad spectrum of genes in Pseudomonas. Some targets are genus-wide and are typically related to central metabolism, whereas other targets are species-specific, or even unique to particular strains. Further study of these novel targets will enhance our understanding of how Pseudomonas bacteria integrate

  6. Methanotrophic bacteria.

    OpenAIRE

    Hanson, R S; Hanson, T. E.

    1996-01-01

    Methane-utilizing bacteria (methanotrophs) are a diverse group of gram-negative bacteria that are related to other members of the Proteobacteria. These bacteria are classified into three groups based on the pathways used for assimilation of formaldehyde, the major source of cell carbon, and other physiological and morphological features. The type I and type X methanotrophs are found within the gamma subdivision of the Proteobacteria and employ the ribulose monophosphate pathway for formaldehy...

  7. Antibiotic resistance in bacteria isolated from freshwater aquacultures and prediction of the persistence and toxicity of antimicrobials in the aquatic environment.

    Science.gov (United States)

    Lim, Seung J; Jang, Eunhee; Lee, Sang-Hun; Yoo, Byeong-Hak; Kim, Sun-Kyoung; Kim, Tak-Hyun

    2013-01-01

    The occurrence of antibiotic-resistant bacteria isolated from freshwater aquaculture effluents was investigated. The bacterial strains were collected from four different freshwater aquaculture effluents (catfish, trout, eel, and loach). Based on sequence of 16S rRNA, a total of 20 bacterial strains was isolated and one half of the isolated bacteria were Aeromonas sp. The antimicrobial sensitivity test was performed using the disc diffusion method. Individual antibiotic-resistant bacteria to antimicrobials were 41.7% and multiple antibiotic resistant bacteria were 58.3%. The disinfection of antibiotic-resistant bacteria by electron beam (E-beam) irradiation was carried out using an electron accelerator. Antibiotic-resistant bacteria were effectively disinfected by E-beam irradiation. The isolated bacteria were completely disinfected at a dose of less than 2 kGy. The persistence and toxicity of each antimicrobial in the aquatic environment was estimated due to the human health and ecosystems. In order to estimate the persistence and toxicity of antimicrobials in the aquatic environment, two quantitative structure activity relationship (QSAR) models were used. The persistence and toxicity of each antimicrobial were influenced on its hydrophobicity. In addition, QSAR models showed that isoelectric point and hydrogen bonding acceptor are key parameters to estimate the persistence and toxicity of antimicrobials in the aquatic environment. PMID:23452215

  8. Big bacteria

    DEFF Research Database (Denmark)

    Schulz, HN; Jørgensen, BB

    2001-01-01

    A small number of prokaryotic species have a unique physiology or ecology related to their development of unusually large size. The biomass of bacteria varies over more than 10 orders of magnitude, from the 0.2 mum wide nanobacteria to the largest cells of the colorless sulfur bacteria......, Thiomargarita namibiensis, with a diameter of 750 mum. All bacteria, including those that swim around in the environment, obtain their food molecules by molecular diffusion. Only the fastest and largest swimmers known, Thiovulum majus, are able to significantly increase their food supply by motility and by...... actively creating an advective flow through the entire population. Diffusion limitation generally restricts the maximal size of prokaryotic cells and provides a selective advantage for mum-sized cells at the normally low substrate concentrations in the environment. The largest heterotrophic bacteria, the...

  9. Anaerobic bacteria

    Science.gov (United States)

    Brook I, Goldstein EJ. Diseases caused by non-spore forming anaerobic bacteria. In: Goldman L, Schafer AI, eds. Goldman's Cecil Medicine . 25th ed. Philadelphia, PA: Elsevier Saunders; 2015:chap 297. Stedman's Online ...

  10. Prediction

    OpenAIRE

    Woollard, W.J.

    2006-01-01

    In this chapter we will look at the ways in which you can use ICT in the classroom to support hypothesis and prediction and how modern technology is enabling: pattern seeking, extrapolation and interpolation to meet the challenges of the information explosion of the 21st century.

  11. Prediction

    CERN Document Server

    Sornette, Didier

    2010-01-01

    This chapter first presents a rather personal view of some different aspects of predictability, going in crescendo from simple linear systems to high-dimensional nonlinear systems with stochastic forcing, which exhibit emergent properties such as phase transitions and regime shifts. Then, a detailed correspondence between the phenomenology of earthquakes, financial crashes and epileptic seizures is offered. The presented statistical evidence provides the substance of a general phase diagram for understanding the many facets of the spatio-temporal organization of these systems. A key insight is to organize the evidence and mechanisms in terms of two summarizing measures: (i) amplitude of disorder or heterogeneity in the system and (ii) level of coupling or interaction strength among the system's components. On the basis of the recently identified remarkable correspondence between earthquakes and seizures, we present detailed information on a class of stochastic point processes that has been found to be particu...

  12. Escherichia coli bacteria density in relation to turbidity, streamflow characteristics, and season in the Chattahoochee River near Atlanta, Georgia, October 2000 through September 2008—Description, statistical analysis, and predictive modeling

    Science.gov (United States)

    Lawrence, Stephen J.

    2012-01-01

    Water-based recreation—such as rafting, canoeing, and fishing—is popular among visitors to the Chattahoochee River National Recreation Area (CRNRA) in north Georgia. The CRNRA is a 48-mile reach of the Chattahoochee River upstream from Atlanta, Georgia, managed by the National Park Service (NPS). Historically, high densities of fecal-indicator bacteria have been documented in the Chattahoochee River and its tributaries at levels that commonly exceeded Georgia water-quality standards. In October 2000, the NPS partnered with the U.S. Geological Survey (USGS), State and local agencies, and non-governmental organizations to monitor Escherichia coli bacteria (E. coli) density and develop a system to alert river users when E. coli densities exceeded the U.S. Environmental Protection Agency (USEPA) single-sample beach criterion of 235 colonies (most probable number) per 100 milliliters (MPN/100 mL) of water. This program, called BacteriALERT, monitors E. coli density, turbidity, and water temperature at two sites on the Chattahoochee River upstream from Atlanta, Georgia. This report summarizes E. coli bacteria density and turbidity values in water samples collected between 2000 and 2008 as part of the BacteriALERT program; describes the relations between E. coli density and turbidity, streamflow characteristics, and season; and describes the regression analyses used to develop predictive models that estimate E. coli density in real time at both sampling sites.

  13. Rumen bacteria

    International Nuclear Information System (INIS)

    The rumen is the most extensively studied gut community and is characterized by its high population density, wide diversity and complexity of interactions. This complex, mixed microbial culture is comprised of prokaryote organisms including methane-producing archaebacteria, eukaryote organisms, such as ciliate and flagellate protozoa, anaerobic phycomycete fungi and bacteriophage. Bacteria are predominant (up to 1011 viable cells per g comprising 200 species) but a variety of ciliate protozoa occur widely (104-106/g distributed over 25 genera). The anaerobic fungi are also widely distributed (zoospore population densities of 102-104/g distributed over 5 genera). The occurrence of bacteriophage is well documented (107-109 particles/g). This section focuses primarily on the widely used methods for the cultivation and the enumeration of rumen microbes, especially bacteria, which grow under anaerobic conditions. Methods that can be used to measure hydrolytic enzymes (cellulases, xylanases, amylases and proteinases) are also described, along with cell harvesting and fractionation procedures. Brief reference is also made to fungi and protozoa, but detailed explanations for culturing and enumerating these microbes is presented in Chapters 2.4 and 2.5

  14. Lipoprotein sorting in bacteria.

    Science.gov (United States)

    Okuda, Suguru; Tokuda, Hajime

    2011-01-01

    Bacterial lipoproteins are synthesized as precursors in the cytoplasm and processed into mature forms on the cytoplasmic membrane. A lipid moiety attached to the N terminus anchors these proteins to the membrane surface. Many bacteria are predicted to express more than 100 lipoproteins, which play diverse functions on the cell surface. The Lol system, composed of five proteins, catalyzes the localization of Escherichia coli lipoproteins to the outer membrane. Some lipoproteins play vital roles in the sorting of other lipoproteins, lipopolysaccharides, and β-barrel proteins to the outer membrane. On the basis of results from biochemical, genetic, and structural studies, we discuss the biogenesis of lipoproteins in bacteria, their importance in cellular functions, and the molecular mechanisms underlying efficient sorting of hydrophobic lipoproteins to the outer membrane through the hydrophilic periplasm. PMID:21663440

  15. Interactions between Cooccurring Lactic Acid Bacteria in Honey Bee Hives

    OpenAIRE

    Rokop, Z. P.; Horton, M. A.; Newton, I. L. G.

    2015-01-01

    In contrast to the honey bee gut, which is colonized by a few characteristic bacterial clades, the hive of the honey bee is home to a diverse array of microbes, including many lactic acid bacteria (LAB). In this study, we used culture, combined with sequencing, to sample the LAB communities found across hive environments. Specifically, we sought to use network analysis to identify microbial hubs sharing nearly identical operational taxonomic units, evidence which may indicate cooccurrence of ...

  16. Modelling and predicting the simultaneous growth of Listeria monocytogenes and psychrotolerant lactic acid bacteria in processed seafood and mayonnaise-based seafood salads.

    Science.gov (United States)

    Mejlholm, Ole; Dalgaard, Paw

    2015-04-01

    A new combined model for Listeria monocytogenes and psychrotolerant Lactobacillus spp. was constructed and evaluated for processed seafood and mayonnaise-based seafood salads. The new model was constructed by combining existing cardinal parameter models for L. monocytogenes and Lactobacillus spp. using the classical Jameson effect to model microbial interaction. Maximum population density (MPD) values of L. monocytogenes were accurately predicted in processed seafood with a known initial cell concentration of Lactobacillus spp. For these experiments, average MPD values of 4.5 and 4.3 log (cfu/g) were observed and predicted, respectively for L. monocytogenes. In seafood salads, growth of L. monocytogenes continued at a reduced growth rate after Lactobacillus sakei had reached their MPD. This growth pattern was successfully described by an expanded version of the classical Jameson effect model, but only for products with pH of 6.0 or higher. For seafood salads with pH below 6.0 the performance of the new model was unacceptable, primarily due to prediction of no-growth by L. monocytogenes when growth was actually observed. Within its range of applicability the new model can be valuable for risk assessment and risk management of processed seafood as well as for evaluating the compliance of products with the EU regulation for ready-to-eat foods. PMID:25475260

  17. VICMpred: An SVM-based Method for the Prediction of Functional Proteins of Gram-negative Bacteria Using Amino Acid Patterns and Composition

    Institute of Scientific and Technical Information of China (English)

    Sudipto Saha; G.P.S. Raghava

    2006-01-01

    In this study, an attempt has been made to predict the major functions of gramnegative bacterial proteins from their amino acid sequences. The dataset used for training and testing consists of 670 non-redundant gram-negative bacterial proteins (255 ofcellular process, 60 of information molecules, 285 of metabolism, and 70 of virulence factors). First we developed an SVM-based method using amino acid and dipeptide composition and achieved the overall accuracy of 52.39% and 47.01%, respectively. We introduced a new concept for the classification of proteins based on tetrapeptides, in which we identified the unique tetrapeptides significantly found in a class of proteins. These tetrapeptides were used as the input feature for predicting the function of a protein and achieved the overall accuracy of 68.66%. We also developed a hybrid method in which the tetrapeptide information was used with amino acid composition and achieved the overall accuracy of 70.75%. A five-fold cross validation was used to evaluate the performance of these methods. The web server VICMpred has been developed for predicting the function of gram-negative bacterial proteins (http://www.imtech.res.in/raghava/vicmpred/).

  18. Sampling bacteria with a laser

    Science.gov (United States)

    Schwarzwälder, Kordula; Rutschmann, Peter

    2014-05-01

    Water quality is a topic of high interest and it's getting more and more important due to climate change and the implementation of European Water Framework Directive (WFD). One point of interest here is the inflow of bacteria into a river caused by combined sewer overflows which lead untreated wastewater including bacteria directly into a river. These bacteria remain in the river for a certain time, they settle down and can be remobilised again. In our study we want to investigate these processes of sedimentation and resuspension and use the results for the development of a software module coupled with the software Flow3D. Thereby we should be able to simulate and therefore predict the water quality influenced by combined sewer overflows. Hence we need to get information about the bacteria transport and fate. We need to know about the size of the bacteria or of the bacteria clumps and the size of the particles the bacteria are attached to. The agglomerates lead to different characteristics and velocities of settlement. The timespan during this bacteria can be detected in the bulk phase depends on many factors like the intensity of UV light, turbidity of the water, the temperature of the water, if there are grazers and a lot more. The size, density and composition of the agglomerates is just a part of all these influencing factors, but it is extremely difficult to differ between the other effects if we have no information about the simple sedimentation in default of these basic information. However we have a big problem getting the data. The chaining between bacteria or bacteria and particles is not too strong, so filtering the water to get a sieving curve may destroy these connections. We did some experiments similar to PIV (particle image velocimetry) measurements and evaluated the pictures with a macro written for the software ImageJ. Doing so we were able to get the concentration of bacteria in the water and collect information about the size of the bacteria. We

  19. Back To Bacteria.

    Science.gov (United States)

    Flannery, Maura C.

    1997-01-01

    Explores new research about bacteria. Discusses bacterial genomes, archaea, unusual environments, evolution, pathogens, bacterial movement, biofilms, bacteria in the body, and a bacterial obsession. Contains 29 references. (JRH)

  20. Pepsin homologues in bacteria

    Directory of Open Access Journals (Sweden)

    Bateman Alex

    2009-09-01

    Full Text Available Abstract Background Peptidase family A1, to which pepsin belongs, had been assumed to be restricted to eukaryotes. The tertiary structure of pepsin shows two lobes with similar folds and it has been suggested that the gene has arisen from an ancient duplication and fusion event. The only sequence similarity between the lobes is restricted to the motif around the active site aspartate and a hydrophobic-hydrophobic-Gly motif. Together, these contribute to an essential structural feature known as a psi-loop. There is one such psi-loop in each lobe, and so each lobe presents an active Asp. The human immunodeficiency virus peptidase, retropepsin, from peptidase family A2 also has a similar fold but consists of one lobe only and has to dimerize to be active. All known members of family A1 show the bilobed structure, but it is unclear if the ancestor of family A1 was similar to an A2 peptidase, or if the ancestral retropepsin was derived from a half-pepsin gene. The presence of a pepsin homologue in a prokaryote might give insights into the evolution of the pepsin family. Results Homologues of the aspartic peptidase pepsin have been found in the completed genomic sequences from seven species of bacteria. The bacterial homologues, unlike those from eukaryotes, do not possess signal peptides, and would therefore be intracellular acting at neutral pH. The bacterial homologues have Thr218 replaced by Asp, a change which in renin has been shown to confer activity at neutral pH. No pepsin homologues could be detected in any archaean genome. Conclusion The peptidase family A1 is found in some species of bacteria as well as eukaryotes. The bacterial homologues fall into two groups, one from oceanic bacteria and one from plant symbionts. The bacterial homologues are all predicted to be intracellular proteins, unlike the eukaryotic enzymes. The bacterial homologues are bilobed like pepsin, implying that if no horizontal gene transfer has occurred the duplication

  1. Bacteria isolated from amoebae/bacteria consortium

    Science.gov (United States)

    Tyndall, Richard L.

    1995-01-01

    New protozoan derived microbial consortia and method for their isolation are provided. Consortia and bacteria isolated therefrom are useful for treating wastes such as trichloroethylene and trinitrotoluene. Consortia, bacteria isolated therefrom, and dispersants isolated therefrom are useful for dispersing hydrocarbons such as oil, creosote, wax, and grease.

  2. Predictable tuning of protein expression in bacteria

    DEFF Research Database (Denmark)

    Bonde, Mads; Pedersen, Margit; Klausen, Michael Schantz;

    2016-01-01

    We comprehensively assessed the contribution of the Shine-Dalgarno sequence to protein expression and used the data to develop EMOPEC (Empirical Model and Oligos for Protein Expression Changes; http://emopec.biosustain.dtu.dk). EMOPEC is a free tool that makes it possible to modulate the expressi...

  3. Bleach vs. Bacteria

    Science.gov (United States)

    ... Articles | Inside Life Science Home Page Bleach vs. Bacteria By Sharon Reynolds Posted April 2, 2014 Your ... hypochlorous acid to help kill invading microbes, including bacteria. Researchers funded by the National Institutes of Health ...

  4. Bacteria and lignin degradation

    Institute of Scientific and Technical Information of China (English)

    Jing LI; Hongli YUAN; Jinshui YANG

    2009-01-01

    Lignin is both the most abundant aromatic (phenolic) polymer and the second most abundant raw material.It is degraded and modified by bacteria in the natural world,and bacteria seem to play a leading role in decomposing lignin in aquatic ecosystems.Lignin-degrading bacteria approach the polymer by mechanisms such as tunneling,erosion,and cavitation.With the advantages of immense environmental adaptability and biochemical versatility,bacteria deserve to be studied for their ligninolytic potential.

  5. Genomics of Probiotic Bacteria

    Science.gov (United States)

    O'Flaherty, Sarah; Goh, Yong Jun; Klaenhammer, Todd R.

    Probiotic bacteria from the Lactobacillus and Bifidobacterium species belong to the Firmicutes and the Actinobacteria phylum, respectively. Lactobacilli are members of the lactic acid bacteria (LAB) group, a broadly defined family of microorganisms that ferment various hexoses into primarily lactic acid. Lactobacilli are typically low G + C gram-positive species which are phylogenetically diverse, with over 100 species documented to date. Bifidobacteria are heterofermentative, high G + C content bacteria with about 30 species of bifidobacteria described to date.

  6. Learning Chemistry from Bacteria

    OpenAIRE

    Clardy, Jon

    2013-01-01

    Dr. Jon Clardy Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Harvard University All animals, including humans, originated and evolved on a planet already teeming with bacteria, and the two kingdoms of life have been competing and cooperating through their joint history. Although bacteria are most familiar as pathogens, some bacteria produce small molecules that are essential for the biology of animals and other eukaryotes. This lecture explores some of...

  7. Aerobic Anoxygenic Phototrophic Bacteria

    OpenAIRE

    Yurkov, Vladimir V.; Beatty, J. Thomas

    1998-01-01

    The aerobic anoxygenic phototrophic bacteria are a relatively recently discovered bacterial group. Although taxonomically and phylogenetically heterogeneous, these bacteria share the following distinguishing features: the presence of bacteriochlorophyll a incorporated into reaction center and light-harvesting complexes, low levels of the photosynthetic unit in cells, an abundance of carotenoids, a strong inhibition by light of bacteriochlorophyll synthesis, and the inability to grow photosynt...

  8. Metallization of bacteria cells

    Institute of Scientific and Technical Information of China (English)

    LI; Xiangfeng; (黎向锋); LI; Yaqin; (李雅芹); CAI; Jun; (蔡军); ZHANG; Deyuan; (张德远)

    2003-01-01

    Bacteria cells with different standard shapes are well suited for use as templates for the fabrication of magnetic and electrically conductive microstructures. In this paper, metallization of bacteria cells is demonstrated by an electroless deposition technique of nickel-phosphorus initiated by colloid palladium-tin catalyst on the surfaces of Citeromyces matritensis and Bacillus cereus. The activated and metallized bacteria cells have been characterized by scanning electron microscopy (SEM), transmission electron microscopy (TEM) and X-ray diffraction analysis (XRD). Results showed that both Citeromyces matritensis and Bacillus cereus had no deformation in shape after metallization; the metallized films deposited on the surfaces of bacteria cells are homogeneous in thickness and noncrystalline in phase structure. The kinetics of colloid palladium-tin solution and electroless plating on bacteria cells is discussed.

  9. Bacteria classification using Cyranose 320 electronic nose

    Directory of Open Access Journals (Sweden)

    Gardner Julian W

    2002-10-01

    Full Text Available Abstract Background An electronic nose (e-nose, the Cyrano Sciences' Cyranose 320, comprising an array of thirty-two polymer carbon black composite sensors has been used to identify six species of bacteria responsible for eye infections when present at a range of concentrations in saline solutions. Readings were taken from the headspace of the samples by manually introducing the portable e-nose system into a sterile glass containing a fixed volume of bacteria in suspension. Gathered data were a very complex mixture of different chemical compounds. Method Linear Principal Component Analysis (PCA method was able to classify four classes of bacteria out of six classes though in reality other two classes were not better evident from PCA analysis and we got 74% classification accuracy from PCA. An innovative data clustering approach was investigated for these bacteria data by combining the 3-dimensional scatter plot, Fuzzy C Means (FCM and Self Organizing Map (SOM network. Using these three data clustering algorithms simultaneously better 'classification' of six eye bacteria classes were represented. Then three supervised classifiers, namely Multi Layer Perceptron (MLP, Probabilistic Neural network (PNN and Radial basis function network (RBF, were used to classify the six bacteria classes. Results A [6 × 1] SOM network gave 96% accuracy for bacteria classification which was best accuracy. A comparative evaluation of the classifiers was conducted for this application. The best results suggest that we are able to predict six classes of bacteria with up to 98% accuracy with the application of the RBF network. Conclusion This type of bacteria data analysis and feature extraction is very difficult. But we can conclude that this combined use of three nonlinear methods can solve the feature extraction problem with very complex data and enhance the performance of Cyranose 320.

  10. Indicator For Pseudomonas Bacteria

    Science.gov (United States)

    Margalit, Ruth

    1990-01-01

    Characteristic protein extracted and detected. Natural protein marker found in Pseudomonas bacteria. Azurin, protein containing copper readily extracted, purified, and used to prepare antibodies. Possible to develop simple, fast, and accurate test for marker carried out in doctor's office.

  11. Oil eating bacteria

    Energy Technology Data Exchange (ETDEWEB)

    NONE

    2002-07-01

    The article discusses the unusual technology of using oil-eating bacteria to increase oil recovery. The background for the discovery that bacteria injection into the reservoirs may increase the oil recovery is the study of microbial action in breaking down oil pollution. About 20 per cent of the organisms living naturally in the sea can eat oil. But they need water to grow. In the absence of water, the bacteria produce enzymes to make the oil water soluble and allow them to extract nutrients from them. Oil does not vanish upon being eaten, but enzymes from the digestive process act as effective detergents to wash away the oil, which is then easier to recover.

  12. A flow cytometric technique for quantification and differentiation of bacteria in bulk tank milk

    DEFF Research Database (Denmark)

    Holm, C.; Mathiasen, T.; Jespersen, Lene

    2004-01-01

    were defined: region 1 includes bacteria mainly associated with poor hygiene, region 2 includes psychrotrophic hygiene bacteria and region 3 includes bacteria mainly related to mastitis. The ability of the flow cytometric technique to predict the main cause of elevated bacterial counts on routine...

  13. Sterol synthesis in diverse bacteria

    Directory of Open Access Journals (Sweden)

    Jeremy H Wei

    2016-06-01

    Full Text Available Sterols are essential components of eukaryotic cells whose biosynthesis and function has been studied extensively. Sterols are also recognized as the diagenetic precursors of steranes preserved in sedimentary rocks where they can function as geological proxies for eukaryotic organisms and/or aerobic metabolisms and environments. However, production of these lipids is not restricted to the eukaryotic domain as a few bacterial species also synthesize sterols. Phylogenomic studies have identified genes encoding homologs of sterol biosynthesis proteins in the genomes of several additional species, indicating that sterol production may be more widespread in the bacterial domain than previously thought. Although the occurrence of sterol synthesis genes in a genome indicates the potential for sterol production, it provides neither conclusive evidence of sterol synthesis nor information about the composition and abundance of basic and modified sterols that are actually being produced. Here, we coupled bioinformatics with lipid analyses to investigate the scope of bacterial sterol production. We identified oxidosqualene cyclase (Osc, which catalyzes the initial cyclization of oxidosqualene to the basic sterol structure, in 34 bacterial genomes from 5 phyla (Bacteroidetes, Cyanobacteria, Planctomycetes, Proteobacteria and Verrucomicrobia and in 176 metagenomes. Our data indicate that bacterial sterol synthesis likely occurs in diverse organisms and environments and also provides evidence that there are as yet uncultured groups of bacterial sterol producers. Phylogenetic analysis of bacterial and eukaryotic Osc sequences confirmed a complex evolutionary history of sterol synthesis in this domain. Finally, we characterized the lipids produced by Osc-containing bacteria and found that we could generally predict the ability to synthesize sterols. However, predicting the final modified sterol based on our current knowledge of sterol synthesis was difficult

  14. Modelling the fate and transport of faecal bacteria in estuarine and coastal waters.

    Science.gov (United States)

    Gao, Guanghai; Falconer, Roger A; Lin, Binliang

    2015-11-15

    This paper details a numerical model developed to predict the fate and transport of faecal bacteria in receiving surface waters. The model was first validated by comparing model predicted faecal bacteria concentrations with available field measurements. The model simulations agreed well with the observation data. After calibration, the model was applied to investigate the effects of different parameters, including: tidal processes, river discharges from the upstream boundaries and bacteria inputs from the upstream boundaries, wastewater treatment works (WwTWs), rivers and combined sewer overflows (CSO), on the concentrations of faecal bacteria in the Ribble Estuary. The results revealed that the tide and upstream boundary bacteria inputs were the primary factors controlling the distribution of faecal bacteria. The bacteria inputs from the WwTWs in the model domain were generally found not to have a significant impact on distribution of faecal bacteria in the estuary. PMID:26384864

  15. Immunity to intracellular bacteria

    OpenAIRE

    Stefan H. E. Kaufmann; Follows, George A.; Martin E. Munik

    1992-01-01

    Immunity to intracellular bacteria including Mycobacterium tuberculosis. Mycobacterium leprae, and Listeria monocytogenes depends on specific T cells. Evidence to be described suggests that CD4 (alpha/beta)T cells which interact with each other and with macrophages contribute to acquired resistence against as well as pathogenesis of intracellular bacterial infections.

  16. Immunity to intracellular bacteria

    Directory of Open Access Journals (Sweden)

    Stefan H. E. Kaufmann

    1992-01-01

    Full Text Available Immunity to intracellular bacteria including Mycobacterium tuberculosis. Mycobacterium leprae, and Listeria monocytogenes depends on specific T cells. Evidence to be described suggests that CD4 (alpha/betaT cells which interact with each other and with macrophages contribute to acquired resistence against as well as pathogenesis of intracellular bacterial infections.

  17. Can bacteria save the planet?

    OpenAIRE

    Hunter, Philip

    2010-01-01

    Bacteria might just hold the key to preserving the environment for our great grandchildren. Philip Hunter explores some of the novel ways in which systems biology and biotechnology are harnessing bacteria to produce renewable energy and clean up pollution.

  18. Cable Bacteria in Freshwater Sediments

    OpenAIRE

    Risgaard-Petersen, Nils; Kristiansen, Michael; Frederiksen, Rasmus B.; Dittmer, Anders Lindequist; Bjerg, Jesper Tataru; Trojan, Daniela; Schreiber, Lars; Damgaard, Lars Riis; Schramm, Andreas; Nielsen, Lars Peter

    2015-01-01

    In marine sediments cathodic oxygen reduction at the sediment surface can be coupled to anodic sulfide oxidation in deeper anoxic layers through electrical currents mediated by filamentous, multicellular bacteria of the Desulfobulbaceae family, the so-called cable bacteria. Until now, cable bacteria have only been reported from marine environments. In this study, we demonstrate that cable bacteria also occur in freshwater sediments. In a first step, homogenized sediment collected from the fre...

  19. Manufacture of Probiotic Bacteria

    Science.gov (United States)

    Muller, J. A.; Ross, R. P.; Fitzgerald, G. F.; Stanton, C.

    Lactic acid bacteria (LAB) have been used for many years as natural biopreservatives in fermented foods. A small group of LAB are also believed to have beneficial health effects on the host, so called probiotic bacteria. Probiotics have emerged from the niche industry from Asia into European and American markets. Functional foods are one of the fastest growing markets today, with estimated growth to 20 billion dollars worldwide by 2010 (GIA, 2008). The increasing demand for probiotics and the new food markets where probiotics are introduced, challenges the industry to produce high quantities of probiotic cultures in a viable and stable form. Dried concentrated probiotic cultures are the most convenient form for incorporation into functional foods, given the ease of storage, handling and transport, especially for shelf-stable functional products. This chapter will discuss various aspects of the challenges associated with the manufacturing of probiotic cultures.

  20. Exopolysaccharides from Marine Bacteria

    Institute of Scientific and Technical Information of China (English)

    CHI Zhenming; FANG Yan

    2005-01-01

    Microbial polysaccharides represent a class of important products of growing interest for many sectors of industry. In recent years, there has been a growing interest in isolating new exopolysaccharides (EPSs)-producing bacteria from marine environments, particularly from various extreme marine environments. Many new marine microbial EPSs with novel chemical compositions, properties and structures have been found to have potential applications in fields such as adhesives,textiles, pharmaceuticals and medicine for anti-cancer, food additives, oil recovery and metal removal in mining and industrial waste treatments, etc This paper gives a brief summary of the information about the EPSs produced by marine bacteria,including their chemical compositions, properties and structures, together with their potential applications in industry.

  1. Bacteria, Phages and Septicemia

    OpenAIRE

    Gaidelytė, Aušra; Vaara, Martti; Bamford, Dennis H.

    2007-01-01

    The use of phages is an attractive option to battle antibiotic resistant bacteria in certain bacterial infections, but the role of phage ecology in bacterial infections is obscure. Here we surveyed the phage ecology in septicemia, the most severe type of bacterial infection. We observed that the majority of the bacterial isolates from septicemia patients spontaneously secreted phages active against other isolates of the same bacterial strain, but not to the strain causing the disease. Such ph...

  2. Bacteria, food, and cancer

    OpenAIRE

    Rooks, Michelle G.; Garrett, Wendy S.

    2011-01-01

    Gut microbes are essential components of the human organism—helping us metabolize food into energy, produce micronutrients, and shape our immune systems. Having a particular pattern of gut microbes is also increasingly being linked to medical conditions including obesity, inflammatory bowel disease, and diabetes. Recent studies now indicate that our resident intestinal bacteria may also play a critical role in determining one's risk of developing cancer, ranging from protection against cancer...

  3. Lethal Mutagenesis of Bacteria

    OpenAIRE

    Bull, James J; Wilke, Claus O.

    2008-01-01

    Lethal mutagenesis, the killing of a microbial pathogen with a chemical mutagen, is a potential broad-spectrum antiviral treatment. It operates by raising the genomic mutation rate to the point that the deleterious load causes the population to decline. Its use has been limited to RNA viruses because of their high intrinsic mutation rates. Microbes with DNA genomes, which include many viruses and bacteria, have not been considered for this type of treatment because their low intrinsic mutatio...

  4. Bacteria are not Lamarckian

    OpenAIRE

    Danchin, Antoine

    2007-01-01

    Instructive influence of environment on heredity has been a debated topic for centuries. Darwin's identification of natural selection coupled to chance variation as the driving force for evolution, against a formal interpretation proposed by Lamarck, convinced most scientists that environment does not specifically instruct evolution in an oriented direction. This is true for multicellular organisms. In contrast, bacteria were long thought of as prone to receive oriented influences from their ...

  5. Denitrification by extremely halophilic bacteria

    Science.gov (United States)

    Hochstein, L. I.; Tomlinson, G. A.

    1985-01-01

    Extremely halophilic bacteria were isolated from widely separated sites by anaerobic enrichment in the presence of nitrate. The anaerobic growth of several of these isolates was accompanied by the production of nitrite, nitrous oxide, and dinitrogen. These results are a direct confirmation of the existence of extremely halophilic denitrifying bacteria, and suggest that such bacteria may be common inhabitants of hypersaline environments.

  6. Bacteria counting method based on polyaniline/bacteria thin film.

    Science.gov (United States)

    Zhihua, Li; Xuetao, Hu; Jiyong, Shi; Xiaobo, Zou; Xiaowei, Huang; Xucheng, Zhou; Tahir, Haroon Elrasheid; Holmes, Mel; Povey, Malcolm

    2016-07-15

    A simple and rapid bacteria counting method based on polyaniline (PANI)/bacteria thin film was proposed. Since the negative effects of immobilized bacteria on the deposition of PANI on glass carbon electrode (GCE), PANI/bacteria thin films containing decreased amount of PANI would be obtained when increasing the bacteria concentration. The prepared PANI/bacteria film was characterized with cyclic voltammetry (CV) technique to provide quantitative index for the determination of the bacteria count, and electrochemical impedance spectroscopy (EIS) was also performed to further investigate the difference in the PANI/bacteria films. Good linear relationship of the peak currents of the CVs and the log total count of bacteria (Bacillus subtilis) could be established using the equation Y=-30.413X+272.560 (R(2)=0.982) over the range of 5.3×10(4) to 5.3×10(8)CFUmL(-1), which also showed acceptable stability, reproducibility and switchable ability. The proposed method was feasible for simple and rapid counting of bacteria. PMID:26921555

  7. Prediction of piperacillin-tazobactam susceptibility among Enterobacteriaceae, Pseudomonas aeruginosa, and other bacteria using ticarcillin-clavulanic acid, ceftazidime, and other broad-spectrum antimicrobial in vitro test results.

    Science.gov (United States)

    Jones, R N; Sutton, L D; Cantrell, H F; Lankford, R B

    1994-11-01

    The ability of various in vitro beta-lactam susceptibility test results to predict the susceptibility of piperacillin-tazobactam (a new beta-lactam-beta-lactamase inhibitor combination) was assessed using more than 46,000 recent clinical isolates. The organisms were tested by reference-quality National Committee for Clinical Laboratory Standards (NCCLS) broth microdilution procedures and interpreted by the currently published NCCLS criteria. The recommended antimicrobial tests that would accurately predict the piperacillin-tazobactam in vitro efficacy had an overall very major, false-susceptible rate of only 0.6% (sulbactam (1.8%) results; for Haemophilus influenzae and Moraxella catarrhalis use cefotaxime or cefuroxime or ceftriaxone (1.5%); and for staphylococci use oxacillin by NCCLS recommendations. When the piperacillin-tazobactam testing reagents become available, the direct testing of this combination should be applied to relevant clinical isolates. The piperacillin-tazobactam break points should be reassessed as indicated by the cited minimum inhibitory concentration population analysis to improve predictive accuracy; H. influenzae susceptibility modified to < or = 2/4 micrograms/ml and Enterococcus species susceptibility tested at < or = 16/4 micrograms. PMID:7874881

  8. Beneficial bacteria inhibit cachexia.

    Science.gov (United States)

    Varian, Bernard J; Goureshetti, Sravya; Poutahidis, Theofilos; Lakritz, Jessica R; Levkovich, Tatiana; Kwok, Caitlin; Teliousis, Konstantinos; Ibrahim, Yassin M; Mirabal, Sheyla; Erdman, Susan E

    2016-03-15

    Muscle wasting, known as cachexia, is a debilitating condition associated with chronic inflammation such as during cancer. Beneficial microbes have been shown to optimize systemic inflammatory tone during good health; however, interactions between microbes and host immunity in the context of cachexia are incompletely understood. Here we use mouse models to test roles for bacteria in muscle wasting syndromes. We find that feeding of a human commensal microbe, Lactobacillus reuteri, to mice is sufficient to lower systemic indices of inflammation and inhibit cachexia. Further, the microbial muscle-building phenomenon extends to normal aging as wild type animals exhibited increased growth hormone levels and up-regulation of transcription factor Forkhead Box N1 [FoxN1] associated with thymus gland retention and longevity. Interestingly, mice with a defective FoxN1 gene (athymic nude) fail to inhibit sarcopenia after L. reuteri therapy, indicating a FoxN1-mediated mechanism. In conclusion, symbiotic bacteria may serve to stimulate FoxN1 and thymic functions that regulate inflammation, offering possible alternatives for cachexia prevention and novel insights into roles for microbiota in mammalian ontogeny and phylogeny. PMID:26933816

  9. Lactic Acid Bacteria

    Directory of Open Access Journals (Sweden)

    ToddKlaenhammer

    2013-04-01

    Full Text Available Lactic acid bacteria (LAB are a diverse group of Gram-positive bacteria found in a vast array of environments including dairy products and the human gastrointestinal tract. In both niches, surface proteins play a crucial role in mediating interactions with the surrounding environment. The sortase enzyme is responsible for covalently coupling a subset of surface dependent proteins (SDPs to the cell wall of Gram-positive organisms through recognition of a conserved C-terminal LPXTG motif. Genomic sequencing of LAB and annotation has allowed for the identification of sortase and SDPs. Historically, sortase and SDPs were predominately investigated for their role in mediating pathogenesis. Identification of these proteins in LAB has shed light on their important roles in mediating nutrient acquisition through proteinase P as well as positive probiotic attributes including adhesion, mucus barrier function, and immune signaling. Furthermore, sortase expression signals in LAB have been exploited as a means to develop oral vaccines targeted to the gastrointestinal tract. In this review, we examine the collection of studies which evaluate sortase and SDPs in select species of dairy associated and health promoting LAB.

  10. Cable Bacteria in Freshwater Sediments

    DEFF Research Database (Denmark)

    Risgaard-Petersen, Nils; Kristiansen, Michael; Frederiksen, Rasmus;

    2015-01-01

    In marine sediments cathodic oxygen reduction at the sediment surface can be coupled to anodic sulfide oxidation in deeper anoxic layers through electrical currents mediated by filamentous, multicellular bacteria of the Desulfobulbaceae family, the so-called cable bacteria. Until now, cable...... bacteria have only been reported from marine environments. In this study, we demonstrate that cable bacteria also occur in freshwater sediments. In a first step, homogenized sediment collected from the freshwater stream Giber Å, Denmark, was incubated in the laboratory. After 2 weeks, pH signatures and...... marine cable bacteria, with the genus Desulfobulbus as the closest cultured lineage. The results of the present study indicate that electric currents mediated by cable bacteria could be important for the biogeochemistry in many more environments than anticipated thus far and suggest a common evolutionary...

  11. Immunomodulatory properties of probiotic bacteria

    DEFF Research Database (Denmark)

    Fink, Lisbeth Nielsen

    2007-01-01

    Certain lactic acid bacteria (LAB) are part of the commensal intestinal flora and considered beneficial for health, as they compete with pathogens for adhesion sites in the intestine and ferment otherwise indigestible compounds. Another important property of these so-called probiotic bacteria is...... cytokines when stimulated with bacteria, and the cytokine pattern induced by specific bacteria resembled the pattern induced in MoDC, except for TNF-alpha and IL-6, which were induced in response to different bacteria in blood DC/monocytes and monocyte-derived DC. Autologous NK cells produced IFN-gamma when...... cultured with blood DC, monocytes and monocyte-derived DC and IL-12-inducing bacteria, whereas only DC induced IFN-gamma production in allogeneic T cells. In vitro-generated DC is a commonly used model of tissue DC, but they differ in certain aspects from intestinal DC, which are in direct contact with the...

  12. Interactions between Diatoms and Bacteria

    OpenAIRE

    Amin, Shady A.; Parker, Micaela S.; Armbrust, E. Virginia

    2012-01-01

    Summary: Diatoms and bacteria have cooccurred in common habitats for hundreds of millions of years, thus fostering specific associations and interactions with global biogeochemical consequences. Diatoms are responsible for one-fifth of the photosynthesis on Earth, while bacteria remineralize a large portion of this fixed carbon in the oceans. Through their coexistence, diatoms and bacteria cycle nutrients between oxidized and reduced states, impacting bioavailability and ultimately feeding hi...

  13. Radiation-resistant asporogenic bacteria

    International Nuclear Information System (INIS)

    This paper reports the biological and ecological examinations on the radiation-resistant asporogenic bacteria (mainly concerning Micrococcus radiodurans). Radiation-resistant asporogenic bacteria were isolated from the irradiated areas of the natural world as well as from the general areas and from the Rn waters in the Misasa hot spring. The acquiring of the tolerance to radiation in bacteria was also examined. In addition, the future problems of microbiological treatment with irradiation were mentioned. (Tsukamoto, Y.)

  14. Bacteria, phages and septicemia.

    Directory of Open Access Journals (Sweden)

    Ausra Gaidelyte

    Full Text Available The use of phages is an attractive option to battle antibiotic resistant bacteria in certain bacterial infections, but the role of phage ecology in bacterial infections is obscure. Here we surveyed the phage ecology in septicemia, the most severe type of bacterial infection. We observed that the majority of the bacterial isolates from septicemia patients spontaneously secreted phages active against other isolates of the same bacterial strain, but not to the strain causing the disease. Such phages were also detected in the initial blood cultures, indicating that phages are circulating in the blood at the onset of sepsis. The fact that most of the septicemic bacterial isolates carry functional prophages suggests an active role of phages in bacterial infections. Apparently, prophages present in sepsis-causing bacterial clones play a role in clonal selection during bacterial invasion.

  15. Bacteriophages of methanotrophic bacteria

    Energy Technology Data Exchange (ETDEWEB)

    Tyutikow, F.M. (All-Union Research Inst. for Genetics and Selection of Industrial Microorganisms, Moscow, USSR); Bespalova, I.A.; Rebentish, B.A.; Aleksandrushkina, N.N.; Krivisky, A.S.

    1980-10-01

    Bacteriophages of methanotrophic bacteria have been found in 16 out of 88 studied samples (underground waters, pond water, soil, gas and oil installation waters, fermentor cultural fluids, bacterial paste, and rumen of cattle) taken in different geographic zones of the Soviet Union. Altogether, 23 phage strains were isolated. By fine structure, the phages were divided into two types (with very short or long noncontractile tails); by host range and serological properties, they fell into three types. All phages had guanine- and cytosine-rich double-stranded deoxyribonucleic acid consisting of common nitrogen bases. By all of the above-mentioned properties, all phages within each of the groups were completely identical to one another, but differed from phages of other groups.

  16. Characterization and Structure Prediction of Partial Length Protein Sequences of pcoA, pcoR and chrB Genes from Heavy Metal Resistant Bacteria from the Klip River, South Africa

    Directory of Open Access Journals (Sweden)

    Patience Chihomvu

    2015-04-01

    Full Text Available The Klip River has suffered from severe anthropogenic effects from industrial activities such as mining. Long-term exposure to heavy metal pollution has led to the development of heavy metal resistant strains of Pseudomonas sp. KR23, Lysinibacillus sp. KR25, and E. coli KR29. The objectives of this study were to characterize the genetics of copper and chromate resistance of the isolates. Copper and chromate resistance determinants were cloned and sequenced. Open reading frames (ORFs related to the genes CopA and CopR were identified in E. coli KR29, PcoA in Lysinibacillus sp. KR25 and none related to chromate resistance were detected. The 3D-models predicted by I-TASSER disclose that the PcoA proteins consist of β-sheets, which form a part of the cupredoxin domain of the CopA copper resistance family of genes. The model for PcoR_29 revealed the presence of a helix turn helix; this forms part of a DNA binding protein, which is part of a heavy metal transcriptional regulator. The bacterial strains were cured using ethidium bromide. The genes encoding for heavy metal resistance and antibiotic resistance were found to be located on the chromosome for both Pseudomonas sp. (KR23 and E. coli (KR29. For Lysinibacillus (KR25 the heavy metal resistance determinants are suspected to be located on a mobile genetic element, which was not detected using gel electrophoresis.

  17. Airborne bacteria in the atmosphere: Presence, purpose, and potential

    Science.gov (United States)

    Smets, Wenke; Moretti, Serena; Denys, Siegfried; Lebeer, Sarah

    2016-08-01

    Numerous recent studies have highlighted that the types of bacteria present in the atmosphere often show predictable patterns across space and time. These patterns can be driven by differences in bacterial sources of the atmosphere and a wide range of environmental factors, including UV intensity, precipitation events, and humidity. The abundance of certain bacterial taxa is of interest, not only for their ability to mediate a range of chemical and physical processes in the atmosphere, such as cloud formation and ice nucleation, but also for their implications -both beneficial and detrimental-for human health. Consequently, the widespread importance of airborne bacteria has stimulated the search for their applicability. Improving air quality, modelling the dispersal of airborne bacteria (e.g. pathogens) and biotechnological purposes are already being explored. Nevertheless, many technological challenges still need to be overcome to fully understand the roles of airborne bacteria in our health and global ecosystems.

  18. Interactions between Cooccurring Lactic Acid Bacteria in Honey Bee Hives.

    Science.gov (United States)

    Rokop, Z P; Horton, M A; Newton, I L G

    2015-10-01

    In contrast to the honey bee gut, which is colonized by a few characteristic bacterial clades, the hive of the honey bee is home to a diverse array of microbes, including many lactic acid bacteria (LAB). In this study, we used culture, combined with sequencing, to sample the LAB communities found across hive environments. Specifically, we sought to use network analysis to identify microbial hubs sharing nearly identical operational taxonomic units, evidence which may indicate cooccurrence of bacteria between environments. In the process, we identified interactions between noncore bacterial members (Fructobacillus and Lactobacillaceae) and honey bee-specific "core" members. Both Fructobacillus and Lactobacillaceae colonize brood cells, bee bread, and nectar and may serve the role of pioneering species, establishing an environment conducive to the inoculation by honey bee core bacteria. Coculture assays showed that these noncore bacterial members promote the growth of honey bee-specific bacterial species. Specifically, Fructobacillus by-products in spent medium supported the growth of the Firm-5 honey bee-specific clade in vitro. Metabolic characterization of Fructobacillus using carbohydrate utilization assays revealed that this strain is capable of utilizing the simple sugars fructose and glucose, as well as the complex plant carbohydrate lignin. We tested Fructobacillus for antibiotic sensitivity and found that this bacterium, which may be important for establishment of the microbiome, is sensitive to the commonly used antibiotic tetracycline. Our results point to the possible significance of "noncore" and environmental microbial community members in the modulation of honey bee microbiome dynamics and suggest that tetracycline use by beekeepers should be limited. PMID:26253685

  19. Mechanistic modeling of biocorrosion caused by biofilms of sulfate reducing bacteria and acid producing bacteria.

    Science.gov (United States)

    Xu, Dake; Li, Yingchao; Gu, Tingyue

    2016-08-01

    Biocorrosion is also known as microbiologically influenced corrosion (MIC). Most anaerobic MIC cases can be classified into two major types. Type I MIC involves non-oxygen oxidants such as sulfate and nitrate that require biocatalysis for their reduction in the cytoplasm of microbes such as sulfate reducing bacteria (SRB) and nitrate reducing bacteria (NRB). This means that the extracellular electrons from the oxidation of metal such as iron must be transported across cell walls into the cytoplasm. Type II MIC involves oxidants such as protons that are secreted by microbes such as acid producing bacteria (APB). The biofilms in this case supply the locally high concentrations of oxidants that are corrosive without biocatalysis. This work describes a mechanistic model that is based on the biocatalytic cathodic sulfate reduction (BCSR) theory. The model utilizes charge transfer and mass transfer concepts to describe the SRB biocorrosion process. The model also includes a mechanism to describe APB attack based on the local acidic pH at a pit bottom. A pitting prediction software package has been created based on the mechanisms. It predicts long-term pitting rates and worst-case scenarios after calibration using SRB short-term pit depth data. Various parameters can be investigated through computer simulation. PMID:27071053

  20. Dynamics of swimming bacteria at complex interfaces

    CERN Document Server

    Lopez, Diego

    2014-01-01

    Flagellated bacteria exploiting helical propulsion are known to swim along circular trajectories near surfaces. Fluid dynamics predicts this circular motion to be clockwise (CW) above a rigid surface (when viewed from inside the fluid) and counter-clockwise (CCW) below a free surface. Recent experimental investigations showed that complex physicochemical processes at the nearby surface could lead to a change in the direction of rotation, both at solid surfaces absorbing slip-inducing polymers and interfaces covered with surfactants. Motivated by these results, we use a far-field hydrodynamic model to predict the kinematics of swimming near three types of interfaces: clean fluid-fluid interface, slipping rigid wall, and a fluid interface covered by incompressible surfactants. Representing the helical swimmer by a superposition of hydrodynamic singularities, we first show that in all cases the surfaces reorient the swimmer parallel to the surface and attract it, both of which are a consequence of the Stokes dip...

  1. Beer spoilage bacteria and hop resistance

    NARCIS (Netherlands)

    Sakamoto, K; Konings, WN

    2003-01-01

    For brewing industry, beer spoilage bacteria have been problematic for centuries. They include some lactic acid bacteria such as Lactobacillus brevis, Lactobacillus lindneri and Pediococcus damnosus, and some Gram-negative bacteria such as Pectinatus cerevisiiphilus, Pectinatus frisingensis and Mega

  2. Screening of aspartate dehydrogenase of bacteria

    OpenAIRE

    Fukuda, Shoko; Okamura, Tokumitsu; Yasumasa, Izumi; Takeno, Tomomi; Ohsugi, Masahiro

    2001-01-01

    Fifty-two strains of bacteria cultured under aerobic conditions and 12 strains of bacteria cultured under anaerobic conditions demonstrated high activity staining of aspartate dehydrogenase with NAD^+. Four strains of bacteria cultured under aerobic conditions and 7 strains of bacteria cultured under anaerobic conditions demonstrated high activity staining of aspartate dehydrogenase with NADP^+. Seven strains of bacteria cultured under aerobic conditions and 4 strains of bacteria cultured und...

  3. Sewage-pollution indicator bacteria

    Digital Repository Service at National Institute of Oceanography (India)

    Ramaiah, N.; Rodrigues, V.; Alwares, E.; Rodrigues, C.; Baksh, R.; Jayan, S.; Mohandass, C.

    increased. It is only recently that sewage from major cities like Panaji, Goa, India is treated before disposing into the estuary. It is therefore of interest to determine what the levels of pollution indicator bacteria due to sewage disposal...

  4. Thymidine kinase diversity in bacteria

    DEFF Research Database (Denmark)

    Sandrini, Michael; Clausen, A.R.; Munch-Petersen, B.;

    2006-01-01

    Thymidine kinases (TKs) appear to be almost ubiquitous and are found in nearly all prokaryotes, eukaryotes, and several viruses. They are the key enzymes in thymidine salvage and activation of several anti-cancer and antiviral drugs. We show that bacterial TKs can be subdivided into 2 groups. The...... TKs from Gram-positive bacteria are more closely related to the eukaryotic TK1 enzymes than are TKs from Gram-negative bacteria....

  5. LACTIC ACID BACTERIA: PROBIOTIC APPLICATIONS

    OpenAIRE

    NEENA GARG

    2015-01-01

    Lactic acid bacteria (LAB) is a heterotrophic Gram-positive bacteria which under goes lactic acid fermentations and leads to production of lactic acid as an end product. LAB includes Lactobacillus, Leuconostoc, Pediococcus, Lactococcus and Streptococcus which are grouped together in the family lactobacillaceae. LAB shows numerous antimicrobial activities due to production of antibacterial and antifungal compounds such as organic acids, bacteriocins, diacetyl, hydrogen peroxide and reutrin. LA...

  6. Adherention ability of intestinal bacteria

    OpenAIRE

    Morgensternová, Tereza

    2014-01-01

    Probiotics are live microorganisms that provide positive health benefits. Bacteria of the genus Bifidobacterium belong to this group. These bacteria have to meet a number of criteria so that they could be considered for probiotic. These include the ability to survive, grow, and be metabolically active in the gastrointestinal tract of the recipient. Probiotics protect the intestinal mucus from the adhesion of pathogenic organisms. The aim of this thesis was to test the ability of different ...

  7. Thymidine kinase diversity in bacteria

    DEFF Research Database (Denmark)

    Sandrini, Michael; Clausen, A.R.; Munch-Petersen, B.; Piskur, Jure

    Thymidine kinases (TKs) appear to be almost ubiquitous and are found in nearly all prokaryotes, eukaryotes, and several viruses. They are the key enzymes in thymidine salvage and activation of several anti-cancer and antiviral drugs. We show that bacterial TKs can be subdivided into 2 groups. The...... TKs from Gram-positive bacteria are more closely related to the eukaryotic TK1 enzymes than are TKs from Gram-negative bacteria....

  8. A comparative effect of 3 disinfectants on heterotrophic bacteria, iron bacteria and sulfate-reducing bacteria

    Institute of Scientific and Technical Information of China (English)

    2006-01-01

    The disinfection effect of chlorine dioxide, chlorine and their mixture on heterotrophic bacteria, iron bacteria and sulfate-reducing bacteria in circulating cooling water was studied. The results of the test indicated that high purity chlorine dioxide was the most effective biocide in the 3 disinfectants, and with a dosage of 0.5mg/L, chlorine dioxide could obtain perfect effect. High purity chloride dioxide could have the excellent effect with the pH value of 6 to 10, and could keep it within 72 h. Chlorine and their mixture couldn't reach the effect of chlorine dioxide.

  9. Cable Bacteria in Freshwater Sediments.

    Science.gov (United States)

    Risgaard-Petersen, Nils; Kristiansen, Michael; Frederiksen, Rasmus B; Dittmer, Anders Lindequist; Bjerg, Jesper Tataru; Trojan, Daniela; Schreiber, Lars; Damgaard, Lars Riis; Schramm, Andreas; Nielsen, Lars Peter

    2015-09-01

    In marine sediments cathodic oxygen reduction at the sediment surface can be coupled to anodic sulfide oxidation in deeper anoxic layers through electrical currents mediated by filamentous, multicellular bacteria of the Desulfobulbaceae family, the so-called cable bacteria. Until now, cable bacteria have only been reported from marine environments. In this study, we demonstrate that cable bacteria also occur in freshwater sediments. In a first step, homogenized sediment collected from the freshwater stream Giber Å, Denmark, was incubated in the laboratory. After 2 weeks, pH signatures and electric fields indicated electron transfer between vertically separated anodic and cathodic half-reactions. Fluorescence in situ hybridization revealed the presence of Desulfobulbaceae filaments. In addition, in situ measurements of oxygen, pH, and electric potential distributions in the waterlogged banks of Giber Å demonstrated the presence of distant electric redox coupling in naturally occurring freshwater sediment. At the same site, filamentous Desulfobulbaceae with cable bacterium morphology were found to be present. Their 16S rRNA gene sequence placed them as a distinct sister group to the known marine cable bacteria, with the genus Desulfobulbus as the closest cultured lineage. The results of the present study indicate that electric currents mediated by cable bacteria could be important for the biogeochemistry in many more environments than anticipated thus far and suggest a common evolutionary origin of the cable phenotype within Desulfobulbaceae with subsequent diversification into a freshwater and a marine lineage. PMID:26116678

  10. Bioreporter bacteria for landmine detection

    Energy Technology Data Exchange (ETDEWEB)

    Burlage, R.S. [Oak Ridge National Lab., TN (United States); Youngblood, T. [Frisby Technologies, Aiken, SC (United States); Lamothe, D. [American Technologies, Inc., Huntsville, AL (United States). Ordnance/Explosives Environmental Services Div.

    1998-04-01

    Landmines (and other UXO) gradually leak explosive chemicals into the soil at significant concentrations. Bacteria, which have adapted to scavenge low concentrations of nutrients, can detect these explosive chemicals. Uptake of these chemicals results in the triggering of specific bacterial genes. The authors have created genetically recombinant bioreporter bacteria that detect small concentrations of energetic chemicals. These bacteria are genetically engineered to produce a bioluminescent signal when they contact specific explosives. A gene for a brightly fluorescent compound can be substituted for increased sensitivity. By finding the fluorescent bacteria, you find the landmine. Detection might be accomplished using stand-off illumination of the minefield and GPS technology, which would result in greatly reduced risk to the deminers. Bioreporter technology has been proven at the laboratory scale, and will be tested under field conditions in the near future. They have created a bacterial strain that detects sub-micromolar concentrations of o- and p-nitrotoluene. Related bacterial strains were produced using standard laboratory protocols, and bioreporters of dinitrotoluene and trinitrotoluene were produced, screening for activity with the explosive compounds. Response time is dependent on the growth rate of the bacteria. Although frill signal production may require several hours, the bacteria can be applied over vast areas and scanned quickly, producing an equivalent detection speed that is very fast. This technology may be applicable to other needs, such as locating buried explosives at military and ordnance/explosive manufacturing facilities.

  11. Suicidal genetic elements and their use in biological containment of bacteria

    DEFF Research Database (Denmark)

    Molin, Søren; Boe, Lars; Jensen, Lars Bogø;

    1993-01-01

    . The possibilities of reducing such potential risks and increasing the predictability of the organisms are discussed for genetically engineered bacteria. Different approaches towards designing disabled strains without seriously reducing their beneficial effects are presented. Principally two types of strain design...

  12. Isolation and Identification of Concrete Environment Bacteria

    Science.gov (United States)

    Irwan, J. M.; Anneza, L. H.; Othman, N.; Husnul, T.; Alshalif, A. F.

    2016-07-01

    This paper presents the isolation and molecular method for bacteria identification through PCR and DNA sequencing. Identification of the bacteria species is required in order to fully utilize the bacterium capability for precipitation of calcium carbonate in concrete. This process is to enable the addition of suitable catalyst according to the bacterium enzymatic pathway that is known through the bacteria species used. The objective of this study is to isolate, enriched and identify the bacteria species. The bacteria in this study was isolated from fresh urine and acid mine drainage water, Kota Tinggi, Johor. Enrichment of the isolated bacteria was conducted to ensure the bacteria survivability in concrete. The identification of bacteria species was done through polymerase chain reaction (PCR) and rRDNA sequencing. The isolation and enrichment of the bacteria was done successfully. Whereas, the results for bacteria identification showed that the isolated bacteria strains are Bacillus sp and Enterococus faecalis.

  13. IDENTIFICATION OF BACTERIA IN LATEX PAINTS

    Directory of Open Access Journals (Sweden)

    Rojas, J.

    2008-01-01

    Full Text Available The bacteria are prokaryote organisms with a high capacity to colonize many types of habits. This research was developed with the object to identify extremophiles bacteria presents in latex paint. The bacteria were cultivated in culture mediums TSA, Blood Agar, Mc Conkey and finally the biochemical proof API-NF® for bacteria's isolation and identification, respectively. Characterization showed bacterial profile of Pasteurella sp. Hypothesis that could be found extremophiles bacteria in latex paint were demonstrated.

  14. Electron transport chains of lactic acid bacteria

    OpenAIRE

    Brooijmans, R.J.W.

    2008-01-01

    Lactic acid bacteria are generally considered facultative anaerobic obligate fermentative bacteria. They are unable to synthesize heme. Some lactic acid bacteria are unable to form menaquinone as well. Both these components are cofactors of respiratory (electron transport) chains of prokaryotic bacteria. Lactococcus lactis, and several other lactic acid bacteria, however respond to the addition of heme in aerobic growth conditions. This response includes increased biomass and robustness. In t...

  15. Chitin Degradation In Marine Bacteria

    DEFF Research Database (Denmark)

    Paulsen, Sara; Machado, Henrique; Gram, Lone

    2015-01-01

    Introduction: Chitin is the most abundant polymer in the marine environment and the second most abundant in nature. Chitin does not accumulate on the ocean floor, because of microbial breakdown. Chitin degrading bacteria could have potential in the utilization of chitin as a renewable carbon and...... nitrogen source in the fermentation industry.Methods: Here, whole genome sequenced marine bacteria were screened for chitin degradation using phenotypic and in silico analyses.Results: The in silico analyses revealed the presence of three to nine chitinases in each strain, however the number of chitinases...... chitin regulatory system.Conclusions: This study has provided insight into the ecology of chitin degradation in marine bacteria. It also served as a basis for choosing a more efficient chitin degrading production strain e.g. for the use of chitin waste for large-scale fermentations....

  16. Methylotrophic bacteria in sustainable agriculture.

    Science.gov (United States)

    Kumar, Manish; Tomar, Rajesh Singh; Lade, Harshad; Paul, Diby

    2016-07-01

    Excessive use of chemical fertilizers to increase production from available land has resulted in deterioration of soil quality. To prevent further soil deterioration, the use of methylotrophic bacteria that have the ability to colonize different habitats, including soil, sediment, water, and both epiphytes and endophytes as host plants, has been suggested for sustainable agriculture. Methylotrophic bacteria are known to play a significant role in the biogeochemical cycle in soil ecosystems, ultimately fortifying plants and sustaining agriculture. Methylotrophs also improve air quality by using volatile organic compounds such as dichloromethane, formaldehyde, methanol, and formic acid. Additionally, methylotrophs are involved in phosphorous, nitrogen, and carbon cycling and can help reduce global warming. In this review, different aspects of the interaction between methylotrophs and host plants are discussed, including the role of methylotrophs in phosphorus acquisition, nitrogen fixation, phytohormone production, iron chelation, and plant growth promotion, and co-inoculation of these bacteria as biofertilizers for viable agriculture practices. PMID:27263015

  17. Parotitis due to anaerobic bacteria.

    Science.gov (United States)

    Matlow, A; Korentager, R; Keystone, E; Bohnen, J

    1988-01-01

    Although Staphylococcus aureus remains the pathogen most commonly implicated in acute suppurative parotitis, the pathogenic role of gram-negative facultative anaerobic bacteria and strict anaerobic organisms in this disease is becoming increasingly recognized. This report describes a case of parotitis due to Bacteroides disiens in an elderly woman with Sjögren's syndrome. Literature reports on seven additional cases of suppurative parotitis due to anaerobic bacteria are reviewed. Initial therapy of acute suppurative parotitis should include coverage for S. aureus and, in a very ill patient, coverage of gram-negative facultative organisms with antibiotics such as cloxacillin and an aminoglycoside. A failure to respond clinically to such a regimen or isolation of anaerobic bacteria should lead to the consideration of the addition of clindamycin or penicillin. PMID:3287567

  18. 基于细菌觅食优化广义回归神经网络的煤层气含量预测%The prediction of the coalbed methane content based on bacteria foraging optimizing generalized regression neural network

    Institute of Scientific and Technical Information of China (English)

    张瑞; 陈刚; 潘保芝; 蒋必辞; 杨雪; 刘丹

    2016-01-01

    为提高煤层气含量预测的能力,提出了一种基于细菌觅食优化广义回归神经网络( BFA⁃GRNN)的煤层气含量预测算法。利用已有煤层资料,通过神经网络建立回归模型,采用细菌觅食算法对模型参数进行优化,减少人为因素在网络训练中的影响。据此算法,在聚类分析及灰色关联分析的基础上,选取密度等共7个影响因素,建立煤层气含量预测的BFA⁃GRNN模型,通过实例分析验证该方法的可行性。结果表明:BFA⁃GRNN模型预测值与实测值之间相对误差小于6%,采用该模型预测煤层含气量具有较好的应用前景。%Coalbed methane is an important part of the natural gas energy, and determination of coal seam gas content is the key to the study of exploration and development of coal seam. In order to improve the capability of coal bed gas content prediction, this paper puts forward a kind of bacteria foraging optimization algorithm and generalized regression neural network ( BFA⁃GRNN) of the coalbed gas content prediction algorithm. Well logging data and core data of coal seam are used by neural network to establish regression model, bacterial foraging algorithm is used to optimize the model parameters, and artificial factor influences on determining the network struc⁃ture and the process of spreading factor are reduced. According to this algorithm and on the basis of clustering analysis and gray correla⁃tion analysis, seven main factors of coal bed gas content are chosen, which include density, resistivity, ash content etc. BFA⁃GRNN model is set ip by using the data of coal seam, and through the example analysis, the feasibility of this method is verified. The results show that the BFA⁃GRNN model is a true reflection of the nonlinear relationship between the coal seam gas content and the main control factors, and the relative error between predicted values and the measured values is less than 6

  19. Programmed survival of soil bacteria

    DEFF Research Database (Denmark)

    Jensen, Lars Bogø; Molin, Søren; Sternberg, Claus;

    Biological containment systems have been developed for Pseudomonas putida and related soil bacteria. The systems are based on combinations of lethal genes and regulated gene expression. Two types of killing function have been employed: 1) A membrane protein interfering with the membrane potential...

  20. Role of Bacteria in Oncogenesis

    OpenAIRE

    Chang, Alicia H; Parsonnet, Julie

    2010-01-01

    Summary: Although scientific knowledge in viral oncology has exploded in the 20th century, the role of bacteria as mediators of oncogenesis has been less well elucidated. Understanding bacterial carcinogenesis has become increasingly important as a possible means of cancer prevention. This review summarizes clinical, epidemiological, and experimental evidence as well as possible mechanisms of bacterial induction of or protection from malignancy.

  1. Engineering robust lactic acid bacteria

    NARCIS (Netherlands)

    Bron, P.A.; Bokhorst-van de Veen, van H.; Wels, M.; Kleerebezem, M.

    2011-01-01

    For centuries, lactic acid bacteria (LAB) have been industrially exploited as starter cultures in the fermentation of foods and feeds for their spoilage-preventing and flavor-enhancing characteristics. More recently, the health-promoting effects of LAB on the consumer have been widely acknowledged,

  2. Fuzzy species among recombinogenic bacteria

    Directory of Open Access Journals (Sweden)

    Fraser Christophe

    2005-03-01

    Full Text Available Abstract Background It is a matter of ongoing debate whether a universal species concept is possible for bacteria. Indeed, it is not clear whether closely related isolates of bacteria typically form discrete genotypic clusters that can be assigned as species. The most challenging test of whether species can be clearly delineated is provided by analysis of large populations of closely-related, highly recombinogenic, bacteria that colonise the same body site. We have used concatenated sequences of seven house-keeping loci from 770 strains of 11 named Neisseria species, and phylogenetic trees, to investigate whether genotypic clusters can be resolved among these recombinogenic bacteria and, if so, the extent to which they correspond to named species. Results Alleles at individual loci were widely distributed among the named species but this distorting effect of recombination was largely buffered by using concatenated sequences, which resolved clusters corresponding to the three species most numerous in the sample, N. meningitidis, N. lactamica and N. gonorrhoeae. A few isolates arose from the branch that separated N. meningitidis from N. lactamica leading us to describe these species as 'fuzzy'. Conclusion A multilocus approach using large samples of closely related isolates delineates species even in the highly recombinogenic human Neisseria where individual loci are inadequate for the task. This approach should be applied by taxonomists to large samples of other groups of closely-related bacteria, and especially to those where species delineation has historically been difficult, to determine whether genotypic clusters can be delineated, and to guide the definition of species.

  3. LocTree3 prediction of localization

    DEFF Research Database (Denmark)

    Goldberg, T.; Hecht, M.; Hamp, T.;

    2014-01-01

    The prediction of protein sub-cellular localization is an important step toward elucidating protein function. For each query protein sequence, LocTree2 applies machine learning (profile kernel SVM) to predict the native sub-cellular localization in 18 classes for eukaryotes, in six for bacteria and...

  4. Physico-chemical factors and bacteria in fish ponds

    OpenAIRE

    Jun, X.; Xiuzheng, F.; Tongbing, Y.

    2000-01-01

    Analyses of pond water and mud samples show that nitrifying bacteria (including ammonifying bacteria, nitrite bacteria, nitrobacteria and denitrifying bacteria) are in general closely correlated with various physico-chemical factors, ammonifying bacteria are mainly correlated with dissolved oxygen; denitrifying bacteria are inversely correlated with phosphorus; nitrite bacteria are closely correlated with nitrites, nitrobacteria are inversely correlated with ammoniac nitrogen. The nitrifying ...

  5. Smokeless Tobacco May Contain Potentially Harmful Bacteria

    Science.gov (United States)

    ... 160769.html Smokeless Tobacco May Contain Potentially Harmful Bacteria Infections, diarrhea and vomiting are possible consequences, FDA ... products can harbor several species of potentially harmful bacteria, researchers warn. Two types in particular -- Bacillus licheniformis ...

  6. Killer Pigments in Bacteria: An Ecological Nightmare.

    Science.gov (United States)

    Benathen, Isaiah A.; Saccardi, Marion

    2000-01-01

    Describes an alternative to teaching ecology by using bacteria to test competitor survival. Students observe a time-dependent selective killing of other unrelated bacteria by Pseudomonas aeruginosa. (SAH)

  7. Predicting reaerosolization

    Energy Technology Data Exchange (ETDEWEB)

    Daniel, William Brent [Los Alamos National Laboratory; Omberg, Kristin M [Los Alamos National Laboratory

    2010-11-29

    Outdoor studies of the environmental persistence of bacteria have led to many interesting results. It turns out that the initial deposition of bacteria is not the end of the story. We examined both the ongoing daily deposition and aerosolization of bacteria for two weeks following an initial deposition event. Differences between samples collected in a clearing and those collected beneath a forest canopy were also examined. There were two important results: first, bacteria were still moving about in significant quantities after two weeks, though the local environment where they were most prevalent appeared to shift over time; second, we were able to develop a simple mathematical model that could fairly accurately estimate the average daily airborne concentration of bacteria over the duration of the experiment using readily available environmental information. The implication is that deposition patterns are very likely to shift over an extended period of time following a release, possibly quite significantly, but there is hope that we may be able to estimate these changes fairly accurately.

  8. Re-engineering bacteria for ethanol production

    Science.gov (United States)

    Yomano, Lorraine P; York, Sean W; Zhou, Shengde; Shanmugam, Keelnatham; Ingram, Lonnie O

    2014-05-06

    The invention provides recombinant bacteria, which comprise a full complement of heterologous ethanol production genes. Expression of the full complement of heterologous ethanol production genes causes the recombinant bacteria to produce ethanol as the primary fermentation product when grown in mineral salts medium, without the addition of complex nutrients. Methods for producing the recombinant bacteria and methods for producing ethanol using the recombinant bacteria are also disclosed.

  9. IDENTIFICATION OF BACTERIA IN LATEX PAINTS

    OpenAIRE

    Rojas, J

    2008-01-01

    The bacteria are prokaryote organisms with a high capacity to colonize many types of habits. This research was developed with the object to identify extremophiles bacteria presents in latex paint. The bacteria were cultivated in culture mediums TSA, Blood Agar, Mc Conkey and finally the biochemical proof API-NF® for bacteria's isolation and identification, respectively. Characterization showed bacterial profile of Pasteurella sp. Hypothesis that could be found extremophiles bac...

  10. Genetics of Lactic Acid Bacteria

    Science.gov (United States)

    Zagorec, Monique; Anba-Mondoloni, Jamila; Coq, Anne-Marie Crutz-Le; Champomier-Vergès, Marie-Christine

    Many meat (or fish) products, obtained by the fermentation of meat originating from various animals by the flora that naturally contaminates it, are part of the human diet since millenaries. Historically, the use of bacteria as starters for the fermentation of meat, to produce dry sausages, was thus performed empirically through the endogenous micro-biota, then, by a volunteer addition of starters, often performed by back-slopping, without knowing precisely the microbial species involved. It is only since about 50 years that well defined bacterial cultures have been used as starters for the fermentation of dry sausages. Nowadays, the indigenous micro-biota of fermented meat products is well identified, and the literature is rich of reports on the identification of lactic acid bacteria (LAB) present in many traditional fermented products from various geographical origin, obtained without the addition of commercial starters (See Talon, Leroy, & Lebert, 2007, and references therein).

  11. Aggregation Patterns in Stressed Bacteria

    CERN Document Server

    Tsimring, L S; Aranson, I S; Ben-Jacob, E; Cohen, I; Shochet, O; Tsimring, Lev; Levine, Herbert; Aranson, Igor; Ben-Jacob, Eshel; Cohen, Inon; Shochet, Ofer

    1995-01-01

    We study the formation of spot patterns seen in a variety of bacterial species when the bacteria are subjected to oxidative stress due to hazardous byproducts of respiration. Our approach consists of coupling the cell density field to a chemoattractant concentration as well as to nutrient and waste fields. The latter serves as a triggering field for emission of chemoattractant. Important elements in the proposed model include the propagation of a front of motile bacteria radially outward form an initial site, a Turing instability of the uniformly dense state and a reduction of motility for cells sufficiently far behind the front. The wide variety of patterns seen in the experiments is explained as being due the variation of the details of the initiation of the chemoattractant emission as well as the transition to a non-motile phase.

  12. LACTIC ACID BACTERIA: PROBIOTIC APPLICATIONS

    Directory of Open Access Journals (Sweden)

    NEENA GARG

    2015-10-01

    Full Text Available Lactic acid bacteria (LAB is a heterotrophic Gram-positive bacteria which under goes lactic acid fermentations and leads to production of lactic acid as an end product. LAB includes Lactobacillus, Leuconostoc, Pediococcus, Lactococcus and Streptococcus which are grouped together in the family lactobacillaceae. LAB shows numerous antimicrobial activities due to production of antibacterial and antifungal compounds such as organic acids, bacteriocins, diacetyl, hydrogen peroxide and reutrin. LAB are used as starter culture, consortium members and bioprotective agents in food industry that improve food quality, safety and shelf life. A variety of probiotic LAB species are available including Lactobacillus acidophilus, L. bulgaricus, L. lactis, L. plantarum, L. rhamnosus, L. reuteri, L. fermentum, Bifidobacterium longum, B. breve, B. bifidum, B. esselnsis, B. lactis, B. infantis that are currently recommended for development of functional food products with health-promoting capacities.

  13. Dissipative Shocks behind Bacteria Gliding

    CERN Document Server

    Virga, Epifanio G

    2014-01-01

    Gliding is a means of locomotion on rigid substrates utilized by a number of bacteria includingmyxobacteria and cyanobacteria. One of the hypotheses advanced to explain this motility mechanism hinges on the role played by the slime filaments continuously extruded from gliding bacteria. This paper solves in full a non-linear mechanical theory that treats as dissipative shocks both the point where the extruded slime filament comes in contact with the substrate, called the filament's foot, and the pore on the bacterium outer surface from where the filament is ejected. We prove that kinematic compatibility for shock propagation requires that the bacterium uniform gliding velocity (relative to the substrate) and the slime ejecting velocity (relative to the bacterium) must be equal, a coincidence that seems to have already been observed.

  14. Box-shaped halophilic bacteria.

    OpenAIRE

    Javor, B; Requadt, C; Stoeckenius, W

    1982-01-01

    Three morphologically similar strains of halophilic, box-shaped procaryotes have been isolated from brines collected in the Sinai, Baja California (Mexico), and southern California (United States). Although the isolates in their morphology resemble Walsby's square bacteria, which are a dominant morphological type in the Red Sea and Baja California brines, they are probably not identical to them. The cells show the general characteristics of extreme halophiles and archaebacteria. They contain ...

  15. Folate Production by Probiotic Bacteria

    OpenAIRE

    Stefano Raimondi; Alberto Amaretti; Maddalena Rossi

    2011-01-01

    Probiotic bacteria, mostly belonging to the genera Lactobacillus and Bifidobacterium, confer a number of health benefits to the host, including vitamin production. With the aim to produce folate-enriched fermented products and/or develop probiotic supplements that accomplish folate biosynthesis in vivo within the colon, bifidobacteria and lactobacilli have been extensively studied for their capability to produce this vitamin. On the basis of physiological studies and genome analysis, wild-typ...

  16. Magnetotactic Bacteria from Extreme Environments

    OpenAIRE

    Lefèvre, Christopher T; Dennis A. Bazylinski

    2013-01-01

    Magnetotactic bacteria (MTB) represent a diverse collection of motile prokaryotes that biomineralize intracellular, membrane-bounded, tens-of-nanometer-sized crystals of a magnetic mineral called magnetosomes. Magnetosome minerals consist of either magnetite (Fe3O4) or greigite (Fe3S4) and cause cells to align along the Earth’s geomagnetic field lines as they swim, a trait called magnetotaxis. MTB are known to mainly inhabit the oxic–anoxic interface (OAI) in water columns or sediments of aqu...

  17. Bacteria interfere with A-actinomycetemcomitans colonization

    OpenAIRE

    Teughels, Wim; Haake, S. Kinder; Sliepen, Isabelle; Pauwels, Martine; Van Eldere, Johan; Cassiman, Jean-Jacques; Quirynen, Marc

    2007-01-01

    It is known that beneficial bacteria can suppress the emergence of pathogenic bacteria, particularly in the gastrointestinal tract. This study examined the potential for a similar suppression of Aggregatibacter (formerly Actinobacillus) actinomycetemcomitans colonization of epithelial cells, due to its potential relevance in periodontal diseases. Seven presumed beneficial bacteria were examined for their ability to interfere, exclude, or displace A. actinomycetemcomitans from epithelial cells...

  18. Laser-Based Identification of Pathogenic Bacteria

    Science.gov (United States)

    Rehse, Steven J.

    2009-01-01

    Bacteria are ubiquitous in our world. From our homes, to our work environment, to our own bodies, bacteria are the omnipresent although often unobserved companions to human life. Physicists are typically untroubled professionally by the presence of these bacteria, as their study usually falls safely outside the realm of our typical domain. In the…

  19. Magnetotactic bacteria at the geomagnetic equator

    International Nuclear Information System (INIS)

    Magnetotatic bacteria are observed in freshwater and marine sediments of Fortaleza, Brazil, situated close to the geomagnetic equator. Both South-seeking and North-seeking bacteria are present in roughly equal numbers in the same samples. This observation is consistent with the hypothesis that the vertical component of the geomagnetic field selects the predominant polarity type among magnetotactic bacteria in natural environments. (Author)

  20. Drosophila lifespan enhancement by exogenous bacteria

    OpenAIRE

    Brummel, Ted; Ching, Alisa; Seroude, Laurent; Simon, Anne F.; Benzer, Seymour

    2004-01-01

    We researched the lifespan of Drosophila under axenic conditions compared with customary procedure. The experiments revealed that the presence of bacteria during the first week of adult life can enhance lifespan, despite unchanged food intake. Later in life, the presence of bacteria can reduce lifespan. Certain long-lived mutants react in different ways, indicating an interplay between bacteria and longevity-enhancing genes.

  1. Low field orientation magnetic separation methods for magnetotactic bacteria

    International Nuclear Information System (INIS)

    range of motility inhibiting ions is such that MTB cannot be envisaged for general wastewater applications. Radionucleide studies were undertaken targeting a niche application where this metal ion restriction would not apply. Liquid scintillation and γ-ray counting measurements indicated that magnetotactic bacteria accumulate high levels of both plutonium and mercury. A number of both static and flow recovery separators for magnetotactic bacteria were developed. Statistical models predicting the behaviour of these separators were compared to measured results. These comparisons highlighted the problems of 'wash off' of accumulated bacteria in separators where flow was present. The most successful of the flow recovery designs - the channel separator - was then tested using a simulated effluent that contained plutonium. The results confirmed both previous radioisotope uptake studies and separator test results. The channel separator design was enhanced by the introduction of wire arrays into the separation chamber. Orientation magnetic separation in these hybrid-type separators was used to accumulate the biomass and the magnetic gradients generated by the wire arrays to retain the bacteria on the separator walls. These separators achieved increases in efficiency of up to 300% compared with the channel separator. In summary, this thesis describes a successful separation process for the recovery of motile MTB. However, to apply this separator approach to the suggested radioisotope application would require successful large scale culturing. (author)

  2. Marine snow, organic solute plumes, and optimal chemosensory behavior of bacteria

    DEFF Research Database (Denmark)

    Kiørboe, Thomas; Jackson, G.A.

    2001-01-01

    Leaking organic solutes form an elongated plume in the wake of a sinking aggregate. These solutes may both be assimilated by suspended bacteria and guide bacteria with chemokinetic swimming behavior toward the aggregate. We used modifications of previously published models of the flow and...... concentration fields around sinking aggregates and of chemokinetic behavior of bacteria to identify the behavior that optimizes aggregate colonization and plume utilization. The optimal solution is governed by physical constraints and is a trade off between a high sensitivity to chemical signals and a long...... signal integration time. For a run-and-tumble swimming behavior, the predicted tumbling frequency is between 1 and 10 s(-1), similar to that reported for marine bacteria. The predicted optimal sensitivity to chemical signals is similar to or greater than that known for Escherichia coli. The optimal...

  3. Climate prediction and predictability

    Science.gov (United States)

    Allen, Myles

    2010-05-01

    Climate prediction is generally accepted to be one of the grand challenges of the Geophysical Sciences. What is less widely acknowledged is that fundamental issues have yet to be resolved concerning the nature of the challenge, even after decades of research in this area. How do we verify or falsify a probabilistic forecast of a singular event such as anthropogenic warming over the 21st century? How do we determine the information content of a climate forecast? What does it mean for a modelling system to be "good enough" to forecast a particular variable? How will we know when models and forecasting systems are "good enough" to provide detailed forecasts of weather at specific locations or, for example, the risks associated with global geo-engineering schemes. This talk will provide an overview of these questions in the light of recent developments in multi-decade climate forecasting, drawing on concepts from information theory, machine learning and statistics. I will draw extensively but not exclusively from the experience of the climateprediction.net project, running multiple versions of climate models on personal computers.

  4. Potential role of bacteria packaging by protozoa in the persistence and transmission of pathogenic bacteria

    OpenAIRE

    Alix M Denoncourt; Paquet, Valérie E.; Charette, Steve J.

    2014-01-01

    Many pathogenic bacteria live in close association with protozoa. These unicellular eukaryotic microorganisms are ubiquitous in various environments. A number of protozoa such as amoebae and ciliates ingest pathogenic bacteria, package them usually in membrane structures, and then release them into the environment. Packaged bacteria are more resistant to various stresses and are more apt to survive than free bacteria. New evidence indicates that protozoa and not bacteria control the packaging...

  5. Quantification of spore-forming bacteria carried by dust particles

    Science.gov (United States)

    Lin, Y.; Cholakian, T.; Gao, W.; Osman, S.; Barengoltz, J.

    An associated risk of space exploration is the potential of forward contamination of extraterrestrial environments with microorganisms originating on Earth Planetary protection seeks to minimize this risk by identifying and reducing sources of contamination during the spacecraft assembly process Bacterial endospores are of particular concern because their tolerance to a variety of hostile conditions which greatly increases their ability to tolerate outer space conditions and reach planetary bodies that may be capable of supporting life Spore-forming bacteria are ubiquitous in nature It is generally believed that airborne bacterial spores are transported into and within spacecraft assembly facilities by dust particles While the diversity and distribution of spore-forming bacteria in these facilities have been studied the level of bioburden by this mode of transport has not been quantified In order to establish a biological contamination transport model for predicting the cross contamination risk during spacecraft assembly and upon landing on Mars we conducted air and surface sampling in indoor outdoor and cleanroom environments to determine the ratio of spore forming bacteria to their dust particle carriers of different sizes The number of spore forming bacteria was determined from various size groups of particles in a given environment Our data also confirms the existence of multiple spores on a single particle and spore clumps This study will help in developing a better bio-contamination transport model which in turn will help in

  6. A study on the radionuclide transport by bacteria in geologic media

    International Nuclear Information System (INIS)

    The purpose of this paper is to provide a methodology to develop a predictive model based on a conceptual three phase system and to investigate the influence of bacteria and their generation on the transport of radionuclide in porous and fractured media. The mass balance for bacteria, substrate and radionuclide were formulated. To illustrate the model simply, an equilibrium condition was assumed to partition the substrate, bacteria and radionuclide concentrations between the solid soil matrix, aqueous phase, rock matrix and bacterial surface. From the numerical calculation of the radionuclide transport in the presence of bacteria, it was found that the growth of bacteria and supplied primary substrate as limiting or stimulating growth factor of bacteria are the most important factors of the radionuclide transport. We also found that, depend on the transport of bacteria the temporal and spatial distribution of radionuclide concentration was significantly altered. The model proposed in this study will improve the evaluation of the role of the bacteria in the transport of radionuclide in groundwater systems. Furthermore, this model would be usefully utilized in analyzing the important role of colloidal particulate on the overall performance of radioactive waste safety

  7. Bacteria and vampirism in cinema.

    Science.gov (United States)

    Castel, O; Bourry, A; Thévenot, S; Burucoa, C

    2013-09-01

    A vampire is a non-dead and non-alive chimerical creature, which, according to various folklores and popular superstitions, feeds on blood of the living to draw vital force. Vampires do not reproduce by copulation, but by bite. Vampirism is thus similar to a contagious disease contracted by intravascular inoculation with a suspected microbial origin. In several vampire films, two real bacteria were staged, better integrated than others in popular imagination: Yersinia pestis and Treponema pallidum. Bacillus vampiris was created for science-fiction. These films are attempts to better define humans through one of their greatest fears: infectious disease. PMID:23916557

  8. Turning Bacteria Suspensions into Superfluids

    Science.gov (United States)

    López, Héctor Matías; Gachelin, Jérémie; Douarche, Carine; Auradou, Harold; Clément, Eric

    2015-07-01

    The rheological response under simple shear of an active suspension of Escherichia coli is determined in a large range of shear rates and concentrations. The effective viscosity and the time scales characterizing the bacterial organization under shear are obtained. In the dilute regime, we bring evidence for a low-shear Newtonian plateau characterized by a shear viscosity decreasing with concentration. In the semidilute regime, for particularly active bacteria, the suspension displays a "superfluidlike" transition where the viscous resistance to shear vanishes, thus showing that, macroscopically, the activity of pusher swimmers organized by shear is able to fully overcome the dissipative effects due to viscous loss.

  9. DMTB: the magnetotactic bacteria database

    Science.gov (United States)

    Pan, Y.; Lin, W.

    2012-12-01

    Magnetotactic bacteria (MTB) are of interest in biogeomagnetism, rock magnetism, microbiology, biomineralization, and advanced magnetic materials because of their ability to synthesize highly ordered intracellular nano-sized magnetic minerals, magnetite or greigite. Great strides for MTB studies have been made in the past few decades. More than 600 articles concerning MTB have been published. These rapidly growing data are stimulating cross disciplinary studies in such field as biogeomagnetism. We have compiled the first online database for MTB, i.e., Database of Magnestotactic Bacteria (DMTB, http://database.biomnsl.com). It contains useful information of 16S rRNA gene sequences, oligonucleotides, and magnetic properties of MTB, and corresponding ecological metadata of sampling sites. The 16S rRNA gene sequences are collected from the GenBank database, while all other data are collected from the scientific literature. Rock magnetic properties for both uncultivated and cultivated MTB species are also included. In the DMTB database, data are accessible through four main interfaces: Site Sort, Phylo Sort, Oligonucleotides, and Magnetic Properties. References in each entry serve as links to specific pages within public databases. The online comprehensive DMTB will provide a very useful data resource for researchers from various disciplines, e.g., microbiology, rock magnetism and paleomagnetism, biogeomagnetism, magnetic material sciences and others.

  10. Sulfur metabolism in phototrophic sulfur bacteria

    DEFF Research Database (Denmark)

    Frigaard, Niels-Ulrik; Dahl, Christiane

    2008-01-01

    Phototrophic sulfur bacteria are characterized by oxidizing various inorganic sulfur compounds for use as electron donors in carbon dioxide fixation during anoxygenic photosynthetic growth. These bacteria are divided into the purple sulfur bacteria (PSB) and the green sulfur bacteria (GSB). They...... utilize various combinations of sulfide, elemental sulfur, and thiosulfate and sometimes also ferrous iron and hydrogen as electron donors. This review focuses on the dissimilatory and assimilatory metabolism of inorganic sulfur compounds in these bacteria and also briefly discusses these metabolisms in...... other types of anoxygenic phototrophic bacteria. The biochemistry and genetics of sulfur compound oxidation in PSB and GSB are described in detail. A variety of enzymes catalyzing sulfur oxidation reactions have been isolated from GSB and PSB (especially Allochromatium vinosum, a representative of the...

  11. Transformation of gram positive bacteria by sonoporation

    Science.gov (United States)

    Yang, Yunfeng; Li, Yongchao

    2014-03-11

    The present invention provides a sonoporation-based method that can be universally applied for delivery of compounds into Gram positive bacteria. Gram positive bacteria which can be transformed by sonoporation include, for example, Bacillus, Streptococcus, Acetobacterium, and Clostridium. Compounds which can be delivered into Gram positive bacteria via sonoporation include nucleic acids (DNA or RNA), proteins, lipids, carbohydrates, viruses, small organic and inorganic molecules, and nano-particles.

  12. Mortality of fecal bacteria in seawater.

    OpenAIRE

    Garcia-Lara, J.; Menon, P.; Servais, P; Billen, G.

    1991-01-01

    We propose a method for determining the mortality rate for allochthonous bacteria released in aquatic environments without interference due to the loss of culturability in specific culture media. This method consists of following the disappearance of radioactivity from the trichloroacetic acid-insoluble fraction in water samples to which [3H]thymidine-prelabeled allochthonous bacteria have been added. In coastal seawater, we found that the actual rate of disappearance of fecal bacteria was 1 ...

  13. Utilization of xylooligosaccharides by selected ruminal bacteria.

    OpenAIRE

    Cotta, M A

    1993-01-01

    The ability of ruminal bacteria to utilize xylooligosaccharides was examined. Xylooligosaccharides were prepared by partially hydrolyzing oat spelt xylan in phosphoric acid. This substrate solution was added (0.2%, wt/vol) to a complex medium containing yeast extract and Trypticase that was inoculated with individual species of ruminal bacteria, and growth and utilization were monitored over time. All of the xylanolytic bacteria examined were able to utilize this oligosaccharide mixture as a ...

  14. QUANTATITIVE PCR ASSAY FOR MARINE BACTERIA

    OpenAIRE

    Brunk, Clifford F.

    2003-01-01

    Monitoring the bacterial flora in coastal marine waters by conventional techniques has been difficult as most of the bacteria do not readily grow on culture plates and their morphologies are virtually identical in the microscope. Molecular techniques, particularly characterizing bacteria using polymerase chain reaction (PCR) amplification of their small subunit ribosomal RNA (SSU rRNA) genes, has dramatically improved the ability to identify bacteria from environmental samples. Identificatio...

  15. Selection-Driven Gene Loss in Bacteria

    OpenAIRE

    Koskiniemi, Sanna; Sun, Song; Berg, Otto; Andersson, Dan I.

    2012-01-01

    Gene loss by deletion is a common evolutionary process in bacteria, as exemplified by bacteria with small genomes that have evolved from bacteria with larger genomes by reductive processes. The driving force(s) for genome reduction remains unclear, and here we examined the hypothesis that gene loss is selected because carriage of superfluous genes confers a fitness cost to the bacterium. In the bacterium Salmonella enterica, we measured deletion rates at 11 chromosomal positions and the fitne...

  16. Pathogenic bacteria and timing of laying

    OpenAIRE

    Moller, Anders P.; Soler, Juan J; Nielsen, J T; Galván, Ismael

    2015-01-01

    Pathogenic bacteria constitute a serious threat to viability of many organisms. Because growth of most bacteria is favored by humid and warm environmental conditions, earlier reproducers in seasonal environments should suffer less from the negative consequences of pathogenic bacteria. These relationships, and the effects on reproductive success, should be particularly prominent in predators because they are frequently exposed to pathogenic microorganisms from sick prey. Here, we presented and...

  17. Bacteria cell properties and grain size impact on bacteria transport and deposition in porous media.

    Science.gov (United States)

    Bai, Hongjuan; Cochet, Nelly; Pauss, André; Lamy, Edvina

    2016-03-01

    The simultaneous role of bacteria cell properties and porous media grain size on bacteria transport and deposition behavior was investigated in this study. Transport column experiments and numerical HYDRUS-1D simulations of three bacteria with different cell properties (Escherichia coli, Klebsiella oxytoca, and Rhodococcus rhodochrous) were carried out on two sandy media with different grain sizes, under saturated steady state flow conditions. Each bacterium was characterized by cell size and shape, cell motility, electrophoretic mobility, zeta potential, hydrophobicity and potential of interaction with the sand surface. Cell characteristics affected bacteria transport behavior in the fine sand, but similar bacteria breakthroughs and retardation factors observed in the coarse sand, indicated that bacteria transport was more depended on grain size than on bacteria cell properties. Retention decreased with increasing hydrophobicity and increased with increasing electrophoretic mobility of bacteria for both sand. The increasing sand grain size resulted in a decrease of bacteria retention, except for the motile E. coli, indicating that retention of this strain was more dependent on cell motility than on the sand grain size. Bacteria deposition coefficients obtained from numerical simulations of the retention profiles indicated that straining was an important mechanism affecting bacteria deposition of E. coli and Klebsiella sp., in the fine sand, but the attachment had the same importance as straining for R. rhodochrous. The results obtained in the coarse sand did not permit to discriminate the predominant mechanism of bacteria deposition and the relative implication of bacteria cell properties of this process. PMID:26705829

  18. Quorum sensing in gram-negative bacteria

    DEFF Research Database (Denmark)

    Wu, H.; Song, Z.J.; Høiby, N.; Givskov, Michael Christian

    2004-01-01

    Bacteria can communicate with each other by means of signal molecules to coordinate the behavior of the entire community, and the mechanism is referred to as quorum sensing (QS). Signal systems enable bacteria to sense the size of their densities by monitoring the concentration of the signal...... molecules. Among Gram-negative bacteria N-acyl-L-homoserine lactone (acyl-HSL)-dependent quorum sensing systems are particularly widespread. These systems are used to coordinate expression of phenotypes that are fundamental to the interaction of bacteria with each other and with their environment and...

  19. In vitro susceptibility testing of anaerobic bacteria.

    Science.gov (United States)

    Washington, J A

    1979-01-01

    In vitro susceptibility testing of anaerobic bacteria should be limited to isolates from persistent or recurrent infections that have been treated adequately and appropriately with antimicrobial agents and, in reference centers, to collections of isolates in order to monitor alterations in susceptibility of species to various antimicrobial agents. An agar dilution reference method is being evaluated currently; however, practicality limits sporadic testing of single isolates to disk elution or broth dilution techniques. No single disk diffusion method has yet been found to be acceptable for testing anaerobic bacteria, and the results obtained with standardized procedures for aerobic and facultatively anaerobic bacteria are not applicable to anaerobic bacteria. PMID:288163

  20. Cell Size Regulation in Bacteria

    Science.gov (United States)

    Amir, Ariel

    2014-05-01

    Various bacteria such as the canonical gram negative Escherichia coli or the well-studied gram positive Bacillus subtilis divide symmetrically after they approximately double their volume. Their size at division is not constant, but is typically distributed over a narrow range. Here, we propose an analytically tractable model for cell size control, and calculate the cell size and interdivision time distributions, as well as the correlations between these variables. We suggest ways of extracting the model parameters from experimental data, and show that existing data for E. coli supports partial size control, and a particular explanation: a cell attempts to add a constant volume from the time of initiation of DNA replication to the next initiation event. This hypothesis accounts for the experimentally observed correlations between mother and daughter cells as well as the exponential dependence of size on growth rate.

  1. Single Bacteria as Turing Machines

    Science.gov (United States)

    Bos, Julia; Zang, Qiucen; Vyawahare, Saurabh; Austin, Robert

    2014-03-01

    In Allan Turing's famous 1950 paper on Computing Machinery and Intelligence, he started with the provocative statement: ``I propose to consider the question, `Can machines think?' This should begin with definitions of the meaning of the terms `machine' and `think'.'' In our own work on exploring the way that organisms respond to stress and evolve, it seems at times as if they come to remarkably fast solutions to problems, indicating some sort of very clever computational machinery. I'll discuss how it would appear that bacteria can indeed create a form of a Turing Machine, the first example of a computer, and how they might use this algorithm to do rapid evolution to solve a genomics problem.

  2. Cadmium(II) speciation in complex aquatic systems: a study with ferrihydrite, bacteria, and an organic ligand.

    Science.gov (United States)

    Song, Yantao; Swedlund, Peter J; Singhal, Naresh; Swift, Simon

    2009-10-01

    Understanding the chemical interactions that occur in complex natural systems is fundamental to their management In this work the distribution of cadmium in the presence of phthalic acid (H2Lp), ferrihydrite, and bacteria cells (Comamonas spp., heat killed) was measured and modeled for systems with incrementally increasing complexity. In binary systems, cadmium adsorption onto bacteria or ferrihydrite was accurately predicted using the nonelectrostatic four site model (NFSM) and the diffuse layer model (DLM), respectively. Phthalic acid (0.6 mM) enhanced Cd2+ adsorption onto ferrihydrite (due to surface ternary complex formation) butinhibited Cd2 adsorption onto bacteria to the same extent as predicted by Cd-phthalate solution complex formation constants, implying no significant surface ternary interaction occurred in this system. In Cd-ferrihydrite-bacteria systems, Cd2+ adsorption was up to 10% lower than that predicted by additive adsorption onto the pure phases which suggests that an interaction between ferrihydrite and the bacteria is occupying or masking adsorption sites. By adding a generic reaction to the model for the interaction between ferrihydrite and the bacteria, the adsorption of Cd2+ onto Comamonas spp.-ferrihydrite was accurately predicted and Cd2+ distribution and speciation in systems containing ferrihydrite, Comamonas spp., and H2Lp could be predicted. PMID:19848157

  3. Progress in Research of Bacteria Fertilizer Strengthening Resistance of Plants

    Institute of Scientific and Technical Information of China (English)

    2003-01-01

    Bacteria fertilizer is used most widely among all kinds of microbial fertilizers. We summarize the research headway of bacteria fertilizer. It mainly focuses on bacteria fertilizer improving the stress resistance of plant. Then we can offer basis to research and exploit bacteria fertilizer. These bacteria include azotobacter, photosynthetic bacteria, Bacillus mucilaginosus siliceous, phosphorus bacteria, plant growth-promoting rhizobacteria(PGPR), effective microorganism(EM).

  4. Bacteria transport and retention in intact calcareous soil columns under saturated flow conditions

    Directory of Open Access Journals (Sweden)

    Farrokhian Firouzi Ahmad

    2015-06-01

    Full Text Available Study of bacterial transport and retention in soil is important for various environmental applications such as groundwater contamination and bioremediation of soil and water. The main objective of this research was to quantitatively assess bacterial transport and deposition under saturated conditions in calcareous soil. A series of leaching experiments was conducted on two undisturbed soil columns. Breakthrough curves of Pseudomonas fluorescens and Cl were measured. After the leaching experiment, spatial distribution of bacteria retention in the soil columns was determined. The HYDRUS-1D one- and two-site kinetic models were used to predict the transport and deposition of bacteria in soil. The results indicated that the two-site model fits the observed data better than one-site kinetic model. Bacteria interaction with the soil of kinetic site 1 revealed relatively fast attachment and slow detachment, whereas attachment to and detachment of bacteria from kinetic site 2 was fast. Fast attachment and slow detachment of site 1 can be attributed to soil calcium carbonate that has favorable attachment sites for bacteria. The detachment rate was less than 0.02 of the attachment rate, indicating irreversible attachment of bacteria. High reduction rate of bacteria was also attributed to soil calcium carbonate.

  5. Sponge-associated bacteria: general overview and special aspects of bacteria associated with Halichondria panicea.

    Science.gov (United States)

    Imhoff, J F; Stöhr, R

    2003-01-01

    Increasing evidence is accumulating that highlights the important role of bacteria in bacteria-sponge associations. It appears to be equally important to analyse the specific association of bacteria with sponges, to realise the biological function of biologically active substances produced by sponge-associated bacteria, and to consider the relationship between bacteria and sponges in the search for new pharmaceutical products. In this chapter the current knowledge on bacteria-sponge associations is briefly reviewed. Results are summarised that were obtained by three major methodological approaches: (1) classical microscope observations, (2) investigations attempting to characterise sponge-associated bacteria by describing pure culture isolates, and (3) the rapidly growing evidence from genetic analyses of sponge-associated bacteria. Special emphasis is given to the evidence of possible symbiotic interactions between bacteria and sponges and to the synthesis of natural products by bacteria isolated from or associated with marine sponges. Case studies including morphological and genetic studies together with results from pure culture studies have been performed with bacteria from the sponges Rhodopaloeides odorabile, Aplysina cavernicola, and Halichondria panicea. In addition, new results on bacteria associated with Halichondria panicea are also presented. PMID:15825639

  6. Transcriptome analysis of Sinorhizobium meliloti nodule bacteria in nifA mutant background

    Institute of Scientific and Technical Information of China (English)

    TIAN Zhexian; WANG Yiping; ZOU Huasong; LI Jian; ZHANG Yuantao; LIU Ying; YU Guanqiao; ZHU Jiabi; R(U)BERG Silvia; BECKER Anke

    2006-01-01

    Gene expression profiles of a Sinorhizobium meliloti 1021 nifA mutant and wild type nodule bacteria were compared using whole genome microarrays. The results revealed a large scale alteration of gene expression (601 genes) in the nifA minus background. The loss of NifA altered the expression of many functional groups of genes (macromolecular metabolism, TCA cycle and respiration,nodulation and nitrogen fixation) and may lead to quite different life stages of the nodule bacteria.Upregulation of fixK and its associated genes was observed in the nifA mutant nodule bacteria. Additional quantitative real-time PCR experiments revealed that the transcript levels of fixLJ were significantly upshifted in the nifA mutant nodule bacteria.Putative NifA binding sites were predicted by a statistical method in the upstream sequences of 13 differentially regulated genes from the nifA- transcriptome.

  7. Rapid methods for detection of bacteria

    DEFF Research Database (Denmark)

    Corfitzen, Charlotte B.; Andersen, B.Ø.; Miller, M.; Ursin, C.; Arvin, Erik; Albrechtsen, Hans-Jørgen

    Traditional methods for detection of bacteria in drinking water e.g. Heterotrophic Plate Counts (HPC) or Most Probable Number (MNP) take 48-72 hours to give the result. New rapid methods for detection of bacteria are needed to protect the consumers against contaminations. Two rapid methods...

  8. Lactic Acid Bacteria in the Gut

    NARCIS (Netherlands)

    Stolaki, M.; Vos, de W.M.; Kleerebezem, M.; Zoetendal, E.G.

    2012-01-01

    From all bacterial groups, the lactic acid bacteria (LAB) are probably the group of bacteria that is most associated with human lifestyle. The term LAB mainly refers to the ability of these organisms to convert sugars to lactic acid. The LAB comprise non-sporing, aerotolerant, coccus or rod-shaped,

  9. Sabine Kacunko. Bacteria, Art and other Bagatelles

    DEFF Research Database (Denmark)

    Kacunko, Slavko

    This book appears on the occasion of the project INVINCIBLE – a Big Bacteria project for Colosseum, Rome (17.–19.09.2015), which is being granted UNESCO-patronage in the context of the International Year of Light and Light-Based Technologies 2015. With Sabine Kacunko’s bacteria art in mind, alleged...

  10. Rapid methods for detection of bacteria

    DEFF Research Database (Denmark)

    Corfitzen, Charlotte B.; Andersen, B.Ø.; Miller, M.;

    2006-01-01

    Traditional methods for detection of bacteria in drinking water e.g. Heterotrophic Plate Counts (HPC) or Most Probable Number (MNP) take 48-72 hours to give the result. New rapid methods for detection of bacteria are needed to protect the consumers against contaminations. Two rapid methods...

  11. Metabolismo de isoflavonas por bacterias intestinales

    OpenAIRE

    Delgado, Susana; Guadamuro, Lucía; Flórez García, Ana Belén; Mayo Pérez, Baltasar

    2014-01-01

    Trabajo presentado en la 8ª Reunión de la Red Temática BAL (Red Española de Bacterias Lácticas), "Participación de las Bacterias Lácticas en la Salud Humana y en la Calidad Alimentaria", celebrada en San Adrián (Navarra) el 25 de junio de 2014.

  12. Bacteria dispersal by hitchhiking on zooplankton

    DEFF Research Database (Denmark)

    Grossart, Hans-Peter; Dziallas, Claudia; Leunert, Franziska;

    2010-01-01

    impenetrable for bacteria in both upward and downward directions (conveyor-belt hypothesis). The strength of our experiments is to permit quantitative estimation of transport and release of associated bacteria: vertical migration of Daphnia magna yielded an average dispersal rate of 1.3 x 10(5) x cells x...

  13. Research Advances in Bacteria-based Microrobot.

    Science.gov (United States)

    Liang, Yao-Jie; Sun, Jun-Zhong

    2016-08-01

    The concept of bacteria-based microrobot has been well recognized. It has shown great advantages and potentials for the early diagnosis and early treatment of malignant tumor and in reducing chemotherapy toxicities. In this article we review the concept,structure,and potential clinical applications of bacteria-based microrobot. PMID:27594160

  14. Comparative genomics of the lactic acid bacteria

    Science.gov (United States)

    Lactic acid-producing bacteria are associated with various plant and animal niches and play a key role in the production of fermented foods and beverages. We report nine genome sequences representing the phylogenetic and functional diversity of these bacteria. The small genomes of lactic acid bacter...

  15. Method of dispersing a hydrocarbon using bacteria

    Science.gov (United States)

    Tyndall, Richard L.

    1996-01-01

    New protozoan derived microbial consortia and method for their isolation are provided. Consortia and bacteria isolated therefrom are useful for treating wastes such as trichloroethylene and trinitrotoluene. Consortia, bacteria isolated therefrom, and dispersants isolated therefrom are useful for dispersing hydrocarbons such as oil, creosote, wax, and grease.

  16. Mimicking Seawater For Culturing Marine Bacteria

    DEFF Research Database (Denmark)

    Rygaard, Anita Mac; Sonnenschein, Eva; Gram, Lone;

    2015-01-01

    Only about 1% of marine bacteria have been brought into culture using traditional techniques. The purpose of this study was to investigate if mimicking the natural bacterial environment can increase culturability.We used marine substrates containing defined algal polymers or gellan gum as...... solidifying agents, and enumerated bacteria from seawater and algal exudates. We tested if culturability could be influenced by addition of quorum sensing signals (AHLs). All plates were incubated at 15°C. Bacterial counts (CFU/g) from algal exudates from brown algae were highest on media containing algal...... polymers. In general, bacteria isolated from algal exudates preferred more rich media than bacteria isolated from seawater. Overall, culturability ranged from 0.01 to 0.8% as compared to total cell count. Substitution of agar with gellan gum increased the culturability of seawater bacteria approximately...

  17. Coryneform bacteria associated with canine otitis externa

    DEFF Research Database (Denmark)

    Aalbæk, Bent; Bemis, David A.; Schjærff, Mette;

    2010-01-01

    This study aims to investigate the occurrence of coryneform bacteria in canine otitis externa. A combined case series and case-control study was carried out to improve the current knowledge on frequency and clinical significance of coryneform bacteria in samples from canine otitis externa. A total...... of 16 cases of otitis externa with involvement of coryneform bacteria were recorded at two referral veterinary hospitals in Denmark and the US, respectively. Coryneform bacteria were identified by partial 16S rRNA gene sequencing. Corynebacterium auriscanis was the most common coryneform species (10...... cases). Small colony variants of this species were also observed. Other coryneform isolates were identified as Corynebacterium amycolatum (3 cases), Corynebacterium freneyi (2 cases) and an Arcanobacterium-like species (1 case). The coryneform bacteria were in all cases isolated together with other...

  18. Chryseobacterium indologenes, novel mannanase-producing bacteria

    Directory of Open Access Journals (Sweden)

    Surachai Rattanasuk

    2009-10-01

    Full Text Available Mannanase is a mannan degrading enzyme which is produced by microorganisms, including bacteria. This enzyme can be used in many industrial processes as well as for improving the quality of animal feeds. The aim of the present study was toscreen and characterize the mannanase-producing bacteria. Two genera of bacteria were isolated from Thai soil samples,fermented coconut, and fertilizer. Screening was carried out on agar plates containing mannan stained with iodine solution.The bacteria were identified by partial 16S rRNA gene sequence, biochemical test and morphology, respectively. The mannanase activity was determined by zymogram and DNS method. Two strains of bacteria with mannanase activity were identified as Bacillus and Chryseobacterium. This is the first report of mannanase-producing Chryseobacterium.

  19. HYDROCARBON-DEGRADING BACTERIA AND SURFACTANT ACTIVITY

    Energy Technology Data Exchange (ETDEWEB)

    Brigmon, R; Topher Berry, T; Grazyna A. Plaza, G; jacek Wypych, j

    2006-08-15

    Fate of benzene ethylbenzene toluene xylenes (BTEX) compounds through biodegradation was investigated using two different bacteria, Ralstonia picketti (BP-20) and Alcaligenes piechaudii (CZOR L-1B). These bacteria were isolated from extremely polluted petroleum hydrocarbon contaminated soils. PCR and Fatty Acid Methyl Ester (FAME) were used to identify the isolates. Biodegradation was measured using each organism individually and in combination. Both bacteria were shown to degrade each of the BTEX compounds. Alcaligenes piechaudii biodegraded BTEXs more efficiently while mixed with BP-20 and individually. Biosurfactant production was observed by culture techniques. In addition 3-hydroxy fatty acids, important in biosurfactant production, was observed by FAME analysis. In the all experiments toluene and m+p- xylenes were better growth substrates for both bacteria than the other BTEX compounds. In addition, the test results indicate that the bacteria could contribute to bioremediation of aromatic hydrocarbons (BTEX) pollution increase biodegradation through the action by biosurfactants.

  20. Revisiting the cape cod bacteria injection experiment using a stochastic modeling approach

    Science.gov (United States)

    Maxwell, R.M.; Welty, C.; Harvey, R.W.

    2007-01-01

    Bromide and resting-cell bacteria tracer tests conducted in a sandy aquifer at the U.S. Geological Survey Cape Cod site in 1987 were reinterpreted using a three-dimensional stochastic approach. Bacteria transport was coupled to colloid filtration theory through functional dependence of local-scale colloid transport parameters upon hydraulic conductivity and seepage velocity in a stochastic advection - dispersion/attachment - detachment model. Geostatistical information on the hydraulic conductivity (K) field that was unavailable at the time of the original test was utilized as input. Using geostatistical parameters, a groundwater flow and particle-tracking model of conservative solute transport was calibrated to the bromide-tracer breakthrough data. An optimization routine was employed over 100 realizations to adjust the mean and variance ofthe natural-logarithm of hydraulic conductivity (InK) field to achieve best fit of a simulated, average bromide breakthrough curve. A stochastic particle-tracking model for the bacteria was run without adjustments to the local-scale colloid transport parameters. Good predictions of mean bacteria breakthrough were achieved using several approaches for modeling components of the system. Simulations incorporating the recent Tufenkji and Elimelech (Environ. Sci. Technol. 2004, 38, 529-536) correlation equation for estimating single collector efficiency were compared to those using the older Rajagopalan and Tien (AIChE J. 1976, 22, 523-533) model. Both appeared to work equally well at predicting mean bacteria breakthrough using a constant mean bacteria diameter for this set of field conditions. Simulations using a distribution of bacterial cell diameters available from original field notes yielded a slight improvement in the model and data agreement compared to simulations using an average bacterial diameter. The stochastic approach based on estimates of local-scale parameters for the bacteria-transport process reasonably captured

  1. The stability of a homogeneous suspension of chemotactic bacteria

    Science.gov (United States)

    Subramanian, G.; Koch, Donald L.; Fitzgibbon, Sean R.

    2011-04-01

    The linear stability of a homogeneous dilute suspension of chemotactic bacteria in a constant chemoattractant gradient is analyzed. The bacteria execute a run-and-tumble motion, typified by the species E. coli, wherein periods of smooth swimming (runs) are interrupted by abrupt uncorrelated changes in swimming direction (tumbles). Bacteria tumble less frequently when swimming toward regions of higher chemoattractant concentration, leading to a mean bacterial orientation and velocity in the base state. The stability of an unbounded suspension, both with and without a chemoattractant, is controlled by coupled long wavelength perturbations of the fluid velocity and bacterial orientation fields. In the former case, the most unstable perturbations have their wave vector oriented along the chemoattractant gradient. Chemotaxis reduces the critical bacteria concentration, for the onset of collective swimming, compared with that predicted by Subramanian and Koch ["Critical bacterial concentration for the onset of collective swimming," J. Fluid Mech. 632, 359 (2009)] in the absence of a chemoattractant. A part of this decrease may be attributed to the increase in the mean tumbling time in the presence of a chemoattractant gradient. A second destabilizing influence comes from the ability of the shearing motion, associated with a velocity perturbation in which the velocity and chemical gradients are aligned, to sweep prealigned bacteria into the local extensional quadrant thereby creating a stronger destabilizing active stress than in an initially isotropic suspension. The chemoattractant gradient also fundamentally alters the unstable spectrum for any finite wavenumber. In suspensions of bacteria that do not tumble, Saintillan and Shelley ["Instabilities and pattern formation in active particle suspensions: Kinetic theory and continuum simulations," Phys. Rev. Lett. 100, 178103 (2008); "Instabilities, pattern formation and mixing in active suspensions," Phys. Fluids 20

  2. Therapeutic Properties of Probiotic Bacteria

    Directory of Open Access Journals (Sweden)

    Nathanon Trachoo

    2006-01-01

    Full Text Available In spite of its long history, public consciousness of probiotics has shifted dramatically in recent years. This is due to a number of factors, including an increased concern about the potential generation of antibiotic resistant bacterial strains due to widespread antibacterial use, and also to the spreading realization that one`s health can be, not simply maintained, but actually improved with proper nutrition. Combined, these factors have stimulated a surge in probiotic research in the past decade, resulting in increasingly refined studies. Indeed, after Elie Metchnikov first printed his work suggesting a positive correlation between human longevity and the consumption of fermented milk, information on probiotics is leaving the realm of the anecdotal as recent, double-blind, placebo controlled randomized tests support beneficial probiotic activity. Concurrently, more is being learned about their activities in vivo. While much work remains to be done before a detailed understanding of probiotics can be achieved, there is mounting evidence that probiotics, when used in proper conditions, may indeed have prophylactic or preventative effects on a broad array of human and animal diseases. This article briefly surveys probiotic history and discusses recent research with a special emphasis on lactic acid bacteria probiotics. Finally, it discusses the inherent difficulties of their study and suggestions for standards for future work.

  3. Mycelial bacteria of saline soils

    Science.gov (United States)

    Zvyagintsev, D. G.; Zenova, G. M.; Oborotov, G. V.

    2008-10-01

    The actinomycetal complexes of saline soils comprise the representatives of the Streptomyces and Micromonospora genera, the number of which are hundreds and thousands of CFU/g soil. Complexes of mycelial bacteria in saline soils are poorer in terms of number (by 1-3 orders of magnitude) and taxonomic composition than the complexes of the zonal soil types. A specific feature of the actinomycetal complexes of saline soils is the predominance of halophilic, alkaliphilic, and haloalkaliphilic streptomycetes that well grow at pH 8-9 and concentrations of NaCl close to 5%. Actinomycetes in saline soils grow actively, and the length of their mycelium reaches 140 m in 1 gram of soil. The haloalkaliphilic streptomycetes grow fast and inhibit the formation of spores at pH 9 and high concentrations of salts (Na2SO4 and MgCl2, 5%) as compared to their behavior on a neutral medium with a salt concentration of 0.02%. They are characterized by the maximal radial growth rate of colonies on an alkaline medium with 5% NaCl.

  4. Comparative cytotoxicity of periodontal bacteria

    International Nuclear Information System (INIS)

    The direct cytotoxicity of sonic extracts (SE) from nine periodontal bacteria for human gingival fibroblasts (HGF) was compared. Equivalent dosages (in terms of protein concentration) of SE were used to challenge HGF cultures. The cytotoxic potential of each SE was assessed by its ability to (1) inhibit HGF proliferation, as measured by direct cell counts; (2) inhibit 3H-thymidine incorporation in HGF cultures; or (3) cause morphological alterations of the cells in challenged cultures. The highest concentration (500 micrograms SE protein/ml) of any of the SEs used to challenge the cells was found to be markedly inhibitory to the HGFs by all three of the criteria of cytotoxicity. At the lowest dosage tested (50 micrograms SE protein/ml); only SE from Actinobacillus actinomycetemcomitans, Bacteroides gingivalis, and Fusobacterium nucleatum caused a significant effect (greater than 90% inhibition or overt morphological abnormalities) in the HGFs as determined by any of the criteria employed. SE from Capnocytophaga sputigena, Eikenella corrodens, or Wolinella recta also inhibited cell proliferation and thymidine incorporation at this dosage; however, the degree of inhibition (5-50%) was consistently, clearly less than that of the first group of three organisms named above. The SE of the three other organisms tested (Actinomyces odontolyticus, Bacteroides intermedius, and Streptococcus sanguis) had little or no effect (0-10% inhibition) at this concentration. The data suggest that the outcome of the interaction between bacterial components and normal resident cells of the periodontium is, at least in part, a function of the bacterial species

  5. H2 from hot bacteria

    International Nuclear Information System (INIS)

    This paper reports that a surprisingly large number of bacteria either oxidize or evolve molecular hydrogen (H2) in their natural environments. In such organisms, the reversible activation of H2 is catalyzed by an enzyme turned hydrogenase that can cause electrons provided by an electron donor with protons to evolve H2. The enzyme may oxidize H2 in the presence of a suitable electron acceptor. Hydrogenase will also catalyze an isotope exchange reaction between deuterium (D2) or tritium (T2) gas and water. Few enzymes have as many potential biotechnological applications as hydrogenase. H2 is a versatile and efficient energy carrier, considered the fuel of the future by some, and is an important intermediate in a variety of chemical and petrochemical processes. Hydrogenase has also been proposed to replace platinum in H/D and H/T separations in the nuclear power industry and to activate H2 for electrode-based processes. Indeed, H2 is considered one of the most abundant substrates for the future chemical synthesis industry and the enzyme-catalyzed production of organic chemicals from H2 and CO2 has been described. a complete understanding of how hydrogenases catalyze the reversible activation of H2 might therefore have farreaching consequences in both applied and basic research

  6. Potential role of bacteria packaging by protozoa in the persistence and transmission of pathogenic bacteria

    Directory of Open Access Journals (Sweden)

    Alix M Denoncourt

    2014-05-01

    Full Text Available Many pathogenic bacteria live in close association with protozoa. These unicellular eukaryotic microorganisms are ubiquitous in various environments. A number of protozoa such as amoebae and ciliates ingest pathogenic bacteria, package them usually in membrane structures, and then release them into the environment. Packaged bacteria are more resistant to various stresses and are more apt to survive than free bacteria. New evidence indicates that protozoa and not bacteria control the packaging process. It is possible that packaging is more common than suspected and may play a major role in the persistence and transmission of pathogenic bacteria. To confirm the role of packaging in the propagation of infections, it is vital that the molecular mechanisms governing the packaging of bacteria by protozoa be identified as well as elements related to the ecology of this process in order to determine whether packaging acts as a Trojan Horse.

  7. Quantification of spatial distribution and spread of bacteria in soil at microscale

    Science.gov (United States)

    Juyal, Archana; Eickhorst, Thilo; Falconer, Ruth; Baveye, Philippe; Otten, Wilfred

    2015-04-01

    Soil bacteria play an essential role in functioning of ecosystems and maintaining of biogeochemical cycles. Soil is a complex heterogeneous environment comprising of highly variable and dynamic micro-habitats that have significant impacts on the growth and activity of resident microbiota including bacteria and fungi. Bacteria occupy a very small portion of available pore space in soil which demonstrates that their spatial arrangement in soil has a huge impact on the contact to their target and on the way they interact to carry out their functions. Due to limitation of techniques, there is scant information on spatial distribution of indigenous or introduced bacteria at microhabitat scale. There is a need to understand the interaction between soil structure and microorganisms including fungi for ecosystem-level processes such as carbon sequestration and improving the predictive models for soil management. In this work, a combination of techniques was used including X-ray CT to characterize the soil structure and in-situ detection via fluorescence microscopy to visualize and quantify bacteria in soil thin sections. Pseudomonas fluorescens bacteria were introduced in sterilized soil of aggregate size 1-2 mm and packed at bulk-densities 1.3 g cm-3 and 1.5 g cm-3. A subset of samples was fixed with paraformaldehyde and subsequently impregnated with resin. DAPI and fluorescence in situ hybridization (FISH) were used to visualize bacteria in thin sections of soil cores by epifluorescence microscopy to enumerate spatial distribution of bacteria in soil. The pore geometry of soil was quantified after X-ray microtomography scanning. The distribution of bacteria introduced locally reduced significantly (P

  8. Gene clusters involved in isethionate degradation by terrestrial and marine bacteria.

    KAUST Repository

    Weinitschke, Sonja

    2010-01-01

    Ubiquitous isethionate (2-hydroxyethanesulfonate) is dissimilated by diverse bacteria. Growth of Cupriavidus necator H16 with isethionate was observed, as was inducible membrane-bound isethionate dehydrogenase (IseJ) and inducible transcription of the genes predicted to encode IseJ and a transporter (IseU). Biodiversity in isethionate transport genes was observed and investigated by transcription experiments.

  9. Temporal Synchronization Analysis for Improving Regression Modeling of Fecal Indicator Bacteria Levels

    Science.gov (United States)

    Multiple linear regression models are often used to predict levels of fecal indicator bacteria (FIB) in recreational swimming waters based on independent variables (IVs) such as meteorologic, hydrodynamic, and water-quality measures. The IVs used for these analyses are traditiona...

  10. Antibacterial activity of aquatic gliding bacteria.

    Science.gov (United States)

    Sangnoi, Yutthapong; Anantapong, Theerasak; Kanjana-Opas, Akkharawit

    2016-01-01

    The study aimed to screen and isolate strains of freshwater aquatic gliding bacteria, and to investigate their antibacterial activity against seven common pathogenic bacteria. Submerged specimens were collected and isolated for aquatic gliding bacteria using four different isolation media (DW, MA, SAP2, and Vy/2). Gliding bacteria identification was performed by 16S rRNA gene sequencing and phylogenetic analysis. Crude extracts were obtained by methanol extraction. Antibacterial activity against seven pathogenic bacteria was examined by agar-well diffusion assay. Five strains of aquatic gliding bacteria including RPD001, RPD008, RPD018, RPD027 and RPD049 were isolated. Each submerged biofilm and plastic specimen provided two isolates of gliding bacteria, whereas plant debris gave only one isolate. Two strains of gliding bacteria were obtained from each DW and Vy/2 isolation medium, while one strain was obtained from the SAP2 medium. Gliding bacteria strains RPD001, RPD008 and RPD018 were identified as Flavobacterium anhuiense with 96, 82 and 96 % similarity, respectively. Strains RPD049 and RPD027 were identified as F. johnsoniae and Lysobacter brunescens, respectively, with similarity equal to 96 %. Only crude extract obtained from RPD001 inhibited growth of Listeria monocytogenes (MIC 150 µg/ml), Staphylococcus aureus (MIC 75 µg/ml) and Vibrio cholerae (MIC 300 µg/ml), but showed weak inhibitory effect on Salmonella typhimurium (MIC > 300 µg/ml). Gliding bacterium strain RPD008 should be considered to a novel genus separate from Flavobacterium due to its low similarity value. Crude extract produced by RPD001 showed potential for development as a broad antibiotic agent. PMID:26885469

  11. Stop the Spread of Superbugs: Help Fight Drug Resistant Bacteria

    Science.gov (United States)

    ... the Spread of Superbugs Help Fight Drug-Resistant Bacteria For nearly a century, bacteria-fighting drugs known as antibiotics have helped to control and destroy many of the harmful bacteria that can make us sick. But in recent ...

  12. Birefringence Determination of Magnetic Moments of Magnetotactic Bacteria

    OpenAIRE

    Rosenblatt, Charles; de Araujo, F. Flavio Torres; Frankel, Richard B.

    1982-01-01

    A birefringence technique is used to determine the average magnetic moments of magnetotactic bacteria in culture. Differences in are noted between live and dead bacteria, as well as between normal density and high density samples of live bacteria.

  13. Folate Production by Probiotic Bacteria

    Directory of Open Access Journals (Sweden)

    Stefano Raimondi

    2011-01-01

    Full Text Available Probiotic bacteria, mostly belonging to the genera Lactobacillus and Bifidobacterium, confer a number of health benefits to the host, including vitamin production. With the aim to produce folate-enriched fermented products and/or develop probiotic supplements that accomplish folate biosynthesis in vivo within the colon, bifidobacteria and lactobacilli have been extensively studied for their capability to produce this vitamin. On the basis of physiological studies and genome analysis, wild-type lactobacilli cannot synthesize folate, generally require it for growth, and provide a negative contribution to folate levels in fermented dairy products. Lactobacillus plantarum constitutes an exception among lactobacilli, since it is capable of folate production in presence of para-aminobenzoic acid (pABA and deserves to be used in animal trials to validate its ability to produce the vitamin in vivo. On the other hand, several folate-producing strains have been selected within the genus Bifidobacterium, with a great variability in the extent of vitamin released in the medium. Most of them belong to the species B. adolescentis and B. pseudocatenulatum, but few folate producing strains are found in the other species as well. Rats fed a probiotic formulation of folate-producing bifidobacteria exhibited increased plasma folate level, confirming that the vitamin is produced in vivo and absorbed. In a human trial, the same supplement raised folate concentration in feces. The use of folate-producing probiotic strains can be regarded as a new perspective in the specific use of probiotics. They could more efficiently confer protection against inflammation and cancer, both exerting the beneficial effects of probiotics and preventing the folate deficiency that is associated with premalignant changes in the colonic epithelia.

  14. Magnetotactic Bacteria from Extreme Environments

    Science.gov (United States)

    Bazylinski, Dennis A.; Lefèvre, Christopher T.

    2013-01-01

    Magnetotactic bacteria (MTB) represent a diverse collection of motile prokaryotes that biomineralize intracellular, membrane-bounded, tens-of-nanometer-sized crystals of a magnetic mineral called magnetosomes. Magnetosome minerals consist of either magnetite (Fe3O4) or greigite (Fe3S4) and cause cells to align along the Earth’s geomagnetic field lines as they swim, a trait called magnetotaxis. MTB are known to mainly inhabit the oxic–anoxic interface (OAI) in water columns or sediments of aquatic habitats and it is currently thought that magnetosomes function as a means of making chemotaxis more efficient in locating and maintaining an optimal position for growth and survival at the OAI. Known cultured and uncultured MTB are phylogenetically associated with the Alpha-, Gamma- and Deltaproteobacteria classes of the phylum Proteobacteria, the Nitrospirae phylum and the candidate division OP3, part of the Planctomycetes-Verrucomicrobia-Chlamydiae (PVC) bacterial superphylum. MTB are generally thought to be ubiquitous in aquatic environments as they are cosmopolitan in distribution and have been found in every continent although for years MTB were thought to be restricted to habitats with pH values near neutral and at ambient temperature. Recently, however, moderate thermophilic and alkaliphilic MTB have been described including: an uncultured, moderately thermophilic magnetotactic bacterium present in hot springs in northern Nevada with a probable upper growth limit of about 63 °C; and several strains of obligately alkaliphilic MTB isolated in pure culture from different aquatic habitats in California, including the hypersaline, extremely alkaline Mono Lake, with an optimal growth pH of >9.0. PMID:25369742

  15. Magnetotactic Bacteria from Extreme Environments

    Science.gov (United States)

    Bazylinski, Dennis A.; Lefère, Christopher T.

    2013-03-01

    Magnetotactic bacteria (MTB) represent a diverse collection of motile prokaryotes that biomineralize intracellular, membrane-bounded, tens-of-nanometer-sized crystals of a magnetic mineral called magnetosomes. Magnetosome minerals consist of either magnetite (Fe3O4) or greigite (Fe3S4) and cause cells to align along the Earth's geomagnetic field lines as they swim, a trait called magnetotaxis. MTB are known to mainly inhabit the oxic-anoxic interface (OAI) in water columns or sediments of aquatic habitats and it is currently thought that magnetosomes function as a means of making chemotaxis more efficient in locating and maintaining an optimal position for growth and survival at the OAI. Known cultured and uncultured MTB are phylogenetically associated with the Alpha-, Gamma- and Deltaproteobacteria classes of the phylum Proteobacteria, the Nitrospirae phylum and the candidate division OP3, part of the Planctomycetes-Verrucomicrobia-Chlamydiae (PVC) bacterial superphylum. MTB are generally thought to be ubiquitous in aquatic environments as they are cosmopolitan in distribution and have been found in every continent although for years MTB were thought to be restricted to habitats with pH values near neutral and at ambient temperature. Recently, however, moderate thermophilic and alkaliphilic MTB have been described including: an uncultured, moderately thermophilic magnetotactic bacterium present in hot springs in northern Nevada with a probable upper growth limit of about 63 °C; and several strains of obligately alkaliphilic MTB isolated in pure culture from different aquatic habitats in California, including the hypersaline, extremely alkaline Mono Lake, with an optimal growth pH of >9.0.

  16. Magnetotactic Bacteria from Extreme Environments

    Directory of Open Access Journals (Sweden)

    Christopher T. Lefèvre

    2013-03-01

    Full Text Available Magnetotactic bacteria (MTB represent a diverse collection of motile prokaryotes that biomineralize intracellular, membrane-bounded, tens-of-nanometer-sized crystals of a magnetic mineral called magnetosomes. Magnetosome minerals consist of either magnetite (Fe3O4 or greigite (Fe3S4 and cause cells to align along the Earth’s geomagnetic field lines as they swim, a trait called magnetotaxis. MTB are known to mainly inhabit the oxic–anoxic interface (OAI in water columns or sediments of aquatic habitats and it is currently thought that magnetosomes function as a means of making chemotaxis more efficient in locating and maintaining an optimal position for growth and survival at the OAI. Known cultured and uncultured MTB are phylogenetically associated with the Alpha-, Gamma- and Deltaproteobacteria classes of the phylum Proteobacteria, the Nitrospirae phylum and the candidate division OP3, part of the Planctomycetes-Verrucomicrobia-Chlamydiae (PVC bacterial superphylum. MTB are generally thought to be ubiquitous in aquatic environments as they are cosmopolitan in distribution and have been found in every continent although for years MTB were thought to be restricted to habitats with pH values near neutral and at ambient temperature. Recently, however, moderate thermophilic and alkaliphilic MTB have been described including: an uncultured, moderately thermophilic magnetotactic bacterium present in hot springs in northern Nevada with a probable upper growth limit of about 63 °C; and several strains of obligately alkaliphilic MTB isolated in pure culture from different aquatic habitats in California, including the hypersaline, extremely alkaline Mono Lake, with an optimal growth pH of >9.0.

  17. Effects of thermoradiation on bacteria

    International Nuclear Information System (INIS)

    A 60Co source was used to determine the effects of thermoradiation on Achromobacter aquamarinus, Staphylococcus aureus, and vegetative and spore cells of Bacillus subtilis var. globigii. The rate of inactivation of these cultures, except vegetative-cell populations of B. subtilis, was exponential and in direct proportion to temperature. The D10 (dose that inactivates 90 percent of the microbial population) value for A. aquamarinus was 8.0 Krad at 25 degrees C and 4.9 Krad at 35 degrees C. For S. aureus, D10 was 9.8 and 5.3 Krad at 35 and 45 degrees C, respectively. Vegetative cells of B. subtilis demonstrated a rapid initial inactivation followed by a steady but decreased exponential rate. The D10 at 25 degrees C was 10.3 Krad, but at 35 and 45 degrees C this value was 6.2 and 3.8 Krad, respectively. Between 0 and 95 Krad, survival curves for B. subtilis spores at 75 degrees C showed slight inactivation, increasing in rat at and above 85 degrees C. The D10 values for spores at 85 and 90 degrees C were 129 and 92 Krad, respectively. Significant synergism between heat and irradiation was noted at 35 degrees C for A. aquamarinus and 45 degrees C for S. aureus. The presence of 0.1 mM cysteine in suspending media afforded protection to both cultures at these critical temperatures. On the other hand, cysteine sensitized B. subtilis spores at radiation doses greater than 100 Krad. The combined effect of heat and irradiation was more destructive to bacteria than either method alone

  18. Clustering of Marine Bacteria in Seawater Enrichments

    OpenAIRE

    Mitchell, J.G.; Pearson, L; Dillon, S.

    1996-01-01

    Seawater enrichments of marine bacteria clustered in 20- to 50-(mu)m-wide bands near air-water interfaces. The cells within the band travelled at up to 212 (mu)m s(sup-1) and at an average speed of 163 (mu)m s(sup-1). Mean cell speeds peaked mid-run at 187 (mu)m s(sup-1). At the end of the run, bacteria reversed direction rather than randomly reorienting. The duration of the stops during reversal was estimated at 18 ms, six to seven times shorter than that found in enteric bacteria. Cells hun...

  19. The Microworld of Marine-Bacteria

    DEFF Research Database (Denmark)

    JØRGENSEN, BB

    1995-01-01

    Microsensor studies show that the marine environment in the size scale of bacteria is physically and chemically very different from the macroenvironment. The microbial world of the sediment-water interface is thus dominated by water viscosity and steep diffusion gradients. Because of the diverse...... metabolism types, bacteria in the mostly anoxic sea floor play an important role in the major element cycles of the ocean. The communities of giant, filamentous sulfur bacteria that live in the deep-sea hydrothermal vents or along the Pacific coast of South America are presented here as examples....

  20. Acidophilic, Heterotrophic Bacteria of Acidic Mine Waters

    OpenAIRE

    Wichlacz, Paul L.; Unz, Richard F.

    1981-01-01

    Obligately acidophilic, heterotrophic bacteria were isolated both from enrichment cultures developed with acidic mine water and from natural mine drainage. The bacteria were grouped by the ability to utilize a number of organic acids as sole carbon sources. None of the strains were capable of chemolithotrophic growth on inorganic reduced iron and sulfur compounds. All bacteria were rod shaped, gram negative, nonencapsulated, motile, capable of growth at pH 2.6 but not at pH 6.0, catalase and ...

  1. Distribution of bacteria in inhalable particles and its implications for health risks in kindergarten children in Hong Kong

    Science.gov (United States)

    Deng, Wenjing; Chai, Yemao; Lin, Huiying; So, Winnie W. M.; Ho, K. W. K.; Tsui, A. K. Y.; Wong, R. K. S.

    2016-03-01

    Health risks in children caused by bacteria in indoor environments have attracted much attention in recent years. There are many harmful bacteria, and children have greater health risks than adults in the same environment. To investigate the association between children's health risks and the distribution and concentration of bacteria in particulate matter smaller than 2.5 μm in indoor and outdoor air at three kindergartens in Hong Kong, quantitative polymerase chain reaction was used to determine the concentration of bacteria, and the terminal restriction fragment length polymorphism method targeting 16S ribosomal RNA genes was used to predict the phylogenetic airborne bacterial community structures. The bacterial concentrations indoors were higher than those outdoors in the three kindergartens, but no obvious differences were found (P > 0.05). Statistical analysis showed that the different schools had significantly different concentrations (P children to bacteria in indoor and outdoor air.

  2. Substratum interfacial energetic effects on the attachment of marine bacteria

    Science.gov (United States)

    Ista, Linnea Kathryn

    attachment of bacteria to a substratum. We use VCG to model DeltaGadh and interfacial tensions as they relate to model bacterial attachment on SAMs that accumulate cells to different degrees. Even with the more complex interactions measured by VCG, surface energy of the attachment substratum alone was insufficient to predict attachment. VCG was then employed to model attachment of C. marina to a series of SAMs varying systematically in the number of ethylene glycol residues present in the molecule; an identical series has been previously shown to vary dramatically in the number of cells attached as a function of ethylene glycols present. Our results indicate that while VCG adequately models the interfacial tension between water and ethylene glycol SAMs in a manner that predicts bacterial attachment, DeltaGadh as calculated by VCG neither qualitatively nor quantitatively reflects the attachment data. The VCG model, thus, fails to capture specific information regarding the interactions between the attaching bacteria, water, and the SAM. We show that while hydrogen-bond accepting interactions are very well captured by this model, the ability for SAMs and bacteria to donate hydrogen bonds is not adequately described as the VCG model is currently applied. We also describe ways in which VCG fails to capture two specific biological aspects that may be important in bacterial attachment to surfaces:1.) specific interactions between molecules on the surface and bacteria and 2.) bacterial cell surface heterogeneities that may be important in differential attachment to different substrata.

  3. Quorum sensing in Gram-negative bacteria

    Institute of Scientific and Technical Information of China (English)

    WU Hong; SONG Zhijun; Niels HФIBY; Michael GIVSKOV

    2004-01-01

    Bacteria can communicate with each other by means of signal molecules to coordinate the behavior of the entire community,and the mechanism is referred to as quorum sensing (QS).Signal systems enable bacteria to sense the size of their densities by monitoring the concentration of the signal molecules.Among Gram-negative bacteria N-acyl-L-homoserine lactone (acyl-HSL)-dependent quorum sensing systems are particularly widespread.These systems are used to coordinate expression of phenotypes that are fundamental to the interaction of bacteria with each other and with their environment and particularly higher organisms,covering a variety of functions ranging from pathogenic to symbiotic interactions.The detailed knowledge of these bacterial communication systems has opened completely new perspectives for controlling undesired microbial activities.

  4. Comparative genomics of the lactic acid bacteria

    Energy Technology Data Exchange (ETDEWEB)

    Makarova, K.; Slesarev, A.; Wolf, Y.; Sorokin, A.; Mirkin, B.; Koonin, E.; Pavlov, A.; Pavlova, N.; Karamychev, V.; Polouchine, N.; Shakhova, V.; Grigoriev, I.; Lou, Y.; Rokhsar, D.; Lucas, S.; Huang, K.; Goodstein, D. M.; Hawkins, T.; Plengvidhya, V.; Welker, D.; Hughes, J.; Goh, Y.; Benson, A.; Baldwin, K.; Lee, J. -H.; Diaz-Muniz, I.; Dosti, B.; Smeianov, V; Wechter, W.; Barabote, R.; Lorca, G.; Altermann, E.; Barrangou, R.; Ganesan, B.; Xie, Y.; Rawsthorne, H.; Tamir, D.; Parker, C.; Breidt, F.; Broadbent, J.; Hutkins, R.; O' Sullivan, D.; Steele, J.; Unlu, G.; Saier, M.; Klaenhammer, T.; Richardson, P.; Kozyavkin, S.; Weimer, B.; Mills, D.

    2006-06-01

    Lactic acid-producing bacteria are associated with various plant and animal niches and play a key role in the production of fermented foods and beverages. We report nine genome sequences representing the phylogenetic and functional diversity of these bacteria. The small genomes of lactic acid bacteria encode a broad repertoire of transporters for efficient carbon and nitrogen acquisition from the nutritionally rich environments they inhabit and reflect a limited range of biosynthetic capabilities that indicate both prototrophic and auxotrophic strains. Phylogenetic analyses, comparison of gene content across the group, and reconstruction of ancestral gene sets indicate a combination of extensive gene loss and key gene acquisitions via horizontal gene transfer during the coevolution of lactic acid bacteria with their habitats.

  5. DECONTAMINATION OF HEAVY METALS WITH BACTERIA

    Science.gov (United States)

    OBJECTIVES: To discover, improve, understand the mechanisms and use naturally occurring bacteria to decontiminate in situ heavy metals from the soils, sediments and waters to protect human health and the environment. ABSTRACT: Our laboratory (Vesper et al. ...

  6. Distribution of phytopathogenic bacteria in infested seeds

    Science.gov (United States)

    Populations of phytopathogenic bacteria representing five host-pathogen combinations were assessed to determine if there was a mathematical relationship common across seedborne bacterial diseases. Bacterial populations were estimated from naturally-infested seeds of cowpea (Vigna unguiculata), peppe...

  7. Protection of probiotic bacteria in synbiotic matrices

    Science.gov (United States)

    Probiotics, like Lactobacillus acidophilus, Lactobacillus reuteri, Bifidobacterium breve, Bifidobacterium longum, when encapsulated with prebiotic fibers such as fructo-oligosaccharides (FOS), inulin (I) and pectic-oligosaccharides (POS), formed a synbiotic matrix system that protected the bacteria ...

  8. Effect of leukocyte hydrolases on bacteria

    International Nuclear Information System (INIS)

    Leukocyte extracts, trypsin, and lysozyme are all capable of releasing the bulk of the LPS from S. typhi, S. typhimurium, and E. coli. Bacteria which have been killed by heat, ultraviolet irradiation, or by a variety of metabolic inhibitors and antibiotics which affect protein, DNA, RNA, and cell wall synthesis no longer yield soluble LPS following treatment with the releasing agents. On the other hand, bacteria which are resistant to certain of the antibiotics yield nearly the full amount of soluble LPS following treatment, suggesting that certain heatabile endogenous metabolic pathways collaborate with the releasing agents in the release of LPS from the bacteria. It is suggested that some of the beneficial effects of antibiotics on infections with gram-negative bacteria may be the prevention of massive release of endotoxin by leukocyte enzymes in inflammatory sites

  9. Electrical Cable Bacteria Save Marine Life

    DEFF Research Database (Denmark)

    Nielsen, Lars Peter

    2016-01-01

    Animals at the bottomof the sea survive oxygen depletion surprisingly often, and a new study identifies cable bacteria in the sediment as the saviors. The bacterial electrical activity creates an iron ‘carpet’, trapping toxic hydrogen sulfide.......Animals at the bottomof the sea survive oxygen depletion surprisingly often, and a new study identifies cable bacteria in the sediment as the saviors. The bacterial electrical activity creates an iron ‘carpet’, trapping toxic hydrogen sulfide....

  10. Ecology: Electrical Cable Bacteria Save Marine Life

    DEFF Research Database (Denmark)

    Nielsen, Lars Peter

    2016-01-01

    Animals at the bottom of the sea survive oxygen depletion surprisingly often, and a new study identifies cable bacteria in the sediment as the saviors. The bacterial electrical activity creates an iron 'carpet', trapping toxic hydrogen sulfide.......Animals at the bottom of the sea survive oxygen depletion surprisingly often, and a new study identifies cable bacteria in the sediment as the saviors. The bacterial electrical activity creates an iron 'carpet', trapping toxic hydrogen sulfide....

  11. Microgravity effects on pathogenicity of bacteria

    OpenAIRE

    Wang, Ya-Juan; Liu, Chang-Ting

    2013-01-01

    Microgravity is one of the important environmental conditions during spaceflight. A series of studies have shown that many kinds of bacteria could be detected in space station and space shuttle. Space environment or simulated microgravity may throw a certain influence on those opportunistic pathogens and lead to some changes on their virulence, biofilm formation and drug tolerance. The mechanism of bacteria response to space environment or simulated microgravity has not been defined. However,...

  12. Interactions between ectomycorrhizal associations and bacteria

    OpenAIRE

    Marupakula, Srisailam

    2016-01-01

    Boreal forest podzol soils have vertically stratified horizons with different physico-chemical characteristics and high microbial diversity. Ectomycorrhizal fungi play key roles in accessing nutrients from both organic and mineral substrates. The role of associated bacteria in these processes is still poorly understood. The aim of the studies described in this thesis was to improve understanding of the distribution, diversity and community structure of fungi and bacteria on roots and in soil ...

  13. Magnetization processes in magnetotactic bacteria systems

    Czech Academy of Sciences Publication Activity Database

    Polyakova, T.; Zablotskyy, Vitaliy A.

    2005-01-01

    Roč. 293, - (2005), s. 365-370. ISSN 0304-8853. [International Conference on Scientific and Clinical Aplications of Magnetic Carriers. Lyon, 20.05.04-22.05.04] Grant ostatní: MCF: Nanomag-Lab(XE) N 2004-003177 Institutional research plan: CEZ:AV0Z10100520 Keywords : magnetotactic bacteria * magnetization process * chemotaxis * bacteria * magnetosomes * chain formation Subject RIV: BM - Solid Matter Physics ; Magnetism Impact factor: 0.985, year: 2005

  14. Bacteria in goat meat: Biological danger

    OpenAIRE

    Ivanović S.; Pavlović I.; Žujović M.; Tomić Z.; Memiši N.

    2011-01-01

    In the world, especially in China, India, Pаkistаn and Nigeria goat meat represents an important foodstuff in nutrition of people. Goat meat is being increasingly consumed in Serbia owing to its distinctive taste and desirable chemical composition. As many other types of meat, goat meat can be the source of pathogenic bacteria. Bacteria can find their way into meat of healthy goats or goats with no clinical symptoms premortally (infection) or postmortally (...

  15. Study of Lactobacillus as Probiotic Bacteria

    OpenAIRE

    J. Nowroozi; Mirzaii, M; M. Norouzi

    2004-01-01

    Because of inhibitory effect, selected probiotic lactobacilli may be used as biological preservative, so, the aim of this study was to present some data on lactobacillus as probiotic bacteria. Lactic acid bacteria were isolated from sausage. Each isolate of lactobacillus species was identified by biochemical tests and comparing their sugar fermentation pattern. Antibacterial activities were done by an agar spot, well diffusion and blank disk method. Enzyme sensitivity of supernatant fluid and...

  16. How Bacteria Turn Fiber into Food

    OpenAIRE

    Martens, Eric C.; Lowe, Elisabeth C.; Chiang, Herbert; Nicholas A Pudlo; Wu, Meng; McNulty, Nathan P.; Abbott, D Wade; Henrissat, Bernard; Gilbert, Harry J.; Bolam, David N.; Jeffrey I Gordon

    2011-01-01

    Symbiotic bacteria inhabiting the human gut have evolved under intense pressure to utilize complex carbohydrates, primarily plant cell wall glycans in our diets. These polysaccharides are not digested by human enzymes, but are processed to absorbable short chain fatty acids by gut bacteria. The Bacteroidetes, one of two dominant bacterial phyla in the adult gut, possess broad glycan-degrading abilities. These species use a series of membrane protein complexes, termed Sus-like systems, for cat...

  17. Bacteria under SOS evolve anticancer phenotypes

    OpenAIRE

    Weitao Tao; Dallo Shatha F

    2010-01-01

    Abstract Background The anticancer drugs, such as DNA replication inhibitors, stimulate bacterial adhesion and induce the bacterial SOS response. As a variety of bacterial mutants can be generated during SOS, novel phenotypes are likely to be selected under the drug pressure. Presentation of the hypothesis Bacteria growing with cancer cells in the presence of the replication inhibitors undergo the SOS response and evolve advantageous phenotypes for the bacteria to invade the cancer cells in o...

  18. Characterization of (per)chlorate-reducing bacteria

    OpenAIRE

    Wolterink, A.F.W.M.

    2004-01-01

    Some bacteria can use (per)chlorateas terminal electron acceptor for growth. These bacteria convert perchlorate via chlorate and chlorite into chloride and molecular oxygen. Oxygen formation in microbial respiration is unique. In this study two chlorate-reducing strains belonging to the species Pseudomonas chloritidismutans and a (per)chlorate-reducing strain Dechloromonas hortensis were isolated. The characterization of the chlorate-reducing strain AW-1, which was isolated from a bioreactor ...

  19. Quorum sensing mechanism in lactic acid bacteria

    Directory of Open Access Journals (Sweden)

    Hatice Yılmaz - Yıldıran

    2015-04-01

    and detection occurs as a consecution it is hard to understand their QS mechanism. In this review, connection between QS mechanism and some characteristics of lactic acid bacteria are evaluated such as concordance with its host, inhibition of pathogen development and colonization in gastrointestinal system, bacteriocin production, acid and bile resistance, adhesion to epithelium cells. Understanding QS mechanism of lactic acid bacteria will be useful to design metabiotics which is defined as novel probiotics.

  20. Quorum sensing mechanism in lactic acid bacteria

    OpenAIRE

    Hatice Yılmaz - Yıldıran; Aynur Gül Karahan; Gülden Başyiğit - Kılıç

    2015-01-01

    For a long time, microorganisms were considered as just multiplying, finding nutrients and living by themselves organisms. But that belief changed 50 years ago along with the discovery of bacteria communication with each other and environment by microbiologists. The language used in the communication consists of signal molecules and these molecules are generally called 'auto inducer'. Bacteria are capable of measuring density of these molecules and by this way they are able to detect amoun...

  1. Molecular Evolution of Threonine Dehydratase in Bacteria

    OpenAIRE

    Yu, Xuefei; Li, Ye; Wang, Xiaoyuan

    2013-01-01

    Threonine dehydratase converts L-threonine to 2-ketobutyrate. Several threonine dehydratases exist in bacteria, but their origins and evolutionary pathway are unknown. Here we analyzed all the available threonine dehydratases in bacteria and proposed an evolutionary pathway leading to the genes encoding three different threonine dehydratases CTD, BTD1 and BTD2. The ancestral threonine dehydratase might contain only a catalytic domain, but one or two ACT-like subdomains were fused during the e...

  2. Keratinolytic activity of cutaneous and oral bacteria.

    OpenAIRE

    Mikx, F H; De Jong, M H

    1987-01-01

    A test was developed to measure the keratinolytic activity of cutaneous and oral bacteria. Keratin, labeled with fluorescein isothiocyanate, was used in a phosphate buffer (pH 7.2) with 1 mM dithiothreitol. The degradation of keratin was estimated by measuring the fluorescence of the degradation products in the supernatant of the reaction mixtures in a luminescence spectrometer. Several oral and cutaneous bacteria were investigated: Bacteroides gingivalis, Bacteroides intermedius, Treponema d...

  3. Molecular genetic studies on obligate anaerobic bacteria

    International Nuclear Information System (INIS)

    Molecular genetic studies on obligate anaerobic bacteria have lagged behind similar studies in aerobes. However, the current interest in biotechnology, the involvement of anaerobes in disease and the emergence of antibioticresistant strains have focused attention on the genetics of anaerobes. This article reviews molecular genetic studies in Bacteroides spp., Clostridium spp. and methanogens. Certain genetic systems in some anaerobes differ from those in aerobes and illustrate the genetic diversity among bacteria

  4. Distribution of coliform bacteria in waste water

    OpenAIRE

    Dau Lal Bohra; Vikas Modasiya; Chandan Kumar Bahura

    2012-01-01

    Biological activity of water can be apparently judged by the colonization of bacteria (microbes). In order to find out the extent of pollution and the relationship between inorganic matters and microbiota, a quantitative and qualitative analysis of bacteria in various types of sewage waters, namely sewage water by the residential colonies (group I), industrial waste water (group II), sewage treatment hub (group III), unorganized collected waste water (group IV) and old residential waste colle...

  5. Horizontal gene transfer between bacteria and animals

    OpenAIRE

    Dunning Hotopp, Julie C.

    2011-01-01

    Horizontal gene transfer is increasingly described between bacteria and animals. Such transfers that are vertically inherited have the potential to influence the evolution of animals. One classic example is the transfer of DNA from mitochondria and chloroplasts to the nucleus after the acquisition of these organelles by eukaryotes. Even today, many of the described instances of bacteria to animal transfer occur as part of intimate relationships like those of endosymbionts and their invertebra...

  6. Study of Lactobacillus as Probiotic Bacteria

    Directory of Open Access Journals (Sweden)

    J Nowroozi

    2004-07-01

    Full Text Available Because of inhibitory effect, selected probiotic lactobacilli may be used as biological preservative, so, the aim of this study was to present some data on lactobacillus as probiotic bacteria. Lactic acid bacteria were isolated from sausage. Each isolate of lactobacillus species was identified by biochemical tests and comparing their sugar fermentation pattern. Antibacterial activities were done by an agar spot, well diffusion and blank disk method. Enzyme sensitivity of supernatant fluid and concentrated cell free culture after treatment with α-amylase, lysozyme and trypsin was determined. The isolated bacteria were Lacto. plantarum, Lacto delbruekii, Lacto. acidophilus, Lacto. brevis. The isolated bacteria had strong activity against indicator strains. The antibacterial activity was stable at 100ºC for 10 min and at 56ºC for 30 min, but activity was lost after autoclaving. The maximum production of plantaricin was obtained at 25 - 30ºC at pH 6.5. Because, lactobacilli that used to process sausage fermentation are producing antimicrobial activity with heat stability bacteriocin, so, these bacteria may be considered to be a healthy probiotic diet. Lactobacilli originally isolated from meat products are the best condidates as probiotic bacteria to improve the microbiological safety of these foods.

  7. How methylglyoxal kills bacteria: An ultrastructural study.

    Science.gov (United States)

    Rabie, Erika; Serem, June Cheptoo; Oberholzer, Hester Magdalena; Gaspar, Anabella Regina Marques; Bester, Megan Jean

    2016-01-01

    Antibacterial activity of honey is due to the presence of methylglyoxal (MGO), H2O2, bee defensin as well as polyphenols. High MGO levels in manuka honey are the main source of antibacterial activity. Manuka honey has been reported to reduce the swarming and swimming motility of Pseudomonas aeruginosa due to de-flagellation. Due to the complexity of honey it is unknown if this effect is directly due to MGO. In this ultrastructural investigation the effects of MGO on the morphology of bacteria and specifically the structure of fimbriae and flagella were investigated. MGO effectively inhibited Gram positive (Bacillus subtilis; MIC 0.8 mM and Staphylococcus aureus; MIC 1.2 mM) and Gram negative (P. aeruginosa; MIC 1.0 mM and Escherichia coli; MIC 1.2 mM) bacteria growth. The ultrastructural effects of 0.5, 1.0 and 2 mM MGO on B. substilis and E. coli morphology was then evaluated. At 0.5 mM MGO, bacteria structure was unaltered. For both bacteria at 1 mM MGO fewer fimbriae were present and the flagella were less or absent. Identified structures appeared stunted and fragile. At 2 mM MGO fimbriae and flagella were absent while the bacteria were rounded with shrinkage and loss of membrane integrity. Antibacterial MGO causes alterations in the structure of bacterial fimbriae and flagella which would limit bacteria adherence and motility. PMID:26986806

  8. Peptide conversations in Gram-positive bacteria.

    Science.gov (United States)

    Monnet, Véronique; Juillard, Vincent; Gardan, Rozenn

    2016-05-01

    Within Gram-positive bacteria, the expression of target genes is controlled at the population level via signaling peptides, also known as pheromones. Pheromones control a wide range of functions, including competence, virulence, and others that remain unknown. Until now, their role in bacterial gene regulation has probably been underestimated; indeed, bacteria are able to produce, by ribosomal synthesis or surface protein degradation, an extraordinary variety of peptides which are released outside bacteria and among which, some are pheromones that mediate cell-to-cell communication. The review aims at giving an updated overview of these peptide-dependant communication pathways. More specifically, it follows the whole peptide circuit from the peptide production and secretion in the extracellular medium to its interaction with sensors at bacterial surface or re-import into the bacteria where it plays its regulation role. In recent years, as we have accumulated more knowledge about these systems, it has become apparent that they are more complex than they first appeared. For this reason, more research on peptide-dependant pathways is needed to develop new strategies for controlling functions of interest in Gram-positive bacteria. In particular, such research could lead to alternatives to the use of antibiotics against pathogenic bacteria. In perspective, the review identifies new research questions that emerge in this field and that have to be addressed. PMID:25198780

  9. Molecular probe technology detects bacteria without culture

    Directory of Open Access Journals (Sweden)

    Hyman Richard W

    2012-03-01

    Full Text Available Abstract Background Our ultimate goal is to detect the entire human microbiome, in health and in disease, in a single reaction tube, and employing only commercially available reagents. To that end, we adapted molecular inversion probes to detect bacteria using solely a massively multiplex molecular technology. This molecular probe technology does not require growth of the bacteria in culture. Rather, the molecular probe technology requires only a sequence of forty sequential bases unique to the genome of the bacterium of interest. In this communication, we report the first results of employing our molecular probes to detect bacteria in clinical samples. Results While the assay on Affymetrix GenFlex Tag16K arrays allows the multiplexing of the detection of the bacteria in each clinical sample, one Affymetrix GenFlex Tag16K array must be used for each clinical sample. To multiplex the clinical samples, we introduce a second, independent assay for the molecular probes employing Sequencing by Oligonucleotide Ligation and Detection. By adding one unique oligonucleotide barcode for each clinical sample, we combine the samples after processing, but before sequencing, and sequence them together. Conclusions Overall, we have employed 192 molecular probes representing 40 bacteria to detect the bacteria in twenty-one vaginal swabs as assessed by the Affymetrix GenFlex Tag16K assay and fourteen of those by the Sequencing by Oligonucleotide Ligation and Detection assay. The correlations among the assays were excellent.

  10. Competition for hydrogen by human faecal bacteria: evidence for the predominance of methane producing bacteria.

    OpenAIRE

    Strocchi, A; Furne, J K; Ellis, C J; Levitt, M D

    1991-01-01

    Studies of sludge have shown that some species of sulphate reducing bacteria outcompete methane producing bacteria for the common substrate H2. A similar competition may exist in human faeces where the methane (CH4) producing status of an individual depends on the faecal concentration of sulphate reducing bacteria. To determine if non-methanogenic faeces outcompete CH4 producing faeces for H2, aliquots of each type of faeces were incubated alone or mixed together, with or without addition of ...

  11. Prediction Markets

    DEFF Research Database (Denmark)

    Horn, Christian Franz; Ivens, Bjørn Sven; Ohneberg, Michael;

    2014-01-01

    In recent years, Prediction Markets gained growing interest as a forecasting tool among researchers as well as practitioners, which resulted in an increasing number of publications. In order to track the latest development of research, comprising the extent and focus of research, this article...... provides a comprehensive review and classification of the literature related to the topic of Prediction Markets. Overall, 316 relevant articles, published in the timeframe from 2007 through 2013, were identified and assigned to a herein presented classification scheme, differentiating between descriptive...... works, articles of theoretical nature, application-oriented studies and articles dealing with the topic of law and policy. The analysis of the research results reveals that more than half of the literature pool deals with the application and actual function tests of Prediction Markets. The results are...

  12. Swimming of bacteria under dielectrophoresis

    Science.gov (United States)

    Tran, Ngoc Phu; Marcos, Marcos

    In this work, we present a model to predict the response of a swimming helically flagellated bacterium to a unidirectional dielectrophoretic (DEP) force with its strength varying linearly in space. We employ resistive force theory to compute the hydrodynamic force on the flagellar bundle, and the effects of DEP force and rotational diffusion are examined using the Fokker-Planck equation. The DEP force greatly contributes to the reorientation of the bacterium such that the bacterium's primary axis is aligned with the direction of the force. Interestingly, when the DEP strength varies perpendicularly to the direction of the force, the bacterium's primary axis is no longer aligned with the DEP force, which results in a translation of the bacterium perpendicular to its primary axis. Finally, we show the feasibility to utilize this phenomenon to achieve bacterial focusing. The full name of the second author is MARCOS.

  13. Antioxidant activity of Sphaerococcus coronopifolius associated bacteria

    Directory of Open Access Journals (Sweden)

    Nádia Fino

    2014-06-01

    Full Text Available Associated bacteria living on macroalgae surfaces are an interesting source of new secondary metabolites with biological activities. The aim of this study was the isolation and identification of epiphytic bacteria from the marine algae Sphaerococcus coronopifolius and the evaluation of the antioxidant activity of the bacteria extracts. The identification of epiphytic bacteria was determined by 16S rRNA gene sequencing. Bacteria extracts were obtained with methanol and dichloromethane (1:1 extraction. Antioxidant activity was evaluated by quantification of total phenolic content (TPC, 2,2-diphenyl-1-picrylhydrazyl (DPPH radical scavenging activity and oxygen radical absorbent capacity (ORAC. The extracts with higher antioxidant activity were tested on MCF-7 and HepG-2 cell lines in oxidative stress conditions induced by H2O2 at 0.2 mM and 0.5 mM, respectively. In total were isolated 21 Sphaerococcus coronopifolius associated bacteria and identified as Vibrio sp. (28.57%, Shewanella sp. (23.81%, Pseudoalteromonas sp. (19.05%, Bacillus sp. (9.52% and Halomonas sp. (9.52%. Two (9.52% of them presented less than 90% Basic Local Alignment Search Tool (BLAST match. The epiphytic bacteria with the most antioxidant potential evaluated by ORAC and DPPH methods were Sp2, Sp12, Sp23, Sp25 and Sp27. The strain Sp4 show high antioxidant activity in all antioxidant methods (ORAC, DPPH and TPC. In oxidative stress conditions on MCF-7 cell line, the extracts of bacteria (1mg.ml-1: 24hours Sp4 (16.15%, Sp25 (17.95% and Sp27 (10.65% prevented the cell death induced by H2O2. In the HepG-2 cell line was the extracts of Sp2 (9.01%, Sp4 (11.21%, Sp12 (7.20% and Sp23 (8.81% bacteria that high prevented the oxidative stress condition induced by H2O2. In conclusion, the Sphaerococcus coronopifolius associated bacteria can be an interesting and excellent source of marine natural compounds with antioxidant activity.

  14. Horizontal DNA transfer from bacteria to eukaryotes and a lesson from experimental transfers.

    Science.gov (United States)

    Suzuki, Katsunori; Moriguchi, Kazuki; Yamamoto, Shinji

    2015-12-01

    Horizontal gene transfer (HGT) is widespread among bacteria and plays a key role in genome dynamics. HGT is much less common in eukaryotes, but is being reported with increasing frequency in eukaryotes. The mechanism as to how eukaryotes acquired genes from distantly related organisms remains obscure yet. This paper cites examples of bacteria-derived genes found in eukaryotic organisms, and then describes experimental DNA transports to eukaryotes by bacterial type 4 secretion systems in optimized conditions. The mechanisms of the latter are efficient, quite reproducible in vitro and predictable, and thereby would provide insight into natural HGT and to the development of new research tools. PMID:26291765

  15. Accelerated evolutionary rate in sulfur-oxidizing endosymbiotic bacteria associated with the mode of symbiont transmission.

    Science.gov (United States)

    Peek, A S; Vrijenhoek, R C; Gaut, B S

    1998-11-01

    The nearly neutral theory of molecular evolution predicts that the rate of nucleotide substitution should accelerate in small populations at sites under low selective constraint. We examined these predictions with respect to the relative population sizes for three bacterial life histories within chemolithoautotrophic sulfur-oxidizing bacteria: (1) free-living bacteria, (2) environmentally captured symbionts, and (3) maternally transmitted symbionts. Both relative rates of nucleotide substitution and relative ratios of loop, stem, and domain substitutions from 1,165 nt of the small-subunit 16S rDNA were consistent with expectations of the nearly neutral theory. Relative to free-living sulfur-oxidizing autotrophic bacteria, the maternally transmitted symbionts have faster substitution rates overall and also in low-constraint domains of 16S rDNA. Nucleotide substitition rates also differ between loop and stem positions. All of these findings are consistent with the predictions that these symbionts have relatively small effective population sizes. In contrast, the rates of nucleotide substitution in environmentally captured symbionts are slower, particularly in high-constraint domains, than in free-living bacteria. PMID:12572615

  16. Magnetosome chain superstructure in uncultured magnetotactic bacteria

    International Nuclear Information System (INIS)

    Magnetotactic bacteria produce magnetosomes, which are magnetic particles enveloped by biological membranes, in a highly controlled mineralization process. Magnetosomes are used to navigate in magnetic fields by a phenomenon called magnetotaxis. Two levels of organization and control are recognized in magnetosomes. First, magnetotactic bacteria create a spatially distinct environment within vesicles defined by their membranes. In the vesicles, the bacteria control the size, composition and purity of the mineral content of the magnetic particles. Unique crystal morphologies are produced in magnetosomes as a consequence of this bacterial control. Second, magnetotactic bacteria organize the magnetosomes in chains within the cell body. It has been shown in a particular case that the chains are positioned within the cell body in specific locations defined by filamentous cytoskeleton elements. Here, we describe an additional level of organization of the magnetosome chains in uncultured magnetotactic cocci found in marine and freshwater sediments. Electron microscopy analysis of the magnetosome chains using a goniometer showed that the magnetic crystals in both types of bacteria are not oriented at random along the crystal chain. Instead, the magnetosomes have specific orientations relative to the other magnetosomes in the chain. Each crystal is rotated either 60°, 180° or 300° relative to their neighbors along the chain axis, causing the overlapping of the (1 1 1) and (1-bar 1-bar 1-bar) capping faces of neighboring crystals. We suggest that genetic determinants that are not present or active in bacteria with magnetosomes randomly rotated within a chain must be present in bacteria that organize magnetosomes so precisely. This particular organization may also be used as an indicative biosignature of magnetosomes in the study of magnetofossils in the cases where this symmetry is observed

  17. Nutritional Interdependence Among Rumen Bacteria During Cellulose Digestion In Vitro

    OpenAIRE

    Miura, Hideki; HORIGUCHI, Masaaki; Ogimoto, Keiji; MATSUMOTO, Tatsuro

    1983-01-01

    A study has been made of the promoting effect of starch on cellulose digestion by mixed rumen bacteria in a cellulose-urea medium. Starch supplementation of the medium promoted the growth of bacteria that required neither amino acids (AA) nor branched-chain fatty acids (BrFA). The growth of these bacteria was followed by the growth of AA-dependent bacteria, AA- or BrFA-dependent bacteria, BrFA-producing bacteria, and finally, BrFA-dependent cellulolytic bacteria. Population changes of these b...

  18. Method of Detecting Coliform Bacteria and Escherichia Coli Bacteria from Reflected Light

    Science.gov (United States)

    Vincent, Robert (Inventor)

    2013-01-01

    The present invention relates to a method of detecting coliform bacteria in water from reflected light and a method of detecting Eschericha Coli bacteria in water from reflected light, and also includes devices for the measurement, calculation and transmission of data relating to that method.

  19. Bacteria and plutonium in marine environments

    International Nuclear Information System (INIS)

    Microbes are important in geochemical cycling of many elements. Recent reports emphasize biogenous particulates and bacterial exometabolites as controlling oceanic distribution of plutonium. Bacteria perform oxidation/reduction reactions on metals such as mercury, nickel, lead, copper, and cadmium. Redox transformations or uptake of Pu by marine bacteria may well proceed by similar mechanisms. Profiles of water samples and sediment cores were obtained along the continental shelf off Nova Scotia and in the Gulf of St. Lawrence. Profiles of water samples, and sediment cores were obtained. Epifluorescent microscopy was used to view bacteria (from water or sediment) after concentration on membrane filters and staining with acridine orange. Radiochemical analyses measured Pu in sediments and water samples. Studies of 237Pu uptake used a strain of Leucothrix mucor isolated from a macroalga. Enumeration shows bacteria to range 104 to 105 cells/ml in seawater or 107 to 108 cells/gram of sediment. These numbers are related to the levels and distrbution of Pu in the samples. In cultures of L. mucor amended with Pu atom concentrations approximating those present in open ocean environments, bacterial cells concentrated 237Pu slower and to lower levels than did clay minerals, glass beads, or phytoplankton. These data further clarify the role of marine bacteria in Pu biogeochemistry

  20. Molecular analysis of deep subsurface bacteria

    International Nuclear Information System (INIS)

    Deep sediments samples from site C10a, in Appleton, and sites, P24, P28, and P29, at the Savannah River Site (SRS), near Aiken, South Carolina were studied to determine their microbial community composition, DNA homology and mol %G+C. Different geological formations with great variability in hydrogeological parameters were found across the depth profile. Phenotypic identification of deep subsurface bacteria underestimated the bacterial diversity at the three SRS sites, since bacteria with the same phenotype have different DNA composition and less than 70% DNA homology. Total DNA hybridization and mol %G+C analysis of deep sediment bacterial isolates suggested that each formation is comprised of different microbial communities. Depositional environment was more important than site and geological formation on the DNA relatedness between deep subsurface bacteria, since more 70% of bacteria with 20% or more of DNA homology came from the same depositional environments. Based on phenotypic and genotypic tests Pseudomonas spp. and Acinetobacter spp.-like bacteria were identified in 85 million years old sediments. This suggests that these microbial communities might have been adapted during a long period of time to the environmental conditions of the deep subsurface

  1. Fossil bacteria in Xuanlong iron ore deposits of Hebei Province

    Institute of Scientific and Technical Information of China (English)

    DAI Yongding; SONG Haiming; SHEN Jiying

    2004-01-01

    Discovered in Early Proterozoic Xuanlong iron ore deposits are six genera of fossil iron bacteria, i. e. sphere (coenobium of) rod-shaped (monomer) Naumanniella, ellipsoid elliptical Ochrobium, sphere spherical Siderocapsa and chain spherical Siderococcus, chain rod-shaped Leptothrix and Lieskeella, and six genera of fossil blue bacteria, namely sphere spherical Gloeocapsa, Synechocystis and Globobacter, chain spherical Anabaena and Nostoc, and constrictive septate tubular Nodularia. The biomineralized monomers and coenobia of the two categories of bacteria, together with hematite plates made up the bacteria pelletal, bacteria silky,bacteria fibrous and clasty bacteria pelletal textural lamina. The bacteria pelletal laminae combined with other bacteria laminae to make up oncolite, stromatolite and laminate. The precipitation of iron oxide was accelerated due to iron and blue bacteria cohabiting on microbial film or mat. The Xuanlong iron ore deposits are microbial binding ore deposits of ocean source.

  2. Inhibition of seafood-borne bacteria in cooked mackerel (Rastrelliger kanagurta) fish meat by lactic acid bacteria

    OpenAIRE

    Kanappan, S.; G. Gopikrishna

    2008-01-01

    Antagonistic activity of lactic acid bacteria (LAB) namely Streptococcus faecalis, Pediococcus cerevisiae and Lactobacillus casei was tested against seafood-borne bacteria such as Staphylococcus aureus, Bacillus cereus, Escherichia coli, Clostridium perfringens and Listeria monocytogenes. Three lactic acid bacteria such as Streptococcus faecalis, Lactobacillus casei and Pediococcus cerevisiae were coated on cooked mackerel meat, individually and in combination against fish-borne bacteria. S. ...

  3. Using Fluorescent Viruses for Detecting Bacteria in Water

    Science.gov (United States)

    Tabacco, Mary Beth; Qian, Xiaohua; Russo, Jaimie A.

    2009-01-01

    A method of detecting water-borne pathogenic bacteria is based partly on established molecular-recognition and fluorescent-labeling concepts, according to which bacteria of a species of interest are labeled with fluorescent reporter molecules and the bacteria can then be detected by fluorescence spectroscopy. The novelty of the present method lies in the use of bacteriophages (viruses that infect bacteria) to deliver the fluorescent reporter molecules to the bacteria of the species of interest.

  4. Applications of Magnetosomes Synthesized by Magnetotactic Bacteria in Medicine

    OpenAIRE

    EdouardAlphandéry

    2014-01-01

    Magnetotactic bacteria belong to a group of bacteria that synthesize iron oxide nanoparticles covered by biological material that are called magnetosomes. These bacteria use the magnetosomes as a compass to navigate in the direction of the earth’s magnetic field. This compass helps the bacteria to find the optimum conditions for their growth and survival. Here, we review several medical applications of magnetotactic bacteria and magnetosomes, such as those in magnetic resonance imaging (MRI),...

  5. Bacteriocins From Lactic Acid Bacteria: Interest For Food Products Biopreservation

    OpenAIRE

    Dortu, C.; Thonart, Philippe

    2009-01-01

    Bacteriocins from lactic acid bacteria: interest for food products biopreservation. Bacteriocins from lactic acid bacteria are low molecular weight antimicrobial peptides. They have inhibitory activity against the bacteria that are closed related to the producer strains and a narrow inhibitory spectrum. Nevertheless, most of them have activity against some food-born pathogenic bacteria as Listeria monocytogenes. The application of bacteriocins or bacteriocin producing lactic acid bacteria in ...

  6. Quantification and Qualification of Bacteria Trapped in Chewed Gum

    OpenAIRE

    Wessel, Stefan W.; van der Mei, Henny C.; Morando, David; Slomp, Anje M.; van de Belt-Gritter, Betsy; Maitra, Amarnath; Busscher, Henk J.

    2015-01-01

    Chewing of gum contributes to the maintenance of oral health. Many oral diseases, including caries and periodontal disease, are caused by bacteria. However, it is unknown whether chewing of gum can remove bacteria from the oral cavity. Here, we hypothesize that chewing of gum can trap bacteria and remove them from the oral cavity. To test this hypothesis, we developed two methods to quantify numbers of bacteria trapped in chewed gum. In the first method, known numbers of bacteria were finger-...

  7. New insights into regulation of the tryptophan biosynthetic operon in Gram-positive bacteria.

    Science.gov (United States)

    Gutierrez-Preciado, A; Jensen, R A; Yanofsky, C; Merino, E

    2005-08-01

    The tryptophan operon of Bacillus subtilis serves as an excellent model for investigating transcription regulation in Gram-positive bacteria. In this article, we extend this knowledge by analyzing the predicted regulatory regions in the trp operons of other fully sequenced Gram-positive bacteria. Interestingly, it appears that in eight of the organisms examined, transcription of the trp operon appears to be regulated by tandem T-box elements. These regulatory elements have recently been described in the trp operons of two bacterial species. Single T-box elements are commonly found in Gram-positive bacteria in operons encoding aminoacyl tRNA synthetases and proteins performing other functions. Different regulatory mechanisms appear to be associated with variations of trp gene organization within the trp operon. PMID:15953653

  8. All ecosystems potentially host electrogenic bacteria.

    Science.gov (United States)

    Chabert, Nicolas; Amin Ali, Oulfat; Achouak, Wafa

    2015-12-01

    Instead of requiring metal catalysts, MFCs utilize bacteria that oxidize organic matter and either transfer electrons to the anode or take electrons from the cathode. These devices are thus based on a wide microbial diversity that can convert a large array of organic matter components into sustainable and renewable energy. A wide variety of explored environments were found to host electrogenic bacteria, including extreme environments. In the present review, we describe how different ecosystems host electrogenic bacteria, as well as the physicochemical, electrochemical and biological parameters that control the currents from MFCs. We also report how using new molecular techniques allowed characterization of electrochemical biofilms and identification of potentially new electrogenic species. Finally we discuss these findings in the context of future research directions. PMID:26298511

  9. Urban ants and transportation of nosocomial bacteria.

    Science.gov (United States)

    Rodovalho, Cynara M; Santos, Ana L; Marcolino, Marcus T; Bonetti, Ana M; Brandeburgo, Malcon A M

    2007-01-01

    Many ant species displaying synanthropic behavior that have successfully dispersed in urban areas can cause problems in hospitals by acting as bacterial vectors. In this study, we encountered bacteria on ants collected at the Universidade Federal de Uberlândia hospital, in the campus and at households nearby. The ants were identified as Tapinoma melanocephalum (Fabricius) and Camponotus vittatus (Forel) (Hymenoptera: Formicidae) and the bacterial strains found here belong to the group of the coagulase-positive staphylococcus, coagulase-negative staphylococcus and gram negative bacilli, including antimicrobial drug-resistant strains. An investigation of the bacteria found in the ants and in the environment revealed that some ants carried non-isolated bacteria from the same environment and with high levels of resistance, evidencing the transmission potential of these insects. PMID:17710329

  10. Revisiting the Cape Cod Bacteria Injection Experiment Using a Stochastic Modeling Approach

    Energy Technology Data Exchange (ETDEWEB)

    Maxwell, R M; Welty, C; Harvey, R W

    2006-11-22

    Bromide and resting-cell bacteria tracer tests carried out in a sand and gravel aquifer at the USGS Cape Cod site in 1987 were reinterpreted using a three-dimensional stochastic approach and Lagrangian particle tracking numerical methods. Bacteria transport was strongly coupled to colloid filtration through functional dependence of local-scale colloid transport parameters on hydraulic conductivity and seepage velocity in a stochastic advection-dispersion/attachment-detachment model. Information on geostatistical characterization of the hydraulic conductivity (K) field from a nearby plot was utilized as input that was unavailable when the original analysis was carried out. A finite difference model for groundwater flow and a particle-tracking model of conservative solute transport was calibrated to the bromide-tracer breakthrough data using the aforementioned geostatistical parameters. An optimization routine was utilized to adjust the mean and variance of the lnK field over 100 realizations such that a best fit of a simulated, average bromide breakthrough curve is achieved. Once the optimal bromide fit was accomplished (based on adjusting the lnK statistical parameters in unconditional simulations), a stochastic particle-tracking model for the bacteria was run without adjustments to the local-scale colloid transport parameters. Good predictions of the mean bacteria breakthrough data were achieved using several approaches for modeling components of the system. Simulations incorporating the recent Tufenkji and Elimelech [1] equation for estimating single collector efficiency were compared to those using the Rajagopalan and Tien [2] model. Both appeared to work equally well at predicting mean bacteria breakthrough using a constant mean bacteria diameter for this set of field conditions, with the Rajagopalan and Tien model yielding approximately a 30% lower peak concentration and less tailing than the Tufenkji and Elimelech formulation. Simulations using a distribution

  11. Theory of periodic swarming of bacteria: Application to Proteus mirabilis

    Science.gov (United States)

    Czirók, A.; Matsushita, M.; Vicsek, T.

    2001-03-01

    The periodic swarming of bacteria is one of the simplest examples for pattern formation produced by the self-organized collective behavior of a large number of organisms. In the spectacular colonies of Proteus mirabilis (the most common species exhibiting this type of growth), a series of concentric rings are developed as the bacteria multiply and swarm following a scenario that periodically repeats itself. We have developed a theoretical description for this process in order to obtain a deeper insight into some of the typical processes governing the phenomena in systems of many interacting living units. Our approach is based on simple assumptions directly related to the latest experimental observations on colony formation under various conditions. The corresponding one-dimensional model consists of two coupled differential equations investigated here both by numerical integrations and by analyzing the various expressions obtained from these equations using a few natural assumptions about the parameters of the model. We determine the phase diagram corresponding to systems exhibiting periodic swarming, and discuss in detail how the various stages of the colony development can be interpreted in our framework. We point out that all of our theoretical results are in excellent agreement with the complete set of available observations. Thus the present study represents one of the few examples where self-organized biological pattern formation is understood within a relatively simple theoretical approach, leading to results and predictions fully compatible with experiments.

  12. Biodegradation of Complex Bacteria on Phenolic Derivatives in River Water

    Institute of Scientific and Technical Information of China (English)

    GUANG-HUA LU; CHAO WANG; ZHE SUN

    2009-01-01

    Objective To isolate, incubate, and identify 4-chlorophenol-degrading complex bacteria, determine the tolerance of these bacteria to phenolic derivatives and study their synergetic metabolism as well as the aboriginal microbes and co-metabolic degradation of mixed chlorophenols in river water. Methods Microbial community of complex bacteria was identified by plate culture observation techniques and Gram stain method. Bacterial growth inhibition test was used to determine the tolerance of complex bacteria to toxicants. Biodegradability of phenolic derivatives was determined by adding 4-chlorophenol-degrading bacteria in river water. Results The complex bacteria were identified as Mycopiana, Alcaligenes, Pseudvmonas, and Flavobacterium. The domesticated complex bacteria were more tolerant to phenolic derivatives than the aboriginal bacteria from Qinhuai River. The biodegradability of chlorophenols, dihydroxybenzenes and nitrophenols under various aquatic conditions was determined and compared. The complex bacteria exhibited a higher metabolic efficiency on chemicals than the aboriginal microbes, and the final removal rate of phenolic derivatives was increased at least by 55% when the complex bacteria were added into river water. The metabolic relationship between dominant mixed bacteria and river bacteria was studied. Conclusion The complex bacteria domesticated by 4-chlorophenol can grow and be metabolized to take other chlorophenols, dihydroxybenzenes and nitrophenols as the sole carbon and energy source. There is a synergetic metabolism of most compounds between the aboriginal microbes in river water and the domesticated complex bacteria. 4-chlorophenol-degrading bacteria can co-metabolize various chlorophenols in river water.

  13. Modulating immune responses with probiotic bacteria.

    Science.gov (United States)

    Matsuzaki, T; Chin, J

    2000-02-01

    For many years, probiotic bacteria have been known to confer health benefits to the consumer. One possible mechanism for this may be the ability of probiotic bacteria to modulate immune responses. Oral administration of Lactobacillus casei strain Shirota (LcS) has been found to enhance innate immunity by stimulating the activity of splenic NK cells. Oral feeding with killed LcS was able to stimulate the production of Th1 cytokines, resulting in repressed production of IgE antibodies against Ovalbumin in experimental mice. The ability to switch mucosal immune responses towards Th1 with probiotic bacteria provides a strategy for treatment of allergic disorders. Growth of Meth A tumour cells in the lungs was also inhibited by intrapleural injection of LcS. Oral administration of other probiotic bacteria, such as Streptococcus thermophilus (St), Lactobacillus fermentum (Lf) and yeast (Y), elicited different immune responses. Mice that were prefed yeast or Lf followed by feeding with ovalbumin (OVA) responded better to vaccination with OVA than mice not given either probiotic or OVA or mice that had been prefed only OVA. However, antibody responses were significantly suppressed in response to vaccination with OVA in mice that had been prefed yeast followed by yeast and OVA as well as mice prefed Lf followed by Lf and OVA. Prefeeding St followed by OVA feeding enhanced cellular immune responses against ovalbumin. In contrast, mice prefed St followed by St + OVA were hyporesponsive against OVA. While antigen feeding alone appears to prime for an immune response, cofeeding antigen with probiotic bacteria can suppress both antibody and cellular immune responses and may provide an efficacious protocol to attenuate autoimmune diseases, such as experimental allergic encephalomyelitis, by jointly dosing with myelin basic protein and probiotic bacteria. PMID:10651931

  14. Bacteria Provide Cleanup of Oil Spills, Wastewater

    Science.gov (United States)

    2010-01-01

    Through Small Business Innovation Research (SBIR) contracts with Marshall Space Flight Center, Micro-Bac International Inc., of Round Rock, Texas, developed a phototrophic cell for water purification in space. Inside the cell: millions of photosynthetic bacteria. Micro-Bac proceeded to commercialize the bacterial formulation it developed for the SBIR project. The formulation is now used for the remediation of wastewater systems and waste from livestock farms and food manufacturers. Strains of the SBIR-derived bacteria also feature in microbial solutions that treat environmentally damaging oil spills, such as that resulting from the catastrophic 2010 Deepwater Horizon oil rig explosion in the Gulf of Mexico.

  15. Bacteria-Triggered Release of Antimicrobial Agents

    DEFF Research Database (Denmark)

    Komnatnyy, Vitaly V.; Chiang, Wen-Chi; Tolker-Nielsen, Tim;

    2014-01-01

    Medical devices employed in healthcare practice are often susceptible to microbial contamination. Pathogenic bacteria may attach themselves to device surfaces of catheters or implants by formation of chemically complex biofilms, which may be the direct cause of device failure. Extracellular...... material is demonstrated by the bacteria‐triggered release of antibiotics to control bacterial populations and signaling molecules to modulate quorum sensing. The self‐regulating system provides the basis for the development of device‐relevant polymeric materials, which only release antibiotics in...... dependency of the titer of bacteria surrounding the medical device....

  16. Degradation of monomethylhydrazine by two soil bacteria

    International Nuclear Information System (INIS)

    It has been reported that three heterotrophic soil bacteria had the capacity to degrade hydrazine. One of these organisms, Achromobacter sp., degraded hydrazine to N2 gas. Furthermore, it was reported that monomethylhydrazine (MMH) in Arredondo fine sand was mineralized to CO2, and that such degradation is microbial. However, microorganisms that degrade MMH have not been reported. MMH and hydrazine are chemically similar to one another. Therefore, this study was initiated to test the capacity of the two hydrazine-degrading bacteria, Achromobacter sp. and Pseudomonas sp., to degrade MMH

  17. Bacterial biofilms. Bacteria Quorum sensing in biofilms

    Directory of Open Access Journals (Sweden)

    E. S. Vorobey

    2012-03-01

    Full Text Available Data on biofilms, their structure and properties, peculiarities of formation and interaction between microorganisms in the film are presented. Information on discovery and study of biofilms, importance of biofilms in the medical and clinical microbiology are offered. The data allow to interpret biofilm as a form of existence of human normal microflora. For the exchange of information within the biofilm between the individual cells of the same or different species bacteria use the signal molecules of the Quorum sensing system. Coordination of bacterial cells activity in the biofilms gives them significant advantages: in the biofilms bacteria are protected from the influence of the host protective factors and the antibacterial drugs.

  18. Functional Encyclopedia of Bacteria and Archaea

    Energy Technology Data Exchange (ETDEWEB)

    Blow, M. J.; Deutschbauer, A. M.; Hoover, C. A.; Lamson, J.; Lamson, J.; Price, M. N.; Waters, J.; Wetmore, K. M.; Bristow, J.; Arkin, A. P.

    2013-03-20

    Bacteria and Archaea exhibit a huge diversity of metabolic capabilities with fundamental importance in the environment, and potential applications in biotechnology. However, the genetic bases of these capabilities remain unclear due largely to an absence of technologies that link DNA sequence to molecular function. To address this challenge, we are developing a pipeline for high throughput annotation of gene function using mutagenesis, growth assays and DNA sequencing. By applying this pipeline to annotate gene function in 50 diverse microbes we hope to discover thousands of new gene functions and produce a proof of principle `Functional Encyclopedia of Bacteria and Archaea?.

  19. PIPS: pathogenicity island prediction software.

    Directory of Open Access Journals (Sweden)

    Siomar C Soares

    Full Text Available The adaptability of pathogenic bacteria to hosts is influenced by the genomic plasticity of the bacteria, which can be increased by such mechanisms as horizontal gene transfer. Pathogenicity islands play a major role in this type of gene transfer because they are large, horizontally acquired regions that harbor clusters of virulence genes that mediate the adhesion, colonization, invasion, immune system evasion, and toxigenic properties of the acceptor organism. Currently, pathogenicity islands are mainly identified in silico based on various characteristic features: (1 deviations in codon usage, G+C content or dinucleotide frequency and (2 insertion sequences and/or tRNA genetic flanking regions together with transposase coding genes. Several computational techniques for identifying pathogenicity islands exist. However, most of these techniques are only directed at the detection of horizontally transferred genes and/or the absence of certain genomic regions of the pathogenic bacterium in closely related non-pathogenic species. Here, we present a novel software suite designed for the prediction of pathogenicity islands (pathogenicity island prediction software, or PIPS. In contrast to other existing tools, our approach is capable of utilizing multiple features for pathogenicity island detection in an integrative manner. We show that PIPS provides better accuracy than other available software packages. As an example, we used PIPS to study the veterinary pathogen Corynebacterium pseudotuberculosis, in which we identified seven putative pathogenicity islands.

  20. Disk susceptibility testing of slow-growing anaerobic bacteria.

    Science.gov (United States)

    Kwok, Y Y; Tally, F P; Sutter, V L; Finegold, S M

    1975-01-01

    The susceptibility of 55 strains of slow-growing anaerobes to eight clinically useful or potentially useful antibiotics was determined by agar dilution and disk diffusion tests. Strains of the genera Peptococcus, Peptostreptococcus, Megasphaera, Veillonella, Eubacterium, Bifidobacterium, Clostridium, and Fusobacterium were included. All strains were susceptible to chloramphenicol, but varied in their susceptibility to penicillin, lincomycin, clindamycin, tetracyclines, and vancomycin. Correlation between minimal inhibitory concentration and inhibition zone diameters was generally good. Prediction of susceptibility based on zone diameter measurements appeared satisfactory. Although routine susceptibility testing of anaerobic bacteria is not recommended, there are circumstances where such testing is relevant to the clinical situation. For those laboratories ill-equipped to do dilution tests, a disk diffusion test would give relatively accurate preliminary information. Quantitative susceptibility tests could then be done by a reference laboratory. PMID:1137353

  1. Life with compass: diversity and biogeography of magnetotactic bacteria

    Energy Technology Data Exchange (ETDEWEB)

    Lin, Wei [Institute of Geology and Geophysics; Bazylinski, Dennis A [Ames Laboratory; Xiao, Tian [Chinese Academy of Sciences; Wu, Long-Fei [v; Pan, Yongxin [Institute of Geology and Geophysics

    2013-11-12

    Magnetotactic bacteria (MTB) are unique in their ability to synthesize intracellular nano-sized minerals of magnetite and/or greigite magnetosomes for magnetic orientation. Thus, they provide an excellent model system to investigate mechanisms of biomineralization. MTB play important roles in bulk sedimentary magnetism and have numerous versatile applications in paleoenvironmental reconstructions, and biotechnological and biomedical fields. Significant progress has been made in recent years in describing the composition of MTB communities and distribution through innovative cultivation-dependent and -independent techniques. In this review, the most recent contributions to the field of diversity and biogeography of MTB are summarized and reviewed. Emphasis is on the novel insights into various factors/processes potentially affecting MTB community distribution. An understanding of the present-day biogeography of MTB, and the ruling parameters of their spatial distribution, will eventually help us predict MTB community shifts with environmental changes and assess their roles in global iron cycling.

  2. Life with compass: diversity and biogeography of magnetotactic bacteria.

    Science.gov (United States)

    Lin, Wei; Bazylinski, Dennis A; Xiao, Tian; Wu, Long-Fei; Pan, Yongxin

    2014-09-01

    Magnetotactic bacteria (MTB) are unique in their ability to synthesize intracellular nano-sized minerals of magnetite and/or greigite magnetosomes for magnetic orientation. Thus, they provide an excellent model system to investigate mechanisms of biomineralization. MTB play important roles in bulk sedimentary magnetism and have numerous versatile applications in paleoenvironmental reconstructions, and biotechnological and biomedical fields. Significant progress has been made in recent years in describing the composition of MTB communities and distribution through innovative cultivation-dependent and -independent techniques. In this review, the most recent contributions to the field of diversity and biogeography of MTB are summarized and reviewed. Emphasis is on the novel insights into various factors/processes potentially affecting MTB community distribution. An understanding of the present-day biogeography of MTB, and the ruling parameters of their spatial distribution, will eventually help us predict MTB community shifts with environmental changes and assess their roles in global iron cycling. PMID:24148107

  3. Genetic and Biochemical Aspects of Ectoine Biosynthesis in Moderately Halophilic and Halotolerant Methylotrophic Bacteria

    Directory of Open Access Journals (Sweden)

    Valentina N. Khmelenina

    2010-01-01

    Full Text Available Problem statement: The cyclic imino acid ectoine is a widely distributed compatible solute synthesizing by halophilic and halotolerant bacteria to prevent osmotic stress at high external salinity. This water-keeping compound is used in a variety of commercial cosmetics and therapeutic products. Approach: Development of integrated, predictive functional model of the metabolic and regulatory netwoks of ectoine-producing microbes is an active area of research. In this article we present a brief overview of the current knowledge on genetic and biochemical aspects of ectoine biosynthesis in aerobic halophilic and halotolerant bacteria utilizing C1 compounds (methylotrophs. Although enzymology and genetics of the ectoine biosynthesis in methylotrophs are similar to other halophilic bacteria, the regulatory patterns are different. In all methylotrophic bacteria studied, the genes coding for specific enzymes of ectoine biosynthesis: Diaminobutyric Acid (DABA aminotransferase (EctB, DABA acetyltransferase (EctA and ectoine synthase (EctC are organized into ectABC or ectABC-ask, whith is linked to gene encoding Aspartokinase isozyme (Ask. Results: Remarkably, the methylotrophic bacteria possessing a four-gene cluster showed higher halotolerance and accumulated more ectoine than bacteria with a cluster composed of three genes. The DABA acetyltransferases from three methylotrophic species have been comparatively characterized. The properties of the enzymes correlate with eco-physiological and metabolic particularities of the host. Some elements of the regulatory system governing the ectoine pathway operation have been revealed in both methane and methanol utilizing bacteria. In Methylomicrobium alcaliphilum transcription of the ectABC-ask operon is initiated from two σ70-like promoters and controlled by the EctR, a MarR-type negative regulator. EctR orthologs were identified in genomes of several heterotrophic halophilic bacteria. Here

  4. Flux balance analysis of photoheterotrophic growth of purple nonsulfur bacteria relevant to biohydrogen production

    Energy Technology Data Exchange (ETDEWEB)

    Golomysova, Anastasia [Department of Biophysics, Faculty of Physics, Moscow State University, Moscow 119899 (Russian Federation); Gomelsky, Mark [Department of Molecular Biology, University of Wyoming, Laramie, WY 82071 (United States); Ivanov, Pavel S. [Department of Biophysics, Faculty of Physics, Moscow State University, Moscow 119899 (Russian Federation); Department of Molecular Biology, University of Wyoming, Laramie, WY 82071 (United States)

    2010-12-15

    Purple nonsulfur bacteria can produce hydrogen during photoheterotrophic growth on a variety of organic substrates. To facilitate metabolic engineering of this group of bacteria with the purpose of maximizing hydrogen production, we have developed the first comprehensive mathematical model of anaerobic photoheterotrophic metabolism. This model is a stoichiometric model to which Flux Balance Analysis also known as constraint-based analysis has been applied. Because Rhodobacter sphaeroides emerged as one of the best understood purple nonsulfur bacteria, we based our modeling on this species. However, the approach is readily applicable to other purple nonsulfur bacteria. The metabolic space used in model construction contains 314 reconstructed biochemical reactions and 287 compounds. The list of simulated metabolic pathways involves major carbon and nitrogen metabolic pathways. A distinctive feature of our model is that it considers maximization of two different cell objective functions, namely, biomass production rate, which is commonly used in flux balance models, and reductant removal rate, which is a unique feature of this model reflecting peculiarity of photoheterotrophic metabolism. The performance of this model has been assessed by comparing computed metabolic fluxes with experimental values obtained by several research groups who worked on various strains of purple nonsulfur bacteria and utilized different growth setups. The model testing revealed remarkably good agreement between the predicted and measured metabolic fluxes, which validates the presented model. (author)

  5. Oxidative Stress Parameters in Saliva and Its Association with Periodontal Disease and Types of Bacteria

    Directory of Open Access Journals (Sweden)

    Jose Manuel Almerich-Silla

    2015-01-01

    Full Text Available Objective. To determine the association between oxidative stress parameters with periodontal disease, bleeding, and the presence of different periodontal bacteria. Methods. A cross-sectional study in a sample of eighty-six patients, divided into three groups depending on their periodontal status. Thirty-three with chronic periodontitis, sixteen with gingivitis, and thirty-seven with periodontal healthy as control. Oxidative stress biomarkers (8-OHdG and MDA, total antioxidant capacity (TAOC, and the activity of two antioxidant enzymes (GPx and SOD were determined in saliva. Subgingival plaque samples were obtained from the deepest periodontal pocket and PCR was used to determine the presence of the 6 fimA genotypes of Porphyromonas gingivalis, Aggregatibacter actinomycetemcomitans, Tannerella forsythia, and Treponema denticola. Results. Periodontal disease was found to be associated with increased oxidative stress parameter levels. These levels rose according to the number and type of different periodontal bacteria found in the periodontal pockets. The presence of different types of periodontal bacteria is predictive independent variables in linear regresion models of oxidative stress parameters as dependent variable, above all 8-OHdG. Conclusions. Oxidative stress parameter levels are correlated with the presence of different types of bacteria. Determination of these levels and periodontal bacteria could be a potent tool for controlling periodontal disease development.

  6. Oxidative Stress Parameters in Saliva and Its Association with Periodontal Disease and Types of Bacteria

    Science.gov (United States)

    Almerich-Silla, Jose Manuel; Montiel-Company, Jose María; Pastor, Sara; Serrano, Felipe; Puig-Silla, Miriam; Dasí, Francisco

    2015-01-01

    Objective. To determine the association between oxidative stress parameters with periodontal disease, bleeding, and the presence of different periodontal bacteria. Methods. A cross-sectional study in a sample of eighty-six patients, divided into three groups depending on their periodontal status. Thirty-three with chronic periodontitis, sixteen with gingivitis, and thirty-seven with periodontal healthy as control. Oxidative stress biomarkers (8-OHdG and MDA), total antioxidant capacity (TAOC), and the activity of two antioxidant enzymes (GPx and SOD) were determined in saliva. Subgingival plaque samples were obtained from the deepest periodontal pocket and PCR was used to determine the presence of the 6 fimA genotypes of Porphyromonas gingivalis, Aggregatibacter actinomycetemcomitans, Tannerella forsythia, and Treponema denticola. Results. Periodontal disease was found to be associated with increased oxidative stress parameter levels. These levels rose according to the number and type of different periodontal bacteria found in the periodontal pockets. The presence of different types of periodontal bacteria is predictive independent variables in linear regresion models of oxidative stress parameters as dependent variable, above all 8-OHdG. Conclusions. Oxidative stress parameter levels are correlated with the presence of different types of bacteria. Determination of these levels and periodontal bacteria could be a potent tool for controlling periodontal disease development. PMID:26494938

  7. Transport of free and particulate-associated bacteria in karst

    Science.gov (United States)

    Mahler, B. J.; Personné, J.-C.; Lods, G. F.; Drogue, C.

    2000-12-01

    Karst aquifers, because of their unique hydrogeologic characteristics, are extremely susceptible to contamination by pathogens. Here we present the results of an investigation of contamination of a karst aquifer by fecal indicator bacteria. Two wells intercepting zones with contrasting effective hydraulic conductivities, as determined by pump test, were monitored both during the dry season and in response to a rain event. Samples were also collected from the adjacent ephemeral surface stream, which is known to be impacted by an upstream wastewater treatment plant after rainfall. Whole water and suspended sediment samples were analyzed for fecal coliforms and enterococci. During the dry season, pumping over a 2-day period resulted in increases in concentrations of fecal coliforms to greater than 10,000 CFU/100 ml in the high-conductivity well; enterococci and total suspended solids also increased, to a lesser degree. Toward the end of the pumping period, as much as 50% of the fecal coliforms were associated with suspended sediment. Irrigation of an up-gradient pine plantation with primary-treated wastewater is the probable source of the bacterial contamination. Sampling after a rain event revealed the strong influence of water quality of the adjacent Terrieu Creek on the ground water. Bacterial concentrations in the wells showed a rapid response to increased concentrations in the surface water, with fecal coliform concentrations in ground water ultimately reaching 60,000 CFU/100 ml. Up to 100% of the bacteria in the ground water was associated with suspended sediment at various times. The results of this investigation are evidence of the strong influence of surface water on ground water in karst terrain, including that of irrigation water. The large proportion of bacteria associated with particulates in the ground water has important implications for public health, as bacteria associated with particulates may be more persistent and more difficult to inactivate. The

  8. Bacteria in crude oil survived autoclaving and stimulated differentially by exogenous bacteria.

    Science.gov (United States)

    Gong, Xiao-Cui; Liu, Ze-Shen; Guo, Peng; Chi, Chang-Qiao; Chen, Jian; Wang, Xing-Biao; Tang, Yue-Qin; Wu, Xiao-Lei; Liu, Chun-Zhong

    2012-01-01

    Autoclaving of crude oil is often used to evaluate the hydrocarbon-degrading abilities of bacteria. This may be potentially useful for bioaugmentation and microbial enhanced oil recovery (MEOR). However, it is not entirely clear if "endogenous" bacteria (e.g., spores) in/on crude oil survive the autoclaving process, or influence subsequent evaluation of the hydrocarbon-degradation abilities of the "exogenous" bacterial strains. To test this, we inoculated autoclaved crude oil medium with six exogenous bacterial strains (three Dietzia strains, two Acinetobacter strains, and one Pseudomonas strain). The survival of the spore-forming Bacillus and Paenibacillus and the non-spore-forming mesophilic Pseudomonas, Dietzia, Alcaligenes, and Microbacterium was detected using a 16S rRNA gene clone library and terminal restriction fragment length polymorphism (T-RFLP) analysis. However, neither bacteria nor bacterial activity was detected in three controls consisting of non-inoculated autoclaved crude oil medium. These results suggest that detection of endogenous bacteria was stimulated by the six inoculated strains. In addition, inoculation with Acinetobacter spp. stimulated detection of Bacillus, while inoculation with Dietzia spp. and Pseudomonas sp. stimulated the detection of more Pseudomonas. In contrast, similar exogenous bacteria stimulated similar endogenous bacteria at the genus level. Based on these results, special emphasis should be applied to evaluate the influence of bacteria capable of surviving autoclaving on the hydrocarbon-degrading abilities of exogenous bacteria, in particular, with regard to bioaugmentation and MEOR. Bioaugmentation and MEOR technologies could then be developed to more accurately direct the growth of specific endogenous bacteria that may then improve the efficiency of treatment or recovery of crude oil. PMID:23028421

  9. Bacteria in crude oil survived autoclaving and stimulated differentially by exogenous bacteria.

    Directory of Open Access Journals (Sweden)

    Xiao-Cui Gong

    Full Text Available Autoclaving of crude oil is often used to evaluate the hydrocarbon-degrading abilities of bacteria. This may be potentially useful for bioaugmentation and microbial enhanced oil recovery (MEOR. However, it is not entirely clear if "endogenous" bacteria (e.g., spores in/on crude oil survive the autoclaving process, or influence subsequent evaluation of the hydrocarbon-degradation abilities of the "exogenous" bacterial strains. To test this, we inoculated autoclaved crude oil medium with six exogenous bacterial strains (three Dietzia strains, two Acinetobacter strains, and one Pseudomonas strain. The survival of the spore-forming Bacillus and Paenibacillus and the non-spore-forming mesophilic Pseudomonas, Dietzia, Alcaligenes, and Microbacterium was detected using a 16S rRNA gene clone library and terminal restriction fragment length polymorphism (T-RFLP analysis. However, neither bacteria nor bacterial activity was detected in three controls consisting of non-inoculated autoclaved crude oil medium. These results suggest that detection of endogenous bacteria was stimulated by the six inoculated strains. In addition, inoculation with Acinetobacter spp. stimulated detection of Bacillus, while inoculation with Dietzia spp. and Pseudomonas sp. stimulated the detection of more Pseudomonas. In contrast, similar exogenous bacteria stimulated similar endogenous bacteria at the genus level. Based on these results, special emphasis should be applied to evaluate the influence of bacteria capable of surviving autoclaving on the hydrocarbon-degrading abilities of exogenous bacteria, in particular, with regard to bioaugmentation and MEOR. Bioaugmentation and MEOR technologies could then be developed to more accurately direct the growth of specific endogenous bacteria that may then improve the efficiency of treatment or recovery of crude oil.

  10. Heterotrophic bacteria in drinking water distribution system: a review.

    Science.gov (United States)

    Chowdhury, Shakhawat

    2012-10-01

    The microbiological quality of drinking water in municipal water distribution systems (WDS) depends on several factors. Free residual chlorine and/or chloramines are typically used to minimize bacterial recontamination and/or regrowth in WDS. Despite such preventive measures, regrowth of heterotrophic (HPC) and opportunistic bacteria in bulk water and biofilms has yet to be controlled completely. No approach has shown complete success in eliminating biofilms or HPC bacteria from bulk water and pipe surfaces. Biofilms can provide shelter for pathogenic bacteria and protect these bacteria from disinfectants. Some HPC bacteria may be associated with aesthetic and non-life threatening diseases. Research to date has achieved important success in understanding occurrence and regrowth of bacteria in bulk water and biofilms in WDS. To achieve comprehensive understanding and to provide efficient control against bacteria regrowth, future research on bacteria regrowth dynamics and their implications is warranted. In this study, a review was performed on the literature published in this area. The findings and limitations of these papers are summarized. Occurrences of bacteria in WDS, factors affecting bacteria regrowth in bulk water and biofilms, bacteria control strategies, sources of nutrients, human health risks from bacterial exposure, modelling of bacteria regrowth and methods of bacteria sampling and detection and quantification are investigated. Advances to date are noted, and future research needs are identified. Finally, research directions are proposed to effectively control HPC and opportunistic bacteria in bulk water and biofilms in WDS. PMID:22076103

  11. Modelling the effect of lactic acid bacteria from starter- and aroma culture on growth of Listeria monocytogenes in cottage cheese.

    Science.gov (United States)

    Østergaard, Nina Bjerre; Eklöw, Annelie; Dalgaard, Paw

    2014-10-01

    Four mathematical models were developed and validated for simultaneous growth of mesophilic lactic acid bacteria from added cultures and Listeria monocytogenes, during chilled storage of cottage cheese with fresh- or cultured cream dressing. The mathematical models include the effect of temperature, pH, NaCl, lactic- and sorbic acid and the interaction between these environmental factors. Growth models were developed by combining new and existing cardinal parameter values. Subsequently, the reference growth rate parameters (μref at 25°C) were fitted to a total of 52 growth rates from cottage cheese to improve model performance. The inhibiting effect of mesophilic lactic acid bacteria from added cultures on growth of L. monocytogenes was efficiently modelled using the Jameson approach. The new models appropriately predicted the maximum population density of L. monocytogenes in cottage cheese. The developed models were successfully validated by using 25 growth rates for L. monocytogenes, 17 growth rates for lactic acid bacteria and a total of 26 growth curves for simultaneous growth of L. monocytogenes and lactic acid bacteria in cottage cheese. These data were used in combination with bias- and accuracy factors and with the concept of acceptable simulation zone. Evaluation of predicted growth rates of L. monocytogenes in cottage cheese with fresh- or cultured cream dressing resulted in bias-factors (Bf) of 1.07-1.10 with corresponding accuracy factor (Af) values of 1.11 to 1.22. Lactic acid bacteria from added starter culture were on average predicted to grow 16% faster than observed (Bf of 1.16 and Af of 1.32) and growth of the diacetyl producing aroma culture was on average predicted 9% slower than observed (Bf of 0.91 and Af of 1.17). The acceptable simulation zone method showed the new models to successfully predict maximum population density of L. monocytogenes when growing together with lactic acid bacteria in cottage cheese. 11 of 13 simulations of L

  12. Antimicrobial resistant bacteria in the food chain

    DEFF Research Database (Denmark)

    Wegener, Henrik Caspar

    Antimicrobials are used for treatment and prevention of disease in food animals and as feed additives for growth promotion. All uses lead to the development of resistant bacteria, some of which are pathogenic to humans. Current main concerns are with resistance in Salmonella and Campylobacter to...

  13. Radiographic markers - A reservoir for bacteria?

    Energy Technology Data Exchange (ETDEWEB)

    Tugwell, Jenna, E-mail: jenna.tugwell@googlemail.co [Department of Radiology, Ysbyty Gwynedd Hospital, Bangor, North Wales (United Kingdom); Maddison, Adele [Nuffield Health, Shrewsbury Hospital (United Kingdom)

    2011-05-15

    Introduction: Amongst the most frequently handled objects in the radiology department are radiographic markers. They are personal accessories used with every patient, and are kept in the radiographers pockets when not utilised. Upon enquiry it was discovered that many radiographers disregarded the potential of these accessories to become a vector for cross-contamination thus never or rarely clean them. The aims of this study were therefore to identify if radiographic markers are a reservoir for bacteria and to establish an effective cleaning method for decontaminating them. Methodology: 25 radiographers/student radiographers were selected for this study. Swabbing of their markers prior and post cleaning took place. The microbiology laboratory subsequently analyzed the results by quantifying and identifying the bacteria present. The participants also completed a closed questionnaire regarding their markers (e.g. frequency of cleaning and type of marker) to help specify the results gained from the swabbing procedure. Results: From the sample swabbed, 92% were contaminated with various organisms including Staphylococcus and Bacillus species, the amount of bacteria present ranged from 0 to >50 CFU. There were no significant differences between disinfectant wipes and alcohol gel in decontaminating the markers. Both successfully reduced their bacterial load, with 80% of the markers post cleaning having 0 CFU. Conclusion: The results indicated that radiographic markers can become highly contaminated with various organisms thus serve as a reservoir for bacteria. In addition, the markers need to be cleaned on a regular basis, with either disinfectant wipes or alcohol gel to reduce their bacterial load.

  14. Genetics of proteinases of lactic acid bacteria

    NARCIS (Netherlands)

    Kok, Jan; Venema, Gerhardus

    1988-01-01

    Because it is essential for good growth with concomitant rapid acid production, and for the production of flavorous peptides and amino acids, the proteolytic ability of lactic acid bacteria is of crucial importance for reliable dairy product quality. In view of this importance, considerable research

  15. Control of indigenous pathogenic bacteria in seafood

    DEFF Research Database (Denmark)

    Huss, Hans Henrik

    1997-01-01

    The pathogenic bacteria indigenous to the aquatic and general environment are listed. Their distribution in nature, prevalence in seafood and the possibilities for growth of these organisms in various types of products are outlined These data, combined with what is known regarding the epidemiology...

  16. Filamentous bacteria transport electrons over centimetre distances

    DEFF Research Database (Denmark)

    Pfeffer, Christian; Larsen, Steffen; Song, Jie;

    2012-01-01

    across centimetre-wide zones. Here we present evidence that the native conductors are long, filamentous bacteria. They abounded in sediment zones with electric currents and along their length they contained strings with distinct properties in accordance with a function as electron transporters. Living...

  17. Bacteria in ice may record climate change

    Institute of Scientific and Technical Information of China (English)

    2009-01-01

    @@ To many people, bacteria and climate change are like chalk and cheese: the srnallest creature versus one of the biggest phenomena on Earth. Not really.Scientists with the CAS Institute of Tibetan Plateau Research (ITP) and coworkers recently reported that small bugs deposited in ice and snow might tell how our climate has been changing.

  18. [Innovative treatments for multidrug-resistant bacteria].

    Science.gov (United States)

    Pierre, Tattevin; Aurélien, Lorleac'h; Matthieu, Revest

    2014-03-01

    The spread of multidrug-resistant bacteria has accelerated sharply in the last decade. According to the World Health Organization they are responsible for an estimated 25 000 deaths in Europe each year. In addition, few new antibiotics are under development, raising the spectrum of a return to the "pre-antibiotic era". Non antibiotic antibacterial agents have recently attracted renewed interest. The most promising candidates are: i) phages (bacteria-infecting viruses) have been widely used in Eastern European countries since the 1930s but come up against logistic and regulatory obstacles due to the evolutionary nature of these biologic agents, while convincing clinical data are lacking; ii) bacteriocines are smallantibacterialpeptidesproducedby numerous bacteria; some have a rapid bactericidal effect, good tolerability, and a limited impact on the commensal flora; however, clinical use of bacteriocines is complicated by their fragility, poor penetration, and substantial risk of resistance selection ; iii) antisense oligonucleo tides act by inactivating genes through specific interaction with a complementary DNA or RNA fragment, potentially allowing specific inhibition of selected bacterial virulence factors. However, this therapeutic class may be more suitable for viral or genetic diseases than for multidrug-resistant bacterial infections, owing to the difficulty of delivering them inside bacteria. PMID:26427289

  19. Collective Sensing-Capacity of Bacteria Populations

    CERN Document Server

    Einolghozati, Arash; Fekri, Faramarz

    2012-01-01

    The design of biological networks using bacteria as the basic elements of the network is initially motivated by a phenomenon called quorum sensing. Through quorum sensing, each bacterium performs sensing the medium and communicating it to others via molecular communication. As a result, bacteria can orchestrate and act collectively and perform tasks impossible otherwise. In this paper, we consider a population of bacteria as a single node in a network. In our version of biological communication networks, such a node would communicate with one another via molecular signals. As a first step toward such networks, this paper focuses on the study of the transfer of information to the population (i.e., the node) by stimulating it with a concentration of special type of a molecules signal. These molecules trigger a chain of processes inside each bacteria that results in a final output in the form of light or fluorescence. Each stage in the process adds noise to the signal carried to the next stage. Our objective is ...

  20. DISTRIBUTION OF PLASMIDS IN GROUNDWATER BACTERIA

    Science.gov (United States)

    Bacteria isolated from groundwater aquifer core materials of pristine aquifers at Lula and Pickett, Oklahoma, and from a site with a history of aromatic hydrocarbon contamination and natural renovation located at Conroe, Texas, were screened for the presence of plasmid Deoxyribon...

  1. Radiographic markers - A reservoir for bacteria?

    International Nuclear Information System (INIS)

    Introduction: Amongst the most frequently handled objects in the radiology department are radiographic markers. They are personal accessories used with every patient, and are kept in the radiographers pockets when not utilised. Upon enquiry it was discovered that many radiographers disregarded the potential of these accessories to become a vector for cross-contamination thus never or rarely clean them. The aims of this study were therefore to identify if radiographic markers are a reservoir for bacteria and to establish an effective cleaning method for decontaminating them. Methodology: 25 radiographers/student radiographers were selected for this study. Swabbing of their markers prior and post cleaning took place. The microbiology laboratory subsequently analyzed the results by quantifying and identifying the bacteria present. The participants also completed a closed questionnaire regarding their markers (e.g. frequency of cleaning and type of marker) to help specify the results gained from the swabbing procedure. Results: From the sample swabbed, 92% were contaminated with various organisms including Staphylococcus and Bacillus species, the amount of bacteria present ranged from 0 to >50 CFU. There were no significant differences between disinfectant wipes and alcohol gel in decontaminating the markers. Both successfully reduced their bacterial load, with 80% of the markers post cleaning having 0 CFU. Conclusion: The results indicated that radiographic markers can become highly contaminated with various organisms thus serve as a reservoir for bacteria. In addition, the markers need to be cleaned on a regular basis, with either disinfectant wipes or alcohol gel to reduce their bacterial load.

  2. The effects of bacteria on crystalline rock

    International Nuclear Information System (INIS)

    Many reactions involving inorganic minerals at water-rock interfaces have now been recognized to be bacterially mediated; these reactions could have a significant effect in the excavation of vaults for toxic and radioactive waste disposal. To investigate the role that bacteria play in the natural aqueous environment of crystalline rock the microbial growth factors of nutrition, energy and environment are described. Microbial activity has been investigated in Atomic Energy of Canada's Underground Research Laboratory (URL), situated in the Archean granitic Lac du Bonnet Batholith, Winnipeg, Manitoba. Faults, initiated in the Early Proterozoic, and later-formed fractures, provide ground-water pathways. Planktonic bacteria, free-swimming in the groundwater, have been observed in over 100 underground borehole samples. The number of bacteria varied from 103 to 105 mL-1 and appeared to decrease with depth and with increased salinity of the water. However, in the natural environment of deep (100-500 m) crystalline rocks, where nutrition is limited, formation of biofilms by sessile bacteria is a successful survival strategy. Natural biofilms at the URL and biofilms grown in bioreactors have been studied. The biofilms can accumulate different elements, depending upon the local environment. Precipitates of iron have been found in all the biofilms studied, where they are either passively accumulated or utilized as an energy source. Within the biofilm active and extensive biogeochemical immobilization of dissolved elements is controlled by distinct bacterial activities which are sufficiently discrete for hematite and siderite to be precipitated in close proximity

  3. Bioluminescent bacteria: lux genes as environmental biosensors

    OpenAIRE

    Nunes-Halldorson Vânia da Silva; Duran Norma Letícia

    2003-01-01

    Bioluminescent bacteria are widespread in natural environments. Over the years, many researchers have been studying the physiology, biochemistry and genetic control of bacterial bioluminescence. These discoveries have revolutionized the area of Environmental Microbiology through the use of luminescent genes as biosensors for environmental studies. This paper will review the chronology of scientific discoveries on bacterial bioluminescence and the current applications of bioluminescence in env...

  4. DETOXIFICATION BY MAGNETOTACTIC BACTERIA IN SEDIMENTS

    Science.gov (United States)

    The ability of certain bacteria to take up iron in the environment and biosynthesis magnetic materials such as magnetite (Fe3O4) and greigite (Fe3S4) has been recognized (Blakemore, 1982; Bazylinski and Frankel, 2000). Two different mechanisms, biologically induced mineralizat...

  5. Serpins in unicellular Eukarya, Archaea, and Bacteria:

    DEFF Research Database (Denmark)

    Roberts, T.H.; Hejgaard, Jørn; Saunders, N.F.W; Cavicchiolo, R.; Curmi, P.M.G

    2004-01-01

    , where serpins were found in only 4 of 13 genera, and Bacteria, in only 9 of 56 genera. The serpins from unicellular organisms appear to be phylogenetically distinct from all of the clades of higher eukaryotic serpins. Most of the sequences from unicellular organisms have the characteristics of...

  6. Molecular evolution in bacteria: cell division

    OpenAIRE

    Trevors J.T.

    1998-01-01

    Molecular evolution in bacteria is examined with an emphasis on the self-assembly of cells capable of primitive division and growth during early molecular evolution. Also, the possibility that some type of encapsulation structure preceeded biochemical pathways and the assembly of genetic material is examined. These aspects will be considered from an evolutionary perspective.

  7. Emerging Plant Pathogenic Bacteria and Global Warming

    Science.gov (United States)

    Several bacteria, previously classified as non-fluorescent, oxidase positive pseudomonads, Ralstonia, Acidovorax, and Burkholdria have emerged as serious problems world-wide. Perhaps the most destructive is R. solanacearum (RS), a soilborne pathogen with a very wide host range. RS race 3, biovar 2...

  8. Discovering lactic acid bacteria by genomics

    NARCIS (Netherlands)

    Klaenhammer, T; Altermann, E; Arigoni, F; Bolotin, A; Breidt, F; Broadbent, J; Cano, R; Chaillou, S; Deutscher, J; Gasson, M; van de Guchte, M; Guzzo, J; Hartke, A; Hawkins, T; Hols, P; Hutkins, R; Kleerebezem, M; Kok, J; Kuipers, O; Maguin, E; McKay, L; Mills, D; Nauta, A; Overbeek, R; Pel, H; Pridmore, D; Saier, M; van Sinderen, D; Sorokin, A; Steele, J; O'Sullivan, D; de Vos, W; Weimer, B; Zagorec, M; Siezen, R

    2002-01-01

    This review summarizes a collection of lactic acid bacteria that are now undergoing genomic sequencing and analysis. Summaries are presented on twenty different species, with each overview discussing the organisms fundamental and practical significance, environmental habitat, and its role in ferment

  9. Drug efflux proteins in multidrug resistant bacteria

    NARCIS (Netherlands)

    vanVeen, HW; Konings, WN

    1997-01-01

    Bacteria contain an array of transport proteins in their cytoplasmic membrane. Many of these proteins play an important role in conferring resistance to toxic compounds. The multidrug efflux systems encountered in prokaryotic cells are very similar to those observed in eukaryotic cells. Therefore, a

  10. Identification of bacteria using mass spectrometry techniques

    Czech Academy of Sciences Publication Activity Database

    Krásný, Lukáš; Hynek, R.; Hochel, I.

    2013-01-01

    Roč. 353, NOV 2013 (2013), s. 67-79. ISSN 1387-3806 R&D Projects: GA ČR GAP503/10/0664 Institutional support: RVO:61388971 Keywords : Mass spectrometry * Bacteria * Identification Subject RIV: EE - Microbiology, Virology Impact factor: 2.227, year: 2013

  11. Chitinolytic bacteria of the mammal digestive tract

    Czech Academy of Sciences Publication Activity Database

    Šimůnek, Jiří; Hodrová, Blanka; Bartoňová, H.; Kopečný, Jan

    2001-01-01

    Roč. 46, č. 1 (2001), s. 76-78. ISSN 0015-5632 R&D Projects: GA ČR GA525/00/0984; GA AV ČR KSK5052113 Keywords : chitinolytic bacteria Subject RIV: EB - Genetics ; Molecular Biology Impact factor: 0.776, year: 2001

  12. Comparative activity of ciprofloxacin against anaerobic bacteria.

    OpenAIRE

    Sutter, V L; Kwok, Y Y; Bulkacz, J

    1985-01-01

    The in vitro activity of ciprofloxacin was assessed against 362 strains of anaerobic bacteria and compared with that of cefoxitin, clindamycin, metronidazole, and mezlocillin. Only 31% of the strains tested were susceptible to ciprofloxacin. The other agents were active against most of the strains tested.

  13. Probiotic Bacteria May Become Dormant during Storage

    OpenAIRE

    Lahtinen, Sampo J.; Gueimonde, Miguel; Ouwehand, Arthur C; Reinikainen, Johanna P.; Salminen, Seppo J.

    2005-01-01

    The determination of bacterial viability in probiotic products is of economic, technological, and clinical significance. We compared four methods to enumerate three Bifidobacterium strains in fermented oat products during storage. A subpopulation of nonculturable cells retained a functional cell membrane typical of viable cells, indicating that probiotic bacteria become dormant during storage.

  14. Freeze-drying of lactic acid bacteria.

    Science.gov (United States)

    Fonseca, Fernanda; Cenard, Stéphanie; Passot, Stéphanie

    2015-01-01

    Lactic acid bacteria are of great importance for the food and biotechnology industry. They are widely used as starters for manufacturing food (e.g., yogurt, cheese, fermented meats, and vegetables) and probiotic products, as well as for green chemistry applications. Freeze-drying or lyophilization is a convenient method for preservation of bacteria. By reducing water activity to values below 0.2, it allows long-term storage and low-cost distribution at suprazero temperatures, while minimizing losses in viability and functionality. Stabilization of bacteria via freeze-drying starts with the addition of a protectant solution to the bacterial suspension. Freeze-drying includes three steps, namely, (1) freezing of the concentrated and protected cell suspension, (2) primary drying to remove ice by sublimation, and (3) secondary drying to remove unfrozen water by desorption. In this chapter we describe a method for freeze-drying of lactic acid bacteria at a pilot scale, thus allowing control of the process parameters for maximal survival and functionality recovery. PMID:25428024

  15. Modelling the effect of lactic acid bacteria from starter- and aroma culture on growth of Listeria monocytogenes in cottage cheese

    DEFF Research Database (Denmark)

    Østergaard, Nina Bjerre; Eklöw, Annelie; Dalgaard, Paw

    2014-01-01

    Four mathematical models were developed and validated for simultaneous growth of mesophilic lactic acid bacteria from added cultures and Listeria monocytogenes, during chilled storage of cottage cheese with freshor cultured cream dressing. The mathematical models include the effect of temperature...... cheese to improvemodel performance. The inhibiting effect of mesophilic lactic acid bacteria from added cultures on growth of L. monocytogenes was efficiently modelled using the Jameson approach. The new models appropriately predicted the maximum population density of L. monocytogenes in cottage cheese....... The developed models were successfully validated by using 25 growth rates for L. monocytogenes, 17 growth rates for lactic acid bacteria and a total of 26 growth curves for simultaneous growth of L. monocytogenes and lactic acid bacteria in cottage cheese. These data were used in combination with bias...

  16. Physical model of the immune response of bacteria against bacteriophage through the adaptive CRISPR-Cas immune system

    International Nuclear Information System (INIS)

    Bacteria and archaea have evolved an adaptive, heritable immune system that recognizes and protects against viruses or plasmids. This system, known as the CRISPR-Cas system, allows the host to recognize and incorporate short foreign DNA or RNA sequences, called ‘spacers’ into its CRISPR system. Spacers in the CRISPR system provide a record of the history of bacteria and phage coevolution. We use a physical model to study the dynamics of this coevolution as it evolves stochastically over time. We focus on the impact of mutation and recombination on bacteria and phage evolution and evasion. We discuss the effect of different spacer deletion mechanisms on the coevolutionary dynamics. We make predictions about bacteria and phage population growth, spacer diversity within the CRISPR locus, and spacer protection against the phage population. (paper)

  17. Physical model of the immune response of bacteria against bacteriophage through the adaptive CRISPR-Cas immune system

    Science.gov (United States)

    Han, Pu; Niestemski, Liang Ren; Barrick, Jeffrey E.; Deem, Michael W.

    2013-04-01

    Bacteria and archaea have evolved an adaptive, heritable immune system that recognizes and protects against viruses or plasmids. This system, known as the CRISPR-Cas system, allows the host to recognize and incorporate short foreign DNA or RNA sequences, called ‘spacers’ into its CRISPR system. Spacers in the CRISPR system provide a record of the history of bacteria and phage coevolution. We use a physical model to study the dynamics of this coevolution as it evolves stochastically over time. We focus on the impact of mutation and recombination on bacteria and phage evolution and evasion. We discuss the effect of different spacer deletion mechanisms on the coevolutionary dynamics. We make predictions about bacteria and phage population growth, spacer diversity within the CRISPR locus, and spacer protection against the phage population.

  18. The interaction of bacteria and metal surfaces

    International Nuclear Information System (INIS)

    This review discusses different examples for the interaction of bacteria and metal surfaces based on work reported previously by various authors and work performed by the author with colleagues at other institutions and with his graduate students at CEEL. Traditionally it has been assumed that the interaction of bacteria with metal surfaces always causes increased corrosion rates ('microbiologically influenced corrosion' (MIC)). However, more recently it has been observed that many bacteria can reduce corrosion rates of different metals and alloys in many corrosive environments. For example, it has been found that certain strains of Shewanella can prevent pitting of Al 2024 in artificial seawater, tarnishing of brass and rusting of mild steel. It has been observed that corrosion started again when the biofilm was killed by adding antibiotics. The mechanism of corrosion protection seems to be different for different bacteria since it has been found that the corrosion potential Ecorr became more negative in the presence of Shewanella ana and algae, but more positive in the presence of Bacillus subtilis. These findings have been used in an initial study of the bacterial battery in which Shewanella oneidensis MR-1 was added to a cell containing Al 2024 and Cu in a growth medium. It was found that the power output of this cell continuously increased with time. In the microbial fuel cell (MFC) bacteria oxidize the fuel and transfer electrons directly to the anode. In initial studies EIS has been used to characterize the anode, cathode and membrane properties for different operating conditions of a MFC that contained Shewanella oneidensis MR-1. Cell voltage (V)-current density (i) curves were obtained using potentiodynamic sweeps. The current output of a MFC has been monitored for different experimental conditions

  19. Label-Free Applications of SERS for Bacteria Analysis

    OpenAIRE

    Zhou, Haibo

    2014-01-01

    In the first part, we report on surface-enhanced Raman scattering (SERS) for living bacteria detection in drinking water by employing a synthesis of silver nanoparticles coating the cell wall of bacteria (Bacteria@AgNPs). In the second part of this thesis, we present a label-free SERS detection of bacteria on microarray at single cell level. In the third part of this thesis, we successfully counted live and dead bacteria with Bacteria@AgNPs method by SERS mapping technique.

  20. Antibacterial activity of silver-killed bacteria: the "zombies" effect

    Science.gov (United States)

    Wakshlak, Racheli Ben-Knaz; Pedahzur, Rami; Avnir, David

    2015-04-01

    We report a previously unrecognized mechanism for the prolonged action of biocidal agents, which we denote as the zombies effect: biocidally-killed bacteria are capable of killing living bacteria. The concept is demonstrated by first killing Pseudomonas aeruginosa PAO1 with silver nitrate and then challenging, with the dead bacteria, a viable culture of the same bacterium: Efficient antibacterial activity of the killed bacteria is observed. A mechanism is suggested in terms of the action of the dead bacteria as a reservoir of silver, which, due to Le-Chatelier's principle, is re-targeted to the living bacteria. Langmuirian behavior, as well as deviations from it, support the proposed mechanism.

  1. Coupling of heterotrophic bacteria to phytoplankton bloom development at different pCO2 levels: a mesocosm study

    Directory of Open Access Journals (Sweden)

    R. Thyrhaug

    2008-07-01

    Full Text Available The predicted rise in anthropogenic CO2 emissions will increase CO2 concentrations and decrease seawater pH in the upper ocean. Recent studies have revealed effects of pCO2 induced changes in seawater chemistry on a variety of marine life forms, in particular calcifying organisms. To test whether the predicted increase in pCO2 will directly or indirectly (via changes in phytoplankton dynamics affect abundance, activities, and community composition of heterotrophic bacteria during phytoplankton bloom development, we have aerated mesocosms with CO2 to obtain triplicates with three different partial pressures of CO2 (pCO2: 350 μatm (1×CO2, 700 μatm (2×CO2 and 1050 μatm (3×CO2. The development of a phytoplankton bloom was initiated by the addition of nitrate and phosphate. In accordance to an elevated carbon to nitrogen drawdown at increasing pCO2, bacterial production (BPP of free-living and attached bacteria as well as cell-specific BPP (csBPP of attached bacteria were related to the C:N ratio of suspended matter. These relationships significantly differed among treatments. However, bacterial abundance and activities were not statistically different among treatments. Solely community structure of free-living bacteria changed with pCO2 whereas that of attached bacteria seemed to be independent of pCO2 but tightly coupled to phytoplankton bloom development. Our findings imply that changes in pCO2, although reflected by changes in community structure of free-living bacteria, do not directly affect bacterial activity. Furthermore, bacterial activity and dynamics of heterotrophic bacteria, especially of attached bacteria, were tightly correlated to phytoplankton development and, hence, may also potentially depend on changes in pCO2.

  2. Predicting microbial traits with phylogenies.

    Science.gov (United States)

    Goberna, Marta; Verdú, Miguel

    2016-04-01

    Phylogeny reflects genetic and phenotypic traits in Bacteria and Archaea. The phylogenetic conservatism of microbial traits has prompted the application of phylogeny-based algorithms to predict unknown trait values of extant taxa based on the traits of their evolutionary relatives to estimate, for instance, rRNA gene copy numbers, gene contents or tolerance to abiotic conditions. Unlike the 'macrobial' world, microbial ecologists face scenarios potentially compromising the accuracy of trait reconstruction methods, as, for example, extremely large phylogenies and limited information on the traits of interest. We review 990 bacterial and archaeal traits from the literature and support that phylogenetic trait conservatism is widespread through the tree of life, while revealing that it is generally weak for ecologically relevant phenotypic traits and high for genetically complex traits. We then perform a simulation exercise to assess the accuracy of phylogeny-based trait predictions in common scenarios faced by microbial ecologists. Our simulations show that ca. 60% of the variation in phylogeny-based trait predictions depends on the magnitude of the trait conservatism, the number of species in the tree, the proportion of species with unknown trait values and the mean distance in the tree to the nearest neighbour with a known trait value. Results are similar for both binary and continuous traits. We discuss these results under the light of the reviewed traits and provide recommendations for the use of phylogeny-based trait predictions for microbial ecologists. PMID:26371406

  3. Bacteria in Crude Oil Survived Autoclaving and Stimulated Differentially by Exogenous Bacteria

    OpenAIRE

    Gong, Xiao-Cui; Liu, Ze-Shen; Guo, Peng; Chi, Chang-Qiao; Chen, Jian; Wang, Xing-Biao; Tang, Yue-Qin; Wu, Xiao-Lei; Liu, Chun-Zhong

    2012-01-01

    Autoclaving of crude oil is often used to evaluate the hydrocarbon-degrading abilities of bacteria. This may be potentially useful for bioaugmentation and microbial enhanced oil recovery (MEOR). However, it is not entirely clear if “endogenous” bacteria (e.g., spores) in/on crude oil survive the autoclaving process, or influence subsequent evaluation of the hydrocarbon-degradation abilities of the “exogenous” bacterial strains. To test this, we inoculated autoclaved crude oil medium with six ...

  4. Lactic acid bacteria from fresh fruit and vegetables as biocontrol agents of phytopathogenic bacteria and fungi

    OpenAIRE

    Trias Mansilla, Rosalia; Bañeras Vives, Lluís; Montesinos Seguí, Emilio; Badosa Romañó, Esther

    2008-01-01

    This study evaluated the efficacy of lactic acid bacteria (LAB) isolated from fresh fruits and vegetables as biocontrol agents against the phytopathogenic and spoilage bacteria and fungi, Xanthomonas campestris, Erwinia carotovora, Penicillium expansum, Monilinia laxa, and Botrytis cinerea. The antagonistic activity of 496 LAB strains was tested in vitro and all tested microorganisms except P. expansum were inhibited by at least one isolate. The 496 isolates were also analyzed for the inhibit...

  5. Spray drying of dairy bacteria: New opportunities to improve the viability of bacteria powders

    OpenAIRE

    Dolivet, Anne; Mejean, Serge; Hervé, C.; Jeantet, Romain

    2013-01-01

    The most frequently used technique for dehydration of dairy bacteria is freeze drying. Of the other possible preservation techniques used in the dairy industry to produce large amounts of dairy ingredients at commercially viable processing costs, spray drying is one of the main processing tools and the cost is 10 times lower than that of freeze drying. In this work, some examples are presented for different species of dairy bacteria with respect to spray-drying processes (as an alternative ap...

  6. Assessment of the Levels of Airborne Bacteria, Gram-Negative Bacteria, and Fungi in Hospital Lobbies

    OpenAIRE

    Dong-Uk Park; Jeong-Kwan Yeom; Won Jae Lee; Kyeong-Min Lee

    2013-01-01

    Aims: We assessed the levels of airborne bacteria, Gram-negative bacteria (GNB), and fungi in six hospital lobbies, and investigated the environmental and hospital characteristics that affected the airborne microorganism levels. Methods: An Andersen single-stage sampler equipped with appropriate nutrition plate agar was used to collect the samples. The three types of microorganisms were repeatedly collected at a fixed location in each hospital (assumed to be representative of the entire hospi...

  7. Genetic and Biochemical Aspects of Ectoine Biosynthesis in Moderately Halophilic and Halotolerant Methylotrophic Bacteria

    OpenAIRE

    Valentina N. Khmelenina; Mustakhimov, Ildar I.; Reshetnikov, Alexander S.; Marina G. Kalyuzhnaya; Trotsenko, Yuri A.

    2010-01-01

    Problem statement: The cyclic imino acid ectoine is a widely distributed compatible solute synthesizing by halophilic and halotolerant bacteria to prevent osmotic stress at high external salinity. This water-keeping compound is used in a variety of commercial cosmetics and therapeutic products. Approach: Development of integrated, predictive functional model of the metabolic and regulatory netwoks of ectoine-producing microbes is an active area of research. In this article...

  8. THE BUSINESS RISK AND ENVIRONMENT SPECIFIC OF THE EUROPEAN UNION

    Directory of Open Access Journals (Sweden)

    DOBRIN IONEL GABRIEL

    2014-08-01

    Full Text Available The international economy is marked by a multitude of base mutations, which re-shape the intricacy of interdependencies based on which it functions. The development of the informational society and the continuous adaptation of economic structure to the rapid changes that happen globally virtually place all nations in a continuous restructuring and transition process. Two main dynamic and interdependent forces lead this process, that is: the strengthening of the world economy globalisation process and the appearance and development of regional economic arrangements. The treaty regarding the constitution of the European Union comprises a series of regulations which refer directly to ensure of the Community industry's competitively - related conditions. This is achieved through a complex system of open and competitive markets.

  9. Bacteria Experiment May Point Way to Slow Zika's Spread

    Science.gov (United States)

    ... nlm.nih.gov/medlineplus/news/fullstory_158661.html Bacteria Experiment May Point Way to Slow Zika's Spread ... 2016 (HealthDay News) -- Experiments in mosquitoes suggest that bacteria may help curb the spread of the Zika ...

  10. Smoking Triggers Big Changes in Mouth Bacteria, Study Finds

    Science.gov (United States)

    ... 158024.html Smoking Triggers Big Changes in Mouth Bacteria, Study Finds But quitting eventually returns levels to ... research also found that the proper mix of bacteria in the mouth is restored if people quit ...

  11. Environmental pollution detection and bioremediation by marine bacteria

    Digital Repository Service at National Institute of Oceanography (India)

    Ramaiah, N.; De, J.; Iyer, S.R.

    Microorganisms, in particular bacteria, play far more important ecological roles in natural environments than their small sizes would suggest. The environment for bacteria is everything that surrounds and sustains them including air, plant, animal...

  12. Antibiotic-Resistant Bacteria Detected in Sewage Spill

    Science.gov (United States)

    ... medlineplus.gov/news/fullstory_160031.html Antibiotic-Resistant Bacteria Detected in Sewage Spill 'People need to be ... News) -- Sewer line breaks can release antibiotic-resistant bacteria that pose a public health threat, a new ...

  13. Gut Bacteria May Hold Clues to Chronic Fatigue Syndrome

    Science.gov (United States)

    ... https://medlineplus.gov/news/fullstory_159905.html Gut Bacteria May Hold Clues to Chronic Fatigue Syndrome Intestinal ... doctors -- may be influenced by a person's intestinal bacteria -- sometimes called gut microbiome, new research finds. "Patients ...

  14. Molecular and chemical dialogues in bacteria-protozoa interactions

    NARCIS (Netherlands)

    Song, Chunxu; Mazzola, M.; Cheng, Xu; Oetjen, Janina; Alexandrov, Theodore; Dorrestein, Pieter C.; Watrous, Jeramie; van der Voort, Menno; Raaijmakers, Jos

    2015-01-01

    Protozoan predation of bacteria can significantly affect soil microbial community composition and ecosystem functioning. Bacteria possess diverse defense strategies to resist or evade protozoan predation. For soil-dwelling Pseudomonas species, several secondary metabolites were proposed to provide p

  15. Bacteria Experiment May Point Way to Slow Zika's Spread

    Science.gov (United States)

    ... https://medlineplus.gov/news/fullstory_158661.html Bacteria Experiment May Point Way to Slow Zika's Spread Infecting ... 4, 2016 WEDNESDAY, May 4, 2016 (HealthDay News) -- Experiments in mosquitoes suggest that bacteria may help curb ...

  16. Interactions between Paramyxoviruses and Bacteria: Implications for Pathogenesis and Intervention

    NARCIS (Netherlands)

    D.T. Nguyen (Tien)

    2014-01-01

    markdownabstract__Abstract__ Globally, respiratory tract diseases caused by bacteria and viruses are an important burden of disease. Respiratory bacteria (Streptococcus pneumoniae, Haemophilus influenzae, Moraxella catarrhalis and Staphylococcus aureus) can colonize the upper respiratory tract. The

  17. Frequency of Resistance and Susceptible Bacteria Isolated from Houseflies

    Directory of Open Access Journals (Sweden)

    B Davari

    2010-12-01

    Conclusion: Houseflies collected from hospitals and slaughterhouse may be involved in the spread of drug resistant bacteria and may increase the potential of human exposure to drug resistant bacteria.

  18. Oh What a Tangled Biofilm Web Bacteria Weave

    Science.gov (United States)

    ... Inside Life Science > Oh What a Tangled Biofilm Web Bacteria Weave Inside Life Science View All Articles | Inside Life Science Home Page Oh What a Tangled Biofilm Web Bacteria Weave By Elia Ben-Ari Posted May ...

  19. Phylogenetic analysis and development of probes for differentiating methylotrophic bacteria.

    OpenAIRE

    Brusseau, G A; Bulygina, E S; Hanson, R S

    1994-01-01

    Fifteen small-subunit rRNAs from methylotrophic bacteria have been sequenced. Comparisons of these sequences with 22 previously published sequences further defined the phylogenetic relationships among these bacteria and illustrated the agreement between phylogeny and physiological characteristics of the bacteria. Phylogenetic trees were constructed with 16S rRNA sequences from methylotrophic bacteria and representative organisms from subdivisions within the class Proteobacteria on the basis o...

  20. ANTIMICROBIAL ACTIVITY OF MEDICINAL PLANTS AGAINST DIFFERENT STRAINS OF BACTERIA

    OpenAIRE

    Alexander Vatľák; Adriana Kolesárová; Nenad Vukovič; Katarína Rovná; Jana Petrová; Viktória Vimmerová; Lukáš Hleba; Martin Mellen; Miroslava Kačániová

    2014-01-01

    In this study, methanolic extracts of Tilia cordata Mill. and Aesculus hippocastanum which had been described in herbal books, were screened for their antimicrobial activity against gramnegative and grampositive bacteria. The following strains of bacteria for antimicrobial activity were used gramnegative bacteria: Escherichia coli CCM 3988, Listeria ivanovii CCM 5884, Listeria innocua CCM 4030, Pseudomonas aeruginosa CCM 1960, Serratia rubidaea CCM 4684 and grampositive bacteria: Brochothrix ...

  1. New Insight on the Response of Bacteria to Fluoride

    OpenAIRE

    Breaker, R R

    2012-01-01

    Fluoride has been used for decades to prevent caries and it is well established that this anion can inhibit the growth of bacteria. However, the precise effects that fluoride has on bacteria and the mechanisms that bacteria use to overcome fluoride toxicity have largely remained unexplored. Recently, my laboratory reported the discovery of biological systems that bacteria use to sense fluoride and reduce fluoride toxicity. These sensors and their associated genes are very widespread in biolog...

  2. Control of Fusarium Wilt of Chili With Chitinolytic Bacteria

    OpenAIRE

    DWI SURYANTO; SITI PATONAH; ERMAN MUNIR

    2010-01-01

    Biological control of plant disease using antagonistic microorganism has been obtaining much attention and implemented for decades. One of the potential microorganisms used in this strategy is chitinolytic bacteria. Utilization of this bacteria ranges from cell life, enzymes, genes, or other metabolites. In this study, we examined the ability of chitinolytic bacteria as a biocontrol agent of Fusarium wilt of red chili (Capsicum annuum L.) seedlings. The ability of chitinolytic bacteria to sup...

  3. Probiotic bacteria in prevention and treatment of diarrhea

    OpenAIRE

    Jasmina Havranek; Šimun Zamberlin; Iva Dolenčić Špehar; Tamara Prtilo; Milna Tudor; Dubravka Samaržija

    2009-01-01

    Probiotic bacteria have beneficial effects in prevention and treatment of different diseases. The results of preventive and therapeutic effect of probiotic bacteria on diarrhea during last ten years are shown in this paper. The greatest preventive and therapeutic effect of probiotic bacteria was identified for acute diarrhea in children caused by rotaviruses. Significant, but slightly lower effect of probiotic bacteria was proved for antibiotic associated diarrhea. Positive effect in preventi...

  4. [RAPD analysis of plant pathogenic coryneform bacteria].

    Science.gov (United States)

    Yin, Yan-Ni; Chen, Yong-Fang; Li, Shi-Mo; Guo, Jian-Hua

    2005-12-01

    RAPD analysis was used for the taxonomy of plant pathogenic coryneform bacteria, especially for the classification of two new pathogens (Curtobacterium flaccumfaciens pv. basellae pv. nov. and Curtobacterium flaccumfaciens pv. beticola pv. nov.). 20 random primers were screened from 50 ones to detect polymorphism among the total strains used. 80.4% were polymorphic bands among the 225 ones produced. The results of pairwise similarity and UPGMA cluster analysis suggest that the two new pathovars of sugar beet (Beta vulgaris var. saccharifera) and malabar spinach (Basella rubra) are genetically close related with Curtobacterium flacumfaciens, and the minimal similarity coefficient is 0.6511. According to the RAPD analysis and previous research, some newly made taxonomic changes of the plant pathogenic coryneform bacteria are discussed. PMID:16496687

  5. Ancient bacteria show evidence of DNA repair

    DEFF Research Database (Denmark)

    Johnson, Sarah Stewart; Hebsgaard, Martin B; Christensen, Torben R;

    2007-01-01

    geological timescales. There has been no direct evidence in ancient microbes for the most likely mechanism, active DNA repair, or for the metabolic activity necessary to sustain it. In this paper, we couple PCR and enzymatic treatment of DNA with direct respiration measurements to investigate long...... this long-term survival is closely tied to cellular metabolic activity and DNA repair that over time proves to be superior to dormancy as a mechanism in sustaining bacteria viability.......-term survival of bacteria sealed in frozen conditions for up to one million years. Our results show evidence of bacterial survival in samples up to half a million years in age, making this the oldest independently authenticated DNA to date obtained from viable cells. Additionally, we find strong evidence that...

  6. Resistant bacteria in stem cell transplant recipients

    Directory of Open Access Journals (Sweden)

    Nucci Marcio

    2002-01-01

    Full Text Available Bacterial infections account for most infections in hematopoietic stem cell transplant recipients. While early mortality reduced dramatically with the introduction of the concept of empirical antibiotic therapy in neutropenic patients, no effect of prophylaxis on the mortality was observed in many studies. On the other hand, antibiotic prophylaxis has resulted in the emergence of resistance among bacteria. In addition, the choice of the antibiotic regimen for empirical therapy and the practices of antibiotic therapy during neutropenia may result in a significant shift in the pattern of bacterial infections. The use of quinolones and vancomycin as prophylaxis, and of carbapenems and vancomycin in the empirical antibiotic therapy, are associated with the appearance of resistant Gram-positive and Gram-negative bacteria. Therefore, hematologists must be aware of the impact of these practices on the emergence of infections due to multi-resistant pathogens, since these infections may be associated with increased mortality.

  7. Horizontal gene transfer between bacteria and animals.

    Science.gov (United States)

    Dunning Hotopp, Julie C

    2011-04-01

    Horizontal gene transfer is increasingly described between bacteria and animals. Such transfers that are vertically inherited have the potential to influence the evolution of animals. One classic example is the transfer of DNA from mitochondria and chloroplasts to the nucleus after the acquisition of these organelles by eukaryotes. Even today, many of the described instances of bacteria-to-animal transfer occur as part of intimate relationships such as those of endosymbionts and their invertebrate hosts, particularly insects and nematodes, while numerous transfers are also found in asexual animals. Both of these observations are consistent with modern evolutionary theory, in particular the serial endosymbiotic theory and Muller's ratchet. Although it is tempting to suggest that these particular lifestyles promote horizontal gene transfer, it is difficult to ascertain given the nonrandom sampling of animal genome sequencing projects and the lack of a systematic analysis of animal genomes for such transfers. PMID:21334091

  8. Quorum sensing in plant-pathogenic bacteria.

    Science.gov (United States)

    Von Bodman, Susanne B; Bauer, W Dietz; Coplin, David L

    2003-01-01

    Quorum sensing (QS) allows bacteria to assess their local population density and/or physical confinement via the secretion and detection of small, diffusible signal molecules. This review describes how phytopathogenic bacteria have incorporated QS mechanisms into complex regulatory cascades that control genes for pathogenicity and colonization of host surfaces. Traits regulated by QS include the production of extracellular polysaccharides, degradative enzymes, antibiotics, siderophores, and pigments, as well as Hrp protein secretion, Ti plasmid transfer, motility, biofilm formation, and epiphytic fitness. Since QS regulatory systems are often required for pathogenesis, interference with QS signaling may offer a means of controlling bacterial diseases of plants. Several bacterial pathogens of plants that have been intensively studied and have revealed information of both fundamental and practical importance are reviewed here: Agrobacterium tumefaciens, Pantoea stewartii, Erwinia carotovora, Ralstonia solanacearum, Pseudomonas syringae, Pseudomonas aeruginosa, and Xanthomonas campestris. PMID:12730390

  9. Bacteria, some permanent tenants Space Station

    International Nuclear Information System (INIS)

    Vacuum cleaners to operate the vacuum or rags with ethanol they are the products of cleaning of the astronauts. Is there tight spaces fully sterilized? It seems not, even in the Space Station International (ISS). When it comes to bacteria, they are able to travel more than 400 kilometers housed in costumes, bodies and interior of the astronauts themselves and settle in a enclosed space where-unlike in a cleanroom 'terrestre- the air is not recycled. A NASA study has found an abundance of bacteria 'opportunists' which, although harmless on Earth, they might derivasen cause infections in inflammations or skin irritations. Not forgetting those fungi that could damage or affect the infrastructure equipment space. (Author)

  10. The Chemical Ecology of Predatory Soil Bacteria.

    Science.gov (United States)

    Findlay, Brandon L

    2016-06-17

    The study of natural products is entering a renaissance, driven by the discovery that the majority of bacterial secondary metabolites are not produced under standard laboratory conditions. Understanding the ecological role of natural products is key to efficiently directing our screening efforts, and to ensuring that each screen efficiently captures the full biosynthetic repertoire of the producing organisms. Myxobacteria represent one of the most common and diverse groups of bacteria, with roughly 2500 strains publically available. Fed largely through predation, the myxobacteria have developed a large repertoire of natural products that target other microorganisms, including bacteria and fungi. Many of these interactions can be observed in predation assays, providing direct evidence for environmental interactions. With a focus on Myxococcus xanthus, this review will highlight how recent advances in myxobacteria are revealing the chemical ecology of bacterial natural products. PMID:27035738

  11. Emerging roles of RNA modifications in bacteria.

    Science.gov (United States)

    Marbaniang, Carmelita Nora; Vogel, Jörg

    2016-04-01

    RNA modifications are known to abound in stable tRNA and rRNA, where they cluster around functionally important regions. However, RNA-seq based techniques profiling entire transcriptomes are now uncovering an abundance of modified ribonucleotides in mRNAs and noncoding RNAs, too. While most of the recent progress in understanding the regulatory influence of these new RNA modifications stems from eukaryotes, there is growing evidence in bacteria for modified nucleotides beyond the stable RNA species, including modifications of small regulatory RNAs. Given their small genome size, good genetic tractability, and ample knowledge of modification enzymes, bacteria offer excellent model systems to decipher cellular functions of RNA modifications in many diverse physiological contexts. This review highlights how new global approaches combining classic analysis with new sequencing techniques may usher in an era of bacterial epitranscriptomics. PMID:26803287

  12. Sulfur-oxidizing bacteria in environmental technology.

    Science.gov (United States)

    Pokorna, Dana; Zabranska, Jana

    2015-11-01

    Hydrogen sulfide is widely known as the most undesirable component of biogas that caused not only serious sensoric and toxic problems, but also corrosion of concrete and steel structures. Many agricultural and industrial waste used in biogas production, may contain a large amount of substances that serve as direct precursors to the formation of sulfide sulfur-sources of hydrogen sulfide in the biogas. Biological desulfurization methods are currently promoted to abiotic methods because they are less expensive and do not produce undesirable materials which must be disposed of. The final products of oxidation of sulfides are no longer hazardous. Biological removal of sulfide from a liquid or gaseous phase is based on the activity of sulfur-oxidizing bacteria. They need an oxidizing agent such as an acceptor of electrons released during the oxidation of sulfides-atmospheric oxygen or oxidized forms of nitrogen. Different genera of sulfur-oxidizing bacteria and their technological application are discussed. PMID:25701621

  13. Hydrocarbonoclastic bacteria: from bioremediation to bioenergy feedstock

    OpenAIRE

    Carvalho, Ana Rita Castro

    2015-01-01

    Tese de Doutoramento em Engenharia Química e Biológica. Bacterial storage lipids are being considered as viable alternative feedstocks for industrial and biotechnological applications, compared to conventional ones. The production of these bacterial compounds can be obtained from different carbon sources, including inexpensive and recalcitrant wastes. This thesis explores the potential of using hydrocarbonoclastic bacteria to obtain lipid reserve substances from hydrocarbon-based wastes, p...

  14. Food preservation using antifungal lactic acid bacteria

    OpenAIRE

    Crowley, Sarah Catherine Mary

    2013-01-01

    Fungal spoilage of food and feed prevails as a major problem for the food industry. The use antifungal-producing lactic acid bacteria (LAB) may represent a safer, natural alternative to the use of chemical preservatives in foods. A large scale screen was undertaken to identify a variety of LAB with antifungal properties from plant, animal and human sources. A total of 6,720 LAB colonies were isolated and screened for antifungal activity against the indicator Penicillium expansum. 94 broad-spe...

  15. RNA-Seq for Plant Pathogenic Bacteria

    OpenAIRE

    Kimbrel, Jeffrey A.; Yanming Di; Cumbie, Jason S.; Chang, Jeff H.

    2011-01-01

    The throughput and single-base resolution of RNA-Sequencing (RNA-Seq) have contributed to a dramatic change in transcriptomic-based inquiries and resulted in many new insights into the complexities of bacterial transcriptomes. RNA-Seq could contribute to similar advances in our understanding of plant pathogenic bacteria but it is still a technology under development with limitations and unknowns that need to be considered. Here, we review some new developments for RNA-Seq and highlight recent...

  16. Plague Bacteria Target Immune Cells During Infection

    OpenAIRE

    Marketon, Melanie M.; DePaolo, R. William; DeBord, Kristin L.; Jabri, Bana; Schneewind, Olaf

    2005-01-01

    The plague is caused by the bacterium Yersinia pestis. Plague bacteria are thought to inject effector Yop proteins into host cells via the type III pathway. The identity of the host cells targeted for injection during plague infection is unknown. We found, using Yop β-lactamase hybrids and fluorescent staining of live cells from plague-infected animals, that Y. pestis selected immune cells for injection. In vivo, dendritic cells, macrophages, and neutrophils were injected most frequently, whe...

  17. Study of fatty acid-bacteria interactions

    International Nuclear Information System (INIS)

    Complete text of publication follows. During our work we investigated fatty acid-bacteria interactions. The antibacterial property of fatty acids was reported by several authors. Despite of them there is not reassuring explanation about the mechanism of the antibacterial activity of these compounds. An effect can considerably change in case of different structured fatty acids. Our earlier studies conduct that small changes in the structures can modify changes in their behavior towards bacteria. The stearic acid does not cause any antibacterial effects during the first few hours of the investigation, may even help the bacterial growth. However, linolic acid (C18:2) shows a strong antibacterial effect during the first hours. After 24 hours this effect wears out and the bacteria have adapted to the stress. We studied the antibacterial activity using direct bioautography. This method has the advantage to allow examining lipophilic compounds. The linoleic acid decomposes in time under different physiological conditions creating numerous oxidized molecules. This may be the reason of its antimicrobial effect. For studying this phenomenon we used infrared and mass spectroscopic methods. We applied infrared spectroscopy for indicating any changes in the spectra of the fatty acids after the interaction of fatty acids with bacteria. So we are able to deduct on what could happen during these process. We paid great attention towards the changes of double bonds, on methylation and demethylation processes. Using mass spectroscopy we searched for oxidized products that may play important role in this process. These studies are only part of our more widespreading investigations, dealing with the antimicrobial properties of fatty acids.

  18. Bacterial biofilms. Bacteria Quorum sensing in biofilms

    OpenAIRE

    E. S. Vorobey; O. S. Voronkova; A. I. Vinnikov

    2012-01-01

    Data on biofilms, their structure and properties, peculiarities of formation and interaction between microorganisms in the film are presented. Information on discovery and study of biofilms, importance of biofilms in the medical and clinical microbiology are offered. The data allow to interpret biofilm as a form of existence of human normal microflora. For the exchange of information within the biofilm between the individual cells of the same or different species bacteria use the signal molec...

  19. Separation and Purification of Bacteria from Soil

    OpenAIRE

    Bakken, Lars R.

    1985-01-01

    Bacteria were released and separated from soil by a simple blending-centrifugation procedure. The percent yield of bacterial cells (microscopic counts) in the supernatants varied over a wide range depending on the soil type. The superantants contained large amounts of noncellular organic material and clay particles. Further purification of the bacterial cells was obtained by centrifugation in density gradients, whereby the clay particles and part of the organic materials sedimented. A large p...

  20. Revolutionizing membrane protein overexpression in bacteria

    OpenAIRE

    Schlegel, Susan; Klepsch, Mirjam; Gialama, Dimitra; Wickström, David; Slotboom, Dirk Jan; De Gier, Jan‐Willem

    2010-01-01

    Summary The bacterium Escherichia coli is the most widely used expression host for overexpression trials of membrane proteins. Usually, different strains, culture conditions and expression regimes are screened for to identify the optimal overexpression strategy. However, yields are often not satisfactory, especially for eukaryotic membrane proteins. This has initiated a revolution of membrane protein overexpression in bacteria. Recent studies have shown that it is feasible to (i) engineer or ...

  1. Metabolic Flexibility of Sulfate-Reducing Bacteria

    OpenAIRE

    Plugge, Caroline M.; Zhang, Weiwen; Scholten, Johannes C. M.; Stams, Alfons J. M.

    2011-01-01

    Dissimilatory sulfate-reducing prokaryotes (SRB) are a very diverse group of anaerobic bacteria that are omnipresent in nature and play an imperative role in the global cycling of carbon and sulfur. In anoxic marine sediments sulfate reduction accounts for up to 50% of the entire organic mineralization in coastal and shelf ecosystems where sulfate diffuses several meters deep into the sediment. As a consequence, SRB would be expected in the sulfate-containing upper sediment layers, whereas me...

  2. Electromagnetic low-frequency fields and bacteria

    Czech Academy of Sciences Publication Activity Database

    Foltýn, D.; Čermáková, E.; Kolářová, M.; Bartušek, Karel

    Košice : RVS VLA Košice, 2002 - (Džunda, M.; Brůnová, B.), s. 133 - 137 ISBN 80-7166-034-5. [New trends of development in aviation. Košice (SK), 01.09.2002] Institutional research plan: CEZ:AV0Z2065902 Keywords : low-frequency fields * bacteria Staphylococcus aureus * low-frequency ELM fields Subject RIV: JA - Electronics ; Optoelectronics, Electrical Engineering

  3. Biology of Moderately Halophilic Aerobic Bacteria

    OpenAIRE

    Nieto Gutiérrez, Joaquín José; Ventosa Ucero, Antonio; Oren, Aharon

    1998-01-01

    The moderately halophilic heterotrophic aerobic bacteria form a diverse group of microorganisms. The property of halophilism is widespread within the bacterial domain. Bacterial halophiles are abundant in environments such as salt lakes, saline soils, and salted food products. Most species keep their intracellular ionic concentrations at low levels while synthesizing or accumulating organic solutes to provide osmotic equilibrium of the cytoplasm with the surrounding medium. Complex mechanisms...

  4. Bioactive Compounds from Marine Bacteria and Fungi

    OpenAIRE

    Debbab, Abdessamad; Aly, Amal H.; Lin, Wen H.; Proksch, Peter

    2010-01-01

    Summary Marine bacteria and fungi are of considerable importance as new promising sources of a huge number of biologically active products. Some of these marine species live in a stressful habitat, under cold, lightless and high pressure conditions. Surprisingly, a large number of species with high diversity survive under such conditions and produce fascinating and structurally complex natural products. Up till now, only a small number of microorganisms have been investigated for bioactive me...

  5. Ferric Iron Reduction by Acidophilic Heterotrophic Bacteria

    OpenAIRE

    Johnson, D. Barrie; McGinness, Stephen

    1991-01-01

    Fifty mesophilic and five moderately thermophilic strains of acidophilic heterotrophic bacteria were tested for the ability to reduce ferric iron in liquid and solid media under aerobic conditions; about 40% of the mesophiles (but none of the moderate thermophiles) displayed at least some capacity to reduce iron. Both rates and extents of ferric iron reduction were highly strain dependent. No acidophilic heterotroph reduced nitrate or sulfate, and (limited) reduction of manganese(IV) was note...

  6. Tumour targeting with systemically administered bacteria.

    LENUS (Irish Health Repository)

    Morrissey, David

    2012-01-31

    Challenges for oncology practitioners and researchers include specific treatment and detection of tumours. The ideal anti-cancer therapy would selectively eradicate tumour cells, whilst minimising side effects to normal tissue. Bacteria have emerged as biological gene vectors with natural tumour specificity, capable of homing to tumours and replicating locally to high levels when systemically administered. This property enables targeting of both the primary tumour and secondary metastases. In the case of invasive pathogenic species, this targeting strategy can be used to deliver genes intracellularly for tumour cell expression, while non-invasive species transformed with plasmids suitable for bacterial expression of heterologous genes can secrete therapeutic proteins locally within the tumour environment (cell therapy approach). Many bacterial genera have been demonstrated to localise to and replicate to high levels within tumour tissue when intravenously (IV) administered in rodent models and reporter gene tagging of bacteria has permitted real-time visualisation of this phenomenon. Live imaging of tumour colonising bacteria also presents diagnostic potential for this approach. The nature of tumour selective bacterial colonisation appears to be tumour origin- and bacterial species- independent. While originally a correlation was drawn between anaerobic bacterial colonisation and the hypoxic nature of solid tumours, it is recently becoming apparent that other elements of the unique microenvironment within solid tumours, including aberrant neovasculature and local immune suppression, may be responsible. Here, we consider the pre-clinical data supporting the use of bacteria as a tumour-targeting tool, recent advances in the area, and future work required to develop it into a beneficial clinical tool.

  7. Quorum Sensing in Gram-Negative Bacteria

    OpenAIRE

    BOŞGELMEZ-TINAZ, Gülgün

    2003-01-01

    It has become increasingly and widely recognised that bacteria do not live as isolated entities but instead exist as communities that exploit elaborate systems of intercellular communication to facilitate their adaptation to changing environmental conditions. A well-characterised example of such intercellular communication is quorum sensing. Quorum sensing depends on the production of diffusible signal molecules termed autoinducers or pheromones, which enable a bacterium to monitor its own ce...

  8. Bacteria Foraging Algorithm in Antenna Design

    OpenAIRE

    Biswa Binayak Mangaraj; Manas Ranjan Jena; Saumendra Kumar Mohanty

    2016-01-01

    A simple design procedure to realize an optimum antenna using bacteria foraging algorithm (BFA) is proposed in this paper. The first antenna considered is imaginary. This antenna is optimized using the BFA along with a suitable fitness function formulated by considering some performance parameters and their best values. To justify the optimum design approach, one 12-element Yagi-Uda antenna is considered for an experiment. The optimized result of this antenna obtained using the optimization a...

  9. Evolution of transcriptional regulatory circuits in bacteria

    OpenAIRE

    Perez, J. Christian; Groisman, Eduardo A.

    2009-01-01

    Related organisms typically respond to a given cue by altering the level or activity of orthologous transcription factors, which, paradoxically, often regulate expression of distinct gene sets. Although promoter rewiring of shared genes is primarily responsible for regulatory differences among related eukaryotic species, in bacteria, species-specific genes are often controlled by ancestral transcription factors and regulatory circuit evolution has been further shaped by horizontal gene transf...

  10. Mutation, Selection and Genetic Interactions in Bacteria

    OpenAIRE

    Gordo, I.; Sousa, A.

    2010-01-01

    Mutation is the ultimate source of genetic variation. The rate at whichnew mutations typically occurs, their effects on fitness and the strength and type of genetic interactions between different mutations are key for understanding the evolution of any population. Estimates of these parameters in organisms such as bacteria will have a profound impact on our understanding of their biology, diversity, rate of speciation and in our health. Experimental evolution with bact...

  11. Experimental evolution with bacteria in complex environments

    OpenAIRE

    Hall, Alex R.

    2009-01-01

    Experiments with microbes are a powerful tool for addressing general questions in evolutionary ecology. Microbial evolution is also interesting in its own right, and often clinically relevant. I have used experimental evolution of bacteria (Pseudomonas spp.) in controlled laboratory environments to investigate the role of environmental heterogeneity in the evolution of phenotypic diversity. Some of my results provide insight on general processes, while others are specific to ba...

  12. Cold atmospheric plasma decontamination against nosocomial bacteria

    OpenAIRE

    Klämpfl , Tobias Gabriel

    2014-01-01

    Nosocomial pathogens are a considerable public threat. In order to limit their spread, cold atmospheric plasma (CAP) was investigated as new alternative to common decontamination strategies. During my work I developed a Surface micro-discharge (SMD) electrode system, characterized the CAP generated at ambient air conditions, studied its decontaminating behavior against nosocomial bacteria such as Clostridium difficile endospores and revealed factors influencing the decontamination. All in all...

  13. [Phylogenetic analysis of bacteria of extreme ecosystems].

    Science.gov (United States)

    Romanovskaia, V A; Parfenova, V V; Bel'kova, N L; Sukhanova, E V; Gladka, G V; Tashireva, A A

    2014-01-01

    Phylogenetic analysis of aerobic chemoorganotrophic bacteria of the two extreme regions (Dead Sea and West Antarctic) was performed on the basis of the nucleotide sequences of the 16S rRNA gene. Thermotolerant and halotolerant spore-forming bacteria 7t1 and 7t3 of terrestrial ecosystems Dead Sea identified as Bacillus licheniformis and B. subtilis subsp. subtilis, respectively. Taking into account remote location of thermotolerant strain 6t1 from closely related strains in the cluster Staphylococcus, 6t1 strain can be regarded as Staphylococcus sp. In terrestrial ecosystems, Galindez Island (Antarctic) detected taxonomically diverse psychrotolerant bacteria. From ornithogenic soil were isolated Micrococcus luteus O-1 and Microbacterium trichothecenolyticum O-3. Strains 4r5, 5r5 and 40r5, isolated from grass and lichens, can be referred to the genus Frondihabitans. These strains are taxonomically and ecologically isolated and on the tree diagram form the joint cluster with three isolates Frondihabitans sp., isolated from the lichen Austrian Alps, and psychrotolerant associated with plants F. cladoniiphilus CafT13(T). Isolates from black lichen in the different stationary observation points on the south side of a vertical cliff identified as: Rhodococcus fascians 181n3, Sporosarcina aquimarina O-7, Staphylococcus sp. 0-10. From orange biofilm of fouling on top of the vertical cliff isolated Arthrobacter sp. 28r5g1, from the moss-- Serratia sp. 6r1g. According to the results, Frondihabitans strains most frequently encountered among chemoorganotrophic aerobic bacteria in the Antarctic phytocenoses. PMID:25007437

  14. Cellulose biosynthesis and function in bacteria.

    OpenAIRE

    Ross, P; Mayer, R; Benziman, M

    1991-01-01

    The current model of cellulose biogenesis in plants, as well as bacteria, holds that the membranous cellulose synthase complex polymerizes glucose moieties from UDP-Glc into beta-1,4-glucan chains which give rise to rigid crystalline fibrils upon extrusion at the outer surface of the cell. The distinct arrangement and degree of association of the polymerizing enzyme units presumably govern extracellular chain assembly in addition to the pattern and width of cellulose fibril deposition. Most e...

  15. The population and evolutionary dynamics of phage and bacteria with CRISPR-mediated immunity.

    Directory of Open Access Journals (Sweden)

    Bruce R Levin

    Full Text Available Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR, together with associated genes (cas, form the CRISPR-cas adaptive immune system, which can provide resistance to viruses and plasmids in bacteria and archaea. Here, we use mathematical models, population dynamic experiments, and DNA sequence analyses to investigate the host-phage interactions in a model CRISPR-cas system, Streptococcus thermophilus DGCC7710 and its virulent phage 2972. At the molecular level, the bacteriophage-immune mutant bacteria (BIMs and CRISPR-escape mutant phage (CEMs obtained in this study are consistent with those anticipated from an iterative model of this adaptive immune system: resistance by the addition of novel spacers and phage evasion of resistance by mutation in matching sequences or flanking motifs. While CRISPR BIMs were readily isolated and CEMs generated at high rates (frequencies in excess of 10(-6, our population studies indicate that there is more to the dynamics of phage-host interactions and the establishment of a BIM-CEM arms race than predicted from existing assumptions about phage infection and CRISPR-cas immunity. Among the unanticipated observations are: (i the invasion of phage into populations of BIMs resistant by the acquisition of one (but not two spacers, (ii the survival of sensitive bacteria despite the presence of high densities of phage, and (iii the maintenance of phage-limited communities due to the failure of even two-spacer BIMs to become established in populations with wild-type bacteria and phage. We attribute (i to incomplete resistance of single-spacer BIMs. Based on the results of additional modeling and experiments, we postulate that (ii and (iii can be attributed to the phage infection-associated production of enzymes or other compounds that induce phenotypic phage resistance in sensitive bacteria and kill resistant BIMs. We present evidence in support of these hypotheses and discuss the implications of these

  16. The growth of bacteria on organic compounds in drinking water

    NARCIS (Netherlands)

    Kooy, van der D.

    1984-01-01

    Growth ("regrowth") of bacteria In drinking water distribution systems results in a deterioration of the water quality. Regrowth of chemoheterotrophic bacteria depends on the presence of organic. compounds that serve as a nutrient source for these bacteria. A batch-culture technique was developed to

  17. Calculations of magnetic susceptibility of magnetoactic bacteria culture

    Czech Academy of Sciences Publication Activity Database

    Zablotskyy, Vitaliy A.; Yurchenko, Vitaliy; Kamysa, Y.; Chelombetskaya, M.

    2001-01-01

    Roč. 234, - (2001), s. 575-583. ISSN 0304-8853 Institutional research plan: CEZ:AV0Z1010914 Keywords : magnetotactic bacteria * magnetic susceptibility of magnetotactic bacteria * magnetic moment of magnetotactic bacteria Subject RIV: BM - Solid Matter Physics ; Magnetism Impact factor: 1.329, year: 2001

  18. Quantification and Qualification of Bacteria Trapped in Chewed Gum

    NARCIS (Netherlands)

    Wessel, Stefan W.; van der Mei, Henny C.; Morando, David; Slomp, Anje M.; van de Belt-Gritter, Betsy; Maitra, Amarnath; Busscher, Henk J.

    2015-01-01

    Chewing of gum contributes to the maintenance of oral health. Many oral diseases, including caries and periodontal disease, are caused by bacteria. However, it is unknown whether chewing of gum can remove bacteria from the oral cavity. Here, we hypothesize that chewing of gum can trap bacteria and r

  19. TMDLs (Total Maximum Daily Loads) for Bacteria Impairments

    OpenAIRE

    Benham, Brian Leslie, 1960-; Zeckoski, Sara C.

    2009-01-01

    When the concentration of bacteria exceeds the state-specified water-quality criteria, the water is deemed to have a bacteria or pathogen impairment. This publication explains how bacteria impairments are determined and how this relates to the TMDL process.

  20. Metabolism in bacteria at low temperature: A recent report

    Indian Academy of Sciences (India)

    Dipanwita Sengupta; Madhab K Chattopadhyay

    2013-06-01

    The adaptability of bacteria to extreme cold environments has been demonstrated from time to time by various investigators. Metabolic activity of bacteria at subzero temperatures is also evidenced. Recent studies indicate that bacteria continue both catabolic and anabolic activities at subzero temperatures. Implications of these findings are discussed.

  1. IDENTIFICATION OF INDUSTRIALLY IMPORTANT LACTIC ACID BACTERIA IN FOODSTUFFS

    OpenAIRE

    Prosekov, A.; Babich, O.; Bespomestnykh, K.

    2013-01-01

    Universal genus-specific primers for comparative analysis of two aligned 16S rRNA gene nucleotide sequences of lactic acid bacteria were constructed. The method to identify lactic acid bacteria and a comprehensive plan for their genus and species identification may be used to characterize isolated strains of the Lactobacillus genus bacteria and in quality control of foodstuffs enriched with Lactobacillus.

  2. Bacteria as transporters of phosphorus through soil

    DEFF Research Database (Denmark)

    Glæsner, N.; Bælum, Jacob; Jacobsen, C. S.;

    2016-01-01

    The transport of phosphorus (P) from agricultural land has led to the eutrophication of surface waters worldwide, especially in areas with intensive animal production. In this research, we investigated the role of bacteria in the leaching of P through three agricultural soils with different......RNA genes cell−1. Leaching of bacteria was in the range of 2.5–4.5 × 105 cells ml−1 prior to application of slurry to the three soil textures. After slurry application, leaching increased to 1.1 × 106 cells ml−1 in the loamy sand, 4.9 × 106 cells ml−1 in the sandy loam and 5.0 × 106 cells ml−1 in the loam....... Based on the reported P content of soil bacteria, 0.3–1.8% of the total P leached was present in the bacterial biomass when no slurry was applied, whereas slurry application increased the leaching of P from the bacterial biomass to 3−7.9% of total P leached. Bacterial leaching was related to the...

  3. Diversity and ecology of oxalotrophic bacteria.

    Science.gov (United States)

    Hervé, Vincent; Junier, Thomas; Bindschedler, Saskia; Verrecchia, Eric; Junier, Pilar

    2016-02-01

    Oxalate is present in environments as diverse as soils or gastrointestinal tracts. This organic acid can be found as free acid or forming metal salts (e.g. calcium, magnesium). Oxalotrophy, the ability to use oxalate as carbon and energy sources, is mainly the result of bacterial catabolism, which can be either aerobic or anaerobic. Although some oxalotrophic bacterial strains are commonly used as probiotics, little is known about the diversity and ecology of this functional group. This review aims at exploring the taxonomic distribution and the phylogenetic diversity of oxalotrophic bacteria across biomes. In silico analyses were conducted using the two key enzymes involved in oxalotrophy: formyl-coenzyme A (CoA) transferase (EC 2.8.3.16) and oxalyl-CoA decarboxylase (EC 4.1.1.8), encoded by the frc and oxc genes, respectively. Our analyses revealed that oxalate-degrading bacteria are restricted to three phyla, namely Actinobacteria, Firmicutes and Proteobacteria and originated from terrestrial, aquatic and clinical environments. Diversity analyses at the protein level suggest that total Oxc diversity is more constrained than Frc diversity and that bacterial oxalotrophic diversity is not yet fully described. Finally, the contribution of oxalotrophic bacteria to ecosystem functioning as well as to the carbon cycle is discussed. PMID:26748805

  4. Bacteria-powered battery on paper.

    Science.gov (United States)

    Fraiwan, Arwa; Choi, Seokheun

    2014-12-21

    Paper-based devices have recently emerged as simple and low-cost paradigms for fluid manipulation and analytical/clinical testing. However, there are significant challenges in developing paper-based devices at the system level, which contain integrated paper-based power sources. Here, we report a microfabricated paper-based bacteria-powered battery that is capable of generating power from microbial metabolism. The battery on paper showed a very short start-up time relative to conventional microbial fuel cells (MFCs); paper substrates eliminated the time traditional MFCs required to accumulate and acclimate bacteria on the anode. Only four batteries connected in series provided desired values of current and potential to power an LED for more than 30 minutes. The battery featured (i) a low-cost paper-based proton exchange membrane directly patterned on commercially available parchment paper and (ii) paper reservoirs for holding the anolyte and the catholyte for an extended period of time. Based on this concept, we also demonstrate the use of paper-based test platforms for the rapid characterization of electricity-generating bacteria. This paper-based microbial screening tool does not require external pumps/tubings and represents the most rapid test platform (<50 min) compared with the time needed by using traditional screening tools (up to 103 days) and even recently proposed MEMS arrays (< 2 days). PMID:25363848

  5. Anhydrobiosis in bacteria: From physiology to applications

    Indian Academy of Sciences (India)

    Armando Hernández García

    2011-12-01

    Anhydrobiosis is a phenomenon related to the partial or total desiccation of living organisms, keeping their vital functions after rehydration. The desiccated state in prokaryotes has been widely studied, mainly due to the broad spectrum of the anhydrobiosis applications. In this review, we present the basic theoretical concepts related to anhydrobiosis, focusing on bacterial species. An update about desiccation tolerance in bacteria is given; and the general mechanisms of desiccation tolerance and desiccation damage are described. In addition, we show how the study of anhydrobiosis in prokaryotes has established the theoretical and practical basis for the development of the drying technologies. With regard to the desiccation tolerance in bacteria, although many mechanisms remain undiscovered at the molecular level, important research about the physiology of the anhydrobiotic state and its applications has been performed, and here we provide the most recent information about this subject. On the other hand, the most widely used drying technologies and their particular applications in several fields are described (e.g. medicine, agriculture and food industry). Finally, topics on the stability of desiccated bacterial cells are treated, concluding with the necessity of focusing the research on the mathematical modelling of the desiccated state in bacteria.

  6. Bioleaching of marmatite using moderately thermophilic bacteria

    Institute of Scientific and Technical Information of China (English)

    ZHOU Hong-bo; LIU Fei-fei; ZOU Ying-qin; ZENG Xiao-xi; QIU Guan-zhou

    2008-01-01

    The process of bioleaching marmatite using moderately thermophilic bacteria was studied by comparing marmatite leaching performance of mesophiles and moderate thermophiles and valuating the effect of venting capacity as well as pulp density on marmatite leaching performance of moderate thermophiles. The results show that moderate thermophiles have more advantages over mesophilies in bioleaching marmatite at 45℃ and the pulp density of 50g/L, and the zinc extraction efficiency reaches 93.1% in 20d. Aeration agitation can improve the transfer of O2 and CO2 in solution and promote the growth of bacteria and therefore, enhance the leaching efficiency. Under the venting levels of 50, 200 and 800mL/min, the zinc extraction efficiencies by moderate thermophiles are 57.8%, 92.5% and 96.0%, respectively. With the increase of pulp density, the total leaching amount of valuable metals increases, however, the extraction efficiency decreases due to many reasons, such as increasing shear force leading to poorly growth condition for bacteria, etc. The zinc extraction decreases remarkably to 58.9% while the pulp density mounts up 20%.

  7. Distribution of coliform bacteria in waste water

    Directory of Open Access Journals (Sweden)

    Dau Lal Bohra

    2012-02-01

    Full Text Available Biological activity of water can be apparently judged by the colonization of bacteria (microbes. In order to find out the extent of pollution and the relationship between inorganic matters and microbiota, a quantitative and qualitative analysis of bacteria in various types of sewage waters, namely sewage water by the residential colonies (group I, industrial waste water (group II, sewage treatment hub (group III, unorganized collected waste water (group IV and old residential waste collection center (group V, of Bikaner city (Rajasthan, India was carried out from February, 2010 to May, 2010. Water samples were taken from surface only owing to low depth and investigated for various abiotic factors (viz. transparency, pH, carbonate, bicarbonate, total alkalinity, total hardness, salinity, chloride, calcium, magnesium, sulphate, nitrate, silica, and inorganic phosphorous and biotic factors (viz. number and diversity of bacteria. The domestic sewage water causes major water borne diseases basing upon Total Bacterial Count (TBC and coliform Count (CC. The coliform count in the present study ranged from 2.5 to 5.12 MPN/mL. Comparision of microbial population in sewage water from all different Groups was done and the higher values of TBC and CC were recorded only in Sewage treatement hub (Group III.

  8. Bacteria associated with Amblyomma cajennense tick eggs.

    Science.gov (United States)

    Machado-Ferreira, Erik; Vizzoni, Vinicius Figueiredo; Piesman, Joseph; Gazeta, Gilberto Salles; Soares, Carlos Augusto Gomes

    2015-12-01

    Ticks represent a large group of pathogen vectors that blood feed on a diversity of hosts. In the Americas, the Ixodidae ticks Amblyomma cajennense are responsible for severe impact on livestock and public health. In the present work, we present the isolation and molecular identification of a group of culturable bacteria associated with A. cajennense eggs from females sampled in distinct geographical sites in southeastern Brazil. Additional comparative analysis of the culturable bacteria from Anocentor nitens, Rhipicephalus sanguineus and Ixodes scapularis tick eggs were also performed. 16S rRNA gene sequence analyses identified 17 different bacterial types identified as Serratia marcescens, Stenotrophomonas maltophilia, Pseudomonas fluorescens, Enterobacter spp., Micrococcus luteus, Ochrobactrum anthropi, Bacillus cereus and Staphylococcus spp., distributed in 12 phylogroups. Staphylococcus spp., especially S. sciuri, was the most prevalent bacteria associated with A. cajennense eggs, occurring in 65% of the samples and also frequently observed infecting A. nitens eggs. S. maltophilia, S. marcescens and B. cereus occurred infecting eggs derived from specific sampling sites, but in all cases rising almost as pure cultures from infected A. cajennense eggs. The potential role of these bacterial associations is discussed and they possibly represent new targets for biological control strategies of ticks and tick borne diseases. PMID:26537602

  9. Soil bacteria for remediation of polluted soils

    Energy Technology Data Exchange (ETDEWEB)

    Springael, D.; Bastiaens, L.; Carpels, M.; Mergaey, M.; Diels, L.

    1996-09-18

    Soil bacteria, specifically adapted to contaminated soils, may be used for the remediation of polluted soils. The Flemish research institute VITO has established a collection of bacteria, which were isolated from contaminated areas. This collection includes microbacteria degrading mineral oils (Pseudomonas sp., Acinetobacter sp. and others), microbacteria degrading polycyclic aromatic hydrocarbons (genera Sphingomonas and Mycobacterium), microbacteria degrading polychlorobiphenyls (genus Ralstonia and strains related to beta-Proteobacteria), and metal resistant bacteria with plasmid borne resistances to Cd, Zn, Ni, Co, Cu, Hg, and Cr. Bench-scale reactors were developed to investigate the industrial feasibility of bioremediation. Batch Stirred Tank Reactors were used to evaluate the efficiency of oil degraders. Soils, contaminated with non-ferrous metals, were treated using a Bacterial Metal Slurry Reactor. It was found that the reduction of the Cd concentration may vary strongly from sample to sample: reduction factors vary from 95 to 50%. Is was shown that Cd contained in metallic sinter and biologically unavailable Cd could not be removed.

  10. The analysis of bacteria strains and sensitivity of bacteria to antibiotics in acute obstructive cholangitis with suppuration

    Institute of Scientific and Technical Information of China (English)

    顾彬

    2013-01-01

    Objective To analyze the changes of bacteria stains in acute obstructive cholangitis with suppuration(AOSC) and sensitivity of different bacteria strains to antibiotics in recent decade. Methods The data of bacterial

  11. Partial least squares for efficient models of fecal indicator bacteria on Great Lakes beaches

    Science.gov (United States)

    Brooks, Wesley R.; Fienen, Michael J.; Corsi, Steven R.

    2013-01-01

    At public beaches, it is now common to mitigate the impact of water-borne pathogens by posting a swimmer's advisory when the concentration of fecal indicator bacteria (FIB) exceeds an action threshold. Since culturing the bacteria delays public notification when dangerous conditions exist, regression models are sometimes used to predict the FIB concentration based on readily-available environmental measurements. It is hard to know which environmental parameters are relevant to predicting FIB concentration, and the parameters are usually correlated, which can hurt the predictive power of a regression model. Here the method of partial least squares (PLS) is introduced to automate the regression modeling process. Model selection is reduced to the process of setting a tuning parameter to control the decision threshold that separates predicted exceedances of the standard from predicted non-exceedances. The method is validated by application to four Great Lakes beaches during the summer of 2010. Performance of the PLS models compares favorably to that of the existing state-of-the-art regression models at these four sites.

  12. Bacteria-Targeting Nanoparticles for Managing Infections

    Science.gov (United States)

    Radovic-Moreno, Aleksandar Filip

    Bacterial infections continue to be a significant concern particularly in healthcare settings and in the developing world. Current challenges include the increasing spread of drug resistant (DR) organisms, the side effects of antibiotic therapy, the negative consequences of clearing the commensal bacterial flora, and difficulties in developing prophylactic vaccines. This thesis was an investigation of the potential of a class of polymeric nanoparticles (NP) to contribute to the management of bacterial infections. More specifically, steps were taken towards using these NPs (1) to achieve greater spatiotemporal control over drug therapy by more targeted antibiotic delivery to bacteria, and (2) to develop a prophylactic vaccine formulation against the common bacterial sexually transmitted disease (STD) caused by Chlamydia trachomatis. In the first part, we synthesized polymeric NPs containing poly(lactic-co-glycolic acid)-block-poly(L-histidine)-block-poly(ethylene glycol) (PLGA-PLH-PEG). We show that these NPs are able to bind to bacteria under model acidic infection conditions and are able to encapsulate and deliver vancomycin to inhibit the growth of Staphylococcus aureus bacteria in vitro. Further work showed that the PLGA-PLH-PEG-based NPs demonstrated the potential for competition for binding bacteria at a site of infection from soluble protein and model phagocytic and tissue-resident cells in a NP composition dependent manner. The NPs demonstrated low toxicity in vitro, were well tolerated by mice in vivo, and circulated in the blood on timescales comparable to control PLGA-PEG NPs. In the second part, we used PLGA-PLH-PEG-based NPs to design a prophylactic vaccine against the obligate intracellular bacterium Chlamydia trachomatis, the most common cause of bacterial STD in the world. Currently, no vaccines against this pathogen are approved for use in humans. We first formulated NPs encapsulating the TLR7 agonist R848 conjugated to poly(lactic acid) (R848-PLA

  13. Bioluminescent bacteria as indicators of chemical contamination of coastal waters.

    Science.gov (United States)

    Frischer, M E; Danforth, J M; Foy, T F; Juraske, R

    2005-01-01

    The ratio of bioluminescent to total bacteria (bioluminescent ratio, BLR) as an indicator of a variety of types of anthropogenic contamination of estuarine ecosystems was evaluated through a series of laboratory and field studies. Laboratory studies indicated that the BLR of natural bacterioplankton communities was proportionally reduced in the presence of a number of contaminants including diesel fuel and saltmarsh sediments co-contaminated with mercury and polychlorinated biphenyls (PCBs). Bioluminescent ratio inhibition was observed after short-term exposure to a contaminant suggesting a physiological rather than a population response of native microbial communities. Simulated eutrophication did not suppress the BLR. Field observations of the BLR were conducted weekly for a 2-yr period in the Skidaway River estuary, Georgia, USA. These observations revealed considerable seasonal variability associated with the BLR. Bioluminescent ratios were highest during the summer (25 +/- 15%), lower in the fall (6 +/- 5%) and spring (3 +/- 2%), and near zero during the winter. Although the BLR was not significantly correlated to salinity at a single site (Skidaway River estuary), the BLR was significantly correlated with salinity when sites within the same estuary system were compared (r2 = 0.93). Variation in BLR was not correlated to standard bacteriological indicators of water quality including total and fecal coliform bacteria. Comparison of the BLR from impacted and pristine estuarine sites during the fall suggested that anthropogenically impacted sites exhibited lower BLR than predicted from salinity versus BLR relationships developed in pristine systems. These observations suggest that the BLR could be used as a simple and reliable initial indicator of chemical contamination of estuarine systems resulting from human activity. PMID:15998855

  14. Bacteria-Mineral Interactions on the Surfaces of Metal-Resistant Bacteria

    International Nuclear Information System (INIS)

    The extraordinary ability of indigenous microorganisms, like metal-resistant bacteria, for biotransformation of toxic compounds is of considerable interest for the emerging area of environmental bioremediation. However, the underlying mechanisms by which metal-resistant bacteria transform toxic compounds are currently unknown and await elucidation. The project's objective was to study stress-induced responses of metal-resistant bacteria to environmental changes and chemical stimulants. This project involved a multi-institutional collaboration of our LLNL group with the group of Dr. H.-Y. Holman (Lawrence Berkeley National Laboratory). In this project, we have utilized metal-resistant bacteria Arthrobacter oxydans as a model bacterial system. We have utilized atomic force microscopy (AFM) to visualize for the first time at the nanometer scale formation of stress-induced structures on bacterial surfaces in response to Cr (VI) exposure. We have demonstrated that structure, assembly, and composition of these stress-induced structures are dependent on Cr (VI) concentrations. Our AFM observations of the appearance and development of stress-induced layers on the surfaces of Arthrobacter oxydans bacteria exposed to Cr (VI) were confirmed by Dr. Holman's biochemical, electron microscopy, and synchrotron infrared spectromicroscopy studies. In general, in vitro imaging of live microbial and cellular systems represents one of the most challenging issues in application of AFM. Various approaches for immobilization of bacteria on the substrate for in vitro imaging were tested in this project. Imaging of live bacteria was achieved, however further optimization of experimental methods are needed for high-resolution visualization of the cellular environmental structural dynamics by AFM. This project enhanced the current insight into molecular architecture, structural and environmental variability of bacterial systems. The project partially funded research for two book chapters (1

  15. Assessment of the Levels of Airborne Bacteria, Gram-Negative Bacteria, and Fungi in Hospital Lobbies

    Directory of Open Access Journals (Sweden)

    Dong-Uk Park

    2013-01-01

    Full Text Available Aims: We assessed the levels of airborne bacteria, Gram-negative bacteria (GNB, and fungi in six hospital lobbies, and investigated the environmental and hospital characteristics that affected the airborne microorganism levels. Methods: An Andersen single-stage sampler equipped with appropriate nutrition plate agar was used to collect the samples. The three types of microorganisms were repeatedly collected at a fixed location in each hospital (assumed to be representative of the entire hospital lobby from 08:00 through 24:00, with a sampling time of less than 5 min. Temperature and relative humidity were simultaneously monitored. Results: Multiple regression analysis was used to identify the major factors affecting microorganism levels. The average levels of bacteria (7.2 × 102 CFU/m3, GNB (1.7 × 10 CFU/m3, and fungi (7.7 × 10 CFU/m3 indicated that all hospital lobbies were generally contaminated. Season was the only factor that significantly affected the levels of all microorganisms (p < 0.0001, where contamination was the highest during the summer, significantly higher than during the winter. Other significant factors varied by microorganism, as follows: airborne bacteria (number of people in the lobby, sampling time, GNB (scale of hospital, and fungi (humidity and air temperature. Conclusions: Hospital lobby air was generally contaminated with microorganisms, including bacteria, GNB, and fungi. Environmental factors that may significantly influence the airborne concentrations of these agents should be managed to minimize airborne levels.

  16. The role of endophytic methane oxidizing bacteria in submerged Sphagnum in determining methane emissions of Northeastern Siberian tundra

    Directory of Open Access Journals (Sweden)

    A. J. Dolman

    2010-11-01

    Full Text Available The behavior of tundra ecosystems is critical in the global carbon cycle due to their wet soils and large stores of carbon. Recently, cooperation was observed between methanotrophic bacteria and submerged Sphagnum, which reduces methane emissions in this type of vegetation and supplies CO2 for photosynthesis to the plant. Although proven in the lab, the differences that exist in methane emissions from inundated vegetation types with or without Sphagnum have not been linked to these bacteria before. To further investigate the importance of these bacteria, chamber flux measurements, microbial analysis and flux modeling were used to show that methane emissions in a submerged Sphagnum/sedge vegetation type were 50% lower compared to an inundated sedge vegetation without Sphagnum. From examining the results of the measurements, incubation experiments and flux modeling, it was found that it is likely that this difference is due to, for a large part, oxidation of methane below the water table by these endophytic bacteria. This result is important when upscaled spatially since oxidation by these bacteria plays a large role in 15% of the net methane emissions, while at the same time they promote photosynthesis of Sphagnum, and thus carbon storage. Future changes in the spread of submerged Sphagnum, in combination with the response of these bacteria to a warmer climate, could be an important factor in predicting future greenhouse gas exchange from tundra.

  17. Isolation of radiation-resistant bacteria without exposure to irradiation

    International Nuclear Information System (INIS)

    Resistance to desiccation was utilized in the selection of highly radiation-resistant asporogenous bacteria from nonirradiated sources. A bacterial suspension in phosphate buffer was dried in a thin film at 250C and 33% relative humidity. Storage under these conditions for 15 days or more reduced the number of radiation-sensitive bacteria. Further selection for radiation-resistant bacteria was obtained by irradiation of bacteria on velveteen in the replication process, therby avoiding the toxic effect of irradiated media. The similarity of radiation resistance and identifying characteristics in irradiated and non-irradiated isolates should allay some concerns that highly radiation-resistance bacteria have been permanently altered by radiation selection

  18. Root Associated Bacteria – Friends or Enemies? A Review

    Directory of Open Access Journals (Sweden)

    Gabriela Mihalache

    2015-10-01

    Full Text Available Plant roots, due to their exudates, represent important ecological niches for bacteria, which can influence the plant growth by their both beneficial and deleterious effects. The positive effects of bacteria interaction with the plants roots consist in facilitating the nutrient uptake (N, P, producing phytohormones, enhancing their resistance to biotic and abiotic factors such as pathogenic fungi and bacteria, extreme temperatures, heavy metals, salinity. Regarding the harmful effects of bacteria on plants growth, production of phytotoxins, competition for nutrients or inducing diseases or even plants death represents examples of mechanisms by which bacteria can affect in a negative manner the growth of the plants.

  19. Population Dynamic of Dendronephthya sp.-Associated Bacteria in Natural and Artificial Habitats

    Directory of Open Access Journals (Sweden)

    SUSAN SOKA

    2011-06-01

    Full Text Available Dendronephthya sp. is a soft coral that has huge distribution starting from Indopacific, Tonga, Solomon Islands to Great Barrier Reef in Australia. However, this soft corals survive only in short period after cultivation in artificial habitat (aquarium. Recent study showed that the soft coral Dendronephtya sp. has an association or symbiotic relationship with several bacteria, commonly known as coral associated bacteria (CAB. In this study, we compared the population dynamic of Dendronephthya sp.-associated bacteria in natural and artificial habitat, resulting different bacterial community profiles using terminal restriction fragment length polymorphism (T-RFLP analysis of bacterial community DNA. There were 15 main classes of bacterial population identified along with uncultured microorganism, uncultured organism, uncultured bacteria and unidentified organism. Members of Actinobacteria, Arthrobacteria, Chlorobia, Caldilineae, -proteobacteria and Proteobacteria were predicted to give contributions in the survival ability of both Dendronephthya sp. The cultivation of soft corals after 2 weeks in artificial habitat increases bacterial population similarity on 2 different samples by 10%. Bacterial population similarity in artificial habitat would increase along with the longer cultivation time of soft corals.

  20. Gill bacteria enable a novel digestive strategy in a wood-feeding mollusk.

    Science.gov (United States)

    O'Connor, Roberta M; Fung, Jennifer M; Sharp, Koty H; Benner, Jack S; McClung, Colleen; Cushing, Shelley; Lamkin, Elizabeth R; Fomenkov, Alexey I; Henrissat, Bernard; Londer, Yuri Y; Scholz, Matthew B; Posfai, Janos; Malfatti, Stephanie; Tringe, Susannah G; Woyke, Tanja; Malmstrom, Rex R; Coleman-Derr, Devin; Altamia, Marvin A; Dedrick, Sandra; Kaluziak, Stefan T; Haygood, Margo G; Distel, Daniel L

    2014-11-25

    Bacteria play many important roles in animal digestive systems, including the provision of enzymes critical to digestion. Typically, complex communities of bacteria reside in the gut lumen in direct contact with the ingested materials they help to digest. Here, we demonstrate a previously undescribed digestive strategy in the wood-eating marine bivalve Bankia setacea, wherein digestive bacteria are housed in a location remote from the gut. These bivalves, commonly known as shipworms, lack a resident microbiota in the gut compartment where wood is digested but harbor endosymbiotic bacteria within specialized cells in their gills. We show that this comparatively simple bacterial community produces wood-degrading enzymes that are selectively translocated from gill to gut. These enzymes, which include just a small subset of the predicted wood-degrading enzymes encoded in the endosymbiont genomes, accumulate in the gut to the near exclusion of other endosymbiont-made proteins. This strategy of remote enzyme production provides the shipworm with a mechanism to capture liberated sugars from wood without competition from an endogenous gut microbiota. Because only those proteins required for wood digestion are translocated to the gut, this newly described system reveals which of many possible enzymes and enzyme combinations are minimally required for wood degradation. Thus, although it has historically had negative impacts on human welfare, the shipworm digestive process now has the potential to have a positive impact on industries that convert wood and other plant biomass to renewable fuels, fine chemicals, food, feeds, textiles, and paper products. PMID:25385629

  1. Reprogrammable microbial cell-based therapeutics against antibiotic-resistant bacteria.

    Science.gov (United States)

    Hwang, In Young; Koh, Elvin; Kim, Hye Rim; Yew, Wen Shan; Chang, Matthew Wook

    2016-07-01

    The discovery of antimicrobial drugs and their subsequent use has offered an effective treatment option for bacterial infections, reducing morbidity and mortality over the past 60 years. However, the indiscriminate use of antimicrobials in the clinical, community and agricultural settings has resulted in selection for multidrug-resistant bacteria, which has led to the prediction of possible re-entrance to the pre-antibiotic era. The situation is further exacerbated by significantly reduced antimicrobial drug discovery efforts by large pharmaceutical companies, resulting in a steady decline in the number of new antimicrobial agents brought to the market in the past several decades. Consequently, there is a pressing need for new antimicrobial therapies that can be readily designed and implemented. Recently, it has become clear that the administration of broad-spectrum antibiotics can lead to collateral damage to the human commensal microbiota, which plays several key roles in host health. Advances in genetic engineering have opened the possibility of reprogramming commensal bacteria that are in symbiotic existence throughout the human body to implement antimicrobial drugs with high versatility and efficacy against pathogenic bacteria. In this review, we discuss recent advances and potentialities of engineered bacteria in providing a novel antimicrobial strategy against antibiotic resistance. PMID:27449598

  2. Give us the tools and we will do the job: symbiotic bacteria affect olive fly fitness in a diet-dependent fashion

    International Nuclear Information System (INIS)

    Olive flies (Bactrocera oleae) are intimately associated with bacteria throughout their life cycle, and both larvae and adults are morphologically adapted for housing bacteria in the digestive tract. We tested the hypothesis that these bacteria contribute to the adult fly's fitness in a diet-dependent fashion. We predicted that when dietary protein is superabundant, bacterial contribution will be minimal. Conversely, in the absence of protein, or when only non-essential amino acids are present (as in the fly's natural diet), we predicted that bacterial contribution to fitness will be significant. Accordingly, we manipulated diet and the presence of bacteria in female olive flies, and monitored fecundity, an indirect measure of fitness. Bacteria did not affect fecundity when females were fed a nutritionally poor diet of sucrose, or a protein-rich, nutritionally complete diet. However, when females were fed a diet containing non-essential amino acids as the sole source of amino nitrogen, egg production was significantly enhanced in the presence of bacteria. These results suggest that bacteria were able to compensate for the skewed amino acid composition of the diet and may be indispensable for wild adult olive flies that subsist mainly on nitrogen-poor resources such as honeydew. (author)

  3. Hessian fly-associated bacteria: transmission, essentiality, and composition.

    Directory of Open Access Journals (Sweden)

    Raman Bansal

    Full Text Available Plant-feeding insects have been recently found to use microbes to manipulate host plant physiology and morphology. Gall midges are one of the largest groups of insects that manipulate host plants extensively. Hessian fly (HF, Mayetiola destructor is an important pest of wheat and a model system for studying gall midges. To examine the role of bacteria in parasitism, a systematic analysis of bacteria associated with HF was performed for the first time. Diverse bacteria were found in different developmental HF stages. Fluorescent in situ hybridization detected a bacteriocyte-like structure in developing eggs. Bacterial DNA was also detected in eggs by PCR using primers targeted to different bacterial groups. These results indicated that HF hosted different types of bacteria that were maternally transmitted to the next generation. Eliminating bacteria from the insect with antibiotics resulted in high mortality of HF larvae, indicating that symbiotic bacteria are essential for the insect to survive on wheat seedlings. A preliminary survey identified various types of bacteria associated with different HF stages, including the genera Enterobacter, Pantoea, Stenotrophomonas, Pseudomonas, Bacillus, Ochrobactrum, Acinetobacter, Alcaligenes, Nitrosomonas, Arcanobacterium, Microbacterium, Paenibacillus, and Klebsiella. Similar bacteria were also found specifically in HF-infested susceptible wheat, suggesting that HF larvae had either transmitted bacteria into plant tissue or brought secondary infection of bacteria to the wheat host. The bacteria associated with wheat seedlings may play an essential role in the wheat-HF interaction.

  4. Design and application of the method for isolating magnetotactic bacteria

    Institute of Scientific and Technical Information of China (English)

    XIAO Zhijie; LIAN Bin; CHEN Jun; H. Henry Teng

    2007-01-01

    A simple apparatus was designed to effectively isolate magnetotactic bacteria from soils or sediments based on their magnetotaxis. Through a series of processes including sample incubation, MTB harvesting, isolation, purification and identification, several strains of bacteria were isolated from the samples successfully. By Transmission Electron Microscopy (TEM) and Energy-Dispersive X-ray Analysis (EDXA), these bacteria were certificated to be magnetotactic bacteria. The phylogenetic relationship between the isolated magnetic strains and some known magnetotactic bacteria was inferred by the construction of phylogenetic tree based on 16SrDNA sequences. This apparatus has been proven to have the advantages of being inexpensive, simple to assemble, easy to perform and highly efficient to isolate novel magnetotactic bacteria. The research indicated that the combined approach of harvesting MTB by home-made apparatus and the method of plate colony isolation could purify and isolate magnetotactic bacteria effectively.

  5. Computational Challenges in Characterization of Bacteria and Bacteria-Host Interactions Based on Genomic Data

    Institute of Scientific and Technical Information of China (English)

    Chao Zhang; Guo-lu Zheng; Shun-Fu Xu; Dong Xu

    2012-01-01

    With the rapid development of next-generation sequencing technologies,bacterial identification becomes a very important and essential step in processing genomic data,especially for metagenomic data.Many computational methods have been developed and some of them are widely used to address the problems in bacterial identification.In this article we review the algorithms of these methods,discuss their drawbacks,and propose future computational methods that use genomic data to characterize bacteria.In addition,we tackle two specific computational problems in bacterial identification,namely,the detection of host-specific bacteria and the detection of disease-associated bacteria,by offering potential solutions as a starting point for those who are interested in the area.

  6. Bacteria-bacteria interactions within the microbiota of the ancestral metazoan Hydra contribute to fungal resistance.

    Science.gov (United States)

    Fraune, Sebastian; Anton-Erxleben, Friederike; Augustin, René; Franzenburg, Sören; Knop, Mirjam; Schröder, Katja; Willoweit-Ohl, Doris; Bosch, Thomas C G

    2015-07-01

    Epithelial surfaces of most animals are colonized by diverse microbial communities. Although it is generally agreed that commensal bacteria can serve beneficial functions, the processes involved are poorly understood. Here we report that in the basal metazoan Hydra, ectodermal epithelial cells are covered with a multilayered glycocalyx that provides a habitat for a distinctive microbial community. Removing this epithelial microbiota results in lethal infection by the filamentous fungus Fusarium sp. Restoring the complex microbiota in gnotobiotic polyps prevents pathogen infection. Although mono-associations with distinct members of the microbiota fail to provide full protection, additive and synergistic interactions of commensal bacteria are contributing to full fungal resistance. Our results highlight the importance of resident microbiota diversity as a protective factor against pathogen infections. Besides revealing insights into the in vivo function of commensal microbes in Hydra, our findings indicate that interactions among commensal bacteria are essential to inhibit pathogen infection. PMID:25514534

  7. Geochemistry and Mixing Drive the Spatial Distribution of Free-living Archaea and Bacteria in Yellowstone Lake

    Directory of Open Access Journals (Sweden)

    Jinjun eKan

    2016-02-01

    Full Text Available Yellowstone Lake, the largest subalpine lake in the United States, harbors great novelty and diversity of Bacteria and Archaea. Size-fractionated water samples (0.1-0.8 µm, 0.8-3.0 µm, and 3.0-20 µm were collected from surface photic zone, deep mixing zone, and vent fluids at different locations in the lake by using a remotely operated vehicle (ROV. Quantification with real-time PCR indicated that Bacteria dominated free-living microorganisms with Bacteria/Archaea ratios ranging from 4037:1 (surface water to 25:1 (vent water. Microbial population structures (both Bacteria and Archaea were assessed using 454-FLX sequencing with a total of 662,302 pyrosequencing reads for V1 & V2 regions of 16S rRNA genes. Nonmetric multidimensional scaling (NMDS analyses indicated that strong spatial distribution patterns existed from surface to deep vents for free-living Archaea and Bacteria in the Lake. Along with pH, major vent-associated geochemical constituents including CH4, CO2, H2, DIC (dissolved inorganic carbon, DOC (dissolved organic carbon, SO42-, O2 and metals were likely the major drivers for microbial population structures, however mixing events occurring in the lake also impacted the distribution patterns. Distinct Bacteria and Archaea were present among size fractions, and bigger size fractions included particle-associated microbes (>3 µm and contained higher predicted OTU richness and microbial diversities (genus level than free-living ones (< 0.8 µm. Our study represents the first attempt at addressing the spatial distribution of Bacteria and Archaea in Yellowstone Lake, and our results highlight the variable contribution of Archaea and Bacteria to the hydrogeochemical-relevant metabolism of hydrogen, carbon, nitrogen, and sulfur.

  8. Geochemistry and Mixing Drive the Spatial Distribution of Free-Living Archaea and Bacteria in Yellowstone Lake.

    Science.gov (United States)

    Kan, Jinjun; Clingenpeel, Scott; Dow, Charles L; McDermott, Timothy R; Macur, Richard E; Inskeep, William P; Nealson, Kenneth H

    2016-01-01

    Yellowstone Lake, the largest subalpine lake in the United States, harbors great novelty and diversity of Bacteria and Archaea. Size-fractionated water samples (0.1-0.8, 0.8-3.0, and 3.0-20 μm) were collected from surface photic zone, deep mixing zone, and vent fluids at different locations in the lake by using a remotely operated vehicle (ROV). Quantification with real-time PCR indicated that Bacteria dominated free-living microorganisms with Bacteria/Archaea ratios ranging from 4037:1 (surface water) to 25:1 (vent water). Microbial population structures (both Bacteria and Archaea) were assessed using 454-FLX sequencing with a total of 662,302 pyrosequencing reads for V1 and V2 regions of 16S rRNA genes. Non-metric multidimensional scaling (NMDS) analyses indicated that strong spatial distribution patterns existed from surface to deep vents for free-living Archaea and Bacteria in the lake. Along with pH, major vent-associated geochemical constituents including CH4, CO2, H2, DIC (dissolved inorganic carbon), DOC (dissolved organic carbon), SO4 (2-), O2 and metals were likely the major drivers for microbial population structures, however, mixing events occurring in the lake also impacted the distribution patterns. Distinct Bacteria and Archaea were present among size fractions, and bigger size fractions included particle-associated microbes (> 3 μm) and contained higher predicted operational taxonomic unit richness and microbial diversities (genus level) than free-living ones (<0.8 μm). Our study represents the first attempt at addressing the spatial distribution of Bacteria and Archaea in Yellowstone Lake, and our results highlight the variable contribution of Archaea and Bacteria to the hydrogeochemical-relevant metabolism of hydrogen, carbon, nitrogen, and sulfur. PMID:26973602

  9. Cadmium (II) distribution in complex aquatic systems containing ferrihydrite, bacteria and an organic ligand: The effect of bioactivity

    International Nuclear Information System (INIS)

    Highlights: → Cd2+ and ferrihydrite did not inhibit H2Lp degradation by Comamonas spp. → In systems lacking ferrihydrite, Cd2+ sorption onto live bacteria exceeded dead bacteria for pH > 6. → With ferrihydrite present, no difference in Cd2+ sorption to live and dead bacteria was observed. → Cd2+ sorption to ferrihydrite and bacterial was successfully modeled by neglecting H2Lp degradation. - Abstract: The distribution of Cd2+ in the presence of phthalic acid (H2Lp), ferrihydrite and bacteria (Comamonas spp.) was investigated in biologically active systems involving H2Lp biodegradation. Tests showed that Cd2+ sorption onto bacteria, ferrihydrite and bacteria-ferrihydrite mixture increased with pH in all systems, irrespective of H2Lp degradation or not. The use of bacterial growth medium, Bushnell Hass Broth modified for low phosphate, had negligible effect on Cd sorption. In the presence of ferrihydrite, no difference was observed between Cd2+ sorption in the ferrihydrite-live bacteria and in the ferrihydrite-dead bacteria systems as ferrihydrite proved to be the dominant sorption phase. Cadmium sorption to ferrihydrite and to bacterial cells was described using the diffuse layer model and a nonelectrostatic 4-site model, respectively, which were developed for systems lacking H2Lp degradation. For systems experiencing H2Lp degradation this modeling approach predicted the general trend of Cd2+ sorption-edge shift and gave good fits to the observed sorption data. The results obtained demonstrate that Cd2+ sorption in the biologically active system was reasonably estimated by a model developed for biologically inactive systems, although uncertainty exists due to processes involving H2Lp biodegradation products and changes in the bacterial population.

  10. Geochemistry and Mixing Drive the Spatial Distribution of Free-Living Archaea and Bacteria in Yellowstone Lake

    Science.gov (United States)

    Kan, Jinjun; Clingenpeel, Scott; Dow, Charles L.; McDermott, Timothy R.; Macur, Richard E.; Inskeep, William P.; Nealson, Kenneth H.

    2016-01-01

    Yellowstone Lake, the largest subalpine lake in the United States, harbors great novelty and diversity of Bacteria and Archaea. Size-fractionated water samples (0.1–0.8, 0.8–3.0, and 3.0–20 μm) were collected from surface photic zone, deep mixing zone, and vent fluids at different locations in the lake by using a remotely operated vehicle (ROV). Quantification with real-time PCR indicated that Bacteria dominated free-living microorganisms with Bacteria/Archaea ratios ranging from 4037:1 (surface water) to 25:1 (vent water). Microbial population structures (both Bacteria and Archaea) were assessed using 454-FLX sequencing with a total of 662,302 pyrosequencing reads for V1 and V2 regions of 16S rRNA genes. Non-metric multidimensional scaling (NMDS) analyses indicated that strong spatial distribution patterns existed from surface to deep vents for free-living Archaea and Bacteria in the lake. Along with pH, major vent-associated geochemical constituents including CH4, CO2, H2, DIC (dissolved inorganic carbon), DOC (dissolved organic carbon), SO42-, O2 and metals were likely the major drivers for microbial population structures, however, mixing events occurring in the lake also impacted the distribution patterns. Distinct Bacteria and Archaea were present among size fractions, and bigger size fractions included particle-associated microbes (> 3 μm) and contained higher predicted operational taxonomic unit richness and microbial diversities (genus level) than free-living ones (<0.8 μm). Our study represents the first attempt at addressing the spatial distribution of Bacteria and Archaea in Yellowstone Lake, and our results highlight the variable contribution of Archaea and Bacteria to the hydrogeochemical-relevant metabolism of hydrogen, carbon, nitrogen, and sulfur. PMID:26973602

  11. Legionella bacteria in combustion air humidifiers; Legionella i luftuppfuktare foer foerbraenningsluft

    Energy Technology Data Exchange (ETDEWEB)

    Jeppesen, Jessica; Hansson, Helen; Cederfeldt, Ola; Axby, Fredrik

    2007-10-15

    had positive test results for legionella, three of them contained Legionella pneumophila serogroup 1. In the second test round, two of the plants had positive test results but only one of them was verified to L. pneumophila sg 1. Both the fuel gas analyses showed negative results for legionella bacteria and the level of heterotrophic bacteria was low or nonexistent. In this report the occurrence of legionella bacteria in combustion air humidifiers has mainly been treated as a working environmental risk. A risk assessment for the plant with the highest amount of legionella bacteria shows that the growth of legionella primary should be minimized/eliminated. As a compliment, personal safety devices such as respiratory protection should be used during revision work in water tanks or while cleaning the water system, i.e. when the risk for water aerosols is greater than during normal operation of the plant. The employer is responsible to inform all personal who might become infected with legionella. There should also be routines for reporting as well as routines for both proactive and reactive measures. From the test results the conclusion that legionella bacteria occur in combustion air humidifiers can be drawn. In addition legionella bacteria can occur in all three studied types of air humidifiers; rotating-, lamella- and scrubber air humidifiers. It is difficult to predict how great a risk it is that legionella bacteria will occur in the different types of air humidifiers. The risk of legionella bacteria transferring from the water systems to outgoing fuel gas varies in the different types of air humidifiers. It is obvious that the risk of transferring legionella bacteria to the fuel gas is greater in rotating air humidifiers and in lamella air humidifiers where both fuel gas and air is washed with water from the same water system. There is also a risk of transferring legionella bacteria to fuel gas in scrubber air humidifiers where the air humidifier and the condenser

  12. Clay-Bacteria Systems and Biofilm Production

    Science.gov (United States)

    Steiner, J.; Alimova, A.; Katz, A.; Steiner, N.; Rudolph, E.; Gottlieb, P.

    2007-12-01

    Soil clots and the aerosol transport of bacteria and spores are promoted by the formation of biofilms (bacteria cells in an extracellular polymeric matrix). Biofilms protect microorganisms by promoting adhesion to both organic and inorganic surfaces. Time series experiments on bacteria-clay suspensions demonstrate that biofilm growth is catalyzed by the presence of hectorite in minimal growth media for the studied species: Gram negatives (Pseudomonas syringae and Escherichia coli,) and Gram positives (Staphylococcus aureus and Bacillus subtilis). Soil organisms (P. syringae, B. subtilis) and organisms found in the human population (E. coli, S. aureus) are both used to demonstrate the general applicability of clay involvement. Fluorescent images of the biofilms are acquired by staining with propidium iodide, a component of the BacLightTM Live/Dead bacterial viability staining kit (Molecular Probes, Eugene, OR). The evolving polysaccharide-rich biofilm reacts with the clay interlayer site causing a complex substitution of the two-water hectorite interlayer with polysaccharide. The result is often a three-peak composite of the (001) x-ray diffraction maxima resulting from polysaccharide-expanded clays and an organic-driven contraction of a subset of the clays in the reaction medium. X-ray diffractograms reveal that the expanded set creates a broad maximum with clay subsets at 1.84 nm and 1.41 nm interlayer spacings as approximated by a least squares double Lorentzian fit, and a smaller shoulder at larger 2q, deriving from a contraction of the interlayer spacing. Washing with chlorox removes organic material from the contracted clay and creates a 1-water hectorite single peak in place of the double peak. The clay response can be used as an indirect indicator of biofilm in an environmental system.

  13. Do foliar endophytic bacteria fix nitrogen?

    Science.gov (United States)

    Kueppers, L. M.; Moyes, A. B.; Frank, C.; Pett-Ridge, J.; Carper, D.; Vandehey, N.; O'Neil, J.; Dekas, A.

    2015-12-01

    Endophytic microorganisms - bacteria and fungi that live inside healthy plant tissue - are a relatively unexplored source of functional diversity in natural ecosystems. Prior to modern sequencing technology, detecting uncultured endophytic bacteria and assessing their putative functions was challenging. However, recent work has revealed a remarkable diversity of as yet non-culturable endophytic taxa and is beginning to identify functional roles within plant microbiomes. We recently examined bacterial communities in the foliage of a long-lived, high-elevation conifer species, limber pine (Pinus flexilis), and discovered a community strongly dominated by acetic acid bacteria (Acetobacteraceae), with several taxa closely related to known nitrogen fixers. Given limber pine's status as a pioneer species that is able to grow in low fertility soils, we hypothesized that this bacterial community has a potential functional role in fixing atmospheric nitrogen, providing a source of this limiting nutrient to the host tree. We used the radioisotope 13N2 to confirm that N2 rapidly diffuses into pine needles, where it could potentially be fixed. With an acetylene reduction assay we confirmed nitrogenase enzyme activity inside excised twigs 4 times over a growing season, and estimate potential rates of N2 fixation at 0.1 nmol N2 g needle-1 hr-1. Scaled to the stand level, this N input could be on the order of ~20 mg N m-2 d-1 over a growing season. While these rates are low, the long lifespan of individual trees (~1000 years) makes them biologically meaningful. Still, measured rates of acetylene reduction and bulk 15N2 incorporation are quite variable in space and time. Much work remains to better characterize the plant-microbial interactions in this system, including the rates of nitrogen fixation and their variability over the growing season, across edaphic conditions, among host species, and through plant development; and to determine which community members are responsible

  14. Are Bacteria more dangerous in space?

    International Nuclear Information System (INIS)

    With a mission to Mars and a permanent base on the moon as the ultimate dream, space travel is continually pushing back the frontiers. But long space missions present great challenges for science, for example in the field of microbiology. Together with the European Space Agency (ESA), SCK-CEN is studying the effects of space travel conditions on the behaviour of bacteria. In 2009 the SCK-CEN experts completed four innovative research projects at the cutting edge of microbiology, radiation sciences and space travel.

  15. The Origin And Spread Of Airborne Bacteria

    Science.gov (United States)

    Henderson-Begg, S. K.; Moffett, B. F.

    2009-12-01

    The presence of bacteria in clouds may affect their radiation and precipitation properties as some species are able to catalyse the freezing of water at high temperatures (-2C to -10C). Where cloud-borne bacteria originate and the distances they are able to travel in the air remains a mystery. In this study we have attempted to address these issues by comparing metagenomic DNA sequences from air samples with those from other environmental sources. Air samples were collected on 1 July 2009 from a hill top at Thursley Nature Reserve in Surrey, United Kingdom, a rural site, 31 miles from the nearest stretch of coastline, and on 6 July 2009 from the top of a six storey building in Stratford on the East end of London, 38 miles from the nearest coastal area. Samples were collected using the Karcher DS5500 vacuum into a liquid filled collection vessel at an air flow rate of 3.3 m3 min-1 over a 4 hour period. Samples were then concentrated and the bacterial content was investigated by PCR, cloning and sequencing of 16S rRNA genes. During the collection period on 1 July the Royston Weather Station in the South East of England recorded wind speed of 1.9 miles/hour in an Easterly direction, with no cloud cover, relative humidity of 74% and atmospheric pressure of 1021.6 mB. On 6 July wind speed was 9.8 miles/hour in a South Westerly direction, there was light cloud cover, relative humidity was 73.8% and atmospheric pressure was 1002.8 mB. Twenty cloned 16S PCR products from each air sample were sequenced. The species identification of each clone is shown in Table 1. The diversity of bacteria found at both sites was similar, with Stenotrophomona and Pedobacteria species dominating both samples. When the DNA sequences were blasted against the environmental samples database, all sequences were found to display greatest homology to metagenomic DNA from marine sources. This may suggest that the most numerous bacteria in air samples originate in the oceans. Taking account of the

  16. Bacteriophage Infection of Model Metal Reducing Bacteria

    Science.gov (United States)

    Weber, K. A.; Bender, K. S.; Gandhi, K.; Coates, J. D.

    2008-12-01

    Microbially-mediated metal reduction plays a significant role controlling contaminant mobility in aqueous, soil, and sedimentary environments. From among environmentally relevant microorganisms mediating metal reduction, Geobacter spp. have been identified as predominant metal-reducing bacteria under acetate- oxidizing conditions. Due to the significance of these bacteria in environmental systems, it is necessary to understand factors influencing their metabolic physiology. Examination of the annotated finished genome sequence of G. sulfurreducens PCA, G. uraniumreducens Rf4, G. metallireduceans GS-15 as well as a draft genome sequence of Geobacter sp. FRC-32 have identified gene sequences of putative bacteriophage origin. Presence of these sequences indicates that these bacteria are susceptible to phage infection. Polymerase chain reaction (PCR) primer sets designed tested for the presence of 12 of 25 annotated phage-like sequences in G. sulfurreducens PCA and 9 of 17 phage-like sequences in FRC- 32. The following genes were successfully amplified in G. sulfurreducens PCA: prophage type transcription regulator, phage-induced endonuclease, phage tail sheath, 2 phage tail proteins, phage protein D, phage base plate protein, phage-related DNA polymerase, integrase, phage transcriptional regulator, and Cro-like transcription regulator. Nine of the following sequences were present in FRC-32: 4 separate phage- related proteins, phage-related tail component, viron core protein, phage Mu protein, phage base plate, and phage tail sheath. In addition to the bioinformatics evidence, incubation of G. sulfurreducens PCA with 1 μg mL-1 mytomycin C (mutagen stimulating prophage induction) during mid-log phase resulted in significant cell lysis relative to cultures that remained unamended. Cell lysis was concurrent with an increase in viral like particles enumerated using epifluorescent microscopy. In addition, samples collected following this lytic event (~44hours) were

  17. Heterotrophic bacteria associated with Varroa destructor mite

    OpenAIRE

    Vanikova, Slavomira; Noskova, Alzbeta; Pristas, Peter; Judova, Jana; Javorsky, Peter

    2015-01-01

    International audience Varroa bee hive attack is a serious and common problem in bee keeping. In our work, an ecto-microflora of Varroa destructor mites was characterised as a potential source of bacterial bee diseases. Using a cultivation approach, a variable population of bacteria was isolated from the body surface of Varroa mites with frequency of about 150 cfu per mite individual. Nine studied isolates were classified to four genera and six species by a combination of matrix-assisted l...

  18. Electroactive biofilms of sulphate reducing bacteria

    International Nuclear Information System (INIS)

    Biofilms formed from a pure strain of Desulfovibrio desulfuricans 27774 on stainless steel and graphite polarised surfaces were studied. The polarisation conditions applied were -0.4 V vs. SCE for different times. A cathodic current related with the biofilms growth was observed with a maximum intensity of -270 mA m-2 that remained stable for several days using graphite electrodes. These sulphate reducing bacteria biofilms present electrocatalytic activity towards hydrogen and oxygen reduction reactions. Electrode polarisation has a selective effect on the catalytic activity. The biofilms were also observed by scanning electronic microscopy revealing the formation of homogeneous films on the surfaces

  19. Bacteria: prospective savior in battle against cancer.

    Science.gov (United States)

    Nair, Neha; Kasai, Tomonari; Seno, Masaharu

    2014-11-01

    Conventional anticancer therapies such as chemotherapy are losing their sheen in the battle against cancer. Therefore, strategies for treatment of cancer need to be constantly modified to fulfill the growing demands of alternative therapies. Several viral and non-viral vectors have been exploited for anticancer gene therapy. But over the years bacteria have been proven to be an important candidate for successful evasion of cancer. They serve as invaluable source of tumor-specific anticancer genes, toxins, polysaccharides for synthesis of nanodrugs and gene-delivery vectors. The current review assesses the role of important bacterial groups in different spheres of anti-cancer research. PMID:25368227

  20. Application of Pulsed Electric Field on Bacteria

    Czech Academy of Sciences Publication Activity Database

    Kadlec, Tomáš; Babický, Václav; Člupek, Martin; Vrbová, M.

    Prague: Czech Technical University in Prague, 2011 - (Pospíšilová, M.; Vrbová, M.; Macháň, R.), s. 161-164 ISBN 978-80-01-04915-0. [Instruments and Methods for Biology and Medicine 2011. Kladno (CZ), 02.06.2011-02.06.2011] R&D Projects: GA AV ČR IAAX00430802; GA ČR(CZ) GD104/09/H080 Institutional research plan: CEZ:AV0Z20430508 Keywords : Pulsed Electric Field * Bacteria Subject RIV: BO - Biophysics

  1. Turning bacteria suspensions into a "superfluid"

    CERN Document Server

    López, Héctor Matías; Douarche, Carine; Auradou, Harold; Clément, Eric

    2015-01-01

    The rheological response under simple shear of an active suspension of Escherichia coli is determined in a large range of shear rates and concentrations. The effective viscosity and the time scales characterizing the bacterial organization under shear are obtained. In the dilute regime, we bring evidences for a low shear Newtonian plateau characterized by a shear viscosity decreasing with concentration. In the semi-dilute regime, for particularly active bacteria, the suspension display a "super-fluid" like transition where the viscous resistance to shear vanishes, thus showing that macroscopically, the activity of pusher swimmers organized by shear, is able to fully overcome the dissipative effects due to viscous loss.

  2. Draft genome sequence and annotation of Lactobacillus acetotolerans BM-LA14527, a beer-spoilage bacteria.

    Science.gov (United States)

    Liu, Junyan; Li, Lin; Peters, Brian M; Li, Bing; Deng, Yang; Xu, Zhenbo; Shirtliff, Mark E

    2016-09-01

    Lactobacillus acetotolerans is a hard-to-culture beer-spoilage bacterium capable of entering into the viable putative nonculturable (VPNC) state. As part of an initial strategy to investigate the phenotypic behavior of L. acetotolerans, draft genome sequencing was performed. Results demonstrated a total of 1824 predicted annotated genes, with several potential VPNC- and beer-spoilage-associated genes identified. Importantly, this is the first genome sequence of L. acetotolerans as beer-spoilage bacteria and it may aid in further analysis of L. acetotolerans and other beer-spoilage bacteria, with direct implications for food safety control in the beer brewing industry. PMID:27559043

  3. Predictive Food Microbiology

    DEFF Research Database (Denmark)

    Østergaard, Nina Bjerre

    or cultured cream dressing. An important step in the modelling procedure was the calibration of the reference growth rate (µref, h-1 at 25°C) which was strongly affected by the dominating lactic acid bacteria culture. By combining the developed secondary growth models with the empirical Jameson approach, good...... contains considerable concentrations of lactic acid bacteria from the added starter or aroma cultures. The presence of these microorganisms induces some complexity to the product, since the lactic acid bacteria metabolites and e.g. bacteriocins exhibit an inhibitory effect towards co-culture microorganisms...... such as Listeria monocytogenes. During storage at temperatures allowing the mesophilic lactic acid bacteria to grow (> 8-10°C), a pronounced inter-bacterial interaction and growth inhibition of co-culture Listeria monocytogenes was observed. These observations emphasised the need for inter-bacterial interaction...

  4. The talking language in some major Gram-negative bacteria.

    Science.gov (United States)

    Banerjee, Goutam; Ray, Arun Kumar

    2016-08-01

    Cell-cell interaction or quorum sensing (QS) is a vital biochemical/physiological process in bacteria that is required for various physiological functions, including nutrient uptake, competence development, biofilm formation, sporulation, as well as for toxin secretion. In natural environment, bacteria live in close association with other bacteria and interaction among them is crucial for survival. The QS-regulated gene expression in bacteria is a cell density-dependent process and the initiation process depends on the threshold level of the signaling molecule, N-acyl-homoserine lactone (AHL). The present review summarizes the QS signal and its respective circuit in Gram-negative bacteria. Most of the human pathogens belong to Gram-negative group, and only a few of them cause disease through QS system. Thus, inhibition of pathogenic bacteria is important. Use of antibiotics creates a selective pressure (antibiotics act as natural selection factor to promote one group of bacteria over another group) for emerging multidrug-resistant bacteria and will not be suitable for long-term use. The alternative process of inhibition of QS in bacteria using different natural and synthetic molecules is called quorum quenching. However, in the long run, QS inhibitors or blockers may also develop resistance, but obviously it will solve some sort of problems. In this review, we also have stated the mode of action of quorum-quenching molecule. The understanding of QS network in pathogenic Gram-negative bacteria will help us to solve many health-related problems in future. PMID:27062655

  5. The effect of lactic acid bacteria on cocoa bean fermentation.

    Science.gov (United States)

    Ho, Van Thi Thuy; Zhao, Jian; Fleet, Graham

    2015-07-16

    Cocoa beans (Theobroma cacao L.) are the raw material for chocolate production. Fermentation of cocoa pulp by microorganisms is crucial for developing chocolate flavor precursors. Yeasts conduct an alcoholic fermentation within the bean pulp that is essential for the production of good quality beans, giving typical chocolate characters. However, the roles of bacteria such as lactic acid bacteria and acetic acid bacteria in contributing to the quality of cocoa bean and chocolate are not fully understood. Using controlled laboratory fermentations, this study investigated the contribution of lactic acid bacteria to cocoa bean fermentation. Cocoa beans were fermented under conditions where the growth of lactic acid bacteria was restricted by the use of nisin and lysozyme. The resultant microbial ecology, chemistry and chocolate quality of beans from these fermentations were compared with those of indigenous (control) fermentations. The yeasts Hanseniaspora guilliermondii, Pichia kudriavzevii, Kluyveromyces marxianus and Saccharomyces cerevisiae, the lactic acid bacteria Lactobacillus plantarum, Lactobacillus pentosus and Lactobacillus fermentum and the acetic acid bacteria Acetobacter pasteurianus and Gluconobacter frateurii were the major species found in control fermentations. In fermentations with the presence of nisin and lysozyme, the same species of yeasts and acetic acid bacteria grew but the growth of lactic acid bacteria was prevented or restricted. These beans underwent characteristic alcoholic fermentation where the utilization of sugars and the production of ethanol, organic acids and volatile compounds in the bean pulp and nibs were similar for beans fermented in the presence of lactic acid bacteria. Lactic acid was produced during both fermentations but more so when lactic acid bacteria grew. Beans fermented in the presence or absence of lactic acid bacteria were fully fermented, had similar shell weights and gave acceptable chocolates with no differences

  6. Detection of phenols using engineered bacteria

    Science.gov (United States)

    Wise, Arlene A.; Kuske, Cheryl R.; Terwilliger, Thomas C.

    2007-12-04

    Detection of phenols using engineered bacteria. A biosensor can be created by placing a reporter gene under control of an inducible promoter. The reporter gene produces a signal when a cognate transcriptional activator senses the inducing chemical. Creation of bacterial biosensors is currently restricted by limited knowledge of the genetic systems of bacteria that catabolize xenobiotics. By using mutagenic PCR to change the chemical specificity of the Pseudomonas species CF600 DmpR protein, the potential for engineering novel biosensors for detection of phenols has been demonstrated. DmpR, a well-characterized transcriptional activator of the P. CF600's dmp operon mediates growth on simple phenols. Transcription from Po, the promoter heading the dmp operon, is activated when the sensor domain of DmpR interacts with phenol and mono-substituted phenols. By altering the sensor domain of the DmpR, a group of DmpR derivatives that activate transcription of a Po-lacZ fusion in response to eight of the EPA's eleven priority pollutant phenols has been created. The assays and the sensor domain mutations that alter the chemical specificity of DmpR is described.

  7. Probiotic Lactic Acid Bacteria and Skin Health.

    Science.gov (United States)

    Jeong, Ji Hye; Lee, Chang Y; Chung, Dae Kyun

    2016-10-25

    Human skin is the first defense barrier against the external environment, especially microbial pathogens and physical stimulation. Many studies on skin health with Lactic acid bacteria (LAB) have been published for many years, including prevention of skin disease and improvement of skin conditions. LAB, a major group of gram-positive bacteria, are known to be beneficial to human health by acting as probiotics. Recent studies have shown that LAB and their extracts have beneficial effects on maintenance and improvement of skin health. Oral administration of Lactobacillus delbrueckii inhibits the development of atopic disease. In addition, LAB and LAB extracts are known to have beneficial effects on intestinal diseases, with Lactobacillus plantarum having been shown to attenuate IL-10 deficient colitis. In addition to intestinal health, L. plantarum also has beneficial effects on skin. pLTA, which is lipoteichoic acid isolated from L. plantarum, has anti-photoaging effects on human skin cells by regulating the expression matrix meralloprotionase-1 (MMP-1) expression. While several studies have proposed a relationship between diseases of the skin and small intestines, there are currently no published reviews of the effects of LAB for skin health through regulation of intestinal conditions and the immune system. In this review, we discuss recent findings on the effects of LAB on skin health and its potential applications in beauty foods. PMID:26287529

  8. Starvation-survival of subsurface bacteria

    International Nuclear Information System (INIS)

    The ability of four subsurface isolates to survive starvation was examined and the results were compared to survival curves obtained for Escherichia coli B and Serratia marcescens. To examine the starvation-survival phenomenon further, several experimental parameters including nutritional history, initial cell density, growth phase, temperature of growth and starvation, and aeration. Nutritional history, initial cell density, and growth phases of the cells had some effect on the ability of these bacteria to survive whereas temperature and limited aeration had no effect under the conditions tested. No conditions were found where E. coli B or Serratia marcescens died rapidly or where less than 10% of the original cell number of viable cells remained. Because the apparent survival of these bacteria may be due to cryptic growth, cross-feeding experiments with 14C-labeled cells and unlabeled cells were carried out with E. coli B and Pseudomonas Lula V. Leaked extracellular 14C-compounds were not used for growth or maintenance energy, and were not taken up by either bacterium. Cryptic growth did not occur; the cells were truly starving under the experimental conditions used

  9. Insects as alternative hosts for phytopathogenic bacteria.

    Science.gov (United States)

    Nadarasah, Geetanchaly; Stavrinides, John

    2011-05-01

    Phytopathogens have evolved specialized pathogenicity determinants that enable them to colonize their specific plant hosts and cause disease, but their intimate associations with plants also predispose them to frequent encounters with herbivorous insects, providing these phytopathogens with ample opportunity to colonize and eventually evolve alternative associations with insects. Decades of research have revealed that these associations have resulted in the formation of bacterial-vector relationships, in which the insect mediates dissemination of the plant pathogen. Emerging research, however, has highlighted the ability of plant pathogenic bacteria to use insects as alternative hosts, exploiting them as they would their primary plant host. The identification of specific bacterial genetic determinants that mediate the interaction between bacterium and insect suggests that these interactions are not incidental, but have likely arisen following the repeated association of microorganisms with particular insects over evolutionary time. This review will address the biology and ecology of phytopathogenic bacteria that interact with insects, including the traditional role of insects as vectors, as well as the newly emerging paradigm of insects serving as alternative primary hosts. Also discussed is one case where an insect serves as both host and vector, which may represent a transitionary stage in the evolution of insect-phytopathogen associations. PMID:21251027

  10. Magnetotactic bacteria and magnetosomes - Scope and challenges.

    Science.gov (United States)

    Jacob, Jobin John; Suthindhiran, K

    2016-11-01

    Geomagnetism aided navigation has been demonstrated by certain organisms which allows them to identify a particular location using magnetic field. This attractive technique to recognize the course was earlier exhibited in numerous animals, for example, birds, insects, reptiles, fishes and mammals. Magnetotactic bacteria (MTB) are one of the best examples for magnetoreception among microorganisms as the magnetic mineral functions as an internal magnet and aid the microbe to move towards the water columns in an oxic-anoxic interface (OAI). The ability of MTB to biomineralize the magnetic particles (magnetosomes) into uniform nano-sized, highly crystalline structure with uniform magnetic properties has made the bacteria an important topic of research. The superior properties of magnetosomes over chemically synthesized magnetic nanoparticles made it an attractive candidate for potential applications in microbiology, biophysics, biochemistry, nanotechnology and biomedicine. In this review article, the scope of MTB, magnetosomes and its challenges in research and industrial application have been discussed in brief. This article mainly focuses on the application based on the magnetotactic behaviour of MTB and magnetosomes in different areas of modern science. PMID:27524094

  11. Inoculation of sugarcane with diazotrophic bacteria

    Directory of Open Access Journals (Sweden)

    Nivaldo Schultz

    2014-04-01

    Full Text Available The sugarcane industry, a strategic crop in Brazil, requires technological improvements in production efficiency to increase the crop energy balance. Among the various currently studied alternatives, inoculation with diazotrophic bacteria proved to be a technology with great potential. In this context, the efficiency of a mixture of bacterial inoculant was evaluated with regard to the agronomic performance and N nutrition of sugarcane. The experiment was carried out on an experimental field of Embrapa Agrobiologia, in Seropédica, Rio de Janeiro, using a randomized block, 2 × 3 factorial design (two varieties and three treatments with four replications, totaling 24 plots. The varieties RB867515 and RB72454 were tested in treatments consisting of: inoculation with diazotrophic bacteria, N-fertilized control with 120 kg ha-1 N and absolute control (no inoculation and no N fertilizer. The inoculum was composed of five strains of five diazotrophic species. The yield, dry matter accumulation, total N in the shoot dry matter and the contribution of N by biological fixation were evaluated, using the natural 15N abundance in non-inoculated sugarcane as reference. The bacterial inoculant increased the stalk yield of variety RB72454 similarly to fertilization with 120 kg ha-1 N in the harvests of plant-cane and first ratoon crops, however the contribution of biological N fixation was unchanged by inoculation, indicating that the benefits of the inoculant in sugarcane may have resulted from plant growth promotion.

  12. Bioactivation of Phytoestrogens: Intestinal Bacteria and Health.

    Science.gov (United States)

    Landete, J M; Arqués, J; Medina, M; Gaya, P; de Las Rivas, B; Muñoz, R

    2016-08-17

    Phytoestrogens are polyphenols similar to human estrogens found in plants or derived from plant precursors. Phytoestrogens are found in high concentration in soya, flaxseed and other seeds, fruits, vegetables, cereals, tea, chocolate, etc. They comprise several classes of chemical compounds (stilbenes, coumestans, isoflavones, ellagitannins, and lignans) which are structurally similar to endogenous estrogens but which can have both estrogenic and antiestrogenic effects. Although epidemiological and experimental evidence indicates that intake of phytoestrogens in foods may be protective against certain chronic diseases, discrepancies have been observed between in vivo and in vitro experiments. The microbial transformations have not been reported so far in stilbenes and coumestans. However, isoflavones, ellagitanins, and lignans are metabolized by intestinal bacteria to produce equol, urolithins, and enterolignans, respectively. Equol, urolithin, and enterolignans are more bioavailable, and have more estrogenic/antiestrogenic and antioxidant activity than their precursors. Moreover, equol, urolithins and enterolignans have anti-inflammatory effects and induce antiproliferative and apoptosis-inducing activities. The transformation of isoflavones, ellagitanins, and lignans by intestinal microbiota is essential to be protective against certain chronic diseases, as cancer, cardiovascular disease, osteoporosis, and menopausal symptoms. Bioavailability, bioactivity, and health effects of dietary phytoestrogens are strongly determined by the intestinal bacteria of each individual. PMID:25848676

  13. Metabolism of polychlorinated biphenyls by marine bacteria

    International Nuclear Information System (INIS)

    There have been no reports of laboratory studies of PCB metabolism by marine organisms. A few workers have analyzed marine animals for products of PCB metabolism. A search for hydroxylated PCBs in marine fish proved inconclusive. Phenolic metabolites of PCBs have been identified in seals and guillemot. PCBs that had been hydroxylated and excreted by marine organisms would most likely be found in the sediments, so in our laboratory we conducted a search for these compounds in marine sediments. Two kilograms of organic-rich surface sediment from Buzzards Bay, Massachusetts, were extracted. The phenolic fraction was isolated and analyzed by gas chromatography-mass spectrometry (GC-MS). Neither wide mass scans nor selected mass searches produced any evidence of hydroxylated PCB derivatives. It was felt that if any marine organisms were capable of metabolism of PCBs, some marine bacteria should have that capability. Thus a series of laboratory experiments was conducted to test this possibility. Reported here is the finding of PCB metabolism by marine bacteria in batch culture

  14. Predicting community composition from pairwise interactions

    Science.gov (United States)

    Friedman, Jonathan; Higgins, Logan; Gore, Jeff

    The ability to predict the structure of complex, multispecies communities is crucial for understanding the impact of species extinction and invasion on natural communities, as well as for engineering novel, synthetic communities. Communities are often modeled using phenomenological models, such as the classical generalized Lotka-Volterra (gLV) model. While a lot of our intuition comes from such models, their predictive power has rarely been tested experimentally. To directly assess the predictive power of this approach, we constructed synthetic communities comprised of up to 8 soil bacteria. We measured the outcome of competition between all species pairs, and used these measurements to predict the composition of communities composed of more than 2 species. The pairwise competitions resulted in a diverse set of outcomes, including coexistence, exclusion, and bistability, and displayed evidence for both interference and facilitation. Most pair outcomes could be captured by the gLV framework, and the composition of multispecies communities could be predicted for communities composed solely of such pairs. Our results demonstrate the predictive ability and utility of simple phenomenology, which enables accurate predictions in the absence of mechanistic details.

  15. Sulphur bacteria mediated formation of Palaeoproterozoic phosphorites

    Science.gov (United States)

    Joosu, Lauri; Lepland, Aivo; Kirsimäe, Kalle

    2014-05-01

    Modern phosphorite formation is typically associated with high productivity in upwelling areas where apatite (Ca-phosphate) precipitation is mediated by sulphur oxidising bacteria [1]. They inhabit the oxic/anoxic interface within the upper few centimetres of sediment column, accumulating phosphate in their cells under oxic conditions and releasing it rapidly when conditions become anoxic. Sulphur bacteria are known to live in close association with a consortium of anaerobic methane oxidising archaea and syntrophic sulphate-reducing bacteria. Paleoproterozoic, c. 2.0 Ga Zaonega Formation in Karelia, Russia contains several P-rich intervals in the upper part of 1500 m thick succession of organic-rich sedimentary rocks interlayered with mafic tuffs and lavas. Apatite in these P-rich intervals forms impure laminae, lenses and round-oval nodules which diameters typically range from 300 to 1000 μm. Individual apatite particles in P-rich laminae and nodules commonly occur as cylinders that are 1-8 μm long and have diameters of 0.5-4 μm. Cross-sections of best preserved cylindrical apatite particles reveal a thin outer rim whereas the internal parts consist of small anhedral elongated crystallites, intergrown with carbonaceous material. During recrystallization the outer rim thickens towards interior and cylinders may attain hexagonal crystal habit, but their size and shape remains largely unchanged [2]. The sizes of Zaonega nodules are similar to giant sulphide-oxidising bacteria known from modern and ancient settings [3, 4]. Individual apatite cylinders and aggregates have shapes and sizes similar to the methanotrophic archaea that inhabit microbial mats in modern seep/vent areas where they operate in close associations with sulphur-oxidising microbial communities [5]. Seep/vent influence during the Zaonega phosphogenesis is indicated by variable, though positive Eu anomaly, expected in magmatically active sedimentary environment experiencing several lava flows

  16. Metagenomics as a tool to obtain full genomes of process-critical bacteria in engineered systems

    DEFF Research Database (Denmark)

    Albertsen, Mads; Hugenholtz, Philip; Tyson, Gene W.;

    parameters with functions of specific bacteria within the ecosystems in order to decipher principles that might be used to control and predict ecosystem performance. The main bottleneck in obtaining genomes from the environment is that the vast majority of bacteria are not readily cultured. Metagenomics......, the sequencing of bulk genomic DNA from environmental samples, has the potential to provide genomes of this uncultured majority. However, so far only few bacterial genomes have been obtained from metagenomic data. In this study we present a new approach to obtain individual genomes from metagenomes. We deeply...... sequenced two metagenomes from the same environmental sample, but using two independent DNA extraction methods, which resulted in different population abundances. This allowed sequence-composition independent binning of numerous high quality draft genomes from both high and low abundant members...

  17. Basal DNA repair machinery is subject to positive selection in ionizing-radiation-resistant bacteria

    International Nuclear Information System (INIS)

    In this work, we used the programs MultiParanoid and DnaSP to deduce the sets of orthologs that potentially evolved due to positive Darwinian selection in ionizing-radiation-resistant bacteria (IRRB ; Deinococcus geothermalis, Deinococcus radiodurans, Kineococcus radiotolerans, and Rubrobacter xylanophilus). We find that positive selection targets 689 ortholog sets of IRRB. Among these, 58 ortholog sets are absent in ionizing-radiation-sensitive bacteria (IRSB: Escherichia coli and Thermus thermophilus). The most striking finding is that all basal DNA repair genes in IRRB, unlike many of their orthologs in IRSB, are subject to positive selection. Our results provide the first in silico prediction of positively selected genes with potential roles in the molecular basis of resistance to gamma radiation and tolerance of desiccation in IRRB. Identification of these genes provides a basis for future experimental work aimed at understanding the metabolic networks in which they participate

  18. Weight prediction of broiler chickens using 3D computer vision

    DEFF Research Database (Denmark)

    Mortensen, Anders Krogh; Lisouski, Pavel; Ahrendt, Peter

    2016-01-01

    employed. The camera was robust to the changing light conditions of the broiler house as it contained its own infrared light source. A newly developed image processing algorithm is proposed. The algorithm first segmented the image with a range-based watershed algorithm, then extracted twelve different...... a platform weigher which may also include ill birds. In the current study, a fully-automatic 3D camera-based weighing system for broilers have been developed and evaluated in a commercial production environment. Specifically, a low-cost 3D camera (Kinect) that directly returned a depth image was...... period. A traditional platform weigher was used to estimate the reference weights. An average relative mean error of 7.8% between the predicted weights and the reference weights is achieved on a separate test set with 83 broilers in approximately 13,000 manually annotated images. The errors were...

  19. Use of Inverse Reinforcement Learning for Identity Prediction

    Science.gov (United States)

    Hayes, Roy; Bao, Jonathan; Beling, Peter; Horowitz, Barry

    2011-01-01

    We adopt Markov Decision Processes (MDP) to model sequential decision problems, which have the characteristic that the current decision made by a human decision maker has an uncertain impact on future opportunity. We hypothesize that the individuality of decision makers can be modeled as differences in the reward function under a common MDP model. A machine learning technique, Inverse Reinforcement Learning (IRL), was used to learn an individual's reward function based on limited observation of his or her decision choices. This work serves as an initial investigation for using IRL to analyze decision making, conducted through a human experiment in a cyber shopping environment. Specifically, the ability to determine the demographic identity of users is conducted through prediction analysis and supervised learning. The results show that IRL can be used to correctly identify participants, at a rate of 68% for gender and 66% for one of three college major categories.

  20. Predicting protein structure classes from function predictions

    DEFF Research Database (Denmark)

    Sommer, I.; Rahnenfuhrer, J.; de Lichtenberg, Ulrik;

    2004-01-01

    We introduce a new approach to using the information contained in sequence-to-function prediction data in order to recognize protein template classes, a critical step in predicting protein structure. The data on which our method is based comprise probabilities of functional categories; for given......-to-structure prediction methods....

  1. Gating mechanosensitive channels in bacteria with an atomic force microscope

    Science.gov (United States)

    Garces, Renata; Miller, Samantha; Schmidt, Christoph F.; Third Institute of Physics Team; School of Medical Sciences Collaboration

    The regulation of growth and integrity of bacteria is critically linked to mechanical stress. Bacteria typically maintain a high difference of osmotic pressure (turgor pressure) with respect to the environment. This pressure difference (on the order of 1 atm) is supported by the cell envelope, a composite of lipid membranes and a rigid cell wall. Turgor pressure is controlled by the ratio of osmolytes inside and outside bacteria and thus, can abruptly increase upon osmotic downshock. For structural integrity bacteria rely on the mechanical stability of the cell wall and on the action of mechanosensitive (MS) channels: membrane proteins that release solutes in response to stress in the cell envelope. We here present experimental data on MS channels gating. We activate channels by indenting living bacteria with the cantilever of an atomic force microscope (AFM). We compare responses of wild-type and mutant bacteria in which some or all MS channels have been eliminated.

  2. Fluctuations of Bacteria-laden Microbeads in a Liquid

    Science.gov (United States)

    Kara, Vural; Lissandrello, Charles; O'Connor, Joan; Romero Rodriguez, Jose Alberto; Li, Le; Ekinci, Kamil

    2015-11-01

    The motion of bacteria adhered on surfaces may lead to powerful approaches for novel diagnostic tests. Examples were recently shown using microcantilevers on which bacteria were adhered using surface chemistry. In these experiments, the presence of bacteria led to an increase in the fluctuations of the microcantilevers in the frequency range 1-100 Hz. After administering antibiotics, the fluctuations returned to their control value. Here, we build on these studies by monitoring the fluctuations of micro-beads with bacteria adhered on their surfaces. We coat the micro-beads with Poly D Lysine (PDL) in order to attach Escherichia coli. We measure the fluctuations of the beads in motility buffer media using an optical microscope with and without bacteria. We calculate the diffusion coefficients from the mean square displacements (MSD) and correlate these with the presence of bacteria on the beads. These studies lay the foundation for the development of a rapid antibiotic susceptibility test based on bacterial activity.

  3. Relationship of physical factors and salinity with indicator bacteria in Bahía Blanca estuary waters, Argentina.

    Science.gov (United States)

    Cabezali, C B; Baldini, M D; Burgos, M A; Arango, J M

    1994-01-01

    The relationship between the number of Escherichia coli, terrestrial and marine heterotrophic bacteria, with certain physical and chemical parameters in Bahia Blanca estuary waters, were investigated by means of a statistical analysis of multiple linear regression. The samples were taken during a period of 16 months. Although distance from the sewage outlet seems to be the factor having the greatest effect on the number of alien bacteria, the models obtained for E. coli are inappropriate to predict bacterial behaviour in this particular natural habitat, while for heterotrophic bacteria descriptive models were selected. The results of this study suggest that many factors affect bacterial population densities in this estuarine ecosystem. This should be taken into account trying to solve the problem in order to avoid progressive degradation. PMID:7938503

  4. Bacteria in Cancer Therapy: Renaissance of an Old Concept

    OpenAIRE

    Sebastian Felgner; Dino Kocijancic; Michael Frahm; Siegfried Weiss

    2016-01-01

    The rising incidence of cancer cases worldwide generates an urgent need of novel treatment options. Applying bacteria may represent a valuable therapeutic variant that is intensively investigated nowadays. Interestingly, the idea to apply bacteria wittingly or unwittingly dates back to ancient times and was revived in the 19th century mainly by the pioneer William Coley. This review summarizes and compares the results of the past 150 years in bacteria mediated tumor therapy from preclinical t...

  5. Susceptibility and resistance of ruminal bacteria to antimicrobial feed additives.

    OpenAIRE

    Nagaraja, T. G.; Taylor, M.B.

    1987-01-01

    Susceptibility and resistance of ruminal bacterial species to avoparcin, narasin, salinomycin, thiopeptin, tylosin, virginiamycin, and two new ionophore antibiotics, RO22-6924/004 and RO21-6447/009, were determined. Generally, antimicrobial compounds were inhibitory to gram-positive bacteria and those bacteria that have gram-positive-like cell wall structure. MICs ranged from 0.09 to 24.0 micrograms/ml. Gram-negative bacteria were resistant at the highest concentration tested (48.0 micrograms...

  6. Hessian Fly-Associated Bacteria: Transmission, Essentiality, and Composition.

    OpenAIRE

    Bansal, Raman; Hulbert, Scot; Schemerhorn, Brandi; Reese, John C.; Whitworth, R Jeff; Stuart, Jeffrey J.; Chen, Ming-Shun

    2011-01-01

    Plant-feeding insects have been recently found to use microbes to manipulate host plant physiology and morphology. Gall midges are one of the largest groups of insects that manipulate host plants extensively. Hessian fly (HF, Mayetiola destructor) is an important pest of wheat and a model system for studying gall midges. To examine the role of bacteria in parasitism, a systematic analysis of bacteria associated with HF was performed for the first time. Diverse bacteria were found in different...

  7. A Microfluidic Platform for Profiling Biomechanical Properties of Bacteria

    OpenAIRE

    Sun, Xuanhao; Weinlandt, William D; Patel, Harsh; WU, Mingming; Hernandez, Christopher J.

    2014-01-01

    The ability to resist mechanical forces is necessary for the survival and division of bacteria and has traditionally been probed using specialized, low-throughput techniques such as atomic force microscopy and optical tweezers. Here we demonstrate a microfluidic technique to profile the stiffness of individual bacteria and populations of bacteria. The approach is similar to micropipette aspiration used to characterize the biomechanical performance of eukaryotic cells. However, the small size ...

  8. The Sorption of Hydrophobic Organic Chemicals to Bacteria

    OpenAIRE

    Lunsman, Tamara

    2004-01-01

    The toxicity and time-dependent sorption of three hydrophobic organic chemicals to Rhodococcus rhodochrous bacteria were investigated. In experiments, environmentally relevant concentrations of pentachlorophenol (PCP), hexachlorobenzene (HCB), and dichlorobiphenyl (DPCB) were applied to living (both growing and non-growing) bacteria as well as to dead bacteria. For PCP (an ionizing chemical), bacterial growth decreased and death increased as the PCP concentration increased. In sorption exp...

  9. Prevalence of Tetracycline Resistance Genes in Oral Bacteria

    OpenAIRE

    Villedieu, A.; Diaz-Torres, M. L.; Hunt, N; McNab, R; Spratt, D. A.; Wilson, M.; Mullany, P.

    2003-01-01

    Tetracycline is a broad-spectrum antibiotic used in humans, animals, and aquaculture; therefore, many bacteria from different ecosystems are exposed to this antibiotic. In order to determine the genetic basis for resistance to tetracycline in bacteria from the oral cavity, saliva and dental plaque samples were obtained from 20 healthy adults who had not taken antibiotics during the previous 3 months. The samples were screened for the presence of bacteria resistant to tetracycline, and the tet...

  10. Distribution and Identification of Luminous Bacteria from the Sargasso Sea

    OpenAIRE

    Orndorff, S. A.; Colwell, R R

    1980-01-01

    Vibrio fischeri and Lucibacterium harveyi constituted 75 of the 83 luminous bacteria isolated from Sargasso Sea surface waters. Photobacterium leiognathi and Photobacterium phosphoreum constituted the remainder of the isolates. Luminescent bacteria were recovered at concentrations of 1 to 63 cells per 100 ml from water samples collected at depths of 160 to 320 m. Two water samples collected at the thermocline yielded larger numbers of viable, aerobic heterotrophic and luminous bacteria. Lumin...

  11. Interspecific interactions of heterotrophic bacteria during chitin degradation

    OpenAIRE

    Jagmann, Nina

    2012-01-01

    In their natural habitats, bacteria live in multi-species microbial communities and are, thus, constantly interacting with bacteria of other phylogenetic groups. In order to prevail in these interspecific interactions, such as the competition for nutrients, bacteria have developed numerous strategies. During the degradation of polymers such interspecific interactions are likely to occur, because degradation starts as an extracellular process. In one possible interaction scenario, investor bac...

  12. Isolation and identification of marine fish tumour (odontoma) associated bacteria

    OpenAIRE

    Ramalingam Vijayakumar; Kuzhanthaivel Raja; Vijayapoopathi Singaravel; Ayyaru Gopalakrishnan

    2015-01-01

    Objective: To identify fish tumour associated bacteria. Methods: The marine fish Sphyraena jello with odontoma was collected from in Tamil Nadu (Southeast India), and tumour associated bacteria were isolated. Then the isolated bacteria were identified based on molecular characters. Results: A total of 4 different bacterial species were isolated from tumour tissue. The bacterial species were Bacillus sp., Pontibacter sp., Burkholderia sp. and Macrococcus sp., and the se...

  13. The identification and biogeochemical interpretation of fossil magnetotactic bacteria

    OpenAIRE

    Kopp, Robert E.; Kirschvink, Joseph L

    2008-01-01

    Magnetotactic bacteria, which most commonly live within the oxic-anoxic transition zone (OATZ) of aquatic environments, produce intracellular crystals of magnetic minerals, specifically magnetite or greigite. The crystals cause the bacteria to orient themselves passively with respect to the geomagnetic field and thereby facilitate the bacteria’s search for optimal conditions within the sharp chemical gradients of the OATZ. The bacteria may also gain energy from the redox cycling of their ...

  14. Emergence of Klebsiella pneumoniae Carbapenemase (KPC)-Producing Bacteria

    OpenAIRE

    Arnold, Ryan S.; Thom, Kerri A.; Sharma, Saarika; Phillips, Michael; Johnson, J. Kristie; Morgan, Daniel J.

    2011-01-01

    Klebsiella pneumoniae carbapenemase (KPC)-producing bacteria are a group of emerging highly drug-resistant Gram-negative bacilli causing infections associated with significant morbidity and mortality. Once confined to outbreaks in the northeastern United States (US), they have spread throughout the US and most of the world. KPCs are an important mechanism of resistance for an increasingly wide range of Gram-negative bacteria and are no longer limited to K pneumoniae. KPC-producing bacteria ar...

  15. The Role of Anaerobic Bacteria in Cystic Fibrosis Lung Disease.

    OpenAIRE

    Murray, Michelle

    2014-01-01

    Recurrent bacterial infections in Cystic Fibrosis (CF) are the primary cause for morbidity and mortality in CF. Advancements in second generation sequencing and evolution of the lung microbiome has prompted greater interest in other bacteria present in the lung. Anaerobic bacteria have been one of the most common bacteria found on molecular sequencing, their cause and role is as of yet unknown. In our project, we recruited 450 patients prospectively and followed them at both stable and exacer...

  16. Functional genomics of lactic acid bacteria: from food to health

    OpenAIRE

    Douillard, F.P.; Vos, de, W.M.

    2014-01-01

    Genome analysis using next generation sequencing technologies has revolutionized the characterization of lactic acid bacteria and complete genomes of all major groups are now available. Comparative genomics has provided new insights into the natural and laboratory evolution of lactic acid bacteria and their environmental interactions. Moreover, functional genomics approaches have been used to understand the response of lactic acid bacteria to their environment. The results have been instrumen...

  17. Exploration of the core metabolism of symbiotic bacteria

    OpenAIRE

    Klein Cecilia Coimbra; Cottret Ludovic; Kielbassa Janice; Charles Hubert; Gautier Christian; Ribeiro de Vasconcelos Ana Tereza; Lacroix Vincent; Sagot Marie-France

    2012-01-01

    Abstract Background A large number of genome-scale metabolic networks is now available for many organisms, mostly bacteria. Previous works on minimal gene sets, when analysing host-dependent bacteria, found small common sets of metabolic genes. When such analyses are restricted to bacteria with similar lifestyles, larger portions of metabolism are expected to be shared and their composition is worth investigating. Here we report a comparative analysis of the small molecule metabolism of symbi...

  18. Quantification and qualification of bacteria trapped in chewed gum.

    Directory of Open Access Journals (Sweden)

    Stefan W Wessel

    Full Text Available Chewing of gum contributes to the maintenance of oral health. Many oral diseases, including caries and periodontal disease, are caused by bacteria. However, it is unknown whether chewing of gum can remove bacteria from the oral cavity. Here, we hypothesize that chewing of gum can trap bacteria and remove them from the oral cavity. To test this hypothesis, we developed two methods to quantify numbers of bacteria trapped in chewed gum. In the first method, known numbers of bacteria were finger-chewed into gum and chewed gums were molded to standard dimensions, sonicated and plated to determine numbers of colony-forming-units incorporated, yielding calibration curves of colony-forming-units retrieved versus finger-chewed in. In a second method, calibration curves were created by finger-chewing known numbers of bacteria into gum and subsequently dissolving the gum in a mixture of chloroform and tris-ethylenediaminetetraacetic-acid (TE-buffer. The TE-buffer was analyzed using quantitative Polymerase-Chain-Reaction (qPCR, yielding calibration curves of total numbers of bacteria versus finger-chewed in. Next, five volunteers were requested to chew gum up to 10 min after which numbers of colony-forming-units and total numbers of bacteria trapped in chewed gum were determined using the above methods. The qPCR method, involving both dead and live bacteria yielded higher numbers of retrieved bacteria than plating, involving only viable bacteria. Numbers of trapped bacteria were maximal during initial chewing after which a slow decrease over time up to 10 min was observed. Around 10(8 bacteria were detected per gum piece depending on the method and gum considered. The number of species trapped in chewed gum increased with chewing time. Trapped bacteria were clearly visualized in chewed gum using scanning-electron-microscopy. Summarizing, using novel methods to quantify and qualify oral bacteria trapped in chewed gum, the hypothesis is confirmed that chewing

  19. Predatory bacteria are nontoxic to the rabbit ocular surface

    Science.gov (United States)

    Romanowski, Eric G.; Stella, Nicholas A.; Brothers, Kimberly M.; Yates, Kathleen A.; Funderburgh, Martha L.; Funderburgh, James L.; Gupta, Shilpi; Dharani, Sonal; Kadouri, Daniel E.; Shanks, Robert M. Q.

    2016-01-01

    Given the increasing emergence of antimicrobial resistant microbes and the near absent development of new antibiotic classes, innovative new therapeutic approaches to address this global problem are necessary. The use of predatory bacteria, bacteria that prey upon other bacteria, is gaining interest as an “out of the box” therapeutic treatment for multidrug resistant pathogenic bacterial infections. Before a new antimicrobial agent is used to treat infections, it must be tested for safety. The goal of this study was to test the tolerability of bacteria on the ocular surface using in vitro and in vivo models. Predatory bacteria Bdellovibrio bacteriovorus and Micavibrio aeruginosavorus were found to be non-toxic to human corneal stromal keratocytes in vitro; however, they did induce production of the proinflammatory chemokine IL-8 but not IL-1β. Predatory bacteria did not induce inflammation on the ocular surface of rabbit eyes, with and without corneal epithelial abrasions. Unlike a standard of care antibiotic vancomycin, predatory bacteria did not inhibit corneal epithelial wound healing or increase clinical inflammatory signs in vivo. Together these data support the safety of predatory bacteria on the ocular surface, but future studies are warranted regarding the use predatory bacteria in deeper tissues of the eye. PMID:27527833

  20. Genetically engineered acidophilic heterotrophic bacteria by bacteriophage transduction

    Energy Technology Data Exchange (ETDEWEB)

    Ward, T.E.; Bruhn, D.F.; Bulmer, D.F.

    1989-05-10

    A bacteriophage capable of infecting acidophilic heterotrophic bacteria and processes for genetically engineering acidophilic bacteria for biomining or sulfur removal from coal are disclosed. The bacteriophage is capable of growth in cells existing at pH at or below 3.0. Lytic forms of the phage introduced into areas experiencing acid drainage kill the bacteria causing such drainage. Lysogenic forms of the phage having genes for selective removal of metallic or nonmetallic elements can be introduced into acidophilic bacteria to effect removal of the desired element from ore or coal. 1 fig., 1 tab.

  1. Liquid-nitrogen cryopreservation of three kinds of autotrophicbioleaching bacteria

    Institute of Scientific and Technical Information of China (English)

    WU Xue-ling; XIN Xiao-hong; JIANG Ying; LIANG Ren-xing; YUAN Peng; FANG Cheng-xiang

    2008-01-01

    Three kinds of autotrophic bioleaching bacteria strains,including mesophilic and acidophilic ferrous ion-oxidizing bacteria Acidithiobacillus ferrooxidans (A.ferrooxidans),mesophilic and acidophilic sulfur-oxidizing bacteria Acidithiobacillus thiooxidans (A.thiooxidans),and moderately thermophilic sulfur-oxidizing bacteria Acidianus brierleyi,were cryopreserved in liquid nitrogen and their ferrous ion- or sulfur-oxidizing activities were investigated and compared with the original ones.The results revealed that ferrous ion/sulfur oxidation activities of the strains were almost equal before and after cryopreservation.Glycerin was used as cryoprotective agent.In conclusion,liquid-nitrogen cryopreservation is a simple and effective method for autotrophic bioleaching microorganisms.

  2. Quantification and qualification of bacteria trapped in chewed gum.

    Science.gov (United States)

    Wessel, Stefan W; van der Mei, Henny C; Morando, David; Slomp, Anje M; van de Belt-Gritter, Betsy; Maitra, Amarnath; Busscher, Henk J

    2015-01-01

    Chewing of gum contributes to the maintenance of oral health. Many oral diseases, including caries and periodontal disease, are caused by bacteria. However, it is unknown whether chewing of gum can remove bacteria from the oral cavity. Here, we hypothesize that chewing of gum can trap bacteria and remove them from the oral cavity. To test this hypothesis, we developed two methods to quantify numbers of bacteria trapped in chewed gum. In the first method, known numbers of bacteria were finger-chewed into gum and chewed gums were molded to standard dimensions, sonicated and plated to determine numbers of colony-forming-units incorporated, yielding calibration curves of colony-forming-units retrieved versus finger-chewed in. In a second method, calibration curves were created by finger-chewing known numbers of bacteria into gum and subsequently dissolving the gum in a mixture of chloroform and tris-ethylenediaminetetraacetic-acid (TE)-buffer. The TE-buffer was analyzed using quantitative Polymerase-Chain-Reaction (qPCR), yielding calibration curves of total numbers of bacteria versus finger-chewed in. Next, five volunteers were requested to chew gum up to 10 min after which numbers of colony-forming-units and total numbers of bacteria trapped in chewed gum were determined using the above methods. The qPCR method, involving both dead and live bacteria yielded higher numbers of retrieved bacteria than plating, involving only viable bacteria. Numbers of trapped bacteria were maximal during initial chewing after which a slow decrease over time up to 10 min was observed. Around 10(8) bacteria were detected per gum piece depending on the method and gum considered. The number of species trapped in chewed gum increased with chewing time. Trapped bacteria were clearly visualized in chewed gum using scanning-electron-microscopy. Summarizing, using novel methods to quantify and qualify oral bacteria trapped in chewed gum, the hypothesis is confirmed that chewing of gum can trap

  3. Isolation and identification of marine fish tumour (odontoma) associated bacteria

    Institute of Scientific and Technical Information of China (English)

    Ramalingam Vijayakumar; Kuzhanthaivel Raja; Vijayapoopathi Singaravel; Ayyaru Gopalakrishnan

    2015-01-01

    Objective: To identify fish tumour associated bacteria. Methods: The marine fish Sphyraena jello with odontoma was collected from in Tamil Nadu (Southeast India), and tumour associated bacteria were isolated. Then the isolated bacteria were identified based on molecular characters. Results: A total of 4 different bacterial species were isolated from tumour tissue. The bacterial species were Bacillus sp., Pontibacter sp., Burkholderia sp. and Macrococcus sp., and the sequences were submitted in DNA Data Bank of Japan with accession numbers of AB859240, AB859241, AB859242 and AB859243 respectively. Conclusions: Four different bacterial species were isolated from Sphyraena jello, but the role of bacteria within tumour needs to be further investigated.

  4. Making detailed predictions makes (some) predictions worse

    Science.gov (United States)

    Kelly, Theresa F.

    In this paper, we investigate whether making detailed predictions about an event makes other predictions worse. Across 19 experiments, 10,895 participants, and 415,960 predictions about 724 professional sports games, we find that people who made detailed predictions about sporting events (e.g., how many hits each baseball team would get) made worse predictions about more general outcomes (e.g., which team would win). We rule out that this effect is caused by inattention or fatigue, thinking too hard, or a differential reliance on holistic information about the teams. Instead, we find that thinking about game-relevant details before predicting winning teams causes people to give less weight to predictive information, presumably because predicting details makes information that is relatively useless for predicting the winning team more readily accessible in memory and therefore incorporated into forecasts. Furthermore, we show that this differential use of information can be used to predict what kinds of games will and will not be susceptible to the negative effect of making detailed predictions.

  5. [Antimicrobial susceptibility testing of anaerobic bacteria].

    Science.gov (United States)

    García-Sánchez, José E; García-Sánchez, Enrique; García-García, María Inmaculada

    2014-02-01

    The anaerobic bacteria resistance to antibiotics is increasing, and even has appeared against the most active of those, like metronidazol and carbapenems. This fact forces to make and periodical sensibility tests -at least in the most aggressive and virulent species, in cases that they are isolated from life locations and in the absence of therapeutic response- to check the local sensibility and to establish suitable empiric therapies, all based on multicentric studies carried out in order to this or well to check the activity of new antibiotics. For the laboratory routine, the easiest sensibility method is the E-test/MIC evaluator. Another alternative is microdilution, that's only normalized for Bacteroides. There are preliminary facts that allow the use of disc diffusion method in some species of Bacteroides and Clostridium. For the temporal and multicentric studies, the procedure is dilution in agar plate, the reference method. PMID:24630580

  6. Physical mode of bacteria and virus coevolution

    Science.gov (United States)

    Han, Pu; Niestemski, Liang; Deem, Michael

    2013-03-01

    Single-cell hosts such as bacteria or archaea possess an adaptive, heritable immune system that protects them from viral invasion. This system, known as the CRISPR-Cas system, allows the host to recognize and incorporate short foreign DNA or RNA sequences from viruses or plasmids. The sequences form what are called ``spacers'' in the CRISPR. Spacers in the CRISPR loci provide a record of the host and predator coevolution history. We develop a physical model to study the dynamics of this coevolution due to immune pressure. Hosts and viruses reproduce, die, and evolve due to viral infection pressure, host immune pressure, and mutation. We will discuss the differing effects of point mutation and recombination on CRISPR evolution. We will also discuss the effect of different spacer deletion mechanisms. We will describe population structure of hosts and viruses, how spacer diversity depends on position within CRISPR, and match of the CRISPR spacers to the virus population.

  7. Physics of Bacteria During Osmotic Shock

    Science.gov (United States)

    Price, Jordan; Klug, William

    Bacteria combat hypoosmotic shocks by opening mechanosensitive ion channels located within the inner membrane. These channels are believed to act as ``emergency release valves,'' reducing transient pressure during the shock by regulating solute and water flux. Recent experiments have shown that cell survivability depends strongly on channel populations and the rate of osmotic shock. However, the understanding of the physical mechanisms behind osmotic protection remains unclear. We investigate how channel deletions, variations in shock rate, and cell envelope mechanics affect survivability by constructing theoretical elasticity and transport models. We find that reducing the number of channels and applying faster shocks significantly increases the time-dependent stress of the cell membrane and wall. This result provides insight into physical mechanisms that govern cell failure, including membrane rupture and wall fracture.

  8. Degradation of multiwall carbon nanotubes by bacteria

    International Nuclear Information System (INIS)

    Understanding the environmental transformation of multiwall carbon nanotubes (MWCNTs) is important to their life cycle assessment and potential environmental impacts. We report that a bacterial community is capable of degrading 14C-labeled MWCNTs into 14CO2 in the presence of an external carbon source via co-metabolism. Multiple intermediate products were detected, and genotypic characterization revealed three possible microbial degraders: Burkholderia kururiensis, Delftia acidovorans, and Stenotrophomonas maltophilia. This result suggests that microbe/MWCNTs interaction may impact the long-term fate of MWCNTs. Highlights: •Mineralization of MWCNTs by a bacterial community was observed. •The mineralization required an external carbon source. •Multiple intermediate products were identified in the MWCNT degrading culture. •Three bacterial species were found likely responsible for MWCNT degradation. -- The 14C-labeled multiwall carbon nanotubes can be degraded to 14CO2 and other byproducts by a bacteria community under natural conditions

  9. Magnetotactic bacteria. Promising biosorbents for heavy metals

    Energy Technology Data Exchange (ETDEWEB)

    Zhou, Wei; Zhang, Yanzong; Ding, Xiaohui; Liu, Yan; Shen, Fei; Zhang, Xiaohong; Deng, Shihuai; Xiao, Hong; Yang, Gang; Peng, Hong [Sichuan Agricultural Univ., Chengdu (China). Provincial Key Lab. of Agricultural Environmental Engineering

    2012-09-15

    Magnetotactic bacteria (MTB), which can orient and migrate along a magnetic line of force due to intracellular nanosized magnetosomes, have been a subject of research in the medical field, in dating environmental changes, and in environmental remediation. This paper reviews the recent development of MTB as biosorbents for heavy metals. Ultrastructures and taxis of MTB are investigated. Adsorptions in systems of unitary and binary ions are highlighted, as well as adsorption conditions (temperature, pH value, biomass concentration, and pretreatments). The separation and desorption of MTB in magnetic separators are also discussed. A green method to produce metal nanoparticles is provided, and an energy-efficient way to recover precious metals is put forward during biosorption. (orig.)

  10. Two-dimensional swimming behavior of bacteria

    Science.gov (United States)

    Li, Ye; Zhai, He; Sanchez, Sandra; Kearns, Daniel; Wu, Yilin

    Many bacteria swim by flagella motility which is essential for bacterial dispersal, chemotaxis, and pathogenesis. Here we combined single-cell tracking, theoretical analysis, and computational modeling to investigate two-dimensional swimming behavior of a well-characterized flagellated bacterium Bacillus subtilis at the single-cell level. We quantified the 2D motion pattern of B. subtilis in confined space and studied how cells interact with each other. Our findings shed light on bacterial colonization in confined environments, and will serve as the ground for building more accurate models to understand bacterial collective motion. Mailing address: Room 306 Science Centre North Block, The Chinese University of Hong Kong, Shatin, N.T. Hong Kong SAR. Phone: +852-3943-6354. Fax: +852-2603-5204. E-mail: ylwu@phy.cuhk.edu.hk.

  11. Magnetotactic bacteria, magnetosomes and their application.

    Science.gov (United States)

    Yan, Lei; Zhang, Shuang; Chen, Peng; Liu, Hetao; Yin, Huanhuan; Li, Hongyu

    2012-10-12

    Magnetotactic bacteria (MTB) are a diverse group of microorganisms with the ability to orient and migrate along geomagnetic field lines. This unique feat is based on specific intracellular organelles, the magnetosomes, which, in most MTB, comprise nanometer-sized, membrane bound crystals of magnetic iron minerals and organized into chains via a dedicated cytoskeleton. Because of the special properties of the magnetosomes, MTB are of great interest for paleomagnetism, environmental magnetism, biomarkers in rocks, magnetic materials and biomineralization in organisms, and bacterial magnetites have been exploited for a variety of applications in modern biological and medical sciences. In this paper, we describe general characteristics of MTB and their magnetic mineral inclusions, but focus mainly on the magnetosome formation and the magnetisms of MTB and bacterial magnetosomes, as well as on the significances and applications of MTB and their intracellular magnetic mineral crystals. PMID:22579104

  12. Streptomyces bacteria as potential probiotics in aquaculture

    Directory of Open Access Journals (Sweden)

    Tan Loh eTeng Hern

    2016-02-01

    Full Text Available In response to the increased seafood demand from the ever-going human population, aquaculture has become the fastest growing animal food-producing sector. However, the indiscriminate use of antibiotics as a biological control agents for fish pathogens has led to the emergence of antibiotic resistance bacteria. Probiotics are defined as living microbial supplement that exert beneficial effects on hosts as well as improvement of environmental parameters. Probiotics have been proven to be effective in improving the growth, survival and health status of the aquatic livestock. This review aims to highlight the genus Streptomyces can be a good candidate for probiotics in aquaculture. Studies showed that the feed supplemented with Streptomyces could protect fish and shrimp from pathogens as well as increase the growth of the aquatic organisms. Furthermore, the limitations of Streptomyces as probiotics in aquaculture is also highlighted and solutions are discussed to these limitations.

  13. Bacteria,inflammation,and colon cancer

    Institute of Scientific and Technical Information of China (English)

    Liying Yang; Zhiheng Pei

    2006-01-01

    Our relationship with the colonic bacterial flora has long been viewed as benign,but recent studies suggest that this symbiosis has risks as well as benefits.This relationship requires that the host not only provide a supportive environment for the symbiotic bacteria,but also actively maintain intact mechanisms for properly managing the physiologic stresses that are closely associated with the symbiont's essential survival functions.Failure to do so breaches the hostsymbiont contract,and can result in serious effects on the health of the host.Recent investigations that employ several knockout mouse models reveal the consequences of genetic deficiency in the host regarding these mechanisms,and the latent,pro-inflammatory,tumorigenic nature of normal bacterial flora.Further study of the interactions between normal bacterial flora and hosts could shed light on the etiologies and pathogenesis of inflammatory diseases and related cancers,with implications for human health.

  14. Control of indigenous pathogenic bacteria in seafood

    DEFF Research Database (Denmark)

    Huss, Hans Henrik

    1997-01-01

    The pathogenic bacteria indigenous to the aquatic and general environment are listed. Their distribution in nature, prevalence in seafood and the possibilities for growth of these organisms in various types of products are outlined These data, combined with what is known regarding the epidemiology...... order to prevent growth and toxin production by Clostridium botulinum when products are stored at abuse temperature, it is recommended that additional barriers to growth are included in lightly preserved (e.g. cold smoked salmon) and low-heat treated (e.g REPFEDS) products. It is finally pointed out...... of disease, are used to place the various seafood products in risk categories and to identify areas of concern. It is concluded that the presence of pathogens in molluscs and the growth of Listeria monocytogenes in lightly preserved fish products are hazards which are presently not under control. In...

  15. Uptake of plutonium by immobilized bacteria

    International Nuclear Information System (INIS)

    The use of plastic-immobilized bacteria as a system for the concentration of plutonium from aqueous media is investigated. Previous research is reviewed quantifying free cell bacterial concentration of plutonium from solution or suspension. Our research indicates that the species Pseudomonas aeruginosa can be induced to attach firmly to a polymer substrate, while retaining its ability to concentrate plutonium. Melt-blown, filamentous polypropylene is shown to foster cell embedment and uptake capabilities surpassing various other substrates. Oxygen plasma treatment, used to enhance polypropylene wettability, is found to increase the rate of cell embedment significantly. Both embedment and uptake phenomena are found to be dependent upon cell viability. Potential applications for the cell/polymer system are discussed

  16. Magnetotactic bacteria: nanodrivers of the future.

    Science.gov (United States)

    Mathuriya, Abhilasha Singh

    2016-10-01

    Magnetotactic bacteria (MTB) represent a heterogeneous group of Gram-negative aquatic prokaryotes with a broad range of morphological types, including vibrioid, coccoid, rod and spirillum. MTBs possess the virtuosity to passively align and actively swim along the magnetic field. Magnetosomes are the trademark nano-ranged intracellular structures of MTB, which comprise magnetic iron-bearing inorganic crystals enveloped by an organic membrane, and are dedicated organelles for their magnetotactic lifestyle. Magnetosomes endue high and even dispersion in aqueous solutions compared with artificial magnetites, claiming them as paragon nanomaterials. MTB and magnetosomes offer high technological potential in modern science, technology and medicines. This review focuses on the applicability of MTB and magnetosomes in various areas of modern benefits. PMID:26287367

  17. Bacteria and bioremediation of marine oil spills

    International Nuclear Information System (INIS)

    Virtually all marine ecosystems harbor indigenous hydrocarbon-degrading bacteria. These hydrocarbon degraders comprise less than one percent of the bacterial community in unpolluted environments, but generally increase to one to ten percent following petroleum contamination. Various hydrocarbons are degraded by these microorganisms at different rates, so there is an evolution in the residual hydrocarbon mixture, and some hydrocarbons and asphaltic petroleum hydrocarbons remain undegraded. Fortunately, these persistent petroleum pollutants are, for the most part, insoluble or are bound to solids; hence they are not biologically available and therefore not toxic to marine organisms. Carbon dioxide, water, and cellular biomass produced by the microorganisms from the degradable hydrocarbons may be consumed by detrital feeders and comprise the end products of the natural biological degradation process. Bioremediation attempts to accelerate the natural hydrocarbon degradation rates by overcoming factors that limit bacterial hydrocarbon degrading activities

  18. Magnetotactic bacteria: promising biosorbents for heavy metals.

    Science.gov (United States)

    Zhou, Wei; Zhang, Yanzong; Ding, Xiaohui; Liu, Yan; Shen, Fei; Zhang, Xiaohong; Deng, Shihuai; Xiao, Hong; Yang, Gang; Peng, Hong

    2012-09-01

    Magnetotactic bacteria (MTB), which can orient and migrate along a magnetic line of force due to intracellular nanosized magnetosomes, have been a subject of research in the medical field, in dating environmental changes, and in environmental remediation. This paper reviews the recent development of MTB as biosorbents for heavy metals. Ultrastructures and taxis of MTB are investigated. Adsorptions in systems of unitary and binary ions are highlighted, as well as adsorption conditions (temperature, pH value, biomass concentration, and pretreatments). The separation and desorption of MTB in magnetic separators are also discussed. A green method to produce metal nanoparticles is provided, and an energy-efficient way to recover precious metals is put forward during biosorption. PMID:22763846

  19. Stress Physiology of Lactic Acid Bacteria.

    Science.gov (United States)

    Papadimitriou, Konstantinos; Alegría, Ángel; Bron, Peter A; de Angelis, Maria; Gobbetti, Marco; Kleerebezem, Michiel; Lemos, José A; Linares, Daniel M; Ross, Paul; Stanton, Catherine; Turroni, Francesca; van Sinderen, Douwe; Varmanen, Pekka; Ventura, Marco; Zúñiga, Manuel; Tsakalidou, Effie; Kok, Jan

    2016-09-01

    Lactic acid bacteria (LAB) are important starter, commensal, or pathogenic microorganisms. The stress physiology of LAB has been studied in depth for over 2 decades, fueled mostly by the technological implications of LAB robustness in the food industry. Survival of probiotic LAB in the host and the potential relatedness of LAB virulence to their stress resilience have intensified interest in the field. Thus, a wealth of information concerning stress responses exists today for strains as diverse as starter (e.g., Lactococcus lactis), probiotic (e.g., several Lactobacillus spp.), and pathogenic (e.g., Enterococcus and Streptococcus spp.) LAB. Here we present the state of the art for LAB stress behavior. We describe the multitude of stresses that LAB are confronted with, and we present the experimental context used to study the stress responses of LAB, focusing on adaptation, habituation, and cross-protection as well as on self-induced multistress resistance in stationary phase, biofilms, and dormancy. We also consider stress responses at the population and single-cell levels. Subsequently, we concentrate on the stress defense mechanisms that have been reported to date, grouping them according to their direct participation in preserving cell energy, defending macromolecules, and protecting the cell envelope. Stress-induced responses of probiotic LAB and commensal/pathogenic LAB are highlighted separately due to the complexity of the peculiar multistress conditions to which these bacteria are subjected in their hosts. Induction of prophages under environmental stresses is then discussed. Finally, we present systems-based strategies to characterize the "stressome" of LAB and to engineer new food-related and probiotic LAB with improved stress tolerance. PMID:27466284

  20. Virulence Plasmids of Spore-Forming Bacteria.

    Science.gov (United States)

    Adams, Vicki; Li, Jihong; Wisniewski, Jessica A; Uzal, Francisco A; Moore, Robert J; McClane, Bruce A; Rood, Julian I

    2014-12-01

    Plasmid-encoded virulence factors are important in the pathogenesis of diseases caused by spore-forming bacteria. Unlike many other bacteria, the most common virulence factors encoded by plasmids in Clostridium and Bacillus species are protein toxins. Clostridium perfringens causes several histotoxic and enterotoxin diseases in both humans and animals and produces a broad range of toxins, including many pore-forming toxins such as C. perfringens enterotoxin, epsilon-toxin, beta-toxin, and NetB. Genetic studies have led to the determination of the role of these toxins in disease pathogenesis. The genes for these toxins are generally carried on large conjugative plasmids that have common core replication, maintenance, and conjugation regions. There is considerable functional information available about the unique tcp conjugation locus carried by these plasmids, but less is known about plasmid maintenance. The latter is intriguing because many C. perfringens isolates stably maintain up to four different, but closely related, toxin plasmids. Toxin genes may also be plasmid-encoded in the neurotoxic clostridia. The tetanus toxin gene is located on a plasmid in Clostridium tetani, but the botulinum toxin genes may be chromosomal, plasmid-determined, or located on bacteriophages in Clostridium botulinum. In Bacillus anthracis it is well established that virulence is plasmid determined, with anthrax toxin genes located on pXO1 and capsule genes on a separate plasmid, pXO2. Orthologs of these plasmids are also found in other members of the Bacillus cereus group such as B. cereus and Bacillus thuringiensis. In B. thuringiensis these plasmids may carry genes encoding one or more insecticidal toxins. PMID:26104459

  1. Enumeration of petroleum hydrocarbon utilizing bacteria

    International Nuclear Information System (INIS)

    In-situ biological treatment is one among a number of emerging technologies that may be applied to the remediation of contaminated soils and groundwater. In 1985, a surface spill of 1,500 gallons of dielectric transformer oil at the Sandia National Laboratories (HERMES II facility) resulted in contamination of soil up to depths of 160 feet. The extent of contamination and site characteristics favored the application of in-situ bioremediation as a potential remedial technology. The purpose of this research was to enumerate indigenous microbial populations capable of degrading petroleum hydrocarbons. Microbial enumeration and characterization methods suitably adapted for hydrocarbon utilizing bacteria were used as an indicator of the presence of viable microbial consortia in excavated oil samples with hydrocarbon (TPH) concentrations ranging from 300 to 26,850 ppm. Microbial activity was quantified by direct and streak plating soil samples on silica gel media. Effects of toxicity and temperature were studied using batch cultures of hydrocarbon utilizing bacteria (selectively isolated in an enrichment medium), at temperatures of 20 and 35 C. It was concluded from this study that it is possible to isolate native microorganisms from contaminated soils from depths of 60 to 160 feet, and with oil concentration ranging from 300 to 26,850 ppm. About 62% of the microorganisms isolated form the contaminated soil were capable of using contaminant oil as a substrate for growth and metabolism under aerobic conditions. Growth rates were observed to be 50% higher for the highest contaminant concentration at 20 C. Resistance to toxicity to contaminant oil was also observed to be greater at 20 C than at 35 C

  2. Oxygen sensing strategies in mammals and bacteria.

    Science.gov (United States)

    Taabazuing, Cornelius Y; Hangasky, John A; Knapp, Michael J

    2014-04-01

    The ability to sense and adapt to changes in pO2 is crucial for basic metabolism in most organisms, leading to elaborate pathways for sensing hypoxia (low pO2). This review focuses on the mechanisms utilized by mammals and bacteria to sense hypoxia. While responses to acute hypoxia in mammalian tissues lead to altered vascular tension, the molecular mechanism of signal transduction is not well understood. In contrast, chronic hypoxia evokes cellular responses that lead to transcriptional changes mediated by the hypoxia inducible factor (HIF), which is directly controlled by post-translational hydroxylation of HIF by the non-heme Fe(II)/αKG-dependent enzymes FIH and PHD2. Research on PHD2 and FIH is focused on developing inhibitors and understanding the links between HIF binding and the O2 reaction in these enzymes. Sulfur speciation is a putative mechanism for acute O2-sensing, with special focus on the role of H2S. This sulfur-centered model is discussed, as are some of the directions for further refinement of this model. In contrast to mammals, bacterial O2-sensing relies on protein cofactors that either bind O2 or oxidatively decompose. The sensing modality for bacterial O2-sensors is either via altered DNA binding affinity of the sensory protein, or else due to the actions of a two-component signaling cascade. Emerging data suggests that proteins containing a hemerythrin-domain, such as FBXL5, may serve to connect iron sensing to O2-sensing in both bacteria and humans. As specific molecular machinery becomes identified, these hypoxia sensing pathways present therapeutic targets for diseases including ischemia, cancer, or bacterial infection. PMID:24468676

  3. Evidence that mycoplasmas, gram-negative bacteria, and certain gram-positive bacteria share a similar protein antigen.

    OpenAIRE

    Sasaki, T.

    1991-01-01

    It was demonstrated that mycoplasmas, gram-negative bacteria, and certain gram-positive bacteria share a similar protein antigen with a molecular weight ranging from 42,000 to 48,000. Western blotting (immunoblotting) with an antibody specific to a 43-kDa membrane protein of Mycoplasma fermentans showed the existence of this protein antigen in all Mycoplasma spp. tested (14 species), Acholeplasma laidlawii (1 strain), and gram-negative bacteria (8 species) but only in Staphylococcus aureus of...

  4. Evaluation of tests using DNA repair-deficient bacteria for predicting genotoxicity and carcinogenicity

    Energy Technology Data Exchange (ETDEWEB)

    Leifer, Z.; Kada, T.; Mandel, M.; Zeiger, E.; Stafford, R.; Rosenkranz, H.S.

    1981-01-01

    The detection of DNA-damaging agents by repair-deficient bacterial assays is based on the differential inhibition of growth of repair-proficient and repair-deficient bacterial pairs. The various methodologies used are described and recommendations are made for their improved use. In a survey of the literature through April 1979, 91 of 276 papers evaluated contained usable data, resulting in an analysis of 611 compounds that had been assayed in 1 or more of 55 pairs of repair-proficient and repair-deficient strains. The results indicate that a liquid suspension assay is more sensitive than a spot (diffusion) test. There was a 78% correspondence between results obtained with E. coli polA and Bacillus subtilis (H17/M45, 17A/45T) rec assay and between E. coli polA and Proteus mirabilis. In a comparison of test results with carcinogenicity data, 44 of 71 (62%) carcinogenic compounds assayed by the polA system were positive, 10 (14%) were negative, and 17 (24%) gave No Test or doubtful results. The results were analyzed with respect to chemical classes. E. coli polA detected the highest percentage of hydroxylamines and alkyl epoxides. The B. subtilis rec assay detected the highest percentage of nitrosamines and sulfur and nitrogen oxides. It is concluded that some of these test systems are effective tools for the detection of DNA-damaging and potentially carcinogenic compounds, especially if the assay is done in liquid suspension and if more than 1 pair of tester strains is used. Advantages and disadvantages of the assay are discussed and suggestions are made for improvements in the system.

  5. Concise review of mechanisms of bacterial adhesion to biomaterials and of techniques used in estimating bacteria-material interactions

    Directory of Open Access Journals (Sweden)

    Katsikogianni M.

    2004-12-01

    Full Text Available This article reviews the mechanisms of bacterial adhesion to biomaterial surfaces, the factors affecting the adhesion, the techniques used in estimating bacteria-material interactions and the models that have been developed in order to predict adhesion. The process of bacterial adhesion includes an initial physicochemical interaction phase and a late molecular and cellular one. It is a complicated process influenced by many factors, including the bacterial properties, the material surface characteristics, the environmental factors, such as the presence of serum proteins and the associated flow conditions. Two categories of techniques used in estimating bacteria-material interactions are described: those that utilize fluid flowing against the adhered bacteria and counting the percentage of bacteria that detach, and those that manipulate single bacteria in various configurations which lend themselves to more specific force application and provide the basis for theoretical analysis of the receptor-ligand interactions. The theories that are reviewed are the Derjaguin-Landau-Verwey-Overbeek (DLVO theory, the thermodynamic approach and the extended DLVO theory. Over the years, significant work has been done to investigate the process of bacterial adhesion to biomaterial surfaces, however a lot of questions still remain unanswered.

  6. Potential of the adhesion of bacteria isolated from drinking water to materials.

    Science.gov (United States)

    Simões, Lúcia Chaves; Simões, Manuel; Oliveira, Rosário; Vieira, Maria João

    2007-04-01

    Heterotrophic bacteria (11 genera, 14 species, 25 putative strains) were isolated from drinking water, identified either biochemically or by partial 16s rDNA gene sequencing and their adherence characteristics were determined by two methods: i. thermodynamic prediction of adhesion potential by measuring hydrophobicity (contact angle measurements) and ii. by measuring adherence to eight different substrata (ASI 304 and 316 stainless steel, copper, polyvinyl chloride, polypropylene, polyethylene, silicone and glass). All the test organisms were hydrophilic and inter-species variation in hydrophobicity occurred only for Comamonas acidovorans. Stainless steel 304 (SS 304), copper, polypropylene (PP), polyethylene (PE) and silicone thermodynamically favoured adhesion for the majority of test strains (>18/25), whilst adhesion was generally less thermodynamically favorable for stainless steel 316 (SS 316), polyvinyl chloride (PVC) and glass. The predictability of thermodynamic adhesion test methods was validated by comparison with 24-well microtiter plate assays using nine reference strains and three adhesion surfaces (SS 316, PVC and PE). Results for Acinetobacter calcoaceticus, Burkolderia cepacia and Stenotrophomonas maltophilia sp. 2 were congruent between both methods whilst they differed for the other bacteria to at least one material. Only A. calcoaceticus had strongly adherent properties to the three tested surfaces. Strain variation in adhesion ability was detected only for Sphingomonas capsulata. Analysis of adhesion demonstrated that in addition to physicochemical surface properties of bacterium and substratum, biological factors are involved in early adhesion processes, suggesting that reliance on thermodynamic approaches alone may not accurately predict adhesion capacity. PMID:17440920

  7. Downstream prediction using a nonlinear prediction method

    Science.gov (United States)

    Adenan, N. H.; Noorani, M. S. M.

    2013-11-01

    The estimation of river flow is significantly related to the impact of urban hydrology, as this could provide information to solve important problems, such as flooding downstream. The nonlinear prediction method has been employed for analysis of four years of daily river flow data for the Langat River at Kajang, Malaysia, which is located in a downstream area. The nonlinear prediction method involves two steps; namely, the reconstruction of phase space and prediction. The reconstruction of phase space involves reconstruction from a single variable to the m-dimensional phase space in which the dimension m is based on optimal values from two methods: the correlation dimension method (Model I) and false nearest neighbour(s) (Model II). The selection of an appropriate method for selecting a combination of preliminary parameters, such as m, is important to provide an accurate prediction. From our investigation, we gather that via manipulation of the appropriate parameters for the reconstruction of the phase space, Model II provides better prediction results. In particular, we have used Model II together with the local linear prediction method to achieve the prediction results for the downstream area with a high correlation coefficient. In summary, the results show that Langat River in Kajang is chaotic, and, therefore, predictable using the nonlinear prediction method. Thus, the analysis and prediction of river flow in this area can provide river flow information to the proper authorities for the construction of flood control, particularly for the downstream area.

  8. Identification of Bacteria and the Effect on Compressive Strength of Concrete

    OpenAIRE

    Anneza L. H.; Irwan J. M.; Othman N.; Alshalif A. Faisal

    2016-01-01

    This paper presents the species of bacteria used in this study as well as the effect of the bacteria on compressive strength of bioconcrete. Bioconcrete is not only more environmentally friendly but it is easy to procure. The objective of this research is to identify the ureolytic bacteria and sulphate reduction bacteria that have been isolated and further use the bacteria in concrete to determine the effect of bacteria on compressive strength. Identification of bacteria is conducted through ...

  9. Distribution characteristics of marine bacteria in the China seas

    Directory of Open Access Journals (Sweden)

    Cong MA

    2012-09-01

    Full Text Available Objective To investigate the main species of marine bacteria and their distribution characteristics in China seas. Methods Seawater samples were obtained from sea water about one meter below the sea level along the navigation course, and then the bacteria therein were enriched, cultured, identified and tested for drug sensitivity. Results A total of 528 seawater samples were collected from four seas of China, and 759 marine bacteria in 145 species were isolated. The isolates were mainly Vibro, Enterobacteriaceae, Nonfermenter, Fungi, Pasteurella, Gram positive cocci, Eikenella corrodens and Anaerobic bacteria. Vibrio accounted for 52.9% of the 759 strains of marine bacteria, among which Vibrio alginolyticus, Vibrio fluvialis and Vibrio parahaemolyticus accounted for 75%. There was no significant difference in the quantity of Vibrio alginolyticus, Escherichia coli and Vibrio parahaemolyticus between the 4 sea areas (P=0.071. Chi-square test showed that significant differences existed in the distribution of seven species of marine bacteria among the 4 China seas (P=0.0004. The Gram-positive cocci were isolated more often in Bohai than from other seas; Eikenella corrodens were detected mostly in Yellow Sea; Vibrio were the predominant bacteria in East China sea, up to 70.8%; more Fungi were found in South China sea. The main features of specific bacteria isolated from the four sea areas was higher number of species with less quantity. From North to South, Enterococcus faecalis, Flavobacterium, Vibrio carchariae and C. famata were found to constitute the highest number. Conclusions In China seas, Vibrios are the dominant bacteria, and the numbers of Anaerobic bacteria and Gram-positive cocci are extremely low. There is a significant difference in the distribution of marine bacteria among 4 China seas.

  10. Determination of Ammonia Oxidizing Bacteria and Nitrate Oxidizing Bacteria in Wastewater and Bioreactors

    Science.gov (United States)

    Francis, Somilez Asya

    2014-01-01

    The process of water purification has many different physical, chemical, and biological processes. One part of the biological process is the task of ammonia oxidizing bacteria (AOB) and nitrite oxidizing bacteria (NOB). Both play critical roles in the treatment of wastewater by oxidizing toxic compounds. The broad term is nitrification, a naturally occurring process that is carried out by AOB and NOB by using oxidation to convert ammonia to nitrite and nitrite to nitrate. To monitor this biological activity, bacterial staining was performed on wastewater contained in inoculum tanks and biofilm samples from bioreactors. Using microscopy and qPCR, the purpose of this experiment was to determine if the population of AOB and NOB in wastewater and membrane bioreactors changed depending on temperature and hibernation conditions to determine the optimal parameters for AOB/NOB culture to effectively clean wastewater.

  11. Bacteria, some permanent tenants Space Station; Bacteria, unos inquilinos permanentes de la estacion espacial

    Energy Technology Data Exchange (ETDEWEB)

    Diaz, B.

    2015-07-01

    Vacuum cleaners to operate the vacuum or rags with ethanol they are the products of cleaning of the astronauts. Is there tight spaces fully sterilized? It seems not, even in the Space Station International (ISS). When it comes to bacteria, they are able to travel more than 400 kilometers housed in costumes, bodies and interior of the astronauts themselves and settle in a enclosed space where-unlike in a {sup c}leanroom 'terrestre- the air is not recycled. A NASA study has found an abundance of bacteria 'opportunists' which, although harmless on Earth, they might derivasen cause infections in inflammations or skin irritations. Not forgetting those fungi that could damage or affect the infrastructure equipment space. (Author)

  12. Spatial scales of interactions among bacteria and between bacteria and the leaf surface.

    Science.gov (United States)

    Esser, Daniel S; Leveau, Johan H J; Meyer, Katrin M; Wiegand, Kerstin

    2015-03-01

    Microbial life on plant leaves is characterized by a multitude of interactions between leaf colonizers and their environment. While the existence of many of these interactions has been confirmed, their spatial scale or reach often remained unknown. In this study, we applied spatial point pattern analysis to 244 distribution patterns of Pantoea agglomerans and Pseudomonas syringae on bean leaves. The results showed that bacterial colonizers of leaves interact with their environment at different spatial scales. Interactions among bacteria were often confined to small spatial scales up to 5-20 μm, compared to interactions between bacteria and leaf surface structures such as trichomes which could be observed in excess of 100 μm. Spatial point-pattern analyses prove a comprehensive tool to determine the different spatial scales of bacterial interactions on plant leaves and will help microbiologists to better understand the interplay between these interactions. PMID:25764562

  13. Rainforest Conversion to Rubber Plantation May Not Result in Lower Soil Diversity of Bacteria, Fungi, and Nematodes.

    Science.gov (United States)

    Kerfahi, Dorsaf; Tripathi, Binu M; Dong, Ke; Go, Rusea; Adams, Jonathan M

    2016-08-01

    Large areas of rainforest in Asia have been converted to plantations, with uncertain effects on soil biodiversity. Using standard metagenetic methods, we compared the soil biota of bacteria, fungi, and nematodes at three rainforest sites in Malaysia with two rubber plantation sites with similar soils and geology. We predicted the following: (1) that the rubber sites would have a lower α- and β-diversity than the rainforest sites, due to the monospecific canopy cover and intensive management with herbicides, pesticides, and fertilizers, and (2) that due to differences in the physical and biotic environment associated with cultivation, there would be distinct communities of bacteria, fungi, and nematodes. However, regarding (1), the results showed no consistent difference in α- and β-diversity of bacteria, fungi, or nematodes between rainforest and rubber plantation sites. It appears that conversion of rainforest to rubber plantations does not necessarily result in a decrease in diversity of soil biota. It may be that heterogeneity associated with the cultivation regimen compensates for loss of biotically imposed heterogeneity of the original rainforest. Regarding (2), as predicted there were statistically significant differences in community composition between rainforest and rubber plantation for bacteria, fungi, and nematodes. These differences could be related to a range of factors including light level, litter fall composition, pH, C and N, selecting a distinct set of soil taxa, and it is possible that this in itself would affect long-term soil function. PMID:27221090

  14. Evidence for Detachment of Indigenous Bacteria from Aquifer Sediment in Response to Arrival of Injected Bacteria

    OpenAIRE

    Johnson, W P; Zhang, P.; Gardner, P. M.; Fuller, M E; DeFlaun, M. F.

    2001-01-01

    Two bacterial strains isolated from the aquifer underlying Oyster, Va., were recently injected into the aquifer and monitored using ferrographic capture, a high-resolution immunomagnetic technique. Injected cells were enumerated on the basis of a vital fluorescence stain, whereas total cell numbers (stained target cells plus unstained target and antigenically similar indigenous bacteria) were identified by cell outlines emanating from fluorophore-conjugated antibodies to the two target strain...

  15. Lactic acid bacteria from fresh fruit and vegetables as biocontrol agents of phytopathogenic bacteria and fungi.

    Science.gov (United States)

    Trias, Rosalia; Bañeras, Lluís; Montesinos, Emilio; Badosa, Esther

    2008-12-01

    This study evaluated the efficacy of lactic acid bacteria (LAB) isolated from fresh fruits and vegetables as biocontrol agents against the phytopathogenic and spoilage bacteria and fungi, Xanthomonas campestris, Erwinia carotovora, Penicillium expansum, Monilinia laxa, and Botrytis cinerea. The antagonistic activity of 496 LAB strains was tested in vitro and all tested microorganisms except P. expansum were inhibited by at least one isolate. The 496 isolates were also analyzed for the inhibition of P. expansum infection in wounds of Golden Delicious apples. Four strains (TC97, AC318, TM319, and FF441) reduced the fungal rot diameter of the apples by 20%; only Weissella cibaria strain TM128 decreased infection levels by 50%. Cell-free supernatants of selected antagonistic bacteria were studied to determine the nature of the antimicrobial compounds produced. Organic acids were the preferred mediators of inhibition but hydrogen peroxide was also detected when strains BC48, TM128, PM141 and FF441 were tested against E. carotovora. While previous reports of antifungal activity by LAB are scarce, our results support the potential of LAB as biocontrol agents against postharvest rot. PMID:19204894

  16. Acetic acid bacteria: A group of bacteria with versatile biotechnological applications.

    Science.gov (United States)

    Saichana, Natsaran; Matsushita, Kazunobu; Adachi, Osao; Frébort, Ivo; Frebortova, Jitka

    2015-11-01

    Acetic acid bacteria are gram-negative obligate aerobic bacteria assigned to the family Acetobacteraceae of Alphaproteobacteria. They are members of the genera Acetobacter, Gluconobacter, Gluconacetobacter, Acidomonas, Asaia, Kozakia, Swaminathania, Saccharibacter, Neoasaia, Granulibacter, Tanticharoenia, Ameyamaea, Neokomagataea, and Komagataeibacter. Many strains of Acetobacter and Komagataeibacter have been known to possess high acetic acid fermentation ability as well as the acetic acid and ethanol resistance, which are considered to be useful features for industrial production of acetic acid and vinegar, the commercial product. On the other hand, Gluconobacter strains have the ability to perform oxidative fermentation of various sugars, sugar alcohols, and sugar acids leading to the formation of several valuable products. Thermotolerant strains of acetic acid bacteria were isolated in order to serve as the new strains of choice for industrial fermentations, in which the cooling costs for maintaining optimum growth and production temperature in the fermentation vessels could be significantly reduced. Genetic modifications by adaptation and genetic engineering were also applied to improve their properties, such as productivity and heat resistance. PMID:25485864

  17. Bioactive proteins against pathogenic and spoilage bacteria

    Directory of Open Access Journals (Sweden)

    Mahmoud Z. Sitohy

    2014-10-01

    Full Text Available Background: It is likely that both human nutrition and the nutrition of livestock are benefited by the presence of bioactive proteins within their respective diet regimes. Bioactive proteins have been defined as specific protein fragments that positively impact bodily functions or conditions and may, ultimately, influence overall human health. The ingestion of bioactive proteins may have an effect on the major body systems—namely, the cardiovascular, digestive, immune and nervous systems. According to their functional properties, bioactive proteins may be classified as antimicrobial, antithrombotic, antihypertensive, opioid, immune-modulatory, mineral binding and anti-oxidative. There are many examples of biologically active food proteins and active peptides that can be obtained from various food protein sources. They have a physiological significance beyond the pure nutritional requirements; in other wordsthey have the acquisition of nitrogen for normal growth and maintenance. Objective: This study aims to specify and characterize the extent and mode of action of bioactive proteins in their native form, (glycinin, glycinin basic sub-unit and β-conglycinin against specific main pathogens (Listeria monocytogenes, Escherichia coli O157:H7 and Salmonella enterica serovar Enteritidis. We will be using standard media while identifying the main constituents responsible for this action. Methods: Glycinin, basic sub-unit and β-conglycinin were isolated from soybean protein and tested for their antimicrobial action against pathogenic and spoilage bacteria, They were thencompared to the properties of penicillin. Methylated soybean protein and also methylated chickpea protein (MSP and MCP, with isoelectric points around pI 8, were prepared by esterifying. 83 % of their free carboxyl groups and their interactions with Gram positive and Gram negative bacteria were examined. Results: The three divisions of cationic proteins exhibited antibacterial

  18. Gram-positive bacteria persisting in the food production environment

    DEFF Research Database (Denmark)

    Knøchel, Susanne; Harmsen, Morten; Knudsen, Bettina;

    2008-01-01

    Many gram-positive bacteria are able to form aggregates or biofilms and resist external stress factors and some gram-positive pathogenic bacteria such as Listeria monocytogenes and Bacillus cereus may persist in the food production environment for extended periods. Most research has focussed on the...

  19. Intestinal irony: how probiotic bacteria outcompete bad bugs.

    Science.gov (United States)

    Weiss, Guenter

    2013-07-17

    In this issue of Cell Host & Microbe, Deriu et al. present a mechanistic explanation underlying the benefits of certain probiotic bacteria. Intestinal bacteria compete for the essential nutrient iron, leading to replacement of pathogenic Salmonella by the probiotic Escherichia coli Nissle, which is better equipped with iron acquisition systems, and resolution of infectious colitis. PMID:23870306

  20. Effect of tourmaline on denitrification characteristics of hydrogenotrophic bacteria.

    Science.gov (United States)

    Wang, Wei; Jiang, Hongyan; Zhu, Guangquan; Song, Xueying; Liu, Xingyu; Qiao, Ya

    2016-03-01

    To improve the denitrification characteristics of anaerobic denitrifying bacteria and obviate the disadvantage of use of explosive hydrogen gas, tourmaline, a polar mineral, was added to the hydrogenotrophic denitrification system in this study. Microbial reduction of nitrate in the presence of tourmaline was evaluated to assess the promotion effect of tourmaline on nitrate biodegradation. The experiment results demonstrated that tourmaline speeded up the cultivation process of bacteria from 65 to 36 days. After domestication of the bacteria, nitrate (50 mg NO3 (-)-N L(-1)) was completely removed within 3 days in the combined tourmaline-bacteria system, and the generated nitrite was also removed within 8 days. The reduction rate in this system is higher relative to that in the bacteria system alone. Efficient removal of nitrate by tourmaline-supported anaerobic bacteria (without external hydrogen input) indicated that tourmaline might act as the sole hydrogen donor to sustain autotrophic denitrification. Besides the production of hydrogen, the promoted activity of anaerobic denitrifying bacteria might be caused by the change of water properties, e.g., the pH of aqueous solutions was altered to about 8.0 and the oxidation-reduction potential decreased by 62 % in the tourmaline system. The distinctive effects of tourmaline on bacteria were related to its electric properties. PMID:26545889

  1. Methanotrophic Bacteria and Facilitated Transport of Pollutants in Aquifer Material

    OpenAIRE

    Jenkins, Michael B.; Chen, Jyh-Herng; Kadner, Debra J.; Lion, Leonard W.

    1994-01-01

    In situ stimulation of methanotrophic bacteria has been considered as a methodology for aquifer remediation. Chlorinated aliphatic hydrocarbons such as trichloroethylene are fortuitously oxidized by the methane monooxygenase produced by methanotrophic bacteria. Experimental results are presented that indicate that both colloidal suspensions containing methanotrophic cells and the soluble extracellular polymers produced by methanotrophic cells have the potential to enhance the transport and re...

  2. Using Genomics to Deliver Natural Products from Symbiotic Bacteria

    OpenAIRE

    Clardy, Jon C.

    2005-01-01

    The availability of some natural products with promising anticancer activity has been limited because they are synthesized by symbiotic bacteria associated with specific animals. Recent research has identified the clusters of bacterial genes responsible for their synthesis, so that the molecules can be synthesized in alternative, easily cultured bacteria.

  3. Nitrogen acquisition in Agave tequilana from degradation of endophytic bacteria.

    Science.gov (United States)

    Beltran-Garcia, Miguel J; White, James F; Prado, Fernanda M; Prieto, Katia R; Yamaguchi, Lydia F; Torres, Monica S; Kato, Massuo J; Medeiros, Marisa H G; Di Mascio, Paolo

    2014-01-01

    Plants form symbiotic associations with endophytic bacteria within tissues of leaves, stems, and roots. It is unclear whether or how plants obtain nitrogen from these endophytic bacteria. Here we present evidence showing nitrogen flow from endophytic bacteria to plants in a process that appears to involve oxidative degradation of bacteria. In our experiments we employed Agave tequilana and its seed-transmitted endophyte Bacillus tequilensis to elucidate organic nitrogen transfer from (15)N-labeled bacteria to plants. Bacillus tequilensis cells grown in a minimal medium with (15)NH4Cl as the nitrogen source were watered onto plants growing in sand. We traced incorporation of (15)N into tryptophan, deoxynucleosides and pheophytin derived from chlorophyll a. Probes for hydrogen peroxide show its presence during degradation of bacteria in plant tissues, supporting involvement of reactive oxygen in the degradation process. In another experiment to assess nitrogen absorbed as a result of endophytic colonization of plants we demonstrated that endophytic bacteria potentially transfer more nitrogen to plants and stimulate greater biomass in plants than heat-killed bacteria that do not colonize plants but instead degrade in the soil. Findings presented here support the hypothesis that some plants under nutrient limitation may degrade and obtain nitrogen from endophytic microbes. PMID:25374146

  4. Iron/clay interaction in presence of bacteria

    International Nuclear Information System (INIS)

    A water percolation cell has been designed to assess the impact of bacteria on the interaction between clay and iron. It has been shown that at the interface between argillite and bulk iron, the presence of bacteria has led to local corrosion made of iron sulphide and pitting. (A.C.)

  5. High-throughput antibody microarray for bacteria and toxins

    Science.gov (United States)

    Ingestion of pathogenic bacteria in foods often results in illnesses that are of worldwide concern. Hence, our research efforts have focused on developing screening tests capable of multiplexed detection of foodborne bacteria and associated toxins. In this study, we describe the combination of a s...

  6. Unusual rise in mercury-resistant bacteria in coastal environs

    Digital Repository Service at National Institute of Oceanography (India)

    Ramaiah, N.; De, J.

    A sharp rise in mercury-resistant bacteria (MRB) capable of tolerating very high concentration of Hg was observed over the last 3-4 years in the coastal environs of India. While none or negligible colony-forming units (CFU) of bacteria were counted...

  7. Use of thermophilic bacteria for bioremediation of petroleum contaminants

    International Nuclear Information System (INIS)

    Several strains of thermophilic bacteria were isolated from the environment of the United Arab Emirates. These bacteria show extraordinary resistance to heat and have their maximum growth rate around 60--80 C. This article investigates the potential of using these facultative bacteria for both in situ and ex situ bioremediation of petroleum contaminants. In a series of batch experiments, bacterial growth was observed using a computer image analyzer following a recently developed technique. These experiments showed clearly that the growth rate is enhanced in the presence of crude oil. This is coupled with a rapid degradation of the crude oil. These bacteria were found to be ideal for breaking down long-chain organic molecules at a temperature of 40 C, which is the typical ambient temperature of the Persian Gulf region. The same strains of bacteria are also capable of surviving in the presence of the saline environment that can prevail in both sea water and reservoir connate water. This observation prompted further investigation into the applicability of the bacteria in microbial enhanced oil recovery. In the United Arab Emirates, the reservoirs are typically at a temperature of around 85 C. Finally, the performance of the bacteria is tested in a newly developed bioreactor that uses continuous aeration through a transverse slotted pipe. This reactor also uses mixing without damaging the filamentous bacteria. In this process, the mechanisms of bioremediation are identified

  8. Cholesterol lipids and cholesterol-containing lipid rafts in bacteria.

    Science.gov (United States)

    Huang, Zhen; London, Erwin

    2016-09-01

    Sterols are important components of eukaryotic membranes, but rare in bacteria. Some bacteria obtain sterols from their host or environment. In some cases, these sterols form membrane domains analogous the lipid rafts proposed to exist in eukaryotic membranes. This review describes the properties and roles of sterols in Borrelia and Helicobacter. PMID:26964703

  9. Production of Value-added Products by Lactic Acid Bacteria

    Science.gov (United States)

    Lactic acid bacteria (LAB) are a group of facultative anaerobic, catalase negative, nonmotile and nonsporeforming–Gram positive bacteria. Most LAB utilize high energy C sources including monomer sugars to produce energy to maintain cellular structure and function. This anaerobic fermentation proce...

  10. BIOTECHNOLOGICAL APPLICATIONS OF PURPLE NON SULPHUR PHOTOTROPHIC BACTERIA: A MINIREVIEW

    Directory of Open Access Journals (Sweden)

    Ramchander Merugu

    2013-03-01

    Full Text Available Bacteria play in vital role in the production of variety of products, including certain plastics and enzymes used in detergents, textiles and pharmaceutical industries. Production of chemicals using bacteria and other microorganisms is not only economical sustainable but also ecofriendly. Modern biotechnology entails the use of cell fusion, bioinformatics, genetic engineering, structure based molecular design and hybridoma technology.

  11. Decontamination of airborne bacteria in meat processing plants

    Science.gov (United States)

    Air has been established as a source of bacterial contamination in meat processing facilities. Airborne bacteria may affect product shelf life, and have food safety implications. The effectiveness of reactive oxygen species (ROS) generating AirOcare equipment on the reduction of airborne bacteria in...

  12. Fermentation of Fructooligosaccharides by Lactic Acid Bacteria and Bifidobacteria†

    OpenAIRE

    Kaplan, Handan; Hutkins, Robert W.

    2000-01-01

    Lactic acid bacteria and bifidobacteria were screened of their ability to ferment fructooligosaccharides (FOS) on MRS agar. Of 28 strains of lactic acid bacteria and bifidobacteria examined, 12 of 16 Lactobacillus strains and 7 of 8 Bifidobacterium strains fermented FOS. Only strains that gave a positive reaction by the agar method reached high cell densities in broth containing FOS.

  13. Survival and transport of faecal bacteria in agricultural soils

    DEFF Research Database (Denmark)

    Bech, Tina Bundgaard

    Today, there is yearly applied 34 million tonnes of animal waste to arable land in Denmark. This waste may contain pathogenic zoonotic bacteria and/or antibiotic resistant bacteria, and when applied to arable land there is a risk of contaminating groundwater, surface water, feeding animals or fresh...

  14. Proteorhodopsin lateral gene transfer between marine planktonic Bacteria and Archaea

    DEFF Research Database (Denmark)

    Frigaard, Niels-Ulrik; Martinez, Asuncion; Mincer, Tracy J;

    2006-01-01

    Planktonic Bacteria, Archaea and Eukarya reside and compete in the ocean's photic zone under the pervasive influence of light. Bacteria in this environment were recently shown to contain photoproteins called proteorhodopsins, thought to contribute to cellular energy metabolism by catalysing light...

  15. Functional genomics of lactic acid bacteria: from food to health

    NARCIS (Netherlands)

    Douillard, F.P.; Vos, de W.M.

    2014-01-01

    Genome analysis using next generation sequencing technologies has revolutionized the characterization of lactic acid bacteria and complete genomes of all major groups are now available. Comparative genomics has provided new insights into the natural and laboratory evolution of lactic acid bacteria a

  16. Effects of using coding potential, sequence conservation and mRNA structure conservation for predicting pyrroly-sine containing genes

    DEFF Research Database (Denmark)

    Have, Christian Theil; Zambach, Sine; Christiansen, Henning

    2013-01-01

    suggested, but the structure does not seem to be present in all pyrrolysine incorporating genes. Results We propose a strategy to predict pyrrolysine encoding genes in genomes of archaea and bacteria. We cluster open reading frames interrupted by the amber codon based on sequence similarity. We rank these...... prediction of pyrrolysine incorporating genes in genomes of bacteria and archaea leading to insights about the factors driving pyrrolysine translation and identification of new gene candidates. The method predicts known conserved genes with high recall and predicts several other promising candidates for...... experimental verification. The method is implemented as a computational pipeline which is available on request....

  17. Bacteria in Cancer Therapy: Renaissance of an Old Concept.

    Science.gov (United States)

    Felgner, Sebastian; Kocijancic, Dino; Frahm, Michael; Weiss, Siegfried

    2016-01-01

    The rising incidence of cancer cases worldwide generates an urgent need of novel treatment options. Applying bacteria may represent a valuable therapeutic variant that is intensively investigated nowadays. Interestingly, the idea to apply bacteria wittingly or unwittingly dates back to ancient times and was revived in the 19th century mainly by the pioneer William Coley. This review summarizes and compares the results of the past 150 years in bacteria mediated tumor therapy from preclinical to clinical studies. Lessons we have learned from the past provide a solid foundation on which to base future efforts. In this regard, several perspectives are discussed by which bacteria in addition to their intrinsic antitumor effect can be used as vector systems that shuttle therapeutic compounds into the tumor. Strategic solutions like these provide a sound and more apt exploitation of bacteria that may overcome limitations of conventional therapies. PMID:27051423

  18. Lactic Acid Bacteria Differentially Activate Natural Killer Cells

    DEFF Research Database (Denmark)

    Fink, Lisbeth Nielsen; Christensen, Hanne Risager; Frøkiær, Hanne

    antigen presenting cells and T-cells. Bacteria translocating across the gastrointestinal mucosa are presumed to gain access to NK cell compartments, as consumption of certain strains of lactic acid bacteria has been shown to increase in vivo NK cytotoxic activity. On-going research in our lab aims at...... describing strain-dependent effects of lactic acid bacteria on regulatory functions of NK-cells. Here, we have investigated how human gut flora-derived non-pathogenic lactic acid bacteria affect NK cells in vitro, by measuring proliferation and IFN-gamma production of human peripheral blood NK cells upon...... bacterial stimulation. Methods: CD3-CD56+ NK cells were isolated from buffy coats by negative isolation using a lineage specific antibody cocktail and magnetic beads binding the labelling antibodies on non-NK cells. NK cells were incubated either with 10 microg/ml UV-inactivated lactic acid bacteria or 10...

  19. Monitoring Ubiquitin-Coated Bacteria via Confocal Microscopy.

    Science.gov (United States)

    Lork, Marie; Delvaeye, Mieke; Gonçalves, Amanda; Van Hamme, Evelien; Beyaert, Rudi

    2016-01-01

    Salmonella is a gram-negative facultative intracellular pathogen that is capable of infecting a variety of hosts. Inside host cells, most Salmonella bacteria reside and replicate within Salmonella-containing vacuoles. They use virulence proteins to manipulate the host cell machinery for their own benefit and hijack the host cytoskeleton to travel toward the perinuclear area. However, a fraction of bacteria escapes into the cytosol where they get decorated with a dense layer of polyubiquitin, which labels the bacteria for clearance by autophagy. More specifically, autophagy receptor proteins recognize the ubiquitinated bacteria and deliver them to autophagosomes, which subsequently fuse to lysosomes. Here, we describe methods used to infect HeLa cells with Salmonella bacteria and to detect their ubiquitination via immunofluorescence and laser scanning confocal microscopy. PMID:27613040

  20. Thermophilic Sulfate-Reducing Bacteria in Cold Marine Sediment

    DEFF Research Database (Denmark)

    ISAKSEN, MF; BAK, F.; JØRGENSEN, BB

    1994-01-01

    P60, were isolated and characterized as Desulfotomaculum kuznetsovii. The temperature response of growth and respiration of strain P60 agreed well with the measured sulfate reduction at 50 degrees-70 degrees C. Bacteria similar to strain P60 could thus be responsible for the measured thermophilic...... C to search for presence of psychrophilic, mesophilic and thermophilic sulfate-reducing bacteria. Detectable activity was initially only in the mesophilic range, but after a lag phase sulfate reduction by thermophilic sulfate-reducing bacteria were observed. No distinct activity of psychrophilic...... sulfate-reducing bacteria was detected. Time course experiments showed constant sulfate reduction rates at 4 degrees C and 30 degrees C, whereas the activity at 60 degrees C increased exponentially after a lag period of one day. Thermophilic, endospore-forming sulfate-reducing bacteria, designated strain...

  1. Purification for eutrophic lake water with immobilized nitrogen cycle bacteria

    International Nuclear Information System (INIS)

    For purification of eutrophic lake water, immobilized nitrogen cycle bacteria (nitrobacteria-denitrifying) made from radiation copolymerization at low temperatures by means of glass forming monomers, i.e. 2-hydroxyethyl acrylate (HEA) and polyethylene glycol dimethacrylate (14 G) were used. The Sequencing Batch Reactors (SBR) system and cell growths of nitrogen cycle bacteria techniques were carried out in order to treat eutrophic lake water. The results showed that the removal efficiencies for total N(TN), NH4+-N and COD with immobilized nitrogen cycle bacteria were 75%, 91.5% and 75% respectively. The results demonstrated that the optimum temperature of immobilized nitrogen cycle bacteria system was 28 degree C. Immobilized nitrogen cycle bacteria system was more resistance to low temperature (10 degree C). The dissolved oxygen (DO) concentrations have effect on removal efficiencies for TN

  2. Bacteria in Cancer Therapy: Renaissance of an Old Concept

    Directory of Open Access Journals (Sweden)

    Sebastian Felgner

    2016-01-01

    Full Text Available The rising incidence of cancer cases worldwide generates an urgent need of novel treatment options. Applying bacteria may represent a valuable therapeutic variant that is intensively investigated nowadays. Interestingly, the idea to apply bacteria wittingly or unwittingly dates back to ancient times and was revived in the 19th century mainly by the pioneer William Coley. This review summarizes and compares the results of the past 150 years in bacteria mediated tumor therapy from preclinical to clinical studies. Lessons we have learned from the past provide a solid foundation on which to base future efforts. In this regard, several perspectives are discussed by which bacteria in addition to their intrinsic antitumor effect can be used as vector systems that shuttle therapeutic compounds into the tumor. Strategic solutions like these provide a sound and more apt exploitation of bacteria that may overcome limitations of conventional therapies.

  3. Detection of pathogenic gram negative bacteria using infrared thermography

    Science.gov (United States)

    Lahiri, B. B.; Divya, M. P.; Bagavathiappan, S.; Thomas, Sabu; Philip, John

    2012-11-01

    Detection of viable bacteria is of prime importance in all fields of microbiology and biotechnology. Conventional methods of enumerating bacteria are often time consuming and labor-intensive. All living organisms generate heat due to metabolic activities and hence, measurement of heat energy is a viable tool for detection and quantification of bacteria. In this article, we employ a non-contact and real time method - infrared thermography (IRT) for measurement of temperature variations in four clinically significant gram negative pathogenic bacteria, viz. Vibrio cholerae, Vibrio mimicus, Proteus mirabilis and Pseudomonas aeruginosa. We observe that, the energy content, defined as the ratio of heat generated by bacterial metabolic activities to the heat lost from the liquid medium to the surrounding, vary linearly with the bacterial concentration in all the four pathogenic bacteria. The amount of energy content observed in different species is attributed to their metabolisms and morphologies that affect the convection velocity and hence heat transport in the medium.

  4. High resistance of some oligotrophic bacteria to ionizing radiation

    International Nuclear Information System (INIS)

    The resistance of seven cultures of eutrophic and oligotrophic bacteria to gamma radiation (at doses up to 360 Gy) was investigated. The bacteria under study were divided into three groups according to their survival ability after irradiation. Methylobacterium organophilum and open-quotes Pedodermatophilus halotoleransclose quotes (LD50 = 270 Gy) were highly tolerant. By their tolerance, these organisms approached Deinococcus radiodurans. Aquatic ring-shaped (toroidal) bacteria Flectobacillus major and open-quotes Arcocella aquaticaclose quotes (LD5 = 173 and 210 Gy, respectively) were moderately tolerant. Eutrophic Pseudomonas fluorescens and Escherichia coli (LD50 = 43 and 38 Gy, respectively) were the most sensitive. X-ray microanalysis showed that in tolerant bacteria the intracellular content of potassium increased and the content of calcium decreased after irradiation. No changes in the element composition of the eutrophic bacterium E. coli were detected. Possible mechanisms of the resistance of oligotrophic bacteria to gamma radiation are discussed

  5. Influence of disturbances on bacteria level in an operating room

    DEFF Research Database (Denmark)

    Brohus, Henrik; Hyldig, Mikkel; Kamper, Simon;

    2008-01-01

    In operating rooms great effort is manifested to reduce the bacteria level in order to decrease the risk of infections. The main source of bacteria is the staff and the patient, thus, the resulting bacteria concentration is roughly speaking a combination of the ventilation system and the emission...... from the occupants. This study investigates the influence of two main disturbances in an operating room namely the door opening during the operation and the activity level of the staff. It is found that the frequent door opening in this case does not cause significant transport of air from outside...... the operating room to the wound area of the patient. However, a significant influence of the activity level on the bacteria emission and concentration is found. Counting the number of persons in an operating room to estimate the bacteria source strength is not sufficient, the corresponding activity level must...

  6. COMPARISON OF OCCURENCE LACTIC ACID BACTERIA IN CHOSEN YOGURTS

    Directory of Open Access Journals (Sweden)

    Silvia Pinterová

    2010-11-01

    Full Text Available The yogurt is healthy food, which contains at least 100 million cultures per gram. Probiotic bacteria have been proven to reduce the effects of some gastrointestinal problems, probiotics can greatly reduce lactose intolerance, have also been proven to prevent colon cancers, there are also a natural immune system booster. In our research we detected numbers of lactid acid bacteria in yogurts in slovak market. There were classical yogurts, yogurts with probiotics, yogurts with fat and non fat. We numbered lactid acid bacteria from and after expiration, in agars MRS and Lee´s. In examined yogurts we detected from expiration from 78.107  to 169.107  and after expiration from 59.107 to 133.107 lactic acid bacteria in 1 ml of yogurt. In agreement with Food Codex of SR (2010 of rules all these yogurts satisfy number of lactid acid bacteria. doi:10.5219/31

  7. Comparison of the community structure of planktonic bacteria in ballast water from entry ships and local sea water in Xiamen Port

    Institute of Scientific and Technical Information of China (English)

    Ying Ma; Hejian Xiong; Senming Tang; Qingshuang Yang; Minjuan Li

    2009-01-01

    In this study, the bacterial community structures in samples of ballast water collected from a ship from Singapore and of local sea water collected from Xiamen Port were compared using restriction fragment length polymorphism (RFLP) and 16S rDNA sequence analysis. Except for dominant α-Proteobacteria that are common to both systems, the bacterial community structures of the two systems were quite different. Most of the clones derived from the different systems were grouped into different phylogenetic clusters, and the sys-tems share only one common RFLP pattern. The ballast water, which is likely from clean offshore waters, contains sequences specific to α- and γ-Proteobacteria. Phylogenetic analysis revealed that the ballast water contained sequences belonging to attached bacteria and bacteria commonly found in the open sea, as well as many novel sequences. In addition, no known pathogenic bacteria were detected in the ballast water samples. Conversely, water samples from Xiamen Port were apparently affected by the near shore environments.Specifically, in addition to α- and γ-Proteobacteria, water from Xiamen Port contained β- and δ-Proteobacteria, Synechococcus, Bacter-oidetes and Actinobacteria, which are common in coastal environments. Additionally, four pathogenic bacterial sequences and one plas-mid sequence of a potential red tide forming alga were detected in the water from Xiamen Port, which suggests that the local sea water is polluted. The results of this study can be used as background information to assess the risk associated with the introduction of non-indig-enous species to local systems and to establish ballast water management systems.

  8. Coexistence of Lactic Acid Bacteria and Potential Spoilage Microbiota in a Dairy Processing Environment.

    Science.gov (United States)

    Stellato, Giuseppina; De Filippis, Francesca; La Storia, Antonietta; Ercolini, Danilo

    2015-11-01

    Microbial contamination in food processing plants can play a fundamental role in food quality and safety. In this study, the microbiota in a dairy plant was studied by both 16S rRNA- and 26S rRNA-based culture-independent high-throughput amplicon sequencing. Environmental samples from surfaces and tools were studied along with the different types of cheese produced in the same plant. The microbiota of environmental swabs was very complex, including more than 200 operational taxonomic units with extremely variable relative abundances (0.01 to 99%) depending on the species and sample. A core microbiota shared by 70% of the samples indicated a coexistence of lactic acid bacteria with a remarkable level of Streptococcus thermophilus and possible spoilage-associated bacteria, including Pseudomonas, Acinetobacter, and Psychrobacter, with a relative abundance above 50%. The most abundant yeasts were Kluyveromyces marxianus, Yamadazyma triangularis, Trichosporon faecale, and Debaryomyces hansenii. Beta-diversity analyses showed a clear separation of environmental and cheese samples based on both yeast and bacterial community structure. In addition, predicted metagenomes also indicated differential distribution of metabolic pathways between the two categories of samples. Cooccurrence and coexclusion pattern analyses indicated that the occurrence of potential spoilers was excluded by lactic acid bacteria. In addition, their persistence in the environment can be helpful to counter the development of potential spoilers that may contaminate the cheeses, with possible negative effects on their microbiological quality. PMID:26341209

  9. Scaling community structure: how bacteria, fungi, and ant taxocenes differentiate along a tropical forest floor.

    Science.gov (United States)

    Kaspari, Michael; Stevenson, Bradley S; Shik, Jonathan; Kerekes, Jennifer F

    2010-08-01

    Taxa with smaller individuals tend to have shorter generation times and higher local abundance and diversity. The scaled specialization hypothesis (SSH) posits that taxocenes of smaller individuals should differentiate more rapidly and thoroughly along physiochemical gradients of a given age and extent. In a Panama rainforest, we evaluated how bacteria, fungi, and ants responded to two such gradients: one topographic and the other arising from nine years of NPK fertilization. Terminal restriction fragment length polymorphism (T-RFLP) delineated bacteria and fungi operational taxonomic units (OTUs); traditional taxonomy delineated the ants. Bacteria had higher local species richness than fungi and ants (averaging 48 vs. 30 vs. 6 OTUs in or = 50% of sample plots compared to 3% for fungi and ants). Consistent with SSH, bacterial composition differed across short-term (+N and +P) and long-term (topographic) gradients; fungal taxocenes differed only along the long-term gradient; and ant taxocenes were homogenous across both. Body size can help predict community responses to a changing environment. PMID:20836443

  10. Characterization of culturable bacteria isolated from the cold-water coral Lophelia pertusa.

    Science.gov (United States)

    Galkiewicz, Julia P; Pratte, Zoe A; Gray, Michael A; Kellogg, Christina A

    2011-08-01

    Microorganisms associated with corals are hypothesized to contribute to the function of the host animal by cycling nutrients, breaking down carbon sources, fixing nitrogen, and producing antibiotics. This is the first study to culture and characterize bacteria from Lophelia pertusa, a cold-water coral found in the deep sea, in an effort to understand the roles that the microorganisms play in the coral microbial community. Two sites in the northern Gulf of Mexico were sampled over 2 years. Bacteria were cultured from coral tissue, skeleton, and mucus, identified by 16S rRNA genes, and subjected to biochemical testing. Most isolates were members of the Gammaproteobacteria, although there was one isolate each from the Betaproteobacteria and Actinobacteria. Phylogenetic results showed that both sampling sites shared closely related isolates (e.g. Pseudoalteromonas spp.), indicating possible temporally and geographically stable bacterial-coral associations. The Kirby-Bauer antibiotic susceptibility test was used to separate bacteria to the strain level, with the results showing that isolates that were phylogenetically tightly grouped had varying responses to antibiotics. These results support the conclusion that phylogenetic placement cannot predict strain-level differences and further highlight the need for culture-based experiments to supplement culture-independent studies. PMID:21507025

  11. Characterization of culturable bacteria isolated from the cold-water coral Lophelia pertusa

    Science.gov (United States)

    Galkiewicz, Julia P.; Pratte, Zoe A.; Gray, Michael A.; Kellogg, Christina A.

    2011-01-01

    Microorganisms associated with corals are hypothesized to contribute to the function of the host animal by cycling nutrients, breaking down carbon sources, fixing nitrogen, and producing antibiotics. This is the first study to culture and characterize bacteria from Lophelia pertusa, a cold-water coral found in the deep sea, in an effort to understand the roles that the microorganisms play in the coral microbial community. Two sites in the northern Gulf of Mexico were sampled over 2 years. Bacteria were cultured from coral tissue, skeleton, and mucus, identified by 16S rRNA genes, and subjected to biochemical testing. Most isolates were members of the Gammaproteobacteria, although there was one isolate each from the Betaproteobacteria and Actinobacteria. Phylogenetic results showed that both sampling sites shared closely related isolates (e.g. Pseudoalteromonas spp.), indicating possible temporally and geographically stable bacterial-coral associations. The Kirby-Bauer antibiotic susceptibility test was used to separate bacteria to the strain level, with the results showing that isolates that were phylogenetically tightly grouped had varying responses to antibiotics. These results support the conclusion that phylogenetic placement cannot predict strain-level differences and further highlight the need for culture-based experiments to supplement culture-independent studies.

  12. Tobacco flakes on cigarette filters grow bacteria: a potential health risk to the smoker?

    Science.gov (United States)

    Pauly, J L; Waight, J D; Paszkiewicz, G M

    2008-09-01

    Bacterial growth from a single flake of tobacco was documented for cigarettes that had been purchased recently from local vendors and from cigarettes that had been stored for more than six years in a warehouse. In a novel tobacco flake assay, a pack of cigarettes was opened within the sterile environment of a laminar flow hood. A single flake of tobacco was collected randomly and aseptically from the middle of the cigarette column and placed onto the surface of a blood agar plate. The test cigarettes included eight different popular US brands, and these were from three different tobacco companies. After 24 hours of incubation at 37 degrees C, the plates showed bacterial growth for tobacco from all brands of cigarettes. Further, more than 90% of the individual tobacco flakes of a given brand grew bacteria. Likewise, bacteria grew from microparticulate tobacco that had been sieved from cigarettes. Tobacco flakes were observed lying loosely on the cut surface of the filter of cigarettes in newly opened packs, and bacteria grew from cigarette filters that had been touched to the surface of a blood agar plate. In conclusion, the results of these studies predict that diverse microbes and microbial toxins are carried by tobacco microparticulates that are released from the cigarette during smoking, and carried into mainstream smoke that is sucked deep into the lung. PMID:18768459

  13. Learning predictive clustering rules

    OpenAIRE

    Ženko, Bernard; Džeroski, Sašo; Struyf, Jan

    2005-01-01

    The two most commonly addressed data mining tasks are predictive modelling and clustering. Here we address the task of predictive clustering, which contains elements of both and generalizes them to some extent. We propose a novel approach to predictive clustering called predictive clustering rules, present an initial implementation and its preliminary experimental evaluation.

  14. Antioxidant and Antimicrobial Potential of the Bifurcaria bifurcata Epiphytic Bacteria

    Directory of Open Access Journals (Sweden)

    André Horta

    2014-03-01

    Full Text Available Surface-associated marine bacteria are an interesting source of new secondary metabolites. The aim of this study was the isolation and identification of epiphytic bacteria from the marine brown alga, Bifurcaria bifurcata, and the evaluation of the antioxidant and antimicrobial activity of bacteria extracts. The identification of epiphytic bacteria was determined by 16S rRNA gene sequencing. Bacteria extracts were obtained with methanol and dichloromethane (1:1 extraction. The antioxidant activity of extracts was performed by quantification of total phenolic content (TPC, 2,2-diphenyl-1-picrylhydrazyl (DPPH radical scavenging activity and oxygen radical absorbance capacity (ORAC. Antimicrobial activities were evaluated against Escherichia coli, Pseudomonas aeruginosa, Bacillus subtilis, Salmonella enteritidis, Staphylococcus aureus, Saccharomyces cerevisiae and Candida albicans. A total of 39 Bifurcaria bifurcata-associated bacteria were isolated and 33 were identified as Vibrio sp. (48.72%, Alteromonas sp. (12.82%, Shewanella sp. (12.26%, Serratia sp. (2.56%, Citricoccus sp. (2.56%, Cellulophaga sp. (2.56%, Ruegeria sp. (2.56% and Staphylococcus sp. (2.56%. Six (15.38% of the 39 bacteria Bifurcaria bifurcata-associated bacteria presented less than a 90% Basic Local Alignment Search Tool (BLAST match, and some of those could be new. The highest antioxidant activity and antimicrobial activity (against B. subtilis was exhibited by strain 16 (Shewanella sp.. Several strains also presented high antimicrobial activity against S. aureus, mainly belonging to Alteromonas sp. and Vibrio sp. There were no positive results against fungi and Gram-negative bacteria. Bifurcaria bifurcata epiphytic bacteria were revealed to be excellent sources of natural antioxidant and antimicrobial compounds.

  15. Methods and Techniques of Sampling, Culturing and Identifying of Subsurface Bacteria

    International Nuclear Information System (INIS)

    This report described sampling, culturing and identifying of KURT underground bacteria, which existed as iron-, manganese-, and sulfate-reducing bacteria. The methods of culturing and media preparation were different by bacteria species affecting bacteria growth-rates. It will be possible for the cultured bacteria to be used for various applied experiments and researches in the future

  16. Nonparametric bootstrap prediction

    OpenAIRE

    Fushiki, Tadayoshi; Komaki, Fumiyasu; Aihara, Kazuyuki

    2005-01-01

    Ensemble learning has recently been intensively studied in the field of machine learning. `Bagging' is a method of ensemble learning and uses bootstrap data to construct various predictors. The required prediction is then obtained by averaging the predictors. Harris proposed using this technique with the parametric bootstrap predictive distribution to construct predictive distributions, and showed that the parametric bootstrap predictive distribution gives asymptotically better prediction tha...

  17. Predictability of social interactions

    OpenAIRE

    Xu, Kevin S.

    2013-01-01

    The ability to predict social interactions between people has profound applications including targeted marketing and prediction of information diffusion and disease propagation. Previous work has shown that the location of an individual at any given time is highly predictable. This study examines the predictability of social interactions between people to determine whether interaction patterns are similarly predictable. I find that the locations and times of interactions for an individual are...

  18. Genome-wide Studies of Mycolic Acid Bacteria: Computational Identification and Analysis of a Minimal Genome

    KAUST Repository

    Kamanu, Frederick Kinyua

    2012-12-01

    candidates against the pathogenic mycolic acid bacteria, a drug target analysis of the protein-coding genes, that are conserved across 15 pathogens, identified a total of 175 potential broad spectrum drug candidates. The activity of the predicted targets can be modified by a total of 306 chemical compounds, 34 of which have been approved by the Food and Drug Administration (FDA), for human treatment.

  19. Cold plasma inactivation of chronic wound bacteria.

    Science.gov (United States)

    Mohd Nasir, N; Lee, B K; Yap, S S; Thong, K L; Yap, S L

    2016-09-01

    Cold plasma is partly ionized non-thermal plasma generated at atmospheric pressure. It has been recognized as an alternative approach in medicine for sterilization of wounds, promotion of wound healing, topical treatment of skin diseases with microbial involvement and treatment of cancer. Cold plasma used in wound therapy inhibits microbes in chronic wound due to its antiseptic effects, while promoting healing by stimulation of cell proliferation and migration of wound relating skin cells. In this study, two types of plasma systems are employed to generate cold plasma: a parallel plate dielectric barrier discharge and a capillary-guided corona discharge. Parameters such as applied voltage, discharge frequency, treatment time and the flow of the carrier gas influence the cold plasma chemistry and therefore change the composition and concentration of plasma species that react with the target sample. Chronic wound that fails to heal often infected by multidrug resistant organisms makes them recalcitrant to healing. Methicillin-resistant Staphylococcus aureus (MRSA) and Pseudomonas aeruginosa (Pseudomonas aeruginosa) are two common bacteria in infected and clinically non-infected wounds. The efficacies of the cold plasma generated by the two designs on the inactivation of three different isolates of MRSA and four isolates of P. aeruginosa are reported here. PMID:27046340

  20. Antibiotic resistance of lactic acid bacteria

    Directory of Open Access Journals (Sweden)

    Bulajić Snežana

    2008-01-01

    Full Text Available Knowledge on the antibiotic resistance of lactic acid bacteria is still limited, possibly because of the large numbers of genera and species encountered in this group, as well as variances in their resistance spectra. The EFSA considers antibiotic resistances, especially transferable resistances, an important decision criterion for determining a strain's QPS status. There are no approved standards for the phenotypic or genotypic evaluation of antibiotic resistances in food isolates. Also, the choice of media is problematic, as well as the specification of MIC breakpoint values as a result of the large species variation and the possible resulting variation in MIC values between species and genera. The current investigations in this field showed that we might end up with a range of different species- or genus-specific breakpoint values that may further increase the current complexity. Another problem associated with safety determinations of starter strains is that once a resistance phenotype and an associated resistance determinant have been identified, it becomes difficult to show that this determinant is not transferable, especially if the resistance gene is not located on a plasmid and no standard protocols for showing genetic transfer are available. Encountering those problems, the QPS system should allow leeway for the interpretations of results, especially when these relate to the methodology for resistance phenotype determinations, determinations of MIC breakpoints for certain genera, species, or strains, the nondeterminability of a genetic basis of a resistance phenotype and the transferability of resistance genes.