WorldWideScience

Sample records for fungal biological processes

  1. Systems biology of fungal infection

    Directory of Open Access Journals (Sweden)

    Fabian eHorn

    2012-04-01

    Full Text Available Elucidation of pathogenicity mechanisms of the most important human pathogenic fungi, Aspergillus fumigatus and Candida albicans, has gained great interest in the light of the steadily increasing number of cases of invasive fungal infections.A key feature of these infections is the interaction of the different fungal morphotypes with epithelial and immune effector cells in the human host. Because of the high level of complexity, it is necessary to describe and understand invasive fungal infection by taking a systems biological approach, i.e., by a comprehensive quantitative analysis of the non-linear and selective interactions of a large number of functionally diverse, and frequently multifunctional, sets of elements, e.g., genes, proteins, metabolites, which produce coherent and emergent behaviours in time and space. The recent advances in systems biology will now make it possible to uncover the structure and dynamics of molecular and cellular cause-effect relationships within these pathogenic interactions.We review current efforts to integrate omics and image-based data of host-pathogen interactions into network and spatio-temporal models. The modelling will help to elucidate pathogenicity mechanisms and to identify diagnostic biomarkers and potential drug targets for therapy and could thus pave the way for novel intervention strategies based on novel antifungal drugs and cell therapy.

  2. Fungal biology and agriculture: revisiting the field

    Science.gov (United States)

    Yarden, O.; Ebbole, D.J.; Freeman, S.; Rodriguez, R.J.; Dickman, M. B.

    2003-01-01

    Plant pathology has made significant progress over the years, a process that involved overcoming a variety of conceptual and technological hurdles. Descriptive mycology and the advent of chemical plant-disease management have been followed by biochemical and physiological studies of fungi and their hosts. The later establishment of biochemical genetics along with the introduction of DNA-mediated transformation have set the stage for dissection of gene function and advances in our understanding of fungal cell biology and plant-fungus interactions. Currently, with the advent of high-throughput technologies, we have the capacity to acquire vast data sets that have direct relevance to the numerous subdisciplines within fungal biology and pathology. These data provide unique opportunities for basic research and for engineering solutions to important agricultural problems. However, we also are faced with the challenge of data organization and mining to analyze the relationships between fungal and plant genomes and to elucidate the physiological function of pertinent DNA sequences. We present our perspective of fungal biology and agriculture, including administrative and political challenges to plant protection research.

  3. Fungal biology and agriculture: revisiting the field.

    Science.gov (United States)

    Yarden, O; Ebbole, D J; Freeman, S; Rodriguez, R J; Dickman, M B

    2003-10-01

    Plant pathology has made significant progress over the years, a process that involved overcoming a variety of conceptual and technological hurdles. Descriptive mycology and the advent of chemical plant-disease management have been followed by biochemical and physiological studies of fungi and their hosts. The later establishment of biochemical genetics along with the introduction of DNA-mediated transformation have set the stage for dissection of gene function and advances in our understanding of fungal cell biology and plant-fungus interactions. Currently, with the advent of high-throughput technologies, we have the capacity to acquire vast data sets that have direct relevance to the numerous subdisciplines within fungal biology and pathology. These data provide unique opportunities for basic research and for engineering solutions to important agricultural problems. However, we also are faced with the challenge of data organization and mining to analyze the relationships between fungal and plant genomes and to elucidate the physiological function of pertinent DNA sequences. We present our perspective of fungal biology and agriculture, including administrative and political challenges to plant protection research.

  4. Fungal genome sequencing: basic biology to biotechnology.

    Science.gov (United States)

    Sharma, Krishna Kant

    2016-08-01

    The genome sequences provide a first glimpse into the genomic basis of the biological diversity of filamentous fungi and yeast. The genome sequence of the budding yeast, Saccharomyces cerevisiae, with a small genome size, unicellular growth, and rich history of genetic and molecular analyses was a milestone of early genomics in the 1990s. The subsequent completion of fission yeast, Schizosaccharomyces pombe and genetic model, Neurospora crassa initiated a revolution in the genomics of the fungal kingdom. In due course of time, a substantial number of fungal genomes have been sequenced and publicly released, representing the widest sampling of genomes from any eukaryotic kingdom. An ambitious genome-sequencing program provides a wealth of data on metabolic diversity within the fungal kingdom, thereby enhancing research into medical science, agriculture science, ecology, bioremediation, bioenergy, and the biotechnology industry. Fungal genomics have higher potential to positively affect human health, environmental health, and the planet's stored energy. With a significant increase in sequenced fungal genomes, the known diversity of genes encoding organic acids, antibiotics, enzymes, and their pathways has increased exponentially. Currently, over a hundred fungal genome sequences are publicly available; however, no inclusive review has been published. This review is an initiative to address the significance of the fungal genome-sequencing program and provides the road map for basic and applied research.

  5. Structure and biological functions of fungal cerebrosides

    Directory of Open Access Journals (Sweden)

    Barreto-Bergter Eliana

    2004-01-01

    Full Text Available Ceramide monohexosides (CMHs, cerebrosides are glycosphingolipids composed of a hydrophobic ceramide linked to one sugar unit. In fungal cells, CMHs are very conserved molecules consisting of a ceramide moiety containing 9-methyl-4,8-sphingadienine in amidic linkage to 2-hydroxyoctadecanoic or 2-hydroxyhexadecanoic acids, and a carbohydrate portion consisting of one residue of glucose or galactose. 9-Methyl 4,8-sphingadienine-containing ceramides are usually glycosylated to form fungal cerebrosides, but the recent description of a ceramide dihexoside (CDH presenting phytosphingosine in Magnaporthe grisea suggests the existence of alternative pathways of ceramide glycosylation in fungal cells. Along with their unique structural characteristics, fungal CMHs have a peculiar subcellular distribution and striking biological properties. In Pseudallescheria boydii, Candida albicans, Cryptococcus neoformans, Aspergillus nidulans, A. fumigatus, and Schizophyllum commune, CMHs are apparently involved in morphological transitions and fungal growth. The elucidation of structural and functional aspects of fungal cerebrosides may therefore contribute to the design of new antifungal agents inhibiting growth and differentiation of pathogenic species.

  6. A fungal perspective on conservation biology.

    Science.gov (United States)

    Heilmann-Clausen, Jacob; Barron, Elizabeth S; Boddy, Lynne; Dahlberg, Anders; Griffith, Gareth W; Nordén, Jenni; Ovaskainen, Otso; Perini, Claudia; Senn-Irlet, Beatrice; Halme, Panu

    2015-02-01

    Hitherto fungi have rarely been considered in conservation biology, but this is changing as the field moves from addressing single species issues to an integrative ecosystem-based approach. The current emphasis on biodiversity as a provider of ecosystem services throws the spotlight on the vast diversity of fungi, their crucial roles in terrestrial ecosystems, and the benefits of considering fungi in concert with animals and plants. We reviewed the role of fungi in ecosystems and composed an overview of the current state of conservation of fungi. There are 5 areas in which fungi can be readily integrated into conservation: as providers of habitats and processes important for other organisms; as indicators of desired or undesired trends in ecosystem functioning; as indicators of habitats of conservation value; as providers of powerful links between human societies and the natural world because of their value as food, medicine, and biotechnological tools; and as sources of novel tools and approaches for conservation of megadiverse organism groups. We hope conservation professionals will value the potential of fungi, engage mycologists in their work, and appreciate the crucial role of fungi in nature. © 2014 Society for Conservation Biology.

  7. Fungal stress biology: a preface to the Fungal Stress Responses special edition.

    Science.gov (United States)

    Rangel, Drauzio E N; Alder-Rangel, Alene; Dadachova, Ekaterina; Finlay, Roger D; Kupiec, Martin; Dijksterhuis, Jan; Braga, Gilberto U L; Corrochano, Luis M; Hallsworth, John E

    2015-08-01

    There is currently an urgent need to increase global food security, reverse the trends of increasing cancer rates, protect environmental health, and mitigate climate change. Toward these ends, it is imperative to improve soil health and crop productivity, reduce food spoilage, reduce pesticide usage by increasing the use of biological control, optimize bioremediation of polluted sites, and generate energy from sustainable sources such as biofuels. This review focuses on fungi that can help provide solutions to such problems. We discuss key aspects of fungal stress biology in the context of the papers published in this Special Issue of Current Genetics. This area of biology has relevance to pure and applied research on fungal (and indeed other) systems, including biological control of insect pests, roles of saprotrophic fungi in agriculture and forestry, mycotoxin contamination of the food-supply chain, optimization of microbial fermentations including those used for bioethanol production, plant pathology, the limits of life on Earth, and astrobiology.

  8. Fungal biology: compiling genomes and exploiting them

    Energy Technology Data Exchange (ETDEWEB)

    Labbe, Jessy L [ORNL; Uehling, Jessie K [ORNL; Payen, Thibaut [INRA; Plett, Jonathan [University of Western Sydney, Australia

    2014-01-01

    The last 10 years have seen the cost of sequencing complete genomes decrease at an incredible speed. This has led to an increase in the number of genomes sequenced in all the fungal tree of life as well as a wide variety of plant genomes. The increase in sequencing has permitted us to study the evolution of organisms on a genomic scale. A number of talks during the conference discussed the importance of transposable elements (TEs) that are present in almost all species of fungi. These TEs represent an especially large percentage of genomic space in fungi that interact with plants. Thierry Rouxel (INRA, Nancy, France) showed the link between speciation in the Leptosphaeria complex and the expansion of TE families. For example in the Leptosphaeria complex, one species associated with oilseed rape has experienced a recent and massive burst of movement by a few TE families. The alterations caused by these TEs took place in discrete regions of the genome leading to shuffling of the genomic landscape and the appearance of genes specific to the species, such as effectors useful for the interactions with a particular plant (Rouxel et al., 2011). Other presentations showed the importance of TEs in affecting genome organization. For example, in Amanita different species appear to have been invaded by different TE families (Veneault-Fourrey & Martin, 2011).

  9. Ecological Complexity and the Success of Fungal Biological Control Agents

    Directory of Open Access Journals (Sweden)

    Guy R. Knudsen

    2014-01-01

    Full Text Available Fungal biological control agents against plant pathogens, especially those in soil, operate within physically, biologically, and spatially complex systems by means of a variety of trophic and nontrophic interspecific interactions. However, the biocontrol agents themselves are also subject to the same types of interactions, which may reduce or in some cases enhance their efficacy against target plant pathogens. Characterization of these ecologically complex systems is challenging, but a number of tools are available to help unravel this complexity. Several of these tools are described here, including the use of molecular biology to generate biocontrol agents with useful marker genes and then to quantify these agents in natural systems, epifluorescence and confocal laser scanning microscopy to observe their presence and activity in situ, and spatial statistics and computer simulation modeling to evaluate and predict these activities in heterogeneous soil habitats.

  10. Branching processes in biology

    CERN Document Server

    Kimmel, Marek

    2015-01-01

    This book provides a theoretical background of branching processes and discusses their biological applications. Branching processes are a well-developed and powerful set of tools in the field of applied probability. The range of applications considered includes molecular biology, cellular biology, human evolution and medicine. The branching processes discussed include Galton-Watson, Markov, Bellman-Harris, Multitype, and General Processes. As an aid to understanding specific examples, two introductory chapters, and two glossaries are included that provide background material in mathematics and in biology. The book will be of interest to scientists who work in quantitative modeling of biological systems, particularly probabilists, mathematical biologists, biostatisticians, cell biologists, molecular biologists, and bioinformaticians. The authors are a mathematician and cell biologist who have collaborated for more than a decade in the field of branching processes in biology for this new edition. This second ex...

  11. Biological control of wood decay against fungal infection.

    Science.gov (United States)

    Susi, Petri; Aktuganov, Gleb; Himanen, Juha; Korpela, Timo

    2011-07-01

    Wood (timber) is an important raw material for various purposes, and having biological composition it is susceptible to deterioration by various agents. The history of wood protection by impregnation with synthetic chemicals is almost two hundred years old. However, the ever-increasing public concern and the new environmental regulations on the use of chemicals have created the need for the development and the use of alternative methods for wood protection. Biological wood protection by antagonistic microbes alone or in combination with (bio)chemicals, is one of the most promising ways for the environmentally sound wood protection. The most effective biocontrol antagonists belong to genera Trichoderma, Gliocladium, Bacillus, Pseudomonas and Streptomyces. They compete for an ecological niche by consuming available nutrients as well as by secreting a spectrum of biochemicals effective against various fungal pathogens. The biochemicals include cell wall-degrading enzymes, siderophores, chelating iron and a wide variety of volatile and non-volatile antibiotics. In this review, the nature and the function of the antagonistic microbes in wood protection are discussed.

  12. PCR-SSCP-based reconstruction of the original fungal flora of heat-processed meat products.

    Science.gov (United States)

    Dorn-In, Samart; Hölzel, Christina S; Janke, Tobias; Schwaiger, Karin; Balsliemke, Joachim; Bauer, Johann

    2013-03-01

    Food processing of spoiled meat is prohibited by law, since it is a deception and does not comply with food safety aspects. In general, spoilage of meat is mostly caused by bacteria. However, a high contamination level of fungi could be also found in some meat or meat products with certain preserving conditions. In case that unhygienic meat is used to produce heat processed products, the microorganisms will be deactivated by heat, so that they cannot be detected by a standard cultivation method. Therefore, this study aimed to develop and apply a molecular biological method--polymerase chain reaction and single strand conformation polymorphism (PCR-SSCP)--to reconstruct the original fungal flora of heat processed meat. Twenty primer pairs were tested for their specificity for fungal DNA. Since none of them fully complied with all study criteria (such as high specificity and sensitivity for fungal DNA; suitability of the products for PCR-SSCP) in the matrix "meat", we designed a new reverse primer, ITS5.8R. The primer pair ITS1/ITS5.8R amplified DNA from all tested fungal species, but not DNA from meat-producing animals or from ingredients of plant origin (spices). For the final test, 32 DNA bands in acrylamide gel from 15 meat products and 1 soy sauce were sequenced-all originating from fungal species, which were, in other studies, reported to contaminate meat e.g. Alternaria alternata, Aureobasidium pullulans, Candida rugosa, C. tropicalis, C. zeylanoides, Eurotium amstelodami and Pichia membranifaciens, and/or spices such as Botrytis aclada, Guignardia mangiferae, Itersonilia perplexans, Lasiodiplodia theobromae, Lewia infectoria, Neofusicoccum parvum and Pleospora herbarum. This confirms the suitability of PCR-SSCP to specifically detect fungal DNA in heat processed meat products, and thus provides an overview of fungal species contaminating raw material such as meat and spices. Copyright © 2013 Elsevier B.V. All rights reserved.

  13. 2012 CELLULAR & MOLECULAR FUNGAL BIOLOGY GORDON RESEARCH CONFERENCE, JUNE 17 - 22, 2012

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    Judith Berman

    2012-06-22

    The Gordon Research Conference on CELLULAR & MOLECULAR FUNGAL BIOLOGY was held at Holderness School, Holderness New Hampshire, June 17 - 22, 2012. The 2012 Gordon Conference on Cellular and Molecular Fungal Biology (CMFB) will present the latest, cutting-edge research on the exciting and growing field of molecular and cellular aspects of fungal biology. Topics will range from yeast to filamentous fungi, from model systems to economically important organisms, and from saprophytes and commensals to pathogens of plants and animals. The CMFB conference will feature a wide range of topics including systems biology, cell biology and morphogenesis, organismal interactions, genome organisation and regulation, pathogenesis, energy metabolism, biomass production and population genomics. The Conference was well-attended with 136 participants. Gordon Research Conferences does not permit publication of meeting proceedings.

  14. 2012 Gordon Research Conference on Cellular and Molecular Fungal Biology, Final Progress Report

    Energy Technology Data Exchange (ETDEWEB)

    Berman, Judith [Univ. of Minnesota, Minneapolis, MN (United States)

    2012-06-22

    The Gordon Research Conference on Cellular and Molecular Fungal Biology was held at Holderness School, Holderness New Hampshire, June 17 - 22, 2012. The 2012 Gordon Conference on Cellular and Molecular Fungal Biology (CMFB) will present the latest, cutting-edge research on the exciting and growing field of molecular and cellular aspects of fungal biology. Topics will range from yeast to filamentous fungi, from model systems to economically important organisms, and from saprophytes and commensals to pathogens of plants and animals. The CMFB conference will feature a wide range of topics including systems biology, cell biology and morphogenesis, organismal interactions, genome organisation and regulation, pathogenesis, energy metabolism, biomass production and population genomics. The Conference was well-attended with 136 participants. Gordon Research Conferences does not permit publication of meeting proceedings.

  15. Thermodynamics of Biological Processes

    Science.gov (United States)

    Garcia, Hernan G.; Kondev, Jane; Orme, Nigel; Theriot, Julie A.; Phillips, Rob

    2012-01-01

    There is a long and rich tradition of using ideas from both equilibrium thermodynamics and its microscopic partner theory of equilibrium statistical mechanics. In this chapter, we provide some background on the origins of the seemingly unreasonable effectiveness of ideas from both thermodynamics and statistical mechanics in biology. After making a description of these foundational issues, we turn to a series of case studies primarily focused on binding that are intended to illustrate the broad biological reach of equilibrium thinking in biology. These case studies include ligand-gated ion channels, thermodynamic models of transcription, and recent applications to the problem of bacterial chemotaxis. As part of the description of these case studies, we explore a number of different uses of the famed Monod–Wyman–Changeux (MWC) model as a generic tool for providing a mathematical characterization of two-state systems. These case studies should provide a template for tailoring equilibrium ideas to other problems of biological interest. PMID:21333788

  16. Assessment of home environments with a fungal index using hydrophilic and xerophilic fungi as biologic sensors.

    Science.gov (United States)

    Abe, K

    2012-06-01

    tested, indicating the type of fungi that would contaminate the site. A fungal index would be a good tool for detecting dampness that induces fungal contamination, which has adverse effects on human health. Evaluations of indoor climates would provide information useful to building owners, builders, designers, advisers, medical practitioners, and so on. Selection of the most suitable insulation systems in various buildings under different climates or evaluations of the drying process in water-damaged buildings could also be possible using fungal detectors and measurements of fungal indices. © 2011 John Wiley & Sons A/S.

  17. Mathematical modeling of biological processes

    CERN Document Server

    Friedman, Avner

    2014-01-01

    This book on mathematical modeling of biological processes includes a wide selection of biological topics that demonstrate the power of mathematics and computational codes in setting up biological processes with a rigorous and predictive framework. Topics include: enzyme dynamics, spread of disease, harvesting bacteria, competition among live species, neuronal oscillations, transport of neurofilaments in axon, cancer and cancer therapy, and granulomas. Complete with a description of the biological background and biological question that requires the use of mathematics, this book is developed for graduate students and advanced undergraduate students with only basic knowledge of ordinary differential equations and partial differential equations; background in biology is not required. Students will gain knowledge on how to program with MATLAB without previous programming experience and how to use codes in order to test biological hypothesis.

  18. Biological control of greenhouse whitefly (Trialeurodes vaporariorum) with fungal insecticides.

    Science.gov (United States)

    Siongers, C; Coosemans, J

    2003-01-01

    The influence of the biological insecticide Botanigard (Beauveria bassiana) on different developmental stages of the greenhouse whitefly (Trialeurodes vaporariorum) has been tested and compared with the influence of Preferal (Paecilomyces fumosoroseus), also a biological product. Six experiments were set up to test the two products on eggs, which were four and seven days old, on larvae of the first, second/third and fourth stage and to test the effect on egg-deposition. These experiments were all conducted on cucumber. Egg-deposition was limited to a small area on the leaf by using leaf cages. To evaluate these tests the number of eggs or larvae developed to the next stage has been counted and compared to the total amount of eggs or larvae on the leaves. The results revealed that Botanigard has an effect on the larval stages. The first larval stage is most sensitive; the next stages have a decreasing sensitivity. There was no influence on the hatching of the eggs, but a treatment short before the hatching could have a residual effect on the new nymphs. When the treatment with Botanigard is performed shortly before a moult or a fungicide treatment, the efficacy of the product decreases significantly. The influence of Preferal on the greenhouse whitefly is, under the same circumstances, less obvious.

  19. Sporothrix schenckii complex biology: environment and fungal pathogenicity.

    Science.gov (United States)

    Téllez, M D; Batista-Duharte, A; Portuondo, D; Quinello, C; Bonne-Hernández, R; Carlos, I Z

    2014-11-01

    Sporothrix schenckii is a complex of various species of fungus found in soils, plants, decaying vegetables and other outdoor environments. It is the aetiological agent of sporotrichosis in humans and several animals. Humans and animals can acquire the disease through traumatic inoculation of the fungus into subcutaneous tissue. Despite the importance of sporotrichosis, it being currently regarded as an emergent disease in several countries, the factors driving its increasing medical importance are still largely unknown. There have only been a few studies addressing the influence of the environment on the virulence of these pathogens. However, recent studies have demonstrated that adverse conditions in its natural habitats can trigger the expression of different virulence factors that confer survival advantages both in animal hosts and in the environment. In this review, we provide updates on the important advances in the understanding of the biology of Spor. schenckii and the modification of its virulence linked to demonstrated or putative environmental factors.

  20. Relationships between the stereochemistry and biological activity of fungal phytotoxins.

    Science.gov (United States)

    Evidente, Antonio; Andolfi, Anna; Cimmino, Alessio

    2011-10-01

    Toxins produced by phytopathogenic fungi assume great importance because of their involvement in several plant diseases. Although such pathogens are known to have seriously damaged crops, forest, and environmental resources, they represent a very important tool to develop new environmentally friendly herbicides and fungicides. This review deals with the relationships between the biological activity of some phytotoxins produced by pathogenic fungi for major forest plants and for damaging weeds and their stereochemistry. In particular, the methods used to determine their relative and/or absolute configuration will be illustrated. These include the application of Mosher's and Murata's methods, X-ray diffractometric analysis, circular dichroism, and the use of computational methods to determine the theoretical optical rotatory power as well as the CD spectrum. The importance of determining the absolute configuration to achieve the total synthesis of some phytotoxins, interesting for their potential practical application, is also discussed.

  1. Dissecting the fungal biology of Bipolaris papendorfii: from phylogenetic to comparative genomic analysis

    OpenAIRE

    Kuan, Chee Sian; Yew, Su Mei; Toh, Yue Fen; Chan, Chai Ling; Ngeow, Yun Fong; Lee, Kok Wei; Na, Shiang Ling; Yee, Wai-Yan; Hoh, Chee-Choong; Ng, Kee Peng

    2015-01-01

    Bipolaris papendorfii has been reported as a fungal plant pathogen that rarely causes opportunistic infection in humans. Secondary metabolites isolated from this fungus possess medicinal and anticancer properties. However, its genetic fundamental and basic biology are largely unknown. In this study, we report the first draft genome sequence of B. papendorfii UM 226 isolated from the skin scraping of a patient. The assembled 33.4 Mb genome encodes 11,015 putative coding DNA sequences, of which...

  2. Soil-inhabiting fungal community composition as qualitative indicator of C metabolism processes

    Science.gov (United States)

    Manici, L.; Ciavatta, C.; Caputo, F.

    2009-04-01

    Although fungi represent the greater part of soil microbial biomass, they play an important role in macro-aggregate formation and their carbon (C) assimilation efficiency is markedly higher than that of bacteria (Bailey et al., 2002), they have not yet been widely used as soil biological indicators. The reason is mainly due to the difficulties in application of molecular analysis tools due to limited availability of reference sequence of fungal strains in DNA database and to the low concentration of fungal DNA in soil and in isolating, enumerating and identifying groups of fungi differing for their functioning in soil and for biological characteristics. The presence of Ascomycetes and Basidiomycetes as the two main groups of soil-inhabiting fungi were investigated in four different cropping systems. The soil DNA of soil samples coming from twenty sites (five sites for each system), collected in two cropping systems in northern (soil organic matter - SOM content varying from 0.8 to 1.4 %) and two in southern Italy (SOM from 1.4 to 2.3%), was amplified using Ascomycete-specific primer ITS1F - ITS4A (Larena et al., 1999) and Basidiomycete-specific primer ITS1F -ITS4B (Gardes and Bruns, 1993). On the basis of soil DNA amplified with specific primers, Ascomycetes were much more represented than Basidiomycetes in the cultivated top soil. Basidiomycetes are usually reported to account for more than half of the fungal biomass in undisturbed soils. However the low ratio of Basidiomycete DNA to soil fungal DNA observed in this study could be a feature of soil fungal communities in arable soil affected by desertification problems as those of some Italian cropping systems mainly in Mediterranean area. This phenomenon could be due to soil tillage, which is well known to deeply reduce fungal biomass and to continuous incorporation into the soil of herbaceous crop residues. In fact, Ascomycetes decompose holocellulose in preference to lignin (Oslko & Takeda, 2002) and their

  3. Fungal biological control agents for integrated management of Culicoides spp. (Diptera: Ceratopogonidae of livestock

    Directory of Open Access Journals (Sweden)

    B. W. Narladkar

    2015-02-01

    Full Text Available Aim: Entomopathogenic fungi Metarhizium anisopliae and Beauveria bassiana had wide host range against insects and hence these are being exploited as fungal bio-pesticide on a large scale. Both fungi are proved pesticides against many crop pests and farmers are well acquainted with their use on the field. Thus, research was aimed to explore the potency of these fungal spores against larval and adult Culicoides midges, a pest of livestock. Materials and Methods: In-vitro testing of both fungal biological control agents was undertaken in Petri dishes against field collected Culicoides larvae, while in plastic beakers against field collected blood-engorged female Culicoides midges. In-vivo testing was undertaken by spraying requisite concentration of fungal spores on the drainage channel against larvae and resting sites of adult Culicoides midges in the cattle shed. Lethal concentration 50 (LC50 values and regression equations were drawn by following probit analysis using SPSS statistical computerized program. Results: The results of this study revealed LC50 values of 2692 mg and 3837 mg (108 cfu/g for B. bassiana and M. anisopliae, respectively, against Culicoides spp. larvae. Death of Culicoides larvae due to B. bassiana showed greenish coloration in the middle of the body with head and tail showed intense blackish changes, while infection of M. anisopliae resulted in death of Culicoides larvae with greenish and blackish coloration of body along with total destruction, followed by desquamation of intestinal channel. The death of adult Culicoides midges were caused by both the fungi and after death growth of fungus were very well observed on the dead cadavers proving the efficacy of the fungus. Conclusion: Preliminary trials with both funguses (M. anisopliae, B. bassiana showed encouraging results against larvae and adults of Culicoides spp. Hence, it was ascertained that, these two fungal molecules can form a part of biological control and

  4. 2010 CELL AND MOLECULAR FUNGAL BIOLOGY GORDON RESEARCH CONFERENCE, JUNE 13-18, 2010

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    Michelle Momany

    2010-06-18

    The Cellular and Molecular Fungal Biology Conference provides a forum for presentation of the latest advances in fungal research with an emphasis on filamentous fungi. This open-registration scientific meeting brings together the leading scientists from academia, government and industry to discuss current research results and future directions at Holderness School, an outstanding venue for scientific interaction. A key objective of the conference is to foster interaction among scientists working on model fungi such as Saccharomyces cerevisiae, Schizosaccharomyces pombe, Neurospora crassa and Aspergillus nidulans and scientists working on a variety of filamentous fungi whose laboratory tractability is often inversely proportional to their medical, industrial or ecological importance. Sessions will be devoted to Systems Biology, Fungi and Cellulosic Biomass, Small RNAs, Population Genomics, Symbioses, Pathogenesis, Membrane Trafficking and Polarity, and Cytoskeleton and Motors. A session will also be devoted to hot topics picked from abstracts. The CMFB conference provides a unique opportunity to examine the breadth of fungal biology in a small meeting format that encourages in-depth discussion among the attendees.

  5. Crossover fungal pathogens: the biology and pathogenesis of fungi capable of crossing kingdoms to infect plants and humans.

    Science.gov (United States)

    Gauthier, Gregory M; Keller, Nancy P

    2013-12-01

    The outbreak of fungal meningitis associated with contaminated methylprednisolone acetate has thrust the importance of fungal infections into the public consciousness. The predominant pathogen isolated from clinical specimens, Exserohilum rostratum (teleomorph: Setosphaeria rostrata), is a dematiaceous fungus that infects grasses and rarely humans. This outbreak highlights the potential for fungal pathogens to infect both plants and humans. Most crossover or trans-kingdom pathogens are soil saprophytes and include fungi in Ascomycota and Mucormycotina phyla. To establish infection, crossover fungi must overcome disparate, host-specific barriers, including protective surfaces (e.g. cuticle, skin), elevated temperature, and immune defenses. This review illuminates the underlying mechanisms used by crossover fungi to cause infection in plants and mammals, and highlights critical events that lead to human infection by these pathogens. Several genes including veA, laeA, and hapX are important in regulating biological processes in fungi important for both invasive plant and animal infections. Copyright © 2013 Elsevier Inc. All rights reserved.

  6. Stochastic processes in cell biology

    CERN Document Server

    Bressloff, Paul C

    2014-01-01

    This book develops the theory of continuous and discrete stochastic processes within the context of cell biology.  A wide range of biological topics are covered including normal and anomalous diffusion in complex cellular environments, stochastic ion channels and excitable systems, stochastic calcium signaling, molecular motors, intracellular transport, signal transduction, bacterial chemotaxis, robustness in gene networks, genetic switches and oscillators, cell polarization, polymerization, cellular length control, and branching processes. The book also provides a pedagogical introduction to the theory of stochastic process – Fokker Planck equations, stochastic differential equations, master equations and jump Markov processes, diffusion approximations and the system size expansion, first passage time problems, stochastic hybrid systems, reaction-diffusion equations, exclusion processes, WKB methods, martingales and branching processes, stochastic calculus, and numerical methods.   This text is primarily...

  7. Using molecular biology to study mycorrhizal fungal community ecology: Limits and perspectives.

    Science.gov (United States)

    Chagnon, Pierre-Luc; Bainard, Luke D

    2015-01-01

    Molecular tools have progressively replaced morphological approaches to characterize microbial communities in nature. Arbuscular mycorrhizal (AM) fungi are no exception to this rule. Yet, one challenge posed by these symbionts is that they colonize simultaneously both plant roots and soil, which complicates their detection and quantification. In most studies conducted to date, AM fungal communities have been characterized from roots only, soil only or spores only. Here, we discuss the pitfalls associated to drawing ecological inferences using such datasets. We also conclude by arguing that molecular biology will contribute most to advance knowledge in AM fungal ecology if it is integrated into broader perspectives taking into account the natural history of these organisms. This calls for a better merging of molecular and morphological approaches, and the establishment of intensive, long-term research programs.

  8. An intensive search for promising fungal biological control agents of ticks, particularly Rhipicephalus microplus.

    Science.gov (United States)

    Fernandes, Everton K K; Angelo, Isabele C; Rangel, Drauzio E N; Bahiense, Thiago C; Moraes, Aurea M L; Roberts, Donald W; Bittencourt, Vânia R E P

    2011-12-15

    Entomopathogenic fungi have been investigated worldwide as promising biological control agents of the cattle tick Rhipicephalus microplus. The current study evaluates the virulence of several fungal isolates to R. microplus larva in the laboratory as part of an effort to identify isolates with promise for effective biocontrol of R. microplus in the field. Sixty fungal isolates, encompassing 5 Beauveria spp. and 1 Engyodontium albus (=Beauveria alba), were included in this study. In addition to bioassays, the isolates were characterized morphologically and investigated as to their potential for conidial mass production. These findings were correlated with previous reports on the same fungal isolates of their natural UV-B tolerance (Fernandes et al., 2007), thermotolerance and cold activity (Fernandes et al., 2008), and genotypes (Fernandes et al., 2009). R. microplus larvae obtained from artificially infested calves were less susceptible to Beauveria bassiana infection than ticks acquired from naturally infested cattle from a different location. Isolates CG 464, CG 500 and CG 206 were among the most virulent Beauveria isolates tested in this study. All fungal isolates presented morphological features consistent with their species descriptions. Of the 53 B. bassiana isolates, five (CG 481, CG 484, CG 206, CG 235 and CG 487) had characteristics that qualified them as promising candidates for biological control agents of R. microplus, viz., mean LC(50) between 10(7) and 10(8)conidiaml(-1); produced 5000 conidia or more on 60mm(2) surface area of PDAY medium; and, in comparison to untreated (control) conidia, had the best conidial tolerances to UV-B (7.04 kJ m(-2)) and heat (45°C, 2h) of 50% or higher, and conidial cold (5°C, 15d) activity (mycelial growth) higher than 60%. The current study of 60 Beauveria spp. isolates, therefore, singles out a few (five) with high potential for controlling ticks under field conditions.

  9. [Indoor fungal exposure: What impact on clinical and biological status regarding Aspergillus during cystic fibrosis].

    Science.gov (United States)

    Pricope, D; Deneuville, E; Frain, S; Chevrier, S; Belaz, S; Roussey, M; Gangneux, J-P

    2015-06-01

    The sources of exposure during diseases due to Aspergillus fungi in cystic fibrosis patients are still poorly explored. We assessed home fungal exposure in patients suffering from cystic fibrosis and analysed its impact on the presence of Aspergillus biological markers, the colonisation of airways, as well as the sensitization and Aspergillus serology. Between March 2012 and August 2012, 34 patients benefited from a visit performed by a home environment medical adviser including sampling for mycological analysis. The number of colonies of Aspergillus was not significantly different in the various sampling sites (P=0.251), but the number of non-Aspergillus colonies was much higher in the kitchen (P=0.0045). Subsequently, home fungal exposure was compared between the groups "absence of Aspergillus-related markers" and "presence of Aspergillus-related markers". Home exposure to Aspergillus (P=0.453) and non-Aspergillus (P=0.972) flora was not significant between the 2 groups. Within this series of 34 patients that should be expanded, we note an absence of clear relationship between home exposure and the Aspergillus-linked markers in patients suffering from cystic fibrosis. This result should be taken into account regarding too restrictive hygiene advices provided to families, given the fact that fungal exposure can also results from activities performed away from home. Copyright © 2015 Elsevier Masson SAS. All rights reserved.

  10. Effect of radiation and fungal treatment on ligno celluloses and their biological activity

    Energy Technology Data Exchange (ETDEWEB)

    Lam, N.D.; Nagasawa, Naotsugu; Kume, Tamikazu E-mail: kume@taka.jaeri.go.jp

    2000-10-01

    Effects of high-dose irradiation and fungal treatment on some kinds of lignocellulose material were investigated in order to assess the potential effects of bioactive substances on plants. Each treatment and combination of treatments significantly altered the components of lignocellulose materials. Irradiation strongly affected all plant materials, causing a series of changes in physico-chemical parameters such as solubilization during solvent extraction and losses of fibre components. By these degradations, certain biologically active substances formed and acted as antagonists of auxin-induced growth.

  11. Molecular Processes in Biological Thermosensation

    Directory of Open Access Journals (Sweden)

    I. Digel

    2008-01-01

    Full Text Available Since thermal gradients are almost everywhere, thermosensation could represent one of the oldest sensory transduction processes that evolved in organisms. There are many examples of temperature changes affecting the physiology of living cells. Almost all classes of biological macromolecules in a cell (nucleic acids, lipids, proteins can present a target of the temperature-related stimuli. This review discusses some features of different classes of temperature-sensing molecules as well as molecular and biological processes that involve thermosensation. Biochemical, structural, and thermodynamic approaches are applied in the paper to organize the existing knowledge on molecular mechanisms of thermosensation. Special attention is paid to the fact that thermosensitive function cannot be assigned to any particular functional group or spatial structure but is rather of universal nature. For instance, the complex of thermodynamic, structural, and functional features of hemoglobin family proteins suggests their possible accessory role as “molecular thermometers”.

  12. Dissecting the fungal biology of Bipolaris papendorfii: from phylogenetic to comparative genomic analysis.

    Science.gov (United States)

    Kuan, Chee Sian; Yew, Su Mei; Toh, Yue Fen; Chan, Chai Ling; Ngeow, Yun Fong; Lee, Kok Wei; Na, Shiang Ling; Yee, Wai-Yan; Hoh, Chee-Choong; Ng, Kee Peng

    2015-06-01

    Bipolaris papendorfii has been reported as a fungal plant pathogen that rarely causes opportunistic infection in humans. Secondary metabolites isolated from this fungus possess medicinal and anticancer properties. However, its genetic fundamental and basic biology are largely unknown. In this study, we report the first draft genome sequence of B. papendorfii UM 226 isolated from the skin scraping of a patient. The assembled 33.4 Mb genome encodes 11,015 putative coding DNA sequences, of which, 2.49% are predicted transposable elements. Multilocus phylogenetic and phylogenomic analyses showed B. papendorfii UM 226 clustering with Curvularia species, apart from other plant pathogenic Bipolaris species. Its genomic features suggest that it is a heterothallic fungus with a putative unique gene encoding the LysM-containing protein which might be involved in fungal virulence on host plants, as well as a wide array of enzymes involved in carbohydrate metabolism, degradation of polysaccharides and lignin in the plant cell wall, secondary metabolite biosynthesis (including dimethylallyl tryptophan synthase, non-ribosomal peptide synthetase, polyketide synthase), the terpenoid pathway and the caffeine metabolism. This first genomic characterization of B. papendorfii provides the basis for further studies on its biology, pathogenicity and medicinal potential.

  13. A pilot investigation into associations between indoor airborne fungal and non-biological particle concentrations in residential houses in Brisbane, Australia.

    Science.gov (United States)

    Hargreaves, Megan; Parappukkaran, Sandhya; Morawska, Lidia; Hitchins, Jane; He, Congrong; Gilbert, Dale

    2003-08-01

    Indoor air contains a complex mixture of bioaerosols such as fungi, bacteria and allergens, as well as non-biological particles including products from various combustion processes. To date little work has been done to investigate the interactions and associations between particles of biological and non-biological origin, however, any occurring interactions could affect pollutant behaviour in the air and ultimately the effect they have on health. The aim of this work was to examine associations between the concentration levels of airborne particles and fungi measured in 14 residential suburban houses in Brisbane. The most frequently isolated fungal genus was Cladosporium, Curvularia, Alternaria, Fusarium and Penicillium. The average outdoor and indoor (living room) concentrations of fungal colony forming units were 1133+/-759 and 810+/-389, respectively. Average outdoor and indoor (normal ventilation) concentrations of submicrometre and supermicrometre particles were 23.8 x 10(3) and 21.7 x 10(3) (particles/cm(3)), 1.78 and 1.74 (particles/cm(3)), respectively. The study showed that no statistically significant associations between the fungal spore and submicrometre particle concentrations or PM(2.5) were present, while a weak but statistically significant relationship was found between fungal and supermicrometre particle concentrations (for the outdoors R(2)=0.4, P=0.03 and for a living room R(2)=0.3, P=0.04). A similarity in behaviour between the submicrometre particle and fungal spore concentrations was that the fungal spore concentrations were related directly to the distance from the source (a nearby park), in a very similar way in which the submicrometre particles originating from vehicle emissions from a road, were dependent on the distance to the road. In the immediate proximity to the park, fungal concentrations rose up to approximately 3100 CFU/m(3), whereas for houses more than 150 m away from the park the concentrations of fungi were below 1000 CFU/m(3

  14. Evaluation of a fungal collection as certified reference material producer and as a biological resource center

    Directory of Open Access Journals (Sweden)

    Tatiana Forti

    2016-06-01

    Full Text Available Abstract Considering the absence of standards for culture collections and more specifically for biological resource centers in the world, in addition to the absence of certified biological material in Brazil, this study aimed to evaluate a Fungal Collection from Fiocruz, as a producer of certified reference material and as Biological Resource Center (BRC. For this evaluation, a checklist based on the requirements of ABNT ISO GUIA34:2012 correlated with the ABNT NBR ISO/IEC17025:2005, was designed and applied. Complementing the implementation of the checklist, an internal audit was performed. An evaluation of this Collection as a BRC was also conducted following the requirements of the NIT-DICLA-061, the Brazilian internal standard from Inmetro, based on ABNT NBR ISO/IEC 17025:2005, ABNT ISO GUIA 34:2012 and OECD Best Practice Guidelines for BRCs. This was the first time that the NIT DICLA-061 was applied in a culture collection during an internal audit. The assessments enabled the proposal for the adequacy of this Collection to assure the implementation of the management system for their future accreditation by Inmetro as a certified reference material producer as well as its future accreditation as a Biological Resource Center according to the NIT-DICLA-061.

  15. A software pipeline for processing and identification of fungal ITS sequences

    Directory of Open Access Journals (Sweden)

    Kristiansson Erik

    2009-01-01

    Full Text Available Abstract Background Fungi from environmental samples are typically identified to species level through DNA sequencing of the nuclear ribosomal internal transcribed spacer (ITS region for use in BLAST-based similarity searches in the International Nucleotide Sequence Databases. These searches are time-consuming and regularly require a significant amount of manual intervention and complementary analyses. We here present software – in the form of an identification pipeline for large sets of fungal ITS sequences – developed to automate the BLAST process and several additional analysis steps. The performance of the pipeline was evaluated on a dataset of 350 ITS sequences from fungi growing as epiphytes on building material. Results The pipeline was written in Perl and uses a local installation of NCBI-BLAST for the similarity searches of the query sequences. The variable subregion ITS2 of the ITS region is extracted from the sequences and used for additional searches of higher sensitivity. Multiple alignments of each query sequence and its closest matches are computed, and query sequences sharing at least 50% of their best matches are clustered to facilitate the evaluation of hypothetically conspecific groups. The pipeline proved to speed up the processing, as well as enhance the resolution, of the evaluation dataset considerably, and the fungi were found to belong chiefly to the Ascomycota, with Penicillium and Aspergillus as the two most common genera. The ITS2 was found to indicate a different taxonomic affiliation than did the complete ITS region for 10% of the query sequences, though this figure is likely to vary with the taxonomic scope of the query sequences. Conclusion The present software readily assigns large sets of fungal query sequences to their respective best matches in the international sequence databases and places them in a larger biological context. The output is highly structured to be easy to process, although it still needs

  16. First syntheses of the biologically active fungal metabolites pestalotiopsones A, B, C and F.

    Science.gov (United States)

    Beekman, Andrew Michael; Castillo Martinez, Edwin; Barrow, Russell Allan

    2013-02-21

    A synthetic approach accessing the pestalotiopsones, fungal chromones possessing a rare skeletal subtype, is reported for the first time. The synthesis of pestalotiopsone A (1) has been achieved in 7 linear steps (28%), from commercially available 3,5-dimethoxybenzoic acid and subsequently the first syntheses of pestalotiopsone B (2), C (3) and F (4) were performed utilising this chemistry. The key steps include a newly described homologation of a substituted benzoic acid to afford phenylacetate derivatives utilising Birch reductive alkylation conditions, a microwave mediated chromanone formation proceeding through an oxa-Michael cyclisation, and an IBX induced dehydrogenation to the desired chromone skeleton. The synthetic natural products were completely characterised for the first time, confirming their structures and their biological activities evaluated against a panel of bacterial pathogens.

  17. Symbiotic grasses: A review of basic biology of forage grass fungal endophytes

    Science.gov (United States)

    The fungal endophytes associated with grasses are the fundamental reason for the basic successes of several pasture grasses, notable tall fescues, and perennial ryegrass. Tall fescue and perennial ryegrass fungal endophytes, Neotyphodium coenophialum and N. lolii, respectively, and their relatives ...

  18. Fungal life-styles and ecosystem dynamics: biological aspects of plant pathogens, plant endophytes and saprophytes

    Science.gov (United States)

    Rodriguez, R.J.; Redman, R.S.

    1997-01-01

    This chapter discusses various biochemical, genetic, ecological, and evolutionary aspects of fungi that express either symbiotic or saprophytic life-styles. An enormous pool of potential pathogens exists in both agricultural and natural ecosystems, and virtually all plant species are susceptible to one or more fungal pathogens. Fungal pathogens have the potential to impact on the genetic structure of populations of individual plant species, the composition of plant communities and the process of plant succession. Endophytic fungi exist for at least part of their life cycles within the tissues of a plant host. This group of fungi is distinguished from plant pathogens because they do not elicit significant disease symptoms. However, endophytes do maintain the genetic and biochemical mechanisms required for infection and colonization of plant hosts. Fungi that obtain chemical nutrients from dead organic matter are known as saprophytes and are critical to the dynamics and resilience of ecosystems. There are two modes of saprophytic growth: one in which biomolecules that are amenable to transport across cell walls and membranes are directly absorbed, and another in which fungi must actively convert complex biopolymers into subunit forms amenable to transportation into cells. Regardless of life-style, fungi employ similar biochemical mechanisms for the acquisition and conversion of nutrients into complex biomolecules that are necessary for vegetative growth, production and dissemination of progeny, organismal competition, and survival during periods of nutrient deprivation or environmental inclemency.

  19. Overproduction and purification of biologically active native fungal alpha-sarcin in Escherichia coli.

    Science.gov (United States)

    Lacadena, J; Martínez del Pozo, A; Barbero, J L; Mancheño, J M; Gasset, M; Oñaderra, M; López-Otín, C; Ortega, S; García, J; Gavilanes, J G

    1994-05-03

    An efficient system was developed to produce, in Escherichia coli, large amounts of native alpha-sarcin (alpha Sar), a cytotoxin from the mold Aspergillus giganteus. The protein has been purified to homogeneity with a yield of 1.5 micrograms/ml of original culture. The constructed expression vector (pINPG alpha S) is based on the synthesis of a fusion protein between alpha Sar and a modified version of the OmpA signal peptide. This peptide seems to favour the postranslational processing of the fusion protein. The purified recombinant alpha-sarcin (re-alpha Sar) is structurally identical to the mature fungal protein according to the following criteria: N-terminal amino acid (aa) sequence, aa composition, electrophoretic mobility, chromatographic behaviour, immunoreactivity and spectroscopic features. Indeed, the recombinant protein recovered is completely functional, since it cleaves, in vitro, eukaryotic rRNA and it is able to interact with phospholipid vesicles with the same specificity as the native fungal alpha Sar.

  20. Biological Action of Plant Extracts on a Fungal Plant Biostimulant Strain of Trichoderma Viride

    Directory of Open Access Journals (Sweden)

    Şesan Tatiana Eugenia

    2015-11-01

    Full Text Available The antifungal activity of nine plant extracts manufactured by Hofigal Import Export S.A. Romania against the biocontrol fungal agent Trichoderma viride Pers. (isolate Tv 82 was assessed in vitro for the first time in Romania. In general, the development (mycelial growth and sporulation was not inhibited by the six plant extracts (Satureja hortensis, Achillea millefolium, Allium sativum, Mentha sp., Hyssopus officinalis, Artemisia dracunculus 'Sativa', with three exceptions (Rosmarinus officinalis, Valeriana officinalis, Tagetes patula, applied in a concentration of 20%. Among these, the extract of Tagetes patula has inhibited the Tv 82 development, applied as lower concentrations (10% and 5%, efficacy being 54.3% and 50%, respectively. In addition, the tested plant extracts of Satureja hortensis, Achillea millefolium, Mentha sp. proved stimulative effect on Tv 82 development. This approach add to the early studies on the selectivity of Trichoderma spp. to chemicals used in plant protection, new data referring to the use of antagonistic fungi, like Trichoderma spp., as a protective mean against phytopathogens. Also, these data sustain the possibility of applying plant extracts as an alternative in plant protection or to apply together chemical (pesticides and biological means (plant extracts especially to protect ecological crops, as vegetables, medicinal plants a.o.

  1. Unveiling the fungal mycobiota present throughout the cork stopper manufacturing process

    NARCIS (Netherlands)

    Barreto, M.C.; Houbraken, J.; Samson, R.A.; Brito, D.; Gadanho, M.; San Romão, M.V.

    2012-01-01

    A particular fungal population is present in the main stages of the manufacturing process of cork discs. Its diversity was studied using both dependent (isolation) and independent culture methods (denaturing gel gradient electrophoresis and cloning of the ITS1-5.8S-ITS2 region). The mycobiota in the

  2. Deposition rates of fungal spores in indoor environments, factors effecting them and comparison with non-biological aerosols

    Science.gov (United States)

    Kanaani, Hussein; Hargreaves, Megan; Ristovski, Zoran; Morawska, Lidia

    Particle deposition indoors is one of the most important factors that determine the effect of particle exposure on human health. While many studies have investigated the particle deposition of non-biological aerosols, few have investigated biological aerosols and even fewer have studied fungal spore deposition indoors. The purpose of this study was, for the first time, to investigate the deposition rates of fungal particles in a chamber of 20.4 m 3 simulating indoor environments by: (1) releasing fungal particles into the chamber, in sufficient concentrations so the particle deposition rates can be statistically analysed; (2) comparing the obtained deposition rates with non-bioaerosol particles of similar sizes, investigated under the same conditions; and (3) investigating the effects of ventilation on the particle deposition rates. The study was conducted for a wide size range of particle sizes (0.54-6.24 μm), at three different air exchange rates (0.009, 1.75 and 2.5 h -1). An Ultraviolet Aerodynamic Particle Sizer Spectrometer (UVAPS) was used to monitor the particle concentration decay rate. The study showed that the deposition rates of fungal spores ( Aspergillus niger and Penicillium species) and the other aerosols (canola oil and talcum powder) were similar, especially at very low air exchange rates (in the order of 0.009). Both the aerosol and the bioaerosol deposition rates were found to be a function of particle size. The results also showed increasing deposition rates with increasing ventilation rates, for all particles under investigation. These conclusions are important in understanding the dynamics of fungal spores in the air.

  3. Piecewise deterministic processes in biological models

    CERN Document Server

    Rudnicki, Ryszard

    2017-01-01

    This book presents a concise introduction to piecewise deterministic Markov processes (PDMPs), with particular emphasis on their applications to biological models. Further, it presents examples of biological phenomena, such as gene activity and population growth, where different types of PDMPs appear: continuous time Markov chains, deterministic processes with jumps, processes with switching dynamics, and point processes. Subsequent chapters present the necessary tools from the theory of stochastic processes and semigroups of linear operators, as well as theoretical results concerning the long-time behaviour of stochastic semigroups induced by PDMPs and their applications to biological models. As such, the book offers a valuable resource for mathematicians and biologists alike. The first group will find new biological models that lead to interesting and often new mathematical questions, while the second can observe how to include seemingly disparate biological processes into a unified mathematical theory, and...

  4. Production of fungal lipids : kinetic modeling and process design

    NARCIS (Netherlands)

    Meeuwse, P.

    2011-01-01

    Finding alternatives for fossil fuels is currently urgent. One of the new processes in this field is the production of biodiesel from lipids accumulated by microorganisms. Some yeasts and fungi accumulate lipids when a component needed for growth, usually the N-source, is limiting while the C-source

  5. Fungal glucosylceramides: from structural components to biologically active targets of new antimicrobials

    Directory of Open Access Journals (Sweden)

    Leonardo eNimrichter

    2011-10-01

    Full Text Available The first work reporting synthesis of glucosylceramide (cerebrin, GlcCer by yeasts was published in 1930. During approximately 70 years members of this class of glycosphingolipids (GSL were considered merely structural components of plasma membrane in fungi. However, in the last decade GlcCer was reported to be involved with fungal growth, differentiation, virulence, immunogenicity and lipid raft architecture in at least two human pathogens. Fungal GlcCer are structurally distinct from their mammalian counterparts and enriched at the cell wall, which makes this molecule an effective target for antifungal activity of specific ligands (peptides and antibodies to GlcCer. Therefore, GSL are promising targets for new drugs to combat fungal diseases. This review discusses the most recent information on biosynthesis and role of GlcCer in fungal pathogens.

  6. Water reclamation and value-added animal feed from corn-ethanol stillage by fungal processing.

    Science.gov (United States)

    Rasmussen, M L; Khanal, S K; Pometto, A L; van Leeuwen, J Hans

    2014-01-01

    Rhizopus oligosporus was cultivated on thin stillage from a dry-grind corn ethanol plant. The aim of the research was to develop a process to replace the current energy-intensive flash evaporation and make use of this nutrient-rich stream to create a new co-product in the form of protein-rich biomass. Batch experiments in 5- and 50-L stirred bioreactors showed prolific fungal growth under non-sterile conditions. COD, suspended solids, glycerol, and organic acids removals, critical for in-plant water reuse, reached ca. 80%, 98%, 100% and 100%, respectively, within 5 d of fungal inoculation, enabling effluent recycle as process water. R. oligosporus contains 2% lysine, good levels of other essential amino acids, and 43% crude protein - a highly nutritious livestock feed. Avoiding water evaporation from thin stillage would furthermore save substantial energy inputs on corn ethanol plants.

  7. Regional-scale simulations of fungal spore aerosols using an emission parameterization adapted to local measurements of fluorescent biological aerosol particles

    Directory of Open Access Journals (Sweden)

    M. Hummel

    2014-04-01

    Full Text Available Fungal spores as a prominent type of primary biological aerosol particles (PBAP have been incorporated into the COSMO-ART regional atmospheric model, using and comparing three different emission parameterizations. Two literature-based emission rates derived from fungal spore colony counts and chemical tracer measurements were used as a parameterization baseline for this study. A third, new emission parameterization was adapted to field measurements of fluorescent biological aerosol particles (FBAP from four locations across Northern Europe. FBAP concentrations can be regarded as a lower estimate of total PBAP concentrations. Size distributions of FBAP often show a distinct mode at approx. 3 μm, corresponding to a diameter range characteristic for many fungal spores. Previous studies have suggested the majority of FBAP in several locations are dominated by fungal spores. Thus, we suggest that simulated fungal spore concentrations obtained from the emission parameterizations can be compared to the sum of total FBAP concentrations. A comparison reveals that parameterized estimates of fungal spore concentrations based on literature numbers underestimate measured FBAP concentrations. In agreement with measurement data, the model results show a diurnal cycle in simulated fungal spore concentrations, which may develop partially as a consequence of a varying boundary layer height between day and night. Measured FBAP and simulated fungal spore concentrations also correlate similarly with simulated temperature and humidity. These meteorological variables, together with leaf area index, were chosen to drive the new emission parameterization discussed here. Using the new emission parameterization on a model domain covering Western Europe, fungal spores in the lowest model layer comprise a fraction of 15% of the total aerosol mass over land and reach average number concentrations of 26 L−1. The results confirm that fungal spores and biological particles

  8. [Biological treatments for contaminated soils: hydrocarbon contamination. Fungal applications in bioremediation treatment].

    Science.gov (United States)

    Martín Moreno, Carmen; González Becerra, Aldo; Blanco Santos, María José

    2004-09-01

    Bioremediation is a spontaneous or controlled process in which biological, mainly microbiological, methods are used to degrade or transform contaminants to non or less toxic products, reducing the environmental pollution. The most important parameters to define a contaminated site are: biodegradability, contaminant distribution, lixiviation grade, chemical reactivity of the contaminants, soil type and properties, oxygen availability and occurrence of inhibitory substances. Biological treatments of organic contaminations are based on the degradative abilities of the microorganisms. Therefore the knowledge on the physiology and ecology of the biological species or consortia involved as well as the characteristics of the polluted sites are decisive factors to select an adequate biorremediation protocol. Basidiomycetes which cause white rot decay of wood are able to degrade lignin and a variety of environmentally persistent pollutants. Thus, white rot fungi and their enzymes are thought to be useful not only in some industrial process like biopulping and biobleaching but also in bioremediation. This paper provides a review of different aspects of bioremediation technologies and recent advances on ligninolytic metabolism research.

  9. Comparative genomics reveals high biological diversity and specific adaptations in the industrially and medically important fungal genus Aspergillus

    DEFF Research Database (Denmark)

    de Vries, Ronald P.; Riley, Robert; Wiebenga, Ad

    2017-01-01

    Background:  The fungal genus Aspergillus is of critical importance to humankind. Species include those with industrial applications, important pathogens of humans, animals and crops, a source of potent carcinogenic contaminants of food, and an important genetic model. The genome sequences of eight...... here, allows for the first time a genus-wide view of the biological diversity of the aspergilli and in many, but not all, cases linked genome differences to phenotype. Insights gained could be exploited for biotechnological and medical applications of fungi....

  10. A sulfuric-lactic acid process for efficient purification of fungal chitosan with intact molecular weight.

    Science.gov (United States)

    Naghdi, Mitra; Zamani, Akram; Karimi, Keikhosro

    2014-02-01

    The most recent method of fungal chitosan purification, i.e., two steps of dilute sulfuric acid treatment, pretreatment of cell wall at room temperature for phosphate removal and extraction of chitosan from the phosphate free cell wall at high temperature, significantly reduces the chitosan molecular weight. This study was aimed at improvement of this method. In the pretreatment step, to choose the best conditions, cell wall of Rhizopus oryzae, containing 9% phosphate, 10% glucosamine, and 21% N-acetyl glucosamine, was treated with sulfuric, lactic, acetic, nitric, or hydrochloric acid, at room temperature. Sulfuric acid showed the best performance in phosphate removal (90%) and cell wall recovery (89%). To avoid depolymerisation of chitosan, hot sulfuric acid extraction was replaced with lactic acid treatment at room temperature, and a pure fungal chitosan was obtained (0.12 g/g cell wall). Similar pretreatment and extraction processes were conducted on pure shrimp chitosan and resulted in a chitosan recovery of higher than 87% while the reduction of chitosan viscosity was less than 15%. Therefore, the sulfuric-lactic acid method purified the fungal chitosan without significant molecular weight manipulation.

  11. Graphics processing units in bioinformatics, computational biology and systems biology.

    Science.gov (United States)

    Nobile, Marco S; Cazzaniga, Paolo; Tangherloni, Andrea; Besozzi, Daniela

    2016-07-08

    Several studies in Bioinformatics, Computational Biology and Systems Biology rely on the definition of physico-chemical or mathematical models of biological systems at different scales and levels of complexity, ranging from the interaction of atoms in single molecules up to genome-wide interaction networks. Traditional computational methods and software tools developed in these research fields share a common trait: they can be computationally demanding on Central Processing Units (CPUs), therefore limiting their applicability in many circumstances. To overcome this issue, general-purpose Graphics Processing Units (GPUs) are gaining an increasing attention by the scientific community, as they can considerably reduce the running time required by standard CPU-based software, and allow more intensive investigations of biological systems. In this review, we present a collection of GPU tools recently developed to perform computational analyses in life science disciplines, emphasizing the advantages and the drawbacks in the use of these parallel architectures. The complete list of GPU-powered tools here reviewed is available at http://bit.ly/gputools. © The Author 2016. Published by Oxford University Press.

  12. Fungal Entomopathogens

    Science.gov (United States)

    Fungal entomopathogens are important biological control agents worldwide and have been the subject of intense research for more than100 years. They exhibit both sexual and asexual reproduction and produce different types of infective propagules. Their mode of action against insects involves attachme...

  13. Comprehending process diagrams in biology education

    NARCIS (Netherlands)

    Kragten, M.

    2015-01-01

    Students in secondary Science education seem to have difficulties with comprehending diagrams. Process diagrams are an important type of representation in Biology for explaining processes like protein synthesis, compound cycles, etc. In this thesis, we aimed at getting deeper insight into students’

  14. Fungal and Bacterial Pigments: Secondary Metabolites with Wide Applications

    Directory of Open Access Journals (Sweden)

    Manik Prabhu Narsing Rao

    2017-06-01

    Full Text Available The demand for natural colors is increasing day by day due to harmful effects of some synthetic dyes. Bacterial and fungal pigments provide a readily available alternative source of naturally derived pigments. In contrast to other natural pigments, they have enormous advantages including rapid growth, easy processing, and independence of weather conditions. Apart from colorant, bacterial and fungal pigments possess many biological properties such as antioxidant, antimicrobial and anticancer activity. This review outlines different types of pigments. It lists some bacterial and fungal pigments and current bacterial and fungal pigment status and challenges. It also focuses on possible fungal and bacterial pigment applications.

  15. Biological Control of Aphid Using Fungal Culture and Culture Filtrates of Beauveria bassiana.

    Science.gov (United States)

    Kim, Jeong Jun; Jeong, Gayoung; Han, Ji Hee; Lee, Sangyeob

    2013-12-01

    Aphids are one of the most destructive pests in crop production such as pepper, cucumber, and eggplants. The importance of entomopathogenic fungi as alternative pest control agents is increasing. Conidia of entomopathogenic fungi are influenced by environmental conditions, such as temperature and relative humidity, and cause slow and fluctuating mortality. These factors have prevented wider application and use of biocontrol agents. For investigation of means of mitigation of such problems, we conducted bioassays with 47 fungal culture filtrates in order to evaluate the potential of secondary metabolites produced by entomopathogenic fungi for use in aphid control. Among 47 culture filtrates cultured potato dextrose broth, filtrate of Beauveria bassiana Bb08 showed the highest mortality (78%) against green peach aphid three days after treatments. Filtrate of Bb08 cultured in Adamek's medium showed higher toxicity as 100% to third instar nymphs of the aphid compared with seven other filtrates cultured in different broths amended with colloidal chitin or oil. The culture filtrates and fungal cultures from media amended with colloidal chitin or oil had lower control efficacies than filtrates without these additives in three different media. These results indicate that the fungal culture fluid or culture filtrate of B. bassiana Bb08 cultured in Adamek's medium has potential for development as a mycopesticide for aphid control.

  16. A novel model-based control strategy for aerobic filamentous fungal fed-batch fermentation processes

    DEFF Research Database (Denmark)

    Mears, Lisa; Stocks, Stuart M.; Albaek, Mads O.

    2017-01-01

    A novel model-based control strategy has been developed for filamentous fungal fed-batch fermentation processes. The system of interest is a pilot scale (550 L) filamentous fungus process operating at Novozymes A/S. In such processes, it is desirable to maximize the total product achieved...... in a batch in a defined process time. In order to achieve this goal, it is important to maximize both the product concentration, and also the total final mass in the fed-batch system. To this end, we describe the development of a control strategy which aims to achieve maximum tank fill, while avoiding oxygen...... limited conditions. This requires a two stage approach: (i) calculation of the tank start fill; and (ii) on-line control in order to maximize fill subject to oxygen transfer limitations. First, a mechanistic model was applied off-line in order to determine the appropriate start fill for processes...

  17. Effect of processing for saponin removal on fungal contamination of quinoa seeds (Chenopodium quinoa Willd.).

    Science.gov (United States)

    Pappier, Ursula; Fernández Pinto, Virginia; Larumbe, Gabriela; Vaamonde, Graciela

    2008-07-15

    Incidence of fungal contamination of quinoa seeds from three locations (Salar de Uyuni, Bolivia; Salta and Tucumán provinces, Argentina) was analyzed in samples with and without treatment to remove saponins (wet method). In processed samples, the percentage of infection was reduced. Distribution of the different fungal genera was not homogeneous in the three locations (p<0.05), although Penicillium and Aspergillus were the most prevalent contaminants, regardless the geographic origin of the samples. Other genera, such as Eurotium, Fusarium, Phoma, Ulocladium, Mucor and Rhizopus were less frequently isolated. Absidia, Alternaria, Cladosporium, Dreschlera, Epicoccum and Monascus were sporadically encountered. Significant differences (p<0.05) in the distribution of fungal genera in samples with and without saponins from each location were observed. In all cases, processing caused a decrease of Aspergillus incidence, while increased the proportion of Penicillium, Eurotium, Mucor and Rhizopus indicating that these genera were part of the internal mycota. A. flavus and A. niger were the dominating species of genus Aspergillus. A similar pattern of prevalent Penicillium species was observed in samples with and without saponins, since P. aurantiogriseum, P.chrysogenum, P. citrinum and P. crustosum were always present in high number, although their relative density was variable according to the geographic origin of samples. Mycotoxin-producing ability of most representative species was also determined. Toxigenic strains of A. flavus (aflatoxins and cyclopiazonic acid), A. parasiticus (aflatoxins), P. citrinum (citrinin) and P. griseofulvum (cyclopiazonic acid) were found. None of the A. niger isolates was ochratoxin A producer. The above mentioned mycotoxins were not detected in the samples analyzed.

  18. Image processing and computing in structural biology

    NARCIS (Netherlands)

    Jiang, Linhua

    2009-01-01

    With the help of modern techniques of imaging processing and computing, image data obtained by electron cryo-microscopy of biomolecules can be reconstructed to three-dimensional biological models at sub-nanometer resolution. These models allow answering urgent problems in life science, for instance,

  19. Unveiling the fungal mycobiota present throughout the cork stopper manufacturing process.

    Science.gov (United States)

    Barreto, Maria C; Houbraken, Jos; Samson, Robert A; Brito, Dulce; Gadanho, Mário; San Romão, Maria V

    2012-10-01

    A particular fungal population is present in the main stages of the manufacturing process of cork discs. Its diversity was studied using both dependent (isolation) and independent culture methods (denaturing gel gradient electrophoresis and cloning of the ITS1-5.8S-ITS2 region). The mycobiota in the samples taken in the stages before and after the first boiling seems to be distinct from the population in the subsequent manufacturing stages. Most isolated fungi belong to the genera Penicillium, Eurotium and Cladosporium. The presence of uncultivable fungi, Ascomycota and endophytes in raw cork was confirmed by sequencing. The samples taken after the first boiling contained uncultivable fungi, but in a few samples some isolated fungi were also detected. The main taxa present in the following stages were Chrysonilia sitophila, Penicillium glabrum and Penicillium spp. All applied techniques had complementary outcomes. The main factors driving the shift in cork fungal colonization seem to be the high levels of humidity and temperature to which the slabs are subjected during the boiling process.

  20. Common and distinguishing features of the bacterial and fungal communities in biological soil crusts and shrub root zone soils

    Science.gov (United States)

    Steven, Blaire; Gallegos-Graves, La Verne; Yeager, Chris; Belnap, Jayne; Kuske, Cheryl R.

    2013-01-01

    Soil microbial communities in dryland ecosystems play important roles as root associates of the widely spaced plants and as the dominant members of biological soil crusts (biocrusts) colonizing the plant interspaces. We employed rRNA gene sequencing (bacterial 16S/fungal large subunit) and shotgun metagenomic sequencing to compare the microbial communities inhabiting the root zones of the dominant shrub, Larrea tridentata (creosote bush), and the interspace biocrusts in a Mojave desert shrubland within the Nevada Free Air CO2 Enrichment (FACE) experiment. Most of the numerically abundant bacteria and fungi were present in both the biocrusts and root zones, although the proportional abundance of those members differed significantly between habitats. Biocrust bacteria were predominantly Cyanobacteria while root zones harbored significantly more Actinobacteria and Proteobacteria. Pezizomycetes fungi dominated the biocrusts while Dothideomycetes were highest in root zones. Functional gene abundances in metagenome sequence datasets reflected the taxonomic differences noted in the 16S rRNA datasets. For example, functional categories related to photosynthesis, circadian clock proteins, and heterocyst-associated genes were enriched in the biocrusts, where populations of Cyanobacteria were larger. Genes related to potassium metabolism were also more abundant in the biocrusts, suggesting differences in nutrient cycling between biocrusts and root zones. Finally, ten years of elevated atmospheric CO2 did not result in large shifts in taxonomic composition of the bacterial or fungal communities or the functional gene inventories in the shotgun metagenomes.

  1. Biological Sludge Stabilization; Fenton and Ozonation Processes

    Directory of Open Access Journals (Sweden)

    Miranzadeh M.B.1 PhD,

    2015-09-01

    Full Text Available Aims In biological wastewater treatment processes, a large amount of sludge is produced. Stabilization of sludge is essential before disposal because of the risks to human health and environment. Therefore, selecting an appropriate process for stabilization this sludge may efficiently decrease risks. The aim of this study was to examine the compound efficiency of the advanced Fenton and ozonation oxidation processes in stabilization of biological sludge. Instrument & Methods This experimental study was conducted on raw sludge taken from Kashan University of Medical Sciences’ Wastewater Treatment Plant in Iran during 2014. Fenton and ozonation oxidation processes were used for sludge stabilization. H2O2 and Fe2+ concentration, along with their mutual interaction, were measured using repeated measures model. Then the effects of pH and time reaction on reduction efficiency of volatile solids (VS were examined. Findings The maximum removal efficiencies in Fenton process at pH=3 and in ozonation process in pH=7 were obtained 85.1% and 92.9%, respectively. By increasing the reaction time from 30 to 90min, VS reduction efficiency in Fenton and ozonation processes increased and then reduced after 60min. The maximum reduction efficiencies of VS were obtained at 3000mg/l H2O2 concentration, So that the optimum ratio of Fe2+/H2O2 for sludge stabilization was 1000/3000mg/l with the efficiency of 91.5%. Conclusion Ozonation process efficiency in stabilizing biological wastewater sludge is higher than that of Fenton process.

  2. Isolation and characterization of soil Streptomyces species as potential biological control agents against fungal plant pathogens.

    Science.gov (United States)

    Evangelista-Martínez, Zahaed

    2014-05-01

    The use of antagonist microorganisms against fungal plant pathogens is an attractive and ecologically alternative to the use of chemical pesticides. Streptomyces are beneficial soil bacteria and potential candidates for biocontrol agents. This study reports the isolation, characterization and antagonist activity of soil streptomycetes from the Los Petenes Biosphere Reserve, a Natural protected area in Campeche, Mexico. The results showed morphological, physiological and biochemical characterization of six actinomycetes and their inhibitory activity against Curvularia sp., Aspergillus niger, Helminthosporium sp. and Fusarium sp. One isolate, identified as Streptomyces sp. CACIS-1.16CA showed the potential to inhibit additional pathogens as Alternaria sp., Phytophthora capsici, Colletotrichum sp. and Rhizoctonia sp. with percentages ranging from 47 to 90 %. This study identified a streptomycete strain with a broad antagonist activity that could be used for biocontrol of plant pathogenic fungi.

  3. Routine processing procedures for isolating filamentous fungi from respiratory sputum samples may underestimate fungal prevalence.

    Science.gov (United States)

    Pashley, Catherine H; Fairs, Abbie; Morley, Joseph P; Tailor, Shreeya; Agbetile, Joshua; Bafadhel, Mona; Brightling, Christopher E; Wardlaw, Andrew J

    2012-05-01

    Colonization of the airways by filamentous fungi can occur in asthma, chronic obstructive pulmonary disease (COPD) and cystic fibrosis. A recent study found IgE sensitization to Aspergillus fumigatus to be associated with reduced lung function. Significantly higher rates of A. fumigatus were detected in sputum from asthmatics sensitized to this fungus compared to non-sensitized asthmatics. The rate of positive cultures was far higher than equivalent historical samples analysed by the local clinical laboratory following protocols recommended by the UK Health Protection Agency (HPA). This study compares the HPA procedure with our sputum processing method, whereby sputum plugs are separated from saliva and aliquots of approximately 150 mg are inoculated directly onto potato dextrose agar. A total of 55 sputum samples from 41 patients with COPD were analyzed, comparing fungal recovery of five dilutions of sputa on two media. Isolation of A. fumigatus in culture was significantly higher using the research approach compared to the HPA standard method for mycological investigations (P < 0.001). There was also a significant difference in the recovery rate of A. fumigatus (P < 0.05) between media. This highlights the need for a standardized approach to fungal detection which is more sensitive than the method recommended by the HPA.

  4. Evaluation of fungal burden of medicinal plants submitted to gamma radiation process after 30 days

    Energy Technology Data Exchange (ETDEWEB)

    Aquino, Simone; Araujo, Michel M.; Villavicencio, A.L.C.H. [Instituto de Pesquisas Energeticas e Nucleares (IPEN/CNEN-SP), Sao Paulo, SP (Brazil). Centro de Tecnologia das Radiacoes]. E-mail: siaq06@hotmail.com; Goncalez, Edlayne; Reis, Tatiana A. dos; Correa, Benedito [Universidade de Sao Paulo, SP (Brazil). Inst. de Ciencias Biomedicas. Dept. de Microbiologia]. E-mail: correabe@usp.br

    2007-07-01

    Forty samples of medicinal plants (Peumus boldus, Camellia sinensis, Maytenus ilicifolia and Cassia angustifolia), purchased from pharmacies and street market in the five cities of Sao Paulo State, were irradiated using a {sup 60}Co gamma ray source (Gammacell) with a dose of 10.0 kGy, delivered at dose rate of 3.0 kGy/h. Nonirradiated samples were used as controls of fungal isolates. For fungal counts and identification in medicinal plants a serial dilutions from 10{sup -1} to 10{sup -6} of the samples were seeded in duplicates and plated using the method in Dichloran 18% Glycerol Agar (DG 18) and were counted after five days at 25 deg C. Mycological analysis of control samples revealed the presence of genera Aspergillus and Penicillium, which are known as toxigenic fungi. The process of gamma radiation was effective in reducing the number of colony forming units (cfu/g) in all irradiated samples of medicinal plants after 30 days, using the dose of 10.0 kGy and kept of veiled conditions. (author)

  5. Could biological invasion by Cryptostegia madagascariensis alter the composition of the arbuscular mycorrhizal fungal community in semi-arid Brazil?

    Directory of Open Access Journals (Sweden)

    Tancredo Augusto Feitosa de Souza

    2016-03-01

    Full Text Available Biological invasions pose a serious threat to native semi-arid areas of Brazil, especially in areas of the state of Ceará that are typically invaded byCryptostegia madagascariensis, an exotic plant species from Madagascar. However, how this biological invasion influences the composition of the arbuscular mycorrhizal fungal (AMF community and how this affects further invasion by C. madagascariensis is not well known. Here we tested how inoculation with species of AMF affects the development of this invasive plant. We analyzed and compared the AMF community composition of four different stages of biological invasion by C. madagascariensis, and examined the effects of inoculation with these four AMF communities, plus a dominant AMF species (Rhizoglomus intraradices on plant dry biomass, root colonization, plant phosphorous concentration, and plant responsiveness to mycorrhizas of plants of C. madagascariensis. We found that all studied treatments (except the inoculum from the native plant root zone promoted the growth of C. madagascariensis and lead to a higher P concentration. Our results demonstrate that the invader might be altering the composition of the AMF community in field conditions, because inoculation with this community enhanced invader growth, root colonization, and P uptake.

  6. Fungal Sinusitis

    Science.gov (United States)

    ... Marketplace Find an ENT Doctor Near You Fungal Sinusitis Fungal Sinusitis Patient Health Information News media interested ... sinusitis results. There Are Four Types Of Fungal Sinusitis: Mycetoma Fungal Sinusitis produces clumps of spores, a " ...

  7. Fungal prions.

    Science.gov (United States)

    Staniforth, Gemma L; Tuite, Mick F

    2012-01-01

    For both mammalian and fungal prion proteins, conformational templating drives the phenomenon of protein-only infectivity. The conformational conversion of a protein to its transmissible prion state is associated with changes to host cellular physiology. In mammals, this change is synonymous with disease, whereas in fungi no notable detrimental effect on the host is typically observed. Instead, fungal prions can serve as epigenetic regulators of inheritance in the form of partial loss-of-function phenotypes. In the presence of environmental challenges, the prion state [PRION(+)], with its resource for phenotypic plasticity, can be associated with a growth advantage. The growing number of yeast proteins that can switch to a heritable [PRION(+)] form represents diverse and metabolically penetrating cellular functions, suggesting that the [PRION(+)] state in yeast is a functional one, albeit rarely found in nature. In this chapter, we introduce the biochemical and genetic properties of fungal prions, many of which are shared by the mammalian prion protein PrP, and then outline the major contributions that studies on fungal prions have made to prion biology.

  8. Microbiology and atmospheric processes: chemical interactions of primary biological aerosols

    Directory of Open Access Journals (Sweden)

    L. Deguillaume

    2008-07-01

    Full Text Available This paper discusses the influence of primary biological aerosols (PBA on atmospheric chemistry and vice versa through microbiological and chemical properties and processes. Several studies have shown that PBA represent a significant fraction of air particulate matter and hence affect the microstructure and water uptake of aerosol particles. Moreover, airborne micro-organisms, namely fungal spores and bacteria, can transform chemical constituents of the atmosphere by metabolic activity. Recent studies have emphasized the viability of bacteria and metabolic degradation of organic substances in cloud water. On the other hand, the viability and metabolic activity of airborne micro-organisms depend strongly on physical and chemical atmospheric parameters such as temperature, pressure, radiation, pH value and nutrient concentrations. In spite of recent advances, however, our knowledge of the microbiological and chemical interactions of PBA in the atmosphere is rather limited. Further targeted investigations combining laboratory experiments, field measurements, and modelling studies will be required to characterize the chemical feedbacks, microbiological activities at the air/snow/water interface supplied to the atmosphere.

  9. Stochastic Simulation of Process Calculi for Biology

    CERN Document Server

    Phillips, Andrew; Paulevé, Loïc; 10.4204/EPTCS.40.1

    2010-01-01

    Biological systems typically involve large numbers of components with complex, highly parallel interactions and intrinsic stochasticity. To model this complexity, numerous programming languages based on process calculi have been developed, many of which are expressive enough to generate unbounded numbers of molecular species and reactions. As a result of this expressiveness, such calculi cannot rely on standard reaction-based simulation methods, which require fixed numbers of species and reactions. Rather than implementing custom stochastic simulation algorithms for each process calculus, we propose to use a generic abstract machine that can be instantiated to a range of process calculi and a range of reaction-based simulation algorithms. The abstract machine functions as a just-in-time compiler, which dynamically updates the set of possible reactions and chooses the next reaction in an iterative cycle. In this short paper we give a brief summary of the generic abstract machine, and show how it can be instant...

  10. Stochastic transport processes in discrete biological systems

    CERN Document Server

    Frehland, Eckart

    1982-01-01

    These notes are in part based on a course for advanced students in the applications of stochastic processes held in 1978 at the University of Konstanz. These notes contain the results of re­ cent studies on the stochastic description of ion transport through biological membranes. In particular, they serve as an introduction to an unified theory of fluctuations in complex biological transport systems. We emphasize that the subject of this volume is not to introduce the mathematics of stochastic processes but to present a field of theoretical biophysics in which stochastic methods are important. In the last years the study of membrane noise has become an important method in biophysics. Valuable information on the ion transport mechanisms in membranes can be obtained from noise analysis. A number of different processes such as the opening and closing of ion channels have been shown to be sources of the measured current or voltage fluctuations. Bio­ logical 'transport systems can be complex. For example, the tr...

  11. Diffusion processes and related topics in biology

    CERN Document Server

    Ricciardi, Luigi M

    1977-01-01

    These notes are based on a one-quarter course given at the Department of Biophysics and Theoretical Biology of the University of Chicago in 1916. The course was directed to graduate students in the Division of Biological Sciences with interests in population biology and neurobiology. Only a slight acquaintance with probability and differential equations is required of the reader. Exercises are interwoven with the text to encourage the reader to play a more active role and thus facilitate his digestion of the material. One aim of these notes is to provide a heuristic approach, using as little mathematics as possible, to certain aspects of the theory of stochastic processes that are being increasingly employed in some of the population biol­ ogy and neurobiology literature. While the subject may be classical, the nov­ elty here lies in the approach and point of view, particularly in the applica­ tions such as the approach to the neuronal firing problem and its related dif­ fusion approximations. It is a ple...

  12. Pyrroloquinoline-quinone and its versatile roles in biological processes

    Indian Academy of Sciences (India)

    H S Misra; Y S Rajpurohit; N P Khairnar

    2012-06-01

    Pyrroloquinoline-quinine (PQQ) was initially characterized as a redox cofactor for membrane-bound dehydrogenases in the bacterial system. Subsequently, PQQ was shown to be an antioxidant protecting the living cells from oxidative damage in vivo and the biomolecules from artificially produced reaction oxygen species in vitro. The presence of PQQ has been documented from different biological samples. It functions as a nutrient and vitamin for supporting the growth and protection of living cells under stress. Recently, the role of PQQ has also been shown as a bio-control agent for plant fungal pathogens, an inducer for proteins kinases involved in cellular differentiation of mammalian cells and as a redox sensor leading to development of biosensor. Recent reviews published on PQQ and enzymes requiring this cofactor have brought forth the case specific roles of PQQ. This review covers the comprehensive information on various aspects of PQQ known till date. These include the roles of PQQ in the regulation of cellular growth and differentiation in mammalian system, as a nutrient and vitamin in stress tolerance, in crop productivity through increasing the availability of insoluble phosphate and as a bio-control agent, and as a redox agent leading to the biosensor development. Most recent findings correlating the exceptionally high redox recycling ability of PQQ to its potential as anti-neurodegenerative, anticancer and pharmacological agents, and as a signalling molecule have been distinctly brought out. This review discusses different findings suggesting the versatility in PQQ functions and provides the most plausible intellectual basis to the ubiquitous roles of this compound in a large number of biological processes, as a nutrient and a perspective vitamin.

  13. Rotating Biological Contractors (RBC's). Instructor's Guide. Biological Treatment Process Control.

    Science.gov (United States)

    Zickefoose, Charles S.

    This two-lesson unit on rotating biological contactors (RBC's) is designed to be used with students who have had some experience in wastewater treatment and a basic understanding of biological treatment. The first lesson provides information on the concepts and components of RBC treatment systems. The second lesson focuses on design operation and…

  14. Modeling delayed processes in biological systems

    Science.gov (United States)

    Feng, Jingchen; Sevier, Stuart A.; Huang, Bin; Jia, Dongya; Levine, Herbert

    2016-09-01

    Delayed processes are ubiquitous in biological systems and are often characterized by delay differential equations (DDEs) and their extension to include stochastic effects. DDEs do not explicitly incorporate intermediate states associated with a delayed process but instead use an estimated average delay time. In an effort to examine the validity of this approach, we study systems with significant delays by explicitly incorporating intermediate steps. We show that such explicit models often yield significantly different equilibrium distributions and transition times as compared to DDEs with deterministic delay values. Additionally, different explicit models with qualitatively different dynamics can give rise to the same DDEs revealing important ambiguities. We also show that DDE-based predictions of oscillatory behavior may fail for the corresponding explicit model.

  15. Image processing and recognition for biological images.

    Science.gov (United States)

    Uchida, Seiichi

    2013-05-01

    This paper reviews image processing and pattern recognition techniques, which will be useful to analyze bioimages. Although this paper does not provide their technical details, it will be possible to grasp their main tasks and typical tools to handle the tasks. Image processing is a large research area to improve the visibility of an input image and acquire some valuable information from it. As the main tasks of image processing, this paper introduces gray-level transformation, binarization, image filtering, image segmentation, visual object tracking, optical flow and image registration. Image pattern recognition is the technique to classify an input image into one of the predefined classes and also has a large research area. This paper overviews its two main modules, that is, feature extraction module and classification module. Throughout the paper, it will be emphasized that bioimage is a very difficult target for even state-of-the-art image processing and pattern recognition techniques due to noises, deformations, etc. This paper is expected to be one tutorial guide to bridge biology and image processing researchers for their further collaboration to tackle such a difficult target.

  16. Studies of the Production of Fungal Polyketides in Aspergillus nidulans by Using Systems Biology Tools

    DEFF Research Database (Denmark)

    Panagiotou, Gianni; Andersen, Mikael Rørdam; Grotkjær, Thomas

    2009-01-01

    -methylsalicylic acid (6-MSA) synthase gene and one expressing the 6-MSA synthase gene and overexpressing the native xylulose-5-phosphate phosphoketolase gene (xpkA) for increasing the pool of polyketide precursor levels. The physiology of the recombinant strains and that of a reference wild-type strain were...... that overexpression of xpkA does not directly improve 6-MSA production on glucose, but it is possible, if the metabolic flux through the lower part of glycolysis is reduced, to obtain quite high yields for conversion of sugar to 6-MSA. Systems biology tools were employed for in-depth analysis of the metabolic...

  17. Yeast and Fungal Prions: Amyloid-Handling Systems, Amyloid Structure, and Prion Biology.

    Science.gov (United States)

    Wickner, R B; Edskes, H K; Gorkovskiy, A; Bezsonov, E E; Stroobant, E E

    2016-01-01

    Yeast prions (infectious proteins) were discovered by their outré genetic properties and have become important models for an array of human prion and amyloid diseases. A single prion protein can become any of many distinct amyloid forms (called prion variants or strains), each of which is self-propagating, but with different biological properties (eg, lethal vs mild). The folded in-register parallel β sheet architecture of the yeast prion amyloids naturally suggests a mechanism by which prion variant information can be faithfully transmitted for many generations. The yeast prions rely on cellular chaperones for their propagation, but can be cured by various chaperone imbalances. The Btn2/Cur1 system normally cures most variants of the [URE3] prion that arise. Although most variants of the [PSI+] and [URE3] prions are toxic or lethal, some are mild in their effects. Even the most mild forms of these prions are rare in the wild, indicating that they too are detrimental to yeast. The beneficial [Het-s] prion of Podospora anserina poses an important contrast in its structure, biology, and evolution to the yeast prions characterized thus far.

  18. Impact of bacterial and fungal processes on {sup 14}C-hexadecane mineralisation in weathered hydrocarbon contaminated soil

    Energy Technology Data Exchange (ETDEWEB)

    Adetutu, Eric M.; Ball, Andy S. [School of Biological Sciences, Flinders University, Adelaide, South Australia, 5001 (Australia); Weber, John; Aleer, Samuel; Dandie, Catherine E. [Centre for Environmental Risk Assessment and Remediation (CERAR), University of South Australia, Mawson Lakes Campus, Adelaide, South Australia, 5095 (Australia); Cooperative Research Centre for Contamination Assessment and Remediation of the Environment (CRC CARE), Mawson Lakes, Adelaide, South Australia, 5095 (Australia); Juhasz, Albert L., E-mail: Albert.Juhasz@unisa.edu.au [Centre for Environmental Risk Assessment and Remediation (CERAR), University of South Australia, Mawson Lakes Campus, Adelaide, South Australia, 5095 (Australia); Cooperative Research Centre for Contamination Assessment and Remediation of the Environment (CRC CARE), Mawson Lakes, Adelaide, South Australia, 5095 (Australia)

    2012-01-01

    In this study, the impact of bacterial and fungal processes on {sup 14}C-hexadecane mineralisation was investigated in weathered hydrocarbon contaminated soil. The extent of {sup 14}C-hexadecane mineralisation varied depending on the bioremediation strategy employed. Under enhanced natural attenuation conditions, {sup 14}C-hexadecane mineralisation after 98 days was 8.5 {+-} 3.7% compared to < 1.2% without nitrogen and phosphorus additions. {sup 14}C-hexadecane mineralisation was further enhanced through Tween 80 amendments (28.9 {+-} 2.4%) which also promoted the growth of a Phanerochaete chyrsosporium fungal mat. Although fungal growth in weathered hydrocarbon contaminated soil could be promoted through supplementing additional carbon sources (Tween 80, sawdust, compost, pea straw), fungal {sup 14}C-hexadecane mineralisation was negligible when sodium azide was added to soil microcosms to inhibit bacterial activity. In contrast, when fungal activity was inhibited through nystatin additions, {sup 14}C-hexadecane mineralisation ranged from 6.5 {+-} 0.2 to 35.8 {+-} 3.8% after 98 days depending on the supplied amendment. Bacteria inhibition with sodium azide resulted in a reduction in bacterial diversity (33-37%) compared to microcosms supplemented with nystatin or microcosms without inhibitory supplements. However, alkB bacterial groups were undetected in sodium azide supplemented microcosms, highlighting the important role of this bacterial group in {sup 14}C-hexadecane mineralisation. - Highlights: Black-Right-Pointing-Pointer The roles of different microbial groups in hydrocarbon mineralisation was assessed. Black-Right-Pointing-Pointer Inhibiting fungal growth did not affect {sup 14}C-hexadecane mineralisation. Black-Right-Pointing-Pointer Inhibiting bacterial growth resulted in negligible {sup 14}C-hexadecane mineralisation. Black-Right-Pointing-Pointer alkB bacterial groups were undetected in sodium azide supplemented microcosms. Black

  19. Studies of the Production of Fungal Polyketides in Aspergillus nidulans by Using Systems Biology Tools

    DEFF Research Database (Denmark)

    Panagiotou, Gianni; Andersen, Mikael Rørdam; Grotkjær, Thomas

    2009-01-01

    are virtually unlimited, and it is thus of great interest to develop a well-described microbial production platform for polyketides. Using genetic engineering tools available for the model organism Aspergillus nidulans, we constructed two recombinant strains, one expressing the Penicillium griseofulvum 6...... that overexpression of xpkA does not directly improve 6-MSA production on glucose, but it is possible, if the metabolic flux through the lower part of glycolysis is reduced, to obtain quite high yields for conversion of sugar to 6-MSA. Systems biology tools were employed for in-depth analysis of the metabolic...... characterized on glucose, xylose, glycerol, and ethanol media in controlled bioreactors. Glucose was found to be the preferred carbon source for 6-MSA production, and 6-MSA concentrations up to 455 mg/liter were obtained for the recombinant strain harboring the 6-MSA gene. Our findings indicate...

  20. Stochastic Simulation of Process Calculi for Biology

    Directory of Open Access Journals (Sweden)

    Andrew Phillips

    2010-10-01

    Full Text Available Biological systems typically involve large numbers of components with complex, highly parallel interactions and intrinsic stochasticity. To model this complexity, numerous programming languages based on process calculi have been developed, many of which are expressive enough to generate unbounded numbers of molecular species and reactions. As a result of this expressiveness, such calculi cannot rely on standard reaction-based simulation methods, which require fixed numbers of species and reactions. Rather than implementing custom stochastic simulation algorithms for each process calculus, we propose to use a generic abstract machine that can be instantiated to a range of process calculi and a range of reaction-based simulation algorithms. The abstract machine functions as a just-in-time compiler, which dynamically updates the set of possible reactions and chooses the next reaction in an iterative cycle. In this short paper we give a brief summary of the generic abstract machine, and show how it can be instantiated with the stochastic simulation algorithm known as Gillespie's Direct Method. We also discuss the wider implications of such an abstract machine, and outline how it can be used to simulate multiple calculi simultaneously within a common framework.

  1. Identification and Characterization of Lysobacter enzymogenes as a Biological Control Agent Against Some Fungal Pathogens

    Institute of Scientific and Technical Information of China (English)

    QIAN Guo-liang; HU Bai-shi; JIANG Ying-hua; LIU Feng-quan

    2009-01-01

    Strain OH11, a Gram-negative, nonspore forming, rod-shaped bacterium with powerful antagonistic activity, was isolated from rhizosphere of green pepper in Jiangsu Academy of Agricultural Sciences of China and characterized to determine its taxonomic position. 16S rRNA gene sequence analysis revealed that strain OH11 belongs to the Gammaproteobacteria and had the highest degree of sequence similarity to Lysobacter enzymogenes strain C3 (AY074793) (99%), Lysobacter enzyrnogenes strain N4-7 (U89965) (99%), Lysobacter antibioticus strain (AB019582) (97%), and Lysobacter gummosus strain (AB16136) (97%). Chemotaxonomic data revealed that strain OH11 possesses a quinine system with Q-8 as the predominant compound and C15:0 iso,C17:1 iso w9c as the predominant iso-branched fatty acids,all of which corroborated the assignment of strain OH11 to the genus Lysobacter. Results of DNA-DNA hybridization and physiological and biochemical tests clearly showed that strain OH11 was classified as Lysobacter enzymogenes. Strain OH11 could produce protease, chitinase, and β-1,3-glucanase. It showed strong in vitro antifungal activity against Rhizoctonia solani, Sclerotinia scletotiorum, and several other phytopathogenic fungi. This is the first report of identification and characterization of Lysobacter enzymogenes as a biological control agent of plant diseases in China.

  2. High Throughput Extraction of Plant, Marine and Fungal Specimens for Preservation of Biologically Active Molecules

    Directory of Open Access Journals (Sweden)

    Thomas G. McCloud

    2010-06-01

    Full Text Available The Developmental Therapeutics Program (DTP of the U.S. National Cancer Institute (NCI, at its NCI-Frederick facility, has built perhaps the largest and most diverse natural products screening library in the world for drug discovery. Composed of plant, marine organism and microbial extracts, it currently contains in excess of 230,000 unique materials. From the inception of this program to identify new anticancer chemotherapeutics from natural products sources in 1987, two extracts have been sequentially prepared from each specimen: one produced by organic solvent extraction, which yields a complex material that contains non- to moderately polar small molecules, and a water-soluble extract, a milieu largely unexplored for useful drugs in earlier years, which contains polar small to medium-sized molecules. Plant specimens and microbial ferments are extracted by modified traditional methods, while the method developed to produce extracts from marine organisms is unique and very different from that used by marine natural products chemists previously, but again yields both an organic solvent soluble and a water soluble material for inclusion into the screening library. Details of high throughput extract production for preservation of biologically active molecules are presented.

  3. Relative importance of deterministic and stochastic processes in driving arbuscular mycorrhizal fungal assemblage during the spreading of a toxic plant.

    Science.gov (United States)

    Shi, Guoxi; Liu, Yongjun; Mao, Lin; Jiang, Shengjing; Zhang, Qi; Cheng, Gang; An, Lizhe; Du, Guozhen; Feng, Huyuan

    2014-01-01

    Both deterministic and stochastic processes are expected to drive the assemblages of arbuscular mycorrhizal (AM) fungi, but little is known about the relative importance of these processes during the spreading of toxic plants. Here, the species composition and phylogenetic structure of AM fungal communities colonizing the roots of a toxic plant, Ligularia virgaurea, and its neighborhood plants, were analyzed in patches with different individual densities of L. virgaurea (represents the spreading degree). Community compositions of AM fungi in both root systems were changed significantly by the L. virgaurea spreading, and also these communities fitted the neutral model very well. AM fungal communities in patches with absence and presence of L. virgaurea were phylogenetically random and clustered, respectively, suggesting that the principal ecological process determining AM fungal assemblage shifted from stochastic process to environmental filtering when this toxic plant was present. Our results indicate that deterministic and stochastic processes together determine the assemblage of AM fungi, but the dominant process would be changed by the spreading of toxic plants, and suggest that the spreading of toxic plants in alpine meadow ecosystems might be involving the mycorrhizal symbionts.

  4. Relative importance of deterministic and stochastic processes in driving arbuscular mycorrhizal fungal assemblage during the spreading of a toxic plant.

    Directory of Open Access Journals (Sweden)

    Guoxi Shi

    Full Text Available Both deterministic and stochastic processes are expected to drive the assemblages of arbuscular mycorrhizal (AM fungi, but little is known about the relative importance of these processes during the spreading of toxic plants. Here, the species composition and phylogenetic structure of AM fungal communities colonizing the roots of a toxic plant, Ligularia virgaurea, and its neighborhood plants, were analyzed in patches with different individual densities of L. virgaurea (represents the spreading degree. Community compositions of AM fungi in both root systems were changed significantly by the L. virgaurea spreading, and also these communities fitted the neutral model very well. AM fungal communities in patches with absence and presence of L. virgaurea were phylogenetically random and clustered, respectively, suggesting that the principal ecological process determining AM fungal assemblage shifted from stochastic process to environmental filtering when this toxic plant was present. Our results indicate that deterministic and stochastic processes together determine the assemblage of AM fungi, but the dominant process would be changed by the spreading of toxic plants, and suggest that the spreading of toxic plants in alpine meadow ecosystems might be involving the mycorrhizal symbionts.

  5. Multifunctional Cellulolytic Enzymes Outperform Processive Fungal Cellulases for Coproduction of Nanocellulose and Biofuels

    Energy Technology Data Exchange (ETDEWEB)

    Yarbrough, John M.; Zhang, Ruoran; Mittal, Ashutosh; Vander Wall, Todd; Bomble, Yannick J.; Decker, Stephen R.; Himmel, Michael E.; Ciesielski, Peter N.

    2017-03-07

    Producing fuels, chemicals, and materials from renewable resources to meet societal demands remains an important step in the transition to a sustainable, clean energy economy. The use of cellulolytic enzymes for the production of nanocellulose enables the coproduction of sugars for biofuels production in a format that is largely compatible with the process design employed by modern lignocellulosic (second generation) biorefineries. However, yields of enzymatically produced nanocellulose are typically much lower than those achieved by mineral acid production methods. In this study, we compare the capacity for coproduction of nanocellulose and fermentable sugars using two vastly different cellulase systems: the classical 'free enzyme' system of the saprophytic fungus, Trichoderma reesei (T. reesei) and the complexed, multifunctional enzymes produced by the hot springs resident, Caldicellulosiruptor bescii (C. bescii). We demonstrate by comparative digestions that the C. bescii system outperforms the fungal enzyme system in terms of total cellulose conversion, sugar production, and nanocellulose production. In addition, we show by multimodal imaging and dynamic light scattering that the nanocellulose produced by the C. bescii cellulase system is substantially more uniform than that produced by the T. reesei system. These disparities in the yields and characteristics of the nanocellulose produced by these disparate systems can be attributed to the dramatic differences in the mechanisms of action of the dominant enzymes in each system.

  6. Rotating Biological Contactors (RBC's). Student Manual. Biological Treatment Process Control.

    Science.gov (United States)

    Zickefoose, Charles S.

    This student manual provides the textual material for a unit on rotating biological contactors (RBC's). Topic areas considered include: (1) flow patterns of water through RBC installations; (2) basic concepts (shaft and stage); (3) characteristics of biomass; (4) mechanical features (bearings, mechanical drive systems, and air drive systems); (5)…

  7. Optimization of a biological sulfate reduction process

    Energy Technology Data Exchange (ETDEWEB)

    Lebel, A.

    1985-01-01

    A biological sulfate reduction process is presented. It is intended to treat sulfate wastes by converting them to hydrogen sulfide which can be further oxidized to elemental sulfur. An optimization study of a completely-mixed reactor system was performed. Major operating parameters were determined at the bench-scale level. The study was conducted in batch-culture experiments, using a mixed Desulfovibrio culture from sewage. Kinetic values were extrapolated using the Michaelis-Menten model, which best fitted the experimental data. The iron loading and the sulfate loading significantly affected the growth and metabolism of sulfate reducing bacteria (SRB). A model to determine V/sub m/ from the iron and sulfate loading values was explored. The model is limited by sulfate loading greater than 4.3 g/l, where bacterial growth is inhibited. Iron loading is not anticipated to suppress the bacterial metabolism efficiency since it remained in the linear pattern even at inhibition levels. Studies of the metabolic behavior of SRB, using lactic acid as the carbon source, showed a requirement of 2.7 moles of lactate for each mole of sulfate. This technique and its application to the sulfur recovery process are discussed.

  8. Process efficiency simulation for key process parameters in biological methanogenesis

    Directory of Open Access Journals (Sweden)

    Sébastien Bernacchi

    2014-09-01

    Full Text Available New generation biofuels are a suitable approach to produce energy carriers in an almost CO2 neutral way. A promising reaction is the conversion of CO2 and H2 to CH4. This contribution aims at elucidating a bioprocess comprised of a core reaction unit using microorganisms from the Archaea life domain, which metabolize CO2 and H2 to CH4, followed by a gas purification step. The process is simulated and analyzed thermodynamically using the Aspen Plus process simulation environment. The goal of the study was to quantify effects of process parameters on overall process efficiency using a kinetic model derived from previously published experimental results. The used empirical model links the production rate of CH4 and biomass to limiting reactant concentrations. In addition, Aspen Plus was used to improve bioprocess quantification. Impacts of pressure as well as dilution of reactant gas with up to 70% non-reactive gas on overall process efficiency was evaluated. Pressure in the reactor unit of 11 bar at 65℃ with a pressure of 21 bar for gas purification led to an overall process efficiency comprised between 66% and 70% for gaseous product and between 73% and 76% if heat of compression is considered a valuable product. The combination of 2 bar pressure in the reactor and 21 bar for purification was the most efficient combination of parameters. This result shows Aspen Plus potential for similar bioprocess development as it accounts for the energetic aspect of the entire process. In fact, the optimum for the overall process efficiency was found to differ from the optimum of the reaction unit. High efficiency of over 70% demonstrates that biological methanogenesis is a promising alternative for a chemical methanation reaction.

  9. Reading biological processes from nucleotide sequences

    Science.gov (United States)

    Murugan, Anand

    Cellular processes have traditionally been investigated by techniques of imaging and biochemical analysis of the molecules involved. The recent rapid progress in our ability to manipulate and read nucleic acid sequences gives us direct access to the genetic information that directs and constrains biological processes. While sequence data is being used widely to investigate genotype-phenotype relationships and population structure, here we use sequencing to understand biophysical mechanisms. We present work on two different systems. First, in chapter 2, we characterize the stochastic genetic editing mechanism that produces diverse T-cell receptors in the human immune system. We do this by inferring statistical distributions of the underlying biochemical events that generate T-cell receptor coding sequences from the statistics of the observed sequences. This inferred model quantitatively describes the potential repertoire of T-cell receptors that can be produced by an individual, providing insight into its potential diversity and the probability of generation of any specific T-cell receptor. Then in chapter 3, we present work on understanding the functioning of regulatory DNA sequences in both prokaryotes and eukaryotes. Here we use experiments that measure the transcriptional activity of large libraries of mutagenized promoters and enhancers and infer models of the sequence-function relationship from this data. For the bacterial promoter, we infer a physically motivated 'thermodynamic' model of the interaction of DNA-binding proteins and RNA polymerase determining the transcription rate of the downstream gene. For the eukaryotic enhancers, we infer heuristic models of the sequence-function relationship and use these models to find synthetic enhancer sequences that optimize inducibility of expression. Both projects demonstrate the utility of sequence information in conjunction with sophisticated statistical inference techniques for dissecting underlying biophysical

  10. POLISHING THE EFFLUENT FROM AN ANAEROBIC BIOLOGICAL PERCHLORATE TREATMENT PROCESS

    Science.gov (United States)

    Anaerobic biological processes effectively reduce perchlorate to chloride. However, the effluent can be biologically unstable, high in particulates and high in disinfection by-product precursor compounds. Such an effluent would be unsuitable for transmission into a drinking water...

  11. Water in Biological and Chemical Processes

    Science.gov (United States)

    Bagchi, Biman

    2013-11-01

    Part I. Bulk Water: 1. Uniqueness of water; 2. Anomalies of water; 3. Dynamics of water: molecular motions and hydrogen bond breaking kinetics; 4. Inherent structures of liquid water; 5. pH of water; Part II. Water in Biology: Dynamical View and Function: 6. Biological water; 7. Explicit role of water in biological functions; 8. Hydration of proteins; 9. Can we understand protein hydration layer: lessons from computer simulations; 10. Water in and around DNA and RNA; 11. Role of water in protein-DNA interaction; 12. Water surrounding lipid bilayers; 13. Water in Darwin's world; Part III. Water in Complex Chemical Systems: 14. Hydrophilic effects; 15. Hydrophobic effects; 16. Aqueous binary mixtures: amphiphilic effect; 17. Water in and around micelles, reverse micelles and microemulsions; 18. Water in carbon nanotubes; Part IV. Bulk Water: Advanced Topics: 19. Entropy of water; 20. Freezing of water into ice; 21. Supercritical water; 22. Microscopic approaches to understand water anomalies.

  12. The Fungal bZIP Transcription Factor AtfB Controls Virulence-Associated Processes in Aspergillus parasiticus

    Directory of Open Access Journals (Sweden)

    Josephine Wee

    2017-09-01

    Full Text Available Fungal basic leucine zipper (bZIP transcription factors mediate responses to oxidative stress. The ability to regulate stress response pathways in Aspergillus spp. was postulated to be an important virulence-associated cellular process, because it helps establish infection in humans, plants, and animals. Previous studies have demonstrated that the fungal transcription factor AtfB encodes a protein that is associated with resistance to oxidative stress in asexual conidiospores, and AtfB binds to the promoters of several stress response genes. Here, we conducted a gene silencing of AtfB in Aspergillus parasiticus, a well-characterized fungal pathogen of plants, animals, and humans that produces the secondary metabolite and carcinogen aflatoxin, in order to determine the mechanisms by which AtfB contributes to virulence. We show that AtfB silencing results in a decrease in aflatoxin enzyme levels, the down-regulation of aflatoxin accumulation, and impaired conidiospore development in AtfB-silenced strains. This observation is supported by a decrease of AtfB protein levels, and the down-regulation of many genes in the aflatoxin cluster, as well as genes involved in secondary metabolism and conidiospore development. Global expression analysis (RNA Seq demonstrated that AtfB functionally links oxidative stress response pathways to a broader and novel subset of target genes involved in cellular defense, as well as in actin and cytoskeleton arrangement/transport. Thus, AtfB regulates the genes involved in development, stress response, and secondary metabolism in A. parasiticus. We propose that the bZIP regulatory circuit controlled by AtfB provides a large number of excellent cellular targets to reduce fungal virulence. More importantly, understanding key players that are crucial to initiate the cellular response to oxidative stress will enable better control over its detrimental impacts on humans.

  13. Fungal arthritis

    Science.gov (United States)

    ... this page: //medlineplus.gov/ency/article/000444.htm Fungal arthritis To use the sharing features on this page, please enable JavaScript. Fungal arthritis is swelling and irritation (inflammation) of a joint ...

  14. Fungal Meningitis

    Science.gov (United States)

    ... Schedules Preteen & Teen Vaccines Meningococcal Disease Sepsis Fungal Meningitis Language: English Español (Spanish) Recommend on Facebook Tweet ... the brain or spinal cord. Investigation of Fungal Meningitis, 2012 In September 2012, the Centers for Disease ...

  15. Morphology of Filamentous Fungi: Linking Cellular Biology to Process Engineering Using Aspergillus niger

    Science.gov (United States)

    Krull, Rainer; Cordes, Christiana; Horn, Harald; Kampen, Ingo; Kwade, Arno; Neu, Thomas R.; Nörtemann, Bernd

    In various biotechnological processes, filamentous fungi, e.g. Aspergillus niger, are widely applied for the production of high value-added products due to their secretion efficiency. There is, however, a tangled relationship between the morphology of these microorganisms, the transport phenomena and the related productivity. The morphological characteristics vary between freely dispersed mycelia and distinct pellets of aggregated biomass. Hence, advantages and disadvantages for mycel or pellet cultivation have to be balanced out carefully. Due to this inadequate understanding of morphogenesis of filamentous microorganisms, fungal morphology, along with reproducibility of inocula of the same quality, is often a bottleneck of productivity in industrial production. To obtain an optimisation of the production process it is of great importance to gain a better understanding of the molecular and cell biology of these microorganisms as well as the approaches in biochemical engineering and particle technique, in particular to characterise the interactions between the growth conditions, cell morphology, spore-hyphae-interactions and product formation. Advances in particle and image analysis techniques as well as micromechanical devices and their applications to fungal cultivations have made available quantitative morphological data on filamentous cells. This chapter provides the ambitious aspects of this line of action, focussing on the control and characterisation of the morphology, the transport gradients and the approaches to understand the metabolism of filamentous fungi. Based on these data, bottlenecks in the morphogenesis of A. niger within the complex production pathways from gene to product should be identified and this may improve the production yield.

  16. Morphology of filamentous fungi: linking cellular biology to process engineering using Aspergillus niger.

    Science.gov (United States)

    Krull, Rainer; Cordes, Christiana; Horn, Harald; Kampen, Ingo; Kwade, Arno; Neu, Thomas R; Nörtemann, Bernd

    2010-01-01

    In various biotechnological processes, filamentous fungi, e.g. Aspergillus niger, are widely applied for the production of high value-added products due to their secretion efficiency. There is, however, a tangled relationship between the morphology of these microorganisms, the transport phenomena and the related productivity. The morphological characteristics vary between freely dispersed mycelia and distinct pellets of aggregated biomass. Hence, advantages and disadvantages for mycel or pellet cultivation have to be balanced out carefully. Due to this inadequate understanding of morphogenesis of filamentous microorganisms, fungal morphology, along with reproducibility of inocula of the same quality, is often a bottleneck of productivity in industrial production. To obtain an optimisation of the production process it is of great importance to gain a better understanding of the molecular and cell biology of these microorganisms as well as the approaches in biochemical engineering and particle technique, in particular to characterise the interactions between the growth conditions, cell morphology, spore-hyphae-interactions and product formation. Advances in particle and image analysis techniques as well as micromechanical devices and their applications to fungal cultivations have made available quantitative morphological data on filamentous cells. This chapter provides the ambitious aspects of this line of action, focussing on the control and characterisation of the morphology, the transport gradients and the approaches to understand the metabolism of filamentous fungi. Based on these data, bottlenecks in the morphogenesis of A. niger within the complex production pathways from gene to product should be identified and this may improve the production yield.

  17. Identification & Characterization of Fungal Ice Nucleation Proteins

    Science.gov (United States)

    Scheel, Jan Frederik; Kunert, Anna Theresa; Kampf, Christopher Johannes; Mauri, Sergio; Weidner, Tobias; Pöschl, Ulrich; Fröhlich-Nowoisky, Janine

    2016-04-01

    Freezing of water at relatively warm subfreezing temperatures is dependent on ice nucleation catalysis facilitated by ice nuclei (IN). These IN can be of various origins and although extensive research was done and progress was achieved, the nature and mechanisms leading to an effective IN are to date still poorly understood. Some of the most important processes of our geosphere like the water cycle are highly dependent on effective ice nucleation at temperatures between -2°C - -8°C, a temperature range which is almost exclusively covered by biological IN (BioIN). BioIN are usually macromolecular structures of biological polymers. Sugars as well as proteins have been reported to serve as IN and the best characterized BioIN are ice nucleation proteins (IN-P) from gram negative bacteria. Fungal strains from Fusarium spp. were described to be effective IN at subfreezing temperatures up to -2°C already 25 years ago and more and more fungal species are described to serve as efficient IN. Fungal IN are also thought to be proteins or at least contain a proteinaceous compound, but to date the fungal IN-P primary structure as well as their coding genetic elements of all IN active fungi are unknown. The aim of this study is a.) to identify the proteins and their coding genetic elements from IN active fungi (F. acuminatum, F. avenaceum, M. alpina) and b.) to characterize the mechanisms by which fungal IN serve as effective IN. We designed an interdisciplinary approach using biological, analytical and physical methods to identify fungal IN-P and describe their biological, chemical, and physical properties.

  18. ECOMAT INC. BIOLOGICAL DENITRIFICATION PROCESS, ITER

    Science.gov (United States)

    EcoMat, Inc. of Hayward, California (EcoMat) has developed an ex situ anoxic biofilter biodenitrification (BDN) process. The process uses specific biocarriers and bacteria to treat nitrate-contaminated water and employs a patented reactor that retains biocarrier within the syste...

  19. Similar processes but different environmental filters for soil bacterial and fungal community composition turnover on a broad spatial scale.

    Directory of Open Access Journals (Sweden)

    Nicolas Chemidlin Prévost-Bouré

    Full Text Available Spatial scaling of microorganisms has been demonstrated over the last decade. However, the processes and environmental filters shaping soil microbial community structure on a broad spatial scale still need to be refined and ranked. Here, we compared bacterial and fungal community composition turnovers through a biogeographical approach on the same soil sampling design at a broad spatial scale (area range: 13300 to 31000 km2: i to examine their spatial structuring; ii to investigate the relative importance of environmental selection and spatial autocorrelation in determining their community composition turnover; and iii to identify and rank the relevant environmental filters and scales involved in their spatial variations. Molecular fingerprinting of soil bacterial and fungal communities was performed on 413 soils from four French regions of contrasting environmental heterogeneity (Landesprocesses and filters was assessed by distance-based redundancy analysis. This study demonstrates significant community composition turnover rates for soil bacteria and fungi, which were dependent on the region. Bacterial and fungal community composition turnovers were mainly driven by environmental selection explaining from 10% to 20% of community composition variations, but spatial variables also explained 3% to 9% of total variance. These variables highlighted significant spatial autocorrelation of both communities unexplained by the environmental variables measured and could partly be explained by dispersal limitations. Although the identified filters and their hierarchy were dependent on the region and organism, selection was systematically based on a common group of environmental variables: pH, trophic resources, texture and land use. Spatial autocorrelation was also important at

  20. Fungal virulence and development is regulated by alternative pre-mRNA 3'end processing in Magnaporthe oryzae.

    Directory of Open Access Journals (Sweden)

    Marina Franceschetti

    2011-12-01

    Full Text Available RNA-binding proteins play a central role in post-transcriptional mechanisms that control gene expression. Identification of novel RNA-binding proteins in fungi is essential to unravel post-transcriptional networks and cellular processes that confer identity to the fungal kingdom. Here, we carried out the functional characterisation of the filamentous fungus-specific RNA-binding protein RBP35 required for full virulence and development in the rice blast fungus. RBP35 contains an N-terminal RNA recognition motif (RRM and six Arg-Gly-Gly tripeptide repeats. Immunoblots identified two RBP35 protein isoforms that show a steady-state nuclear localisation and bind RNA in vitro. RBP35 coimmunoprecipitates in vivo with Cleavage Factor I (CFI 25 kDa, a highly conserved protein involved in polyA site recognition and cleavage of pre-mRNAs. Several targets of RBP35 have been identified using transcriptomics including 14-3-3 pre-mRNA, an important integrator of environmental signals. In Magnaporthe oryzae, RBP35 is not essential for viability but regulates the length of 3'UTRs of transcripts with developmental and virulence-associated functions. The Δrbp35 mutant is affected in the TOR (target of rapamycin signaling pathway showing significant changes in nitrogen metabolism and protein secretion. The lack of clear RBP35 orthologues in yeast, plants and animals indicates that RBP35 is a novel auxiliary protein of the polyadenylation machinery of filamentous fungi. Our data demonstrate that RBP35 is the fungal equivalent of metazoan CFI 68 kDa and suggest the existence of 3'end processing mechanisms exclusive to the fungal kingdom.

  1. Biological processes of the northern Indian Ocean

    Digital Repository Service at National Institute of Oceanography (India)

    Madhupratap, M.; Parulekar, A.H.

    Physical processes such as wind-driven coastal run-off during the monsoons and convective overturning of surface waters due to winter cooling bring in nutrients into the euphotic zone and enhance primary productivity of the northern Indian Ocean...

  2. IRIDOID GLYCOSIDES FROM LINARIA GENISTIFOLIA (L. MILL. IN BIOLOGICAL CONTROL OF SOIL-BORNE FUNGAL PATHOGENS OF WHEAT AND SOME STRUCTURE CONSIDERATIONS

    Directory of Open Access Journals (Sweden)

    Natalia Mashcenko

    2015-06-01

    Full Text Available Biological activity of the iridoid glycosides extract from Linaria genistifolia (L. Mill. has been investigated, namely its influence on the resistance of the winter wheat Odesschi 51 plant to the caused by the Fusarium oxysporum and Helminthosporium avenae pathogenic fungi root rot. Our results indicate that summary iridoid glycosides from this plant, containing four major known compounds: 5-O-allosylantirrinoside, antirrinoside, linarioside and 6-β-hidroxiantirride, can be successfully employed in biological control of the afore-mentioned wheat pathogens: it stimulates wheat grains germination and embryonic root growth in conditions of fungal infection. 1H and 13C NMR characteristics of 5-O-allosylantirrinoside in Py-d5 are for the first time presented. Structures of two conformers of 5-O-allosylantirrinoside in D2O and Py-d5 solutions are proposed, based on the experimental NMR evidence and molecular modelling studies.

  3. Recent Developments in Biological Hydrogen Production Processes

    Directory of Open Access Journals (Sweden)

    DEBABRATA DAS

    2008-07-01

    Full Text Available Biohydrogen production technology can utilize renewable energy sources like biomass for the generation of hydrogen, the cleanest form of energy for the use of mankind. However, major constraints to the commercialization of these processes include lower hydrogen yields and rates of hydrogen production. To overcome these bottlenecks intensive research work has already been carried out on the advancement of these processes such as the development of genetically modified microorganisms, the improvement of the bioreactor design, molecular engineering of the key enzyme hydrogenases, the development of two stage processes, etc. The present paper explores the recent advancements that have been made till date and also presents the state of the art in molecular strategies to improve the hydrogen production.

  4. Brown rot fungal early stage decay mechanism as a biological pretreatment for softwood biomass in biofuel production

    Energy Technology Data Exchange (ETDEWEB)

    Ray, Michael J.; Leak, David J.; Spanu, Pietro D.; Murphy, Richard J. [Division of Biology, Faculty of Natural Sciences, Imperial College London, London SW7 2AZ (United Kingdom); Porter Alliance, Imperial College London, London SW7 2AZ (United Kingdom)

    2010-08-15

    A current barrier to the large-scale production of lignocellulosic biofuels is the cost associated with the energy and chemical inputs required for feedstock pretreatment and hydrolysis. The use of controlled partial biological degradation to replace elements of the current pretreatment technologies would offer tangible energy and cost benefits to the whole biofuel process. It has been known for some time from studies of wood decay that, in the early stages of growth in wood, brown rot fungi utilise a mechanism that causes rapid and extensive depolymerisation of the carbohydrate polymers of the wood cell wall. The brown rot hyphae act as delivery vectors to the plant cell wall for what is thought to be a combination of a localised acid pretreatment and a hydroxyl radical based depolymerisation of the cell wall carbohydrate polymers. It is this quality that we have exploited in the present work to enhance the saccharification potential of softwood forest residues for biofuel production. Here we show that after restricted exposure of pine sapwood to brown rot fungi, glucose yields following enzymatic saccharification are significantly increased. Our results demonstrate the potential of using brown rot fungi as a biological pretreatment for biofuel production. (author)

  5. Hydrogen production by biological processes: a survey of literature

    Energy Technology Data Exchange (ETDEWEB)

    Das, Debabrata [Indian Inst. of Technology, Dept. of Biotechnology, Kharagpur (India); Miami Univ., Clean Energy Research Inst., Coral Gables, FL (United States); Veziroglu, T. Nejat [Miami Univ., Clean Energy Research Inst., Coral Gables, FL (United States)

    2001-07-01

    Hydrogen is the fuel of the future mainly due to its high conversion efficiency, recyclability and nonpolluting nature. Biological hydrogen production processes are found to be more environment friendly and less energy intensive as compared to thermochemical and electrochemical processes. They are mostly controlled by either photosynthetic or fermentative organisms. Till today, more emphasis has been given on the former processes. Nitrogenase and hydrogenase play very important roles. Genetic manipulation of cyanobacteria (hydrogenase negative gene) improves the hydrogen generation. The paper presents a survey of biological hydrogen production processes. The micro-organism and biochemical pathways involved in hydrogen generation processes are presented in some detail. Several developmental works are discussed. Immobilised system is found suitable for the continuous hydrogen production. About 28% of energy can be recovered in the form of hydrogen using sucrose as substrate. Fermentative hydrogen production processes have some edge over the other biological processes. (Author)

  6. Structural modification of hemicelluloses and lignin based on the biorefinery process with white-rot fungal.

    Science.gov (United States)

    Ma, Jian-Feng; Yang, Hai-Yan; Kun, Wang; Liu, Xing-E

    2016-11-20

    On the concept of biorefinery, hemicellulosic and lignin fractions were isolated from white-rot fungal Trametes velutina D10149 biodegraded poplar, and the structural modification was elucidated in detail according to the different incubation duration. Transversal-section Raman images showed that the fiber secondary walls were preferentially degraded, whereas the compound middle lamellae, including the cell corner regions, were mainly intact after 16 weeks incubation. More importantly, lignin and carbohydrates were simultaneously removed within the fiber secondary wall. From wet chemistry analysis, the yields and structural properties for both hemicellulosic and lignin fractions were not significantly altered. The synergistic effect of ligninolytic system finally obviously appeared after 16 weeks incubation, evidenced by the remarkable decrement of hemicellulose and lignin molecular weights. Additionally, the preferential degradation of S units in lignin biomacromolecule was further confirmed by composition analysis of cell wall phenolics and the integration of 2D NMR correlations in the aromatic region. Copyright © 2016 Elsevier Ltd. All rights reserved.

  7. Solid-state fermentation: a continuous process for fungal tannase production.

    Science.gov (United States)

    van de Lagemaat, J; Pyle, D L

    2004-09-30

    Truly continuous solid-state fermentations with operating times of 2-3 weeks were conducted in a prototype bioreactor for the production of fungal (Penicillium glabrum) tannase from a tannin-containing model substrate. Substantial quantities of the enzyme were synthesized throughout the operating periods and (imperfect) steady-state conditions seemed to be achieved soon after start-up of the fermentations. This demonstrated for the first time the possibility of conducting solid-state fermentations in the continuous mode and with a constant noninoculated feed. The operating variables and fermentation conditions in the bioreactor were sufficiently well predicted for the basic reinoculation concept to succeed. However, an incomplete understanding of the microbial mechanisms, the experimental system, and their interaction indicated the need for more research in this novel area of solid-state fermentation.

  8. Biological processes as indicators of sustainable plantation forestry ...

    African Journals Online (AJOL)

    Biological processes as indicators of sustainable plantation forestry : evidence for sustainable plantation forestry. ... may be useful in the sustainable management of nutrient cycling, yield production, pest outbreaks and water use and quality.

  9. Understanding the Biological Roles of Pectins in Plants through Physiological and Functional Characterizations of Plant and Fungal Mutants

    DEFF Research Database (Denmark)

    Stranne, Maria

    wall acetylation (Chapter 2), identification of a candidate gene required for acetylation of pectin (Chapter 3), screening of pectin mutants for susceptibility to the nectrotrophic fungal pathogen Botrytis cinerea (Chapter 4), and identification and functional characterization of an arabinan......-degrading enzyme secreted by B. cinerea during infection of plants (Chapter 5). The results described resulted in valuable new knowledge regarding the role of pectin acetylation and arabinosylation in the model plant Arabidopsis thaliana documented in three published research papers, one manuscript and one...

  10. Application of Molecular Biological Methods in the Study of AM Fungal Diversity%分子生物学技术在AM真菌多样性研究中的应用

    Institute of Scientific and Technical Information of China (English)

    程春泉; 贺学礼; 赵丽丽; 陈伟燕

    2014-01-01

    丛枝菌根(arbuscular mycorrhiza,AM)真菌是一类能与高等植物形成菌根的古老共生真菌,由于AM真菌不能纯培养,因此通过传统形态学方法研究存在局限性和不稳定性。近年来,分子生物学方法已被广泛应用于AM真菌多样性的研究。从研究材料选择、DNA的提取、AM真菌特异性引物、分子生物学方法方面综述了分子生物学技术在AM真菌多样性研究中的一般过程以及重要应用,并展望了应用前景。%Arbuscular mycorrhizal(AM)fungi are ancient obligate symbiotic endophytes,which have a rich diversity in the process of plant co-evolutionary.As AM fungi have not been cultured in vitro,there are significant limitations and instability using morphological methods. Recently, molecular biological methods have been widely used in the study of AM fungal diversity and have made remarkable achievements.The authors outline the process and significant use of molecular biological methods in the study of AM fungal diversity,discuss some related problems,and introduce present and future research trends.

  11. [Fungal keratitis].

    Science.gov (United States)

    Bourcier, T; Sauer, A; Letscher-Bru, V; Candolfi, E

    2011-10-01

    Fungal keratitis (keratomycosis) is a rare but severe cause of infectious keratitis. Its incidence is constant, due to steroids or immunosuppressive treatments and contact lenses. Pathogens often invade corneas with chronic diseases of the ocular surface but fungal keratitis is also observed following injuries with plant foreign objects. The poor prognosis of these infections is related both to fungal virulence, decreased host defense, as well as delays in diagnosis. However, new antimycotic treatments allow better management and prognosis.

  12. Diversity of endophytic fungal community of cacao (Theobroma cacao L. and biological control of Crinipellis perniciosa, causal agent of Witches' Broom Disease

    Directory of Open Access Journals (Sweden)

    2005-02-01

    Full Text Available The basidiomycete fungus Crinipellis perniciosa (Stahel Singer is the causal agent of Witches' Broom Disease of Cacao (Theobroma cacao L. which is the main factor limiting cacao production in the Americas. Pod losses of up to 90% are experienced in affected areas as evidenced by the 50% drop in production in Bahia province, Brazil following the arrival of the C. perniciosa in the area in 1989. The disease has proven particularly difficult to control and many farmers in affected areas have given up cacao cultivation. In order to evaluate the potential of endophytes as a biological control agent of this phytopathogen, the endophytic fungal community of resistant and susceptible cacao plants as well as affected branches was studied between 2001 and 2002. The fungal community was identified by morphological traits and rDNA sequencing as belonging to the genera Acremonium, Blastomyces, Botryosphaeria, Cladosporium, Colletotrichum, Cordyceps, Diaporthe, Fusarium, Geotrichum, Gibberella, Gliocladium, Lasiodiplodia, Monilochoetes, Nectria, Pestalotiopsis, Phomopsis, Pleurotus, Pseudofusarium, Rhizopycnis, Syncephalastrum, Trichoderma, Verticillium and Xylaria. These fungi were evaluated both in vitro and in vivo by their ability to inhibit C. perniciosa. Among these, some were identified as potential antagonists, but only one fungus (Gliocladium catenulatum reduced the incidence of Witches' Broom Disease in cacao seedlings to 70%.

  13. Identification and analysis of candidate fungal tRNA 3'-end processing endonucleases tRNase Zs, homologs of the putative prostate cancer susceptibility protein ELAC2

    Directory of Open Access Journals (Sweden)

    Zhao Wei

    2010-09-01

    Full Text Available Abstract Background tRNase Z is the endonuclease that is responsible for the 3'-end processing of tRNA precursors, a process essential for tRNA 3'-CCA addition and subsequent tRNA aminoacylation. Based on their sizes, tRNase Zs can be divided into the long (tRNase ZL and short (tRNase ZS forms. tRNase ZL is thought to have arisen from a tandem gene duplication of tRNase ZS with further sequence divergence. The species distribution of tRNase Z is complex. Fungi represent an evolutionarily diverse group of eukaryotes. The recent proliferation of fungal genome sequences provides an opportunity to explore the structural and functional diversity of eukaryotic tRNase Zs. Results We report a survey and analysis of candidate tRNase Zs in 84 completed fungal genomes, spanning a broad diversity of fungi. We find that tRNase ZL is present in all fungi we have examined, whereas tRNase ZS exists only in the fungal phyla Basidiomycota, Chytridiomycota and Zygomycota. Furthermore, we find that unlike the Pezizomycotina and Saccharomycotina, which contain a single tRNase ZL, Schizosaccharomyces fission yeasts (Taphrinomycotina contain two tRNase ZLs encoded by two different tRNase ZL genes. These two tRNase ZLs are most likely localized to the nucleus and mitochondria, respectively, suggesting partitioning of tRNase Z function between two different tRNase ZLs in fission yeasts. The fungal tRNase Z phylogeny suggests that tRNase ZSs are ancestral to tRNase ZLs. Additionally, the evolutionary relationship of fungal tRNase ZLs is generally consistent with known phylogenetic relationships among the fungal species and supports tRNase ZL gene duplication in certain fungal taxa, including Schizosaccharomyces fission yeasts. Analysis of tRNase Z protein sequences reveals putative atypical substrate binding domains in most fungal tRNase ZSs and in a subset of fungal tRNase ZLs. Finally, we demonstrate the presence of pseudo-substrate recognition and catalytic motifs at

  14. Electron beam/biological processing of anaerobic and aerobic sludge

    Science.gov (United States)

    Čuba, V.; Pospíšil, M.; Múčka, V.; Jeníček, P.; Dohányos, M.; Zábranská, J.

    2003-01-01

    Besides common chemical and biological methods, the radiation technology is a promising way of sludge treatment. The paper describes possibilities of combined accelerated electrons/biological processing of both anaerobic and aerobic sludge. Besides one-shot experiments, experimental reactors for the simulation of anaerobic processes have been used. Main effort has been aimed to decrease organic compounds concentration and overall volume of solids, to improve some physico-chemical parameters of sludge, to validate hygienisation effects of the ionising radiation, and in the case of anaerobic sludge, to increase the volume of the produced biogas. Positive effects of the electron beam processing have been observed on all previously named parameters.

  15. An introduction to stochastic processes with applications to biology

    CERN Document Server

    Allen, Linda J S

    2010-01-01

    An Introduction to Stochastic Processes with Applications to Biology, Second Edition presents the basic theory of stochastic processes necessary in understanding and applying stochastic methods to biological problems in areas such as population growth and extinction, drug kinetics, two-species competition and predation, the spread of epidemics, and the genetics of inbreeding. Because of their rich structure, the text focuses on discrete and continuous time Markov chains and continuous time and state Markov processes.New to the Second EditionA new chapter on stochastic differential equations th

  16. (Post-)genomics approaches in fungal research

    NARCIS (Netherlands)

    Aguilar-Pontes, María Victoria; de Vries, Ronald P; Zhou, M.; van den Brink, J.

    2014-01-01

    To date, hundreds of fungal genomes have been sequenced and many more are in progress. This wealth of genomic information has provided new directions to study fungal biodiversity. However, to further dissect and understand the complicated biological mechanisms involved in fungal life styles, functio

  17. Fungal Genomics Program

    Energy Technology Data Exchange (ETDEWEB)

    Grigoriev, Igor

    2012-03-12

    The JGI Fungal Genomics Program aims to scale up sequencing and analysis of fungal genomes to explore the diversity of fungi important for energy and the environment, and to promote functional studies on a system level. Combining new sequencing technologies and comparative genomics tools, JGI is now leading the world in fungal genome sequencing and analysis. Over 120 sequenced fungal genomes with analytical tools are available via MycoCosm (www.jgi.doe.gov/fungi), a web-portal for fungal biologists. Our model of interacting with user communities, unique among other sequencing centers, helps organize these communities, improves genome annotation and analysis work, and facilitates new larger-scale genomic projects. This resulted in 20 high-profile papers published in 2011 alone and contributing to the Genomics Encyclopedia of Fungi, which targets fungi related to plant health (symbionts, pathogens, and biocontrol agents) and biorefinery processes (cellulose degradation, sugar fermentation, industrial hosts). Our next grand challenges include larger scale exploration of fungal diversity (1000 fungal genomes), developing molecular tools for DOE-relevant model organisms, and analysis of complex systems and metagenomes.

  18. Hidden Markov processes theory and applications to biology

    CERN Document Server

    Vidyasagar, M

    2014-01-01

    This book explores important aspects of Markov and hidden Markov processes and the applications of these ideas to various problems in computational biology. The book starts from first principles, so that no previous knowledge of probability is necessary. However, the work is rigorous and mathematical, making it useful to engineers and mathematicians, even those not interested in biological applications. A range of exercises is provided, including drills to familiarize the reader with concepts and more advanced problems that require deep thinking about the theory. Biological applications are t

  19. Treatment of slaughter wastewater by coagulation sedimentation-anaerobic biological filter and biological contact oxidation process

    Science.gov (United States)

    Sun, M.; Yu, P. F.; Fu, J. X.; Ji, X. Q.; Jiang, T.

    2017-08-01

    The optimal process parameters and conditions for the treatment of slaughterhouse wastewater by coagulation sedimentation-AF - biological contact oxidation process were studied to solve the problem of high concentration organic wastewater treatment in the production of small and medium sized slaughter plants. The suitable water temperature and the optimum reaction time are determined by the experiment of precipitation to study the effect of filtration rate and reflux ratio on COD and SS in anaerobic biological filter and the effect of biofilm thickness and gas water ratio on NH3-N and COD in biological contact oxidation tank, and results show that the optimum temperature is 16-24°C, reaction time is 20 min in coagulating sedimentation, the optimum filtration rate is 0.6 m/h, and the optimum reflux ratio is 300% in anaerobic biological filter reactor. The most suitable biological film thickness range of 1.8-2.2 mm and the most suitable gas water ratio is 12:1-14:1 in biological contact oxidation pool. In the coupling process of continuous operation for 80 days, the average effluent’s mass concentrations of COD, TP and TN were 15.57 mg/L, 40 mg/L and 0.63 mg/L, the average removal rates were 98.93%, 86.10%, 88.95%, respectively. The coupling process has stable operation effect and good effluent quality, and is suitable for the industrial application.

  20. Towards the understanding of network information processing in biology

    Science.gov (United States)

    Singh, Vijay

    Living organisms perform incredibly well in detecting a signal present in the environment. This information processing is achieved near optimally and quite reliably, even though the sources of signals are highly variable and complex. The work in the last few decades has given us a fair understanding of how individual signal processing units like neurons and cell receptors process signals, but the principles of collective information processing on biological networks are far from clear. Information processing in biological networks, like the brain, metabolic circuits, cellular-signaling circuits, etc., involves complex interactions among a large number of units (neurons, receptors). The combinatorially large number of states such a system can exist in makes it impossible to study these systems from the first principles, starting from the interactions between the basic units. The principles of collective information processing on such complex networks can be identified using coarse graining approaches. This could provide insights into the organization and function of complex biological networks. Here I study models of biological networks using continuum dynamics, renormalization, maximum likelihood estimation and information theory. Such coarse graining approaches identify features that are essential for certain processes performed by underlying biological networks. We find that long-range connections in the brain allow for global scale feature detection in a signal. These also suppress the noise and remove any gaps present in the signal. Hierarchical organization with long-range connections leads to large-scale connectivity at low synapse numbers. Time delays can be utilized to separate a mixture of signals with temporal scales. Our observations indicate that the rules in multivariate signal processing are quite different from traditional single unit signal processing.

  1. Advances in isothermal amplification: novel strategies inspired by biological processes.

    Science.gov (United States)

    Li, Jia; Macdonald, Joanne

    2015-02-15

    Nucleic acid amplification is an essential process in biological systems. The in vitro adoption of this process has resulted in powerful techniques that underpin modern molecular biology. The most common tool is polymerase chain reaction (PCR). However, the requirement for a thermal cycler has somewhat limited applications of this classic nucleic acid amplification technique. Isothermal amplification, on the other hand, obviates the use of a thermal cycler because reactions occur at a single temperature. Isothermal amplification methods are diverse, but all have been developed from an understanding of natural nucleic acid amplification processes. Here we review current isothermal amplification methods as classified by their enzymatic mechanisms. We compare their advantages, disadvantages, efficiencies, and applications. Finally, we mention some new developments associated with this technology, and consider future possibilities in molecular engineering and recombinant technologies that may develop from an appreciation of the molecular biology of natural systems.

  2. Model simulations of fungal spore distribution over the Indian region

    Science.gov (United States)

    Ansari, Tabish U.; Valsan, Aswathy E.; Ojha, N.; Ravikrishna, R.; Narasimhan, Balaji; Gunthe, Sachin S.

    2015-12-01

    Fungal spores play important role in the health of humans, animals, and plants by constituting a class of the primary biological aerosol particles (PBAPs). Additionally, these could mediate the hydrological cycle by acting as nuclei for ice and cloud formation (IN and CCN respectively). Various processes in the biosphere and the variations in the meteorological conditions control the releasing mechanism of spores through active wet and dry discharge. In the present paper, we simulate the concentration of fungal spores over the Indian region during three distinct meteorological seasons by combining a numerical model (WRF-Chem) with the fungal spore emissions based on land-use type. Maiden high-resolution regional simulations revealed large spatial gradient and strong seasonal dependence in the concentration of fungal spores over the Indian region. The fungal spore concentrations are found to be the highest during winter (0-70 μg m-3 in December), moderately higher during summer (0-35 μg m-3 in May) and lowest during the monsoon (0-25 μg m-3 in July). The elevated concentrations during winter are attributed to the shallower boundary layer trapping the emitted fungal spores in smaller volume. In contrast, the deeper boundary layer mixing in May and stronger monsoonal-convection in July distribute the fungal spores throughout the lower troposphere (∼5 km). We suggest that the higher fungal spore concentrations during winter could have potential health impacts. While, stronger vertical mixing could enable fungal spores to influence the cloud formation during summer and monsoon. Our study provides the first information about the distribution and seasonal variation of fungal spores over the densely populated and observationally sparse Indian region.

  3. Highly Efficient Gluten Degradation by Lactobacilli and Fungal Proteases during Food Processing: New Perspectives for Celiac Disease▿

    Science.gov (United States)

    Rizzello, Carlo G.; De Angelis, Maria; Di Cagno, Raffaella; Camarca, Alessandra; Silano, Marco; Losito, Ilario; De Vincenzi, Massimo; De Bari, Maria D.; Palmisano, Francesco; Maurano, Francesco; Gianfrani, Carmen; Gobbetti, Marco

    2007-01-01

    Presently, the only effective treatment for celiac disease is a life-long gluten-free diet. In this work, we used a new mixture of selected sourdough lactobacilli and fungal proteases to eliminate the toxicity of wheat flour during long-time fermentation. Immunological (R5 antibody-based sandwich and competitive enzyme-linked immunosorbent assay [ELISA] and R5 antibody-based Western blot), two-dimensional electrophoresis, and mass spectrometry (matrix-assisted laser desorption ionization-time of flight, strong-cation-exchange-liquid chromatography/capillary liquid chromatography-electrospray ionization-quadrupole-time of flight [SCX-LC/CapLC-ESI-Q-TOF], and high-pressure liquid chromatography-electrospray ionization-ion trap mass spectrometry) analyses were used to determine the gluten concentration. Assays based on the proliferation of peripheral blood mononuclear cells (PBMCs) and gamma interferon production by PBMCs and intestinal T-cell lines (iTCLs) from 12 celiac disease patients were used to determine the protein toxicity of the pepsin-trypsin digests from fermented wheat dough (sourdough). As determined by R5-based sandwich and competitive ELISAs, the residual concentration of gluten in sourdough was 12 ppm. Albumins, globulins, and gliadins were completely hydrolyzed, while ca. 20% of glutenins persisted. Low-molecular-weight epitopes were not detectable by SCX-LC/CapLC-ESI-Q-TOF mass spectrometry and R5-based Western blot analyses. The kinetics of the hydrolysis of the 33-mer by lactobacilli were highly efficient. All proteins extracted from sourdough activated PBMCs and induced gamma interferon production at levels comparable to the negative control. None of the iTCLs demonstrated immunoreactivity towards pepsin-trypsin digests. Bread making was standardized to show the suitability of the detoxified wheat flour. Food processing by selected sourdough lactobacilli and fungal proteases may be considered an efficient approach to eliminate gluten toxicity

  4. Highly efficient gluten degradation by lactobacilli and fungal proteases during food processing: new perspectives for celiac disease.

    Science.gov (United States)

    Rizzello, Carlo G; De Angelis, Maria; Di Cagno, Raffaella; Camarca, Alessandra; Silano, Marco; Losito, Ilario; De Vincenzi, Massimo; De Bari, Maria D; Palmisano, Francesco; Maurano, Francesco; Gianfrani, Carmen; Gobbetti, Marco

    2007-07-01

    Presently, the only effective treatment for celiac disease is a life-long gluten-free diet. In this work, we used a new mixture of selected sourdough lactobacilli and fungal proteases to eliminate the toxicity of wheat flour during long-time fermentation. Immunological (R5 antibody-based sandwich and competitive enzyme-linked immunosorbent assay [ELISA] and R5 antibody-based Western blot), two-dimensional electrophoresis, and mass spectrometry (matrix-assisted laser desorption ionization-time of flight, strong-cation-exchange-liquid chromatography/capillary liquid chromatography-electrospray ionization-quadrupole-time of flight [SCX-LC/CapLC-ESI-Q-TOF], and high-pressure liquid chromatography-electrospray ionization-ion trap mass spectrometry) analyses were used to determine the gluten concentration. Assays based on the proliferation of peripheral blood mononuclear cells (PBMCs) and gamma interferon production by PBMCs and intestinal T-cell lines (iTCLs) from 12 celiac disease patients were used to determine the protein toxicity of the pepsin-trypsin digests from fermented wheat dough (sourdough). As determined by R5-based sandwich and competitive ELISAs, the residual concentration of gluten in sourdough was 12 ppm. Albumins, globulins, and gliadins were completely hydrolyzed, while ca. 20% of glutenins persisted. Low-molecular-weight epitopes were not detectable by SCX-LC/CapLC-ESI-Q-TOF mass spectrometry and R5-based Western blot analyses. The kinetics of the hydrolysis of the 33-mer by lactobacilli were highly efficient. All proteins extracted from sourdough activated PBMCs and induced gamma interferon production at levels comparable to the negative control. None of the iTCLs demonstrated immunoreactivity towards pepsin-trypsin digests. Bread making was standardized to show the suitability of the detoxified wheat flour. Food processing by selected sourdough lactobacilli and fungal proteases may be considered an efficient approach to eliminate gluten toxicity.

  5. Fungal rhinosinusitis.

    Science.gov (United States)

    Netkovski, J; Shirgoska, B

    2012-01-01

    Fungi are a major part of the ecosystem. In fact, over 250 fungal species have been reported to produce human infections. More than ever, fungal diseases have emerged as major challenges for physicians and clinical microbiologists. The aim of this study was to summarize the diagnostic procedures and endoscopic surgical treatment of patients with fungal rhinosinusitis. Eleven patients, i.e. 10% of all cases with chronic inflammation of paranasal sinuses, were diagnosed with fungal rhinosinusitis. Ten of them were patients with a noninvasive form, fungus ball, while only one patient was classified in the group of chronic invasive fungal rhinosinusitis which was accompanied with diabetes mellitus. All patients underwent nasal endoscopic examination, skin allergy test and had preoperative computed tomography (CT) scans of the sinuses in axial and coronal plane. Functional endoscopic sinus surgery was performed in 10 patients with fungus ball, while a combined approach, endoscopic and external, was done in the immunocompromised patient with the chronic invasive form of fungal rhinosinusitis. Most cases (9/11) had unilateral infection. In 9 cases infection was restricted to a single sinus, and here the maxillary sinus was most commonly affected (8/9) with infections in other patients being restricted to the sphenoid sinus (1/9). Two patients had infections affecting two or more sinuses. In patients with an invasive form of the fungal disease there was involvement of the periorbital and orbital tissues. In patients with fungus ball the mycelia masses were completely removed from the sinus cavities. Long-term outcome was positive in all the operated patients and no recurrence was detected. The most frequent fungal agent that caused rhinosinusitis was Aspergillus. Mucor was identified in the patient with the invasive form. Endoscopic examination of the nasal cavity and CT scanning of paranasal sinuses followed by endoscopic sinus surgery were represented as valuable

  6. Boolean Models of Biological Processes Explain Cascade-Like Behavior.

    Science.gov (United States)

    Chen, Hao; Wang, Guanyu; Simha, Rahul; Du, Chenghang; Zeng, Chen

    2016-01-29

    Biological networks play a key role in determining biological function and therefore, an understanding of their structure and dynamics is of central interest in systems biology. In Boolean models of such networks, the status of each molecule is either "on" or "off" and along with the molecules interact with each other, their individual status changes from "on" to "off" or vice-versa and the system of molecules in the network collectively go through a sequence of changes in state. This sequence of changes is termed a biological process. In this paper, we examine the common perception that events in biomolecular networks occur sequentially, in a cascade-like manner, and ask whether this is likely to be an inherent property. In further investigations of the budding and fission yeast cell-cycle, we identify two generic dynamical rules. A Boolean system that complies with these rules will automatically have a certain robustness. By considering the biological requirements in robustness and designability, we show that those Boolean dynamical systems, compared to an arbitrary dynamical system, statistically present the characteristics of cascadeness and sequentiality, as observed in the budding and fission yeast cell- cycle. These results suggest that cascade-like behavior might be an intrinsic property of biological processes.

  7. Classification of biological and non-biological fluvial particles using image processing and artificial neural network

    Science.gov (United States)

    Shrestha, Bim Prasad; Shrestha, Nabin Kumar; Poudel, Laxman

    2009-04-01

    Particles flowing along with water largely affect safe drinking water, irrigation, aquatic life preservation and hydropower generation. This research describes activities that lead to development of fluvial particle characterization that includes detection of biological and non-biological particles and shape characterization using Image Processing and Artificial Neural Network (ANN). Fluvial particles are characterized based on multi spectral images processing using ANN. Images of wavelength of 630nm and 670nm are taken as most distinctive characterizing properties of biological and non-biological particles found in Bagmati River of Nepal. The samples were collected at pre-monsoon, monsoon and post-monsoon seasons. Random samples were selected and multi spectral images are processed using MATLAB 6.5. Thirty matrices were built from each sample. The obtained data of 42 rows and 60columns were taken as input training with an output matrix of 42 rows and 2 columns. Neural Network of Perceptron model was created using a transfer function. The system was first validated and later on tested at 18 different strategic locations of Bagmati River of Kathmandu Valley, Nepal. This network classified biological and non biological particles. Development of new non-destructive technique to characterize biological and non-biological particles from fluvial sample in a real time has a significance breakthrough. This applied research method and outcome is an attractive model for real time monitoring of particles and has many applications that can throw a significant outlet to many researches and for effective utilization of water resources. It opened a new horizon of opportunities for basic and applied research at Kathmandu University in Nepal.

  8. JGI Fungal Genomics Program

    Energy Technology Data Exchange (ETDEWEB)

    Grigoriev, Igor V.

    2011-03-14

    Genomes of energy and environment fungi are in focus of the Fungal Genomic Program at the US Department of Energy Joint Genome Institute (JGI). Its key project, the Genomics Encyclopedia of Fungi, targets fungi related to plant health (symbionts, pathogens, and biocontrol agents) and biorefinery processes (cellulose degradation, sugar fermentation, industrial hosts), and explores fungal diversity by means of genome sequencing and analysis. Over 50 fungal genomes have been sequenced by JGI to date and released through MycoCosm (www.jgi.doe.gov/fungi), a fungal web-portal, which integrates sequence and functional data with genome analysis tools for user community. Sequence analysis supported by functional genomics leads to developing parts list for complex systems ranging from ecosystems of biofuel crops to biorefineries. Recent examples of such 'parts' suggested by comparative genomics and functional analysis in these areas are presented here

  9. Discovering networks of perturbed biological processes in hepatocyte cultures.

    Directory of Open Access Journals (Sweden)

    Christopher D Lasher

    Full Text Available The liver plays a vital role in glucose homeostasis, the synthesis of bile acids and the detoxification of foreign substances. Liver culture systems are widely used to test adverse effects of drugs and environmental toxicants. The two most prevalent liver culture systems are hepatocyte monolayers (HMs and collagen sandwiches (CS. Despite their wide use, comprehensive transcriptional programs and interaction networks in these culture systems have not been systematically investigated. We integrated an existing temporal transcriptional dataset for HM and CS cultures of rat hepatocytes with a functional interaction network of rat genes. We aimed to exploit the functional interactions to identify statistically significant linkages between perturbed biological processes. To this end, we developed a novel approach to compute Contextual Biological Process Linkage Networks (CBPLNs. CBPLNs revealed numerous meaningful connections between different biological processes and gene sets, which we were successful in interpreting within the context of liver metabolism. Multiple phenomena captured by CBPLNs at the process level such as regulation, downstream effects, and feedback loops have well described counterparts at the gene and protein level. CBPLNs reveal high-level linkages between pathways and processes, making the identification of important biological trends more tractable than through interactions between individual genes and molecules alone. Our approach may provide a new route to explore, analyze, and understand cellular responses to internal and external cues within the context of the intricate networks of molecular interactions that control cellular behavior.

  10. Polyethylene glycol (PEG)-mediated transformation in filamentous fungal pathogens

    Science.gov (United States)

    Genetic transformation is an essential tool in molecular biology for many purposes including the study of gene function and the genetic improvement of an organism. The genetic transformation of many fungal species is a well established process that can be carried out by utilizing different transform...

  11. The effects of biological control on fungal communities colonizing eggplant (Solanum melongena L. organs and the substrate used for eggplant cultivation

    Directory of Open Access Journals (Sweden)

    Bożena Cwalina-Ambroziak

    2012-12-01

    Full Text Available Eggplants, cv. Black Beauty, were grown in the greenhouse of the University of Warmia and Mazury in Olsztyn. During the growing season, the plants were sprayed three times with Asahi SL, Biochikol 020 PC and Bravo 500 SC, they were watered with Polyversum, and a mycorrhizal inoculum was applied to the roots of seedlings. Unprotected plants, treated with distilled water, served as control. After fruit harvest, samples of the substrate used for eggplant cultivation, eggplant stems and roots were collected, and fungi were isolated in the laboratory. The fungal soil community was more abundant and diverse than the communities colonizing the stems and roots of eggplants. The applied biological and chemical control agents effectively reduced the abundance of fungi, including pathogenic species, in the organs of eggplants and the substrate used for eggplant cultivation. Potential pathogens (Alternaria alternata, Botrytis cinerea and Fusarium species were isolated in high numbers from eggplant stems in the control treatment and in the Polyversum treatment (67%. The lowest number of potential pathogenic species were isolated from plants treated with the biostimulator Asahi SL, the fungicide Bravo 500 SC and the mycorrhizal inoculum. The population size of pathogenic fungi (Colletotrichum coccodes and Fusarium isolated from eggplant roots was smaller, compared with stems, particularly in the treatments with the fungicide Bravo 500 SC and the biostimulator Biochikol 020 PC. The soil fungal community was dominated by yeast-like fungi (over 60% of all isolates. Fungi known as potential causal agents of diseases were found in low abundance, and they were not detected in substrate samples collected from under fungicide-treated eggplant plants.

  12. Chemical and biological flocculation process to treat municipal sewage and analysis of biological function

    Institute of Scientific and Technical Information of China (English)

    XIA Si-qing; YANG Dian-hai; XU Bin; ZHAO Jian-fu

    2005-01-01

    The pilot-scale experimental apparatus and the procedure of the chemical and biological flocculation process to verify the feasibility in treating Shanghai municipal sewage were introduced in this paper. In addition, the biological function of the process was discussed. The results of optimal running showed that in the reaction tank, the concentration of mixed liquor suspended solid(MLSS) was2 g/L, hydraulic retention time(HRT) was 35 min, dosage of liquid polyaluminium chloride(PAC) was 60 mg/L, and the concentration of polyacrylamide(PAM) was 0.5 mg/L. The effluent average concentrations of CODcr, TP, SS and BOD5 were 50 mg/L, 0.62 mg/L, 18mg/L, and 17 mg/L, respectively. These were better than the designed demand. In addition, the existence of biological degradation in this system was proven by several methods. The removal efficiencies of the chemical and biological flocculation process were 20% higher than that of the chemical flocculation process above at the same coagulant dosage. The treatment process under different situations was evaluated on a pilot-scale experiment, and the results provided magnificent parameters and optimal condition for future operation of the plant.

  13. Chemical and biological flocculation process to treat municipal sewage and analysis of biological function.

    Science.gov (United States)

    Xia, Si-qing; Yang, Dian-hai; Xu, Bin; Zhao, Jian-fu

    2005-01-01

    The pilot-scale experimental apparatus and the procedure of the chemical and biological flocculation process to verify the feasibility in treating Shanghai municipal sewage were introduced in this paper. In addition, the biological function of the process was discussed. The results of optimal running showed that in the reaction tank, the concentration of mixed liquor suspended solid(MLSS) was 2 g/L, hydraulic retention time(HRT) was 35 min, dosage of liquid polyaluminium chloride(PAC) was 60 mg/L, and the concentration of polyacrylamide(PAM) was 0.5 mg/L. The effluent average concentrations of COD(Cr), TP, SS and BOD5 were 50 mg/L, 0.62 mg/L, 18 mg/L, and 17 mg/L, respectively. These were better than the designed demand. In addition, the existence of biological degradation in this system was proven by several methods. The removal efficiencies of the chemical and biological flocculation process were 20% higher than that of the chemical flocculation process above at the same coagulant dosage. The treatment process under different situations was evaluated on a pilot-scale experiment, and the results provided magnificent parameters and optimal condition for future operation of the plant.

  14. Fungal allergens.

    OpenAIRE

    1995-01-01

    Airborne fungal spores occur widely and often in far greater concentrations than pollen grains. Immunoglobulin E-specific antigens (allergens) on airborne fungal spores induce type I hypersensitivity (allergic) respiratory reactions in sensitized atopic subjects, causing rhinitis and/or asthma. The prevalence of respiratory allergy to fungi is imprecisely known but is estimated at 20 to 30% of atopic (allergy-predisposed) individuals or up to 6% of the general population. Diagnosis and immuno...

  15. Cancer systems biology: signal processing for cancer research

    Institute of Scientific and Technical Information of China (English)

    Olli Yli-Harja; Antti Ylip(a)(a); Matti Nykter; Wei Zhang

    2011-01-01

    In this editorial we introduce the research paradigms of signal processing in the era of systems biology. Signal processing is a field of science traditionally focused on modeling electronic and communications systems, but recently it has turned to biological applications with astounding results. The essence of signal processing is to describe the natural world by mathematical models and then, based on these models, develop efficient computational tools for solving engineering problems. Here, we underline, with examples, the endless possibilities which arise when the battle-hardened tools of engineering are applied to solve the problems that have tormented cancer researchers. Based on this approach, a new field has emerged, called cancer systems biology. Despite its short history, cancer systems biology has already produced several success stories tackling previously impracticable problems. Perhaps most importantly, it has been accepted as an integral part of the major endeavors of cancer research, such as analyzing the genomic and epigenomic data produced by The Cancer Genome Atlas (TCGA) project. Finally, we show that signal processing and cancer research, two fields that are seemingly distant from each other, have merged into a field that is indeed more than the sum of its parts.

  16. Cancer systems biology: signal processing for cancer research.

    Science.gov (United States)

    Yli-Harja, Olli; Ylipää, Antti; Nykter, Matti; Zhang, Wei

    2011-04-01

    In this editorial we introduce the research paradigms of signal processing in the era of systems biology. Signal processing is a field of science traditionally focused on modeling electronic and communications systems, but recently it has turned to biological applications with astounding results. The essence of signal processing is to describe the natural world by mathematical models and then, based on these models, develop efficient computational tools for solving engineering problems. Here, we underline, with examples, the endless possibilities which arise when the battle-hardened tools of engineering are applied to solve the problems that have tormented cancer researchers. Based on this approach, a new field has emerged, called cancer systems biology. Despite its short history, cancer systems biology has already produced several success stories tackling previously impracticable problems. Perhaps most importantly, it has been accepted as an integral part of the major endeavors of cancer research, such as analyzing the genomic and epigenomic data produced by The Cancer Genome Atlas (TCGA) project. Finally, we show that signal processing and cancer research, two fields that are seemingly distant from each other, have merged into a field that is indeed more than the sum of its parts.

  17. Integrating Biological Systems in the Process Dynamics and Control Curriculum

    Science.gov (United States)

    Parker, Robert S.; Doyle, Francis J.; Henson, Michael A.

    2006-01-01

    The evolution of the chemical engineering discipline motivates a re-evaluation of the process dynamics and control curriculum. A key requirement of future courses will be the introduction of theoretical concepts and application examples relevant to emerging areas, notably complex biological systems. We outline the critical concepts required to…

  18. Introductory Biology Textbooks Under-Represent Scientific Process

    Directory of Open Access Journals (Sweden)

    Dara B. Duncan

    2011-08-01

    Full Text Available Attrition of undergraduates from Biology majors is a long-standing problem. Introductory courses that fail to engage students or spark their curiosity by emphasizing the open-ended and creative nature of biological investigation and discovery could contribute to student detachment from the field. Our hypothesis was that introductory biology books devote relatively few figures to illustration of the design and interpretation of experiments or field studies, thereby de-emphasizing the scientific process.To investigate this possibility, we examined figures in six Introductory Biology textbooks published in 2008. On average, multistep scientific investigations were presented in fewer than 5% of the hundreds of figures in each book. Devoting such a small percentage of figures to the processes by which discoveries are made discourages an emphasis on scientific thinking. We suggest that by increasing significantly the illustration of scientific investigations, textbooks could support undergraduates’ early interest in biology, stimulate the development of design and analytical skills, and inspire some students to participate in investigations of their own.

  19. A Friendly-Biological Reactor SIMulator (BioReSIM for studying biological processes in wastewater treatment processes

    Directory of Open Access Journals (Sweden)

    Raul Molina

    2014-12-01

    Full Text Available Biological processes for wastewater treatments are inherently dynamic systems because of the large variations in the influent wastewater flow rate, concentration composition and the adaptive behavior of the involved microorganisms. Moreover, the sludge retention time (SRT is a critical factor to understand the bioreactor performances when changes in the influent or in the operation conditions take place. Since SRT are usually in the range of 10-30 days, the performance of biological reactors needs a long time to be monitored in a regular laboratory demonstration, limiting the knowledge that can be obtained in the experimental lab practice. In order to overcome this lack, mathematical models and computer simulations are useful tools to describe biochemical processes and predict the overall performance of bioreactors under different working operation conditions and variations of the inlet wastewater composition. The mathematical solution of the model could be difficult as numerous biochemical processes can be considered. Additionally, biological reactors description (mass balance, etc. needs models represented by partial or/and ordinary differential equations associated to algebraic expressions, that require complex computational codes to obtain the numerical solutions. Different kind of software for mathematical modeling can be used, from large degree of freedom simulators capable of free models definition (as AQUASIM, to closed predefined model structure programs (as BIOWIN. The first ones usually require long learning curves, whereas the second ones could be excessively rigid for specific wastewater treatment systems. As alternative, we present Biological Reactor SIMulator (BioReSIM, a MATLAB code for the simulation of sequencing batch reactors (SBR and rotating biological contactors (RBC as biological systems of suspended and attached biomass for wastewater treatment, respectively. This BioReSIM allows the evaluation of simple and complex

  20. Understanding the Biological Roles of Pectins in Plants through Physiological and Functional Characterizations of Plant and Fungal Mutants

    DEFF Research Database (Denmark)

    Stranne, Maria

    The plant cell wall is a dynamic structure and it is involved in regulating a number of physiological features of plants such as physical strength, growth, cell differentiation, intercellular communication, water movement and defense responses. Pectins constitute a major class of plant cell wall...... aspects remain elusive. Studies described in this thesis aimed at gaining new insights into the biological roles of pectin acetylation and arabinosylation in the model plant Arabidopsis thaliana. The thesis consists of four chapters: physiological characterization of cell wall mutants affected in cell...... polysaccharides and consist of backbones rich in galacturonic acids, which are decorated with a range of functional groups including acetyl esters and arabinan sidechains. Although much effort has been made to uncover biological functions of pectins in plants and remarkable progresses have taken place, many...

  1. Assessment of biological Hydrogen production processes: A review

    Science.gov (United States)

    Najafpour, G. D.; Shahavi, M. H.; Neshat, S. A.

    2016-06-01

    Energy crisis created a special attention on renewable energy sources. Among these sources; hydrogen through biological processes is well-known as the most suitable and renewable energy sources. In terms of process yield, hydrogen production from various sources was evaluated. A summary of microorganisms as potential hydrogen producers discussed along with advantages and disadvantages of several bioprocesses. The pathway of photo-synthetic and dark fermentative organisms was discussed. In fact, the active enzymes involved in performance of biological processes for hydrogen generation were identified and their special functionalities were discussed. The influential factors affecting on hydrogen production were known as enzymes assisting liberation specific enzymes such as nitrogenase, hydrogenase and uptake hydrogenase. These enzymes were quite effective in reduction of proton and form active molecular hydrogen. Several types of photosynthetic systems were evaluated with intension of maximum hydrogen productivities. In addition dark fermentative and light intensities on hydrogen productions were evaluated. The hydrogen productivities of efficient hydrogen producing strains were evaluated.

  2. Benchmarking Combined Biological Phosphorus and Nitrogen Removal Wastewater Treatment Processes

    DEFF Research Database (Denmark)

    Gernaey, Krist; Jørgensen, Sten Bay

    2004-01-01

    This paper describes the implementation of a simulation benchmark for studying the influence of control strategy implementations on combined nitrogen and phosphorus removal processes in a biological wastewater treatment plant. The presented simulation benchmark plant and its performance criteria...... are to a large extent based on the already existing nitrogen removal simulation benchmark. The paper illustrates and motivates the selection of the treatment plant lay-out, the selection of the biological process model, the development of realistic influent disturbance scenarios for dry, rain and storm weather...... conditions respectively, the definition of performance indexes that include the phosphorus removal processes, and the selection of a suitable operating point for the plant. Two control loops were implemented: one for dissolved oxygen control using the oxygen transfer coefficient K(L)a as manipulated variable...

  3. Inter-relationship among laboratory process skills in biology

    Science.gov (United States)

    Tamir, Pinchas; Amir, Ruth

    Inquiry oriented practical matriculation tests of 3650 12th grade biology students in Israel were analyzed to find out the interrelationships among 21 process skills. Using correlations and varimax factor analysis, seven factors were obtained. These factors are listed according to the relative percentage of the total variance accounted for from highest to lowest: handling quantitative relationships, explaining and assessing data, conceptualizing and planning investigations, summarizing results, interpreting and concluding, selecting form of presenting findings, designing experiments.The theoretical and practical implications of these findings are briefly discussed. Theoretically, the associations as well as the dissociations identified provide important clues regarding the organization of process skills related knowledge in cognitive structure. From a practical perspective the findings offer guidance for teacher educators as well as biology teachers on more effective ways for developing science process skills.

  4. Classical and spatial stochastic processes with applications to biology

    CERN Document Server

    Schinazi, Rinaldo B

    2014-01-01

    The revised and expanded edition of this textbook presents the concepts and applications of random processes with the same illuminating simplicity as its first edition, but with the notable addition of substantial modern material on biological modeling. While still treating many important problems in fields such as engineering and mathematical physics, the book also focuses on the highly relevant topics of cancerous mutations, influenza evolution, drug resistance, and immune response. The models used elegantly apply various classical stochastic models presented earlier in the text, and exercises are included throughout to reinforce essential concepts. The second edition of Classical and Spatial Stochastic Processes is suitable as a textbook for courses in stochastic processes at the advanced-undergraduate and graduate levels, or as a self-study resource for researchers and practitioners in mathematics, engineering, physics, and mathematical biology. Reviews of the first edition: An appetizing textbook for a f...

  5. Fungal nail infection

    Science.gov (United States)

    Nails - fungal infection; Onychomycosis; Infection - fungal - nails; Tinea unguium ... hair, nails, and outer skin layers. Common fungal infections include: Athlete's foot Jock itch Ringworm on the ...

  6. A synthetic biology approach to understanding cellular information processing.

    Science.gov (United States)

    Riccione, Katherine A; Smith, Robert P; Lee, Anna J; You, Lingchong

    2012-09-21

    The survival of cells and organisms requires proper responses to environmental signals. These responses are governed by cellular networks, which serve to process diverse environmental cues. Biological networks often contain recurring network topologies called "motifs". It has been recognized that the study of such motifs allows one to predict the response of a biological network and thus cellular behavior. However, studying a single motif in complete isolation of all other network motifs in a natural setting is difficult. Synthetic biology has emerged as a powerful approach to understanding the dynamic properties of network motifs. In addition to testing existing theoretical predictions, construction and analysis of synthetic gene circuits has led to the discovery of novel motif dynamics, such as how the combination of simple motifs can lead to autonomous dynamics or how noise in transcription and translation can affect the dynamics of a motif. Here, we review developments in synthetic biology as they pertain to increasing our understanding of cellular information processing. We highlight several types of dynamic behaviors that diverse motifs can generate, including the control of input/output responses, the generation of autonomous spatial and temporal dynamics, as well as the influence of noise in motif dynamics and cellular behavior.

  7. Biological Signal Processing with a Genetic Toggle Switch

    Science.gov (United States)

    Hillenbrand, Patrick; Fritz, Georg; Gerland, Ulrich

    2013-01-01

    Complex gene regulation requires responses that depend not only on the current levels of input signals but also on signals received in the past. In digital electronics, logic circuits with this property are referred to as sequential logic, in contrast to the simpler combinatorial logic without such internal memory. In molecular biology, memory is implemented in various forms such as biochemical modification of proteins or multistable gene circuits, but the design of the regulatory interface, which processes the input signals and the memory content, is often not well understood. Here, we explore design constraints for such regulatory interfaces using coarse-grained nonlinear models and stochastic simulations of detailed biochemical reaction networks. We test different designs for biological analogs of the most versatile memory element in digital electronics, the JK-latch. Our analysis shows that simple protein-protein interactions and protein-DNA binding are sufficient, in principle, to implement genetic circuits with the capabilities of a JK-latch. However, it also exposes fundamental limitations to its reliability, due to the fact that biological signal processing is asynchronous, in contrast to most digital electronics systems that feature a central clock to orchestrate the timing of all operations. We describe a seemingly natural way to improve the reliability by invoking the master-slave concept from digital electronics design. This concept could be useful to interpret the design of natural regulatory circuits, and for the design of synthetic biological systems. PMID:23874595

  8. 100 years after Smoluchowski: stochastic processes in cell biology

    Science.gov (United States)

    Holcman, D.; Schuss, Z.

    2017-03-01

    100 years after Smoluchowski introduced his approach to stochastic processes, they are now at the basis of mathematical and physical modeling in cellular biology: they are used for example to analyse and to extract features from a large number (tens of thousands) of single molecular trajectories or to study the diffusive motion of molecules, proteins or receptors. Stochastic modeling is a new step in large data analysis that serves extracting cell biology concepts. We review here Smoluchowski’s approach to stochastic processes and provide several applications for coarse-graining diffusion, studying polymer models for understanding nuclear organization and finally, we discuss the stochastic jump dynamics of telomeres across cell division and stochastic gene regulation.

  9. Fungal keratitis

    Directory of Open Access Journals (Sweden)

    Sonal S Tuli

    2011-02-01

    Full Text Available Sonal S TuliUniversity of Florida, Gainesville, FL, USA  Clinical question: What is the most appropriate management of fungal keratitis?Results: Traditionally, topical Natamycin is the most commonly used medication for filamentous fungi while Amphotericin B is most commonly used for yeast. Voriconazole is rapidly becoming the drug of choice for all fungal keratitis because of its wide spectrum of coverage and increased penetration into the cornea.Implementation: Repeated debridement of the ulcer is recommended for the penetration of topical medications. While small, peripheral ulcers may be treated in the community, larger or central ulcers, especially if associated with signs suggestive of anterior chamber penetration should be referred to a tertiary center. Prolonged therapy for approximately four weeks is usually necessary.Keywords: fungal keratitis, keratomycosis, antifungal medications, debridement

  10. Impact of Fungicide Mancozeb at Different Application Rates on Soil Microbial Populations, Soil Biological Processes, and Enzyme Activities in Soil

    Directory of Open Access Journals (Sweden)

    Abhishek Walia

    2014-01-01

    Full Text Available The use of fungicides is the continuous exercise particularly in orchard crops where fungal diseases, such as white root rot, have the potential to destroy horticultural crops rendering them unsaleable. In view of above problem, the present study examines the effect of different concentrations of mancozeb (0–2000 ppm at different incubation periods for their harmful side effects on various microbiological processes, soil microflora, and soil enzymes in alluvial soil (pH 6.8 collected from apple orchards of Shimla in Himachal Pradesh (India. Low concentrations of mancozeb were found to be deleterious towards fungal and actinomycetes population while higher concentrations (1000 and 2000 ppm were found to be detrimental to soil bacteria. Mancozeb impaired the process of ammonification and nitrification. Similar results were observed for nitrifying and ammonifying bacteria. Phosphorus solubilization was increased by higher concentration of mancozeb, that is, 250 ppm and above. In unamended soil, microbial biomass carbon and carbon mineralization were adversely affected by mancozeb. Soil enzymes, that is, amylase, invertase, and phosphatase showed adverse and disruptive effect when mancozeb used was above 10 ppm in unamended soil. These results conclude that, to lessen the harmful effects in soil biological processes caused by this fungicide, addition of higher amount of nitrogen based fertilizers is required.

  11. iBiology: communicating the process of science

    OpenAIRE

    Goodwin, Sarah S.

    2014-01-01

    The Internet hosts an abundance of science video resources aimed at communicating scientific knowledge, including webinars, massive open online courses, and TED talks. Although these videos are efficient at disseminating information for diverse types of users, they often do not demonstrate the process of doing science, the excitement of scientific discovery, or how new scientific knowledge is developed. iBiology (www.ibiology.org), a project that creates open-access science videos about biolo...

  12. Allergic Fungal Rhinosinusitis.

    Science.gov (United States)

    Hoyt, Alice E W; Borish, Larry; Gurrola, José; Payne, Spencer

    2016-01-01

    This article reviews the history of allergic fungal rhinosinusitis and the clinical, pathologic, and radiographic criteria necessary to establish its diagnosis and differentiate this disease from other types of chronic rhinosinusitis. Allergic fungal rhinosinusitis is a noninvasive fungal form of sinus inflammation characterized by an often times unilateral, expansile process in which the typical allergic "peanut-butter-like" mucin contributes to the formation of nasal polyps, hyposmia/anosmia, and structural changes of the face. IgE sensitization to fungi is a necessary, but not sufficient, pathophysiologic component of the disease process that is also defined by microscopic visualization of mucin-containing fungus and characteristic radiological imaging. This article expounds on these details and others including the key clinical and scientific distinctions of this diagnosis, the pathophysiologic mechanisms beyond IgE-mediated hypersensitivity that must be at play, and areas of current and future research.

  13. ECIL recommendations for the use of biological markers for the diagnosis of invasive fungal diseases in leukemic patients and hematopoietic SCT recipients.

    Science.gov (United States)

    Marchetti, O; Lamoth, F; Mikulska, M; Viscoli, C; Verweij, P; Bretagne, S

    2012-06-01

    As culture-based methods for the diagnosis of invasive fungal diseases (IFD) in leukemia and hematopoietic SCT patients have limited performance, non-culture methods are increasingly being used. The third European Conference on Infections in Leukemia (ECIL-3) meeting aimed at establishing evidence-based recommendations for the use of biological tests in adult patients, based on the grading system of the Infectious Diseases Society of America. The following biomarkers were investigated as screening tests: galactomannan (GM) for invasive aspergillosis (IA); β-glucan (BG) for invasive candidiasis (IC) and IA; Cryptococcus Ag for cryptococcosis; mannan (Mn) Ag/anti-mannan (A-Mn) Ab for IC, and PCR for IA. Testing for GM, Cryptococcus Ag and BG are included in the revised EORTC/MSG (European Organization for Research and Treatment of Cancer/Mycoses Study Group) consensus definitions for IFD. Strong evidence supports the use of GM in serum (A II), and Cryptococcus Ag in serum and cerebrospinal fluid (CSF) (A II). Evidence is moderate for BG detection in serum (B II), and the combined Mn/A-Mn testing in serum for hepatosplenic candidiasis (B III) and candidemia (C II). No recommendations were formulated for the use of PCR owing to a lack of standardization and clinical validation. Clinical utility of these markers for the early management of IFD should be further assessed in prospective randomized interventional studies.

  14. The use of wavelength-selective plastic cladding materials in horticulture: understanding of crop and fungal responses through the assessment of biological spectral weighting functions.

    Science.gov (United States)

    Paul, Nigel D; Jacobson, Rob J; Taylor, Anna; Wargent, Jason J; Moore, Jason P

    2005-01-01

    Plant responses to light spectral quality can be exploited to deliver a range of agronomically desirable end points in protected crops. This can be achieved using plastics with specific spectral properties as crop covers. We have studied the responses of a range of crops to plastics that have either (a) increased transmission of UV compared with standard horticultural covers, (b) decreased transmission of UV or (c) increased the ratio of red (R) : far-red (FR) radiation. Both the UV-transparent and R : FR increasing films reduced leaf area and biomass, offering potential alternatives to chemical growth regulators. The UV-opaque film increased growth, but while this may be useful in some crops, there were trade-offs with elements of quality, such as pigmentation and taste. UV manipulation may also influence disease control. Increasing UV inhibited not only the pathogenic fungus Botrytis cinerea but also the disease biocontrol agent Trichoderma harzianum. Unlike B. cinerea, T. harzianum was highly sensitive to UV-A radiation. These fungal responses and those for plant growth in the growth room and the field under different plastics are analyzed in terms of alternative biological spectral weighting functions (BSWF). The role of BSWF in assessing general patterns of response to UV modification in horticulture is also discussed.

  15. Speed of human biological form and motion processing.

    Directory of Open Access Journals (Sweden)

    George Buzzell

    Full Text Available Recent work suggests that biological motion processing can begin within ~110 ms of stimulus onset, as indexed by the P1 component of the event-related potential (ERP. Here, we investigated whether modulation of the P1 component reflects configural processing alone, rather than the processing of both configuration and motion cues. A three-stimulus oddball task was employed to evaluate bottom-up processing of biological motion. Intact point-light walkers (PLWs or scrambled PLWs served as distractor stimuli, whereas point-light displays of tool motion served as standard and target stimuli. In a second experiment, the same design was used, but the dynamic stimuli were replaced with static point-light displays. The first experiment revealed that dynamic PLWs elicited a larger P1 as compared to scrambled PLWs. A similar P1 increase was also observed for static PLWs in the second experiment, indicating that these stimuli were more salient than static, scrambled PLWs. These findings suggest that the visual system can rapidly extract global form information from static PLWs and that the observed P1 effect for dynamic PLWs is not dependent on the presence of motion cues. Finally, we found that the N1 component was sensitive to dynamic, but not static, PLWs, suggesting that this component reflects the processing of both form and motion information. The sensitivity of P1 to static PLWs has implications for dynamic form models of biological motion processing that posit temporal integration of configural cues present in individual frames of PLW animations.

  16. Influence of different natural physical fields on biological processes

    Science.gov (United States)

    Mashinsky, A. L.

    2001-01-01

    In space flight conditions gravity, magnetic, and electrical fields as well as ionizing radiation change both in size, and in direction. This causes disruptions in the conduct of some physical processes, chemical reactions, and metabolism in living organisms. In these conditions organisms of different phylogenetic level change their metabolic reactions undergo changes such as disturbances in ionic exchange both in lower and in higher plants, changes in cell morphology for example, gyrosity in Proteus ( Proteus vulgaris), spatial disorientation in coleoptiles of Wheat ( Triticum aestivum) and Pea ( Pisum sativum) seedlings, mutational changes in Crepis ( Crepis capillaris) and Arabidopsis ( Arabidopsis thaliana) seedling. It has been found that even in the absence of gravity, gravireceptors determining spatial orientation in higher plants under terrestrial conditions are formed in the course of ontogenesis. Under weightlessness this system does not function and spatial orientation is determined by the light flux gradient or by the action of some other factors. Peculiarities of the formation of the gravireceptor apparatus in higher plants, amphibians, fish, and birds under space flight conditions have been observed. It has been found that the system in which responses were accompanied by phase transition have proven to be gravity-sensitive under microgravity conditions. Such reactions include also the process of photosynthesis which is the main energy production process in plants. In view of the established effects of microgravity and different natural physical fields on biological processes, it has been shown that these processes change due to the absence of initially rigid determination. The established biological effect of physical fields influence on biological processes in organisms is the starting point for elucidating the role of gravity and evolutionary development of various organisms on Earth.

  17. Effect of ohmic heating processing conditions on color stability of fungal pigments.

    Science.gov (United States)

    Aguilar-Machado, Diederich; Morales-Oyervides, Lourdes; Contreras-Esquivel, Juan C; Aguilar, Cristóbal; Méndez-Zavala, Alejandro; Raso, Javier; Montañez, Julio

    2017-01-01

    The aim of this work was to analyze the effect of ohmic heating processing conditions on the color stability of a red pigment extract produced by Penicillium purpurogenum GH2 suspended in a buffer solution (pH 6) and in a beverage model system (pH 4). Color stability of pigmented extract was evaluated in the range of 60-90 ℃. The degradation pattern of pigments was well described by the first-order (fractional conversion) and Bigelow model. Degradation rate constants ranged between 0.009 and 0.088 min(-1) in systems evaluated. Significant differences in the rate constant values of the ohmic heating-treated samples in comparison with conventional thermal treatment suggested a possible effect of the oscillating electric field generated during ohmic heating. The thermodynamic analysis also indicated differences in the color degradation mechanism during ohmic heating specifically when the pigment was suspended in the beverage model system. In general, red pigments produced by P. purpurogenum GH2 presented good thermal stability under the range of the evaluated experimental conditions, showing potential future applications in pasteurized food matrices using ohmic heating treatment.

  18. Environment. Biological processing of wastes; Environnement. Traitement biologique des dechets

    Energy Technology Data Exchange (ETDEWEB)

    Gourdon, R. [Institut National des Sciences Appliquees, INSA, Lab. d' Analyse Environnementale des Procedes et des Systemes Industriels, 69 - Villeurbanne (France)

    2001-01-01

    The main principle of the biological processing is the utilization of microbial activities by a control stimulation in order to decrease the wastes harmful effects, or by an energetic valorization. This paper deals with the solid wastes or the sludges. After a short presentation of the concerned wastes, their metabolism and their consequences, the author details two treatments: the composting (aerobic) and the methanization (anaerobic). The last part is devoted to the alcoholic fermentation and the industrial wastes (non agricultural) processing. (A.L.B.)

  19. Synthetic membranes and membrane processes with counterparts in biological systems

    Science.gov (United States)

    Matson, Stephen L.

    1996-02-01

    Conventional synthetic membranes, fashioned for the most part from rather unremarkable polymeric materials, are essentially passive structures that achieve various industrial and biomedical separations through simple and selective membrane permeation processes. Indeed, simplicity of membrane material, structure, and function has long been perceived as a virtue of membranes relative to other separation processes with which they compete. The passive membrane separation processes -- exemplified by micro- and ultrafiltration, dialysis, reverse osmosis, and gas permeation -- differ from one another primarily in terms of membrane morphology or structure (e.g., porous, gel-type, and nonporous) and the permeant transport mechanism and driving force (e.g., diffusion, convection, and 'solution/diffusion'). The passive membrane separation processes have in common the fact that interaction between permeant and membrane material is typically weak and physicochemical in nature; indeed, it is frequently an objective of membrane materials design to minimize interaction between permeant and membrane polymer, since such strategies can minimize membrane fouling. As a consequence, conventional membrane processes often provide only modest separation factors or permselectivities; that is, they are more useful in performing 'group separations' (i.e., the separation of different classes of material) than they are in fractionating species within a given class. It has long been recognized within the community of membrane technologists that biological membrane structures and their components are extraordinarily sophisticated and powerful as compared to their synthetic counterparts. Moreover, biomembranes and related biological systems have been 'designed' according to a very different paradigm -- one that frequently maximizes and capitalizes on extraordinarily strong and biochemically specific interactions between components of the membrane and species interacting with them. Thus, in recent

  20. Fungal biopesticide production by solid-state fermentation : Growth and sporulation of coniothyrium minitans

    OpenAIRE

    Ooijkaas, L.P.

    2000-01-01

    The use of an inert carrier impregnated with a chemically defined medium might be attractive in industrial processes. This system can be used as alternative for agricultural substrates such as grains in solid-state fermentation for the production of fungal biopesticides. During recent years, the use of fungal spores for the biological control of plant pests and diseases has received increasing interest. Coniothyrium minitans is a biocontrol agent of Sclerotinia sclerotiorum a widespread plant...

  1. Potential Use of Essential oils from Four Tunisian Species of Lamiaceae: Biological Alternative for Fungal and Weed Control

    Directory of Open Access Journals (Sweden)

    Mohsen Hanana

    2017-05-01

    Full Text Available The chemical composition of the essential oils (EOs of four Lamiaceae (Thymus capitatus Hoff. et Link. , Rosmarinus officinalis L., Origanum vulgare L. and Mentha pulegium L. growing wild in Tunisia was analyzed by gas chromatography (GC and gas chromatography-mass spectrometry (GC-MS. Obtained results showed significant variations among the different species. The major constituents identified for each species were respectively carvacrol (69% and δ-terpinene (17% for T. capitatus, 1,8-cineole (41% and α-pinene (24% for R. officinalis, menthol (39% and 1.8-cineole (17% for M. pulegium , thymol (30%, p-cymene (30% and δ-terpinene (27% for O. vulgare . EO herbicidal effects were evaluated against three invasive weed species in most cultivated crops: Sinapis arvensis L., Phalaris paradoxa L. and Lolium rigidum Gaud. The study of herbicidal activity was carried out on seed germination and seedling vigor and growth. All tested EOs significantly inhibited the germination and growth of weeds in a dose dependent manner and their herbicidal activity could be attributed mainly to their high content in oxygenated monoterpenes. The antifungal ability of EOs was assessed by using disc agar diffusion against ten plant pathogenic fungi affecting crops and stored foods. The EOs displayed strong inhibitory effect on all tested fungi. Our results on EOs chemical composition and biological activities showed properties that could be valorized in managing biocontrol of weeds and plant fungi.

  2. Energy landscape exploration of the folding processes of biological molecules

    Science.gov (United States)

    Engel, Megan Clare

    For decades, scientists from every discipline have struggled to understand the mechanism of biological self-assembly, which allows proteins and nucleic acids to fold reliably into functional three-dimensional structures. Such an understanding may hold the key to eliminating diseases such as Alzheimer's and Parkinson's and to effective protein engineering. The current best framework for describing biological folding processes is that of statistical mechanical energy landscape theory, and one of the most promising experimental techniques for exploring molecular energy landscapes is single molecule force spectroscopy (SMFS), in which molecules are mechanically denatured. Theoretical advances have enabled the extraction of complete energy landscape profiles from SMFS data. Here, SMFS experiments performed using laser optical tweezers are analyzed to yield the first ever full landscape profile for an RNA pseudoknot. Further, a promising novel landscape reconstruction technique is validated for the first time using experimental data from a DNA hairpin.

  3. The Use of Microwave Incineration to Process Biological Wastes

    Science.gov (United States)

    Sun, Sidney C.; Srinivasan, Venkatesh; Covington, Alan (Technical Monitor)

    1994-01-01

    The handling and disposal of solid waste matter that has biological or biohazardous components is a difficult issue for hospitals, research laboratories, and industry. NASA faces the same challenge as it is developing regenerative systems that will process waste materials into materials that can be used to sustain humans living in space for extended durations. Plants provide critical functions in such a regenerative life support scheme in that they photosynthesize carbon dioxide and water into glucose and oxygen. The edible portions of the plant provide a food source for the crew. Inedible portions can be processed into materials that are more recyclable. The Advanced Life Support Division at NASA Ames Research Center has been evaluating a microwave incinerator that will oxidize inedible plant matter into carbon dioxide and water. The commercially available microwave incinerator is produced by Matsushita Electronic Instruments Corporation of Japan. Microwave incineration is a technology that is simple, safe, and compact enough for home use. It also has potential applications for institutions that produce biological or biohazardous waste. The incinerator produces a sterile ash that has only 13% of the mass of the original waste. The authors have run several sets of tests with the incinerator to establish its viability in processing biological material. One goal of the tests is to show that the incinerator does not generate toxic compounds as a byproduct of the combustion process. This paper will describe the results of the tests, including analyses of the resulting ash and exhaust gases. The significance of the results and their implications on commercial applications of the technology will also be discussed.

  4. Stochasticity in processes fundamentals and applications to chemistry and biology

    CERN Document Server

    Schuster, Peter

    2016-01-01

    This book has developed over the past fifteen years from a modern course on stochastic chemical kinetics for graduate students in physics, chemistry and biology. The first part presents a systematic collection of the mathematical background material needed to understand probability, statistics, and stochastic processes as a prerequisite for the increasingly challenging practical applications in chemistry and the life sciences examined in the second part. Recent advances in the development of new techniques and in the resolution of conventional experiments at nano-scales have been tremendous: today molecular spectroscopy can provide insights into processes down to scales at which current theories at the interface of physics, chemistry and the life sciences cannot be successful without a firm grasp of randomness and its sources. Routinely measured data is now sufficiently accurate to allow the direct recording of fluctuations. As a result, the sampling of data and the modeling of relevant processes are doomed t...

  5. Continuous downstream processing for high value biological products: A Review.

    Science.gov (United States)

    Zydney, Andrew L

    2016-03-01

    There is growing interest in the possibility of developing truly continuous processes for the large-scale production of high value biological products. Continuous processing has the potential to provide significant reductions in cost and facility size while improving product quality and facilitating the design of flexible multi-product manufacturing facilities. This paper reviews the current state-of-the-art in separations technology suitable for continuous downstream bioprocessing, focusing on unit operations that would be most appropriate for the production of secreted proteins like monoclonal antibodies. This includes cell separation/recycle from the perfusion bioreactor, initial product recovery (capture), product purification (polishing), and formulation. Of particular importance are the available options, and alternatives, for continuous chromatographic separations. Although there are still significant challenges in developing integrated continuous bioprocesses, recent technological advances have provided process developers with a number of attractive options for development of truly continuous bioprocessing operations.

  6. Process for the biological purification of waste water

    DEFF Research Database (Denmark)

    1992-01-01

    Process for the biological purification of waste water by the activated sludge method, the waste water being mixed with recirculated sludge and being subjected to an anaerobic treatment, before the waste water thus treated is alternately subjected to anoxic and aerobic treatments and the waste...... water thus treated is led into a clarification zone for settling sludge, which sludge is recirculated in order to be mixed with the crude waste water. As a result, a simultaneous reduction of the content both of nitrogen and phosphorus of the waste water is achieved....

  7. Genomic Signal Processing: Predicting Basic Molecular Biological Principles

    Science.gov (United States)

    Alter, Orly

    2005-03-01

    Advances in high-throughput technologies enable acquisition of different types of molecular biological data, monitoring the flow of biological information as DNA is transcribed to RNA, and RNA is translated to proteins, on a genomic scale. Future discovery in biology and medicine will come from the mathematical modeling of these data, which hold the key to fundamental understanding of life on the molecular level, as well as answers to questions regarding diagnosis, treatment and drug development. Recently we described data-driven models for genome-scale molecular biological data, which use singular value decomposition (SVD) and the comparative generalized SVD (GSVD). Now we describe an integrative data-driven model, which uses pseudoinverse projection (1). We also demonstrate the predictive power of these matrix algebra models (2). The integrative pseudoinverse projection model formulates any number of genome-scale molecular biological data sets in terms of one chosen set of data samples, or of profiles extracted mathematically from data samples, designated the ``basis'' set. The mathematical variables of this integrative model, the pseudoinverse correlation patterns that are uncovered in the data, represent independent processes and corresponding cellular states (such as observed genome-wide effects of known regulators or transcription factors, the biological components of the cellular machinery that generate the genomic signals, and measured samples in which these regulators or transcription factors are over- or underactive). Reconstruction of the data in the basis simulates experimental observation of only the cellular states manifest in the data that correspond to those of the basis. Classification of the data samples according to their reconstruction in the basis, rather than their overall measured profiles, maps the cellular states of the data onto those of the basis, and gives a global picture of the correlations and possibly also causal coordination of

  8. Adoption: biological and social processes linked to adaptation.

    Science.gov (United States)

    Grotevant, Harold D; McDermott, Jennifer M

    2014-01-01

    Children join adoptive families through domestic adoption from the public child welfare system, infant adoption through private agencies, and international adoption. Each pathway presents distinctive developmental opportunities and challenges. Adopted children are at higher risk than the general population for problems with adaptation, especially externalizing, internalizing, and attention problems. This review moves beyond the field's emphasis on adoptee-nonadoptee differences to highlight biological and social processes that affect adaptation of adoptees across time. The experience of stress, whether prenatal, postnatal/preadoption, or during the adoption transition, can have significant impacts on the developing neuroendocrine system. These effects can contribute to problems with physical growth, brain development, and sleep, activating cascading effects on social, emotional, and cognitive development. Family processes involving contact between adoptive and birth family members, co-parenting in gay and lesbian adoptive families, and racial socialization in transracially adoptive families affect social development of adopted children into adulthood.

  9. Process-based design of dynamical biological systems

    Science.gov (United States)

    Tanevski, Jovan; Todorovski, Ljupčo; Džeroski, Sašo

    2016-09-01

    The computational design of dynamical systems is an important emerging task in synthetic biology. Given desired properties of the behaviour of a dynamical system, the task of design is to build an in-silico model of a system whose simulated be- haviour meets these properties. We introduce a new, process-based, design methodology for addressing this task. The new methodology combines a flexible process-based formalism for specifying the space of candidate designs with multi-objective optimization approaches for selecting the most appropriate among these candidates. We demonstrate that the methodology is general enough to both formulate and solve tasks of designing deterministic and stochastic systems, successfully reproducing plausible designs reported in previous studies and proposing new designs that meet the design criteria, but have not been previously considered.

  10. Quantum Processes and Dynamic Networks in Physical and Biological Systems.

    Science.gov (United States)

    Dudziak, Martin Joseph

    Quantum theory since its earliest formulations in the Copenhagen Interpretation has been difficult to integrate with general relativity and with classical Newtonian physics. There has been traditionally a regard for quantum phenomena as being a limiting case for a natural order that is fundamentally classical except for microscopic extrema where quantum mechanics must be applied, more as a mathematical reconciliation rather than as a description and explanation. Macroscopic sciences including the study of biological neural networks, cellular energy transports and the broad field of non-linear and chaotic systems point to a quantum dimension extending across all scales of measurement and encompassing all of Nature as a fundamentally quantum universe. Theory and observation lead to a number of hypotheses all of which point to dynamic, evolving networks of fundamental or elementary processes as the underlying logico-physical structure (manifestation) in Nature and a strongly quantized dimension to macroscalar processes such as are found in biological, ecological and social systems. The fundamental thesis advanced and presented herein is that quantum phenomena may be the direct consequence of a universe built not from objects and substance but from interacting, interdependent processes collectively operating as sets and networks, giving rise to systems that on microcosmic or macroscopic scales function wholistically and organically, exhibiting non-locality and other non -classical phenomena. The argument is made that such effects as non-locality are not aberrations or departures from the norm but ordinary consequences of the process-network dynamics of Nature. Quantum processes are taken to be the fundamental action-events within Nature; rather than being the exception quantum theory is the rule. The argument is also presented that the study of quantum physics could benefit from the study of selective higher-scale complex systems, such as neural processes in the brain

  11. From total suspended solids to molecular biology tools--a personal view of biological wastewater treatment process population dynamics.

    Science.gov (United States)

    Jenkins, David

    2008-08-01

    The development of the tools needed to study the population dynamics of biological wastewater treatment processes is traced from its beginnings in the early 1900s to today's use of molecular biology tools (Oerther and Love, 2003). Examples of the benefits of population dynamics research in improving the performance and aiding the design and operation of biological wastewater treatment processes are given. Some thoughts on future areas of study are presented.

  12. Automated force volume image processing for biological samples.

    Directory of Open Access Journals (Sweden)

    Pavel Polyakov

    Full Text Available Atomic force microscopy (AFM has now become a powerful technique for investigating on a molecular level, surface forces, nanomechanical properties of deformable particles, biomolecular interactions, kinetics, and dynamic processes. This paper specifically focuses on the analysis of AFM force curves collected on biological systems, in particular, bacteria. The goal is to provide fully automated tools to achieve theoretical interpretation of force curves on the basis of adequate, available physical models. In this respect, we propose two algorithms, one for the processing of approach force curves and another for the quantitative analysis of retraction force curves. In the former, electrostatic interactions prior to contact between AFM probe and bacterium are accounted for and mechanical interactions operating after contact are described in terms of Hertz-Hooke formalism. Retraction force curves are analyzed on the basis of the Freely Jointed Chain model. For both algorithms, the quantitative reconstruction of force curves is based on the robust detection of critical points (jumps, changes of slope or changes of curvature which mark the transitions between the various relevant interactions taking place between the AFM tip and the studied sample during approach and retraction. Once the key regions of separation distance and indentation are detected, the physical parameters describing the relevant interactions operating in these regions are extracted making use of regression procedure for fitting experiments to theory. The flexibility, accuracy and strength of the algorithms are illustrated with the processing of two force-volume images, which collect a large set of approach and retraction curves measured on a single biological surface. For each force-volume image, several maps are generated, representing the spatial distribution of the searched physical parameters as estimated for each pixel of the force-volume image.

  13. Automated Force Volume Image Processing for Biological Samples

    Science.gov (United States)

    Duan, Junbo; Duval, Jérôme F. L.; Brie, David; Francius, Grégory

    2011-01-01

    Atomic force microscopy (AFM) has now become a powerful technique for investigating on a molecular level, surface forces, nanomechanical properties of deformable particles, biomolecular interactions, kinetics, and dynamic processes. This paper specifically focuses on the analysis of AFM force curves collected on biological systems, in particular, bacteria. The goal is to provide fully automated tools to achieve theoretical interpretation of force curves on the basis of adequate, available physical models. In this respect, we propose two algorithms, one for the processing of approach force curves and another for the quantitative analysis of retraction force curves. In the former, electrostatic interactions prior to contact between AFM probe and bacterium are accounted for and mechanical interactions operating after contact are described in terms of Hertz-Hooke formalism. Retraction force curves are analyzed on the basis of the Freely Jointed Chain model. For both algorithms, the quantitative reconstruction of force curves is based on the robust detection of critical points (jumps, changes of slope or changes of curvature) which mark the transitions between the various relevant interactions taking place between the AFM tip and the studied sample during approach and retraction. Once the key regions of separation distance and indentation are detected, the physical parameters describing the relevant interactions operating in these regions are extracted making use of regression procedure for fitting experiments to theory. The flexibility, accuracy and strength of the algorithms are illustrated with the processing of two force-volume images, which collect a large set of approach and retraction curves measured on a single biological surface. For each force-volume image, several maps are generated, representing the spatial distribution of the searched physical parameters as estimated for each pixel of the force-volume image. PMID:21559483

  14. Microbiology and atmospheric processes: chemical interactions of Primary Biological Aerosols

    Science.gov (United States)

    Deguillaume, L.; Leriche, M.; Amato, P.; Ariya, P. A.; Delort, A.-M.; Pöschl, U.; Chaumerliac, N.; Bauer, H.; Flossmann, A. I.; Morris, C. E.

    2008-02-01

    This paper discusses the influence of bioaerosols on atmospheric chemistry and vice versa through microbiological and chemical properties and processes. Several studies have shown that biological matter represents a significant fraction of air particulate matter and hence affects the microstructure and water uptake of aerosol particles. Moreover, airborne micro-organisms can transform chemical constituents of the atmosphere by metabolic activity. Recent studies have emphasized the viability of bacteria and metabolic degradation of organic substances in cloud water. On the other hand, the viability and metabolic activity of airborne micro-organisms depend strongly on physical and chemical atmospheric parameters such as temperature, pressure, radiation, pH value and nutrient concentrations. In spite of recent advances, however, our knowledge of the microbiological and chemical interactions of primary biological particles in the atmosphere is rather limited. Further targeted investigations combining laboratory experiments, field measurements, and modelling studies will be required to characterize the chemical feedbacks, microbiological activities at the air/snow/water interface supplied to the atmosphere.

  15. Implied Movement in Static Images Reveals Biological Timing Processing

    Directory of Open Access Journals (Sweden)

    Francisco Carlos Nather

    2015-08-01

    Full Text Available Visual perception is adapted toward a better understanding of our own movements than those of non-conspecifics. The present study determined whether time perception is affected by pictures of different species by considering the evolutionary scale. Static (“S” and implied movement (“M” images of a dog, cheetah, chimpanzee, and man were presented to undergraduate students. S and M images of the same species were presented in random order or one after the other (S-M or M-S for two groups of participants. Movement, Velocity, and Arousal semantic scales were used to characterize some properties of the images. Implied movement affected time perception, in which M images were overestimated. The results are discussed in terms of visual motion perception related to biological timing processing that could be established early in terms of the adaptation of humankind to the environment.

  16. Monitoring Biological Modes in a Bioreactor Process by Computer Simulation

    Directory of Open Access Journals (Sweden)

    Samia Semcheddine

    2015-12-01

    Full Text Available This paper deals with the general framework of fermentation system modeling and monitoring, focusing on the fermentation of Escherichia coli. Our main objective is to develop an algorithm for the online detection of acetate production during the culture of recombinant proteins. The analysis the fermentation process shows that it behaves like a hybrid dynamic system with commutation (since it can be represented by 5 nonlinear models. We present a strategy of fault detection based on residual generation for detecting the different actual biological modes. The residual generation is based on nonlinear analytical redundancy relations. The simulation results show that the several modes that are occulted during the bacteria cultivation can be detected by residuals using a nonlinear dynamic model and a reduced instrumentation.

  17. DENITRIFICATION PROCESS ENHANCING IN FOUR-STAGES ROTATING BIOLOGICAL CONTACTOR

    Directory of Open Access Journals (Sweden)

    Artur Mielcarek

    2016-06-01

    Full Text Available The aim of the study was to determine the degree of an organic substrate consumption in the denitrification process involving a biofilm in four-stages laboratory scale rotating biological contactor (RBC. The discs submergence was 40% of their diameter. Acetic acid, used as external carbon source, was fed to the fourth stage of RBC. Consumption of substrate was observed for 2 and 24 hours. For a shorter period there was the removal of 37.9 ± 1.8 mg N·m-2, while using 499,9 ± 33.2 mg O2·m-2 of organic compounds. The prolongation of the experiment duration guaranteed higher efficiency of denitrification. The ratio of organic substrate used to the amount of nitrogen removed was 13: 1 and 21: 1 for 2 and 24 hours respectively.

  18. [Biological Process Oriented Online Fourier Transform Infrared Spectrometer].

    Science.gov (United States)

    Xie, Fei; Wu, Qiong-shui; Zeng, Li-bo

    2015-08-01

    An online Fourier Transform Infrared Spectrometer and an ATR (Attenuated Total Reflection) probe, specifically at the application of real time measurement of the reaction substrate concentration in biological processes, were designed. (1) The spectrometer combined the theories of double cube-corner reflectors and flat mirror, which created a kind of high performance interferometer system. The light path folding way was utilized to makes the interferometer compact structure. Adopting double cube-corner reflectors, greatly reduces the influence of factors in the process of moving mirror movement such as rotation, tilt, etc. The parallelogram oscillation flexible support device was utilized to support the moving mirror moves. It cancelled the friction and vibration during mirror moving, and ensures the smooth operation. The ZnSe splitter significantly improved the hardware reliability in high moisture environment. The method of 60° entrance to light splitter improves the luminous flux. (2) An ATR in situ measuring probe with simple structure, large-flux, economical and practical character was designed in this article. The transmission of incident light and the light output utilized the infrared pipe with large diameter and innerplanted-high plating membrane, which conducted for the infrared transmission media of ATR probe. It greatly reduced the energy loss of infrared light after multiple reflection on the inner wall of the light pipe. Therefore, the ATR probe obtained high flux, improved the signal strength, which make the signal detected easily. Finally, the high sensitivity of MCT (Mercury Cadmium Telluride) detector was utilized to realize infrared interference signal collection, and improved the data quality of detection. The test results showed that the system yields the advantages of perfect moisture-proof performance, luminous flux, online measurement, etc. The designed online Fourier infrared spectrometer can real-time measured common reactant substrates

  19. Relationship between the decomposition process of coarse woody debris and fungal community structure as detected by high-throughput sequencing in a deciduous broad-leaved forest in Japan.

    Directory of Open Access Journals (Sweden)

    Satoshi Yamashita

    Full Text Available We examined the relationship between the community structure of wood-decaying fungi, detected by high-throughput sequencing, and the decomposition rate using 13 years of data from a forest dynamics plot. For molecular analysis and wood density measurements, drill dust samples were collected from logs and stumps of Fagus and Quercus in the plot. Regression using a negative exponential model between wood density and time since death revealed that the decomposition rate of Fagus was greater than that of Quercus. The residual between the expected value obtained from the regression curve and the observed wood density was used as a decomposition rate index. Principal component analysis showed that the fungal community compositions of both Fagus and Quercus changed with time since death. Principal component analysis axis scores were used as an index of fungal community composition. A structural equation model for each wood genus was used to assess the effect of fungal community structure traits on the decomposition rate and how the fungal community structure was determined by the traits of coarse woody debris. Results of the structural equation model suggested that the decomposition rate of Fagus was affected by two fungal community composition components: one that was affected by time since death and another that was not affected by the traits of coarse woody debris. In contrast, the decomposition rate of Quercus was not affected by coarse woody debris traits or fungal community structure. These findings suggest that, in the case of Fagus coarse woody debris, the fungal community structure is related to the decomposition process of its host substrate. Because fungal community structure is affected partly by the decay stage and wood density of its substrate, these factors influence each other. Further research on interactive effects is needed to improve our understanding of the relationship between fungal community structure and the woody debris

  20. Fungal Eye Infections

    Science.gov (United States)

    ... Treatment & Outcomes Statistics More Resources Fungal Nail Infections Histoplasmosis Definition Symptoms People at Risk & Prevention Sources Diagnosis & ... CDC at Work Global Fungal Diseases Cryptococcal Meningitis Histoplasmosis ... Resistance Resources Laboratory Submission Information Reportable Fungal ...

  1. Exploiting graphics processing units for computational biology and bioinformatics.

    Science.gov (United States)

    Payne, Joshua L; Sinnott-Armstrong, Nicholas A; Moore, Jason H

    2010-09-01

    Advances in the video gaming industry have led to the production of low-cost, high-performance graphics processing units (GPUs) that possess more memory bandwidth and computational capability than central processing units (CPUs), the standard workhorses of scientific computing. With the recent release of generalpurpose GPUs and NVIDIA's GPU programming language, CUDA, graphics engines are being adopted widely in scientific computing applications, particularly in the fields of computational biology and bioinformatics. The goal of this article is to concisely present an introduction to GPU hardware and programming, aimed at the computational biologist or bioinformaticist. To this end, we discuss the primary differences between GPU and CPU architecture, introduce the basics of the CUDA programming language, and discuss important CUDA programming practices, such as the proper use of coalesced reads, data types, and memory hierarchies. We highlight each of these topics in the context of computing the all-pairs distance between instances in a dataset, a common procedure in numerous disciplines of scientific computing. We conclude with a runtime analysis of the GPU and CPU implementations of the all-pairs distance calculation. We show our final GPU implementation to outperform the CPU implementation by a factor of 1700.

  2. Improving the reviewing process in Ecology and Evolutionary Biology

    Directory of Open Access Journals (Sweden)

    Grossman, G. D.

    2014-06-01

    Full Text Available I discuss current issues in reviewing and editorial practices in ecology and evolutionary biology and suggest possible solutions for current problems. The reviewing crisis is unlikely to change unless steps are taken by journals to provide greater inclusiveness and incentives to reviewers. In addition, both journals and institutions should reduce their emphasis on publication numbers (least publishable units and impact factors and focus instead on article synthesis and quality which will require longer publications. Academic and research institutions should consider reviewing manuscripts and editorial positions an important part of a researcher’s professional activities and reward them accordingly. Rewarding reviewers either monetarily or via other incentives such as free journal subscriptions may encourage participation in the reviewing process for both profit and non–profit journals. Reviewer performance will likely be improved by measures that increase inclusiveness, such as sending reviews and decision letters to reviewers. Journals may be able to evaluate the efficacy of their reviewing process by comparing citations of rejected but subsequently published papers with those published within the journal at similar times. Finally, constructive reviews: 1 identify important shortcomings and suggest solutions when possible, 2 distinguish trivial from non–trivial problems, and 3 include editor’s evaluations of the reviews including identification of trivial versus substantive comments (i.e., those that must be addressed.

  3. The method validation step of biological dosimetry accreditation process

    Energy Technology Data Exchange (ETDEWEB)

    Roy, L.; Voisin, P.A.; Guillou, A.C.; Busset, A.; Gregoire, E.; Buard, V.; Delbos, M.; Voisin, Ph. [Institut de Radioprotection et de Surete Nucleaire, LDB, 92 - Fontenay aux Roses (France)

    2006-07-01

    One of the missions of the Laboratory of Biological Dosimetry (L.D.B.) of the Institute for Radiation and Nuclear Safety (I.R.S.N.) is to assess the radiological dose after an accidental overexposure suspicion to ionising radiation, by using radio-induced changes of some biological parameters. The 'gold standard' is the yield of dicentrics observed in patients lymphocytes, and this yield is converted in dose using dose effect relationships. This method is complementary to clinical and physical dosimetry, for medical team in charge of the patients. To obtain a formal recognition of its operational activity, the laboratory decided three years ago, to require an accreditation, by following the recommendations of both 17025 General Requirements for the Competence of Testing and Calibration Laboratories and 19238 Performance criteria for service laboratories performing biological dosimetry by cyto-genetics. Diagnostics, risks analysis were realized to control the whole analysis process leading to documents writing. Purchases, personnel department, vocational training were also included in the quality system. Audits were very helpful to improve the quality system. One specificity of this technique is that it is not normalized therefore apart from quality management aspects, several technical points needed some validations. An inventory of potentially influent factors was carried out. To estimate their real effect on the yield of dicentrics, a Placket-Burman experimental design was conducted. The effect of seven parameters was tested: the BUdr (bromodeoxyuridine), PHA (phytohemagglutinin) and colcemid concentration, the culture duration, the incubator temperature, the blood volume and the medium volume. The chosen values were calculated according to the uncertainties on the way they were measured i.e. pipettes, thermometers, test tubes. None of the factors has a significant impact on the yield of dicentrics. Therefore the uncertainty linked to their use was

  4. 分子生物学方法在土壤真菌多样性研究中的应用%Application of Molecular Biological Techniques in Fungal Diversity of Soil

    Institute of Scientific and Technical Information of China (English)

    韩冀

    2012-01-01

    Fungi are important composition of ecology system.Nowadays it's very important to study the soil fungal diversity and community structure,especially in soil bioremediation by microbiological resources.Modern molecular biology techniques provide effective methods to study the soil fungal diversity.Several techniques were summarized,including RFLP,T-RFLP,DGGE,RAPD and 18S rDNA clone library,while their application to analyze soil fungal diversity were introduced.%真菌是生态系统的重要组成成分,研究土壤中真菌的多样性和群落结构对于开发利用微生物资源、进行土壤生物修复具有重要意义。现代分子生物学的发展为研究土壤真菌提供了行之有效的方法。主要综述了限制性片段长度多态性、末端限制性片段长度多态性、变性梯度凝胶电泳、随机引物扩增多态性DNA、18S rDNA文库构建等技术的原理及在土壤真菌多样性研究中的应用。

  5. The USDA Forest Service-RMRS forest fungi collection: Resource for fungal identification, developing biological controls, predicting invasive pathogens, and predicting potential impacts of climate change

    Science.gov (United States)

    Sara M. Ashiglar; John W. Hanna; Amy L. Ross-Davis; Ned B. Klopfenstein

    2014-01-01

    The Moscow Forestry Sciences Laboratory of the Rocky Mountain Research Station (RMRS) has a unique collection of forest/tree-associated fungi with over 15,000 living specimens. Based in Moscow, ID, this USDA APHIS-PPQ (Plant Protection and Quarantine) containment facility houses fungal archives from approximately 35 states and 30 countries. The collection involves the...

  6. Optimization of electrocoagulation process to treat biologically pretreated bagasse effluent

    Directory of Open Access Journals (Sweden)

    Thirugnanasambandham K.

    2014-01-01

    Full Text Available The main objective of the present study was to investigate the efficiency of electrocoagulation process as a post-treatment to treat biologically pretreated bagasse effluent using iron electrodes. The removal of chemical oxygen demand (COD and total suspended solids (TSS were studied under different operating conditions such as amount of dilution, initial pH, applied current and electrolyte dose by using response surface methodology (RSM coupled with four-factor three-level Box-Behnken experimental design (BBD. The experimental results were analyzed by Pareto analysis of variance (ANOVA and second order polynomial mathematical models were developed with high correlation of efficiency (R2 for COD, TSS removal and electrical energy consumption (EEC. The individual and combined effect of variables on responses was studied using three dimensional response surface plots. Under the optimum operating conditions, such as amount of dilution at 30 %, initial pH of 6.5, applied current of 8 mA cm-2 and electrolyte dose of 740 mg l-1 shows the higher removal efficiency of COD (98 % and TSS (93 % with EEC of 2.40 Wh, which were confirmed by validation experiments.

  7. POLISHING THE EFFLUENT FROM AN ANAEROBIC BIOLOGICAL PERCHLORATE TREATMENT PROCESS - SLIDES

    Science.gov (United States)

    Anaerobic biological processes effectively reduce perchlorate to chloride. However, the effluent can be biologically unstable, high in particulates and high in disinfection by-product precursor compounds. Such an effluent would be unsuitable for transmission into a drinking water...

  8. Ecosystem Modeling of Biological Processes to Global Budgets

    Science.gov (United States)

    Christopher, Potter S.; Condon, Estelle (Technical Monitor)

    2000-01-01

    biosphere effects on atmospheric composition is the ecosystem level. These assumptions are the foundation for developing modern emission budgets for biogenic gases such as carbon dioxide, methane, carbon monoxide, isoprene, nitrous and nitric oxide, and ammonia. Such emission budgets commonly include information on seasonal flux patterns, typical diurnal profiles, and spatial resolution of at least one degree latitude/longitude for the globe. On the basis of these budgets, it is possible to compute 'base emission rates' for the major biogenic trace gases from both terrestrial and ocean sources, which may be useful benchmarks for defining the gas production rates of organisms, especially those from early Earth history, which are required to generate a detectable signal on a global atmosphere. This type of analysis is also the starting point for evaluation of the 'biological processes to global gas budget' extrapolation procedure described above for early Earth ecosystems.

  9. Release and characteristics of fungal fragments in various conditions

    Energy Technology Data Exchange (ETDEWEB)

    Mensah-Attipoe, Jacob [Department of Environmental Science, University of Eastern Finland, Yliopistonranta 1D, P. O. Box 1627, FI-70211 Kuopio (Finland); Saari, Sampo [Department of Physics, Tampere University of Technology, Korkeakoulunkatu 3, 33720 Tampere (Finland); Veijalainen, Anna-Maria; Pasanen, Pertti [Department of Environmental Science, University of Eastern Finland, Yliopistonranta 1D, P. O. Box 1627, FI-70211 Kuopio (Finland); Keskinen, Jorma [Department of Physics, Tampere University of Technology, Korkeakoulunkatu 3, 33720 Tampere (Finland); Leskinen, Jari T.T. [SIB Labs, University of Eastern Finland, Yliopistonranta 1E, P. O. Box 1627, FI-70211, Kuopio (Finland); Reponen, Tiina, E-mail: reponeta@ucmail.uc.edu [Department of Environmental Science, University of Eastern Finland, Yliopistonranta 1D, P. O. Box 1627, FI-70211 Kuopio (Finland); Department of Environmental Health, University of Cincinnati, P.O. Box 670056, Cincinnati, OH 45267-0056 (United States)

    2016-03-15

    Intact spores and submicrometer size fragments are released from moldy building materials during growth and sporulation. It is unclear whether all fragments originate from fungal growth or if small pieces of building materials are also aerosolized as a result of microbial decomposition. In addition, particles may be formed through nucleation from secondary metabolites of fungi, such as microbial volatile organic compounds (MVOCs). In this study, we used the elemental composition of particles to characterize the origin of submicrometer fragments released from materials contaminated by fungi. Particles from three fungal species (Aspergillus versicolor, Cladosporium cladosporioides and Penicillium brevicompactum), grown on agar, wood and gypsum board were aerosolized using the Fungal Spore Source Strength Tester (FSSST) at three air velocities (5, 16 and 27 m/s). Released spores (optical size, d{sub p} ≥ 0.8 μm) and fragments (d{sub p} ≤ 0.8 μm) were counted using direct-reading optical aerosol instruments. Particles were also collected on filters, and their morphology and elemental composition analyzed using scanning electron microscopes (SEMs) coupled with an Energy-Dispersive X-ray spectroscopy (EDX). Among the studied factors, air velocity resulted in the most consistent trends in the release of fungal particles. Total concentrations of both fragments and spores increased with an increase in air velocity for all species whereas fragment–spore (F/S) ratios decreased. EDX analysis showed common elements, such as C, O, Mg and Ca, for blank material samples and fungal growth. However, N and P were exclusive to the fungal growth, and therefore were used to differentiate biological fragments from non-biological ones. Our results indicated that majority of fragments contained N and P. Because we observed increased release of fragments with increased air velocities, nucleation of MVOCs was likely not a relevant process in the formation of fungal fragments. Based

  10. Photo-activated biological processes as quantum measurements

    CERN Document Server

    Imamoglu, Atac

    2014-01-01

    We outline a framework for describing photo-activated biological reactions as generalized quantum measurements of external fields, for which the biological system takes on the role of a quantum meter. By using general arguments regarding the Hamiltonian that describes the measurement interaction, we identify the cases where it is essential for a complex chemical or biological system to exhibit non-equilibrium quantum coherent dynamics in order to achieve the requisite functionality. We illustrate the analysis by considering measurement of the solar radiation field in photosynthesis and measurement of the earth's magnetic field in avian magnetoreception.

  11. Production of hydrogen using an anaerobic biological process

    Energy Technology Data Exchange (ETDEWEB)

    Kramer, Robert; Pelter, Libbie S.; Patterson, John A.

    2016-11-29

    Various embodiments of the present invention pertain to methods for biological production of hydrogen. More specifically, embodiments of the present invention pertain to a modular energy system and related methods for producing hydrogen using organic waste as a feed stock.

  12. Carbonate Beaches: A Balance Between Biological and Physical Processes

    Science.gov (United States)

    Nairn, R.; Risk, M.

    2004-12-01

    Carbonate beaches are a unique example of the interaction between biological processes, creating the sediments, and physical processes, moving and often removing the sediments. On the sediment supply side, carbonate sediments are born, not made. They exist in dynamic equilibrium between production and destruction. Following the creation of carbonate sediment in coral reef and lagoon environments, the sediments are moved shoreward to the beach, transport along the shore and sometimes, eventually lost offshore, often as the result of tropical storms. Comprehensive studies of the balance between the supply and loss of carbonate sediments and beach dynamics have been completed for the islands of Mauritius and Barbados. Field studies and remote sensing (Compact Airborne Spectrometry Imaging) have been applied to develop carbonate sediment production rates for a range of reef and lagoon conditions. Using GIS, these production rates have been integrated to determine sediment supply rates for different segments of the coastline. 1-D and 2-D models of waves, hydrodynamics, sediment transport and morphodynamics were set-up and tested against observed beach response to storm events or a sequence of storm events. These complex deterministic models are not suitable for application over periods of decades. However, it was possible to characterize storm events by the extent of sand loss, and relate this to key descriptive factors for groups of storm events, thereby encapsulating the erosion response. A long-term predictive tool for evaluating beach erosion and accretion response, over a period of several decades, was developed by combining the supply rates for carbonate sediment and the encapsulated representation of the loss rates through physical processes. The ability of this predictive tool was successfully tested against observed long term beach evolution along sections of the coast in Barbados and Mauritius using air photo analysis in GIS for shoreline change over periods

  13. Students' Ability to Solve Process-Diagram Problems in Secondary Biology Education

    Science.gov (United States)

    Kragten, Marco; Admiraal, Wilfried; Rijlaarsdam, Gert

    2015-01-01

    Process diagrams are important tools in biology for explaining processes such as protein synthesis, compound cycles and the like. The aim of the present study was to measure the ability to solve process-diagram problems in biology and its relationship with prior knowledge, spatial ability and working memory. For this purpose, we developed a test…

  14. Students' Ability to Solve Process-Diagram Problems in Secondary Biology Education

    Science.gov (United States)

    Kragten, Marco; Admiraal, Wilfried; Rijlaarsdam, Gert

    2015-01-01

    Process diagrams are important tools in biology for explaining processes such as protein synthesis, compound cycles and the like. The aim of the present study was to measure the ability to solve process-diagram problems in biology and its relationship with prior knowledge, spatial ability and working memory. For this purpose, we developed a test…

  15. Students' Ability to Solve Process-Diagram Problems in Secondary Biology Education

    Science.gov (United States)

    Kragten, Marco; Admiraal, Wilfried; Rijlaarsdam, Gert

    2015-01-01

    Process diagrams are important tools in biology for explaining processes such as protein synthesis, compound cycles and the like. The aim of the present study was to measure the ability to solve process-diagram problems in biology and its relationship with prior knowledge, spatial ability and working memory. For this purpose, we developed a test…

  16. Exploitation of Fungal Biodiversity for Discovery of Novel Antibiotics.

    Science.gov (United States)

    Karwehl, Sabrina; Stadler, Marc

    Fungi were among the first sources for antibiotics. The discovery and development of the penicillin-type and cephalosporin-type β-lactams and their synthetic versions were transformative in emergence of the modern pharmaceutical industry. They remain some of the most important antibiotics, even 70 years after their discovery. Meanwhile, thousands of fungal metabolites have been discovered, yet these metabolites have only contributed a few additional compounds that have entered clinical development. Substantial expansion in fungal biodiversity assessment along with the availability of modern "-OMICS" technology and revolutionary developments in fungal biotechnology have been made in the last 15 years subsequent to the exit of most of the big Pharma companies from the field of novel antibiotics discovery. Therefore, the timing seems opportune to revisit these fascinating chemically rich organisms as a reservoir of small-molecule templates for lead discovery. This review will describe ongoing interdisciplinary scenarios in which specialists in fungal biology collaborate with chemists, pharmacologists and biochemical and process engineers in order to reveal and make new antibiotics. The utility of a pre-selection process based on phylogenetic data and distribution of secondary metabolite encoding gene cluster will be highlighted. Examples of novel bioactive metabolites from fungi derived from special ecological groups and new phylogenetic lineages will also be discussed.

  17. Diffusion and association processes in biological systems: theory, computation and experiment

    Directory of Open Access Journals (Sweden)

    Mereghetti Paolo

    2011-03-01

    Full Text Available Abstract Macromolecular diffusion plays a fundamental role in biological processes. Here, we give an overview of recent methodological advances and some of the challenges for understanding how molecular diffusional properties influence biological function that were highlighted at a recent workshop, BDBDB2, the second Biological Diffusion and Brownian Dynamics Brainstorm.

  18. Diffusion and association processes in biological systems: theory, computation and experiment.

    Science.gov (United States)

    Mereghetti, Paolo; Kokh, Daria; McCammon, J Andrew; Wade, Rebecca C

    2011-03-02

    Macromolecular diffusion plays a fundamental role in biological processes. Here, we give an overview of recent methodological advances and some of the challenges for understanding how molecular diffusional properties influence biological function that were highlighted at a recent workshop, BDBDB2, the second Biological Diffusion and Brownian Dynamics Brainstorm.

  19. Advanced treatment of biologically pretreated coal gasification wastewater by a novel integration of heterogeneous catalytic ozonation and biological process.

    Science.gov (United States)

    Zhuang, Haifeng; Han, Hongjun; Jia, Shengyong; Hou, Baolin; Zhao, Qian

    2014-08-01

    Advanced treatment of biologically pretreated coal gasification wastewater (CGW) was investigated employing heterogeneous catalytic ozonation integrated with anoxic moving bed biofilm reactor (ANMBBR) and biological aerated filter (BAF) process. The results indicated that catalytic ozonation with the prepared catalyst (i.e. MnOx/SBAC, sewage sludge was converted into sludge based activated carbon (SBAC) which loaded manganese oxides) significantly enhanced performance of pollutants removal by generated hydroxyl radicals. The effluent of catalytic ozonation process was more biodegradable and less toxic than that in ozonation alone. Meanwhile, ANMBBR-BAF showed efficient capacity of pollutants removal in treatment of the effluent of catalytic ozonation at a shorter reaction time, allowing the discharge limits to be met. Therefore, the integrated process with efficient, economical and sustainable advantages was suitable for advanced treatment of real biologically pretreated CGW.

  20. Primary prophylaxis of invasive fungal diseases in allogeneic stem cell transplantation: revised recommendations from a consensus process by Gruppo Italiano Trapianto Midollo Osseo (GITMO).

    Science.gov (United States)

    Girmenia, Corrado; Barosi, Giovanni; Piciocchi, Alfonso; Arcese, William; Aversa, Franco; Bacigalupo, Andrea; Bandini, Giuseppe; Bosi, Alberto; Busca, Alessandro; Castagnola, Elio; Caselli, Desiree; Cesaro, Simone; Ciceri, Fabio; Locasciulli, Anna; Locatelli, Franco; Mikulska, Malgorzata; Pagano, Livio; Prete, Arcangelo; Raiola, Anna Maria; Rambaldi, Alessandro

    2014-08-01

    This document updates and expands the recommendations on primary prophylaxis of invasive fungal diseases (IFD) in allogeneic hematopoietic stem cell transplantation (allo-HSCT) recipients, published in 2009 by the Gruppo Italiano Trapianto Midollo Osseo (GITMO). A consensus process was undertaken to describe and evaluate current information and practice regarding risk stratification and primary antifungal prophylaxis during the pre-engraftment and postengraftment phases after allo-HSCT. The revised recommendations were based on the evaluation of recent literature including a large, prospective, multicenter epidemiological study of allo-HSCT recipients conducted among the GITMO transplantation centers during the period of 2008 to 2010. It is intended as a guide for the identification of types and phases of transplantation at low, standard, and high risk for IFD, according to the underlying disease, transplantation, and post-transplantation factors. The risk stratification was the critical determinant of the primary antifungal approach for allo-HSCT recipients.

  1. Hybrid Adsorption-Membrane Biological Reactors for Improved Performance and Reliability of Perchlorate Removal Processes

    Science.gov (United States)

    2008-12-01

    carbon supply for the autotrophic perchlorate reducing bacteria. The membrane used in the reactor is a hollow-fiber microfiltration membrane made from...1 HYBRID ADSORPTION- MEMBRANE BIOLOGICAL REACTORS FOR IMPROVED PERFORMANCE AND RELIABILITY OF PERCHLORATE REMOVAL PROCESSES L.C. Schideman...Center Champaign, IL 61826, USA ABSTRACT This study introduces the novel HAMBgR process (Hybrid Adsorption Membrane Biological Reactor) and

  2. Using Simple Manipulatives to Improve Student Comprehension of a Complex Biological Process: Protein Synthesis

    Science.gov (United States)

    Guzman, Karen; Bartlett, John

    2012-01-01

    Biological systems and living processes involve a complex interplay of biochemicals and macromolecular structures that can be challenging for undergraduate students to comprehend and, thus, misconceptions abound. Protein synthesis, or translation, is an example of a biological process for which students often hold many misconceptions. This article…

  3. Fungal contaminants in cytopathology specimens

    Directory of Open Access Journals (Sweden)

    Prashant Sharma

    2014-02-01

    Full Text Available A pseudo-epidemic of environmental fungi, most likely by Fusarium spp., leading to inappropriate investigations for disseminated systemic mycosis is described. Subtle diagnostic clues, including the specimens affected, the nature of the host response, and the type of fungal elements noted helped to determine the nature of contaminants. The potential pitfall can be avoided by the knowledge of pertinent disease biology, prompt consultation for infectious diseases, and investigations of the potential environmental sources followed by source control.

  4. CFGP: a web-based, comparative fungal genomics platform.

    Science.gov (United States)

    Park, Jongsun; Park, Bongsoo; Jung, Kyongyong; Jang, Suwang; Yu, Kwangyul; Choi, Jaeyoung; Kong, Sunghyung; Park, Jaejin; Kim, Seryun; Kim, Hyojeong; Kim, Soonok; Kim, Jihyun F; Blair, Jaime E; Lee, Kwangwon; Kang, Seogchan; Lee, Yong-Hwan

    2008-01-01

    Since the completion of the Saccharomyces cerevisiae genome sequencing project in 1996, the genomes of over 80 fungal species have been sequenced or are currently being sequenced. Resulting data provide opportunities for studying and comparing fungal biology and evolution at the genome level. To support such studies, the Comparative Fungal Genomics Platform (CFGP; http://cfgp.snu.ac.kr), a web-based multifunctional informatics workbench, was developed. The CFGP comprises three layers, including the basal layer, middleware and the user interface. The data warehouse in the basal layer contains standardized genome sequences of 65 fungal species. The middleware processes queries via six analysis tools, including BLAST, ClustalW, InterProScan, SignalP 3.0, PSORT II and a newly developed tool named BLASTMatrix. The BLASTMatrix permits the identification and visualization of genes homologous to a query across multiple species. The Data-driven User Interface (DUI) of the CFGP was built on a new concept of pre-collecting data and post-executing analysis instead of the 'fill-in-the-form-and-press-SUBMIT' user interfaces utilized by most bioinformatics sites. A tool termed Favorite, which supports the management of encapsulated sequence data and provides a personalized data repository to users, is another novel feature in the DUI.

  5. Pulsed electrical discharges for medicine and biology techniques, processes, applications

    CERN Document Server

    Kolikov, Victor

    2015-01-01

    This book presents the application of pulsed electrical discharges in water and water dispersions of metal nanoparticles in medicine (surgery, dentistry, and oncology), biology, and ecology. The intensive electrical and shock waves represent a novel technique to destroy viruses and this way to  prepare anti-virus vaccines. The method of pulsed electrical discharges in water allows to decontaminate water from almost all known bacteria and spores of fungi being present in human beings. The nanoparticles used are not genotoxic and mutagenic. This book is useful for researchers and graduate students.

  6. Two-way feedback between biology and deep Earth processes

    DEFF Research Database (Denmark)

    Sleep, Norman; Bird, Dennis K.; Pope, Emily Catherine

    The presence of the metamorphic products of banded iron formation and black shale indicate that the Earth teemed with life by the time of the earliest preserved rocks, ca. 3.85 Ga. Iron and sulfur-based anoxygenic photosynthesis with full carbon cycles was present by this time. The pH of the ocean...... was ~8. The lack of older rock record cloaks pre-biotic evolution and the origin of life. Nascent and early life obtained energy from chemical disequilibria in rocks rather than sunlight. Appraising putative rock pre-biological environments is difficult in that life has modified the composition...

  7. Entomopathogenic fungal endophytes

    Science.gov (United States)

    Fungal endophytes are quite common in nature and some of them have been shown to have adverse effects against insects, nematodes, and plant pathogens. An introduction to fungal endophytes will be presented, followed by a discussion of research aimed at introducing Beauveria bassiana as a fungal endo...

  8. Coupled model of physical and biological processes affecting maize pollination

    Science.gov (United States)

    Arritt, R.; Westgate, M.; Riese, J.; Falk, M.; Takle, E.

    2003-04-01

    Controversy over the use of genetically modified (GM) crops has led to increased interest in evaluating and controlling the potential for inadvertent outcrossing in open-pollinated crops such as maize. In response to this problem we have developed a Lagrangian model of pollen dispersion as a component of a coupled end-to-end (anther to ear) physical-biological model of maize pollination. The Lagrangian method is adopted because of its generality and flexibility: first, the method readily accommodates flow fields of arbitrary complexity; second, each element of the material being transported can be identified by its source, time of release, or other properties of interest. The latter allows pollen viability to be estimated as a function of such factors as travel time, temperature, and relative humidity, so that the physical effects of airflow and turbulence on pollen dispersion can be considered together with the biological aspects of pollen release and viability. Predicted dispersion of pollen compares well both to observations and to results from a simpler Gaussian plume model. Ability of the Lagrangian model to handle complex air flows is demonstrated by application to pollen dispersion in the vicinity of an agricultural shelter belt. We also show results indicating that pollen viability can be quantified by an "aging function" that accounts for temperature, humidity, and time of exposure.

  9. Characteristics of Molecular-biological Systems and Process-network Synthesis

    CERN Document Server

    Papp, L; Friedler, F; Fan, L T

    2002-01-01

    Graph Theoretic Process Network Synthesis is described as an introduction to biological networks. Genetic, protein and metabolic systems are considered. The theoretical work of Kauffman is discussed and amplified by critical property excursions. The scaling apparent in biological systems is shown. Applications to evolution and reverse engineering are construed. The use of several programs, such as the Synprops, Design of molecules, Therm and Knapsack are suggested as instruments to study biological process network synthesis. The properties of robust self-assembly and Self-Organizing synthesis are important contributors to the discussion. The bar code of life and intelligent design is reviewed. The need for better data in biological systems is emphasized.

  10. Pretreatment of lignocellulose with biological acid recycling (the Biosulfurol process)

    NARCIS (Netherlands)

    Groenestijn, van J.; Hazewinkel, O.; Bakker, R.R.C.

    2006-01-01

    A biomass pretreatment process is being developed based on contacting lignocellulosic biomass with 70% sulfuric acid and subsequent hydrolysis by adding water. In this process, the hydrolysate can be fermented yielding ethanol, while the sulfuric acid is partly recovered by anion-selective membranes

  11. Aerobic Digestion. Biological Treatment Process Control. Instructor's Guide.

    Science.gov (United States)

    Klopping, Paul H.

    This unit on aerobic sludge digestion covers the theory of the process, system components, factors that affect the process performance, standard operational concerns, indicators of steady-state operations, and operational problems. The instructor's guide includes: (1) an overview of the unit; (2) lesson plan; (3) lecture outline (keyed to a set of…

  12. Systems Biology Graphical Notation: Process Description language Level 1 Version 1.3.

    Science.gov (United States)

    Moodie, Stuart; Le Novère, Nicolas; Demir, Emek; Mi, Huaiyu; Villéger, Alice

    2015-09-04

    The Systems Biological Graphical Notation (SBGN) is an international community effort for standardized graphical representations of biological pathways and networks. The goal of SBGN is to provide unambiguous pathway and network maps for readers with different scientific backgrounds as well as to support efficient and accurate exchange of biological knowledge between different research communities, industry, and other players in systems biology. Three SBGN languages, Process Description (PD), Entity Relationship (ER) and Activity Flow (AF), allow for the representation of different aspects of biological and biochemical systems at different levels of detail. The SBGN Process Description language represents biological entities and processes between these entities within a network. SBGN PD focuses on the mechanistic description and temporal dependencies of biological interactions and transformations. The nodes (elements) are split into entity nodes describing, e.g., metabolites, proteins, genes and complexes, and process nodes describing, e.g., reactions and associations. The edges (connections) provide descriptions of relationships (or influences) between the nodes, such as consumption, production, stimulation and inhibition. Among all three languages of SBGN, PD is the closest to metabolic and regulatory pathways in biological literature and textbooks, but its well-defined semantics offer a superior precision in expressing biological knowledge.

  13. Analysis of biological processes and diseases using text mining approaches.

    Science.gov (United States)

    Krallinger, Martin; Leitner, Florian; Valencia, Alfonso

    2010-01-01

    A number of biomedical text mining systems have been developed to extract biologically relevant information directly from the literature, complementing bioinformatics methods in the analysis of experimentally generated data. We provide a short overview of the general characteristics of natural language data, existing biomedical literature databases, and lexical resources relevant in the context of biomedical text mining. A selected number of practically useful systems are introduced together with the type of user queries supported and the results they generate. The extraction of biological relationships, such as protein-protein interactions as well as metabolic and signaling pathways using information extraction systems, will be discussed through example cases of cancer-relevant proteins. Basic strategies for detecting associations of genes to diseases together with literature mining of mutations, SNPs, and epigenetic information (methylation) are described. We provide an overview of disease-centric and gene-centric literature mining methods for linking genes to phenotypic and genotypic aspects. Moreover, we discuss recent efforts for finding biomarkers through text mining and for gene list analysis and prioritization. Some relevant issues for implementing a customized biomedical text mining system will be pointed out. To demonstrate the usefulness of literature mining for the molecular oncology domain, we implemented two cancer-related applications. The first tool consists of a literature mining system for retrieving human mutations together with supporting articles. Specific gene mutations are linked to a set of predefined cancer types. The second application consists of a text categorization system supporting breast cancer-specific literature search and document-based breast cancer gene ranking. Future trends in text mining emphasize the importance of community efforts such as the BioCreative challenge for the development and integration of multiple systems into

  14. Sustainable Production Process of Biological Mineral Feed Additives

    Directory of Open Access Journals (Sweden)

    Agnieszka Zielinska

    2009-01-01

    Full Text Available Problem statement: This study discussed the problem of accumulation of Zn and Cu in the topsoil as a result of application of mineral feed additives that possess low bioavailability in animal diet. The review considered the production process of mineral feed additives in which a product supplies microelements in highly bioavailable form. Enrichment of natural biomass of edible microalgae with microelement metal ions, which supply microelements of feeding significance in livestock diet, is considered in term of sustainable production. Approach: Production of microalgae-derived products as mineral feed additives requires elaboration of the processes for cultivation of alga, enrichment process and afterwards recovery of the enriched biomass from the solution to obtain liquid free of cells that could be reused in the next process. In this study membrane bioreactor was considered as a method for separation, both in photobioreactor (growth of microorganism as well as in the enrichment process. Results: Effort involved in thermal and chemical separation techniques is higher than that in mechanical techniques. Membrane bioreactors which are usually applied to treat wastewater, both industrial and domestic. This study discussed method to separate a valuable biomass of enriched microalgae and reuse the solution with residual metal ions that can be used once again in the subsequent biosorption process. Conclusion/Recommendation: Taking into consideration care about the environment it is better to apply membrane modules in the production process in terms of sustainable production. The proposed solution assumed the application of membrane modules as a separation step after enrichment process and biomass recovery.

  15. Using the Unified Modelling Language (UML) to guide the systemic description of biological processes and systems.

    Science.gov (United States)

    Roux-Rouquié, Magali; Caritey, Nicolas; Gaubert, Laurent; Rosenthal-Sabroux, Camille

    2004-07-01

    One of the main issues in Systems Biology is to deal with semantic data integration. Previously, we examined the requirements for a reference conceptual model to guide semantic integration based on the systemic principles. In the present paper, we examine the usefulness of the Unified Modelling Language (UML) to describe and specify biological systems and processes. This makes unambiguous representations of biological systems, which would be suitable for translation into mathematical and computational formalisms, enabling analysis, simulation and prediction of these systems behaviours.

  16. Mistaking geography for biology: inferring processes from species distributions.

    Science.gov (United States)

    Warren, Dan L; Cardillo, Marcel; Rosauer, Dan F; Bolnick, Daniel I

    2014-10-01

    Over the past few decades, there has been a rapid proliferation of statistical methods that infer evolutionary and ecological processes from data on species distributions. These methods have led to considerable new insights, but they often fail to account for the effects of historical biogeography on present-day species distributions. Because the geography of speciation can lead to patterns of spatial and temporal autocorrelation in the distributions of species within a clade, this can result in misleading inferences about the importance of deterministic processes in generating spatial patterns of biodiversity. In this opinion article, we discuss ways in which patterns of species distributions driven by historical biogeography are often interpreted as evidence of particular evolutionary or ecological processes. We focus on three areas that are especially prone to such misinterpretations: community phylogenetics, environmental niche modelling, and analyses of beta diversity (compositional turnover of biodiversity).

  17. THE USE OF PLANTS TO PROTECT PLANTS AND FOOD AGAINST FUNGAL PATHOGENS: A REVIEW.

    Science.gov (United States)

    Shuping, D S S; Eloff, J N

    2017-01-01

    Plant fungal pathogens play a crucial role in the profitability, quality and quantity of plant production. These phytopathogens are persistent in avoiding plant defences causing diseases and quality losses around the world that amount to billions of US dollars annually. To control the scourge of plant fungal diseases, farmers have used fungicides to manage the damage of plant pathogenic fungi. Drawbacks such as development of resistance and environmental toxicity associated with these chemicals have motivated researchers and cultivators to investigate other possibilities. Several databases were accessed to determine work done on protecting plants against plant fungal pathogens with plant extracts using search terms "plant fungal pathogen", "plant extracts" and "phytopathogens". Proposals are made on the best extractants and bioassay techniques to be used. In addition to chemical fungicides, biological agents have been used to deal with plant fungal diseases. There are many examples where plant extracts or plant derived compounds have been used as commercial deterrents of fungi on a large scale in agricultural and horticultural setups. One advantage of this approach is that plant extracts usually contain more than one antifungal compound. Consequently the development of resistance of pathogens may be lower if the different compounds affect a different metabolic process. Plants cultivated using plants extracts may also be marketed as organically produced. Many papers have been published on effective antimicrobial compounds present in plant extracts focusing on applications in human health. More research is required to develop suitable, sustainable, effective, cheaper botanical products that can be used to help overcome the scourge of plant fungal diseases. Scientists who have worked only on using plants to control human and animal fungal pathogens should consider the advantages of focusing on plant fungal pathogens. This approach could not only potentially increase

  18. A Biologically-Inspired Neural Network Architecture for Image Processing

    Science.gov (United States)

    1990-12-01

    findings, in accord with other research cited here, were obtained from cortical measurements or, 15 adult cats and 12 kittens , all anesthetized (9...software models on a Cray computer. Furthermore, care should be taken to avoid exceeding machine memory capacity when running intensive processes

  19. Biological processes for the production of aryl sulfates

    DEFF Research Database (Denmark)

    2016-01-01

    The present invention generally relates to the field of biotechnology as it applies to the production of aryl sulfates using polypeptides or recombinant cells comprising said polypeptides. More particularly, the present invention pertains to polypeptides having aryl sulfotransferase activity......, recombinant host cells expressing same and processes for the production of aryl sulfates employing these polypeptides or recombinant host cells....

  20. Trickling Filters. Student Manual. Biological Treatment Process Control.

    Science.gov (United States)

    Richwine, Reynold D.

    The textual material for a unit on trickling filters is presented in this student manual. Topic areas discussed include: (1) trickling filter process components (preliminary treatment, media, underdrain system, distribution system, ventilation, and secondary clarifier); (2) operational modes (standard rate filters, high rate filters, roughing…

  1. Anaerobic Digestion. Student Manual. Biological Treatment Process Control.

    Science.gov (United States)

    Carnegie, John W., Ed.

    This student manual contains the textual material for a four-lesson unit on anaerobic digestion control. Areas addressed include: (1) anaerobic sludge digestion (considering the nature of raw sludge, purposes of anaerobic digestion, the results of digestion, types of equipment, and other topics); (2) digester process control (considering feeding…

  2. Fungal Involvement in Biogeological Processes and Application to Environmental Bioremediation%真菌的生物地质作用及其在环境修复中的应用

    Institute of Scientific and Technical Information of China (English)

    李涵; 蔡林; 姚奇志; 周根陶

    2015-01-01

    In the Earth's lithosphere, fungi are of fundamental significance as organism decomposers, animal and plant pathogens and symbionts, being ubiquitous in subaerial and subsoil environments. The ability of fungi to interact with rock or mineral substrates through their growth and metabolic activities, makes them an important participator in geochemical processes. The principal roles include the fungi-promoted mineral weathering, mycogenic mineral formation, nutrient and metal elements transformation and immobilization. In recent years, the bioleaching technologies derived from biological weathering have beneficial applications in the biomining, bio-beneficiation, as well as the bioremediation of contaminated soils and industrial solid waste. Moreover, the research on fungi as the biosorbents reveals that fungi can be applicable to remove metal or organic pollutants from the industrial wastewater and contaminated groundwater. Therefore, it is fully essential to understand the fungal activities encompassed within geomicrobiology. This mini review summarized current progresses of biological geological process for fungi, with focuses on biological weathering, biomineralization and environmental bioremediation, and future perspectives were proposed to better understand the important fungal functions in geomicrobiology and to catalyze further research in the field.%真菌在自然界中作为有机体的分解者、动植物的病原菌和共生菌,广泛分布于地表和土壤环境,并通过一系列生长及代谢活动,与周围环境中的岩石或矿物基质发生作用,进而影响地球化学过程。真菌的生物地质作用主要包括:真菌促进下岩石或矿物的风化,真菌诱导下次生矿物的形成,以及与上述过程相对应的营养元素和金属离子的迁移与固定。近年来,由生物风化发展而来的生物浸取技术,已经在生物采矿、选矿以及受污染土壤和工业垃圾的生物治理等多个

  3. Applications of Structural Biology and Bioinformatics in the Investigation of Oxidative Stress-Related Processes

    NARCIS (Netherlands)

    Bersch, Beate; Groves, Matthew; Johann, Klare; Torda, Andrew; Ortiz, Dario; Laher, I.

    2014-01-01

    Reactive oxygen species (ROS)-mediated dysfunction of certain biological processes is implicated in different diseases in humans, including cardiovascular, cancer, or neurodegenerative disorders. Not only human cells and tissues are affected by ROS but also all other biological systems, including pl

  4. Advanced treatment of biologically pretreated coal gasification wastewater by a novel integration of heterogeneous Fenton oxidation and biological process.

    Science.gov (United States)

    Xu, Peng; Han, Hongjun; Zhuang, Haifeng; Hou, Baolin; Jia, Shengyong; Xu, Chunyan; Wang, Dexin

    2015-04-01

    Laboratorial scale experiments were conducted in order to investigate a novel system integrating heterogeneous Fenton oxidation (HFO) with anoxic moving bed biofilm reactor (ANMBBR) and biological aerated filter (BAF) process on advanced treatment of biologically pretreated coal gasification wastewater (CGW). The results indicated that HFO with the prepared catalyst (FeOx/SBAC, sewage sludge based activated carbon (SBAC) which loaded Fe oxides) played a key role in eliminating COD and COLOR as well as in improving the biodegradability of raw wastewater. The surface reaction and hydroxyl radicals (OH) oxidation were the mechanisms for FeOx/SBAC catalytic reaction. Compared with ANMBBR-BAF process, the integrated system was more effective in abating COD, BOD5, total phenols (TPs), total nitrogen (TN) and COLOR and could shorten the retention time. Therefore, the integrated system was a promising technology for engineering applications.

  5. Determining biomass in biological processes. Methods for wastewater biological treatment; Determinacion de la biomasa en procesos biologicos

    Energy Technology Data Exchange (ETDEWEB)

    Arnaiz, C.; Isaac, L.; Lebrato, J. [Universidad Politecnica de Sevilla (Spain)

    2000-07-01

    Biomass concentration and activity are two important parameters for the successful design and control of biological processes in wastewater treatment. Widely used parameter for biomass characterization is dry weight concentration. This parameter is, however, not sufficient to describe biomass activity. Improved analytical methods are needed in order to understand the physiological behaviour of the biomass. In this work, conventional and advanced analytical methods for biomass determination in wastewater treatment are reviewed. (Author) 27 refs.

  6. Fungal symbionts of grasses: evolutionary insights and agricultural potential.

    Science.gov (United States)

    Scott, B; Schardl, C

    1993-08-01

    Some filamentous fungal endophytes confer on their grass hosts important biological properties including resistance to grazing herbivores and resistance to nematodes and some fungal pathogens, as well as drought tolerance and greater field persistence. The production of alkaloids toxic to grazing animals is an undesirable aspect of the association in agronomic situations. Consequently, genetic strategies are being pursued to manipulate fungal endophytes and their hosts for agricultural benefit.

  7. Histone Acetylation in Fungal Pathogens of Plants

    Directory of Open Access Journals (Sweden)

    Junhyun Jeon

    2014-03-01

    Full Text Available Acetylation of histone lysine residues occurs in different organisms ranging from yeast to plants and mammals for the regulation of diverse cellular processes. With the identification of enzymes that create or reverse this modification, our understanding on histone acetylation has expanded at an amazing pace during the last two decades. In fungal pathogens of plants, however, the importance of such modification has only just begun to be appreciated in the recent years and there is a dearth of information on how histone acetylation is implicated in fungal pathogenesis. This review covers the current status of research related to histone acetylation in plant pathogenic fungi and considers relevant findings in the interaction between fungal pathogens and host plants. We first describe the families of histone acetyltransferases and deacetylases. Then we provide the cases where histone acetylation was investigated in the context of fungal pathogenesis. Finally, future directions and perspectives in epigenetics of fungal pathogenesis are discussed.

  8. Sustainable Production Process of Biological Mineral Feed Additives

    OpenAIRE

    Agnieszka Zielinska; Katarzyna Chojnacka; Marjana Simonic

    2009-01-01

    Problem statement: This study discussed the problem of accumulation of Zn and Cu in the topsoil as a result of application of mineral feed additives that possess low bioavailability in animal diet. The review considered the production process of mineral feed additives in which a product supplies microelements in highly bioavailable form. Enrichment of natural biomass of edible microalgae with microelement metal ions, which supply microelements of feeding significance in livestock diet, is con...

  9. Low cost materials of construction for biological processes: Proceedings

    Energy Technology Data Exchange (ETDEWEB)

    1993-05-13

    The workshop was held, May 1993 in conjunction with the 15th Symposium on Biotechnology for Fuels and Chemicals. The purpose of this workshop was to present information on the biomass to ethanol process in the context of materials selection and through presentation and discussion, identify promising avenues for future research. Six technical presentations were grouped into two sessions: process assessment and technology assessment. In the process assessment session, the group felt that the pretreatment area would require the most extensive materials research due the complex chemical, physical and thermal environment. Discussion centered around the possibility of metals being leached into the process stream and their effect on the fermentation mechanics. Linings were a strong option for pretreatment assuming the economics were favorable. Fermentation was considered an important area for research also, due to the unique complex of compounds and dual phases present. Erosion in feedstock handling equipment was identified as a minor concern. In the technology assessment session, methodologies in corrosion analysis were presented in addition to an overview of current coatings/linings technology. Widely practiced testing strategies, including ASTM methods, as well as novel procedures for micro-analysis of corrosion were discussed. Various coatings and linings, including polymers and ceramics, were introduced. The prevailing recommendations for testing included keeping the testing simple until the problem warranted a more detailed approach and developing standardized testing procedures to ensure the data was reproducible and applicable. The need to evaluate currently available materials such as coatings/linings, carbon/stainless steels, or fiberglass reinforced plastic was emphasized. It was agreed that economic evaluation of each material candidate must be an integral part of any research plan.

  10. Biological processing in oscillatory baffled reactors: operation, advantages and potential

    Science.gov (United States)

    Abbott, M. S. R.; Harvey, A. P.; Perez, G. Valente; Theodorou, M. K.

    2013-01-01

    The development of efficient and commercially viable bioprocesses is essential for reducing the need for fossil-derived products. Increasingly, pharmaceuticals, fuel, health products and precursor compounds for plastics are being synthesized using bioprocessing routes as opposed to more traditional chemical technologies. Production vessels or reactors are required for synthesis of crude product before downstream processing for extraction and purification. Reactors are operated either in discrete batches or, preferably, continuously in order to reduce waste, cost and energy. This review describes the oscillatory baffled reactor (OBR), which, generally, has a niche application in performing ‘long’ processes in plug flow conditions, and so should be suitable for various bioprocesses. We report findings to suggest that OBRs could increase reaction rates for specific bioprocesses owing to low shear, good global mixing and enhanced mass transfer compared with conventional reactors. By maintaining geometrical and dynamic conditions, the technology has been proved to be easily scaled up and operated continuously, allowing laboratory-scale results to be easily transferred to industrial-sized processes. This is the first comprehensive review of bioprocessing using OBRs. The barriers facing industrial adoption of the technology are discussed alongside some suggested strategies to overcome these barriers. OBR technology could prove to be a major aid in the development of commercially viable and sustainable bioprocesses, essential for moving towards a greener future. PMID:24427509

  11. Structural aspects of fungal allergens.

    Science.gov (United States)

    Crameri, Reto

    2015-03-01

    Despite the increasing number of solved crystal structures of allergens, the key question why some proteins are allergenic and the vast majority is not remains unanswered. The situation is not different for fungal allergens which cover a wide variety of proteins with different chemical properties and biological functions. They cover enzymes, cell wall, secreted, and intracellular proteins which, except cross-reactive allergens, does not show any evidence for structural similarities at least at the three-dimensional level. However, from a diagnostic point of view, pure allergens biotechnologically produced by recombinant technology can provide us, in contrast to fungal extracts which are hardly producible as standardized reagents, with highly pure perfectly standardized diagnostic reagents.

  12. (Post-)genomics approaches in fungal research.

    Science.gov (United States)

    Aguilar-Pontes, María Victoria; de Vries, Ronald P; Zhou, Miaomiao

    2014-11-01

    To date, hundreds of fungal genomes have been sequenced and many more are in progress. This wealth of genomic information has provided new directions to study fungal biodiversity. However, to further dissect and understand the complicated biological mechanisms involved in fungal life styles, functional studies beyond genomes are required. Thanks to the developments of current -omics techniques, it is possible to produce large amounts of fungal functional data in a high-throughput fashion (e.g. transcriptome, proteome, etc.). The increasing ease of creating -omics data has also created a major challenge for downstream data handling and analysis. Numerous databases, tools and software have been created to meet this challenge. Facing such a richness of techniques and information, hereby we provide a brief roadmap on current wet-lab and bioinformatics approaches to study functional genomics in fungi.

  13. State Estimation for a Biological Phosphorus Removal Process using an Asymptotic Observer

    DEFF Research Database (Denmark)

    Larose, Claude Alain; Jørgensen, Sten Bay

    2001-01-01

    This study investigated the use of an asymptotic observer for state estimation in a continuous biological phosphorus removal process. The estimated states are the concentration of heterotrophic, autotrophic, and phosphorus accumulating organisms, polyphosphate, glycogen and PHA. The reaction scheme...

  14. The composition of arbuscular mycorrhizal fungal communities in the roots of a ruderal forb is not related to the forest fragmentation process.

    Science.gov (United States)

    Grilli, Gabriel; Urcelay, Carlos; Galetto, Leonardo; Davison, John; Vasar, Martti; Saks, Ülle; Jairus, Teele; Öpik, Maarja

    2015-08-01

    Land-use changes and forest fragmentation have strong impact on biodiversity. However, little is known about the influence of new landscape configurations on arbuscular mycorrhizal fungal (AMF) community composition. We used 454 pyrosequencing to assess AMF diversity in plant roots from a fragmented forest. We detected 59 virtual taxa (VT; phylogenetically defined operational taxonomic units) of AMF - including 10 new VT - in the roots of Euphorbia acerensis. AMF communities were mainly composed of members of family Glomeraceae and were similar throughout the fragmented landscape, despite variation in forest fragment size (i.e. small, medium and large) and isolation (i.e. varying pairwise distances). AMF communities in forest fragments were phylogenetically clustered compared with the global, but not regional and local AMF taxon pools. This indicates that non-random community assembly processes possibly related to dispersal limitation at a large scale, rather than habitat filtering or biotic interactions, may be important in structuring the AMF communities. In this system, forest fragmentation did not appear to influence AMF community composition in the roots of the ruderal plant. Whether this is true for AMF communities in soil and the roots of other ecological groups of host plants or in other habitats deserves further study.

  15. Heat transfer and fluid flow in biological processes advances and applications

    CERN Document Server

    Becker, Sid

    2015-01-01

    Heat Transfer and Fluid Flow in Biological Processes covers emerging areas in fluid flow and heat transfer relevant to biosystems and medical technology. This book uses an interdisciplinary approach to provide a comprehensive prospective on biofluid mechanics and heat transfer advances and includes reviews of the most recent methods in modeling of flows in biological media, such as CFD. Written by internationally recognized researchers in the field, each chapter provides a strong introductory section that is useful to both readers currently in the field and readers interested in learning more about these areas. Heat Transfer and Fluid Flow in Biological Processes is an indispensable reference for professors, graduate students, professionals, and clinical researchers in the fields of biology, biomedical engineering, chemistry and medicine working on applications of fluid flow, heat transfer, and transport phenomena in biomedical technology. Provides a wide range of biological and clinical applications of fluid...

  16. Sensory cortical processing and the biological basis of personality.

    Science.gov (United States)

    Hegerl, U; Gallinat, J; Mrowinski, D

    1995-04-01

    Action-oriented personality traits such as sensation seeking, extraversion, and impulsivity have been related to a pronounced amplitude increase of auditory evoked scalp potentials with increasing stimulus intensity. Dipole source analysis represents a crucial methodological progress in this context, because overlapping subcomponents of the scalp potentials can be separated and can be related to their generating cortical structures. In a study on 40 healthy subjects, it was found that sensation seeking is clearly related to the auditory evoked response pattern (N1/P2-component, stimulus intensities: 60, 70, 80, 90, 100 dB SPL) of the superior temporal plane including primary auditory cortex, but not to that of secondary auditory areas in the lateral temporal cortex. These results support the concept that the serotonergic brain system, which is supposed to modulate sensory processing in primary auditory cortices, is an important factor underlying individual differences in sensation seeking.

  17. Kinetics of quasi-isoenergetic transition processes in biological macromolecules

    CERN Document Server

    ,

    2012-01-01

    A master equation describing the evolution of averaged molecular state occupancies in molecular systems where alternation of molecular energy levels is caused by discrete dichotomous and trichotomous stochastic fields, is derived. This study is focused on the kinetics of quasi-isoenergetic transition processes in the presence of moderately high frequency stochastic field. A novel physical mechanism for temperature-independent transitions in flexible molecular systems is proposed. This mechanism becomes effective when the conformation transitions between quasi-isoenergetic molecular states take place. At room temperatures, stochastic broadening of molecular energy levels predominates the energy of low frequency vibrations accompanying the transition. This leads to a cancellation of the temperature dependence in the stochastically averaged rate constants. As examples, physical interpretations of the temperature-independent onset of P2X$_3$ receptor desensitization in neuronal membranes, as well as degradation o...

  18. tRNAs as regulators of biological processes

    Directory of Open Access Journals (Sweden)

    Medha eRaina

    2014-06-01

    Full Text Available Transfer RNAs (tRNA are best known for their role as adaptors during translation of the genetic code. Beyond their canonical role during protein biosynthesis, tRNAs also perform additional functions in both prokaryotes and eukaryotes for example in regulating gene expression. Aminoacylated tRNAs have also been implicated as substrates for non-ribosomal peptide bond formation, post-translational protein labeling, modification of phospholipids in the cell membrane and antibiotic biosyntheses. Most recently tRNA fragments, or tRFs, have also been recognized to play regulatory roles. Here we examine in more details some of the new functions emerging for tRNA in a variety of cellular processes outside of protein synthesis.

  19. Homology and ontogeny: pattern and process in comparative developmental biology.

    Science.gov (United States)

    Scholtz, Gerhard

    2005-11-01

    In this article the interface between development and homology is discussed. Development is here interpreted as a sequence of evolutionarily independent stages. Any approach stressing the importance of specific developmental stages is rejected. A homology definition is favoured which includes similarity, and complexity serves as a test for homology. Complexity is seen as the possibility of subdividing a character into evolutionarily independent corresponding substructures. Topology as a test for homology is critically discussed because corresponding positions are not necessarily indicative of homology. Complexity can be used twofold for homology assessments of development: either stages or processes of development are homologized. These two approaches must not be con-flated. This distinction leads to the conclusion that there is no ontogenetic homology "criterion".

  20. Revealing complex function, process and pathway interactions with high-throughput expression and biological annotation data.

    Science.gov (United States)

    Singh, Nitesh Kumar; Ernst, Mathias; Liebscher, Volkmar; Fuellen, Georg; Taher, Leila

    2016-10-20

    The biological relationships both between and within the functions, processes and pathways that operate within complex biological systems are only poorly characterized, making the interpretation of large scale gene expression datasets extremely challenging. Here, we present an approach that integrates gene expression and biological annotation data to identify and describe the interactions between biological functions, processes and pathways that govern a phenotype of interest. The product is a global, interconnected network, not of genes but of functions, processes and pathways, that represents the biological relationships within the system. We validated our approach on two high-throughput expression datasets describing organismal and organ development. Our findings are well supported by the available literature, confirming that developmental processes and apoptosis play key roles in cell differentiation. Furthermore, our results suggest that processes related to pluripotency and lineage commitment, which are known to be critical for development, interact mainly indirectly, through genes implicated in more general biological processes. Moreover, we provide evidence that supports the relevance of cell spatial organization in the developing liver for proper liver function. Our strategy can be viewed as an abstraction that is useful to interpret high-throughput data and devise further experiments.

  1. Chemical industrial wastewater treated by combined biological and chemical oxidation process.

    Science.gov (United States)

    Guomin, Cao; Guoping, Yang; Mei, Sheng; Yongjian, Wang

    2009-01-01

    Wastewaters from phenol and rubber synthesis were treated by the activated sludge process in a large-scale chemical factory in Shanghai, but the final effluent quality cannot conform with the local discharge limit without using river water for dilution. Therefore, this chemical factory had to upgrade its wastewater treatment plant. To fully use the present buildings and equipment during upgrading of the chemical factory's wastewater treatment plant and to save operation costs, a sequential biological pre-treatement, chemical oxidation, and biological post-treatment (or BCB for short) process had been proposed and investigated in a pilot trial. The pilot trial results showed that about 80% COD in the chemical wastewater could be removed through anoxic and aerobic degradation in the biological pre-treatement section, and the residual COD in the effluent of the biological pre-treatment section belongs to refractory chemicals which cannot be removed by the normal biological process. The refractory chemicals were partial oxidized using Fenton's reagent in the chemical oxidation section to improve their biodegradability; subsequently the wastewater was treated by the SBR process in the biological post-treatment section. The final effluent COD reached the first grade discharge limit (process, the operation cost of the BCB process increased by about 0.5 yuan (RMB) per cubic metre wastewater, but about 1,240,000 m(3) a(-1) dilution water could be saved and the COD emission could be cut down by 112 tonne each year.

  2. Using Data Exclusivity Grants to Incentivize Cumulative Innovation of Biologics' Manufacturing Processes.

    Science.gov (United States)

    Levi, Eric Lawrence

    The pharmaceutical market is divided into two types of compounds: small-molecule chemical compounds and large-molecule biologics. Due to biologics’ molecular sizes and the current scientific state of biologics manufacturing, manufacturing facilities and processes require frequent reassessment to ensure production of safe, pure, and potent therapeutics. Manufacturers utilize patent and drug regulatory law to protect their investments and simultaneously signal where innovation and investment are lacking. The current four- and twelve-year regimented structures of the Biologics Price, Competition, and Innovation Act do not keep pace with scientific development; biologics manufacturing processes drift with time, and if a manufacturer can obtain a higher degree of process control, then it should not feel restricted to wait until their exclusivity period lapses. Currently, the FDA rarely grants market exclusivity privileges for manufacturing process improvements alone; hence, manufacturing processes--or at least large portions thereof--are typically withheld as trade secrets or strategically claimed within companion composition claims. As a result, significant opportunity exists in regulatory framework to incentivize the research and development of biologics manufacturing processes. By creating a one- to four-year data exclusivity extension opportunity, manufacturers will feel more comfortable reinvesting their returns on investment towards manufacturing efficiency, and manufacturers can capitalize on the complex-molecule nature of their biologic.

  3. Identification of an ancestral resistance gene cluster involved in the coevolution process between Phaseolus vulgaris and its fungal pathogen Colletotrichum lindemuthianum.

    Science.gov (United States)

    Geffroy, V; Sicard, D; de Oliveira, J C; Sévignac, M; Cohen, S; Gepts, P; Neema, C; Langin, T; Dron, M

    1999-09-01

    The recent cloning of plant resistance (R) genes and the sequencing of resistance gene clusters have shed light on the molecular evolution of R genes. However, up to now, no attempt has been made to correlate this molecular evolution with the host-pathogen coevolution process at the population level. Cross-inoculations were carried out between 26 strains of the fungal pathogen Colletotrichum lindemuthianum and 48 Phaseolus vulgaris plants collected in the three centers of diversity of the host species. A high level of diversity for resistance against the pathogen was revealed. Most of the resistance specificities were overcome in sympatric situations, indicating an adaptation of the pathogen to the local host. In contrast, plants were generally resistant to allopatric strains, suggesting that R genes that were efficient against exotic strains but had been overcome locally were maintained in the plant genome. These results indicated that coevolution processes between the two protagonists led to a differentiation for resistance in the three centers of diversity of the host. To improve our understanding of the molecular evolution of these different specificities, a recombinant inbred (RI) population derived from two representative genotypes of the Andean (JaloEEP558) and Mesoamerican (BAT93) gene pools was used to map anthracnose specificities. A gene cluster comprising both Andean (Co-y; Co-z) and Mesoamerican (Co-9) host resistance specificities was identified, suggesting that this locus existed prior to the separation of the two major gene pools of P. vulgaris. Molecular analysis revealed a high level of complexity at this locus. It harbors 11 restriction fragment length polymorphisms when R gene analog (RGA) clones are used. The relationship between the coevolution process and diversification of resistance specificities at resistance gene clusters is discussed.

  4. Distribution and localization of microsatellites in the Perigord black truffle genome and identification of new molecular markers (2010) Fungal Genetics and Biology

    Energy Technology Data Exchange (ETDEWEB)

    Murat, Claude [INRA, Nancy, France; Riccioni, C [INRA, Nancy, France; Belfiori, B [INRA, Nancy, France; Cichocki, N [INRA, Nancy, France; Labbe, Jessy L [ORNL; Morin, Emmanuelle [INRA, Nancy, France; Tisserant, Emilie [INRA, Nancy, France; Paolocci, F [INRA, Nancy, France; Rubini, A [INRA, Nancy, France; Martin, Francis [INRA, Nancy, France

    2011-01-01

    The level of genetic diversity and genetic structure in the Perigord black truffle (Tuber melanosporum Vittad.) has been debated for several years, mainly due to the lack of appropriate genetic markers. Microsatellites or simple sequence repeats (SSRs) are important for the genome organisation, phenotypic diversity and are one of the most popular molecular markers. In this study, we surveyed the T. melanosporum genome (1) to characterise its SSR pattern; (2) to compare it with SSR patterns found in 48 other fungal and three oomycetes genomes and (3) to identify new polymorphic SSR markers for population genetics. The T. melanosporum genome is rich in SSRs with 22,425 SSRs with mono-nucleotides being the most frequent motifs. SSRs were found in all genomic regions although they are more frequent in non-coding regions (introns and intergenic regions). Sixty out of 135 PCR-amplified mono-, di-, tri-, tetra, penta, and hexanucleotides were polymorphic (44%) within black truffle populations and 27 were randomly selected and analysed on 139 T. melanosporum isolates from France, Italy and Spain. The number of alleles varied from 2 to 18 and the expected heterozygosity from 0.124 to 0.815. One hundred and thirty-two different multilocus genotypes out of the 139 T. melanosporum isolates were identified and the genotypic diversity was high (0.999). Polymorphic SSRs were found in UTR regulatory regions of fruiting bodies and ectomycorrhiza regulated genes, suggesting that they may play a role in phenotypic variation. In conclusion, SSRs developed in this study were highly polymorphic and our results showed that T. melanosporum is a species with an important genetic diversity, which is in agreement with its recently uncovered heterothallic mating system.

  5. Acute toxicity and chemical evaluation of coking wastewater under biological and advanced physicochemical treatment processes.

    Science.gov (United States)

    Dehua, Ma; Cong, Liu; Xiaobiao, Zhu; Rui, Liu; Lujun, Chen

    2016-09-01

    This study investigated the changes of toxic compounds in coking wastewater with biological treatment (anaerobic reactor, anoxic reactor and aerobic-membrane bioreactor, A1/A2/O-MBR) and advanced physicochemical treatment (Fenton oxidation and activated carbon adsorption) stages. As the biological treatment stages preceding, the inhibition effect of coking wastewater on the luminescence of Vibrio qinghaiensis sp. Nov. Q67 decreased. Toxic units (TU) of coking wastewater were removed by A1/A2/O-MBR treatment process, however approximately 30 % TU remained in the biologically treated effluent. There is a tendency that fewer and fewer residual organic compounds could exert equal acute toxicity during the biological treatment stages. Activated carbon adsorption further removed toxic pollutants of biologically treated effluent but the Fenton effluent increased acute toxicity. The composition of coking wastewater during the treatment was evaluated using the three-dimensional fluorescence spectra, gas chromatography-mass spectrometry (GC-MS). The organic compounds with high polarity were the main cause of acute toxicity in the coking wastewater. Aromatic protein-like matters in the coking wastewater with low biodegradability and high toxicity contributed mostly to the remaining acute toxicity of the biologically treated effluents. Chlorine generated from the oxidation process was responsible for the acute toxicity increase after Fenton oxidation. Therefore, the incorporation of appropriate advanced physicochemical treatment process, e.g., activated carbon adsorption, should be implemented following biological treatment processes to meet the stricter discharge standards and be safer to the environment.

  6. Chamber experiments to investigate the release of fungal IN into the atmosphere

    Science.gov (United States)

    Kunert, Anna Theresa; Krüger, Mira; Scheel, Jan Frederik; Helleis, Frank; Pöschl, Ulrich; Fröhlich-Nowoisky, Janine

    2015-04-01

    Biological aerosol particles are ubiquitous in the atmosphere. Several types of microorganisms like bacteria, fungi and lichen have been identified as sources of biological ice nuclei (IN). They are a potentially strong source of atmospheric IN, as some of them are able to catalyze ice formation at relatively warm subfreezing temperatures. Common plant-associated bacteria are the best-known biological IN but recently ice nucleation activity in a variety of fungal species such as Mortierella alpina, Isaria farinosa, Acremonium implicatum was found. These fungal species are widely spread throughout the world and are present in soil and air. Their IN seem to be proteins, which are not anchored in the fungal cell wall. To which extent these small, cell-free IN are emitted directly into the atmosphere remains unexplored just as other processes, which probably indirectly release fungal IN e.g. absorbed onto soil dust particles. To analyze the release of fungal IN into the air, we designed a chamber, whose main principle is based on the emission of particles into a closed gas compartment and the subsequent collection of these particles in water. The concentration of the collected IN in the water is determined by droplet freezing assays. For a proof of principles, fungal washing water containing cell-free IN was atomized by an aerosol generator and the produced gas stream was lead through a water trap filled with pure water. Preliminary results show a successful proof of principles. The chamber design is capable of collecting aerosolic IN produced by an aerosol generator with fungal washing water. In ongoing experiments, alive or dead fungal cultures are placed into the chamber and a gentle, particle free air stream is directed over the fungi surface. This gas stream is also lead through water to collect particles, which might be emitted either actively or passively by the fungi. Further experiments will be e.g. conducted under different relative humidities. Results

  7. Sequential biological process for molybdenum extraction from hydrodesulphurization spent catalyst.

    Science.gov (United States)

    Vyas, Shruti; Ting, Yen-Peng

    2016-10-01

    Spent catalyst bioleaching with Acidithiobacillus ferrooxidans has been widely studied and low Mo leaching has often been reported. This work describes an enhanced extraction of Mo via a two stage sequential process for the bioleaching of hydrodesulphurization spent catalyst containing Molybdenum, Nickel and, Aluminium. In the first stage, two-step bioleaching was performed using Acidithiobacillus ferrooxidans, and achieved 89.4% Ni, 20.9% Mo and 12.7% Al extraction in 15 days. To increase Mo extraction, the bioleached catalyst was subjected to a second stage bioleaching using Escherichia coli, during which 99% of the remaining Mo was extracted in 25 days. This sequential bioleaching strategy selectively extracted Ni in the first stage and Mo in the second stage, and is a more environmentally friendly alternative to sequential chemical leaching with alkaline reagents for improved Mo extraction. Kinetic modelling to establish the rate determining step in both stages of bioleaching showed that in the first stage, Mo extraction was chemical reaction controlled whereas in the subsequent stage, product layer diffusion model provided the best fit.

  8. Life's origin: the cosmic, planetary and biological processes

    Science.gov (United States)

    Scattergood, T.; Des Marais, D.; Jahnke, L.

    1987-01-01

    From elements formed in interstellar furnaces to humans peering back at the stars, the evolution of life has been a long, intricate and perhaps inevitable process. Life as we know it requires a planet orbiting a star at just the right distance so that water can exist in liquid form. It needs a rich supply of chemicals and energy sources. On Earth, the combination of chemistry and energy generated molecules that evolved ways of replicating themselves and of passing information from one generation to the next. Thus, the thread of life began. This chart traces the thread, maintained by DNA molecules for much of its history, as it weaves its way through the primitive oceans, gaining strength and diversity along the way. Organisms eventually moved onto the land, where advanced forms, including humans, ultimately arose. Finally, assisted by a technology of its own making, life has reached back out into space to understand its own origins, to expand into new realms, and to seek other living threads in the cosmos.

  9. Metabarcoding-based fungal diversity on coarse and fine particulate organic matter in a first-order stream in Nova Scotia, Canada [version 2; referees: 2 approved

    Directory of Open Access Journals (Sweden)

    Christian Wurzbacher

    2016-02-01

    Full Text Available Most streams receive substantial inputs of allochthonous organic material in the form of leaves and twigs (CPOM, coarse particulate organic matter. Mechanical and biological processing converts this into fine particulate organic matter (FPOM. Other sources of particles include flocculated dissolved matter and soil particles. Fungi are known to play a role in the CPOM conversion process, but the taxonomic affiliations of these fungi remain poorly studied. The present study seeks to shed light on the composition of fungal communities on FPOM and CPOM as assessed in a natural stream in Nova Scotia, Canada. Maple leaves were exposed in a stream for four weeks and their fungal community evaluated through pyrosequencing. Over the same period, four FPOM size fractions were collected by filtration and assessed. Particles had much lower ergosterol contents than leaves, suggesting major differences in the extent of fungal colonization. Pyrosequencing documented a total of 821 fungal operational taxonomic units (OTU, of which 726 were exclusive to particles and 47 to leaf samples. Most fungal phyla were represented, including yeast lineages (e.g., Taphrinaceae and Saccharomycotina, Basidiomycota, Chytridiomycota and Cryptomycota, but several classes of Pezizomycontina (Ascomycota dominated. Cluster dendrograms clearly separated fungal communities from leaves and from particles. Characterizing fungal communities may shed some light on the processing pathways of fine particles in streams and broadens our view of the phylogenetic composition of fungi in freshwater ecosystems.

  10. Freshwater Fungal Infections

    Directory of Open Access Journals (Sweden)

    Dennis J. Baumgardner

    2017-01-01

    Full Text Available Fungal infections as a result of freshwater exposure or trauma are fortunately rare. Etiologic agents are varied, but commonly include filamentous fungi and Candida. This narrative review describes various sources of potential freshwater fungal exposure and the diseases that may result, including fungal keratitis, acute otitis externa and tinea pedis, as well as rare deep soft tissue or bone infections and pulmonary or central nervous system infections following traumatic freshwater exposure during natural disasters or near-drowning episodes. Fungal etiology should be suspected in appropriate scenarios when bacterial cultures or molecular tests are normal or when the infection worsens or fails to resolve with appropriate antibacterial therapy.

  11. Effect of Process-Oriented Guided-Inquiry Learning on Non-majors Biology Students' Understanding of Biological Classification

    Science.gov (United States)

    Wozniak, Breann M.

    The purpose of this study was to examine the effect of process-oriented guided-inquiry learning (POGIL) on non-majors college biology students' understanding of biological classification. This study addressed an area of science instruction, POGIL in the non-majors college biology laboratory, which has yet to be qualitatively and quantitatively researched. A concurrent triangulation mixed methods approach was used. Students' understanding of biological classification was measured in two areas: scores on pre and posttests (consisting of 11 multiple choice questions), and conceptions of classification as elicited in pre and post interviews and instructor reflections. Participants were Minnesota State University, Mankato students enrolled in BIOL 100 Summer Session. One section was taught with the traditional curriculum (n = 6) and the other section in the POGIL curriculum (n = 10) developed by the researcher. Three students from each section were selected to take part in pre and post interviews. There were no significant differences within each teaching method (p vs. M = 7.330 +/- .330; z =-1.729, p = .084) and the traditional group may have scored higher on the pretest than the posttest (M = 8.333 +/- .333 vs M = 7.333 +/- .333; z = -1.650 , p = .099). Two themes emerged after the interviews and instructor reflections: 1) After instruction students had a more extensive understanding of classification in three areas: vocabulary terms, physical characteristics, and types of evidence used to classify. Both groups extended their understanding, but only POGIL students could explain how molecular evidence is used in classification. 2) The challenges preventing students from understanding classification were: familiar animal categories and aquatic habitats, unfamiliar organisms, combining and subdividing initial groupings, and the hierarchical nature of classification. The POGIL students were the only group to surpass these challenges after the teaching intervention. This

  12. Microbiology and Molecular Biology Tools for Biogas Process Analysis, Diagnosis and Control.

    Science.gov (United States)

    Lebuhn, Michael; Weiß, Stefan; Munk, Bernhard; Guebitz, Georg M

    2015-01-01

    Many biotechnological processes such as biogas production or defined biotransformations are carried out by microorganisms or tightly cooperating microbial communities. Process breakdown is the maximum credible accident for the operator. Any time savings that can be provided by suitable early-warning systems and allow for specific countermeasures are of great value. Process disturbance, frequently due to nutritional shortcomings, malfunction or operational deficits, is evidenced conventionally by process chemistry parameters. However, knowledge on systems microbiology and its function has essentially increased in the last two decades, and molecular biology tools, most of which are directed against nucleic acids, have been developed to analyze and diagnose the process. Some of these systems have been shown to indicate changes of the process status considerably earlier than the conventionally applied process chemistry parameters. This is reasonable because the triggering catalyst is determined, activity changes of the microbes that perform the reaction. These molecular biology tools have thus the potential to add to and improve the established process diagnosis system. This chapter is dealing with the actual state of the art of biogas process analysis in practice, and introduces molecular biology tools that have been shown to be of particular value in complementing the current systems of process monitoring and diagnosis, with emphasis on nucleic acid targeted molecular biology systems.

  13. Genome-Wide Host-Pathogen Interaction Unveiled by Transcriptomic Response of Diamondback Moth to Fungal Infection.

    Directory of Open Access Journals (Sweden)

    Zhen-Jian Chu

    Full Text Available Genome-wide insight into insect pest response to the infection of Beauveria bassiana (fungal insect pathogen is critical for genetic improvement of fungal insecticides but has been poorly explored. We constructed three pairs of transcriptomes of Plutella xylostella larvae at 24, 36 and 48 hours post treatment of infection (hptI and of control (hptC for insight into the host-pathogen interaction at genomic level. There were 2143, 3200 and 2967 host genes differentially expressed at 24, 36 and 48 hptI/hptC respectively. These infection-responsive genes (~15% of the host genome were enriched in various immune processes, such as complement and coagulation cascades, protein digestion and absorption, and drug metabolism-cytochrome P450. Fungal penetration into cuticle and host defense reaction began at 24 hptI, followed by most intensive host immune response at 36 hptI and attenuated immunity at 48 hptI. Contrastingly, 44% of fungal genes were differentially expressed in the infection course and enriched in several biological processes, such as antioxidant activity, peroxidase activity and proteolysis. There were 1636 fungal genes co-expressed during 24-48 hptI, including 116 encoding putative secretion proteins. Our results provide novel insights into the insect-pathogen interaction and help to probe molecular mechanisms involved in the fungal infection to the global pest.

  14. Particle size distribution and removal in the chemical-biological flocculation process

    Institute of Scientific and Technical Information of China (English)

    ZHANG Zhi-bin; ZHAO Jian-fu; XIA Si-qing; LIU Chang-qing; KANG Xing-sheng

    2007-01-01

    The particle characterization from the influent and effluent of a chemical-biological flocculation (CBF) process was studied with a laser diffraction device. Water samples from a chemically enhanced primary treatment (CEPT) process and a primary sediment tank process were also analyzed for comparison. The results showed that CBF process was not only effective for both the big size particles and small size particles removal, but also the best particle removal process in the three processes. The results also indicated that CBF process was superior to CEPT process in the heavy metals removal. The high and non-selective removal for heavy metals might be closely related to its strong ability to eliminate small particles. Samples from different locations in CBF reactors showed that small particles were easier to aggregate into big ones and those disrupted flocs could properly flocculate again along CBF reactor because of the biological flocculation.

  15. Fungal Mating Pheromones: Choreographing the Dating Game

    Science.gov (United States)

    Jones, Stephen K.; Bennett, Richard J.

    2011-01-01

    Pheromones are ubiquitous from bacteria to mammals - a testament to their importance in regulating inter-cellular communication. In fungal species, they play a critical role in choreographing interactions between mating partners during the program of sexual reproduction. Here, we describe how fungal pheromones are synthesized, their interactions with G protein-coupled receptors, and the signals propagated by this interaction, using Saccharomyces cerevisiae as a reference point. Divergence from this model system is compared amongst the ascomycetes and basidiomycetes, which reveals the wealth of information that has been gleaned from studying pheromone-driven processes across a wide spectrum of the fungal kingdom. PMID:21496492

  16. Fungal mating pheromones: choreographing the dating game.

    Science.gov (United States)

    Jones, Stephen K; Bennett, Richard J

    2011-07-01

    Pheromones are ubiquitous from bacteria to mammals - a testament to their importance in regulating inter-cellular communication. In fungal species, they play a critical role in choreographing interactions between mating partners during the program of sexual reproduction. Here, we describe how fungal pheromones are synthesized, their interactions with G protein-coupled receptors, and the signals propagated by this interaction, using Saccharomyces cerevisiae as a reference point. Divergence from this model system is compared amongst the ascomycetes and basidiomycetes, which reveals the wealth of information that has been gleaned from studying pheromone-driven processes across a wide spectrum of the fungal kingdom.

  17. Reverse engineering dynamic temporal models of biological processes and their relationships.

    Science.gov (United States)

    Ramakrishnan, Naren; Tadepalli, Satish; Watson, Layne T; Helm, Richard F; Antoniotti, Marco; Mishra, Bud

    2010-07-13

    Biological processes such as circadian rhythms, cell division, metabolism, and development occur as ordered sequences of events. The synchronization of these coordinated events is essential for proper cell function, and hence the determination of critical time points in biological processes is an important component of all biological investigations. In particular, such critical time points establish logical ordering constraints on subprocesses, impose prerequisites on temporal regulation and spatial compartmentalization, and situate dynamic reorganization of functional elements in preparation for subsequent stages. Thus, building temporal phenomenological representations of biological processes from genome-wide datasets is relevant in formulating biological hypotheses on: how processes are mechanistically regulated; how the regulations vary on an evolutionary scale, and how their inadvertent disregulation leads to a diseased state or fatality. This paper presents a general framework (GOALIE) to reconstruct temporal models of cellular processes from time-course gene expression data. We mathematically formulate the problem as one of optimally segmenting datasets into a succession of "informative" windows such that time points within a window expose concerted clusters of gene action whereas time points straddling window boundaries constitute points of significant restructuring. We illustrate here how GOALIE successfully brings out the interplay between multiple yeast processes, inferred from combined experimental datasets for the cell cycle and the metabolic cycle.

  18. Present and perspective of enhanced biological phosphorus removal process; Seibutsugakuteki rin jokyoho no genjo to kadai

    Energy Technology Data Exchange (ETDEWEB)

    Nakamura, K. [National Inst. of Bioscience and Human-Technology, Tsukuba (Japan)

    1997-02-05

    Biological phosphorus removal process utilizing anaerobic and aerobic conditions, mechanism of phosphorus removal, and microbes relating to phosphorus removal are outlined, and future problems are discussed. By mixing waste water and sludge under anaerobic condition followed by treatment under aerobic condition, phosphorus content in sludge increases to enable biological phosphorus removal. More microbes with high polyphosphorus accumulating performance are acquired by the anaerobic/aerobic process than other microbes with the result of their preferential increase, and the process has high phosphorus removal characteristic than the general treatment process. Microbes relating to phosphorus removal, immobilization of polyphosphate accumulating microbes, and phosphorus acquiring and releasing characteristics of immobilized mycelium are discussed. Application of gel entrapped immobilized mycelium to phosphorus removal and problems in biological phosphorus removing methods are described. 18 refs., 12 figs.

  19. Process for the continuous biological production of lipids, hydrocarbons or mixtures thereof

    NARCIS (Netherlands)

    Van der Wielen, L.A.M.; Heijnen, J.J.

    2010-01-01

    The present invention is directed to a process for the continuous biological production of lipids, hydrocarbons, hydrocarbon like material or mixtures thereof by conversion of a suitable substrate using micro-organisms, in which process the said substrate is continuously, anaerobically fermented to

  20. Synergistic Pollutants Removal of the Pre-denitrification Chemical and Biological Flocculation Process

    Science.gov (United States)

    Liu, Hong-bo; Xia, Si-qing

    2010-11-01

    Based on previous studies on the chemical and biological flocculation (CBF) process and the post suspended-carrier-bed CBF process, a pre-denitrification CBF process was proposed and optimized. Pollutant removing mechanisms of the process were investigated based on COD, TN, and TP removal. Nitrogen transformation in the process was investigated and particle size distributions of influent and effluent were analyzed. Operation results show that concentrations of main pollutants such as COD, TP and NH4+-N in effluent can meet the Discharging Standards for Chinese Urban WWTPs (GB18918-2002) first grade (B) stably with a total process hydraulic retention time (HRT) as short as 6hr and poly ferric sulphate (PFS, ferrous content 18.5%) dosage amount as low as 70 mgL-1. Synergistic chemical and biological pollutants removal mechanisms of the process were also discussed.

  1. Biologic

    CERN Document Server

    Kauffman, L H

    2002-01-01

    In this paper we explore the boundary between biology and the study of formal systems (logic). In the end, we arrive at a summary formalism, a chapter in "boundary mathematics" where there are not only containers but also extainers ><, entities open to interaction and distinguishing the space that they are not. The boundary algebra of containers and extainers is to biologic what boolean algebra is to classical logic. We show how this formalism encompasses significant parts of the logic of DNA replication, the Dirac formalism for quantum mechanics, formalisms for protein folding and the basic structure of the Temperley Lieb algebra at the foundations of topological invariants of knots and links.

  2. Proceedings Fourth Workshop on Membrane Computing and Biologically Inspired Process Calculi 2010

    CERN Document Server

    Ciobanu, Gabriel; 10.4204/EPTCS.40

    2010-01-01

    The 4th Workshop on Membrane Computing and Biologically Inspired Process Calculi (MeCBIC 2010) is organized in Jena as a satellite event of the Eleventh International Conference on Membrane Computing (CMC11). Biological membranes play a fundamental role in the complex reactions which take place in cells of living organisms. The importance of this role has been considered in two different types of formalisms introduced recently. Membrane systems were introduced as a class of distributed parallel computing devices inspired by the observation that any biological system is a complex hierarchical structure, with a flow of biochemical substances and information that underlies their functioning. The modeling and analysis of biological systems has also attracted considerable interest of the process algebra research community. Thus the notions of membranes and compartments have been explicitly represented in a family of calculi, such as ambients and brane calculi. A cross fertilization of these two research areas has ...

  3. Integration of advanced oxidation technologies and biological processes: recent developments, trends, and advances.

    Science.gov (United States)

    Tabrizi, Gelareh Bankian; Mehrvar, Mehrab

    2004-01-01

    The greatest challenge of today's wastewater treatment technology is to optimize the use of biological and chemical wastewater treatment processes. The choice of the process and/or integration of the processes depend strongly on the wastewater characteristics, concentrations, and the desired efficiencies. It has been observed by many investigators that the coupling of a bioreactor and advanced oxidation processes (AOPs) could reduce the final concentrations of the effluent to the desired values. However, optimizing the total cost of the treatment is a challenge, as AOPs are much more expensive than biological processes alone. Therefore, an appropriate design should not only consider the ability of this coupling to reduce the concentration of organic pollutants, but also try to obtain the desired results in a cost effective process. To consider the total cost of the treatment, the residence time in biological and photochemical reactors, the kinetic rates, and the capital and operating costs of the reactors play significant roles. In this study, recent developments and trends (1996-2003) on the integration of photochemical and biological processes for the degradation of problematic pollutants in wastewater have been reviewed. The conditions to get the optimum results from this integration have also been considered. In most of the studies, it has been shown that the integrated processes were more efficient than individual processes. However, slight changes in the configuration of the reactors, temperature, pH, treatment time, concentration of the oxidants, and microorganism's colonies could lead to a great deviation in results. It has also been demonstrated that the treatment cost in both reactors is a function of time, which changes by the flow rate. The minimum cost in the coupling of the processes cannot be achieved unless considering the best treatment time in chemical and biological reactors individually.

  4. Phylogenetic analysis of fungal ABC transporters

    Directory of Open Access Journals (Sweden)

    Driessen Arnold JM

    2010-03-01

    Full Text Available Abstract Background The superfamily of ABC proteins is among the largest known in nature. Its members are mainly, but not exclusively, involved in the transport of a broad range of substrates across biological membranes. Many contribute to multidrug resistance in microbial pathogens and cancer cells. The diversity of ABC proteins in fungi is comparable with those in multicellular animals, but so far fungal ABC proteins have barely been studied. Results We performed a phylogenetic analysis of the ABC proteins extracted from the genomes of 27 fungal species from 18 orders representing 5 fungal phyla thereby covering the most important groups. Our analysis demonstrated that some of the subfamilies of ABC proteins remained highly conserved in fungi, while others have undergone a remarkable group-specific diversification. Members of the various fungal phyla also differed significantly in the number of ABC proteins found in their genomes, which is especially reduced in the yeast S. cerevisiae and S. pombe. Conclusions Data obtained during our analysis should contribute to a better understanding of the diversity of the fungal ABC proteins and provide important clues about their possible biological functions.

  5. Mineralization of 2-chlorophenol by sequential electrochemical reductive dechlorination and biological processes.

    Science.gov (United States)

    Arellano-González, Miguel Ángel; González, Ignacio; Texier, Anne-Claire

    2016-08-15

    In this work, a novel approach was applied to obtain the mineralization of 2-chlorophenol (2-CP) in an electrochemical-biological combined system where an electrocatalytic dehydrogenation process (reductive dechlorination) was coupled to a biological denitrification process. Reductive dechlorination of 2-CP was conducted in an ECCOCEL-type reactor on a Pd-Ni/Ti electrode at a potential of -0.40V vs Ag/AgCl(s)/KCl(sat), achieving 100 percent transformation of 2-CP into phenol. The electrochemically pretreated effluent was fed to a rotating cylinder denitrifying bioreactor where the totality of phenol was mineralized by denitrification, obtaining CO2 and N2 as the end products. The total time required for 2-CP mineralization in the combined electrochemical-biological process was 7.5h. This value is close to those previously reported for electrochemical and advanced oxidation processes but in this case, an efficient process was obtained without accumulation of by-products or generation of excessive energy costs due to the selective electrochemical pretreatment. This study showed that the use of electrochemical reductive pretreatment combined with biological processes could be a promising technology for the removal of recalcitrant molecules, such as chlorophenols, from wastewaters by more efficient, rapid, and environmentally friendly processes.

  6. Screening and Biological Characteristics of Bacillus sp. with High Anti-fungal activity against Pythium aphanidermatum%抗瓜果腐霉芽孢杆菌优良菌株的筛选及生物学特性

    Institute of Scientific and Technical Information of China (English)

    张旭; 尚楠; 张宝; 张志刚; 尚庆茂

    2012-01-01

    Pythium aphanidermatum is known as an important plant pathogenic fungus that can cause various types of crops rot and damping off, as well as results in spoilage of fruits and vegetables, thus leading to great loss of agricultural production and food industry. In order to obtain spore-forming bacteria with anti-fungal activity for fruit and vegetable preservation and biological control, we have screened 204 strains of spore-forming bacteria isolated from 26 kinds of foods, such as lemon, grape, Chinese date, yogurt, fermented bean curd, Harbin sausage, bean paste and other food samples. Totally 62 strains of spore- forming bacteria were assessed by confrontation culture tests to reveal strong anti-fungal activity against P. aphanidermatum. The fermentation supernatants of 4 strains with stronger anti-fungal activity through Oxford cup plate assay method were tested for their anti-fungal activity, and L-NM62 revealed the strongest anti-fungal activity against P. aphanidermatum. The inhibition zone of cell free supematant was (24.54 ± 0.13) mm in diameter. According to the characteristics of morphology, physiology and biochemistry tests, and the comparison of 16S rDNA sequence, strain L-NM62 was identified as Bacillus subtilis. Further study of L-NM62 on physiology characteristics showed that the optimal growth temperature, pH and inoculums were 37 ℃, 7.5 and 1.0%. Under these optimal conditions, L-NM62 had a wide anti-fungal and antibacterial activity and presented a potential prospect.%为获得具有高效抗菌活性的芽孢杆菌用于生物防治与果蔬保鲜,从柠檬、葡萄、红枣、酸奶、腐乳、豆瓣酱、哈尔滨红肠等26种食品样品中分离获得204株芽孢杆菌,通过对峙培养法,初筛得到62株抗瓜果腐霉(P.aphanidermatum)的菌株,选取其中抑菌效果明显的4株菌株,采用牛津杯扩散法经复筛得到1株显著抗瓜果腐霉的芽孢杆菌L-NM62,其发酵上清液对瓜果腐

  7. Fungal population structure and its biological effect in rhizosphere soil of continuously cropped potato%连作马铃薯根际土壤真菌种群结构及其生物效应

    Institute of Scientific and Technical Information of China (English)

    孟品品; 刘星; 邱慧珍; 张文明; 张春红; 王蒂; 张俊莲; 沈其荣

    2012-01-01

    连作障碍已成为马铃薯产业发展的主要限制因素,为了探明马铃薯连作障碍的机理,减轻连作障碍对产量的影响,采用大田试验与PCR-DGGE分子指纹图谱技术相结合的方法,研究马铃薯连作对根际土壤真菌种群结构的影响及其生物效应.结果表明:随着连作年限的增加,根际土壤中真菌DGGE图谱的条带数量增加,连作1~5年处理的操作分类单元(OTU)分别比对照(轮作)增加了38.5%、38.5%、30.8%、46.2%和76.9%,说明马铃薯连作使根际土壤中真菌优势种群的个体数明显增多.随着连作年限的增加,各处理间真菌种群结构的相似性越来越低,通过真菌DGGE条带的克隆测序比对发现,随着连作年限的增加,马铃薯根际土壤土传病害病原菌尖孢镰刀菌和茄病镰刀菌的数量明显增加,而球毛壳菌作为一种生防菌,连作5年时数量明显减少.连作使根际土壤中病原真菌种群过渡成为优势种群,根际微生态环境恶化,从而作用于根系,使根系活力和吸收面积下降,最终导致块茎产量大幅度下降.%Continuous cropping obstacle is one of the main restriction factors in potato industry. In order to explore the mechanisms of potato' s continuous cropping obstacle and to reduce the impact on potato' s tuber yield, a field experiment combined with PCR-DGGE molecular fingerprinting was conducted to investigate the fungal population structure and its biological effect in rhizosphere soil of continuously cropped potato. With the increasing year of potato' s continuous cropping, the numbers of visible bands in rhizosphere fungal DGGE profiles increased obviously. As compared with that of CK (rotation cropping) , the operational taxonomic unit (OTU) in treatments of one to five years continuous cropping was increased by 38. 5% , 38.5% , 30. 8% , 46.2% , and 76.9% respectively, indicating that potato' s continuous cropping caused an obvious increase in the individual

  8. Nonequilibrium thermodynamics transport and rate processes in physical, chemical and biological systems

    CERN Document Server

    Demirel, Yasar

    2014-01-01

    Natural phenomena consist of simultaneously occurring transport processes and chemical reactions. These processes may interact with each other and may lead to self-organized structures, fluctuations, instabilities, and evolutionary systems. Nonequilibrium Thermodynamics, 3rd edition emphasizes the unifying role of thermodynamics in analyzing the natural phenomena. This third edition updates and expands on the first and second editions by focusing on the general balance equations for coupled processes of physical, chemical, and biological systems. The new edition contains a new chapte

  9. An overview of biological processes and their potential for CO2 capture.

    Science.gov (United States)

    Goli, Amin; Shamiri, Ahmad; Talaiekhozani, Amirreza; Eshtiaghi, Nicky; Aghamohammadi, Nasrin; Aroua, Mohamed Kheireddine

    2016-12-01

    The extensive amount of available information on global warming suggests that this issue has become prevalent worldwide. Majority of countries have issued laws and policies in response to this concern by requiring their industrial sectors to reduce greenhouse gas emissions, such as CO2. Thus, introducing new and more effective treatment methods, such as biological techniques, is crucial to control the emission of greenhouse gases. Many studies have demonstrated CO2 fixation using photo-bioreactors and raceway ponds, but a comprehensive review is yet to be published on biological CO2 fixation. A comprehensive review of CO2 fixation through biological process is presented in this paper as biological processes are ideal to control both organic and inorganic pollutants. This process can also cover the classification of methods, functional mechanisms, designs, and their operational parameters, which are crucial for efficient CO2 fixation. This review also suggests the bio-trickling filter process as an appropriate approach in CO2 fixation to assist in creating a pollution-free environment. Finally, this paper introduces optimum designs, growth rate models, and CO2 fixation of microalgae, functions, and operations in biological CO2 fixation.

  10. Fungal bio-treatment of spruce wood with Trametes versicolor for pitch control: Influence on extractive contents, pulping process parameters, paper quality and effluent toxicity

    NARCIS (Netherlands)

    Beek, van T.A.; Kuster, B.; Claassen, F.W.; Tienvieri, T.; Bertaud, F.; Lennon, G.; Petit-Concil, M.; Sierra-Alvarez, R.

    2007-01-01

    Lipophilic low molar-mass constituents in wood chips for the paper industry result in low quality pulp, pitch deposition, and effluent toxicity. New biotechnological solutions such as fungal pre-treatment of wood chips can reduce pitch problems. This laboratory-scale study focuses on the potential a

  11. In Vivo Bioluminescent Imaging (BLI: Noninvasive Visualization and Interrogation of Biological Processes in Living Animals

    Directory of Open Access Journals (Sweden)

    Steven Ripp

    2010-12-01

    Full Text Available In vivo bioluminescent imaging (BLI is increasingly being utilized as a method for modern biological research. This process, which involves the noninvasive interrogation of living animals using light emitted from luciferase-expressing bioreporter cells, has been applied to study a wide range of biomolecular functions such as gene function, drug discovery and development, cellular trafficking, protein-protein interactions, and especially tumorigenesis, cancer treatment, and disease progression. This article will review the various bioreporter/biosensor integrations of BLI and discuss how BLI is being applied towards a new visual understanding of biological processes within the living organism.

  12. In Vivo Bioluminescent Imaging (BLI): Noninvasive Visualization and Interrogation of Biological Processes in Living Animals

    Science.gov (United States)

    Close, Dan M.; Xu, Tingting; Sayler, Gary S.; Ripp, Steven

    2011-01-01

    In vivo bioluminescent imaging (BLI) is increasingly being utilized as a method for modern biological research. This process, which involves the noninvasive interrogation of living animals using light emitted from luciferase-expressing bioreporter cells, has been applied to study a wide range of biomolecular functions such as gene function, drug discovery and development, cellular trafficking, protein-protein interactions, and especially tumorigenesis, cancer treatment, and disease progression. This article will review the various bioreporter/biosensor integrations of BLI and discuss how BLI is being applied towards a new visual understanding of biological processes within the living organism. PMID:22346573

  13. Fungal DNA barcoding.

    Science.gov (United States)

    Xu, Jianping

    2016-11-01

    Fungi are ubiquitous in both natural and human-made environments. They play important roles in the health of plants, animals, and humans, and in broad ecosystem functions. Thus, having an efficient species-level identification system could significantly enhance our ability to treat fungal diseases and to monitor the spatial and temporal patterns of fungal distributions and migrations. DNA barcoding is a potent approach for rapid identification of fungal specimens, generating novel species hypothesis, and guiding biodiversity and ecological studies. In this mini-review, I briefly summarize (i) the history of DNA sequence-based fungal identification; (ii) the emergence of the ITS region as the consensus primary fungal barcode; (iii) the use of the ITS barcodes to address a variety of issues on fungal diversity from local to global scales, including generating a large number of species hypothesis; and (iv) the problems with the ITS barcode region and the approaches to overcome these problems. Similar to DNA barcoding research on plants and animals, significant progress has been achieved over the last few years in terms of both the questions being addressed and the foundations being laid for future research endeavors. However, significant challenges remain. I suggest three broad areas of research to enhance the usefulness of fungal DNA barcoding to meet the current and future challenges: (i) develop a common set of primers and technologies that allow the amplification and sequencing of all fungi at both the primary and secondary barcode loci; (ii) compile a centralized reference database that includes all recognized fungal species as well as species hypothesis, and allows regular updates from the research community; and (iii) establish a consensus set of new species recognition criteria based on barcode DNA sequences that can be applied across the fungal kingdom.

  14. Brushing Your Spacecrafts Teeth: A Review of Biological Reduction Processes for Planetary Protection Missions

    Science.gov (United States)

    Pugel, D. E. (Betsy); Rummel, J. D.; Conley, Catharine

    2017-01-01

    Much like keeping your teeth clean, where you brush away biofilms that your dentist calls "plaque," there are various methods to clean spaceflight hardware of biological contamination, known as biological reduction processes. Different approaches clean your hardware's "teeth" in different ways and with different levels of effectiveness. We know that brushing at home with a simple toothbrush is convenient and has a different level of impact vs. getting your teeth cleaned at the dentist. In the same way, there are some approaches to biological reduction that may require simple tools or more complex implementation approaches (think about sonicating or just soaking your dentures, vs. brushing them). There are also some that are more effective for different degrees of cleanliness and still some that have materials compatibility concerns. In this article, we review known and NASA-certified approaches for biological reduction, pointing out materials compatibility concerns and areas where additional research is needed.

  15. Brushing Your Spacecrafts Teeth: A Review of Biological Reduction Processes for Planetary Protection Missions

    Science.gov (United States)

    Pugel, D.E. (Betsy); Rummel, J. D.; Conley, C. A.

    2017-01-01

    Much like keeping your teeth clean, where you brush away biofilms that your dentist calls plaque, there are various methods to clean spaceflight hardware of biological contamination, known as biological reduction processes. Different approaches clean your hardwares teeth in different ways and with different levels of effectiveness. We know that brushing at home with a simple toothbrush is convenient and has a different level of impact vs. getting your teeth cleaned at the dentist. In the same way, there are some approaches to biological reduction that may require simple tools or more complex implementation approaches (think about sonicating or just soaking your dentures, vs. brushing them). There are also some that are more effective for different degrees of cleanliness and still some that have materials compatibility concerns. In this article, we review known and NASA-certified approaches for biological reduction, pointing out materials compatibility concerns and areas where additional research is needed.

  16. Fungal arthritis and osteomyelitis.

    Science.gov (United States)

    Kohli, Rakhi; Hadley, Susan

    2005-12-01

    Fungal arthritis and osteomyelitis are uncommon diseases and generally present in an indolent fashion. The incidence of fungal bone and joint dis-ease is increasing with an increase in the prevalence of factors predisposing to invasive fungal disease, such as the use of central venous catheters, broad spectrum antibiotics, immunosuppression, and abdominal surgery. Definitive diagnosis relies on bone or synovial culture or biopsy. Successful management has traditionally consisted of amphotericin B in combination with surgical debridement. Given the rarity of this disease, treatment is not well defined, but reports of success with the use of azole antifungal agents, including itraconazole, fluconazole, voriconazole, and posaconazole, are promising.

  17. Rhizosphere Biological Processes of Legume//Cereal Intercropping Systems: A Review

    Directory of Open Access Journals (Sweden)

    JIANG Yuan-yuan

    2016-09-01

    Full Text Available Intercropping, a sustainable planting pattern, was widely used in the wordwide. It not only has the advantages of yield and nutrient acquisition, but also can ensure food security and reduce the risk of crop failures. The majority of intercropping systems involve legume//cereal combinations because of interspecific facilitation or complementarity. The rhizosphere is the interface between plants and soil where there are interactions among a myriad of microorganisms and affect the uptake of nutrients, water and harmful substances. The rhizosphere biologi-cal processes not only determine the amount of nutrients and the availability of nutrients, but also affect crop productivity and nutrient use efficiency. Hence, this paper summarized the progress made on root morphology, rhizosphere microorganisms, root exudates and ecological ef-fect in the perspective of the rhizosphere biological process,which would provide theoretical basis for improving nutrient availability, remov-ing heavy metals, and plant genetic improvements.

  18. Whole process reclamation and utilization of wastes produced in the biological fermentation industry

    Institute of Scientific and Technical Information of China (English)

    YAN Ling-jun; LI Da-peng; MA Fang; Chein-chi Chang; XU Shan-wen; QIU Shan

    2008-01-01

    Wastes yielded in the vintage process and the biological fermentation of itaconic acid and sodium gluconate of a winery in Shandong,such as grain stillage,melon lees,cornstarch protein residues,itaconic acid mother liquid,itaconic acid mycelium and sodium gluconate mycelium,were studied.Hish-activity biological protein feed,foliar fertilizer and irrigation fertilizer were generated from these wastes by applying biological/microbial technologies.Meanwhile,a whole set of technological pathways Was put forward.As a result,the optimal economical and social benefits can be obtained with low natural resource consumption and environmental costs by converting wastes into useful matters.In conclusion,through the utilization of limited resources in the whole process of reclamation and utilization of wastes,the harmony promotion Can be achieved between the economic system and the natural ecosystem.

  19. Degrading organic micropollutants: The next challenge in the evolution of biological wastewater treatment processes

    Directory of Open Access Journals (Sweden)

    Naresh eSinghal

    2016-05-01

    Full Text Available Global water scarcity is driving the need for identifying new water source. Wastewater could be a potential water resource if appropriate treatment technologies could be developed. One of the barriers to obtaining high quality water from wastewater arises from the presence of organic micropollutants, which are biologically active at trace levels. Removal of these compounds from wastewater by current physico-chemical technologies is prohibitively expensive. While biological treatment processes are comparatively cheap, current systems are not capable of degrading the wide range of organic micropollutants present in wastewater. As current wastewater treatment processes were developed for treating conventional pollutants present at mg/L levels, degrading the ng/L levels of micropollutants will require a different approach to system design and operation. In this paper we discuss strategies that could be employed to develop biological wastewater treatment systems capable of degrading organic micropollutants.

  20. Structural degradation of Thar lignite using MW1 fungal isolate: optimization studies

    Science.gov (United States)

    Haider, Rizwan; Ghauri, Muhammad A.; Jones, Elizabeth J.; Orem, William H.; SanFilipo, John R.

    2015-01-01

    Biological degradation of low-rank coals, particularly degradation mediated by fungi, can play an important role in helping us to utilize neglected lignite resources for both fuel and non-fuel applications. Fungal degradation of low-rank coals has already been investigated for the extraction of soil-conditioning agents and the substrates, which could be subjected to subsequent processing for the generation of alternative fuel options, like methane. However, to achieve an efficient degradation process, the fungal isolates must originate from an appropriate coal environment and the degradation process must be optimized. With this in mind, a representative sample from the Thar coalfield (the largest lignite resource of Pakistan) was treated with a fungal strain, MW1, which was previously isolated from a drilled core coal sample. The treatment caused the liberation of organic fractions from the structural matrix of coal. Fungal degradation was optimized, and it showed significant release of organics, with 0.1% glucose concentration and 1% coal loading ratio after an incubation time of 7 days. Analytical investigations revealed the release of complex organic moieties, pertaining to polyaromatic hydrocarbons, and it also helped in predicting structural units present within structure of coal. Such isolates, with enhanced degradation capabilities, can definitely help in exploiting the chemical-feedstock-status of coal.

  1. Insect pathology and fungal entomopathogens

    Science.gov (United States)

    Fungi that occur inside asymptomatic plant tissues are known as fungal endophytes. Different genera of fungal entomopathogens have been reported as naturally occurring fungal endophytes, and it has been shown that it is possible to inoculate plants with fungal entomopathogens, making them endophytic...

  2. Fungal spores as potential ice nuclei in fog/cloud water and snow

    Science.gov (United States)

    Bauer, Heidi; Goncalves, Fabio L. T.; Schueller, Elisabeth; Puxbaum, Hans

    2010-05-01

    INTRODUCTION: In discussions about climate change and precipitation frequency biological ice nucleation has become an issue. While bacterial ice nucleation (IN) is already well characterized and even utilized in industrial processes such as the production of artificial snow or to improve freezing processes in food industry, less is known about the IN potential of fungal spores which are also ubiquitous in the atmosphere. A recent study performed at a mountain top in the Rocky Mountains suggests that fungal spores and/or pollen might play a role in increased IN abundance during periods of cloud cover (Bowers et al. 2009). In the present work concentrations of fungal spores in fog/cloud water and snow were determined. EXPERIMENTAL: Fog samples were taken with an active fog sampler in 2008 in a traffic dominated area and in a national park in São Paulo, Brazil. The number concentrations of fungal spores were determined by microscopic by direct enumeration by epifluorescence microscopy after staining with SYBR Gold nucleic acid gel stain (Bauer et al. 2008). RESULTS: In the fog water collected in the polluted area at a junction of two highly frequented highways around 22,000 fungal spores mL-1 were counted. Fog in the national park contained 35,000 spores mL-1. These results were compared with cloud water and snow samples from Mt. Rax, situated at the eastern rim of the Austrian Alps. Clouds contained on average 5,900 fungal spores mL-1 cloud water (1,300 - 11,000) or 2,200 spores m-3 (304 - 5,000). In freshly fallen snow spore concentrations were lower than in cloud water, around 1,000 fungal spores mL-1 were counted (Bauer et al. 2002). In both sets of samples representatives of the ice nucleating genus Fusarium could be observed. REFERENCES: Bauer, H., Kasper-Giebl, A., Löflund, M., Giebl, H., Hitzenberger, R., Zibuschka, F., Puxbaum, H. (2002). The contribution of bacteria and fungal spores to the organic carbon content of cloud water, precipitation and aerosols

  3. A novel process of dye wastewater treatment by linking advanced chemical oxidation with biological oxidation

    Directory of Open Access Journals (Sweden)

    Zou Haiming

    2015-12-01

    Full Text Available Dye wastewater is one of typically non-biodegradable industrial effluents. A new process linking Fenton’s oxidation with biological oxidation proposed in this study was investigated to degrade the organic substances from real dye wastewater. During the combination process, the Fenton’s oxidation process can reduce the organic load and enhance biodegradability of dye wastewater, which is followed by biological aerated filter (BAF system to further remove organic substances in terms of discharge requirement. The results showed that 97.6% of chemical oxygen demand (COD removal by the combination process was achieved at the optimum process parameters: pH of 3.5, H2O2 of 2.0 mL/L, Fe(II of 500 mg/L, 2.0 h treatment time in the Fenton’s oxidation process and hydraulic retention time (HRT of 5 h in the BAF system. Under these conditions, COD concentration of effluent was 72.6 mg/L whereas 3020 mg/L in the influent, thus meeting the requirement of treated dye wastewater discharge performed by Chinese government (less than 100 mg/L. These results obtained here suggest that the new process combining Fenton’s oxidation with biological oxidation may provide an economical and effective alternative for treatment of non-biodegradable industrial wastewater.

  4. Effects of immunocyte on the process of fungal keratitis%小鼠真菌性角膜炎中主要免疫细胞的作用

    Institute of Scientific and Technical Information of China (English)

    张红敏; 刘素素; 许中中; 马聪慧; 谢艳亭; 吴细丕; 王丽娅

    2012-01-01

    0.001),但造模后9 h、120h与造模后6h比较差异均无统计学意义(P=0.772、0.323).真菌接种后72 h和120 h角膜T淋巴细胞数与造模后6h比较差异均有统计学意义(P=0.000、0.000).造模后模型组中性粒细胞数目与炎症临床评分呈明显正相关(r=0.593,P=0.000),T淋巴细胞浸润数目与炎症临床评分间无明显相关性(r=0.315,P=0.062). 结论 真菌性角膜炎的免疫反应过程中,病变早期主要是中性粒细胞发挥关键作用.%Background Infective keratopathy is a key cause of corneal blindness in China,and fungal keratitis is proved to have a higher incidence and bigger threats in infective keratitis.Researches showed that topical immunology plays an important effect during the development of fungal keratitis,but its mechanism is still studying.Objective This experiment was to explore the critical immunocyte during the process of fungal keratitis.Methods Forty-eight SPF 12-week-old male C57BL/6J mice were included and randomized into the control group and model group.The fungal keratitis model closely mimicking human cornea infections was established in the mouse using scratch followed by incubation of fusarium solani on the cornea,and the mice in the control group scratched on the cornea only.Cornea was examined under the slit lamp at 0,6,9,12,24,72 and 120 hours after operation.The severity of keratomycosis was clinically scored based on the literature criteria.The inflammatory cells were identified using immnofluorescence label,and the number of the inflammatory cells was calculated and compared among different groups and time points.This study complied with the Statement of ARVO in the use of experimental animal.Both Experimental Animal Ethic Commission in Zhengzhou University and Life Science Management Commission approved this study proposal.Results After inoculation of fusarium solani,typical fungul keratitis signs were seen on the cornea.Severe corneal opacifieation occurred within 24 hours

  5. Treatment of linear alkylbenzene sulfonate (LAS) wastewater by internal electrolysis--biological contact oxidation process.

    Science.gov (United States)

    Cao, X Z; Li, Y M

    2011-01-01

    Surfactant wastewater is usually difficult to treat due to its toxicity and poor biodegradability. A separate physico-chemical or biochemical treatment method achieves a satisfactory effect with difficulty. In this study, treatment of the wastewater collected from a daily chemical plant by the combination processes of Fe/C internal electrolysis and biological contact oxidation was investigated. For the internal electrolysis process, the optimal conditions were: pH = 4-5, Fe/C = (10-15):1, air-water ratio = (10-20):1 and hydraulic retention time (HRT)= 2 h. For the biological contact oxidation process, the optimal conditions were: HRT = 12 h, DO = 4.0-5.0 mg/L. Treated by the above combined processes, the effluent could meet the I-grade criteria specified in Integrated Wastewater Discharge Standard of China (GB 8978-1996). The results provide valuable information for full-scale linear alkylbenzene sulfonate wastewater treatment.

  6. Diurnal rhythmicity in biological processes involved in bioavailability of functional food factors.

    Science.gov (United States)

    Tsurusaki, Takashi; Sakakibara, Hiroyuki; Aoshima, Yoshiki; Yamazaki, Shunsuke; Sakono, Masanobu; Shimoi, Kayoko

    2013-05-01

    In the past few decades, many types of functional factors have been identified in dietary foods; for example, flavonoids are major groups widely distributed in the plant kingdom. However, the absorption rates of the functional food factors are usually low, and many of these are difficult to be absorbed in the intact forms because of metabolization by biological processes during absorption. To gain adequate beneficial effects, it is therefore mandatory to know whether functional food factors are absorbed in sufficient quantity, and then reach target organs while maintaining beneficial effects. These are the reasons why the bioavailability of functional food factors has been well investigated using rodent models. Recently, many of the biological processes have been reported to follow diurnal rhythms recurring every 24 h. Therefore, absorption and metabolism of functional food factors influenced by the biological processes may vary with time of day. Consequently, the evaluation of the bioavailability of functional food factors using rodent models should take into consideration the timing of consumption. In this review, we provide a perspective overview of the diurnal rhythm of biological processes involved in the bioavailability of functional food factors, particularly flavonoids.

  7. The image simulation arithmetic of the degradating process of porous biologic ceramic in life-form

    Institute of Scientific and Technical Information of China (English)

    CHEN Zuo-bing; HUANG Jian-zhong; YAN Yu-hua; LI Shi-pu

    2001-01-01

    @@ It is a complex and difficult task to simulate the degradating process of porous biologic ceramic in life-form by computer. Because the evolvement of crystal' s structure deals with not only the mechanism of many factors, such as crystallography tropism, the reciprocity of wafer, interfacial movement, but also topology geometry mechanism of dimensional padding.

  8. Agent-oriented modeling of the dynamics of complex biological processes I: single agent models

    NARCIS (Netherlands)

    Jonker, C.M.; Treur, J.

    2008-01-01

    In the pair of papers of which this is Part I, the agent-oriented modeling perspective to cope with biological complexity is discussed. Three levels of dynamics are distinguished and related to each other: dynamics of externally observable agent behavior, dynamics of internal agent processes, and dy

  9. Investigation of the Nature of Metaconceptual Processes of Pre-Service Biology Teachers

    Science.gov (United States)

    Yuruk, Nejla; Selvi, Meryem; Yakisan, Mehmet

    2017-01-01

    Purpose of Study: The aim of this study is to investigate the nature of pre-service biology teachers' metaconceptual processes that were active as they participated in metaconceptual teaching activities. Methods: Several instructional activities, including poster drawing, concept mapping, group and class discussions, and journal writing, were…

  10. EPICHLOE SPECIES: fungal symbionts of grasses.

    Science.gov (United States)

    Schardl, C L

    1996-01-01

    Epichloë species and their asexual descendants (Acremonium endophytes) are fungal symbionts of C3 grasses that span the symbiotic continuum from antagonism to mutualism depending on the relative importance, respectively, of horizontal transmission of sexual spores versus vertical clonal transmission in healthy grass seeds. At least seven sexual Epichloë species are identifiable by mating tests, and many asexual genotypes are interspecific hybrids. Benefits conferred by the symbionts on host plants include protection from biotic factors and abiotic stresses such as drought. Four classes of beneficial alkaloids are associated with the symbionts: ergot alkaloids, indolediterpenes (lolitrems), peramine, and saturated aminopyrrolizidines (lolines). These alkaloids protect host plants from insect and vertebrate herbivores, including livestock. Genetic engineering of the fungal symbionts as more suitable biological protectants for forage grasses requires identification of fungal genes for alkaloid biosynthesis, and DNA-mediated transformation of the fungi.

  11. Evolutionary and structural diversity of fungal laccases.

    Science.gov (United States)

    Valderrama, Brenda; Oliver, Patricia; Medrano-Soto, Arturo; Vazquez-Duhalt, Rafael

    2003-01-01

    Fungal laccases have been extensively exploited for industrial purposes and there is a wealth of information available regarding their reaction mechanism, biological role and several molecular aspects, including cloning, heterologous expression and transcriptional analyses. Here we present the reconstruction of the fungal laccase loci evolution inferred from the comparative analysis of 48 different sequences. The topology of the phylogenetic trees indicate that a single monophyletic branch exists for fungal laccases and that laccase isozyme genes may have evolved independently, possibly through duplication-divergence events. Laccases are copper-containing enzymes generally identified by the utilization of substituted p-diphenol substrates. Interestingly, our approach permitted the assignment of two copper-containing oxidases, preliminarily catalogued as laccases, to a different evolutionary group, distantly related to the main branch of bona fide laccases.

  12. Deep silicon etch for biology MEMS fabrication: review of process parameters influence versus chip design

    Science.gov (United States)

    Magis, T.; Ballerand, S.; Bellemin Comte, A.; Pollet, Olivier

    2013-03-01

    Micro-system for biology is a growing market, especially for micro-fluidic applications (environment and health). Key part for the manufacturing of biology MEMS is the deep silicon etching by plasma to create microstructures. Usual etching process as an alternation of etching and passivation steps is a well-known method for MEMS fabrication, nowadays used in high volume production for devices like sensors and actuators. MEMS for biology applications are very different in design compared to more common micro-systems like accelerometers for instance. Indeed, their design includes on the same chip structures of very diverse size like narrow pillars, large trenches and wide cavities. This makes biology MEMS fabrication very challenging for DRIE, since each type of feature considered individually would require a specific etch process. Furthermore process parameters suited to match specifications on small size features (vertical profile, low sidewall roughness) induce issues and defects on bigger structures (undercut, micro-masking) and vice versa. Thus the process window is constrained leading to trade-offs in process development. In this paper process parameters such as source and platen powers, pressure, etching and passivation gas flows and steps duration were investigated to achieve all requirements. As well interactions between those different factors were characterized at different levels, from individual critical feature up to chip scale and to wafer scale. We will show the plasma process development and tuning to reach all these specifications. We also compared different chambers configurations of our ICP tool (source wafer distance, plasma diffusion) in order to obtain a good combination of hardware and process. With optimized etching we successfully fabricate micro-fluidic devices like micro-pumps.

  13. Modelling biological processes in WWTP; Modelado de procesos biologicos en las EDAR

    Energy Technology Data Exchange (ETDEWEB)

    Carpes, G.

    2009-07-01

    Biological technologies by active sludges are the most used in wastewater treatments. Multiple variants are affected in the characterization of this process, like wastewater treatment plant (WWTP) design, features and concentration of sludge, dissolved oxygen concentration and characteristics of the wastewater, including temperature and nutrients. Mathematical formula applied to WWTP modelling are presented to design its operation and to test the most important parameters, too. It is necessary to optimize the process in WWTP. (Author) 19 refs.

  14. Divergent and Convergent Evolution of Fungal Pathogenicity.

    Science.gov (United States)

    Shang, Yanfang; Xiao, Guohua; Zheng, Peng; Cen, Kai; Zhan, Shuai; Wang, Chengshu

    2016-05-12

    Fungal pathogens of plants and animals have multifarious effects; they cause devastating damages to agricultures, lead to life-threatening diseases in humans, or induce beneficial effects by reducing insect pest populations. Many virulence factors have been determined in different fungal pathogens; however, the molecular determinants contributing to fungal host selection and adaptation are largely unknown. In this study, we sequenced the genomes of seven ascomycete insect pathogens and performed the genome-wide analyses of 33 species of filamentous ascomycete pathogenic fungi that infect insects (12 species), plants (12), and humans (9). Our results revealed that the genomes of plant pathogens encode more proteins and protein families than the insect and human pathogens. Unexpectedly, more common orthologous protein groups are shared between the insect and plant pathogens than between the two animal group pathogens. We also found that the pathogenicity of host-adapted fungi evolved multiple times, and that both divergent and convergent evolutions occurred during pathogen-host cospeciation thus resulting in protein families with similar features in each fungal group. However, the role of phylogenetic relatedness on the evolution of protein families and therefore pathotype formation could not be ruled out due to the effect of common ancestry. The evolutionary correlation analyses led to the identification of different protein families that correlated with alternate pathotypes. Particularly, the effector-like proteins identified in plant and animal pathogens were strongly linked to fungal host adaptation, suggesting the existence of similar gene-for-gene relationships in fungus-animal interactions that has not been established before. These results well advance our understanding of the evolution of fungal pathogenicity and the factors that contribute to fungal pathotype formation. © The Author 2016. Published by Oxford University Press on behalf of the Society for

  15. Chemical analysis and biological testing of materials from the EDS coal liquefaction process: a status report

    Energy Technology Data Exchange (ETDEWEB)

    Later, D.W.; Pelroy, R.A.; Wilson, B.W.

    1984-05-01

    Representative process materials were obtained from the EDS pilot plant for chemical and biological analyses. These materials were characterized for biological activity and chemical composition using a microbial mutagenicity assay and chromatographic and mass spectrometric analytical techniques. The two highest boiling distillation cuts, as well as process solvent (PS) obtained from the bottoms recycle mode operation, were tested for initiation of mouse skin tumorigenicity. All three materials were active; the crude 800/sup 0 +/F cut was substantially more potent than the crude bottoms recycle PS or 750 to 800/sup 0/F distillate cut. Results from chemical analyses showed the EDS materials, in general, to be more highly alkylated and have higher hydroaromatic content than analogous SRC II process materials (no in-line process hydrogenation) used for comparison. In the microbial mutagenicity assays the N-PAC fractions showed greater activity than did the aliphatic hydrocarbon, hydroxy-PAH, or PAH fractions, although mutagenicity was detected in certain PAH fractions by a modified version of the standard microbial mutagenicity assay. Mutagenic activities for the EDS materials were lower, overall, than those for the corresponding materials from the SRC II process. The EDS materials produced under different operational modes had distinguishable differences in both their chemical constituency and biological activity. The primary differences between the EDS materials studied here and their SRC II counterparts used for comparison are most likely attributable to the incorporation of catalytic hydrogenation in the EDS process. 27 references, 28 figures, 27 tables.

  16. [Pathogenesis of invasive fungal infections].

    Science.gov (United States)

    Garcia-Vidal, Carolina; Carratalà, Jordi

    2012-03-01

    Invasive fungal infections remain a life-threatening disease. The development of invasive fungal disease is dependent on multiple factors, such us colonization and efficient host immune response. We aimed to review the pathogenesis of invasive fungal infections, in particular, those caused by Candida and Aspergillus. For this we propose, to describe the fungal characteristics, to detail the host defence mechanisms against fungus and to analyse the host risk factors for invasive fungal infection.

  17. Modelling combat strategies in fungal mycelia.

    Science.gov (United States)

    Boswell, Graeme P

    2012-07-07

    Fungal mycelia have a well-established role in nutrient cycling and are widely used as agents in biological control and in the remediation of polluted landscapes. Competition and combat between different fungal communities is common in these contexts and its outcome impacts on local biodiversity and the success of such biotechnological applications. In this investigation a mathematical model representing mycelia as a system of partial differential equations is used to simulate combat between two fungal colonies growing into a nutrient-free domain. The resultant equations are integrated numerically and the model simulates well-established outcomes of combat between fungal communities. The outcome of pairwise combat is shown to depend on numerous factors including the suppression of advancing hyphae in rivals, the degradation of a rival's established biomass and the utilization and redistribution of available nutrient resources. It is demonstrated how non-transitive hierarchies in fungal communities can be established through switching mechanisms, mirroring observations reported in experimental studies, and how specialized defensive structures can emerge through changes in the redistribution of internal resources.

  18. Mineralization of 2-chlorophenol by sequential electrochemical reductive dechlorination and biological processes

    Energy Technology Data Exchange (ETDEWEB)

    Arellano-González, Miguel Ángel; González, Ignacio [Universidad Autónoma Metropolitana-Iztapalapa, Departamento de Química, Av. San Rafael Atlixco No. 186, Col. Vicentina, 09340 Mexico D.F. (Mexico); Texier, Anne-Claire, E-mail: actx@xanum.uam.mx [Universidad Autónoma Metropolitana-Iztapalapa, Departamento de Biotecnología, Av. San Rafael Atlixco No. 186, Col. Vicentina, 09340 Mexico, D.F. (Mexico)

    2016-08-15

    Highlights: • Dechlorination of 2-chlorophenol to phenol was 100% efficient on Pd-Ni/Ti electrode. • An ECCOCEL reactor was efficient and selective to obtain phenol from 2-chlorophenol. • Phenol was totally mineralized in a coupled denitrifying biorreactor. • Global time of 2-chlorophenol mineralization in the combined system was 7.5 h. - Abstract: In this work, a novel approach was applied to obtain the mineralization of 2-chlorophenol (2-CP) in an electrochemical-biological combined system where an electrocatalytic dehydrogenation process (reductive dechlorination) was coupled to a biological denitrification process. Reductive dechlorination of 2-CP was conducted in an ECCOCEL-type reactor on a Pd-Ni/Ti electrode at a potential of −0.40 V vs Ag/AgCl{sub (s)}/KCl{sub (sat)}, achieving 100 percent transformation of 2-CP into phenol. The electrochemically pretreated effluent was fed to a rotating cylinder denitrifying bioreactor where the totality of phenol was mineralized by denitrification, obtaining CO{sub 2} and N{sub 2} as the end products. The total time required for 2-CP mineralization in the combined electrochemical-biological process was 7.5 h. This value is close to those previously reported for electrochemical and advanced oxidation processes but in this case, an efficient process was obtained without accumulation of by-products or generation of excessive energy costs due to the selective electrochemical pretreatment. This study showed that the use of electrochemical reductive pretreatment combined with biological processes could be a promising technology for the removal of recalcitrant molecules, such as chlorophenols, from wastewaters by more efficient, rapid, and environmentally friendly processes.

  19. The development of a content-influenced process skills instrument for general biology

    Science.gov (United States)

    White, Grady M.

    Since the mid 1960's, a major goal in biology instruction has been the teaching of process skills. Many process skills studies have been done and several process skills tests exist, but these studies and tests all target students in grades 7 through 12. The purpose of this study was to develop a biological process skills test for use in college level freshman biology classes. The study was conducted in two phases. Phase I was the development of the process skills test. Phase II of the study was to administer the test and determine student acquisition of process skills, and to determine whether any relationship existed between acquisition of process skills, student attitudes toward science, and student learning styles. Testing was implemented with a sample of 135 students enrolled in general biology in one southeastern university. The process skills test and the attitudes toward science test were administered as pretests; and posttests. The learning styles test was administered as a pretest. Data analysis included t-tests for dependent samples, multiple regression analyses, and an item analysis of the process skills test that concentrated on item difficulty, discriminating power, and distractor spread. Item analysis of the process skills test revealed some questions that were too difficult, and some questions that had problems with distractors. The majority of the test questions were found to be acceptable. The t-tests for dependent samples pies showed a significant increase in process skills mean test scores from pretest to posttest, and a significant improvement in student attitudes toward science mean test scores from pretest to posttest. The multiple regression analyses revealed no significant relationship between process skills, and student attitudes toward science, and student learning style. Recommendations include a review of the process skills test and revision of those items that are in question. The study should be continued with a larger sample size and

  20. Biological removal of methanol from process condensate for the purpose of reclamation

    Institute of Scientific and Technical Information of China (English)

    WANG Yan-ming; YANG Min; ZHANG Yu; GAO Meng-chun; ZHANG Jing

    2004-01-01

    The biological removal of methanol from condensate of ammonia manufacturing processes for the purpose of reclamation using contact type reactor was studied. Methanol of 60 mg/L was removed completely under an HRT of 1.12 h. Optimal inorganic nutrient dose was determined on evaluating methanol removal performance and dehydrogenase activities (DHA) under different nutrition doses. The optimal inorganic nutrient dose only gave an increase of conductivity of ca. 10 μs/cm2 in the effluent on treating synthetic condensate containing methanol of 30 mg/L. The results demonstrated that biological removal of methanol was effective for the purpose of recovering the methanol-bearing condensate.

  1. Improving AOC degradation rate by intensified biological process in advanced water treatment

    Institute of Scientific and Technical Information of China (English)

    AN Dong; LI Wei-guang; SONG Jia-xiu; CUI Fu-yi

    2007-01-01

    The object of is to evaluate assimilable organic carbon(AOC) degradation rate by intensified biological technique in advanced water treatment. By artificially acclimating and cultivating strains attached onto carbon surface, the selected strains can be intensified for their degradation to organic matters. The research indicates that ozonation process increases AOC concentration considerably, however, it is beneficial to microdegradation. Temperature and empty bed contact time ( TEBC ) are two important factors affecting microbiology. From 14 to 27 ℃, intensified biological carbon can remove AOC better compared with granular activated carbon (GAC). Under identical TEBC, intensified technique increases more than 10% AOC reduction.

  2. Entomopathogenic fungal parasites of scale insects and their potential in biological control%蚧虫的病原真菌及其在生物防治中的潜力

    Institute of Scientific and Technical Information of China (English)

    谢映平; 薛皎亮; 张志娟; 刘卫敏; 杨钤; 樊金华

    2012-01-01

    Scale insects (Hemiptera:Coccoidea) compose a group of important plant pests of agricultural crops,forest plants,ornamental plants and fruit trees.The history of the study of entomopathogenic fungi as a biological insecticide is reviewed according to the three developmental stages:the pioneering stage,the slow development stage,and the prosperity stage.Additionally,the status of this field in China was discussed.A list including approximately 140 species within 55 genera of the recorded fungal pathogens of scale insects in the world was provided.Finally,we provide four suggestions for the development of entomopathogenic fungi in the future.%蚧虫(半翅目:蚧总科)是农林果树和花卉的一类重要害虫.作者综述了寄生蚧虫的虫生真菌及其在生物防治中的潜力.总结了昆虫病原真菌作为生物杀虫剂的研究历史,并将其划分为3个发展阶段,即开创阶段、缓慢发展阶段和快速发展阶段.讨论了该领域在中国的研究现状.列出了世界上目前已记录的蚧虫病原真菌,包括55属140种,及其寄主蚧虫的名录.对虫生真菌未来的研究和开发提出了4点建议.

  3. Microfluidic solutions enabling continuous processing and monitoring of biological samples: A review.

    Science.gov (United States)

    Karle, Marc; Vashist, Sandeep Kumar; Zengerle, Roland; von Stetten, Felix

    2016-07-27

    The last decade has witnessed tremendous advances in employing microfluidic solutions enabling Continuous Processing and Monitoring of Biological Samples (CPMBS), which is an essential requirement for the control of bio-processes. The microfluidic systems are superior to the traditional inline sensors due to their ability to implement complex analytical procedures, such as multi-step sample preparation, and enabling the online measurement of parameters. This manuscript provides a backgound review of microfluidic approaches employing laminar flow, hydrodynamic separation, acoustophoresis, electrophoresis, dielectrophoresis, magnetophoresis and segmented flow for the continuous processing and monitoring of biological samples. The principles, advantages and limitations of each microfluidic approach are described along with its potential applications. The challenges in the field and the future directions are also provided.

  4. Enhanced biological phosphorus removal and its modeling for the activated sludge and membrane bioreactor processes.

    Science.gov (United States)

    Zuthi, M F R; Guo, W S; Ngo, H H; Nghiem, L D; Hai, F I

    2013-07-01

    A modified activated sludge process (ASP) for enhanced biological phosphorus removal (EBPR) needs to sustain stable performance for wastewater treatment to avoid eutrophication in the aquatic environment. Unfortunately, the overall efficiency of the EBPR in ASPs and membrane bioreactors (MBRs) is frequently hindered by different operational/system constraints. Moreover, although phosphorus removal data from several wastewater treatment systems are available, a comprehensive mathematical model of the process is still lacking. This paper presents a critical review that highlights the core issues of the biological phosphorus removal in ASPs and MBRs while discussing the inhibitory process requirements for other nutrients' removal. This mini review also successfully provided an assessment of the available models for predicting phosphorus removal in both ASP and MBR systems. The advantages and limitations of the existing models were discussed together with the inclusion of few guidelines for their improvement. Copyright © 2013 Elsevier Ltd. All rights reserved.

  5. New insight into the biological treatment by activated sludge: the role of adsorption process.

    Science.gov (United States)

    Zhang, Xiaochun; Li, Xinrun; Zhang, Qingrui; Peng, Qiuming; Zhang, Wen; Gao, Faming

    2014-02-01

    The objective of this study was to evaluate the effect of adsorption on the biological treatment process of wastewater. In the absence of substrate in the water, activated sludge developed well in the first hour, indicating that the growth of microorganism was not directly related to substrate concentration and the dissolved organic matter in the water assays were performed, no organic matter was detected out, revealing that there was no desorption in the activated sludge adsorption process. Activated sludge batch growth experiments in the presence of different adsorption capacities indicated that specific growth rate increased as specific adsorption capacity increased. The experiment on the relationship of adsorption capacity and substrate concentration or sludge concentration was also carried out. Specific adsorption capacity increased as sludge load increased, presenting linear correlation. The experiment results showed that adsorption should be taken into account in the study of the biological treatment process of wastewater.

  6. Epithelial-mesenchymal transition (EMT): A biological process in the development, stem cell differentiation, and tumorigenesis.

    Science.gov (United States)

    Chen, Tong; You, Yanan; Jiang, Hua; Wang, Zack Z

    2017-12-01

    The lineage transition between epithelium and mesenchyme is a process known as epithelial-mesenchymal transition (EMT), by which polarized epithelial cells lose their adhesion property and obtain mesenchymal cell phenotypes. EMT is a biological process that is often involved in embryogenesis and diseases, such as cancer invasion and metastasis. The EMT and the reverse process, mesenchymal-epithelial transition (MET), also play important roles in stem cell differentiation and de-differentiation (or reprogramming). In this review, we will discuss current research progress of EMT in embryonic development, cellular differentiation and reprogramming, and cancer progression, all of which are representative models for researches of stem cell biology in normal and in diseases. Understanding of EMT and MET may help to identify specific markers to distinguish normal stem cells from cancer stem cells in future. © 2017 Wiley Periodicals, Inc.

  7. A comparison of form processing involved in the perception of biological and nonbiological movements

    Science.gov (United States)

    Thurman, Steven M.; Lu, Hongjing

    2016-01-01

    Although there is evidence for specialization in the human brain for processing biological motion per se, few studies have directly examined the specialization of form processing in biological motion perception. The current study was designed to systematically compare form processing in perception of biological (human walkers) to nonbiological (rotating squares) stimuli. Dynamic form-based stimuli were constructed with conflicting form cues (position and orientation), such that the objects were perceived to be moving ambiguously in two directions at once. In Experiment 1, we used the classification image technique to examine how local form cues are integrated across space and time in a bottom-up manner. By comparing with a Bayesian observer model that embodies generic principles of form analysis (e.g., template matching) and integrates form information according to cue reliability, we found that human observers employ domain-general processes to recognize both human actions and nonbiological object movements. Experiments 2 and 3 found differential top-down effects of spatial context on perception of biological and nonbiological forms. When a background does not involve social information, observers are biased to perceive foreground object movements in the direction opposite to surrounding motion. However, when a background involves social cues, such as a crowd of similar objects, perception is biased toward the same direction as the crowd for biological walking stimuli, but not for rotating nonbiological stimuli. The model provided an accurate account of top-down modulations by adjusting the prior probabilities associated with the internal templates, demonstrating the power and flexibility of the Bayesian approach for visual form perception. PMID:26746875

  8. Genome-wide fungal stress responsive miRNA expression in wheat.

    Science.gov (United States)

    Inal, Behçet; Türktaş, Mine; Eren, Hakan; Ilhan, Emre; Okay, Sezer; Atak, Mehmet; Erayman, Mustafa; Unver, Turgay

    2014-12-01

    MicroRNAs (miRNAs) are small non-coding class of RNAs. They were identified in many plants with their diverse regulatory roles in several cellular and metabolic processes. A number of miRNAs were involved in biotic and abiotic stress responses. Here, fungal stress responsive wheat miRNAs were analyzed by using miRNA-microarray strategy. Two different fungi (Fusarium culmorum and Bipolaris sorokiniana) were inoculated on resistant and sensitive wheat cultivars. A total of 87 differentially regulated miRNAs were detected in the 8 × 15 K array including all of the available plant miRNAs. Using bioinformatics tools, the target transcripts of responsive miRNAs were predicted, and related biological processes and mechanisms were assessed. A number of the miRNAs such as miR2592s, miR869.1, miR169b were highly differentially regulated showing more than 200-fold change upon fungal-inoculation. Some of the miRNAs were identified as fungal-inoculation responsive for the first time. The analyses showed that some of the differentially regulated miRNAs targeted resistance-related genes such as LRR, glucuronosyl transferase, peroxidase and Pto kinase. The comparison of the two miRNA-microarray analyses indicated that fungal-responsive wheat miRNAs were differentially regulated in pathogen- and cultivar-specific manners.

  9. [Biocenotic dynamics of liquid sewage in the process of its biological purification at aeration stations].

    Science.gov (United States)

    Kalina, G P; Vinogradova, L A; Gipp, E K

    1975-08-01

    A study was made of biological purification of sewage at the aeration stations on the quantitative composition of the main indicator microbes--of bacteria of the coliform group and of the fecal coliform bacilli, enterococci, Proteus, and also pathogenic enterobacteria. There was found a difference in the behaviour of different species of Proteus, i.e. reduction in the process of purification in the numbers of Pr. mirabilis, and a sharp elevation of Pr. morganii content. There was noted an insignificant amount of Pr. vulgaris both before and after the biological purification. It was found that dynamics of biocenosis was influenced by air temperature at the time of collection of the samples. A possibility of reproduction of coliform bacilli serving as one of the factors of autopurification of sewage during the biological purification was confirmed.

  10. Optimal Size for Maximal Energy Efficiency in Information Processing of Biological Systems Due to Bistability

    CERN Document Server

    Zhang, Chi; Wang, Long-Fei; Yue, Yuan; Yu, Lian-Chun

    2015-01-01

    Energy efficiency is closely related to the evolution of biological systems and is important to their information processing. In this paper, we calculated the excitation probability of a simple model of a bistable biological unit in response to pulsatile inputs, and its spontaneous excitation rate due to noise perturbation. Then we analytically calculated the mutual information, energy cost, and energy efficiency of an array of these bistable units. We found that the optimal number of units could maximize this array's energy efficiency in encoding pulse inputs, which depends on the fixed energy cost. We conclude that demand for energy efficiency in biological systems may strongly influence the size of these systems under the pressure of natural selection.

  11. Fungal endocarditis: current challenges.

    Science.gov (United States)

    Tattevin, Pierre; Revest, Matthieu; Lefort, Agnès; Michelet, Christian; Lortholary, Olivier

    2014-10-01

    Whilst it used to affect mostly intravenous drug users and patients who underwent valvular surgery with suboptimal infection control procedures, fungal endocarditis is now mostly observed in patients with severe immunodeficiency (onco-haematology), in association with chronic central venous access and broad-spectrum antibiotic use. The incidence of fungal endocarditis has probably decreased in most developed countries with access to harm-reduction policies (i.e. needle exchange programmes) and with improved infection control procedures during cardiac surgery. Use of specific blood culture bottles for diagnosis of fungal endocarditis has decreased due to optimisation of media and automated culture systems. Meanwhile, the advent of rapid techniques, including fungal antigen detection (galactomannan, mannan/anti-mannan antibodies and β-1,3-d-glucans) and PCR (e.g. universal fungal PCR targeting 18S rRNA genes), shall improve sensitivity and reduce diagnostics delays, although limited data are available on their use for the diagnosis of fungal endocarditis. New antifungal agents available since the early 2000s may represent dramatic improvement for fungal endocarditis: (i) a new class, the echinocandins, has the potential to improve the management of Candida endocarditis owing to its fungicidal effect on yeasts as well as tolerability of increased dosages; and (ii) improved survival in patients with invasive aspergillosis with voriconazole compared with amphotericin B, and this may apply to Aspergillus sp. endocarditis as well, although its prognosis remains dismal. These achievements may allow selected patients to be cured with prolonged medical treatment alone when surgery is considered too risky.

  12. Interpretation of "fungal spikes" in Permian-Triassic boundary sections

    Science.gov (United States)

    Hochuli, Peter A.

    2016-09-01

    Abundant occurrences of the palynomorph Reduviasporonites have been described as ;fungal spike; from several Permian/Triassic boundary sections and related to the supposed destruction of woody vegetation by fungal pathogens during the Permian/Triassic extinction event. The biological affinity of this taxa considered by some authors of fungal origin is still controversially discussed since there is geochemical evidence that it is most probably related to algae. The abundance peak of this species is used by some authors as a stratigraphic marker, notably in terrestrial Permian/Triassic boundary sections from South China. Illustrations of the reported fungal remains however show potentially erroneous taxonomic identification of Reduviasporonites, and, based on differences in thermal maturation, they may represent recent contamination. Here Reduviasporonites chalastus of Early Triassic age is illustrated together with recent fungal remains originating from a strongly weathered and otherwise barren sample from a Middle Triassic section.

  13. Modelling Fungal Fermentations for Enzyme Production

    DEFF Research Database (Denmark)

    Albæk, Mads Orla; Gernaey, Krist; Hansen, Morten S.

    We have developed a process model of fungal fed-batch fermentations for enzyme production. In these processes, oxygen transfer rate is limiting and controls the substrate feeding rate. The model has been shown to describe cultivations of both Aspergillus oryzae and Trichoderma reesei strains in 550...

  14. Differential gene expression profiling and biological process analysis in proximal nerve segments after sciatic nerve transection.

    Science.gov (United States)

    Li, Shiying; Liu, Qianqian; Wang, Yongjun; Gu, Yun; Liu, Dong; Wang, Chunming; Ding, Guohui; Chen, Jianping; Liu, Jie; Gu, Xiaosong

    2013-01-01

    After traumatic injury, peripheral nerves can spontaneously regenerate through highly sophisticated and dynamic processes that are regulated by multiple cellular elements and molecular factors. Despite evidence of morphological changes and of expression changes of a few regulatory genes, global knowledge of gene expression changes and related biological processes during peripheral nerve injury and regeneration is still lacking. Here we aimed to profile global mRNA expression changes in proximal nerve segments of adult rats after sciatic nerve transection. According to DNA microarray analysis, the huge number of genes was differentially expressed at different time points (0.5 h-14 d) post nerve transection, exhibiting multiple distinct temporal expression patterns. The expression changes of several genes were further validated by quantitative real-time RT-PCR analysis. The gene ontology enrichment analysis was performed to decipher the biological processes involving the differentially expressed genes. Collectively, our results highlighted the dynamic change of the important biological processes and the time-dependent expression of key regulatory genes after peripheral nerve injury. Interestingly, we, for the first time, reported the presence of olfactory receptors in sciatic nerves. Hopefully, this study may provide a useful platform for deeply studying peripheral nerve injury and regeneration from a molecular-level perspective.

  15. Treatment of winery wastewater by physicochemical, biological and advanced processes: a review.

    Science.gov (United States)

    Ioannou, L A; Li Puma, G; Fatta-Kassinos, D

    2015-04-09

    Winery wastewater is a major waste stream resulting from numerous cleaning operations that occur during the production stages of wine. The resulting effluent contains various organic and inorganic contaminants and its environmental impact is notable, mainly due to its high organic/inorganic load, the large volumes produced and its seasonal variability. Several processes for the treatment of winery wastewater are currently available, but the development of alternative treatment methods is necessary in order to (i) maximize the efficiency and flexibility of the treatment process to meet the discharge requirements for winery effluents, and (ii) decrease both the environmental footprint, as well as the investment/operational costs of the process. This review, presents the state-of-the-art of the processes currently applied and/or tested for the treatment of winery wastewater, which were divided into five categories: i.e., physicochemical, biological, membrane filtration and separation, advanced oxidation processes, and combined biological and advanced oxidation processes. The advantages and disadvantages, as well as the main parameters/factors affecting the efficiency of winery wastewater treatment are discussed. Both bench- and pilot/industrial-scale processes have been considered for this review. Copyright © 2014 Elsevier B.V. All rights reserved.

  16. Understanding the granulation process of activated sludge in a biological phosphorus removal sequencing batch reactor.

    Science.gov (United States)

    Wu, Chang-Yong; Peng, Yong-Zhen; Wang, Ran-Deng; Zhou, Yue-Xi

    2012-02-01

    The granulation of activated sludge was investigated using two parallel sequencing batch reactors (SBRs) operated in biological nitrogen and phosphorus removal conditions though the reactor configuration and operating parameters did not favor the granulation. Granules were not observed when the SBR was operated in biological nitrogen removal period for 30d. However, aerobic granules were formed naturally without the increase of aeration intensity when enhanced biological phosphorus removal (EBPR) was achieved. It can be detected that plenty of positive charged particles were formed with the release of phosphorus during the anaerobic period of EBPR. The size of the particles was about 5-20 μm and their highest positive ζ potential was about 73 mV. These positive charged particles can stimulate the granulation. Based on the experimental results, a hypothesis was proposed to interpret the granulation process of activated sludge in the EBPR process in SBR. Dense and compact subgranules were formed stimulated by the positive charged particles. The subgranules grew gradually by collision, adhesion and attached growth of bacteria. Finally, the extrusion and shear of hydrodynamic shear force would help the maturation of granules. Aerobic granular SBR showed excellent biological phosphorus removal ability. The average phosphorus removal efficiency was over 95% and the phosphorus in the effluent was below 0.50 mg L(-1) during the operation. Copyright © 2011 Elsevier Ltd. All rights reserved.

  17. Biologically inspired large scale chemical sensor arrays and embedded data processing

    Science.gov (United States)

    Marco, S.; Gutiérrez-Gálvez, A.; Lansner, A.; Martinez, D.; Rospars, J. P.; Beccherelli, R.; Perera, A.; Pearce, T.; Vershure, P.; Persaud, K.

    2013-05-01

    Biological olfaction outperforms chemical instrumentation in specificity, response time, detection limit, coding capacity, time stability, robustness, size, power consumption, and portability. This biological function provides outstanding performance due, to a large extent, to the unique architecture of the olfactory pathway, which combines a high degree of redundancy, an efficient combinatorial coding along with unmatched chemical information processing mechanisms. The last decade has witnessed important advances in the understanding of the computational primitives underlying the functioning of the olfactory system. EU Funded Project NEUROCHEM (Bio-ICT-FET- 216916) has developed novel computing paradigms and biologically motivated artefacts for chemical sensing taking inspiration from the biological olfactory pathway. To demonstrate this approach, a biomimetic demonstrator has been built featuring a large scale sensor array (65K elements) in conducting polymer technology mimicking the olfactory receptor neuron layer, and abstracted biomimetic algorithms have been implemented in an embedded system that interfaces the chemical sensors. The embedded system integrates computational models of the main anatomic building blocks in the olfactory pathway: the olfactory bulb, and olfactory cortex in vertebrates (alternatively, antennal lobe and mushroom bodies in the insect). For implementation in the embedded processor an abstraction phase has been carried out in which their processing capabilities are captured by algorithmic solutions. Finally, the algorithmic models are tested with an odour robot with navigation capabilities in mixed chemical plumes

  18. Fungal community dynamics and driving factors during agricultural waste composting.

    Science.gov (United States)

    Yu, Man; Zhang, Jiachao; Xu, Yuxin; Xiao, Hua; An, Wenhao; Xi, Hui; Xue, Zhiyong; Huang, Hongli; Chen, Xiaoyang; Shen, Alin

    2015-12-01

    This study was conducted to identify the driving factors behind fungal community dynamics during agricultural waste composting. Fungal community abundance and structure were determined by quantitative PCR and denaturing gradient gel electrophoresis analysis combined with DNA sequencing. The effects of physico-chemical parameters on fungal community abundance and structure were evaluated by least significant difference tests and redundancy analysis. The results showed that Cladosporium bruhnei, Hanseniaspora uvarum, Scytalidium thermophilum, Tilletiopsis penniseti, and Coprinopsis altramentaria were prominent during the composting process. The greatest variation in the distribution of fungal community structure was statistically explained by pile temperature and total organic carbon (TOC) (P composting.

  19. Fungal biogeography. Global diversity and geography of soil fungi.

    Science.gov (United States)

    Tedersoo, Leho; Bahram, Mohammad; Põlme, Sergei; Kõljalg, Urmas; Yorou, Nourou S; Wijesundera, Ravi; Villarreal Ruiz, Luis; Vasco-Palacios, Aída M; Thu, Pham Quang; Suija, Ave; Smith, Matthew E; Sharp, Cathy; Saluveer, Erki; Saitta, Alessandro; Rosas, Miguel; Riit, Taavi; Ratkowsky, David; Pritsch, Karin; Põldmaa, Kadri; Piepenbring, Meike; Phosri, Cherdchai; Peterson, Marko; Parts, Kaarin; Pärtel, Kadri; Otsing, Eveli; Nouhra, Eduardo; Njouonkou, André L; Nilsson, R Henrik; Morgado, Luis N; Mayor, Jordan; May, Tom W; Majuakim, Luiza; Lodge, D Jean; Lee, Su See; Larsson, Karl-Henrik; Kohout, Petr; Hosaka, Kentaro; Hiiesalu, Indrek; Henkel, Terry W; Harend, Helery; Guo, Liang-dong; Greslebin, Alina; Grelet, Gwen; Geml, Jozsef; Gates, Genevieve; Dunstan, William; Dunk, Chris; Drenkhan, Rein; Dearnaley, John; De Kesel, André; Dang, Tan; Chen, Xin; Buegger, Franz; Brearley, Francis Q; Bonito, Gregory; Anslan, Sten; Abell, Sandra; Abarenkov, Kessy

    2014-11-28

    Fungi play major roles in ecosystem processes, but the determinants of fungal diversity and biogeographic patterns remain poorly understood. Using DNA metabarcoding data from hundreds of globally distributed soil samples, we demonstrate that fungal richness is decoupled from plant diversity. The plant-to-fungus richness ratio declines exponentially toward the poles. Climatic factors, followed by edaphic and spatial variables, constitute the best predictors of fungal richness and community composition at the global scale. Fungi show similar latitudinal diversity gradients to other organisms, with several notable exceptions. These findings advance our understanding of global fungal diversity patterns and permit integration of fungi into a general macroecological framework.

  20. HRI catalytic two-stage liquefaction (CTSL) process materials: chemical analysis and biological testing

    Energy Technology Data Exchange (ETDEWEB)

    Wright, C.W.; Later, D.W.

    1985-12-01

    This report presents data from the chemical analysis and biological testing of coal liquefaction materials obtained from the Hydrocarbon Research, Incorporated (HRI) catalytic two-stage liquefaction (CTSL) process. Materials from both an experimental run and a 25-day demonstration run were analyzed. Chemical methods of analysis included adsorption column chromatography, high-resolution gas chromatography, gas chromatography/mass spectrometry, low-voltage probe-inlet mass spectrometry, and proton nuclear magnetic resonance spectroscopy. The biological activity was evaluated using the standard microbial mutagenicity assay and an initiation/promotion assay for mouse-skin tumorigenicity. Where applicable, the results obtained from the analyses of the CTSL materials have been compared to those obtained from the integrated and nonintegrated two-stage coal liquefaction processes. 18 refs., 26 figs., 22 tabs.

  1. Biological treatment of fish processing wastewater: A case study from Sfax City (Southeastern Tunisia).

    Science.gov (United States)

    Jemli, Meryem; Karray, Fatma; Feki, Firas; Loukil, Slim; Mhiri, Najla; Aloui, Fathi; Sayadi, Sami

    2015-04-01

    The present work presents a study of the biological treatment of fish processing wastewater at salt concentration of 55 g/L. Wastewater was treated by both continuous stirred-tank reactor (CSTR) and membrane bioreactor (MBR) during 50 and 100 days, respectively. These biological processes involved salt-tolerant bacteria from natural hypersaline environments at different organic loading rates (OLRs). The phylogenetic analysis of the corresponding excised DGGE bands has demonstrated that the taxonomic affiliation of the most dominant species includes Halomonadaceae and Flavobacteriaceae families of the Proteobacteria (Gamma-proteobacteria class) and the Bacteroidetes phyla, respectively. The results of MBR were better than those of CSTR in the removal of total organic carbon with efficiencies from 97.9% to 98.6%. Nevertheless, salinity with increasing OLR aggravates fouling that requires more cleaning for a membrane in MBR while leads to deterioration of sludge settleability and effluent quality in CSTR.

  2. Marketing the use of the space environment for the processing of biological and pharmaceutical materials

    Science.gov (United States)

    1984-01-01

    The perceptions of U.S. biotechnology and pharmaceutical companies concerning the potential use of the space environment for the processing of biological substances was examined. Physical phenomena that may be important in space-base processing of biological materials are identified and discussed in the context of past and current experiment programs. The capabilities of NASA to support future research and development, and to engage in cooperative risk sharing programs with industry are discussed. Meetings were held with several biotechnology and pharmaceutical companies to provide data for an analysis of the attitudes and perceptions of these industries toward the use of the space environment. Recommendations are made for actions that might be taken by NASA to facilitate the marketing of the use of the space environment, and in particular the Space Shuttle, to the biotechnology and pharmaceutical industries.

  3. HRI catalytic two-stage liquefaction (CTSL) process materials: chemical analysis and biological testing

    Energy Technology Data Exchange (ETDEWEB)

    Wright, C.W.; Later, D.W.

    1985-12-01

    This report presents data from the chemical analysis and biological testing of coal liquefaction materials obtained from the Hydrocarbon Research, Incorporated (HRI) catalytic two-stage liquefaction (CTSL) process. Materials from both an experimental run and a 25-day demonstration run were analyzed. Chemical methods of analysis included adsorption column chromatography, high-resolution gas chromatography, gas chromatography/mass spectrometry, low-voltage probe-inlet mass spectrometry, and proton nuclear magnetic resonance spectroscopy. The biological activity was evaluated using the standard microbial mutagenicity assay and an initiation/promotion assay for mouse-skin tumorigenicity. Where applicable, the results obtained from the analyses of the CTSL materials have been compared to those obtained from the integrated and nonintegrated two-stage coal liquefaction processes. 18 refs., 26 figs., 22 tabs.

  4. Sensory processing sensitivity: a review in the light of the evolution of biological responsivity.

    Science.gov (United States)

    Aron, Elaine N; Aron, Arthur; Jagiellowicz, Jadzia

    2012-08-01

    This article reviews the literature on sensory processing sensitivity (SPS) in light of growing evidence from evolutionary biology that many personality differences in nonhuman species involve being more or less responsive, reactive, flexible, or sensitive to the environment. After briefly defining SPS, it first discusses how biologists studying animal personality have conceptualized this general environmental sensitivity. Second, it reviews relevant previous human personality/temperament work, focusing on crossover interactions (where a trait generates positive or negative outcomes depending on the environment), and traits relevant to specific hypothesized aspects of SPS: inhibition of behavior, sensitivity to stimuli, depth of processing, and emotional/physiological reactivity. Third, it reviews support for the overall SPS model, focusing on development of the Highly Sensitive Person (HSP) Scale as a measure of SPS then on neuroimaging and genetic studies using the scale, all of which bears on the extent to which SPS in humans corresponds to biological responsivity.

  5. Efficient high-throughput biological process characterization: Definitive screening design with the ambr250 bioreactor system.

    Science.gov (United States)

    Tai, Mitchell; Ly, Amanda; Leung, Inne; Nayar, Gautam

    2015-01-01

    The burgeoning pipeline for new biologic drugs has increased the need for high-throughput process characterization to efficiently use process development resources. Breakthroughs in highly automated and parallelized upstream process development have led to technologies such as the 250-mL automated mini bioreactor (ambr250™) system. Furthermore, developments in modern design of experiments (DoE) have promoted the use of definitive screening design (DSD) as an efficient method to combine factor screening and characterization. Here we utilize the 24-bioreactor ambr250™ system with 10-factor DSD to demonstrate a systematic experimental workflow to efficiently characterize an Escherichia coli (E. coli) fermentation process for recombinant protein production. The generated process model is further validated by laboratory-scale experiments and shows how the strategy is useful for quality by design (QbD) approaches to control strategies for late-stage characterization. © 2015 American Institute of Chemical Engineers.

  6. Reduction of Biological Sludge Production Applying an Alternating Oxic/anoxic Process in Water Line.

    Science.gov (United States)

    Eusebi, Anna Laura; Panigutti, Maximiliano; Battistoni, Paolo

    2016-06-01

    Alternating oxic/anoxic process, applied for the main objective of the improvement of nitrogen performances, was studied in terms of secondary effect of biomass reduction. The process was carried out in one real water resource recovery facility and the data were compared with the previous conventional period when a conventional process was adopted. The main mechanism of the process for the sludge minimization is recognized in the metabolic uncoupling. In fact, an increase of the specific oxygen uptake rate in the biological reactor was recorded stimulated by the change of the oxidation reduction potential environment. Moreover, the heterotrophic growth yield was measured equal to 0.385 kgVSS/kgCOD. The global percentage of reduction was tested with the mass balance of solids. The process is able to decrease the observed sludge yield up to 20%. The specific energy consumption was evaluated.

  7. Axiology and the process of the initial education of biology teachers

    Directory of Open Access Journals (Sweden)

    Lucken Bueno Lucas

    2013-12-01

    Full Text Available This article presents an axiological analysis of the information provided by graduate students in the last year of Biological Science Course, concerning their educational process into becoming a teacher. Using theoretical assumptions made by 3x3 matrix, which deal with epistemic, personal and social relations between teacher and knowledge, teacher and teaching, teacher and learning, we sought to attest, through a social perspective, how an axiological study might contribute to the understanding of the following relations: teacher – content, teacher – teaching, teacher – (students’ learning. Articulately, foci of teachers’ learning process (FDA were used in order to establish criteria in the data analysis. Through contributions from discursive textual analysis, it was possible to detect axiological elements, which suggest the relevance of biology content in the choice of teaching as a career, as well as problems in teachers’ educational process such as the prioritization of teaching dimensions over the learning process of these graduates’ future students. The absence of axiological signs in the learning process showed that this type of management requires alterations on the teachers’ formation process.

  8. The B- to Z-DNA equilibrium in vivo is perturbed by biological processes.

    OpenAIRE

    Zacharias, W; Jaworski, A; Larson, J E; Wells, R D

    1988-01-01

    Right-handed B and left-handed Z conformations coexist in equilibrium in portions of plasmids in Escherichia coli. The equilibria are influenced by the length of the sequences that undergo the structural transitions and are perturbed by biological processes. The composite results of three types of determinations indicate a supercoil density of -0.025 in vivo. The coexistence of alternative DNA conformations in living cells implies the potential of these structures or their transitions for imp...

  9. In Vivo Bioluminescent Imaging (BLI): Noninvasive Visualization and Interrogation of Biological Processes in Living Animals

    OpenAIRE

    Steven Ripp; Sayler, Gary S.; Tingting Xu; Close, Dan M.

    2010-01-01

    In vivo bioluminescent imaging (BLI) is increasingly being utilized as a method for modern biological research. This process, which involves the noninvasive interrogation of living animals using light emitted from luciferase-expressing bioreporter cells, has been applied to study a wide range of biomolecular functions such as gene function, drug discovery and development, cellular trafficking, protein-protein interactions, and especially tumorigenesis, cancer treatment, and disease progressio...

  10. Biological Carbon Dioxide Assimilation Process Using Marine Phytoplankton Tetraselmis suecica and Bivalve Perna viridis

    OpenAIRE

    Sirichai Dharmvanij; Sorawit Powtongsook; Chompunut Chairattana; Piamsak Manesveta

    2012-01-01

    The Biological CO2 assimilation process using marine phytoplankton and marine bivalve was evaluated by carbon assimilation of the green mussel Perna viridis fed with Tetraselmis suecica under laboratory condition. Incorporation of carbon dioxide into phytoplankton biomass was performed through aeration. The experiment consisted of three treatments i.e. mussels without feeding (Control), mussels fed with T. suecica cultured with air (Treatment 1: T-Air), and mussels fed with T. suecica culture...

  11. [Biological Role of Oligomerny Matriksny of Protein of the Cartilage in Exchange Processes Connecting Tissue].

    Science.gov (United States)

    Belova, Yu S

    2015-01-01

    In the review the literary data on studying of biological role of a oligomerny matriksny of protein of the cartilage in exchange processes connecting tissue at people and animals are provided, and also results of own researches on definition of a oligomerny matriksny of protein of the cartilage as a modern marker of a metabolism of an articulate cartilage at children from undifferentiated displaziy conjunctive tissue are briefly described.

  12. Degradation of aqueous methyl tert-butyl ether by photochemical, biological, and their combined processes

    Directory of Open Access Journals (Sweden)

    Azadeh Asadi

    2006-01-01

    Full Text Available The degradation of aqueous methyl tert-butyl ether (MTBE at relatively high concentrations was investigated by various photo-induced oxidation processes such as UV/H2O2 and UV/TiO2 as well as biological processes and their combination. It was shown that the degradation of MTBE by UV/H2O2 and TiO2 photocatalytic followed a first-order model with apparent rate constant of 1.31×10−1 and 1.21×10−2 min-1, respectively. It was observed that UV/H2O2/TiO2 process did not have any advantages over each of the other processes alone. The biodegradation of methyl tert-butyl ether (MTBE was evaluated using aerobic mixed culture with three different approaches, including ultimate biological oxygen demand (BODU assessment, nonacclimated, and acclimated mixed cultures. The apparent rate constant for the biodegradation of MTBE by nonacclimated mixed culture was 4.36×10−2 day-1. It was shown that the acclimatization of the mixed cultures enhanced the rate of biodegradation of MTBE to 3.24×10−1mg L-1h-1. Finally, the effects of the photocatalytic pretreatment of aqueous MTBE on its subsequent biological treatment were studied. It was observed that the rate of bioreaction was not enhanced and the photocatalytic pretreatment had adverse effects on its biological treatment so that the apparent rate constant decreased to 2.83×10−1 mg L-1h-1.

  13. Application of 19F MRI for in vivo detection of biological processes

    OpenAIRE

    Basse-Lüsebrink, Thomas Christian

    2013-01-01

    This thesis focuses on various aspects and techniques of 19F magnetic resonance (MR). The first chapters provide an overview of the basic physical properties, 19F MR and MR sequences related to this work. Chapter 5 focuses on the application of 19F MR to visualize biological processes in vivo using two different animal models. The dissimilar models underlined the wide applicability of 19F MR in preclinical research. A subsection of Chapter 6 shows the application of compressed sensing (CS) to...

  14. The Case of the Missing Ancient Fungal Polyploids.

    Science.gov (United States)

    Campbell, Matthew A; Ganley, Austen R D; Gabaldón, Toni; Cox, Murray P

    2016-12-01

    Polyploidy-the increase in the number of whole chromosome sets-is an important evolutionary force in eukaryotes. Polyploidy is well recognized throughout the evolutionary history of plants and animals, where several ancient events have been hypothesized to be drivers of major evolutionary radiations. However, fungi provide a striking contrast: while numerous recent polyploids have been documented, ancient fungal polyploidy is virtually unknown. We present a survey of known fungal polyploids that confirms the absence of ancient fungal polyploidy events. Three hypotheses may explain this finding. First, ancient fungal polyploids are indeed rare, with unique aspects of fungal biology providing similar benefits without genome duplication. Second, fungal polyploids are not successful in the long term, leading to few extant species derived from ancient polyploidy events. Third, ancient fungal polyploids are difficult to detect, causing the real contribution of polyploidy to fungal evolution to be underappreciated. We consider each of these hypotheses in turn and propose that failure to detect ancient events is the most likely reason for the lack of observed ancient fungal polyploids. We examine whether existing data can provide evidence for previously unrecognized ancient fungal polyploidy events but discover that current resources are too limited. We contend that establishing whether unrecognized ancient fungal polyploidy events exist is important to ascertain whether polyploidy has played a key role in the evolution of the extensive complexity and diversity observed in fungi today and, thus, whether polyploidy is a driver of evolutionary diversifications across eukaryotes. Therefore, we conclude by suggesting ways to test the hypothesis that there are unrecognized polyploidy events in the deep evolutionary history of the fungi.

  15. Identification of key processes underlying cancer phenotypes using biologic pathway analysis.

    Directory of Open Access Journals (Sweden)

    Sol Efroni

    Full Text Available Cancer is recognized to be a family of gene-based diseases whose causes are to be found in disruptions of basic biologic processes. An increasingly deep catalogue of canonical networks details the specific molecular interaction of genes and their products. However, mapping of disease phenotypes to alterations of these networks of interactions is accomplished indirectly and non-systematically. Here we objectively identify pathways associated with malignancy, staging, and outcome in cancer through application of an analytic approach that systematically evaluates differences in the activity and consistency of interactions within canonical biologic processes. Using large collections of publicly accessible genome-wide gene expression, we identify small, common sets of pathways - Trka Receptor, Apoptosis response to DNA Damage, Ceramide, Telomerase, CD40L and Calcineurin - whose differences robustly distinguish diverse tumor types from corresponding normal samples, predict tumor grade, and distinguish phenotypes such as estrogen receptor status and p53 mutation state. Pathways identified through this analysis perform as well or better than phenotypes used in the original studies in predicting cancer outcome. This approach provides a means to use genome-wide characterizations to map key biological processes to important clinical features in disease.

  16. Biological processes in the water column of the South Atlantic Bight: Phytoplankton response. Final progress report

    Energy Technology Data Exchange (ETDEWEB)

    Verity, P.G.; Yoder, J.A.

    1992-03-10

    This study addressed shelf-wide processes and nearshore (coastal boundary zone) processes occurring in the southeastern. Coastal boundary zone (CBZ) US continental shelf dynamics involve studies of circulation and of biological and chemical transformations. Continental shelf processes affect the removal of material from the coastal boundary zone into areas where the material no longer interacts with or influences concentrations in the CBZ. The two arbitrarily separate components are, in fact, unified. The CBZ typically extends about 300 km along-shore and about 20 km offshore from its center off Savannah, Georgia, where most runoff occurs. The rates of biological and chemical transformations are controlled by proximity to the bottom and the amounts of fine suspended organic matter originating from rivers and salt marshes. Once material is removed from this zone, either by a long-shelf or cross-shelf advection to regions where the materials are no longer in contact with the bottom, the suite of factors governing the rates of chemical and biological transformations changes. The determination of contrasting rates in these two environments was one of the central focuses of the South Atlantic Bight program.

  17. Determination of Biological Treatability Processes of Textile Wastewater and Implementation of a Fuzzy Logic Model

    Directory of Open Access Journals (Sweden)

    Harun Akif Kabuk

    2015-01-01

    Full Text Available This study investigated the biological treatability of textile wastewater. For this purpose, a membrane bioreactor (MBR was utilized for biological treatment after the ozonation process. Due to the refractory organic contents of textile wastewater that has a low biodegradability capacity, ozonation was implemented as an advanced oxidation process prior to the MBR system to increase the biodegradability of the wastewater. Textile wastewater, oxidized by ozonation, was fed to the MBR at different hydraulic retention times (HRT. During the process, color, chemical oxygen demand (COD, and biochemical oxygen demand (BOD removal efficiencies were monitored for 24-hour, 12-hour, 6-hour, and 3-hour retention times. Under these conditions, 94% color, 65% COD, and 55% BOD removal efficiencies were obtained in the MBR system. The experimental outputs were modeled with multiple linear regressions (MLR and fuzzy logic. MLR results suggested that color removal is more related to COD removal relative to BOD removal. A surface map of this issue was prepared with a fuzzy logic model. Furthermore, fuzzy logic was employed to the whole modeling of the biological system treatment. Determination coefficients for COD, BOD, and color removal efficiencies were 0.96, 0.97, and 0.92, respectively.

  18. Fungal NRPS-dependent siderophores: From function to prediction

    DEFF Research Database (Denmark)

    Sørensen, Jens Laurids; Knudsen, Michael; Hansen, Frederik Teilfeldt

    2014-01-01

    discuss the function of siderophores in relation to fungal iron uptake mechanisms and their importance for coexistence with host organisms. The chemical nature of the major groups of siderophores and their regulation is described along with the function and architecture of the large multi-domain enzymes...... responsible for siderophore synthesis, namely the non-ribosomal peptide synthetases (NRPSs). Finally, we present the most recent advances in our understanding of the structural biology of fungal NRPSs and discuss opportunities for the development of a fungal NRPS prediction server...

  19. Fungal NRPS-dependent siderophores: From function to prediction

    DEFF Research Database (Denmark)

    Sørensen, Jens Laurids; Knudsen, Michael; Hansen, Frederik Teilfeldt

    2014-01-01

    discuss the function of siderophores in relation to fungal iron uptake mechanisms and their importance for coexistence with host organisms. The chemical nature of the major groups of siderophores and their regulation is described along with the function and architecture of the large multi-domain enzymes...... responsible for siderophore synthesis, namely the non-ribosomal peptide synthetases (NRPSs). Finally, we present the most recent advances in our understanding of the structural biology of fungal NRPSs and discuss opportunities for the development of a fungal NRPS prediction server...

  20. Reclaimation of petroleum-based wastewater by noval ozone immobilized biological activated carbon process

    Institute of Scientific and Technical Information of China (English)

    2006-01-01

    Wastewater reclamation in the petroleum industries in Northern China is important because of the shortage of water resource. Conventional treatment technology used in treating petroleum-based wastewater,namely the 3-phase biological process, typically removes COD, BOD, grease, volatile hydrobenzenes, cyanides, sulfides and suspended solids. However, the process is often ineffective in ammonia-nitrogen removal,and thus the treated effluent quantity can't meet the required standards for reuse. This paper investigated a novel ozone immobilized biological activated carbon (O3-IBAC) process for ammonia nitrogen removal from petroleum-based wastewater. Operated at a HRT (Hydraulic Retention Time) of 15 minutes in IBAC1 and 27 minutes in IBAC2, the O3-IBAC process achieved ammonia nitrogen removal efficiency of 91%. In addition, the removal efficiencies of COD, volatile hydrobenzenes, suspended solids, turbidity and petroleum-based micropollutants were all above 90%. Competition between the autotrophs and heterotrophs was observed, which was indicated by an increase of ammonia nitrogen removal with a decrease of COD removal, and vise versa. Nitrite accumulation in IBAC1 followed by erobic shortcut denitrification in IBAC2 led to 28% of the Total Nitrogen removal efficiency. Pollutant reduction in the IBAC process was achieved by a rapid physical adsorption and biodegradation on the activated carbon, which effectively retained the pollutants in the system despite the short hydraulic retention time.

  1. Factors affecting the immobilization of fungal biomass on CNT as a biosorbent for textile dyes removal

    Science.gov (United States)

    Adebayo Bello, Ibrahim; Kabbashi, Nassereldeen A.; Zahangir Alam, Md; Alkhatib, Ma'an F.; Nabilah Murad, Fatin

    2017-07-01

    Effluents from dye and textile industries are highly contaminated and toxic to the environment. High concentration of non-biodegradable compounds contributes to increased biochemical oxygen demand (BOD) and chemical oxygen demand (COD) of the wastewater bodies. Dyes found in wastewater from textile industries are carcinogenic, mutagenic or teratogenic. Biological processes involving certain bacteria, fungi and activated carbon have been employed in treating wastewater. These methods are either inefficient or ineffective. These complexities necessitates search for new approaches that will offset all the shortcomings of the present solutions to the challenges faced with textile wastewater management. This study produced a new biosorbent by the immobilization of fungal biomass on carbon nanotubes. The new biosorbent is called “carbon nanotubes immobilized biomass (CNTIB)” which was produced by immobilization technique. A potential fungal strain, Aspergillus niger was selected on the basis of biomass production. It was found out in this studies that fungal biomass were better produced in acidic medium. Aspergillus niger was immobilized on carbon nanotubes. One-factor-at-a time (OFAT) was employed to determine the effect of different factors on the immobilization of fungal biomass on carbon nanotubes and optimum levels at which the three selected parameters (pH, culture time and agitation rate) would perform. Findings from OFAT showed that the optimum conditions for immobilization are a pH of 5, agitation rate of 150rpm and a culture time of 5 days.

  2. [Analysis of novel style biological fluidized bed A/O combined process in dyeing wastewater treatment].

    Science.gov (United States)

    Wei, Chao-Hai; Huang, Hui-Jing; Ren, Yuan; Wu, Chao-Fei; Wu, Hai-Zhen; Lu, Bin

    2011-04-01

    A novel biological fluidized bed was designed and developed to deal with high-concentration refractory organic industrial wastewater. From 12 successful projects, three cases of dyeing wastewater treatment projects with the scale of 1200, 2000 and 13000 m3/d respectively were selected to analyze the principle of treating refractory organic wastewater with fluidized bed technology and discuss the superiority of self-developed biological fluidized bed from the aspects of technical and economic feasibility. In the three cases, when the hydraulic retention time (HRT) of biological system were 23, 34 and 21. 8 h, and the volume loading of influents (COD) were 1.75, 4.75 and 2.97 kg/(m3 x d), the corresponding COD removal were 97.3%, 98.1% and 95.8%. Furthermore the operating costs of projects were 0.91, 1.17 and 0.88 yuan per ton of water respectively. The index of effluent all met the 1st grade of Guangdong Province wastewater discharge standard. Results showed that the biological fluidized bed had characteristics of shorter retention time, greater oxygen utilization rate, faster conversion rate of organic pollutants and less sludge production, which made it overcome the shortcomings of traditional methods in printing and dyeing wastewater treatment. Considering the development of technology and the combination of ecological security and recycling resources, a low-carbon wastewater treatment process was proposed.

  3. Survey of biological processes for odor reduction; Kartlaeggning och studie av biologiska processer foer luktreduktion

    Energy Technology Data Exchange (ETDEWEB)

    Arrhenius, Karine; Rosell, Lars [SP Technical Research Inst. of Sweden, Boraas (Sweden); Hall, Gunnar [SIK Swedish Inst. for Food and Biotechnology, Gothenburg (Sweden)

    2009-09-15

    This project aims to characterize chemical and subsequently odor emissions from a digester plant located closed to Boraas in Sweden (Boraas Energi och Miljoe AB). The digestion produces mainly 2 by-products, biogas and high quality organic biofertilizer. Biogas is a renewable source of electrical and heat energy and subsequently digester have a promising future. Unfortunately, release of unpleasant odours is one of the problems that may limit development of the technique as odours strongly influence the level of acceptance of the neighbours. The number of complaints due to odours depends mostly, upon the degree of odour release, the weather condition and plant environment (which influence the risks for spreading out), and the tolerance of the neighbours. These parameters are strongly variable. Many processes inside the plant distributed on a large surface may contribute to odour release. Chemical emissions were studied, in this project, by extensive sampling inside the plant. Results were then evaluated regarding risk for odour releases. The goal was to suggest controls and routines to limit releases. The conditions leading to the higher risks for odour emissions were studied by performing sampling at different periods of the year and subsequently different weather conditions. At first, places for measurement were chosen together with personal of the plant. Three zones are considered to mainly contribute to the odour emissions: the landfill region, the cisterns region and the leaching lake region. Totally 13 places were studied with regard to odour and chemical emissions under 2008-2009 at different weather conditions. Some results from a previous project (2007) are also presented here. Results show that the spreading out of can be maintained to an acceptable level as long as the plant is functioning without disturbances. The early stages of the treatment of waste should be confined in locals with closed doors to avoid spreading out of odours. Through controlled

  4. Mind the gap: non-biological processes contributing to soil CO2 efflux.

    Science.gov (United States)

    Rey, Ana

    2015-05-01

    Widespread recognition of the importance of soil CO2 efflux as a major source of CO2 to the atmosphere has led to active research. A large soil respiration database and recent reviews have compiled data, methods, and current challenges. This study highlights some deficiencies for a proper understanding of soil CO2 efflux focusing on processes of soil CO2 production and transport that have not received enough attention in the current soil respiration literature. It has mostly been assumed that soil CO2 efflux is the result of biological processes (i.e. soil respiration), but recent studies demonstrate that pedochemical and geological processes, such as geothermal and volcanic CO2 degassing, are potentially important in some areas. Besides the microbial decomposition of litter, solar radiation is responsible for photodegradation or photochemical degradation of litter. Diffusion is considered to be the main mechanism of CO2 transport in the soil, but changes in atmospheric pressure and thermal convection may also be important mechanisms driving soil CO2 efflux greater than diffusion under certain conditions. Lateral fluxes of carbon as dissolved organic and inorganic carbon occur and may cause an underestimation of soil CO2 efflux. Traditionally soil CO2 efflux has been measured with accumulation chambers assuming that the main transport mechanism is diffusion. New techniques are available such as improved automated chambers, CO2 concentration profiles and isotopic techniques that may help to elucidate the sources of carbon from soils. We need to develop specific and standardized methods for different CO2 sources to quantify this flux on a global scale. Biogeochemical models should include biological and non-biological CO2 production processes before we can predict the response of soil CO2 efflux to climate change. Improving our understanding of the processes involved in soil CO2 efflux should be a research priority given the importance of this flux in the global

  5. Prospects for energy recovery during hydrothermal and biological processing of waste biomass.

    Science.gov (United States)

    Gerber Van Doren, Léda; Posmanik, Roy; Bicalho, Felipe A; Tester, Jefferson W; Sills, Deborah L

    2017-02-01

    Thermochemical and biological processes represent promising technologies for converting wet biomasses, such as animal manure, organic waste, or algae, to energy. To convert biomass to energy and bio-chemicals in an economical manner, internal energy recovery should be maximized to reduce the use of external heat and power. In this study, two conversion pathways that couple hydrothermal liquefaction with anaerobic digestion or catalytic hydrothermal gasification were compared. Each of these platforms is followed by two alternative processes for gas utilization: 1) combined heat and power; and 2) combustion in a boiler. Pinch analysis was applied to integrate thermal streams among unit processes and improve the overall system efficiency. A techno-economic analysis was conducted to compare the feasibility of the four modeled scenarios under different market conditions. Our results show that a systems approach designed to recover internal heat and power can reduce external energy demands and increase the overall process sustainability. Copyright © 2016 Elsevier Ltd. All rights reserved.

  6. Open Markov processes: A compositional perspective on non-equilibrium steady states in biology

    CERN Document Server

    Pollard, Blake S

    2016-01-01

    In recent work, Baez, Fong and the author introduced a framework for describing Markov processes equipped with a detailed balanced equilibrium as open systems of a certain type. These `open Markov processes' serve as the building blocks for more complicated processes. In this paper, we describe the potential application of this framework in the modeling of biological systems as open systems maintained away from equilibrium. We show that non-equilibrium steady states emerge in open systems of this type, even when the rates of the underlying process are such that a detailed balanced equilibrium is permitted. It is shown that these non-equilibrium steady states minimize a quadratic form which we call `dissipation.' In some circumstances, the dissipation is approximately equal to the rate of change of relative entropy plus a correction term. On the other hand, Prigogine's principle of minimum entropy production generally fails for non-equilibrium steady states. We use a simple model of membrane transport to illus...

  7. Fungal Wound Infection

    Centers for Disease Control (CDC) Podcasts

    2016-01-28

    Dr. David Tribble, acting director of the infectious disease clinical research program at Uniformed Services University of the Health Sciences, discusses fungal wound infections after combat trauma.  Created: 1/28/2016 by National Center for Emerging and Zoonotic Infectious Diseases (NCEZID).   Date Released: 1/28/2016.

  8. Fungal pathogens of Proteaceae

    NARCIS (Netherlands)

    Crous, P.W.; Summerell, B.A.; Swart, L.; Denman, S.; Taylor, J.E.; Bezuidenhout, C.M.; Palm, M.E.; Marincowitz, S.; Groenewald, J.Z.

    2011-01-01

    Species of Leucadendron, Leucospermum and Protea (Proteaceae) are in high demand for the international floriculture market due to their brightly coloured and textured flowers or bracts. Fungal pathogens, however, create a serious problem in cultivating flawless blooms. The aim of the present study

  9. Fungal pathogens of Proteaceae

    NARCIS (Netherlands)

    Crous, P.W.; Summerell, B.A.; Swart, L.; Denman, S.; Taylor, J.E.; Bezuidenhout, C.M.; Palm, M.E.; Marincowitz, S.; Groenewald, J.Z.

    2012-01-01

    Species of Leucadendron, Leucospermum and Protea (Proteaceae) are in high demand for the international floriculture market due to their brightly coloured and textured flowers or bracts. Fungal pathogens, however, create a serious problem in cultivating flawless blooms. The aim of the present study

  10. Process of Argumentation in High School Biology Class: A Qualitative Analysis

    Science.gov (United States)

    Ramli, M.; Rakhmawati, E.; Hendarto, P.; Winarni

    2017-02-01

    Argumentation skill can be nurtured by designing a lesson in which students are provided with the opportunity to argue. This research aims to analyse argumentation process in biology class. The participants were students of three biology classes from different high schools in Surakarta Indonesia. One of the classroom was taught by a student teacher, and the rest were instructed by the assigned teachers. Through a classroom observation, oral activities were noted, audio-recorded and video-taped. Coding was done based on the existence of claiming-reasoning-evidence (CRE) process by McNeill and Krajcik. Data was analysed qualitatively focusing on the role of teachers to initiate questioning to support argumentation process. The lesson design of three were also analysed. The result shows that pedagogical skill of teachers to support argumentation process, such as skill to ask, answer, and respond to students’ question and statements need to be trained intensively. Most of the argumentation found were only claiming, without reasoning and evidence. Teachers have to change the routine of mostly posing open-ended questions to students, and giving directly a correct answer to students’ questions. Knowledge and skills to encourage student to follow inquiry-based learning have to be acquired by teachers.

  11. Removal of disinfection by-products formation potential by biologically intensified process

    Institute of Scientific and Technical Information of China (English)

    AN Dong; LI Wei-guang; CUI Fu-yi; HE Xin; ZHANG Jin-song

    2005-01-01

    The removal of disinfection by-products formation potential(DBPFP) in artificially intensified biological activated carbon(IBAC) process which is developed on the basis of traditional ozone granular activated carbon was evaluated. By IBAC removals of 31% and 68% for THMFP and HAAFP were obtained respectively. Under identical conditions, the removals of the same substances were 4% and 32% respectively only by the granular activated carbon(GAC) process. Compared with GAC, the high removal rates of the two formed potential substances were due to the increasing of bioactivity of the media and the synergistic capabilities of biological degradation cooperating with activated carbon adsorption of organic compounds. A clear linear correlation ( R2 = 0.9562 and R2 = 0.9007) between DOC HAAFP removal rate and Empty Bed Contact Time(EBCT) of IBAC process was observed, while that between THMFP removal rate and EBCT of GAC was R2 = 0.9782. In addition certain linear correlations between THMFP, HAAFP and UV254 ( R2 = 0.855 and R2 = 0.7702) were found for the treated water. For IBAC process there are also more advantages such as long backwashing cycle time, low backwashing intensity and prolonging activated carbon lifetime and so on.

  12. State of the art of biological processes for coal gasification wastewater treatment.

    Science.gov (United States)

    Zhao, Qian; Liu, Yu

    2016-01-01

    The treatment of coal gasification wastewater (CGW) poses a serious challenge on the sustainable development of the global coal industry. The CGW contains a broad spectrum of high-strength recalcitrant substances, including phenolic, monocyclic and polycyclic aromatic hydrocarbons, heterocyclic nitrogenous compounds and long chain aliphatic hydrocarbon. So far, biological treatment of CGW has been considered as an environment-friendly and cost-effective method compared to physiochemical approaches. Thus, this reviews aims to provide a comprehensive picture of state of the art of biological processes for treating CGW wastewater, while the possible biodegradation mechanisms of toxic and refractory organic substances were also elaborated together with microbial community involved. Discussion was further extended to advanced bioprocesses to tackle high-concentration ammonia and possible options towards in-plant zero liquid discharge.

  13. Perennial N2 supersaturation in an Antarctic lake. [biological processes in thin martian atmosphere

    Science.gov (United States)

    Wharton, Robert A., Jr.; Mckay, Christopher P.; Mancinelli, Rocco L.; Simmons, George M., Jr.

    1987-01-01

    The results of a study are reported which, for the first time, documents the supersaturation of N2 in a lake. Dissolved N2 levels of 145 percent and 163 percent were determined for Antarctica's Lake Hoare from samples taken just below the ice cover and at a depth of 12 m, respectively. The relative importance of biological and abiological sources is reflected in the ratio of N2 concentration to O2 concentration. In Lake Hoare this ratio was 1.20 at the ice/water interface and 1.05 at 12 m, considerably different from the ratio in equilibrium with air (about 1.8). Based on these results, it is determined that about half of the net O2 production in the lake is the result of biological processes. The significance of these results for the putative ice-covered paleolakes in the canyon regions of Mars is discussed.

  14. dNSP: a biologically inspired dynamic Neural network approach to Signal Processing.

    Science.gov (United States)

    Cano-Izquierdo, José Manuel; Ibarrola, Julio; Pinzolas, Miguel; Almonacid, Miguel

    2008-09-01

    The arriving order of data is one of the intrinsic properties of a signal. Therefore, techniques dealing with this temporal relation are required for identification and signal processing tasks. To perform a classification of the signal according with its temporal characteristics, it would be useful to find a feature vector in which the temporal attributes were embedded. The correlation and power density spectrum functions are suitable tools to manage this issue. These functions are usually defined with statistical formulation. On the other hand, in biology there can be found numerous processes in which signals are processed to give a feature vector; for example, the processing of sound by the auditory system. In this work, the dNSP (dynamic Neural Signal Processing) architecture is proposed. This architecture allows representing a time-varying signal by a spatial (thus statical) vector. Inspired by the aforementioned biological processes, the dNSP performs frequency decomposition using an analogical parallel algorithm carried out by simple processing units. The architecture has been developed under the paradigm of a multilayer neural network, where the different layers are composed by units whose activation functions have been extracted from the theory of Neural Dynamic [Grossberg, S. (1988). Nonlinear neural networks principles, mechanisms and architectures. Neural Networks, 1, 17-61]. A theoretical study of the behavior of the dynamic equations of the units and their relationship with some statistical functions allows establishing a parallelism between the unit activations and correlation and power density spectrum functions. To test the capabilities of the proposed approach, several testbeds have been employed, i.e. the frequencial study of mathematical functions. As a possible application of the architecture, a highly interesting problem in the field of automatic control is addressed: the recognition of a controlled DC motor operating state.

  15. Fueling the Future with Fungal Genomes

    Energy Technology Data Exchange (ETDEWEB)

    Grigoriev, Igor V.

    2014-10-27

    Genomes of fungi relevant to energy and environment are in focus of the JGI Fungal Genomic Program. One of its projects, the Genomics Encyclopedia of Fungi, targets fungi related to plant health (symbionts and pathogens) and biorefinery processes (cellulose degradation and sugar fermentation) by means of genome sequencing and analysis. New chapters of the Encyclopedia can be opened with user proposals to the JGI Community Science Program (CSP). Another JGI project, the 1000 fungal genomes, explores fungal diversity on genome level at scale and is open for users to nominate new species for sequencing. Over 400 fungal genomes have been sequenced by JGI to date and released through MycoCosm (www.jgi.doe.gov/fungi), a fungal web-portal, which integrates sequence and functional data with genome analysis tools for user community. Sequence analysis supported by functional genomics will lead to developing parts list for complex systems ranging from ecosystems of biofuel crops to biorefineries. Recent examples of such ‘parts’ suggested by comparative genomics and functional analysis in these areas are presented here.

  16. Fungal Genomics for Energy and Environment

    Energy Technology Data Exchange (ETDEWEB)

    Grigoriev, Igor V.

    2013-03-11

    Genomes of fungi relevant to energy and environment are in focus of the Fungal Genomic Program at the US Department of Energy Joint Genome Institute (JGI). One of its projects, the Genomics Encyclopedia of Fungi, targets fungi related to plant health (symbionts, pathogens, and biocontrol agents) and biorefinery processes (cellulose degradation, sugar fermentation, industrial hosts) by means of genome sequencing and analysis. New chapters of the Encyclopedia can be opened with user proposals to the JGI Community Sequencing Program (CSP). Another JGI project, the 1000 fungal genomes, explores fungal diversity on genome level at scale and is open for users to nominate new species for sequencing. Over 200 fungal genomes have been sequenced by JGI to date and released through MycoCosm (www.jgi.doe.gov/fungi), a fungal web-portal, which integrates sequence and functional data with genome analysis tools for user community. Sequence analysis supported by functional genomics leads to developing parts list for complex systems ranging from ecosystems of biofuel crops to biorefineries. Recent examples of such parts suggested by comparative genomics and functional analysis in these areas are presented here.

  17. 50-plus years of fungal viruses

    Energy Technology Data Exchange (ETDEWEB)

    Ghabrial, Said A., E-mail: saghab00@email.uky.edu [Plant Pathology Department, University of Kentucky, Lexington, KY (United States); Castón, José R. [Department of Structure of Macromolecules, Centro Nacional Biotecnologıa/CSIC, Campus de Cantoblanco, Madrid (Spain); Jiang, Daohong [State Key Lab of Agricultural Microbiology, Huazhong Agricultural University, Wuhan, Hubei Province (China); Nibert, Max L. [Department of Microbiology and Immunobiology, Harvard Medical School, Boston, MA (United States); Suzuki, Nobuhiro [Institute of Plant Science and Resources, Okayama University, Kurashiki, Okayama (Japan)

    2015-05-15

    Mycoviruses are widespread in all major taxa of fungi. They are transmitted intracellularly during cell division, sporogenesis, and/or cell-to-cell fusion (hyphal anastomosis), and thus their life cycles generally lack an extracellular phase. Their natural host ranges are limited to individuals within the same or closely related vegetative compatibility groups, although recent advances have established expanded experimental host ranges for some mycoviruses. Most known mycoviruses have dsRNA genomes packaged in isometric particles, but an increasing number of positive- or negative-strand ssRNA and ssDNA viruses have been isolated and characterized. Although many mycoviruses do not have marked effects on their hosts, those that reduce the virulence of their phytopathogenic fungal hosts are of considerable interest for development of novel biocontrol strategies. Mycoviruses that infect endophytic fungi and those that encode killer toxins are also of special interest. Structural analyses of mycoviruses have promoted better understanding of virus assembly, function, and evolution. - Highlights: • Historical perspective of fungal virus research. • Description, classification and diversity of fungal virus families. • Structural features of fungal virus particles. • Hypovirulence and exploitation of mycoviruses in biological control of plant pathogenic fungi.

  18. A composite microbial agent containing bacterial and fungal species: Optimization of the preparation process, analysis of characteristics, and use in the purification for volatile organic compounds.

    Science.gov (United States)

    Cheng, Zhuowei; Lu, Lichao; Kennes, Christian; Ye, Jiexu; Yu, Jianming; Chen, Dongzhi; Chen, Jianmeng

    2016-10-01

    Proper preservation of microbial activity over long periods poses a considerable challenge for pollutant biopurification. A composite microbial agent, mainly composed of bacteria and fungi isolated by the current research team, was constructed in this study and its performance in the removal of mixed waste gases (containing α-pinene, n-butyl acetate and o-xylene) was investigated. According to the removal efficiency in the first 24h and the response to starvation, the optimal ratio of selected carriers (activated carbon, wheat bran and sawdust) was found to be 1:2:1. In some cases of storages, the removal capability of the microbial agent was more than twice that of the suspension. Microbial analysis showed that the inoculated bacterial and fungal strains dominated the agent preparation and utilization. These results indicated that the agent has potential for use in biopurification of mixed waste gas, favoring the reduction of environmental passives and longer retention of microbial activity.

  19. Packaging conditions hindering fungal growth on cheese

    DEFF Research Database (Denmark)

    Nielsen, Per Væggemose; Haasum, Iben

    1997-01-01

    Fungal contamination is one of the most important quality deteriorating factors on cheese. During the last 5 years we have studied in detail the underlying factors controlling these unwanted processes in a collaborative project financed by the Danish Dairy Board and the Ministry of Agriculture...

  20. Demonstrating Compliance with Stringent Nitrogen Limits Using a Biological Nutrient Removal Process in California's Central Valley.

    Science.gov (United States)

    Merlo, Rion; Witzgall, Bob; Yu, William; Ohlinger, Kurt; Ramberg, Steve; De Las Casas, Carla; Henneman, Seppi; Parker, Denny

    2015-12-01

    The Sacramento Regional County Sanitation District (District) must be compliant with stringent nitrogen limits by 2021 that the existing treatment facilities cannot meet. An 11-month pilot study was conducted to confirm that these limits could be met with an air activated sludge biological nutrient removal (BNR) process. The pilot BNR treated an average flow of 946 m(3)/d and demonstrated that it could reliably meet the ammonia limit, but that external carbon addition may be necessary to satisfy the nitrate limit. The BNR process performed well throughout the 11 months of operation with good settleability, minimal nocardioform content, and high quality secondary effluent. The BNR process was operated at a minimum pH of 6.4 with no noticeable impact to nitrification rates. Increased secondary sludge production was observed during rainfall events and is attributed to a change in wastewater influent characteristics.

  1. The effect of electrostatic microencapsulation process on biological properties of tumour cells.

    Science.gov (United States)

    Li, Nan; Xu, Xiao-Xi; Sun, Guang-Wei; Guo, Xin; Liu, Yang; Wang, Shu-Jun; Zhang, Ying; Yu, Wei-Ting; Wang, Wei; Ma, Xiao-Jun

    2013-01-01

    Microencapsulation is one of the promising strategies to develop a three-dimensional in vivo tumour-mimic model in cancer research. Although previous studies have shown that tumour cells grow well during the microencapsulated culture, it is still not clear whether the electrostatic encapsulation process has an important effect on cellular characteristics. In this study, we investigated cellular response against non-physiological stress factors existing in the electrostatic microencapsulation process, such as the high-voltage electrostatic field, suspension and nutrition-free status. Our results showed that these non-physiological stress factors did not significantly induce cellular apoptosis, and did not affect cellular adhesion and viability. Furthermore, no change was found about invasion and drug resistance of the tumour cells. The normal endoplasmic reticulum function might play a role in maintaining biological properties during the electrostatic microencapsulation process.

  2. Intended process water management concept for the mechanical biological treatment of municipal solid waste

    Institute of Scientific and Technical Information of China (English)

    D. Weichgrebe; S. Maerker; T. Boning; H. Stegemann

    2008-01-01

    Accumulating operational experience in both aerobic and anaerobic mechanical biological waste treatment (MBT) makes it increasingly obvious that controlled water management would substantially reduce the cost of MBT and also enhance resource recovery of the organic and inorganic fraction. The MBT plant at Gescher, Germany, is used as an example in order to determine the quantity and composition of process water and leachates from intensive and subsequent rotting, pressing water from anaerobic digestion and scrubber water from acid exhaust air treatment, and hence prepare an MBT water balance. The potential of, requirements for and limits to internal process water reuse as well as the possibilities of resource recovery from scrubber water are also examined. Finally, an assimilated process water management concept with the purpose of an extensive reduction of wastewater quantity and freshwater demand is presented.

  3. Treatment of Slightly Polluted Wastewater in an Oil Refinery Using a Biological Aerated Filter Process

    Institute of Scientific and Technical Information of China (English)

    XIE Wenyu; ZHONG Li; CHEN Jianjun

    2007-01-01

    The slightly polluted wastewater from oil refinery contains some COD, oil pollutants and suspended solids (SS). A small-scale fixed film biological aerated filter (BAF) process was used to treat the wastewater. The influences of hydraulic retention time (HRT), air/water volume flow ratio and backwashing cycle on treatment efficiencies were investigated. The wastewater was treated by the BAF process under optimal conditions: the HRT of backwashing cycle of every 4-7 days. The results showed that the average removal efficiency of COD, oil pollutants and SS was 84.5%, 94.0% and 83.4%, respectively. And the average effluent concentration of COD, oil pollutants and SS was 12.5, 0.27, 14.5the BAF process is a suitable and highly efficient method to treat the wastewater.

  4. Removal of hydrogen sulfide from gas streams using biological processes : a review

    Energy Technology Data Exchange (ETDEWEB)

    Syed, M.; Soreanu, G.; Falletta, P.; Beland, M. [Environment Canada, Burlington, ON (Canada). Wastewater Technology Centre

    2006-07-01

    Hydrogen sulfide (H{sub 2}S) is produced by the anaerobic digestion of biosolids and other organic materials, and can be corrosive to internal combustion engines. This study investigated biological H{sub 2}S removal processes with the aim of overcoming the chemical and disposal costs associated with existing chemically-based removal processes. Current biological H{sub 2}S removal processes were reviewed, and research needs for potential process improvements were identified. Processes included photoautotrophs; chemotrophs; bioreactors for H{sub 2}S removal involving phototrophic bacteria; continuous-flow reactors; phototube reactors; gas-fed batch reactors; bioscrubbers; biofilters; and biotrickling filters. Results of the review suggested that the preferred treatment method for H{sub 2}S gas containing streams depended on the source of the gas. In the case of H{sub 2}S in biogas, anaerobic methods involving phototrophic bacteria provided the inherent advantage of maintaining the anaerobic nature of the gas. Cholorobium limicola was recommended as a desirable bacterium due to its growth using inorganic substrates, its efficiency at converting sulfide to elemental sulfur, and its extracellular production of elemental sulfur. Fixed-film reactors had the greatest potential for cost-effective sulfide conversion. It was noted that light supply is one of the key cost components in the process and poses a major constraint. It was concluded that future research should focus on the development and use of energy efficient LEDs and the proper use of sunlight and reflectors to minimize the electrical energy use. 73 refs., 5 tabs., 5 figs.

  5. Highly variable microsatellite markers for the fungal and algal symbionts of the lichen Lobaria pulmonaria and challenges in developing biont-specific molecular markers for fungal associations.

    Science.gov (United States)

    Widmer, Ivo; Dal Grande, Francesco; Cornejo, Carolina; Scheidegger, Christoph

    2010-07-01

    The availability of highly variable markers for the partners of a fungal symbiosis enables the integrated investigation of ecological and evolutionary processes at the symbiotic level. In this article we analyze the specificity of the first and to date only microsatellite markers that had been developed for an epiphytic lichen (Lobaria pulmonaria). We used DNA extracts from cultures of the fungal and of the green algal symbionts of L. pulmonaria as well as total DNA extracts from related Lobaria species associated with the same algal partner, and got evidence that five of the previously described microsatellite markers, proposed to be fungus-specific, are indeed alga-specific. Hence, highly variable microsatellite primer sets available for both, the algal and the fungal symbionts of L. pulmonaria are now at our hands, which allow us to investigate so far unexplored biological processes of lichen symbionts, such as codispersal and coevolution. In a broader sense, our work evaluates and discusses the challenges in developing biont-specific molecular markers for fungi forming close associations with other organisms.

  6. Potential biological hazard of importance for HACCP plans in fresh fish processing

    Directory of Open Access Journals (Sweden)

    Baltić Milan Ž.

    2009-01-01

    Full Text Available The Hazard Analysis and Critical Control Point (HACCP system is scientifically based and focused on problem prevention in order to assure the produced food products are safe to consume. Prerequisite programs such as GMP (Good Manufacturing Practices, GHP (Good Hygienic Practices are an essential foundation for the development and implementation of successful HACCP plans. One of the preliminary tasks in the development of HACCP plan is to conduct a hazard analysis. The process of conducting a hazard analysis involves two stages. The first is hazard identification and the second stage is the HACCP team decision which potential hazards must be addressed in the HACCP plan. By definition, the HACCP concept covers all types of potential food safety hazards: biological, chemical and physical, whether they are naturally occurring in the food, contributed by the environment or generated by a mistake in the manufacturing process. In raw fish processing, potential significant biological hazards which are reasonably likely to cause illness of humans are parasites (Trematodae, Nematodae, Cestodae, bacteria (Salmonella, E. coli, Vibrio parahemolyticus, Vibrio vulnificus, Listeria monocytogenes, Clostridium botulinum, Staphyloccocus aureus, viruses (Norwalk virus, Entero virusesi, Hepatitis A, Rotovirus and bio-toxins. Upon completion of hazard analysis, any measure(s that are used to control the hazard(s should be described.

  7. A coupled advanced oxidation-biological process for recycling industrial wastewater containing persistent organic contaminants (CADOX)

    Energy Technology Data Exchange (ETDEWEB)

    Malato, S.; Blanco, J.; Maldonado, M.I.; Alarcon, D.C.; Fernandez, P.; Oller, I.; Gernjak, W. [Platforma Solar de Almeria, CIEMAT (Spain)

    2004-07-01

    This article concentrates on coupled processes to treat seven highly water-soluble pesticides and three non-biodegradable chlorinated solvents. These are considered priority substances by the European Union and are thus the focus of some attention. The coupled processes include three oxidation processes: photocatalysis by titanium dioxide, photo-Fenton, and ozone; as well as biological degradation. The article reports on work in progress. The full project will include building two small prototypes embodying these technologies, the construction of a demonstration treatment plant based on the results obtained from the prototypes, conceptual design of a full size plant. New solar collectors were built to facilitate the photocatalysis and photo-Fenton. To date it has been determined that the photo-catalysis and photo-Fenton are suitable if the concentrations of the above contaminants is high enough. Ozone can enhance the treatment in the case of the pesticides, but not in the case of the non-biodegradable chlorinated solvents. Biotreatment is also not suitable for the solvents. The best biological system has been determined and the optimal recovery of catalyst has also been found. 5 refs., 2 tabs., 4 figs.

  8. Physicochemical and porosity characteristics of thermally regenerated activated carbon polluted with biological activated carbon process.

    Science.gov (United States)

    Dong, Lihua; Liu, Wenjun; Jiang, Renfu; Wang, Zhansheng

    2014-11-01

    The characteristics of thermally regenerated activated carbon (AC) polluted with biological activated carbon (BAC) process were investigated. The results showed that the true micropore and sub-micropore volume, pH value, bulk density, and hardness of regenerated AC decreased compared to the virgin AC, but the total pore volume increased. XPS analysis displayed that the ash contents of Al, Si, and Ca in the regenerated AC respectively increased by 3.83%, 2.62% and 1.8%. FTIR spectrum showed that the surface functional groups of virgin and regenerated AC did not change significantly. Pore size distributions indicated that the AC regeneration process resulted in the decrease of micropore and macropore (D>10 μm) volume and the increase of mesopore and macropore (0.1 μmbiological waste (spent AC) from BAC process.

  9. Combination of Advanced Oxidation Processes and biological treatments for wastewater decontamination-A review

    Energy Technology Data Exchange (ETDEWEB)

    Oller, I., E-mail: isabel.oller@psa.es [Plataforma Solar de Almeria (CIEMAT), Carretera Senes, Km 4. 04200 Tabernas (Almeria) (Spain); Malato, S. [Plataforma Solar de Almeria (CIEMAT), Carretera Senes, Km 4. 04200 Tabernas (Almeria) (Spain); Sanchez-Perez, J.A. [Department of Chemical Engineering, University of Almeria, Crta de Sacramento s/n, 04120 Almeria (Spain)

    2011-09-15

    Nowadays there is a continuously increasing worldwide concern for development of alternative water reuse technologies, mainly focused on agriculture and industry. In this context, Advanced Oxidation Processes (AOPs) are considered a highly competitive water treatment technology for the removal of those organic pollutants not treatable by conventional techniques due to their high chemical stability and/or low biodegradability. Although chemical oxidation for complete mineralization is usually expensive, its combination with a biological treatment is widely reported to reduce operating costs. This paper reviews recent research combining AOPs (as a pre-treatment or post-treatment stage) and bioremediation technologies for the decontamination of a wide range of synthetic and real industrial wastewater. Special emphasis is also placed on recent studies and large-scale combination schemes developed in Mediterranean countries for non-biodegradable wastewater treatment and reuse. The main conclusions arrived at from the overall assessment of the literature are that more work needs to be done on degradation kinetics and reactor modeling of the combined process, and also dynamics of the initial attack on primary contaminants and intermediate species generation. Furthermore, better economic models must be developed to estimate how the cost of this combined process varies with specific industrial wastewater characteristics, the overall decontamination efficiency and the relative cost of the AOP versus biological treatment.

  10. Current good manufacturing practice in plant automation of biological production processes.

    Science.gov (United States)

    Dorresteijn, R C; Wieten, G; van Santen, P T; Philippi, M C; de Gooijer, C D; Tramper, J; Beuvery, E C

    1997-01-01

    The production of biologicals is subject to strict governmental regulations. These are drawn up in current good manufacturing practices (cGMP), a.o. by the U.S. Food and Drug Administration. To implement cGMP in a production facility, plant automation becomes an essential tool. For this purpose Manufacturing Execution Systems (MES) have been developed that control all operations inside a production facility. The introduction of these recipe-driven control systems that follow ISA S88 standards for batch processes has made it possible to implement cGMP regulations in the control strategy of biological production processes. Next to this, an MES offers additional features such as stock management, planning and routing tools, process-dependent control, implementation of software sensors and predictive models, application of historical data and on-line statistical techniques for trend analysis and detection of instrumentation failures. This paper focuses on the development of new production strategies in which cGMP guidelines are an essential part.

  11. Coal cinder filtration as pretreatment with biological processes to treat pharmaceutical wastewater.

    Science.gov (United States)

    Zheng, Wei; Li, Xiao-ming; Hao, Zhi-ming; Wang, Dong-bo; Yang, Qi; Zeng, Guang-ming

    2010-01-01

    This study aims at coupling coal cinder filter with biological process to improve pharmaceutical wastewater quality and reduce the disposal cost. In the coal cinder filter, the removal efficiencies of COD, BOD(5), SS and color were 90+/-2%, 72+/-2%, 95+/-2% and 80+/-2%, respectively. The results attribute to the big specific surface area and strong adsorption ability. Coal cinder filter removes a large portion of the pollutants in the influent wastewater, which would strongly stable the effluent waste water quality, and reduce the load of follow-up biological treatment process. The average removal efficiencies for COD, BOD(5), SS and color of the combined process were about 99.7+/-3%, 98.2+/-4%, 98.5+/-3% and 96.3+/-2%, respectively, with the average effluent quality of COD 16+/-1 mg/L, BOD(5) 11+/-1 mg/L, SS 10+/-0.6 mg/L and color 22+/-1 (multiple), which are consistent with the national requirements of the waste pollutants for pharmaceutical industry of chinese traditional medicine discharge standard (GB 21906-2008). The results indicated that the combined procedure could offer an attractive solution for pharmaceutical wastewater treatment with considerable low cost.

  12. Computer-Based Support of Decision Making Processes during Biological Incidents

    Directory of Open Access Journals (Sweden)

    Karel Antos

    2010-04-01

    Full Text Available The paper describes contextual analysis of a general system that should provide a computerized support of decision making processes related to response operations in case of a biological incident. This analysis is focused on information systems and information resources perspective and their integration using appropriate tools and technology. In the contextual design the basic modules of BioDSS system are suggested and further elaborated. The modules deal with incident description, scenarios development and recommendation of appropriate countermeasures. Proposals for further research are also included.

  13. State Estimation for a Biological Phosphorus Removal Process using an Asymptotic Observer

    DEFF Research Database (Denmark)

    Larose, Claude Alain; Jørgensen, Sten Bay

    2001-01-01

    This study investigated the use of an asymptotic observer for state estimation in a continuous biological phosphorus removal process. The estimated states are the concentration of heterotrophic, autotrophic, and phosphorus accumulating organisms, polyphosphate, glycogen and PHA. The reaction scheme...... if the convergence, driven by the dilution rate, was slow (from 15 to 60 days). The propagation of the measurement noise and a bias in the estimation of glycogen and PHA could be the result of the high condition number of one of the matrices used in the algorithm of the asymptotic observer for the aerated tanks....

  14. Antibiotic abatement in different advanced oxidation processes coupled with a biological sequencing batch biofilm reactor

    Energy Technology Data Exchange (ETDEWEB)

    Esplugas, M.; Gonzalez, O.; Benito, J.; Sans, C.

    2009-07-01

    During the last decade, the lack of fresh water is becoming a major concern. Recently, the present of recalcitrant products such as pharmaceuticals has caused a special interest due to their undefined environmental impact. Among these antibiotics are one of the numerous recalcitrant pollutants present in surface waters that might not be completely removed in the biological stage of sewage treatment plants because of their antibacterial nature. Advanced Oxidation Processes (AOPs) have proved to be highly efficient for the degradation of most organic pollutants in wastewaters. (Author)

  15. Downstream process for production of a viable and stable Bacillus cereus aquaculture biological agent

    CSIR Research Space (South Africa)

    Lalloo, R

    2010-03-01

    Full Text Available reticulated 56aquaculture due to dwindling natural reserves, we devel- 57oped a novel downstream process for our Bacillus cereus 58(NRRL 100132) biological agent which resulted in a spore 59product suitable for aquaculture application, by minimising 60the...; Setlow and Setlow 1995). High 450recovery in drying could also be attributed to adhesion of B. Fig. 3 Viability of product intermediates a spore concentrate and b powder blend at different temperatures Appl Microbiol Biotechnol JrnlID 253_Art...

  16. Principles for integrating reactive species into in vivo biological processes: Examples from exercise physiology.

    Science.gov (United States)

    Margaritelis, Nikos V; Cobley, James N; Paschalis, Vassilis; Veskoukis, Aristidis S; Theodorou, Anastasios A; Kyparos, Antonios; Nikolaidis, Michalis G

    2016-04-01

    The equivocal role of reactive species and redox signaling in exercise responses and adaptations is an example clearly showing the inadequacy of current redox biology research to shed light on fundamental biological processes in vivo. Part of the answer probably relies on the extreme complexity of the in vivo redox biology and the limitations of the currently applied methodological and experimental tools. We propose six fundamental principles that should be considered in future studies to mechanistically link reactive species production to exercise responses or adaptations: 1) identify and quantify the reactive species, 2) determine the potential signaling properties of the reactive species, 3) detect the sources of reactive species, 4) locate the domain modified and verify the (ir)reversibility of post-translational modifications, 5) establish causality between redox and physiological measurements, 6) use selective and targeted antioxidants. Fulfilling these principles requires an idealized human experimental setting, which is certainly a utopia. Thus, researchers should choose to satisfy those principles, which, based on scientific evidence, are most critical for their specific research question.

  17. Biogeomorphology of tidal landforms: physical and biological processes shaping the tidal landscape

    Science.gov (United States)

    Marani, M.; D'Alpaos, A.; Da Lio, C.

    2011-12-01

    The equilibrium states and transient dynamics of tidal landforms are the result of many concurring physical and biological forcings, such as tidal range, wind climate, sediment supply, vegetation and microphytobenthos development, and rates of relative sea level rise (RSLR). A 0D model of the coupled elevation-vegetation dynamics is used to explore the relative role of the physical and biological factors shaping these systems. We find that salt marshes exposed to large tidal ranges are more stable, and therefore more resilient to increasing rates of RSLR, than marshes subjected to low tidal ranges and that subtidal platforms in macrotidal systems are less exposed to wind-induced erosion processes than their counterparts in systems with smaller tidal fluctuations. Notably, we find that vegetation crucially affects both the equilibrium marsh elevation, through dissipation of wind waves and organic accumulation, and marsh resilience to accelerations in RSLR rates, important differences being associated with different vegetation types. Furthermore, our results show that the existence and stability of equilibrium states fundamentally depend on the local wind and tidal regime, even within the same tidal system. Finally, we propose a modelling framework to study how biological evolution lead to the emergence of tidal landforms as we know them.

  18. Microbiology and atmospheric processes: biological, physical and chemical characterization of aerosol particles

    Science.gov (United States)

    Georgakopoulos, D. G.; Després, V.; Fröhlich-Nowoisky, J.; Psenner, R.; Ariya, P. A.; Pósfai, M.; Ahern, H. E.; Moffett, B. F.; Hill, T. C. J.

    2009-04-01

    The interest in bioaerosols has traditionally been linked to health hazards for humans, animals and plants. However, several components of bioaerosols exhibit physical properties of great significance for cloud processes, such as ice nucleation and cloud condensation. To gain a better understanding of their influence on climate, it is therefore important to determine the composition, concentration, seasonal fluctuation, regional diversity and evolution of bioaerosols. In this paper, we will review briefly the existing techniques for detection, quantification, physical and chemical analysis of biological particles, attempting to bridge physical, chemical and biological methods for analysis of biological particles and integrate them with aerosol sampling techniques. We will also explore some emerging spectroscopy techniques for bulk and single-particle analysis that have potential for in-situ physical and chemical analysis. Lastly, we will outline open questions and further desired capabilities (e.g., in-situ, sensitive, both broad and selective, on-line, time-resolved, rapid, versatile, cost-effective techniques) required prior to comprehensive understanding of chemical and physical characterization of bioaerosols.

  19. Microbiology and atmospheric processes: biological, physical and chemical characterization of aerosol particles

    Directory of Open Access Journals (Sweden)

    D. G. Georgakopoulos

    2008-04-01

    Full Text Available The interest in bioaerosols has traditionally been linked to health hazards for humans, animals and plants. However, several components of bioaerosols exhibit physical properties of great significance for cloud processes, such as ice nucleation and cloud condensation. To gain a better understanding of their influence on climate, it is therefore important to determine the composition, concentration, seasonal fluctuation, regional diversity and evolution of bioaerosols. In this paper, we will review briefly the existing techniques for detection, quantification, physical and chemical analysis of biological particles, attempting to bridge physical, chemical and biological methods for analysis of biological particles and integrate them with aerosol sampling techniques. We will also explore some emerging spectroscopy techniques for bulk and single-particle analysis that have potential for in-situ physical and chemical analysis. Lastly, we will outline open questions and further desired capabilities (e.g., in-situ, sensitive, both broad and selective, on-line, time-resolved, rapid, versatile, cost-effective techniques required prior to comprehensive understanding of chemical and physical characterization of bioaerosols.

  20. Microbiology and atmospheric processes: biological, physical and chemical characterization of aerosol particles

    Directory of Open Access Journals (Sweden)

    D. G. Georgakopoulos

    2009-04-01

    Full Text Available The interest in bioaerosols has traditionally been linked to health hazards for humans, animals and plants. However, several components of bioaerosols exhibit physical properties of great significance for cloud processes, such as ice nucleation and cloud condensation. To gain a better understanding of their influence on climate, it is therefore important to determine the composition, concentration, seasonal fluctuation, regional diversity and evolution of bioaerosols. In this paper, we will review briefly the existing techniques for detection, quantification, physical and chemical analysis of biological particles, attempting to bridge physical, chemical and biological methods for analysis of biological particles and integrate them with aerosol sampling techniques. We will also explore some emerging spectroscopy techniques for bulk and single-particle analysis that have potential for in-situ physical and chemical analysis. Lastly, we will outline open questions and further desired capabilities (e.g., in-situ, sensitive, both broad and selective, on-line, time-resolved, rapid, versatile, cost-effective techniques required prior to comprehensive understanding of chemical and physical characterization of bioaerosols.

  1. Nitrous oxide production from reactive nitrification intermediates: a concerted action of biological and chemical processes

    Science.gov (United States)

    Brüggemann, Nicolas; Heil, Jannis; Liu, Shurong; Wei, Jing; Vereecken, Harry

    2017-04-01

    This contribution tries to open up a new perspective on biogeochemical N2O production processes, taking the term bio-geo-chemistry literally. What if a major part of N2O is produced from reactive intermediates of microbiological N turnover processes ("bio…") leaking out of the involved microorganisms into the soil ("…geo…") and then reacting chemically ("…chemistry") with the surrounding matrix? There are at least two major reactive N intermediates that might play a significant role in these coupled biological-chemical reactions, i.e. hydroxylamine (NH2OH) and nitrite (NO2-), both of which are produced during nitrification under oxic conditions, while NO2- is also produced during denitrification under anoxic conditions. Furthermore, NH2OH is assumed to be also a potential intermediate of DNRA and/or anammox. First, this contribution will summarize information about several chemical reactions involving NH2OH and NO2- leading to the formation of N2O. These abiotic reactions are: reactions of NO2- with reduced metal cations, nitrosation reactions of NO2- and soil organic matter (SOM), the reaction between NO2- and NH2OH, and the oxidation of NH2OH by oxidized metal ions. While these reactions can occur over a broad range of soil characteristics, they are ignored in most current N trace gas studies in favor of biological processes only. Disentangling microbiological from purely chemical N2O production is further complicated by the fact that the chemically formed N2O is either undiscernible from N2O produced during nitrification, or shows an intermediate 15N site preference between that of N2O from nitrification and denitrification, respectively. Results from experiments with live and sterilized soil samples, with artificial soil mixtures and with phenolic lignin decomposition model compounds will be presented that demonstrate the potential contribution of these abiotic processes to soil N trace gas emissions, given a substantial leakage rate of these reactive

  2. Advances in wastewater nitrogen removal by biological processes: state of the art review

    Directory of Open Access Journals (Sweden)

    Andrea G. Capodaglio

    2016-04-01

    Full Text Available The paper summarizes the state-of-the-art of the most recent advances in biological nitrogen removal, including process design criteria and technological innovations. With reference to the Modified Ludzck Ettinger (MLE process (pre-denitrification and nitrification in the activated sludge process, the most common nitrogen removal process used nowadays, a new design equation for the denitrification reactor based on specific denitrification rate (SDNR has been proposed. In addition, factors influencing SDNR (DO in the anoxic reactor; hydrodynamic behavior are analyzed, and technological solutions are proposed. Concerning technological advances, the paper presents a summary of various “deammonification” processes, better known by their patent names like ANAMMOX®, DEMON®, CANON®, ANITA® and others. These processes have already found applications in the treatment of high-strength wastewater such as digested sludge liquor and landfill leachate. Among other emerging denitrification technologies, consideration is given to the Membrane Biofilm Reactors (MBfRs that can be operated both in oxidation and reduction mode.

  3. Research on rural sewage treatment using biological-ecological coupling process

    Directory of Open Access Journals (Sweden)

    Chang SHI

    2016-02-01

    Full Text Available Developing low-investment, low-energy consumption and low-maintenance sewage treatment process is important for sewage treatment in rural areas. An upflow anaerobic filter (UAF without energy consumption and a subsurface flow wetland (SFW are utilized as a biological-ecological coupling process to treat rural domestic sewage. The effect of the coupling process on treatment performance of domestic sewage under different hydraulic retention time (HRT is investigated. The removal of nitrogen and phosphorus in the SFW is improved by increasing plant density. The results show that the coupling process of UAF and SFW has no power consumption and is maintenance-free, suitable for rural sewage treatment; the removal of nitrogen and phosphorus mainly happens in the SFW phase; increasing the density of reed plants in the SFW can obviously enhance the capacity to remove nitrogen and phosphorus, and ensure that the efficient performance of the coupling process of UAF and SFW is stabilized in a high level. When the HRTs of UAF and SFW are 18 h and 3 d, respectively, the concentrations of COD, ammonia nitrogen, total nitrogen and total phosphorus in the final effluent treated by UAF and SFW process are 44.07, 4.25, 13.36 and 0.44 mg/L, respectively, meeting the requirement of first grade class A in Discharge Standard of Pollutants for Municipal Wastewater Treatment Plant (GB 18918-2002.

  4. Composting of the solid fraction of digestate derived from pig slurry: Biological processes and compost properties

    Energy Technology Data Exchange (ETDEWEB)

    Tambone, Fulvia, E-mail: fulvia.tambone@unimi.it; Terruzzi, Laura; Scaglia, Barbara; Adani, Fabrizio

    2015-01-15

    Highlights: • Anaerobic digestion leads to the production of a biologically stable digestate. • Solid–liquid separation produces a solid fraction having high fertilizer value. • Composting process shows low biological activity due to high biological stability of digestate. • Solid digestate fraction can be composted in a short time or used directly as organic fertilizer. - Abstract: The aim of this paper was to assess the characteristics of the solid fractions (SF) obtained by mechanical separation of digestate, their compostability and compost quality. To do so, the SF of digestates obtained from anaerobic digestion of pig slurry, energy crops and agro-industrial residues were sampled in five plants located in Northern Italy. Results obtained indicated that anaerobic digestion by itself promoted the high biological stability of biomasses with a Potential Dynamic Respiration Index (PDRI) close to 1000 mgO{sub 2} kg V S{sup −1} h{sup −1}. Subsequent composting of digestates, with an added bulking agent, did not give remarkably different results, and led only to a slight modification of the characteristics of the initial non-composted mixtures; the composts obtained fully respected the legal limits for high quality compost. Chemical studies of organic matter composition of the biomasses by using CP MAS {sup 13}C NMR, indicated that the compost was composed of a high relative content of O-alkyl-C (71.47% of total C) (cellulose and hemicelluloses) and a low alkyl-C (12.42%) (i.e. volatile fatty acids, steroid-like molecules, aliphatic biopolymers and proteins)

  5. Object-based attentional modulation of biological motion processing: spatiotemporal dynamics using functional magnetic resonance imaging and electroencephalography.

    Science.gov (United States)

    Safford, Ashley S; Hussey, Elizabeth A; Parasuraman, Raja; Thompson, James C

    2010-07-07

    Although it is well documented that the ability to perceive biological motion is mediated by the lateral temporal cortex, whether and when neural activity in this brain region is modulated by attention is unknown. In particular, it is unclear whether the processing of biological motion requires attention or whether such stimuli are processed preattentively. Here, we used functional magnetic resonance imaging, high-density electroencephalography, and cortically constrained source estimation methods to investigate the spatiotemporal effects of attention on the processing of biological motion. Directing attention to tool motion in overlapping movies of biological motion and tool motion suppressed the blood oxygenation level-dependent (BOLD) response of the right superior temporal sulcus (STS)/middle temporal gyrus (MTG), while directing attention to biological motion suppressed the BOLD response of the left inferior temporal sulcus (ITS)/MTG. Similarly, category-based modulation of the cortical current source density estimates from the right STS/MTG and left ITS was observed beginning at approximately 450 ms following stimulus onset. Our results indicate that the cortical processing of biological motion is strongly modulated by attention. These findings argue against preattentive processing of biological motion in the presence of stimuli that compete for attention. Our findings also suggest that the attention-based segregation of motion category-specific responses only emerges relatively late (several hundred milliseconds) in processing.

  6. Widespread occurrence of expressed fungal secretory peroxidases in forest soils.

    Science.gov (United States)

    Kellner, Harald; Luis, Patricia; Pecyna, Marek J; Barbi, Florian; Kapturska, Danuta; Krüger, Dirk; Zak, Donald R; Marmeisse, Roland; Vandenbol, Micheline; Hofrichter, Martin

    2014-01-01

    Fungal secretory peroxidases mediate fundamental ecological functions in the conversion and degradation of plant biomass. Many of these enzymes have strong oxidizing activities towards aromatic compounds and are involved in the degradation of plant cell wall (lignin) and humus. They comprise three major groups: class II peroxidases (including lignin peroxidase, manganese peroxidase, versatile peroxidase and generic peroxidase), dye-decolorizing peroxidases, and heme-thiolate peroxidases (e.g. unspecific/aromatic peroxygenase, chloroperoxidase). Here, we have repeatedly observed a widespread expression of all major peroxidase groups in leaf and needle litter across a range of forest ecosystems (e.g. Fagus, Picea, Acer, Quercus, and Populus spp.), which are widespread in Europe and North America. Manganese peroxidases and unspecific peroxygenases were found expressed in all nine investigated forest sites, and dye-decolorizing peroxidases were observed in five of the nine sites, thereby indicating biological significance of these enzymes for fungal physiology and ecosystem processes. Transcripts of selected secretory peroxidase genes were also analyzed in pure cultures of several litter-decomposing species and other fungi. Using this information, we were able to match, in environmental litter samples, two manganese peroxidase sequences to Mycena galopus and Mycena epipterygia and one unspecific peroxygenase transcript to Mycena galopus, suggesting an important role of this litter- and coarse woody debris-dwelling genus in the disintegration and transformation of litter aromatics and organic matter formation.

  7. [Clinically documented fungal infections].

    Science.gov (United States)

    Kakeya, Hiroshi; Kohno, Shigeru

    2008-12-01

    Proven fungal infections are diagnosed by histological/microbiological evidence of fungi at the site of infection and positive blood culture (fungemia). However, invasive diagnosing examinations are not always applied for all of immunocompromised patients. Clinically documented invasive fungal infections are diagnosed by typical radiological findings such as halo sign on chest CT plus positive serological/molecular evidence of fungi. Serological tests of Aspergillus galactomannan antigen and beta-glucan for aspergillosis and cryptococcal glucuronoxylomannan antigen for cryptococcosis are useful. Hence, none of reliable serological tests for zygomycosis are available so far. In this article, risk factors, sign and symptoms, and diagnostic methods for clinically documented cases of invasive aspergillosis, pulmonary cryptococcosis, and zygomycosis with diabates, are reviewed.

  8. Hydrogen peroxide acts on sensitive mitochondrial proteins to induce death of a fungal pathogen revealed by proteomic analysis.

    Directory of Open Access Journals (Sweden)

    Guozheng Qin

    Full Text Available How the host cells of plants and animals protect themselves against fungal invasion is a biologically interesting and economically important problem. Here we investigate the mechanistic process that leads to death of Penicillium expansum, a widespread phytopathogenic fungus, by identifying the cellular compounds affected by hydrogen peroxide (H(2O(2 that is frequently produced as a response of the host cells. We show that plasma membrane damage was not the main reason for H(2O(2-induced death of the fungal pathogen. Proteomic analysis of the changes of total cellular proteins in P. expansum showed that a large proportion of the differentially expressed proteins appeared to be of mitochondrial origin, implying that mitochondria may be involved in this process. We then performed mitochondrial sub-proteomic analysis to seek the H(2O(2-sensitive proteins in P. expansum. A set of mitochondrial proteins were identified, including respiratory chain complexes I and III, F(1F(0 ATP synthase, and mitochondrial phosphate carrier protein. The functions of several proteins were further investigated to determine their effects on the H(2O(2-induced fungal death. Through fluorescent co-localization and the use of specific inhibitor, we provide evidence that complex III of the mitochondrial respiratory chain contributes to ROS generation in fungal mitochondria under H(2O(2 stress. The undesirable accumulation of ROS caused oxidative damage of mitochondrial proteins and led to the collapse of mitochondrial membrane potential. Meanwhile, we demonstrate that ATP synthase is involved in the response of fungal pathogen to oxidative stress, because inhibition of ATP synthase by oligomycin decreases survival. Our data suggest that mitochondrial impairment due to functional alteration of oxidative stress-sensitive proteins is associated with fungal death caused by H(2O(2.

  9. Advanced treatment of biologically pretreated coal gasification wastewater by a novel heterogeneous Fenton oxidation process.

    Science.gov (United States)

    Zhuang, Haifeng; Han, Hongjun; Ma, Wencheng; Hou, Baolin; Jia, Shengyong; Zhao, Qian

    2015-07-01

    Sewage sludge from a biological wastewater treatment plant was converted into sewage sludge based activated carbon (SBAC) with ZnCl2 as activation agent, which was used as a support for ferric oxides to form a catalyst (FeOx/SBAC) by a simple impregnation method. The new material was then used to improve the performance of Fenton oxidation of real biologically pretreated coal gasification wastewater (CGW). The results indicated that the prepared FeOx/SBAC significantly enhanced the pollutant removal performance in the Fenton process, so that the treated wastewater was more biodegradable and less toxic. The best performance was obtained over a wide pH range from 2 to 7, temperature 30°C, 15 mg/L of H2O2 and 1g/L of catalyst, and the treated effluent concentrations of COD, total phenols, BOD5 and TOC all met the discharge limits in China. Meanwhile, on the basis of significant inhibition by a radical scavenger in the heterogeneous Fenton process as well as the evolution of FT-IR spectra of pollutant-saturated FeOx/BAC with and without H2O2, it was deduced that the catalytic activity was responsible for generating hydroxyl radicals, and a possible reaction pathway and interface mechanism were proposed. Moreover, FeOx/SBAC showed superior stability over five successive oxidation runs. Thus, heterogeneous Fenton oxidation of biologically pretreated CGW by FeOx/SBAC, with the advantages of being economical, efficient and sustainable, holds promise for engineering application.

  10. An observation on sludge granulation in an enhanced biological phosphorus removal process.

    Science.gov (United States)

    Ong, Ying Hui; Chua, Adeline Seak May; Lee, Boon Pin; Ngoh, Gek Cheng; Hashim, Mohd Ali

    2012-01-01

    A sequencing batch reactor (SBR) seeded with flocculated sludge and fed with synthetic wastewater was operated for an enhanced biological phosphorus removal (EBPR) process. Eight weeks after reactor startup, sludge granules were observed. The granules had a diameter of 0.5 to 3.0 mm and were brownish in color and spherical or ellipsoidal in shape. No significant change was observed in sludge granule size when operational pH was changed from 7 to 8. The 208-day continuous operation of the SBR showed that sludge granules were stably maintained with a sludge volume index (SVI) between 30 to 55 mL/g while securing a removal efficiency of 83% for carbon and 97% for phosphorus. Fluorescent in situ hybridization (FISH) confirmed the enrichment of polyphosphate accumulating organisms (PAOs) in the SBR. The observations of sludge granulation in this study encourage further studies in the development of granules-based EBPR process.

  11. Employment of the covariance matrix in parameter estimation for stochastic processes in cell biology

    Science.gov (United States)

    Preuss, R.; Dieterich, P.

    2013-08-01

    The dynamics of movements of biological cells can be described with models from correlated stochastic processes. In order to overcome problems from correlated and insufficient data in the determination of the model parameters of such processes we employ the covariance matrix of the data. Since the covariance suffers itself from statistical uncertainty it is corrected by a renormalization treatment [1]. For the example of normal and fractional Brownian motion, which allows both to access all quantities on full theoretical grounds and to generate data similar to experiment, we discuss our results and those of previous works by Gregory [2] and Sivia [3]. The presented approach has the potential to estimate the aging correlation function of observed cell paths and can be applied to more complicated models.

  12. Signal processing for molecular and cellular biological physics: an emerging field

    Science.gov (United States)

    Little, Max A.; Jones, Nick S.

    2013-01-01

    Recent advances in our ability to watch the molecular and cellular processes of life in action—such as atomic force microscopy, optical tweezers and Forster fluorescence resonance energy transfer—raise challenges for digital signal processing (DSP) of the resulting experimental data. This article explores the unique properties of such biophysical time series that set them apart from other signals, such as the prevalence of abrupt jumps and steps, multi-modal distributions and autocorrelated noise. It exposes the problems with classical linear DSP algorithms applied to this kind of data, and describes new nonlinear and non-Gaussian algorithms that are able to extract information that is of direct relevance to biological physicists. It is argued that these new methods applied in this context typify the nascent field of biophysical DSP. Practical experimental examples are supplied. PMID:23277603

  13. Biological processes in the water column of the South Atlantic Bight: Zooplankton responses. Final report

    Energy Technology Data Exchange (ETDEWEB)

    Paffenhofer, G.A.

    1992-09-25

    This study sought to determine and understand the major processes governing the abundance, distribution, composition and eventual fate of zooplankton on the southeastern shelf of the US in relation to water circulation. Over much of the shelf circulation is dominated by the Gulf Stream and/or atmospheric forcing. Most of our studies concentrated on processes on the middle and outer shelf. On the latter, pronounced biological production occurs year-round at frequent intervals and is due to Gulf Stream eddies which move by at an average frequency of one every week. These eddies are rich in nutrients which, when upwelled into the euphoric zone, lead to pronounced primary production which then triggers zooplankton production.

  14. Biological processes in the water column of the South Atlantic Bight: Zooplankton responses

    Energy Technology Data Exchange (ETDEWEB)

    Paffenhofer, G.A.

    1992-09-25

    This study sought to determine and understand the major processes governing the abundance, distribution, composition and eventual fate of zooplankton on the southeastern shelf of the US in relation to water circulation. Over much of the shelf circulation is dominated by the Gulf Stream and/or atmospheric forcing. Most of our studies concentrated on processes on the middle and outer shelf. On the latter, pronounced biological production occurs year-round at frequent intervals and is due to Gulf Stream eddies which move by at an average frequency of one every week. These eddies are rich in nutrients which, when upwelled into the euphoric zone, lead to pronounced primary production which then triggers zooplankton production.

  15. Connecting marine productivity to sea-spray via nanoscale biological processes: Phytoplankton Dance or Death Disco?

    Science.gov (United States)

    O'Dowd, Colin; Ceburnis, Darius; Ovadnevaite, Jurgita; Bialek, Jakub; Stengel, Dagmar B.; Zacharias, Merry; Nitschke, Udo; Connan, Solene; Rinaldi, Matteo; Fuzzi, Sandro; Decesari, Stefano; Cristina Facchini, Maria; Marullo, Salvatore; Santoleri, Rosalia; Dell'Anno, Antonio; Corinaldesi, Cinzia; Tangherlini, Michael; Danovaro, Roberto

    2015-10-01

    Bursting bubbles at the ocean-surface produce airborne salt-water spray-droplets, in turn, forming climate-cooling marine haze and cloud layers. The reflectance and ultimate cooling effect of these layers is determined by the spray’s water-uptake properties that are modified through entrainment of ocean-surface organic matter (OM) into the airborne droplets. We present new results illustrating a clear dependence of OM mass-fraction enrichment in sea spray (OMss) on both phytoplankton-biomass, determined from Chlorophyll-a (Chl-a) and Net Primary Productivity (NPP). The correlation coefficient for OMss as a function of Chl-a increased form 0.67 on a daily timescale to 0.85 on a monthly timescale. An even stronger correlation was found as a function of NPP, increasing to 0.93 on a monthly timescale. We suggest the observed dependence is through the demise of the bloom, driven by nanoscale biological processes (such as viral infections), releasing large quantities of transferable OM comprising cell debris, exudates and other colloidal materials. This OM, through aggregation processes, leads to enrichment in sea-spray, thus demonstrating an important coupling between biologically-driven plankton bloom termination, marine productivity and sea-spray modification with potentially significant climate impacts.

  16. An Indexed, Mapped Mutant Library Enables Reverse Genetics Studies of Biological Processes in Chlamydomonas reinhardtii.

    Science.gov (United States)

    Li, Xiaobo; Zhang, Ru; Patena, Weronika; Gang, Spencer S; Blum, Sean R; Ivanova, Nina; Yue, Rebecca; Robertson, Jacob M; Lefebvre, Paul A; Fitz-Gibbon, Sorel T; Grossman, Arthur R; Jonikas, Martin C

    2016-02-01

    The green alga Chlamydomonas reinhardtii is a leading unicellular model for dissecting biological processes in photosynthetic eukaryotes. However, its usefulness has been limited by difficulties in obtaining mutants in specific genes of interest. To allow generation of large numbers of mapped mutants, we developed high-throughput methods that (1) enable easy maintenance of tens of thousands of Chlamydomonas strains by propagation on agar media and by cryogenic storage, (2) identify mutagenic insertion sites and physical coordinates in these collections, and (3) validate the insertion sites in pools of mutants by obtaining >500 bp of flanking genomic sequences. We used these approaches to construct a stably maintained library of 1935 mapped mutants, representing disruptions in 1562 genes. We further characterized randomly selected mutants and found that 33 out of 44 insertion sites (75%) could be confirmed by PCR, and 17 out of 23 mutants (74%) contained a single insertion. To demonstrate the power of this library for elucidating biological processes, we analyzed the lipid content of mutants disrupted in genes encoding proteins of the algal lipid droplet proteome. This study revealed a central role of the long-chain acyl-CoA synthetase LCS2 in the production of triacylglycerol from de novo-synthesized fatty acids.

  17. Network-based analysis of affected biological processes in type 2 diabetes models.

    Directory of Open Access Journals (Sweden)

    Manway Liu

    2007-06-01

    Full Text Available Type 2 diabetes mellitus is a complex disorder associated with multiple genetic, epigenetic, developmental, and environmental factors. Animal models of type 2 diabetes differ based on diet, drug treatment, and gene knockouts, and yet all display the clinical hallmarks of hyperglycemia and insulin resistance in peripheral tissue. The recent advances in gene-expression microarray technologies present an unprecedented opportunity to study type 2 diabetes mellitus at a genome-wide scale and across different models. To date, a key challenge has been to identify the biological processes or signaling pathways that play significant roles in the disorder. Here, using a network-based analysis methodology, we identified two sets of genes, associated with insulin signaling and a network of nuclear receptors, which are recurrent in a statistically significant number of diabetes and insulin resistance models and transcriptionally altered across diverse tissue types. We additionally identified a network of protein-protein interactions between members from the two gene sets that may facilitate signaling between them. Taken together, the results illustrate the benefits of integrating high-throughput microarray studies, together with protein-protein interaction networks, in elucidating the underlying biological processes associated with a complex disorder.

  18. CHANGES IN THE MICROBIAL COMPOSITION OF MUNICIPAL WASTEWATER TREATED IN BIOLOGICAL PROCESSES

    Directory of Open Access Journals (Sweden)

    Aleksandra Jolanta Bawiec

    2016-07-01

    Full Text Available Municipal wastewater is characterized by diverse microbial content, largely dependent on their sources as well as many other factors like condition and health of their producer, but also environmental factors. The number and share of individual bacterial population in wastewater is changing during the process of their treatment in wastewater treatment plants. The microbial content of treated wastewater is significantly affected by the type of technology used for wastewater treatment. The paper presents the results of the species composition of bacteria present in the wastewater at various stages of treatment for the two different technologies. Samples of wastewater from hydroponic wastewater treatment plant and from the plant which technology is based on biofilters were analysed. A key mechanism for wastewater treatment in both cases is biological treatment, using microbial activity that decomposes pollutants in the wastewater, which significantly contributes to changes in the species composition of bacteria comparing to microbiological composition of sewage flowing into the treatment plant. Analyses of microbial composition showed that in the objects consisting of preliminary tank and biofilter, composition of bacteria species is changing, but many species isolated from raw sewage is also found in treated wastewater. In the plant with hydroponic lagoon after wastewater treatment throughout the process system, bacteria present in raw sewage or in wastewater after biological treatment were not identified in the outlet.

  19. A single-stage biological process for municipal sewage treatment in tourist areas.

    Science.gov (United States)

    Di Iaconi, C; De Sanctis, M; Lopez, A

    2014-11-01

    This pilot scale study aims to test the effectiveness of an innovative compact biological system (SBBGR - Sequencing Batch Biofilter Granular Reactor) for treating municipal wastewater in tourist areas characterised by intense seasonal water demand and wastewater discharge. The results obtained after a long term operation of 463 days have shown that the proposed system is able to assure average removal efficiencies higher than 90% for COD (chemical oxygen demand), total suspended solids and TKN (total Kjeldahl nitrogen) independently of the influent concentration values and organic loading, which ranged from 0.2 to 5.1 kgCOD/m(3)biofilter.d Furthermore, the plant showed a high degree of operation flexibility and stability in response to the organic load variations occurring in tourist areas. In fact, no significant deterioration in the plant's effluent quality was observed even during a sudden several-fold increase in organic loading. High nitrogen removal efficiencies (80%, on average) were also achieved thanks to the establishment of simultaneous nitrification-denitrification process favoured by the plant's high biomass concentration and operating conditions. Finally, the system was characterized by an excess sludge production much lower (60-80% lower) than that of conventional biological systems operating without a primary clarifier. An acceptable level of stabilization of excess sludge was also obtained so that a further stabilization process was no longer required.

  20. Fungal infections in burns: Diagnosis and management

    Directory of Open Access Journals (Sweden)

    Capoor Malini

    2010-10-01

    Full Text Available Burn wound infection (BWI is a major public health problem and the most devastating form of trauma worldwide. Fungi cause BWI as part of monomicrobial or polymicrobial infection, fungaemia, rare aggressive soft tissue infection and as opportunistic infections. The risk factors for acquiring fungal infection in burns include age of burns, total burn size, body surface area (BSA (30-60%, full thickness burns, inhalational injury, prolonged hospital stay, late surgical excision, open dressing, artificial dermis, central venous catheters, antibiotics, steroid treatment, long-term artificial ventilation, fungal wound colonisation (FWC, hyperglycaemic episodes and other immunosuppressive disorders. Most of the fungal infections are missed owing to lack of clinical awareness and similar presentation as bacterial infection coupled with paucity of mycology laboratories. Expedient diagnosis and treatment of these mycoses can be life-saving as the mortality is otherwise very high. Emergence of resistance in non-albicans Candida spp., unusual yeasts and moulds in fungal BWI, leaves very few fungi susceptible to antifungal drugs, leaving many patients susceptible. There is a need to speciate fungi as far as the topical and systemic antifungal is concerned. Deep tissue biopsy and other relevant samples are processed by standard mycological procedures using direct microscopy, culture and histopathological examination. Patients with FWC should be treated by aggressive surgical debridement and, in the case of fungal wound infection (FWI, in addition to surgical debridement, an intravenous antifungal drug, most commonly amphotericin B or caspofungin, is prescribed followed by de-escalating with voriconazole or itraconazole, or fluconazole depending upon the species or antifungal susceptibility, if available. The propensity for fungal infection increases, the longer the wound is present. Therefore, the development of products to close the wound more rapidly

  1. Fungal polyketide azaphilone pigments as future natural food colorants?

    Science.gov (United States)

    Mapari, Sameer A S; Thrane, Ulf; Meyer, Anne S

    2010-06-01

    The recent approval of fungal carotenoids as food colorants by the European Union has strengthened the prospects for fungal cell factories for the production of polyketide pigments. Fungal production of colorants has the main advantage of making the manufacturer independent of the seasonal supply of raw materials, thus minimizing batch-to-batch variations. Here, we review the potential of polyketide pigments produced from chemotaxonomically selected non-toxigenic fungal strains (e.g. Penicillium and Epicoccum spp.) to serve as food colorants. We argue that the production of polyketide azaphilone pigments from such potentially safe hosts is advantageous over traditional processes that involve Monascus spp., which risks co-production of the mycotoxin citrinin. Thus, there is tremendous potential for the development of robust fungal production systems for polyketide pigments, both to tailor functionality and to expand the color palette of contemporary natural food colorants.

  2. The role of the cell wall in fungal pathogenesis.

    Science.gov (United States)

    Arana, David M; Prieto, Daniel; Román, Elvira; Nombela, César; Alonso-Monge, Rebeca; Pla, Jesús

    2009-05-01

    Fungal infections are a serious health problem. In recent years, basic research is focusing on the identification of fungal virulence factors as promising targets for the development of novel antifungals. The wall, as the most external cellular component, plays a crucial role in the interaction with host cells mediating processes such as adhesion or phagocytosis that are essential during infection. Specific components of the cell wall (called PAMPs) interact with specific receptors in the immune cell (called PRRs), triggering responses whose molecular mechanisms are being elucidated. We review here the main structural carbohydrate components of the fungal wall (glucan, mannan and chitin), how their biogenesis takes place in fungi and the specific receptors that they interact with. Different model fungal pathogens are chosen to illustrate the functional consequences of this interaction. Finally, the identification of the key components will have important consequences in the future and will allow better approaches to treat fungal infections.

  3. Nail Histomycology, Onychochromobiology, and Fungal Thigmatropism

    Directory of Open Access Journals (Sweden)

    Gérald E. Piérard

    2016-09-01

    Full Text Available Background: Thigmotropism is a biologic feature coping with the directional growth of cells following topographical guidance cues. This mechanism is involved in the invasive phase of pathogen and opportunistic fungi. It was shown experimentally with fungal hyphae of both dermatophytes and nondermatophyte molds, as well as with the mycelial phase of the dimorphic yeast Candida albicans. Objective: To revisit histomycology in onychomycoses of a diversity of fungal origins. Method: Histopathological section of nails plates were oriented parallel to the nail direction of growth. Result: Thigmotropism in part explains the patterns of orientations and shapes of fungi invading nail plates. It is probably influenced by onychochronobiology (speed of growth of the affected nails, and it governs various clinical presentations of onychomycoses.

  4. Remediation of a winery wastewater combining aerobic biological oxidation and electrochemical advanced oxidation processes.

    Science.gov (United States)

    Moreira, Francisca C; Boaventura, Rui A R; Brillas, Enric; Vilar, Vítor J P

    2015-05-15

    Apart from a high biodegradable fraction consisting of organic acids, sugars and alcohols, winery wastewaters exhibit a recalcitrant fraction containing high-molecular-weight compounds as polyphenols, tannins and lignins. In this context, a winery wastewater was firstly subjected to a biological oxidation to mineralize the biodegradable fraction and afterwards an electrochemical advanced oxidation process (EAOP) was applied in order to mineralize the refractory molecules or transform them into simpler ones that can be further biodegraded. The biological oxidation led to above 97% removals of dissolved organic carbon (DOC), chemical oxygen demand (COD) and 5-day biochemical oxygen demand (BOD5), but was inefficient on the degradation of a bioresistant fraction corresponding to 130 mg L(-1) of DOC, 380 mg O2 L(-1) of COD and 8.2 mg caffeic acid equivalent L(-1) of total dissolved polyphenols. Various EAOPs such as anodic oxidation with electrogenerated H2O2 (AO-H2O2), electro-Fenton (EF), UVA photoelectro-Fenton (PEF) and solar PEF (SPEF) were then applied to the recalcitrant effluent fraction using a 2.2 L lab-scale flow plant containing an electrochemical cell equipped with a boron-doped diamond (BDD) anode and a carbon-PTFE air-diffusion cathode and coupled to a photoreactor with compound parabolic collectors (CPCs). The influence of initial Fe(2+) concentration and current density on the PEF process was evaluated. The relative oxidative ability of EAOPs increased in the order AO-H2O2 process using an initial Fe(2+) concentration of 35 mg L(-1), current density of 25 mA cm(-2), pH of 2.8 and 25 °C reached removals of 86% on DOC and 68% on COD after 240 min, regarding the biologically treated effluent, along with energy consumptions of 45 kWh (kg DOC)(-1) and 5.1 kWh m(-3). After this coupled treatment, color, odor, COD, BOD5, NH4(+), NO3(-) and SO4(2-) parameters complied with the legislation targets and, in addition, a total dissolved polyphenols content of 0

  5. A biotechnology perspective of fungal proteases

    Directory of Open Access Journals (Sweden)

    Paula Monteiro de Souza

    2015-06-01

    Full Text Available Proteases hydrolyze the peptide bonds of proteins into peptides and amino acids, being found in all living organisms, and are essential for cell growth and differentiation. Proteolytic enzymes have potential application in a wide number of industrial processes such as food, laundry detergent and pharmaceutical. Proteases from microbial sources have dominated applications in industrial sectors. Fungal proteases are used for hydrolyzing protein and other components of soy beans and wheat in soy sauce production. Proteases can be produced in large quantities in a short time by established methods of fermentation. The parameters such as variation in C/N ratio, presence of some sugars, besides several other physical factors are important in the development of fermentation process. Proteases of fungal origin can be produced cost effectively, have an advantage faster production, the ease with which the enzymes can be modified and mycelium can be easily removed by filtration. The production of proteases has been carried out using submerged fermentation, but conditions in solid state fermentation lead to several potential advantages for the production of fungal enzymes. This review focuses on the production of fungal proteases, their distribution, structural-functional aspects, physical and chemical parameters, and the use of these enzymes in industrial applications.

  6. Open water processes of the San Francisco Estuary: From physical forcing to biological responses

    Directory of Open Access Journals (Sweden)

    Wim Kimmerer

    2004-02-01

    Full Text Available This paper reviews the current state of knowledge of the open waters of the San Francisco Estuary. This estuary is well known for the extent to which it has been altered through loss of wetlands, changes in hydrography, and the introduction of chemical and biological contaminants. It is also one of the most studied estuaries in the world, with much of the recent research effort aimed at supporting restoration efforts. In this review I emphasize the conceptual foundations for our current understanding of estuarine dynamics, particularly those aspects relevant to restoration. Several themes run throughout this paper. First is the critical role physical dynamics play in setting the stage for chemical and biological responses. Physical forcing by the tides and by variation in freshwater input combine to control the movement of the salinity field, and to establish stratification, mixing, and dilution patterns throughout the estuary. Many aspects of estuarine dynamics respond to interannual variation in freshwater flow; in particular, abundance of several estuarine-dependent species of fish and shrimp varies positively with flow, although the mechanisms behind these relationships are largely unknown. The second theme is the importance of time scales in determining the degree of interaction between dynamic processes. Physical effects tend to dominate when they operate at shorter time scales than biological processes; when the two time scales are similar, important interactions can arise between physical and biological variability. These interactions can be seen, for example, in the response of phytoplankton blooms, with characteristic time scales of days, to stratification events occurring during neap tides. The third theme is the key role of introduced species in all estuarine habitats; particularly noteworthy are introduced waterweeds and fishes in the tidal freshwater reaches of the estuary, and introduced clams there and in brackish water. The

  7. Inhibition of Fungal Aflatoxin B1 Biosynthesis by Diverse Botanically ...

    African Journals Online (AJOL)

    effects on A. flavus growth and AFB1 production. Fungal spores were cultured ... Keywords: Polyphenols, Quercetin, Aflatoxin B1, Inhibition, Antioxidation. Tropical Journal of ..... agents used in animal feed or food processing areas. However,.

  8. RNASeq analysis reveals biological processes governing the clinical behaviour of endometrioid and serous endometrial cancers.

    Science.gov (United States)

    Lemetre, Christophe; Vieites, Begoña; Ng, Charlotte K Y; Piscuoglio, Salvatore; Schultheis, Anne M; Marchiò, Caterina; Murali, Rajmohan; Lopez-García, Maria A; Palacios, Jose C; Jungbluth, Achim A; Terracciano, Luigi M; Reis-Filho, Jorge S; Weigelt, Britta

    2016-09-01

    Endometrial carcinoma comprises a group of tumours with distinct histologic and molecular features and clinical behaviour. Here, we sought to define the biological processes that govern the clinical behaviour of endometrial cancers. Sixteen prototype genes representative of different biological processes that would likely play a role in endometrial and other hormone-driven cancers were defined. RNA-sequencing gene expression data from 323 endometrial cancers from The Cancer Genome Atlas (TCGA) were used to determine the transcription module of each prototype gene. The expression of prototype genes and modules and their association with outcome was assessed in univariate and multivariate survival analyses. The association of MSH6 expression with outcome was validated in an independent cohort of 243 primary endometrial cancers using immunohistochemistry. We observed that the clinical behaviour of endometrial cancers as a group was associated with hormone receptor signalling, PI3K pathway signalling and DNA mismatch repair processes. When analysed separately, in endometrioid carcinomas, hormone receptor, PI3K and DNA mismatch repair modules were significantly associated with outcome in univariate analysis, whereas the clinical behaviour of serous cancers was likely governed by apoptosis and Wnt signalling. Multivariate survival analysis revealed that MSH6 gene expression was associated with outcome of endometrial cancer patients independently from traditional prognostic clinicopathologic parameters, which was confirmed in an independent cohort at the protein level. Endometrioid and serous endometrial cancers are underpinned by distinct molecular pathways. MSH6 expression levels may be associated with outcome in endometrial cancers as a group. Copyright © 2016 Elsevier Ltd. All rights reserved.

  9. A cell-free expression and purification process for rapid production of protein biologics.

    Science.gov (United States)

    Sullivan, Challise J; Pendleton, Erik D; Sasmor, Henri H; Hicks, William L; Farnum, John B; Muto, Machiko; Amendt, Eric M; Schoborg, Jennifer A; Martin, Rey W; Clark, Lauren G; Anderson, Mark J; Choudhury, Alaksh; Fior, Raffaella; Lo, Yu-Hwa; Griffey, Richard H; Chappell, Stephen A; Jewett, Michael C; Mauro, Vincent P; Dresios, John

    2016-02-01

    Cell-free protein synthesis has emerged as a powerful technology for rapid and efficient protein production. Cell-free methods are also amenable to automation and such systems have been extensively used for high-throughput protein production and screening; however, current fluidic systems are not adequate for manufacturing protein biopharmaceuticals. In this work, we report on the initial development of a fluidic process for rapid end-to-end production of recombinant protein biologics. This process incorporates a bioreactor module that can be used with eukaryotic or prokaryotic lysates that are programmed for combined transcription/translation of an engineered DNA template encoding for specific protein targets. Purification of the cell-free expressed product occurs through a series of protein separation modules that are configurable for process-specific isolation of different proteins. Using this approach, we demonstrate production of two bioactive human protein therapeutics, erythropoietin and granulocyte-macrophage colony-stimulating factor, in yeast and bacterial extracts, respectively, each within 24 hours. This process is flexible, scalable and amenable to automation for rapid production at the point-of-need of proteins with significant pharmaceutical, medical, or biotechnological value.

  10. A Biophysicochemical Model for NO Removal by the Chemical Absorption-Biological Reduction Integrated Process.

    Science.gov (United States)

    Zhao, Jingkai; Xia, Yinfeng; Li, Meifang; Li, Sujing; Li, Wei; Zhang, Shihan

    2016-08-16

    The chemical absorption-biological reduction (CABR) integrated process is regarded as a promising technology for NOx removal from flue gas. To advance the scale-up of the CABR process, a mathematic model based on mass transfer with reaction in the gas, liquid, and biofilm was developed to simulate and predict the NOx removal by the CABR system in a biotrickling filter. The developed model was validated by the experimental results and subsequently was used to predict the system performance under different operating conditions, such as NO and O2 concentration and gas and liquid flow rate. NO distribution in the gas phase along the biotrickling filter was also modeled and predicted. On the basis of the modeling results, the liquid flow rate and total iron concentration were optimized to achieve >90% NO removal efficiency. Furthermore, sensitivity analysis of the model revealed that the performance of the CABR process was controlled by the bioreduction activity of Fe(III)EDTA. This work will provide the guideline for the design and operation of the CABR process in the industrial application.

  11. Pilot plant study on ozonation and biological activated carbon process for drinking water treatment

    Institute of Scientific and Technical Information of China (English)

    2006-01-01

    A study on advanced drinking water treatment was conducted in a pilot scale plant taking water from conventional treatment process. Ozonation-biological activated carbon process (O3-BAC) and granular activated carbon process (GAC) were evaluated based on the following parameters: CODMn, UV254, total organic carbon (TOC), assimilable organic carbon (AOC) and biodegradable dissolved organic carbon (BDOC). In this test, the average removal rates of CODMn , UV254 and TOC in O3-BAC were18.2%, 9.0% and 10.2% higher on (AOC) than in GAC, respectively. Ozonation increased 19.3-57.6 μg Acetate-C/L in AOC-P17,45.6-130.6 μg Acetate-C/L in AOC-NOX and 0.1-0.5 mg/L in BDOC with ozone doses of 2-8 mg/L. The optimum ozone dose for maximum AOC formation was 3 mgO3/L. BAC filtration was effective process to improve biostability.

  12. Experimental Fluidic Investigation of Degradation of Pico-liter Oil Droplets by Physical and Biological Processes

    Science.gov (United States)

    Jalali, Maryam; Sheng, Jian

    2016-11-01

    This study used laboratory experiments to assess degradation of crude oil by physical and biological processes including dissolution and consumption. To perform this study, we have developed a bioassay that consists of a flow chamber with a bottom glass substrate printed with an array of pico-liter oil droplets using micro-Transfer Printing. The technique allows the printing of highly homogeneous pico-liter droplet array with different dimensions and shapes that can be maintained for weeks. Since the droplets are pinned and stationary on the bottom substrate, the key processes can be evaluated by measuring the change of shape and volume using Atomic Force Microscopy. Parallel microfluidic bioassays are established at the beginning, exposed to abiotic/biotic solutions, and scarified for characterization at given time intervals for each experiment. Two processes, dissolution and consumption, are investigated. In addition, the effects of dispersant on these processes are also studied. The results show that the amount of oil degraded by bacteria accounts for almost 50% of the total volume in comparison to 25% via dissolution. Although dispersant has a subtle effect on dissolution, the effect on rates of consumption and its asymptotic behavior are substantial. Experiments involving different bacterial strains, dispersant concentration, and flow shear rate are on-going.

  13. Fermentation of biologically pretreated wheat straw for ethanol production: comparison of fermentative microorganisms and process configurations.

    Science.gov (United States)

    López-Abelairas, María; Lu-Chau, Thelmo Alejandro; Lema, Juan Manuel

    2013-08-01

    The pretreatment of lignocellulosic biomass with white-rot fungi to produce bioethanol is an environmentally friendly alternative to the commonly used physico-chemical processes. After biological pretreatment, a solid substrate composed of cellulose, hemicellulose and lignin, the two latter with a composition lower than that of the initial substrate, is obtained. In this study, six microorganisms and four process configurations were utilised to ferment a hydrolysate obtained from wheat straw pretreated with the white-rot fungus Irpex lacteus. To enhance total sugars utilisation, five of these microorganisms are able to metabolise, in addition to glucose, most of the pentoses obtained after the hydrolysis of wheat straw by the application of a mixture of hemicellulolytic and cellulolytic enzymes. The highest overall ethanol yield was obtained with the yeast Pachysolen tannophilus. Its application in combination with the best process configuration yielded 163 mg ethanol per gram of raw wheat straw, which was between 23 and 35 % greater than the yields typically obtained with a conventional bioethanol process, in which wheat straw is pretreated using steam explosion and fermented with the yeast Saccharomyces cerevisiae.

  14. Combined treatment of olive mill wastewater by Fenton's reagent and anaerobic biological process.

    Science.gov (United States)

    Amor, Carlos; Lucas, Marco S; García, Juan; Dominguez, Joaquín R; De Heredia, J Beltrán; Peres, José A

    2015-01-01

    This work presents the application of Fenton's reagent process combined with anaerobic digestion to treat an olive mill wastewater (OMW). Firstly, OMW was pre-treated by chemical oxidation in a batch reactor with Fenton's reagent, using a fixed H2O2/COD ratio of 0.20, pH = 3.5 and a H2O2/Fe(2+) molar ratio of 15:1. This advanced oxidation treatment allowed reaching reductions of 17.6 and 82.5% of chemical oxygen demand (COD) and total polyphenols (TP), respectively. Secondly, OMW treatment by anaerobic digestion was performed using previously adapted microorganisms immobilized in Sepiolite. These biological tests were carried out varying the substrate concentration supplied to the reactor and COD conversions from 52 to 74% were obtained. Afterwards, Fenton's reagent followed by anaerobic digestion was applied to OMW treatment. This combined process presented a significant improvement on organic load removal, reaching COD degradations from 64 to 88%. Beyond the pollutant load removal, it was also monitored the yield of methane generated throughout anaerobic experiments. The methane produced ranged from 281 cm(3) to 322 cm(3) of CH4/g COD removed. Additionally, a methane generation kinetic study was performed using the Monod Model. The application of this model allowed observing a kinetic constant increase of the combined process (kFN = 0.036 h(-1)) when compared to the single anaerobic process (kF = 0.017 h(-1)).

  15. Fungal osteomyelitis and septic arthritis.

    Science.gov (United States)

    Bariteau, Jason T; Waryasz, Gregory R; McDonnell, Matthew; Fischer, Staci A; Hayda, Roman A; Born, Christopher T

    2014-06-01

    Management of fungal osteomyelitis and fungal septic arthritis is challenging, especially in the setting of immunodeficiency and conditions that require immunosuppression. Because fungal osteomyelitis and fungal septic arthritis are rare conditions, study of their pathophysiology and treatment has been limited. In the literature, evidence-based treatment is lacking and, historically, outcomes have been poor. The most common offending organisms are Candida and Aspergillus, which are widely distributed in humans and soil. However, some fungal pathogens, such as Histoplasma, Blastomyces, Coccidioides, Cryptococcus, and Sporothrix, have more focal areas of endemicity. Fungal bone and joint infections result from direct inoculation, contiguous infection spread, or hematogenous seeding of organisms. These infections may be difficult to diagnose and eradicate, especially in the setting of total joint arthroplasty. Although there is no clear consensus on treatment, guidelines are available for management of many of these pathogens.

  16. Dynamic processes in biological membrane mimics revealed by quasielastic neutron scattering.

    Science.gov (United States)

    Lautner, Lisa; Pluhackova, Kristyna; Barth, Nicolai K H; Seydel, Tilo; Lohstroh, Wiebke; Böckmann, Rainer A; Unruh, Tobias

    2017-08-01

    Neutron scattering is a powerful tool to study relaxation processes in biological membrane mimics in space and time. Combining different inelastic and quasielastic neutron scattering techniques, a large dynamic range can be covered: from atomic to mesoscopic lengths and from femto- to some hundreds of nanoseconds in time. This allows studies on e.g. the diffusion of lipids, the membrane undulation motions, the dispersion of sound waves in membranes as well as the mutual interactions of membrane constituents such as lipids, proteins, and additives. In particular, neutron scattering provides a quite direct experimental approach to the inter-atomic and inter-molecular potentials on length and time scales which are perfectly accessible by molecular dynamics (MD) simulations. Neutron scattering experiments may thus substantially support the further refinement of biomolecular force fields for MD simulations by supplying structural and dynamical information with high spatial and temporal resolution. In turn, MD simulations support the interpretation of neutron scattering data. The combination of both, neutron scattering experiments and MD simulations, yields an unprecedented insight into the molecular interactions governing the structure and dynamics of biological membranes. This review provides an overview of the molecular dynamics in biological membrane mimics as revealed by neutron scattering. It focuses on the latest findings such as the fundamental molecular mechanism of lateral lipid diffusion as well as the influence of additives and proteins on the short-time dynamics of lipids. Special emphasis is placed on the comparison of recent neutron scattering and MD simulation data with respect to molecular membrane dynamics on the pico- to nanosecond time scale. Copyright © 2017 Elsevier B.V. All rights reserved.

  17. Assessment of the removal of estrogenicity in biological nutrient removal wastewater treatment processes

    Energy Technology Data Exchange (ETDEWEB)

    Ogunlaja, O.O., E-mail: oogunlaj@uwaterloo.ca; Parker, W.J., E-mail: wjparker@uwaterloo.ca

    2015-05-01

    The removal of estrogenicity in a University of Cape Town-biological nutrient removal (UCT-BNR) wastewater treatment process was investigated using pilot and bench scale systems, batch experiments and mathematical modeling. In the pilot BNR process, 96 ± 5% of the estrogenicity exerted by the influent wastewater was removed by the treatment process. The degradation efficiencies in the anaerobic, anoxic and aerobic zones of the pilot BNR bioreactor were 11 ± 9%, 18 ± 2% and 93 ± 10%, respectively. In order to further understand the performance of the BNR process in the removal of estrogenicity from wastewater, a bench scale BNR process was operated with synthetic wastewater dosed with E1 and E2. The removal of estrogenicity in the bench scale system (95 ± 5%) was comparable to the pilot BNR process and the degradation efficiencies were estimated to be 8 ± 0.8%, 38 ± 4% and 85 ± 22% in the anaerobic, anoxic and aerobic zones, respectively. A biotransformation model developed to predict the fate of E1 and E2 in batch tests using the sludge from the BNR process was calibrated using the data from the experiments. The biotransformation rate constants for the transformation of E2 to E1 were estimated as 71 ± 1.5, 31 ± 3.3 and 1 ± 0.9 L g COD{sup −1} d{sup −1} for the aerobic, anoxic and anaerobic batch tests, respectively, while the corresponding biotransformation rate constants for the transformation of E1 were estimated to be 7.3 ± 1.0, 3 ± 2.0, and 0.85 ± 0.6 L·g COD{sup −1} d{sup −1}. A steady state mass balance model formulated to describe the interactions between E2 and E1 in BNR activated sludge reasonably described the fate of E1 and E2 in the BNR process. - Highlights: • Comparable estrogenicity removal was observed from two BNR processes. • Pseudo first order model described the transformation of E2 and E1 in BNR process. • Biotransformation of E1 in BNR activated sludge controls the degradation of E2.

  18. Microwave-processed nanocrystalline hydroxyapatite: simultaneous enhancement of mechanical and biological properties.

    Science.gov (United States)

    Bose, Susmita; Dasgupta, Sudip; Tarafder, Solaiman; Bandyopadhyay, Amit

    2010-09-01

    Despite the excellent bioactivity of hydroxyapatite (HA) ceramics, poor mechanical strength has limited the applications of these materials primarily to coatings and other non-load-bearing areas as bone grafts. Using synthesized HA nanopowder, dense compacts with grain sizes in the nanometer to micrometer range were processed via microwave sintering between 1000 and 1150 degrees C for 20 min. Here we demonstrate that the mechanical properties, such as compressive strength, hardness and indentation fracture toughness, of HA compacts increased with a decrease in grain size. HA with 168 +/- 86 nm grain size showed the highest compressive strength of 395 +/- 42 MPa, hardness of 8.4+/-0.4 GPa and indentation fracture toughness of 1.9 +/- 0.2 MPa m(1/2). To study the in vitro biological properties, HA compacts with grain size between 168 nm and 1.16 microm were assessed for in vitro bone cell-material interactions with human osteoblast cell line. Vinculin protein expression for cell attachment and bone cell proliferation using MTT assay showed that surfaces with finer grains provided better bone cell-material interactions than coarse-grained samples. Our results indicate simultaneous improvements in mechanical and biological properties in microwave sintered HA compacts with nanoscale grain size.

  19. Simulation and optimization of a coking wastewater biological treatment process by activated sludge models (ASM).

    Science.gov (United States)

    Wu, Xiaohui; Yang, Yang; Wu, Gaoming; Mao, Juan; Zhou, Tao

    2016-01-01

    Applications of activated sludge models (ASM) in simulating industrial biological wastewater treatment plants (WWTPs) are still difficult due to refractory and complex components in influents as well as diversity in activated sludges. In this study, an ASM3 modeling study was conducted to simulate and optimize a practical coking wastewater treatment plant (CWTP). First, respirometric characterizations of the coking wastewater and CWTP biomasses were conducted to determine the specific kinetic and stoichiometric model parameters for the consecutive aeration-anoxic-aeration (O-A/O) biological process. All ASM3 parameters have been further estimated and calibrated, through cross validation by the model dynamic simulation procedure. Consequently, an ASM3 model was successfully established to accurately simulate the CWTP performances in removing COD and NH4-N. An optimized CWTP operation condition could be proposed reducing the operation cost from 6.2 to 5.5 €/m(3) wastewater. This study is expected to provide a useful reference for mathematic simulations of practical industrial WWTPs.

  20. Safety Assessment and Biological Effects of a New Cold Processed SilEmulsion for Dermatological Purpose

    Directory of Open Access Journals (Sweden)

    Sara Raposo

    2013-01-01

    Full Text Available It is of crucial importance to evaluate the safety profile of the ingredients used in dermatological emulsions. A suitable equilibrium between safety and efficacy is a pivotal concern before the marketing of a dermatological product. The aim was to assess the safety and biological effects of a new cold processed silicone-based emulsion (SilEmulsion. The hazard, exposure, and dose-response assessment were used to characterize the risk for each ingredient. EpiSkin assay and human repeat insult patch tests were performed to compare the theoretical safety assessment to in vitro and in vivo data. The efficacy of the SilEmulsion was studied using biophysical measurements in human volunteers during 21 days. According to the safety assessment of the ingredients, 1,5-pentanediol was an ingredient of special concern since its margin of safety was below the threshold of 100 (36.53. EpiSkin assay showed that the tissue viability after the application of the SilEmulsion was 92 ± 6% and, thus considered nonirritant to the skin. The human studies confirmed that the SilEmulsion was not a skin irritant and did not induce any sensitization on the volunteers, being safe for human use. Moreover, biological effects demonstrated that the SilEmulsion increased both the skin hydration and skin surface lipids.

  1. COD FRACTIONS IN THE PROCESS OF MECHANICAL-BIOLOGICAL TREATMENT SEWAGE

    Directory of Open Access Journals (Sweden)

    Joanna Smyk

    2015-11-01

    Full Text Available The aim of the research was to determine the COD fraction thereof in sewage and their changes in the effluent after further treatment processes. The study was conducted in a sewage treatment plant in Bialystok (RLM> 100000. In sewage the highest concentrations occurred in the suspension of the organic fractions slowly biodegradable XS (303.7 mg O2/l and dissolved organic compounds readily biodegradable SS (263 mg O2/l. The lower amounts were irreducible fractions dissolved in sewage and suspended SI (56 mg O2/l and XI (101.2 mg O2/l. Almost 80% of the total COD fractions were biodegradable (SS + XS. In the treated wastewater soluble fraction SI-biodegradable (56 mg O2/l occurred in the highest concentration. The flow of wastewater by components of sewage treatment plant resulted the complete removal of biologically degradable fraction of dissolved SS. More than 94.5% of the total COD in waste water purified fractions were biologically decomposable (SI + XI. Moreover, based on the analysis of studies the following soil removal was found: BOD5 – 99.4%, COD – 92.9%, total nitrogen – 93.4%, total phosphorus – 92%. After waste water treatment, ammonia nitrogen was completely removed while the nitrate concentration increased to 4.6 mg N/dm3.

  2. Process of inorganic nitrogen transformation and design of kinetics model in the biological aerated filter reactor.

    Science.gov (United States)

    Yan, Gang; Xu, Xia; Yao, Lirong; Lu, Liqiao; Zhao, Tingting; Zhang, Wenyi

    2011-04-01

    As one of the plug-flow reactors, biological aerated filter (BAF) reactor was divided into four sampling sectors to understand the characteristics of elemental nitrogen transformation during the reaction process, and then the different characteristics of elemental nitrogen transformation caused by different NH(3)-N loadings, biological quantities and activities in each section were obtained. The results showed that the total transformation ratio in the nitrifying reactor was more than 90% in the absence of any organic carbon resource, at the same time, more than 65% NH(3)-N in the influent were nitrified at the filter height of 70 cm below under the conditions of the influent runoff 9-19 L/h, the gas-water ratio 4-5:1, the dissolved oxygen 3.0-5.8 mg/L and the NH(3)-N load 0.28-0.48 kg NH(3)-N/m(3) d. On the base of the Eckenfelder mode, the kinetics equation of the NH(3)-N transformation along the reactor was S(e)=S(0) exp(-0.0134D/L(1.2612)).

  3. Application of combined physicochemical and biological processes for enhanced treatment of avermectin fermentation wastewater.

    Science.gov (United States)

    Yu, Anfeng; Huang, Pengyu; Gui, Dawei; Wang, Haisheng; Feng, Quan; Chu, Libing; Xing, Xin-Hui

    2009-01-01

    This paper aimed at developing the enhanced biological treatment processes for treating avermectin fermentation wastewater (AFW). After UASB treatment and chemical coagulation, the pretreated AFW was subsequently flowed into a rCAA reactor (reactor with repeated coupling of aerobes and anaerobes using macroporous carriers) system for further pollutant degradation and excess sludge reduction. By the treatment with chemical coagulation, COD, total nitrogen and total phosphorus concentration of treated AFW were eliminated to 550-700 mg/L, 130-160 mg/L and 1 mg/L, respectively, and the dark color of the wastewater was greatly bleached. After this decolorized wastewater was treated by the following rCAA bioreactor, the COD could be reduced to around 200-300 mg/L, while the further decrease of COD less than 200 mg/L was difficult. The Biolog analysis and OUR test for the water treated by rCAA bioreactor demonstrated that the effluent from chemical coagulation contained some unknown compounds with low biodegradability and would simplify the microbial community in the subsequent rCAA reactor.

  4. Safety assessment and biological effects of a new cold processed SilEmulsion for dermatological purpose.

    Science.gov (United States)

    Raposo, Sara; Salgado, Ana; Gonçalves, Lídia; Pinto, Pedro C; Urbano, Manuela; Ribeiro, Helena M

    2013-01-01

    It is of crucial importance to evaluate the safety profile of the ingredients used in dermatological emulsions. A suitable equilibrium between safety and efficacy is a pivotal concern before the marketing of a dermatological product. The aim was to assess the safety and biological effects of a new cold processed silicone-based emulsion (SilEmulsion). The hazard, exposure, and dose-response assessment were used to characterize the risk for each ingredient. EpiSkin assay and human repeat insult patch tests were performed to compare the theoretical safety assessment to in vitro and in vivo data. The efficacy of the SilEmulsion was studied using biophysical measurements in human volunteers during 21 days. According to the safety assessment of the ingredients, 1,5-pentanediol was an ingredient of special concern since its margin of safety was below the threshold of 100 (36.53). EpiSkin assay showed that the tissue viability after the application of the SilEmulsion was 92 ± 6% and, thus considered nonirritant to the skin. The human studies confirmed that the SilEmulsion was not a skin irritant and did not induce any sensitization on the volunteers, being safe for human use. Moreover, biological effects demonstrated that the SilEmulsion increased both the skin hydration and skin surface lipids.

  5. Cytological and transcriptional dynamics analysis of host plant revealed stage-specific biological processes related to compatible rice-Ustilaginoidea virens interaction.

    Directory of Open Access Journals (Sweden)

    Jinquan Chao

    Full Text Available Rice false smut, a fungal disease caused by Ustilaginoidea virens is becoming a severe detriment to rice production worldwide. However, little is known about the molecular response of rice to attacks by the smut pathogen. In this article, we define the initial infection process as having three stages: initial colonization on the pistil (stage 1, S1, amplification on the anther (stage 2, S2 and sporulation in the anther chambers (stage 3, S3. Based on the transcriptome of rice hosts in response to U. virens in two separate years, we identified 126, 204, and 580 specific regulated genes in their respective stages S1, S2, and S3, respectively, by excluding common expression patterns in other openly biotic/abiotic databases using bioinformatics. As the disease progresses, several stage-specific biological processes (BP terms were distinctively enriched: "Phosphorylation" in stage S1, "PCD" in S2, and "Cell wall biogenesis" in S3, implying a concise signal cascade indicative of the tactics that smut pathogens use to control host rice cells during infection. 113 regulated genes were coexpressed among the three stages. They shared highly conserved promoter cis-element in the promoters in response to the regulation of WRKY and Myb for up-regulation, and ABA and Ca2+ for down regulation, indicating their potentially critical roles in signal transduction during rice-U. virens interaction. We further analyzed seven highly regulated unique genes; four were specific to pollen development, implying that pollen-related genes play critical roles in the establishment of rice susceptibility to U. virens. To my knowledge, this is the first report about probing of molecular response of rice to smut pathogen infection, which will greatly expand our understanding of the molecular events surrounding infection by rice false smut.

  6. Composting of biological waste. Processes and utilisation. Summary report; Bioabfallkompostierung. Verfahren und Verwertung. Kurzfassung

    Energy Technology Data Exchange (ETDEWEB)

    Gronauer, A.; Claassen, N.; Ebertseder, T.; Fischer, P.; Gutser, R.; Helm, M.; Popp, L.; Schoen, H.

    1997-12-31

    The project investigated environmentally compatible concepts for processing and utilisation of biological waste by means of composting and spreading on agriculataural and gardening plots. The project comprised three parts: Composting techniques, applications of compost in agriculture and gardening, and applications in landscaping. This volume comprises the summaries of the three part-projects. (orig./SR) [Deutsch] Die umweltschonende Aufbereitung und Verwertung von Bioabfall durch Kompostierung und Rueckfuehrung auf landwirtschaftliche und gaertnerische Flaechen wurde untersucht. Dieses Projekt war dreigeteilt in die Bereiche der Kompostierung selbst, der Anwendung des Komposts in der Landwirtschaft und seiner Anwendung im Gartenbau sowie im Garten- und Landschaftsbau (GaLa-Bau). Die vorliegende Schrift enthaelt die Zusammenfassung der genannten drei Teilberichte. (orig./SR)

  7. Biological impact of preschool music classes on processing speech in noise.

    Science.gov (United States)

    Strait, Dana L; Parbery-Clark, Alexandra; O'Connell, Samantha; Kraus, Nina

    2013-10-01

    Musicians have increased resilience to the effects of noise on speech perception and its neural underpinnings. We do not know, however, how early in life these enhancements arise. We compared auditory brainstem responses to speech in noise in 32 preschool children, half of whom were engaged in music training. Thirteen children returned for testing one year later, permitting the first longitudinal assessment of subcortical auditory function with music training. Results indicate emerging neural enhancements in musically trained preschoolers for processing speech in noise. Longitudinal outcomes reveal that children enrolled in music classes experience further increased neural resilience to background noise following one year of continued training compared to nonmusician peers. Together, these data reveal enhanced development of neural mechanisms undergirding speech-in-noise perception in preschoolers undergoing music training and may indicate a biological impact of music training on auditory function during early childhood.

  8. Combined photochemical and biological processes for the treatment of linear alkylbenzene sulfonate in water.

    Science.gov (United States)

    Mehrvar, Mehrab; Tabrizi, Gelareh Bankian

    2006-01-01

    In this study, the effects of photochemical pre-treatment (pilot-plant UV/H2O2 process) of linear alkylbenzene sulfonate (LAS) on its subsequent biological treatment were examined. It was observed that the photochemical pre-treatment of the LAS solution did not increase its biodegradability. Moreover, the effects of acclimated microorganisms on the biodegradability of the LAS solution were also studied. It was observed that the acclimated activated sludge increased the biodegradation of the LAS solution. However, due to the presence of some intermediates in the effluent of the photoreactor, the biodegradability of this effluent was less than the biodegradability of the untreated LAS solution with the same concentration of the LAS in the effluent of the photoreactor.

  9. Photo-Fenton processes assisted by solar light used as preliminary step to biological treatment applied to winery wastewaters.

    Science.gov (United States)

    Mosteo, R; Ormad, M P; Ovelleiro, J L

    2007-01-01

    Winery wastewaters are difficult to treat by conventional biological processes, because they are seasonal and experience substantial flow variations. Photocatalytic advanced oxidation is a promising technology for wastewaters containing high amounts of organic matter. In this research work, solar assisted photo-Fenton processes of both heterogeneous and homogeneous phase are used in the pre-treatment of winery wastewaters. The results of these experiments have confirmed the suitability of the photo-Fenton processes, due to these treatments achieving purification levels of up to 50% (measured as total organic carbon). The intermediate effluents are treated adequately by aerobic biological treatment (activated sludge process), due to the decrease in organic matter concentration present in winery wastewaters. The possibility of a combined photo-Fenton process, based on the use of sunlight, and aerobic biological treatment (activated sludge) is suggested.

  10. The consequence of biologic graft processing on blood interface biocompatibility and mechanics.

    Science.gov (United States)

    Van de Walle, Aurore B; Uzarski, Joseph S; McFetridge, Peter S

    2015-09-01

    Processing ex vivo derived tissues to reduce immunogenicity is an effective approach to create biologically complex materials for vascular reconstruction. Due to the sensitivity of small diameter vascular grafts to occlusive events, the effect of graft processing on critical parameters for graft patency, such as peripheral cell adhesion and wall mechanics, requires detailed analysis. Isolated human umbilical vein sections were used as model allogenic vascular scaffolds that were processed with either: 1. sodium dodecyl sulfate (SDS), 2. ethanol/acetone (EtAc), or 3. glutaraldehyde (Glu). Changes in material mechanics were assessed via uniaxial tensile testing. Peripheral cell adhesion to the opaque grafting material was evaluated using an innovative flow chamber that allows direct observation of the blood-graft interface under physiological shear conditions. All treatments modified the grafts tensile strain and stiffness properties, with physiological modulus values decreasing from Glu 240±12 kPa to SDS 210±6 kPa and EtAc 140±3 kPa, Papplied to the umbilical vein scaffold were shown to modify structural mechanics and cell adhesion properties, with the EtAc treatment reducing thrombotic events relative to SDS treated samples. This approach allows time and cost effective prescreening of clinically relevant grafting materials to assess initial cell reactivity.

  11. Utilization of the cyanobacteria Anabaena sp CH1 in biological carbon dioxide mitigation processes

    Energy Technology Data Exchange (ETDEWEB)

    Chiang, C.L.; Lee, C.M.; Chen, P.C. [Hungkuang University, Taichung (Taiwan)

    2011-05-15

    Before switching totally to alternative fuel stage, CO{sub 2} mitigation process has considered a transitional strategy for combustion of fossil fuels inevitably. In comparison to other CO{sub 2} mitigation options, such as oceanic or geologic injection, the biological photosynthetic process would present a far superior and sustainable solution under both environmental and social considerations. The utilization of the cyanobacteria Anabaena sp. CH1 in carbon dioxide mitigation processes is analyzed in our research. It was found that an original developed photobioreactor with internal light source exhibits high light utilization. Anabaena sp. CH1 demonstrates excellent CO{sub 2} tolerance even at 15% CO{sub 2} level. This enables flue gas from power plant to be directly introduced to Anabaena sp. CH1 culture. Double light intensity and increased 47% CO{sub 2} bubble retention time could enhance CO{sub 2} removal efficiencies by 79% and 67%, respectively. A maximum CO{sub 2} fixation rate of 1.01 g CO{sub 2} L{sup -1} day{sup -1} was measured experimentally.

  12. Ozone-biological activated carbon as a pretreatment process for reverse osmosis brine treatment and recovery.

    Science.gov (United States)

    Lee, Lai Yoke; Ng, How Yong; Ong, Say Leong; Hu, Jiang Yong; Tao, Guihe; Kekre, Kiran; Viswanath, Balakrishnan; Lay, Winson; Seah, Harry

    2009-09-01

    Ozonation was used in this study to improve biodegradability of RO brine from water reclamation facilities. An ozone dosage ranging from 3 to 10 mg O(3)/L and contact times of 10 and 20 min in batch studies were found to increase the biodegradability (BOD(5)/TOC ratio) of the RO brine by 1.8-3.5 times. At the same time, total organic carbon (TOC) removal was in the range of 5.3-24.5%. The lab-scale ozone-biological activated carbon (BAC) at an ozone dosage of 6.0mg O(3)/L with 20-min contact time was able to achieve 3 times higher TOC removal compared to using BAC alone. Further processing with Capacitive Deionization (CDI) process was able to generate a product water with better water quality than the RO feed water, i.e., with more than 80% ions removal and a lower TOC concentration. The ozone-BAC pretreatment has the potential of reducing fouling in the CDI process.

  13. Coking wastewater treatment for industrial reuse purpose: combining biological processes with ultrafiltration, nanofiltration and reverse osmosis.

    Science.gov (United States)

    Jin, Xuewen; Li, Enchao; Lu, Shuguang; Qiu, Zhaofu; Sui, Qian

    2013-08-01

    A full-scale plant using anaerobic, anoxic and oxic processes (A1/A2/O), along with a pilot-scale membrane bioreactor (MBR), nanofiltration (NF) and reverse osmosis (RO) integrated system developed by Shanghai Baosteel Chemical Co. Ltd., was investigated to treat coking wastewater for industrial reuse over a period of one year. The removals reached 82.5% (COD), 89.6% (BOD), 99.8% (ammonium nitrogen), 99.9% (phenol), 44.6% (total cyanide (T-CN)), 99.7% (thiocyanide (SCN-)) and 8.9% (fluoride), during the A1/A2/O biological treatment stage, and all parameters were further reduced by over 96.0%, except for fluoride (86.4%), in the final discharge effluent from the currently operating plant. The pilot-scale MBR process reduced the turbidity to less than 0.65 NTU, and most of the toxic organic compounds were degraded or intercepted by the A1/A2/O followed MBR processes. In addition, parameters including COD, T-CN, total nitrogen, fluoride, chloride ion, hardness and conductivity were significantly reduced by the NF-RO system to a level suitable for industrial reuse, with a total water production ratio of 70.7%. However, the concentrates from the NF and RO units were highly polluted and should be disposed of properly or further treated before being discharged.

  14. Biological phosphorus removal in sequencing batch reactor with single-stage oxic process.

    Science.gov (United States)

    Wang, Dong-Bo; Li, Xiao-Ming; Yang, Qi; Zeng, Guang-Ming; Liao, De-Xiang; Zhang, Jie

    2008-09-01

    The performance of biological phosphorus removal (BPR) in a sequencing batch reactor (SBR) with single-stage oxic process was investigated using simulated municipal wastewater. The experimental results showed that BPR could be achieved in a SBR without anaerobic phase, which was conventionally considered as a key phase for BPR. Phosphorus (P) concentration 0.22-1.79 mg L(-1) in effluent can be obtained after 4h aeration when P concentration in influent was about 15-20 mg L(-1), the dissolved oxygen (DO) was controlled at 3+/-0.2 mg L(-1) during aerobic phase and pH was maintained 7+/-0.1, which indicated the efficiencies of P removal were achieved 90% above. Experimental results also showed that P was mainly stored in the form of intracellular storage of polyphosphate (poly-P), and about 207.235 mg phosphates have been removed by the discharge of rich-phosphorus sludge for each SBR cycle. However, the energy storage poly-beta-hydroxyalkanoates (PHA) was almost kept constant at a low level (5-6 mg L(-1)) during the process. Those results showed that phosphate could be transformed to poly-P with single-stage oxic process without PHA accumulation, and BPR could be realized in net phosphate removal.

  15. Video-rate processing in tomographic phase microscopy of biological cells using CUDA.

    Science.gov (United States)

    Dardikman, Gili; Habaza, Mor; Waller, Laura; Shaked, Natan T

    2016-05-30

    We suggest a new implementation for rapid reconstruction of three-dimensional (3-D) refractive index (RI) maps of biological cells acquired by tomographic phase microscopy (TPM). The TPM computational reconstruction process is extremely time consuming, making the analysis of large data sets unreasonably slow and the real-time 3-D visualization of the results impossible. Our implementation uses new phase extraction, phase unwrapping and Fourier slice algorithms, suitable for efficient CPU or GPU implementations. The experimental setup includes an external off-axis interferometric module connected to an inverted microscope illuminated coherently. We used single cell rotation by micro-manipulation to obtain interferometric projections from 73 viewing angles over a 180° angular range. Our parallel algorithms were implemented using Nvidia's CUDA C platform, running on Nvidia's Tesla K20c GPU. This implementation yields, for the first time to our knowledge, a 3-D reconstruction rate higher than video rate of 25 frames per second for 256 × 256-pixel interferograms with 73 different projection angles (64 × 64 × 64 output). This allows us to calculate additional cellular parameters, while still processing faster than video rate. This technique is expected to find uses for real-time 3-D cell visualization and processing, while yielding fast feedback for medical diagnosis and cell sorting.

  16. AN ESTIMATE OF THE DETENTION IN THE PROCESS OF REVERSE OSMOSIS SEPARATION BIOLOGICAL SOLUTIONS BIOCHEMICAL INDUSTRIES

    Directory of Open Access Journals (Sweden)

    S. I. Lazarev

    2015-01-01

    Full Text Available Retained on a membrane solute in reverse osmosis separation of biological fluids at the surface of the membrane gradually accumulates and forms a boundary layer, where its concentration is higher than in the bulk. Increased concentration of solute in the solution at the membrane surface causes a diffusive flow of solids from the membrane surface into the bulk solution. After some time in the system t is a stationary state. A convective flow of solute to the membrane surface will be balanced by the sum of the fluxes of solute through the membrane and from the membrane surface into the bulk solution, i.e. in the case of concentration polarization is formed an edge of the diffusion layer. It is established that the concentration-polarization in reverse osmosis separation of the aqueous biological fluids biochemical production is influenced by the flow rate of solvent and the mass transfer coefficient. Experimental study allowed to characterize that by using the process of reverse osmosis can effectively divided, clear, and contaravati industrial solutions biochemical industries. Data at a rate of detention allow to evaluate the influence of concentration polarization on the efficiency of the reverse osmosis separation of industrial solutions. As a result of systematization and evaluation of experimental data and dependencies at a rate of detention found that with increasing the concentration, the rate of detention of solutes decreases. Based on the analysis and modification of the proposed equation for theoretical calculation of detention. Theoretical description of the coefficient detention accurately adequately calculated the modified equation N. V. Churaev, B. V. Deryaguin and V. M. Starov. The numerical values of the empirical coefficients, to calculate and predict the odds of arrest for a similar membrane separation processes industrial solutions. Values obtained correlation coefficients. The correlation coefficients specify that the rate of

  17. Functional knowledge transfer for high-accuracy prediction of under-studied biological processes.

    Directory of Open Access Journals (Sweden)

    Christopher Y Park

    Full Text Available A key challenge in genetics is identifying the functional roles of genes in pathways. Numerous functional genomics techniques (e.g. machine learning that predict protein function have been developed to address this question. These methods generally build from existing annotations of genes to pathways and thus are often unable to identify additional genes participating in processes that are not already well studied. Many of these processes are well studied in some organism, but not necessarily in an investigator's organism of interest. Sequence-based search methods (e.g. BLAST have been used to transfer such annotation information between organisms. We demonstrate that functional genomics can complement traditional sequence similarity to improve the transfer of gene annotations between organisms. Our method transfers annotations only when functionally appropriate as determined by genomic data and can be used with any prediction algorithm to combine transferred gene function knowledge with organism-specific high-throughput data to enable accurate function prediction. We show that diverse state-of-art machine learning algorithms leveraging functional knowledge transfer (FKT dramatically improve their accuracy in predicting gene-pathway membership, particularly for processes with little experimental knowledge in an organism. We also show that our method compares favorably to annotation transfer by sequence similarity. Next, we deploy FKT with state-of-the-art SVM classifier to predict novel genes to 11,000 biological processes across six diverse organisms and expand the coverage of accurate function predictions to processes that are often ignored because of a dearth of annotated genes in an organism. Finally, we perform in vivo experimental investigation in Danio rerio and confirm the regulatory role of our top predicted novel gene, wnt5b, in leftward cell migration during heart development. FKT is immediately applicable to many bioinformatics

  18. A Practical Approach to Quantitative Processing and Analysis of Small Biological Structures by Fluorescent Imaging

    Science.gov (United States)

    Noller, Crystal M.; Boulina, Maria; McNamara, George; Szeto, Angela; McCabe, Philip M.

    2016-01-01

    Standards in quantitative fluorescent imaging are vaguely recognized and receive insufficient discussion. A common best practice is to acquire images at Nyquist rate, where highest signal frequency is assumed to be the highest obtainable resolution of the imaging system. However, this particular standard is set to insure that all obtainable information is being collected. The objective of the current study was to demonstrate that for quantification purposes, these correctly set acquisition rates can be redundant; instead, linear size of the objects of interest can be used to calculate sufficient information density in the image. We describe optimized image acquisition parameters and unbiased methods for processing and quantification of medium-size cellular structures. Sections of rabbit aortas were immunohistochemically stained to identify and quantify sympathetic varicosities, >2 μm in diameter. Images were processed to reduce background noise and segment objects using free, open-access software. Calculations of the optimal sampling rate for the experiment were based on the size of the objects of interest. The effect of differing sampling rates and processing techniques on object quantification was demonstrated. Oversampling led to a substantial increase in file size, whereas undersampling hindered reliable quantification. Quantification of raw and incorrectly processed images generated false structures, misrepresenting the underlying data. The current study emphasizes the importance of defining image-acquisition parameters based on the structure(s) of interest. The proposed postacquisition processing steps effectively removed background and noise, allowed for reliable quantification, and eliminated user bias. This customizable, reliable method for background subtraction and structure quantification provides a reproducible tool for researchers across biologic disciplines. PMID:27182204

  19. Fungal contamination of poultry litter: a public health problem.

    Science.gov (United States)

    Viegas, C; Carolino, E; Malta-Vacas, J; Sabino, R; Viegas, S; Veríssimo, C

    2012-01-01

    Although numerous studies have been conducted on microbial contaminants associated with various stages related to poultry and meat products processing, only a few reported on fungal contamination of poultry litter. The goals of this study were to (1) characterize litter fungal contamination and (2) report the incidence of keratinophilic and toxigenic fungi presence. Seven fresh and 14 aged litter samples were collected from 7 poultry farms. In addition, 27 air samples of 25 litters were also collected through impaction method, and after laboratory processing and incubation of collected samples, quantitative colony-forming units (CFU/m³) and qualitative results were obtained. Twelve different fungal species were detected in fresh litter and Penicillium was the most frequent genus found (59.9%), followed by Alternaria (17.8%), Cladosporium (7.1%), and Aspergillus (5.7%). With respect to aged litter, 19 different fungal species were detected, with Penicillium sp. the most frequently isolated (42.3%), followed by Scopulariopsis sp. (38.3%), Trichosporon sp. (8.8%), and Aspergillus sp. (5.5%). A significant positive correlation was found between litter fungal contamination (CFU/g) and air fungal contamination (CFU/m³). Litter fungal quantification and species identification have important implications in the evaluation of potential adverse health risks to exposed workers and animals. Spreading of poultry litter in agricultural fields is a potential public health concern, since keratinophilic (Scopulariopsis and Fusarium genus) as well as toxigenic fungi (Aspergillus, Fusarium, and Penicillium genus) were isolated.

  20. The crucial role of the Pls1 tetraspanin during ascospore germination in Podospora anserina provides an example of the convergent evolution of morphogenetic processes in fungal plant pathogens and saprobes.

    Science.gov (United States)

    Lambou, Karine; Malagnac, Fabienne; Barbisan, Crystel; Tharreau, Didier; Lebrun, Marc-Henri; Silar, Philippe

    2008-10-01

    Pls1 tetraspanins were shown for some pathogenic fungi to be essential for appressorium-mediated penetration into their host plants. We show here that Podospora anserina, a saprobic fungus lacking appressorium, contains PaPls1, a gene orthologous to known PLS1 genes. Inactivation of PaPls1 demonstrates that this gene is specifically required for the germination of ascospores in P. anserina. These ascospores are heavily melanized cells that germinate under inducing conditions through a specific pore. On the contrary, MgPLS1, which fully complements a DeltaPaPls1 ascospore germination defect, has no role in the germination of Magnaporthe grisea nonmelanized ascospores but is required for the formation of the penetration peg at the pore of its melanized appressorium. P. anserina mutants with mutation of PaNox2, which encodes the NADPH oxidase of the NOX2 family, display the same ascospore-specific germination defect as the DeltaPaPls1 mutant. Both mutant phenotypes are suppressed by the inhibition of melanin biosynthesis, suggesting that they are involved in the same cellular process required for the germination of P. anserina melanized ascospores. The analysis of the distribution of PLS1 and NOX2 genes in fungal genomes shows that they are either both present or both absent. These results indicate that the germination of P. anserina ascospores and the formation of the M. grisea appressorium penetration peg use the same molecular machinery that includes Pls1 and Nox2. This machinery is specifically required for the emergence of polarized hyphae from reinforced structures such as appressoria and ascospores. Its recurrent recruitment during fungal evolution may account for some of the morphogenetic convergence observed in fungi.

  1. Fungal biodiversity to biotechnology.

    Science.gov (United States)

    Chambergo, Felipe S; Valencia, Estela Y

    2016-03-01

    Fungal habitats include soil, water, and extreme environments. With around 100,000 fungus species already described, it is estimated that 5.1 million fungus species exist on our planet, making fungi one of the largest and most diverse kingdoms of eukaryotes. Fungi show remarkable metabolic features due to a sophisticated genomic network and are important for the production of biotechnological compounds that greatly impact our society in many ways. In this review, we present the current state of knowledge on fungal biodiversity, with special emphasis on filamentous fungi and the most recent discoveries in the field of identification and production of biotechnological compounds. More than 250 fungus species have been studied to produce these biotechnological compounds. This review focuses on three of the branches generally accepted in biotechnological applications, which have been identified by a color code: red, green, and white for pharmaceutical, agricultural, and industrial biotechnology, respectively. We also discuss future prospects for the use of filamentous fungi in biotechnology application.

  2. In vitro formation of Ca-oxalates and the mineral glushinskite by fungal interaction with carbonate substrates and seawater

    Directory of Open Access Journals (Sweden)

    K. Kolo

    2005-01-01

    Full Text Available This study investigates the in vitro formation of Ca-oxalates and glushinskite through fungal interaction with carbonate substrates and seawater as a process of biologically induced metal recycling and neo-mineral formation. The study also emphasizes the role of the substrates as metal donors. In the first experiment, thin sections prepared from dolomitic rock samples of Terwagne Formation (Carboniferous, Viséan, northern France served as substrates. The thin sections placed in Petri dishes were exposed to fungi grown from naturally existing airborne spores. In the second experiment, fungal growth and mineral formation was monitored using only standard seawater (SSW as a substrate. Fungal growth media consisted of a high protein/carbohydrates and sugar diet with demineralized water for irrigation. Fungal growth process reached completion under uncontrolled laboratory conditions. The newly formed minerals and textural changes caused by fungal attack on the carbonate substrates were investigated using light and scanning electron microscopy (SEM-EDX, x-ray diffraction (XRD and Raman spectroscopy. The fungal interaction and attack on the dolomitic and seawater substrates resulted in the formation of Ca-oxalates (weddellite CaC2O4·2(H2O, whewellite (CaC2O4·(H2O and glushinskite MgC2O4·2(H2O associated with the destruction of the original hard substrates and their replacement by the new minerals. Both of Ca and Mg were mobilized from the experimental substrates by fungi. This metal mobilization involved a recycling of substrate metals into newly formed minerals. The biochemical and diagenetic results of the interaction strongly marked the attacked substrates with a biological fingerprint. Such fingerprints are biomarkers of primitive life. The formation of glushinskite is of specific importance that is related, besides its importance as a biomineral bearing a recycled Mg, to the possibility of its transformation through diagenetic pathway into an

  3. A new biological phosphorus removal process in association with sulfur cycle.

    Science.gov (United States)

    Wu, Di; Ekama, George A; Lu, Hui; Chui, Ho-Kwong; Liu, Wen-Tso; Brdjanovic, Damir; van Loosdrecht, Mark C M; Chen, Guang-Hao

    2013-06-01

    Hong Kong has practiced seawater toilet flushing since 1958, saving 750,000 m(3) freshwater every day. A high sulfate-to-COD ratio (>1.25 mg SO4/mg COD) in the saline sewage resulting from this practice has enabled us to develop the Sulfate reduction Autotrophic denitrification and Nitrification Integrated (SANI(®)) process with minimal sludge production. This study seeks to expand the SANI process into an enhanced biological phosphorus removal (EBPR) process. A sulfur cycle associated EBPR was explored in an alternating anaerobic/oxygen-limited aerobic sequencing batch reactor with acetate fed as sole electron donor and sulfate as sulfur source at a total organic carbon to sulfur ratio of 1.1-3.1 (mg C/mg S). Phosphate uptake and polyphosphate formation was observed in this reactor that sustained high phosphate removal (20 mg P/L removed with 320 mg COD/L). This new EBPR process was supported by six observations: 1) anaerobic phosphate release associated with acetate uptake, poly-phosphate hydrolysis, poly-hydroxyalkanoate (PHA) (and poly-S(2-)/S(0)) formation and an "aerobic" phosphate uptake associated with PHA (and poly-S(2-)/S(0)) degradation, and polyphosphate formation; 2) a high P/VSS ratio (>0.16 mg P/mg VSS) and an associated low VSS/TSS ratio (0.75) characteristic of conventional PAOs; 3) a lack of P-release and P-uptake with formaldehyde inactivation and autoclaved sterilized biomass; 4) an absence of chemical precipitated P crystals as determined by XRD analysis; 5) a sludge P of more than 90% polyphosphate as determined by sequential P extraction; and 6) microscopically, observed PHA, poly-P and S globules in the biomass. Copyright © 2013 Elsevier Ltd. All rights reserved.

  4. Enantioselective reductive transformation of climbazole: A concept towards quantitative biodegradation assessment in anaerobic biological treatment processes.

    Science.gov (United States)

    Brienza, Monica; Chiron, Serge

    2017-06-01

    An efficient chiral method-based using liquid chromatography-high resolution-mass spectrometry analytical method has been validated for the determination of climbazole (CBZ) enantiomers in wastewater and sludge with quantification limits below the 1 ng/L and 2 ng/g range, respectively. On the basis of this newly developed analytical method, the stereochemistry of CBZ was investigated over time in sludge biotic and sterile batch experiments under anoxic dark and light conditions and during wastewater biological treatment by subsurface flow constructed wetlands. CBZ stereoselective degradation was exclusively observed under biotic conditions, confirming the specificity of enantiomeric fraction variations to biodegradation processes. Abiotic CBZ enantiomerization was insignificant at circumneutral pH and CBZ was always biotransformed into CBZ-alcohol due to the specific and enantioselective reduction of the ketone function of CBZ into a secondary alcohol function. This transformation was almost quantitative and biodegradation gave good first order kinetic fit for both enantiomers. The possibility to apply the Rayleigh equation to enantioselective CBZ biodegradation processes was investigated. The results of enantiomeric enrichment allowed for a quantitative assessment of in situ biodegradation processes due to a good fit (R(2) > 0.96) of the anoxic/anaerobic CBZ biodegradation to the Rayleigh dependency in all the biotic microcosms and was also applied in subsurface flow constructed wetlands. This work extended the concept of applying the Rayleigh equation towards quantitative biodegradation assessment of organic contaminants to enantioselective processes operating under anoxic/anaerobic conditions. Copyright © 2017 Elsevier Ltd. All rights reserved.

  5. Fungal Biodiversity in the Alpine Tarfala Valley

    Directory of Open Access Journals (Sweden)

    Claudia Coleine

    2015-10-01

    Full Text Available Biological soil crusts (BSCs are distributed worldwide in all semiarid and arid lands, where they play a determinant role in element cycling and soil development. Although much work has concentrated on BSC microbial communities, free-living fungi have been hitherto largely overlooked. The aim of this study was to examine the fungal biodiversity, by cultural-dependent and cultural-independent approaches, in thirteen samples of Arctic BSCs collected at different sites in the Alpine Tarfala Valley, located on the slopes of Kebnekaise, the highest mountain in northern Scandinavia. Isolated fungi were identified by both microscopic observation and molecular approaches. Data revealed that the fungal assemblage composition was homogeneous among the BSCs analyzed, with low biodiversity and the presence of a few dominant species; the majority of fungi isolated belonged to the Ascomycota, and Cryptococcus gilvescens and Pezoloma ericae were the most frequently-recorded species. Ecological considerations for the species involved and the implication of our findings for future fungal research in BSCs are put forward.

  6. Fungal Biodiversity in the Alpine Tarfala Valley.

    Science.gov (United States)

    Coleine, Claudia; Selbmann, Laura; Ventura, Stefano; D'Acqui, Luigi Paolo; Onofri, Silvano; Zucconi, Laura

    2015-10-10

    Biological soil crusts (BSCs) are distributed worldwide in all semiarid and arid lands, where they play a determinant role in element cycling and soil development. Although much work has concentrated on BSC microbial communities, free-living fungi have been hitherto largely overlooked. The aim of this study was to examine the fungal biodiversity, by cultural-dependent and cultural-independent approaches, in thirteen samples of Arctic BSCs collected at different sites in the Alpine Tarfala Valley, located on the slopes of Kebnekaise, the highest mountain in northern Scandinavia. Isolated fungi were identified by both microscopic observation and molecular approaches. Data revealed that the fungal assemblage composition was homogeneous among the BSCs analyzed, with low biodiversity and the presence of a few dominant species; the majority of fungi isolated belonged to the Ascomycota, and Cryptococcus gilvescens and Pezoloma ericae were the most frequently-recorded species. Ecological considerations for the species involved and the implication of our findings for future fungal research in BSCs are put forward.

  7. Expanding biological data standards development processes for US IOOS: visual line transect observing community for mammal, bird, and turtle data

    Science.gov (United States)

    Fornwall, M.; Gisiner, R.; Simmons, S. E.; Moustahfid, Hassan; Canonico, G.; Halpin, P.; Goldstein, P.; Fitch, R.; Weise, M.; Cyr, N.; Palka, D.; Price, J.; Collins, D.

    2012-01-01

    The US Integrated Ocean Observing System (IOOS) has recently adopted standards for biological core variables in collaboration with the US Geological Survey/Ocean Biogeographic Information System (USGS/OBIS-USA) and other federal and non-federal partners. In this Community White Paper (CWP) we provide a process to bring into IOOS a rich new source of biological observing data, visual line transect surveys, and to establish quality data standards for visual line transect observations, an important source of at-sea bird, turtle and marine mammal observation data. The processes developed through this exercise will be useful for other similar biogeographic observing efforts, such as passive acoustic point and line transect observations, tagged animal data, and mark-recapture (photo-identification) methods. Furthermore, we suggest that the processes developed through this exercise will serve as a catalyst for broadening involvement by the larger marine biological data community within the goals and processes of IOOS.

  8. Interconnection of reactive oxygen species chemistry across the interfaces of atmospheric, environmental, and biological processes.

    Science.gov (United States)

    Anglada, Josep M; Martins-Costa, Marilia; Francisco, Joseph S; Ruiz-López, Manuel F

    2015-03-17

    Oxidation reactions are ubiquitous and play key roles in the chemistry of the atmosphere, in water treatment processes, and in aerobic organisms. Ozone (O3), hydrogen peroxide (H2O2), hydrogen polyoxides (H2Ox, x > 2), associated hydroxyl and hydroperoxyl radicals (HOx = OH and HO2), and superoxide and ozonide anions (O2(-) and O3(-), respectively) are the primary oxidants in these systems. They are commonly classified as reactive oxygen species (ROS). Atmospheric chemistry is driven by a complex system of chain reactions of species, including nitrogen oxides, hydroxyl and hydroperoxide radicals, alkoxy and peroxy radicals, and ozone. HOx radicals contribute to keeping air clean, but in polluted areas, the ozone concentration increases and creates a negative impact on plants and animals. Indeed, ozone concentration is used to assess air quality worldwide. Clouds have a direct effect on the chemical composition of the atmosphere. On one hand, cloud droplets absorb many trace atmospheric gases, which can be scavenged by rain and fog. On the other hand, ionic species can form in this medium, which makes the chemistry of the atmosphere richer and more complex. Furthermore, recent studies have suggested that air-cloud interfaces might have a significant impact on the overall chemistry of the troposphere. Despite the large differences in molecular composition, concentration, and thermodynamic conditions among atmospheric, environmental, and biological systems, the underlying chemistry involving ROS has many similarities. In this Account, we examine ROS and discuss the chemical characteristics common to all of these systems. In water treatment, ROS are key components of an important subset of advanced oxidation processes. Ozonation, peroxone chemistry, and Fenton reactions play important roles in generating sufficient amounts of hydroxyl radicals to purify wastewater. Biochemical processes within living organisms also involve ROS. These species can come from pollutants in

  9. A biological/chemical process for reduced waste and energy consumption: caprolactam production. Final report

    Energy Technology Data Exchange (ETDEWEB)

    NONE

    1996-05-01

    A biological/chemical process for converting cyclohexane into caprolactam was investigated: microorganisms in a bioreactor would be used to convert cyclohexane into caprolactone followed by chemical synthesis of caprolactam using ammonia. Four microorganisms were isolated from natural soil and water, that can utilize cyclohexane as a sole source of C and energy for growth. They were shown to have the correct metabolic intermediates and enzymes to convert cyclohexane into cyclohexanol, cyclohexanone, and caprolactone. Genetic techniques to create and select for caprolactone hydrolase negative-mutants were developed; those are used to convert cyclohexane into caprolactone but, because of the block, are unable to metabolize the caprolactone further. Because of a new nylon carpet reycle process and the long time frame for a totally new bioprocess, a limited study was done to evaluate whether a simplified bioprocess to convert cyclohexanol into cyclohexanone or caprolactone was feasible; growth rates and key enzyme levels were measured in a collection of microorganisms that metabolize cyclohexanol to determine if the bioactivity is high enough to support an economical cyclohexanol bioprocess. Although these microorganisms had sufficient bioactivity, they could tolerate only low levels (<1%) of cyclohexanol and thus are not suitable for developing a cost effective bioprocess because of the high cost of dilute product recovery.

  10. In vitro biological outcome of laser application for modification or processing of titanium dental implants.

    Science.gov (United States)

    Hindy, Ahmed; Farahmand, Farzam; Tabatabaei, Fahimeh Sadat

    2017-07-01

    There are numerous functions for laser in modern implant dentistry including surface treatment, surface coating, and implant manufacturing. As laser application may potentially improve osseointegration of dental implants, we systematically reviewed the literature for in vitro biological responses to laser-modified or processed titanium dental implants. The literature was searched in PubMed, ISI Web, and Scopus, using keywords "titanium dental implants," "laser," "biocompatibility," and their synonyms. After screening the 136 references obtained, 28 articles met the inclusion criteria. We found that Nd:YAG laser was the most commonly used lasers in the treatment or processing of titanium dental implants. Most of the experiments used cell attachment and cell proliferation to investigate bioresponses of the implants. The most commonly used cells in these assays were osteoblast-like cells. Only one study was conducted in stem cells. These in vitro studies reported higher biocompatibility in laser-modified titanium implants. It seems that laser radiation plays a vital role in cell response to dental implants; however, it is necessary to accomplish more studies using different laser types and parameters on various cells to offer a more conclusive result.

  11. Microbial community analysis involved in the aerobic/extended-idle process performing biological phosphorus removal.

    Science.gov (United States)

    Zeng, Tian-jing; Yang, Guo-jing; Wang, Dong-bo; Li, Xiao-ming; Zheng, Wei; Yang, Qi; Zeng, Guang-ming

    2013-01-01

    Recently, it has been found that biological phosphorus removal can be achieved in an aerobic/extended-idle (AEI) process using both glucose and acetate as the sole substrate. However, the microbial consortiums involved in glucose-fed and acetate-fed systems have not yet been characterized. Thus the aims of this paper were to investigate the diversities and dynamics of bacterial communities during the acclimation period, and to quantify polyphosphate-accumulating organisms (PAOs) and glycogen-accumulating organisms (GAOs) in the systems. The phylogenetic analysis showed that the microbial communities were mainly composed of phylum Proteobacteria, Bacteroidetes, Chlorobi and another six kinds of unclassified bacteria. Fluorescence in-situ hybridization (FISH) analysis revealed that PAOs and GAOs accounted for 43 ± 7 and 16 ± 3% of all bacteria in the glucose-fed system, and 19 ± 4 and 35 ± 5% of total bacteria in the acetate-fed system, respectively. The results showed that the conventional PAOs could thrive in the AEI process, and a defined anaerobic zone was not necessarily required for putative PAOs growth.

  12. A comparative study of the bacterial community in denitrifying and traditional enhanced biological phosphorus removal processes.

    Science.gov (United States)

    Lv, Xiao-Mei; Shao, Ming-Fei; Li, Chao-Lin; Li, Ji; Gao, Xin-Lei; Sun, Fei-Yun

    2014-09-17

    Denitrifying phosphorus removal is an attractive wastewater treatment process due to its reduced carbon source demand and sludge minimization potential. Two lab-scale sequencing batch reactors (SBRs) were operated in alternating anaerobic-anoxic (A-A) or anaerobic-oxic (A-O) conditions to achieve denitrifying enhanced biological phosphate removal (EBPR) and traditional EBPR. No significant differences were observed in phosphorus removal efficiencies between A-A SBR and A-O SBR, with phosphorus removal rates being 87.9% and 89.0% respectively. The community structures in denitrifying and traditional EBPR processes were evaluated by high-throughput sequencing of the PCR-amplified partial 16S rRNA genes from each sludge. The results obtained showed that the bacterial community was more diverse in A-O sludge than in A-A sludge. Taxonomy and β-diversity analyses indicated that a significant shift occurred in the dominant microbial community in A-A sludge compared with the seed sludge during the whole acclimation phase, while a slight fluctuation was observed in the abundance of the major taxonomies in A-O sludge. One Dechloromonas-related OTU outside the 4 known Candidatus "Accumulibacter" clades was detected as the main OTU in A-A sludge at the stationary operation, while Candidatus "Accumulibacter" dominated in A-O sludge.

  13. Roles of extracellular polymeric substances in enhanced biological phosphorus removal process.

    Science.gov (United States)

    Li, Wen-Wei; Zhang, Hai-Ling; Sheng, Guo-Ping; Yu, Han-Qing

    2015-12-01

    Enhanced biological phosphorus removal (EBPR) process is known to mainly rely on the ability of phosphorus-accumulating organisms to take up, transform and store excess amount of phosphorus (P) inside the cells. However, recent studies have revealed considerable accumulation of P also in the extracellular polymeric substances (EPS) of sludge, implying a non-negligible role of EPS in P removal by EBPR sludge. However, the contribution of EPS to P uptake and the forms of accumulated extracellular P vary substantially in different studies, and the underlying mechanism of P transformation and transportation in EPS remains poorly understood. This review provides a new recognition into the P removal process in EBPR system by incorporating the role of EPS. It overviews on the characteristics of P accumulation in EPS, explores the mechanism of P transformation and transportation in EBPR sludge and EPS, summarizes the main influential factors for the P-accumulation properties of EPS, and discusses the remaining knowledge gaps and needed future efforts that may lead to better understanding and use of such an EPS role for maximizing P recovery from wastewater. Copyright © 2015 Elsevier Ltd. All rights reserved.

  14. Cruciform structures are a common DNA feature important for regulating biological processes

    Directory of Open Access Journals (Sweden)

    Arrowsmith Cheryl

    2011-08-01

    Full Text Available Abstract DNA cruciforms play an important role in the regulation of natural processes involving DNA. These structures are formed by inverted repeats, and their stability is enhanced by DNA supercoiling. Cruciform structures are fundamentally important for a wide range of biological processes, including replication, regulation of gene expression, nucleosome structure and recombination. They also have been implicated in the evolution and development of diseases including cancer, Werner's syndrome and others. Cruciform structures are targets for many architectural and regulatory proteins, such as histones H1 and H5, topoisomerase IIβ, HMG proteins, HU, p53, the proto-oncogene protein DEK and others. A number of DNA-binding proteins, such as the HMGB-box family members, Rad54, BRCA1 protein, as well as PARP-1 polymerase, possess weak sequence specific DNA binding yet bind preferentially to cruciform structures. Some of these proteins are, in fact, capable of inducing the formation of cruciform structures upon DNA binding. In this article, we review the protein families that are involved in interacting with and regulating cruciform structures, including (a the junction-resolving enzymes, (b DNA repair proteins and transcription factors, (c proteins involved in replication and (d chromatin-associated proteins. The prevalence of cruciform structures and their roles in protein interactions, epigenetic regulation and the maintenance of cell homeostasis are also discussed.

  15. Development of Biological Coal Gasification (MicGAS Process). Topical report, July 1991--February 1993

    Energy Technology Data Exchange (ETDEWEB)

    Srivastava, K.C.

    1993-06-01

    Laboratory and bench scale reactor research carried out during the report period confirms the feasibility of biomethanation of Texas lignite (TxL) and some other low-rank coals to methane by specifically developed unique anaerobic microbial consortia. The data obtained demonstrates specificity of a particular microbial consortium to a given lignite. Development of a suitable microbial consortium is the key to the success of the process. The Mic-1 consortium was developed to tolerate higher coal loadings of 1 and 5% TxL in comparison to initial loadings of 0.01% and 0.1% TxL. Moreover, the reaction period was reduced from 60 days to 14 to 21 days. The cost of the culture medium for bioconversion was reduced by studying the effect of different growth factors on the biomethanation capability of Mic-1 consortium. Four different bench scale bioreactor configurations, namely Rotating Biological Contactor (RBC), Upflow Fluidized Bed Reactor (UFBR), Trickle Bed Reactor (TBR), and Continuously Stirred Tank Reactor (CSTR) were evaluated for scale up studies. Preliminary results indicated highest biomethanation of TxL by the Mic-1 consortium in the CSTR, and lowest in the trickle bed reactor. However, highest methane production and process efficiency were obtained in the RBC.

  16. Comparison of biological and advanced treatment processes for ciprofloxacin removal in a raw hospital wastewater.

    Science.gov (United States)

    Guney, Gokce; Sponza, Delia Teresa

    2016-12-01

    The treatability of ciprofloxacin (CIP) antibiotic was investigated using a single aerobic, a single anaerobic, an anaerobic/aerobic sequential reactor system, a sonicator and a photocatalytic reactor with TiO2 nanoparticles in a raw hospital wastewater in Izmir, Turkey. The effects of increasing organic loading on the performance of all biological systems were investigated, while the effects of power and time on the yields of sonication and photocatalysis were determined. The maximum COD and CIP yields were 95% and 83% in anaerobic/aerobic sequential reactor system at an HRT of 10 days and at an OLR of 0.19 g COD/L × day after 50 days of incubation, respectively. The maximum CH4 gas production was 580 mL day(-1) at an HRT of 6.7 days. The maximum COD and CIP yields were 95% and 81% after 45 min sonication time at a power of 640 W and a frequency of 35 kHz while the maximum yield of COD and CIP were 98% and 88% after 45 min UV irradiation time with a UV power of 210 W using 0.5 g L(-1) TiO2. Among the aforementioned treatment processes, it was found that the highest treatment yields for COD (98%) and CIP (88%) pollutants were obtained with the photocatalytic process due to high OH((●)) radical productions.

  17. The impact of environmental stress on male reproductive development in plants: biological processes and molecular mechanisms.

    Science.gov (United States)

    De Storme, Nico; Geelen, Danny

    2014-01-01

    In plants, male reproductive development is extremely sensitive to adverse climatic environments and (a)biotic stress. Upon exposure to stress, male gametophytic organs often show morphological, structural and metabolic alterations that typically lead to meiotic defects or premature spore abortion and male reproductive sterility. Depending on the type of stress involved (e.g. heat, cold, drought) and the duration of stress exposure, the underlying cellular defect is highly variable and either involves cytoskeletal alterations, tapetal irregularities, altered sugar utilization, aberrations in auxin metabolism, accumulation of reactive oxygen species (ROS; oxidative stress) or the ectopic induction of programmed cell death (PCD). In this review, we present the critically stress-sensitive stages of male sporogenesis (meiosis) and male gametogenesis (microspore development), and discuss the corresponding biological processes involved and the resulting alterations in male reproduction. In addition, this review also provides insights into the molecular and/or hormonal regulation of the environmental stress sensitivity of male reproduction and outlines putative interaction(s) between the different processes involved.

  18. Combined Fenton oxidation and aerobic biological processes for treating a surfactant wastewater containing abundant sulfate.

    Science.gov (United States)

    Wang, Xiao-Jun; Song, Yang; Mai, Jun-Sheng

    2008-12-30

    The present study is to investigate the treatment of a surfactant wastewater containing abundant sulfate by Fenton oxidation and aerobic biological processes. The operating conditions have been optimized. Working at an initial pH value of 8, a Fe2+ dosage of 600mgL(-1) and a H2O2 dosage of 120mgL(-1), the chemical oxidation demand (COD) and linear alkylbenzene sulfonate (LAS) were decreased from 1500 and 490mgL(-1) to 230 and 23mgL(-1) after 40min of Fenton oxidation, respectively. Advanced oxidation pretreatment using Fenton reagent was very effective at enhancing the biodegradability of this kind of wastewater. The wastewater was further treated by a bio-chemical treatment process based on an immobilized biomass reactor with a hydraulic detention time (HRT) of 20h after Fenton oxidation pretreatment under the optimal operating conditions. It was found that the COD and LAS of the final effluent were less than 100 and 5mgL(-1), corresponding to a removal efficiencies of over 94% and 99%, respectively.

  19. Managing acute invasive fungal sinusitis.

    Science.gov (United States)

    Dwyhalo, Kristina M; Donald, Carrlene; Mendez, Anthony; Hoxworth, Joseph

    2016-01-01

    Acute invasive fungal sinusitis is the most aggressive form of fungal sinusitis and can be fatal, especially in patients who are immunosuppressed. Early diagnosis and intervention are crucial and potentially lifesaving, so primary care providers must maintain a high index of suspicion for this disease. Patients may need to be admitted to the hospital for IV antifungal therapy and surgical debridement.

  20. Current management of fungal infections.

    NARCIS (Netherlands)

    Meis, J.F.G.M.; Verweij, P.E.

    2001-01-01

    The management of superficial fungal infections differs significantly from the management of systemic fungal infections. Most superficial infections are treated with topical antifungal agents, the choice of agent being determined by the site and extent of the infection and by the causative organism,

  1. The evolution of fungal epiphytes

    NARCIS (Netherlands)

    Hongsanan, S.; Sánchez-Ramírez, S.; Crous, P.W.; Ariyawansa, H.A.; Zhao, R.L.; Hyde, K.D.

    2016-01-01

    Fungal epiphytes are a polyphyletic group found on the surface of plants, particularly on leaves, with a worldwide distribution. They belong in the phylum Ascomycota, which contains the largest known number of fungal genera. There has been little research dating the origins of the common ancestors o

  2. REE incorporation and behaviour in aquatic turtles as a consequence of environmental exposure and biological processes

    Science.gov (United States)

    Censi, P.; Randazzo, L. A.; D'Angelo, S.; Cuttitta, A.; Saiano, F.

    2012-04-01

    features in whole blood samples suggest that behaviour of these elements can be influenced by vital effects, probably related to the phosphate deposition during formation of turtle skeleton. In order to corroborate this suggestion a portion of esoskeleton sample coming from an Emys trinacris individual was analysed and REE concentrations normalised to the environmental water. Observed features of REE pattern from this material strongly agree with above the mentioned hypothesis being MREE enriched, from Nd to Ho, with respect to LREE and HREE. Therefore collected data indicate that REE contents in blood of Emys trinacris is influenced by exposure to environmental conditions but elemental behaviour in whole blood is driven by biological processes, probably associated to formation of esoskeleton that can be subjected to the incorporation of radionuclides.

  3. Kinetic analysis of anaerobic phosphorus release during biological phosphorus removal process

    Institute of Scientific and Technical Information of China (English)

    DOU Junfeng; LUO Guyuan; LIU Xiang

    2007-01-01

    Enhanced biological phosphorus removal(EBPR)is a commonly used and sustainable method for phosphorus removal from wastewater.Poly-β-hydroxybutyrate(PHB),polyphosphate,and glycogen are three kinds of intracellular storage polymers in phosphorus accumulation organisms.The variation of these polymers under different conditions has an apparent influence on anaerobic phosphorus release,which is very important for controlling the performance of EBPR.To obtain the mechanism and kinetic character of anaerobic phosphorus release,a series of batch experiments were performed using the excessively aerated sludge from the aerobic unit of the biological phosphorus removal system in this study.The results showed that the volatile suspended solid(vss)had an increasing trend,while the mixed liquid suspended sludge(MLSS)and ashes were reduced during the anaerobic phosphorus release process.The interruption of anaerobic HAc-uptake and phosphorus-release occurs when the glycogen in the phosphorus-accumulating-organisms is exhausted.Under the condition of lower initial HAc-COD,HAc became the limiting factor after some time for anaerobic HAc uptake.Under the condition of higher initial HAc-COD,HAc uptake was stopped because of the depletion of glycogen in the microorganisms.The mean ratio of △ρP/△ρPHB,△ρGLY/△ρPHB,△ρP/△COD,and △ρPHB/△COD was 0.48,0.50,0.44.and 0.92.respectively,which was nearly the same as the theoretical value.The calibrated kinetic parameters of the HAc-uptake and phosphorus-release model were evaluated as Kgly was 0.005,and KCOD was 3 mg/L.An apparently linear correlation was observed between the ratio of △ρP/△COD and pH of the solution,and the equation between them was obtained in this study.

  4. Extended morphological processing: a practical method for automatic spot detection of biological markers from microscopic images

    Directory of Open Access Journals (Sweden)

    Kimori Yoshitaka

    2010-07-01

    Full Text Available Abstract Background A reliable extraction technique for resolving multiple spots in light or electron microscopic images is essential in investigations of the spatial distribution and dynamics of specific proteins inside cells and tissues. Currently, automatic spot extraction and characterization in complex microscopic images poses many challenges to conventional image processing methods. Results A new method to extract closely located, small target spots from biological images is proposed. This method starts with a simple but practical operation based on the extended morphological top-hat transformation to subtract an uneven background. The core of our novel approach is the following: first, the original image is rotated in an arbitrary direction and each rotated image is opened with a single straight line-segment structuring element. Second, the opened images are unified and then subtracted from the original image. To evaluate these procedures, model images of simulated spots with closely located targets were created and the efficacy of our method was compared to that of conventional morphological filtering methods. The results showed the better performance of our method. The spots of real microscope images can be quantified to confirm that the method is applicable in a given practice. Conclusions Our method achieved effective spot extraction under various image conditions, including aggregated target spots, poor signal-to-noise ratio, and large variations in the background intensity. Furthermore, it has no restrictions with respect to the shape of the extracted spots. The features of our method allow its broad application in biological and biomedical image information analysis.

  5. Biological Effects of bFGF on Murine Endometrium in the Process of Blastocyst Implantation

    Institute of Scientific and Technical Information of China (English)

    赤晶; 高英茂; 刘凯; 李少玲; 张保华; 邴鲁军

    2001-01-01

    Objective To study the biological effects of basic fibroblast growth factor (bFGF) in the process of embryo implantation in mouse Materials & Methods The transcription and translocation of bFGF and its receptor (Flg) in endometrium of 60 Kunming mice were detected with the methods of im munohistochemistry and hybridization in situ. Endometrial tissue was obtained on the day 4 from pregnancy mice. The cells were cultured and attached in 1 : 1 F12/DMEM (vol/vol) supplemented with 10% FBS for 24 h The medium supplemented with 1% FBS and bFGF (50 ng/mL), anti-bFGF antibody (250 ng/mL) or anti-Flg antibody (250 ng/mL) was added in different culture wells. At different culture stages, the biological effect of bFGF on cell survival and expression of LN, FN and c-myc was detected by using MTT analysis, immunohistochemistry and hybridization in situ.Results bFGF and Flg was located in luminal and glandual cells on day 4 and 5 of pregnancy. Embryonic implantation was accompanied by increased bFGF and its recep tor in decidual cell around implantation site, in which low level of bFGF and its recep tor was apparent on day 7 and 8 of pregnancy. In vitro, the OD value in culture wells containing bFGF was significantly higher than that in control group. Exogenous bFGF promoted the expression of LN, FN and c-myc.Conclusion Changes in the cell-specific distribution of bFGF and the effects of bFGF on cultured endometrial cells imply a multifunctional role of the growth factor in uterine cell proliferation, differentiation and embryonic implantation.

  6. The impact of sea water flushing on biological nitrification-denitrification activated sludge sewage treatment process.

    Science.gov (United States)

    Yu, S M; Leung, W Y; Ho, K M; Greenfield, P F; Eckenfelder, W W

    2002-01-01

    The process performance of the two largest activated sludge processes in Hong Kong, the Sha Tin and the Tai Po Sewage Treatment Works (STW), deteriorated in the initial period after the introduction of seawater flushing in 1995 and 1996, respectively. High effluent ammonia nitrogen (NH4-N) and total suspended solids (TSS) in excess of the discharge standards resulted from incomplete nitrification and changes in floc characteristics. A desktop study on the inhibitory effects of salinity, particularly on nitrification, was subsequently conducted using the Tai Po STW operating data. To assist the upgrade of the Sha Tin STW a five-month extensive bench-scale investigation on a simple but flexible modified Ludzack-Ettinger configuration with bio-selector was conducted to quantify the inhibitory effects due to the saline concentration. The Sha Tin STW upgrade consists of restoration of its original design capacity (conventional process) of 205,000 m3/day from its currently much reduced capacity as a Bardenpho process. Only the volume of the existing biological process and clarifier is to be utilized. The saline concentration ranges from 3,500 up to 6,500 mg Cl-/L, both daily and seasonally. High and greatly fluctuating saline concentrations have been known to inhibit nitrification. Design consideration should also be given to the peak daily and seasonal TKN loading of up to three times the average. Although the nitrifiers maximum specific growth rate was significantly reduced to a low 0.25 day(-1), the inhibition was considered to be tolerable with effluent NH4-N and NO3-N consistently at < 1 and < 6 mg/L. The bio-selector was demonstrated to be efficient in control of sludge foaming and bulking with SVI consistently < or = 125 mL/g. Results from the IAWO Model No. 1 and the hydraulic model of the secondary clarifiers allowed overall process capacity maximization. With an anoxic mass fraction of 25-30%, operating sludge age of 9-14 days and SVI < or = 125 mL/g, both the

  7. Pyrosequencing Reveals Fungal Communities in the Rhizosphere of Xinjiang Jujube

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    Peng Liu

    2015-01-01

    Full Text Available Fungi are important soil components as both decomposers and plant symbionts and play a major role in ecological and biogeochemical processes. However, little is known about the richness and structure of fungal communities. DNA sequencing technologies allow for the direct estimation of microbial community diversity, avoiding culture-based biases. We therefore used 454 pyrosequencing to investigate the fungal communities in the rhizosphere of Xinjiang jujube. We obtained no less than 40,488 internal transcribed spacer (ITS rDNA reads, the number of each sample was 6943, 6647, 6584, 6550, 6860, and 6904, and we used bioinformatics and multivariate statistics to analyze the results. The index of diversity showed greater richness in the rhizosphere fungal community of a 3-year-old jujube than in that of an 8-year-old jujube. Most operational taxonomic units belonged to Ascomycota, and taxonomic analyses identified Hypocreales as the dominant fungal order. Our results demonstrated that the fungal orders are present in different proportions in different sampling areas. Redundancy analysis (RDA revealed a significant correlation between soil properties and the abundance of fungal phyla. Our results indicated lower fungal diversity in the rhizosphere of Xinjiang jujube than that reported in other studies, and we hope our findings provide a reference for future research.

  8. Sensitivity of the brown dog tick, Rhipicephalus sanguineus to fungal pathogens

    Science.gov (United States)

    The brown dog tick, Rhipicephalus sanguineus, remains a primary ectoparasite concern in many dog kennels, shelters and residential homes. Challenges such as effective pesticide delivery and pesticide resistance confound control efforts. Use of biological control approaches such as fungal pathogen...

  9. Development of Fungal Applications on Netting Substrates for Malaria Vector Control

    NARCIS (Netherlands)

    Farenhorst, M.; Hilhorst, A.; Thomas, M.B.; Knols, B.G.J.

    2011-01-01

    Mosquito resistance to chemical insecticides is considered a serious threat for the sustainable use of contemporary malaria vector control methods. Fungal entomopathogens show potential as alternative biological control agents against (insecticide-resistant) anophelines. This study was designed to

  10. Development of Fungal Applications on Netting Substrates for Malaria Vector Control

    NARCIS (Netherlands)

    Farenhorst, M.; Hilhorst, A.; Thomas, M.B.; Knols, B.G.J.

    2011-01-01

    Mosquito resistance to chemical insecticides is considered a serious threat for the sustainable use of contemporary malaria vector control methods. Fungal entomopathogens show potential as alternative biological control agents against (insecticide-resistant) anophelines. This study was designed to t

  11. Fungal Biomineralization of Manganese as a Novel Source of Electrochemical Materials.

    Science.gov (United States)

    Li, Qianwei; Liu, Daoqing; Jia, Zheng; Csetenyi, Laszlo; Gadd, Geoffrey Michael

    2016-04-04

    Electrical energy storage systems such as rechargeable lithium-ion batteries (LiBs) and supercapacitors have shown great promise as sustainable energy storage systems [1-4]. However, LiBs have high specific energy density (energy stored per unit mass) and act as slow, steady suppliers for large energy demands. In contrast, supercapacitors possess high specific power (energy transferred per unit mass per unit time) and can charge and discharge quickly for low energy demands. In LiBs, graphite is the most common anode material, although high electrolyte sensitivity and low charge capacity can limit performance. Efforts have been made to improve LiB or supercapacitor performance using alternative electrode materials such as carbon nanotubes and manganese oxides (MnxOy) [3, 5-14]. Microorganisms play significant roles in metal and mineral biotransformations [15-22]. Fungi possess various biomineralization properties, as well as a filamentous mycelium, which may provide mechanical support for mineral deposition. Although some research has been carried out on the application of biological materials as carbon precursors [8, 9, 23], biomineralizing fungal systems have not been investigated. In this research, novel electrochemical materials have been synthesized using a fungal Mn biomineralization process based on urease-mediated Mn carbonate bioprecipitation [24]. The carbonized fungal biomass-mineral composite (MycMnOx/C) showed a high specific capacitance (>350 F g(-1)) in a supercapacitor and excellent cycling stability (>90% capacity was retained after 200 cycles) in LiBs. This is the first demonstration of the synthesis of electrode materials using a fungal biomineralization process, thus providing a novel strategy for the preparation of sustainable electrochemical materials. Copyright © 2016 Elsevier Ltd. All rights reserved.

  12. Coking wastewater treatment for industrial reuse purpose: Combining biological processes with ultrafiltration, nanofiltration and reverse osmosis

    Institute of Scientific and Technical Information of China (English)

    Xuewen Jin; Enchao Li; Shuguang Lu; Zhaofu Qiu; Qian Sui

    2013-01-01

    A full-scale plant using anaerobic,anoxic and oxic processes (A1/A2/O),along with a pilot-scale membrane bioreactor (MBR),nanofiltration (NF) and reverse osmosis (RO) integrated system developed by Shanghai Baosteel Chemical Co.Ltd.,was investigated to treat coking wastewater for industrial reuse over a period of one year.The removals reached 82.5% (COD),89.6% (BOD),99.8% (ammonium nitrogen),99.9% (phenol),44.6% (total cyanide (T-CN)),99.7% (thiocyanide (SCN-)) and 8.9% (fluoride),during the A1/A2/O biological treatment stage,and all parameters were further reduced by over 96.0%,except for fluoride (86.4%),in the final discharge effluent from the currently operating plant.The pilot-scale MBR process reduced the turbidity to less than 0.65 NTU,and most of the toxic organic compounds were degraded or intercepted by the A1/A2/O followed MBR processes.In addition,parameters including COD,T-CN,total nitrogen,fluoride,chloride ion,hardness and conductivity were significantly reduced by the NF-RO system to a level suitable for industrial reuse,with a total water production ratio of 70.7%.However,the concentrates from the NF and RO units were highly polluted and should be disposed of properly or further treated before being discharged.

  13. Manfred Girbardt and Charles Bracker: outstanding pioneers in fungal microscopy.

    Science.gov (United States)

    Bartnicki-Garcia, Salomon

    2015-01-01

    Midway through the twentieth century, the availability of new and improved optical and electronic microscopes facilitated rapid advances in the elucidation of the fine structure of fungal cells. In this Essay, I pay tribute to Manfred Girbardt (1919-1991) and Charles Bracker (1938-2012)—two individuals who, despite being separated by geography and the restrictions of the Cold War, both made equally fundamental discoveries in fungal cell ultrastructure and set high standards for specimen manipulation and image processing.

  14. Advanced low carbon-to-nitrogen ratio wastewater treatment by electrochemical and biological coupling process.

    Science.gov (United States)

    Deng, Shihai; Li, Desheng; Yang, Xue; Zhu, Shanbin; Xing, Wei

    2016-03-01

    Nitrogen pollution in ground and surface water significantly affects the environment and its organisms, thereby leading to an increasingly serious environmental problem. Such pollution is difficult to degrade because of the lack of carbon sources. Therefore, an electrochemical and biological coupling process (EBCP) was developed with a composite catalytic biological carrier (CCBC) and applied in a pilot-scale cylindrical reactor to treat wastewater with a carbon-to-nitrogen (C/N) ratio of 2. The startup process, coupling principle, and dynamic feature of the EBCP were examined along with the effects of hydraulic retention time (HRT), dissolved oxygen (DO), and initial pH on nitrogen removal. A stable coupling system was obtained after 51 days when plenty of biofilms were cultivated on the CCBC without inoculation sludge. Autotrophic denitrification, with [Fe(2+)] and [H] produced by iron-carbon galvanic cells in CCBC as electron donors, was confirmed by equity calculation of CODCr and nitrogen removal. Nitrogen removal efficiency was significantly influenced by HRT, DO, and initial pH with optimal values of 3.5 h, 3.5 ± 0.1 mg L(-1), and 7.5 ± 0.1, respectively. The ammonia, nitrate, and total nitrogen (TN) removal efficiencies of 90.1 to 95.3 %, 90.5 to 99.0 %, and 90.3 to 96.5 % were maintained with corresponding initial concentrations of 40 ± 2 mg L(-1) (NH3-N load of 0.27 ± 0.01 kg NH3-N m(-3) d(-1)), 20 ± 1 mg L(-1), and 60 ± 2 mg L(-1) (TN load of 0.41 ± 0.02 kg TN m(-3) d(-1)). Based on the Eckenfelder model, the kinetics equation of the nitrogen transformation along the reactor was N e  = N 0 exp (-0.04368 h/L(1.8438)). Hence, EBCP is a viable method for advanced low C/N ratio wastewater treatment.

  15. Processes that Drove the Transition from Chemistry to Biology: Concepts and Evidence

    Science.gov (United States)

    Pohorille, Andrew

    2012-01-01

    above background was evolved in vitro. This enzyme does not look like any contemporary protein. It is very flexible and its structure is kept together just by a single salt bridge between a charged residue and a coordinating zinc. A similar picture emerges from studies of simple transmembrane channels that mimic those in ancestral cells. Again, they are extremely flexible and do not form a conventional pore. Yet, they efficiently mediate ion transport. Studies on simple proteins that are on-going in several laboratories hold promise of revealing crucial links between chemical and biological catalysis and other ubiquitous cell functions. Interaction between composition, growth and division of protobiologically relevant vesicles and metabolic reactions that they encapsulate is an example of coupling between simple functions that promotes reproduction and evolution. Recent studies have demonstrated possible mechanisms by which vesicles might have evolved their composition from fatty acids to phospholipids, thus facilitating a number of new cellular functions. Conversely, it has been also demonstrated that an encapsulated metabolism might drive vesicle division. These are, again, examples of processes that might have driven the transition from chemistry to biology.

  16. Patterns of natural fungal community assembly during initial decay of coniferous and broadleaf tree logs

    NARCIS (Netherlands)

    Van der Wal, A.; Klein Gunnewiek, P.J.A.; Cornelissen, J.H.C.; Crowther, Thomas W.; De Boer, W.

    2016-01-01

    Community assembly processes do not only influence community structure, but can also affect ecosystem processes. To understand the effect of initial community development on ecosystem processes, we studied natural fungal community dynamics during initial wood decay. We hypothesize that fungal commun

  17. Patterns of natural fungal community assembly during initial decay of coniferous and broadleaf tree logs

    NARCIS (Netherlands)

    Wal, van der Annemieke; Klein Gunnewiek, P.J.A.; Cornelissen, J.H.C.; Crowther, Thomas W.; Boer, de Wietse

    2016-01-01

    Community assembly processes do not only influence community structure, but can also affect ecosystem processes. To understand the effect of initial community development on ecosystem processes, we studied natural fungal community dynamics during initial wood decay. We hypothesize that fungal com

  18. Chitosan polymer sizes effective in inducing phytoalexin accumulation and fungal suppression are verified with synthesized oligomers.

    Science.gov (United States)

    Hadwiger, L A; Ogawa, T; Kuyama, H

    1994-01-01

    Biologically derived chitosan has been reported to induce pisatin and disease resistance response proteins in pea tissue and also to inhibit the germination and growth of some fungal pathogens. Stereo-controlled synthesis of chitosan tetramer, hexamer, and octamer allowed the precise verification of oligomer size required for biological activity. The octameric oligomer optimally induced pisatin accumulation and inhibited fungal growth, verifying previous results obtained with column-purified oligomers derived from crab shells.

  19. Removal of Refractory Organics from Biologically Treated Landfill Leachate by Microwave Discharge Electrodeless Lamp Assisted Fenton Process

    Directory of Open Access Journals (Sweden)

    Jiuyi Li

    2015-01-01

    Full Text Available Biologically treated leachate usually contains considerable amount of refractory organics and trace concentrations of xenobiotic pollutants. Removal of refractory organics from biologically treated landfill leachate by a novel microwave discharge electrodeless lamp (MDEL assisted Fenton process was investigated in the present study in comparison to conventional Fenton and ultraviolet Fenton processes. Conventional Fenton and ultraviolet Fenton processes could substantially remove up to 70% of the refractory organics in a membrane bioreactor treated leachate. MDEL assisted Fenton process achieved excellent removal performance of the refractory components, and the effluent chemical oxygen demand concentration was lower than 100 mg L−1. Most organic matters were transformed into smaller compounds with molecular weights less than 1000 Da. Ten different polycyclic aromatic hydrocarbons were detected in the biologically treated leachate, most of which were effectively removed by MDEL-Fenton treatment. MDEL-Fenton process provides powerful capability in degradation of refractory and xenobiotic organic pollutants in landfill leachate and could be adopted as a single-stage polishing process for biologically treated landfill leachate to meet the stringent discharge limit.

  20. A DO- and pH-Based Early Warning System of Nitrification Inhibition for Biological Nitrogen Removal Processes

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    Hyunook Kim

    2012-11-01

    Full Text Available In Korea, more than 80% of municipal wastewater treatment plants (WWTPs with capacities of 500 m3·d−1 or more are capable of removing nitrogen from wastewater through biological nitrification and denitrification processes. Normally, these biological processes show excellent performance, but if a toxic chemical is present in the influent to a WWTP, the biological processes (especially, the nitrification process may be affected and fail to function normally; nitrifying bacteria are known very vulnerable to toxic substances. Then, the toxic compound as well as the nitrogen in wastewater may be discharged into a receiving water body without any proper treatment. Moreover, it may take significant time for the process to return back its normal state. In this study, a DO- and pH-based strategy to identify potential nitrification inhibition was developed to detect early the inflow of toxic compounds to a biological nitrogen removal process. This strategy utilizes significant changes observed in the oxygen uptake rate and the pH profiles of the mixed liquor when the activity of nitrifying bacteria is inhibited. Using the strategy, the toxicity from test wastewater with 2.5 mg·L−1 Hg2+, 0.5 mg·L−1 allythiourea, or 0.25 mg·L−1 chloroform could be successfully detected.

  1. Removal characteristics of pharmaceuticals and personal care products: Comparison between membrane bioreactor and various biological treatment processes.

    Science.gov (United States)

    Park, Junwon; Yamashita, Naoyuki; Park, Chulhwi; Shimono, Tatsumi; Takeuchi, Daniel M; Tanaka, Hiroaki

    2017-07-01

    We investigated the concentrations of 57 target compounds in the different treatment units of various biological treatment processes in South Korea, including modified biological nutrient removal (BNR), anaerobic-anoxic-aerobic (A2O), and membrane bioreactor (MBR) systems, to elucidate the occurrence and removal fates of PPCPs in WWTPs. Biological treatment processes appeared to be most effective in eliminating most PPCPs, whereas some PPCPs were additionally removed by post-treatment. With the exception of the MBR process, the A2O system was effective for PPCPs removal. As a result, removal mechanisms were evaluated by calculating the mass balances in A2O and a lab-scale MBR process. The comparative study demonstrated that biodegradation was largely responsible for the improved removal performance found in lab-scale MBR (e.g., in removing bezafibrate, ketoprofen, and atenolol). Triclocarban, ciprofloxacin, levofloxacin and tetracycline were adsorbed in large amounts to MBR sludge. Increased biodegradability was also observed in lab-scale MBR, despite the highly adsorbable characteristics. The enhanced biodegradation potential seen in the MBR process thus likely plays a key role in eliminating highly adsorbable compounds as well as non-degradable or persistent PPCPs in other biological treatment processes. Copyright © 2017 Elsevier Ltd. All rights reserved.

  2. Social inclusion enhances biological motion processing: a functional near-infrared spectroscopy study.

    Science.gov (United States)

    Bolling, Danielle Z; Pelphrey, Kevin A; Kaiser, Martha D

    2013-04-01

    Humans are especially tuned to the movements of other people. Neural correlates of this social attunement have been proposed to lie in and around the right posterior superior temporal sulcus (STS) region, which robustly responds to biological motion in contrast to a variety of non-biological motions. This response persists even when no form information is provided, as in point-light displays (PLDs). The aim of the current study was to assess the ability of functional near-infrared spectroscopy (fNIRS) to reliably measure brain responses to PLDs of biological motion, and determine the sensitivity of these responses to interpersonal contextual factors. To establish reliability, we measured brain activation to biological motion with fNIRS and functional magnetic resonance imaging (fMRI) during two separate sessions in an identical group of 12 participants. To establish sensitivity, brain responses to biological motion measured with fNIRS were subjected to an additional social manipulation where participants were either socially included or excluded before viewing PLDs of biological motion. Results revealed comparable brain responses to biological motion using fMRI and fNIRS in the right supramarginal gyrus. Further, social inclusion increased brain responses to biological motion in right supramarginal gyrus and posterior STS. Thus, fNIRS can reliably measure brain responses to biological motion and can detect social experience-dependent modulations of these brain responses.

  3. DECOLORIZATION AND BIOLOGICAL DEGRADATION OF AZO DYE REACTIVE RED2 BY ANAEROBIC/AEROBIC SEQUENTIAL PROCESS

    Directory of Open Access Journals (Sweden)

    A. Naimabadi ، H. Movahedian Attar ، A. Shahsavani

    2009-04-01

    Full Text Available This study investigates the anaerobic treatability of reactive Red2 in an anaerobic/aerobic sequential process. Laboratory scale anaerobic baffled reactor and fixed activated sludge reactor were operated at different organic loadings and hydraulic retention times. The effects of shock dye concentration on the chemical oxygen demand and color removal efficiencies were investigated in the anaerobic baffled reactor. The effect of hydraulic retention time on the color and chemical oxygen demand removal efficiencies were also investigated in the aerobic reactor. The studies were carried out in continuous mode and the effluent of the anaerobic baffled reactor was used as feed for the fixed activated sludge reactor. Chemical oxygen demand removal efficiency of 54.5% was obtained at HRT =1 day in the anaerobic reactor. The average color removal was 89.5%. Chemical oxygen demand removal efficiency of 69% was obtained at HRT =7 h in the aerobic fixed activated sludge reactor. A slight decrease of the color was also observed in the aerobic reactor. This investigation has shown that successful treatment of a highly colored wastewater is possible in the anaerobic baffled reactor. Also the results showed that, anaerobic biological system has higher efficiency in dye removal than fixed activated sludge system, while aerobic system has higher efficiency in chemical oxygen demand removal comparing with the anaerobic baffled reactor.

  4. Extraction of flavonoids from Tagetes patula: process optimization and screening for biological activity

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    Vanessa M. Munhoz

    2014-10-01

    Full Text Available The flowers of Tagetes patula L., Asteraceae, commonly known as French marigold, are used in folk medicine as an antiseptic, diuretic, blood purifier and insect repellent. This study was conducted to optimize the extraction process through the biomonitoring of flavonoids, using a statistical mixture simplex-centroid design, to evaluate the effect of the solvents water, ethanol and acetone, as well as mixtures of these solvents, assessed by the total flavonoid content. The extracts were tested for dry residue, radical scavenging activity, chromatographic profile, and larvicidal activity. The acetone extract had the highest total flavonoid content, 25.13 ± 1.02% (4.07%; and the best radical scavenging activity, with IC50 of 15.74 μg/ml ± 1.09 (6.92%, but with lower dry residue, 6.62 ± 1.33% (20.10%. The water extracts showed higher levels of dry residue, but lower total flavonoid content and radical scavenging activity than the acetone extract. The positive correlation between the total flavonoid content and radical scavenging activity of the extracts showed that flavonoids contribute significantly to the antioxidant capacity. The statistical mixture design allowed us to optimize the extraction of flavonoids from flowers of T. patula, with acetone as the best extraction solvent. Preliminary studies on the biological activity of the optimized extracts demonstrated a larvicidal effect of the acetone extract on Aedes aegypti mosquitoes.

  5. The microbial community in a high-temperature enhanced biological phosphorus removal (EBPR process

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    Ying Hui Ong

    2016-01-01

    Full Text Available An enhanced biological phosphorus removal (EBPR process operated at a relatively high temperature, 28 °C, removed 85% carbon and 99% phosphorus from wastewater over a period of two years. This study investigated its microbial community through fluorescent in situ hybridization (FISH and clone library generation. Through FISH, considerably more Candidatus “Accumulibacter phosphatis” (Accumulibacter-polyphosphate accumulating organisms (PAOs than Candidatus ‘Competibacter phosphatis’ (Competibacter-glycogen accumulating organisms were detected in the reactor, at 36 and 7% of total bacterial population, respectively. A low ratio of Glycogen/Volatile Fatty Acid of 0.69 further indicated the dominance of PAOs in the reactor. From clone library generated, 26 operational taxonomy units were retrieved from the sludge and a diverse population was shown, comprising Proteobacteria (69.6%, Actinobacteria (13.7%, Bacteroidetes (9.8%, Firmicutes (2.94%, Planctomycetes (1.96%, and Acidobacteria (1.47%. Accumulibacter are the only recognized PAOs revealed by the clone library. Both the clone library and FISH results strongly suggest that Accumulibacter are the major PAOs responsible for the phosphorus removal in this long-term EBPR at relatively high temperature.

  6. Biological Denitrification of High Nitrate Processing Wastewaters from Explosives Production Plant.

    Science.gov (United States)

    Cyplik, Paweł; Marecik, Roman; Piotrowska-Cyplik, Agnieszka; Olejnik, Anna; Drożdżyńska, Agnieszka; Chrzanowski, Lukasz

    2012-05-01

    Wastewater samples originating from an explosives production plant (3,000 mg N l(-1) nitrate, 4.8 mg l(-1) nitroglycerin, 1.9 mg l(-1) nitroglycol and 1,200 mg l(-1) chemical oxygen demand) were subjected to biological purification. An attempt to completely remove nitrate and to decrease the chemical oxygen demand was carried out under anaerobic conditions. A soil isolated microbial consortium capable of biodegrading various organic compounds and reduce nitrate to atmospheric nitrogen under anaerobic conditions was used. Complete removal of nitrates with simultaneous elimination of nitroglycerin and ethylene glycol dinitrate (nitroglycol) was achieved as a result of the conducted research. Specific nitrate reduction rate was estimated at 12.3 mg N g(-1) VSS h(-1). Toxicity of wastewater samples during the denitrification process was studied by measuring the activity of dehydrogenases in the activated sludge. Mutagenicity was determined by employing the Ames test. The maximum mutagenic activity did not exceed 0.5. The obtained results suggest that the studied wastewater samples did not exhibit mutagenic properties.

  7. Folic acid: nutritional biochemistry, molecular biology, and role in disease processes.

    Science.gov (United States)

    Lucock, M

    2000-01-01

    This paper reviews the chemistry, metabolism, and molecular biology of folic acid, with a particular emphasis on how it is, or may be, involved in many disease processes. Folic acid prevents neural tube defects like spina bifida, while its ability to lower homocysteine suggests it might have a positive influence on cardiovascular disease. A role for this B vitamin in maintaining good health may, in fact, extend beyond these clinical conditions to encompass other birth defects, several types of cancer, dementia, affective disorders, Down's syndrome, and serious conditions affecting pregnancy outcome. The effect of folate in these conditions can be explained largely within the context of folate-dependent pathways leading to methionine and nucleotide biosynthesis, and genetic variability resulting from a number of common polymorphisms of folate-dependent enzymes involved in the homocysteine remethylation cycle. Allelic variants of folate genes that have a high frequency in the population, and that may play a role in disease formation include 677C --> T-MTHFR, 1298A --> C-MTHFR, 2756A --> G-MetSyn, and 66A --> G-MSR. Future work will probably uncover further polymorphisms of folate metabolism, and lead to a wider understanding of the interaction between this essential nutrient and the many genes which underpin its enzymatic utilization in a plethora of critical biosynthetic reactions, and which, under adverse nutritional conditions, may promote disease.

  8. Fenton-biological treatment processes for the removal of some pharmaceuticals from industrial wastewater.

    Science.gov (United States)

    Badawy, Mohamed I; Wahaab, Rifaat A; El-Kalliny, A S

    2009-08-15

    A treatability study of pharmaceutical wastewater from El-Nasr Pharmaceutical and Chemical Company, South-East of Cairo, was carried out. The company discharges both industrial (6000 m(3)/d) and municipal wastewater (128 m(3)/d) into a nearby evaporation pond without any treatment. The generated raw wastewater is characterized by high values of COD (4100-13,023), TSS (20-330 mg/L), and oil grease (17.4-600 mg/L). In addition, the presence of refractory compounds decreases BOD/COD ratio (0.25-0.30). Analysis of raw wastewater confirmed that pre-treatment is required prior to discharge into public sewers to comply with the Egyptian Environmental laws and regulations. The obtained results indicated that the refractory compounds and their by-products cannot be readily removed by biological treatment and always remain in the treated effluent or adsorbed on the sludge flocs. The application of Fenton oxidation process as a pre-treatment improved the removal of pharmaceuticals from wastewater and appears to be an affective solution to achieve compliance with the law legislation with respect to discharge in a determined receptor medium.

  9. Biological Processes that Prepare Mammalian Spermatozoa to Interact with an Egg and Fertilize It

    Directory of Open Access Journals (Sweden)

    Daulat R. P. Tulsiani

    2012-01-01

    Full Text Available In the mouse and other mammals studied, including man, ejaculated spermatozoa cannot immediately fertilize an egg. They require a certain period of residence in the female genital tract to become functionally competent cells. As spermatozoa traverse through the female genital tract, they undergo multiple biochemical and physiological changes collectively referred to as capacitation. Only capacitated spermatozoa interact with the extracellular egg coat, the zona pellucida. The tight irreversible binding of the opposite gametes triggers a Ca2+-dependent signal transduction cascade. The net result is the fusion of the sperm plasma membrane and the underlying outer acrosomal membrane at multiple sites that causes the release of acrosomal contents at the site of sperm-egg adhesion. The hydrolytic action of the acrosomal enzymes released, along with the hyperactivated beat pattern of the bound spermatozoon, is important factor that directs the sperm to penetrate the egg coat and fertilize the egg. The sperm capacitation and the induction of the acrosomal reaction are Ca2+-dependent signaling events that have been of wide interest to reproductive biologists for over half a century. In this paper, we intend to discuss data from this and other laboratories that highlight the biological processes which prepare spermatozoa to interact with an egg and fertilize it.

  10. Integrated physicochemical and biological treatment process for fluoride and phosphorus removal from fertilizer plant wastewater.

    Science.gov (United States)

    Gouider, Mbarka; Mlaik, Najwa; Feki, Mongi; Sayadi, Sami

    2011-08-01

    The phosphate fertilizer industry produces highly hazardous and acidic wastewaters. This study was undertaken to develop an integrated approach for the treatment of wastewaters from the phosphate industry. Effluent samples were collected from a local phosphate fertilizer producer and were characterized by their high fluoride and phosphate content. First, the samples were pretreated by precipitation of phosphate and fluoride ions using hydrated lime. The resulting low- fluoride and phosphorus effluent was then treated with the enhanced biological phosphorus removal (EBPR) process to monitor the simultaneous removal of carbon, nitrogen, and phosphorus. Phosphorus removal included a two-stage anaerobic/aerobic system operating under continuous flow. Pretreated wastewater was added to the activated sludge and operated for 160 days in the reactor. The operating strategy included increasing the organic loading rate (OLR) from 0.3 to 1.2 g chemical oxygen demand (COD)/L.d. The stable and high removal rates of COD, NH4(+)-N, and PO4(3-)-P were then recorded. The mean concentrations of the influent were approximately 3600 mg COD/L, 60 mg N/L, and 14 mg P/L, which corresponded to removal efficiencies of approximately 98%, 86%, and 92%, respectively.

  11. Fröhlich Condensate: Emergence of Synergetic Dissipative Structures in Information Processing Biological and Condensed Matter Systems

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    Roberto Luzzi

    2012-10-01

    Full Text Available We consider the case of a peculiar complex behavior in open boson systems sufficiently away from equilibrium, having relevance in the functioning of information-processing biological and condensed matter systems. This is the so-called Fröhlich–Bose–Einstein condensation, a self-organizing-synergetic dissipative structure, a phenomenon apparently working in biological processes and present in several cases of systems of boson-like quasi-particles in condensed inorganic matter. Emphasis is centered on the quantum-mechanical-statistical irreversible thermodynamics of these open systems, and the informational characteristics of the phenomena.

  12. Generating quantitative models describing the sequence specificity of biological processes with the stabilized matrix method

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    Sette Alessandro

    2005-05-01

    Full Text Available Abstract Background Many processes in molecular biology involve the recognition of short sequences of nucleic-or amino acids, such as the binding of immunogenic peptides to major histocompatibility complex (MHC molecules. From experimental data, a model of the sequence specificity of these processes can be constructed, such as a sequence motif, a scoring matrix or an artificial neural network. The purpose of these models is two-fold. First, they can provide a summary of experimental results, allowing for a deeper understanding of the mechanisms involved in sequence recognition. Second, such models can be used to predict the experimental outcome for yet untested sequences. In the past we reported the development of a method to generate such models called the Stabilized Matrix Method (SMM. This method has been successfully applied to predicting peptide binding to MHC molecules, peptide transport by the transporter associated with antigen presentation (TAP and proteasomal cleavage of protein sequences. Results Herein we report the implementation of the SMM algorithm as a publicly available software package. Specific features determining the type of problems the method is most appropriate for are discussed. Advantageous features of the package are: (1 the output generated is easy to interpret, (2 input and output are both quantitative, (3 specific computational strategies to handle experimental noise are built in, (4 the algorithm is designed to effectively handle bounded experimental data, (5 experimental data from randomized peptide libraries and conventional peptides can easily be combined, and (6 it is possible to incorporate pair interactions between positions of a sequence. Conclusion Making the SMM method publicly available enables bioinformaticians and experimental biologists to easily access it, to compare its performance to other prediction methods, and to extend it to other applications.

  13. Biological processes and optical measurements near the sea surface: Some issues relevant to remote sensing

    Science.gov (United States)

    Cullen, John J.; Lewis, Marlon R.

    1995-01-01

    The advent of remote sensing, the develpmemt of new optical instrumentation, and the associated advances in hydrological optics have transformed oceanography; it is now feasible to describe ocean-scale biogeochemical dynamcis from satellite observations, verified and complemented by measurements from optical sensors on profilers, moorings, and drifters. Only near-surface observations are common to both remote sensing and in situ observation, so it is critical to understand processes in the upper euphotic zone. Unfortunately, the biological principles that must be used to interpret optical variability near the sea surface are weaker than we would like, because relatively few experiments and analyses have examined bio-optical relationships under high irradiance characteristic of the upper optical depth. Special consideration of this stratum is justified, because there is good evidence that bio-optical relationships are altered near the surface; (1) the fluorescence yield from chlorophyll declines, leading to bias in the estimation of pigment from fluorometry; (2) the modeled relationship between solar-stimulated fluorecence and photosynthesis seems to deviate significantly from that presented for the lower euphotic zone; and (3) carbon-specific and cellular attenuation cross sections of phytoplankton change substantially during exposures to bright light. Even the measurement of primary productivity is problematic near the sea surface, because vertical mixing is not simulated and artifactual inhibition of photosynthesis can result. These problems can be addressed by focusing more sampling effort, experimental simulation, and analytical consideration on the upper optical depth, and by shortening timescales for the measurement of marine photosynthesis. Special efforts to study near-surface processes are justified, because new bio-optical algorithms will require quantitaitve descriptions of the responses of phytoplankton to bright light.

  14. Perspectives in the biological function and the technological application of polygalacturonases.

    Science.gov (United States)

    Lang, C; Dörnenburg, H

    2000-04-01

    Polygalacturonases (PG) have evolved in the past years from a pectinase "simply" being used for food processing to an important parameter in plant-fungal interaction. PG-inhibiting proteins (PGIP) that are synthesised in plants as a specific response to PGs of pathogenic fungi, have become a focus as a possible target in resistance breeding, and PGIPs are also a concern as an inhibiting factor in food processing. Plant PGs have been identified as a major factor in fruit ripening, and PG-deficient transgenic plants have been bred. Mainly fungal PGs are used in industrial processes for juice clarification and the range of enzymes is being extended through new recombinant and non-recombinant fungal strains. Finally, novel fields of application can be envisaged for PGs in the production of oligogalacturonides as functional food components. Here we aim to highlight the various fields where PGs are encountered and where they are of biological or technological importance.

  15. Synchrotron-based X-ray fluorescence microscopy enables multiscale spatial visualization of ions involved in fungal lignocellulose deconstruction

    Science.gov (United States)

    Grant T. Kirker; Samuel Zelinka; Sophie-Charlotte Gleber; David Vine; Lydia Finney; Si Chen; Young Pyo Hong; Omar Uyarte; Stefan Vogt; Jody Jellison; Barry Goodell; Joseph E. Jakes

    2017-01-01

    The role of ions in the fungal decay process of lignocellulose biomaterials, and more broadly fungal metabolism, has implications for diverse research disciplines ranging from plant pathology and forest ecology, to carbon sequestration. Despite the importance of ions in fungal decay mechanisms, the spatial distribution and quantification of ions in lignocellulosic cell...

  16. Performance of biological phosphorus removal and characteristics of microbial community in the oxic-settling-anaerobic process by FISH analysis

    Institute of Scientific and Technical Information of China (English)

    Jian-fang WANG; Qing-liang ZHAO; Wen-biao JIN; Shi-jie YOU; Jin-na ZHANG

    2008-01-01

    Performance of biological phosphorus removal in the oxic-settling-anaerobic (OSA) process was investigated. Cell staining and fluorescent in situ hybridization (FISH) were used to analyze characteristics and microbial community of sludge.Experimental results showed that phosphorus removal efficiency was near 60% and the amount of biological phosphorus accumulation in aerobic sludge of the OSA system was up to 26.9 mg/g. Biological phosphorus removal efficiency was partially inhibited by carbon sources in the continuous OSA system. Contrasted to the OSA system, biological phosphorus removal efficiency was enhanced by 14% and the average total phosphorus (TP) contents of aerobic sludge were increased by 0.36 mg/g when sufficient carbon sources were supplied in batch experiments. Staining methods indicated that about 35% of microorganisms had typical characteristics of phosphorus accumulating organisms (PAOs). FISH analysis demonstrated that PAOMIX-binding bacteria were predominant microbial communities in the OSA system, which accounted for around 28% of total bacteria.

  17. Modulation of Human Immune Response by Fungal Biocontrol Agents

    Science.gov (United States)

    Konstantinovas, Cibele; de Oliveira Mendes, Tiago A.; Vannier-Santos, Marcos A.; Lima-Santos, Jane

    2017-01-01

    Although the vast majority of biological control agents is generally regarded as safe for humans and environment, the increased exposure of agriculture workers, and consumer population to fungal substances may affect the immune system. Those compounds may be associated with both intense stimulation, resulting in IgE-mediated allergy and immune downmodulation induced by molecules such as cyclosporin A and mycotoxins. This review discusses the potential effects of biocontrol fungal components on human immune responses, possibly associated to infectious, inflammatory diseases, and defective defenses. PMID:28217107

  18. Anti-jamming in a fungal transport network

    CERN Document Server

    Hickey, Patrick C; Foshe, Sierra; Roper, Marcus

    2016-01-01

    Congestion limits the efficiency of transport networks ranging from highways to the internet. Fungal hyphal networks are studied as an examples of optimal biological transport networks, but the scheduling and direction of traffic to avoid congestion has not been examined. We show here that the Neurospora crassa fungal network exhibits anticongestion: more densely packed nuclei flow faster along hyphal highways, and transported nuclei self-organize into fast flowing solitons. Concentrated transport by solitons may allow cells to cycle between growing and acting as transport conduits.

  19. Unity and disunity in evolutionary sciences: process-based analogies open common research avenues for biology and linguistics.

    Science.gov (United States)

    List, Johann-Mattis; Pathmanathan, Jananan Sylvestre; Lopez, Philippe; Bapteste, Eric

    2016-08-20

    For a long time biologists and linguists have been noticing surprising similarities between the evolution of life forms and languages. Most of the proposed analogies have been rejected. Some, however, have persisted, and some even turned out to be fruitful, inspiring the transfer of methods and models between biology and linguistics up to today. Most proposed analogies were based on a comparison of the research objects rather than the processes that shaped their evolution. Focusing on process-based analogies, however, has the advantage of minimizing the risk of overstating similarities, while at the same time reflecting the common strategy to use processes to explain the evolution of complexity in both fields. We compared important evolutionary processes in biology and linguistics and identified processes specific to only one of the two disciplines as well as processes which seem to be analogous, potentially reflecting core evolutionary processes. These new process-based analogies support novel methodological transfer, expanding the application range of biological methods to the field of historical linguistics. We illustrate this by showing (i) how methods dealing with incomplete lineage sorting offer an introgression-free framework to analyze highly mosaic word distributions across languages; (ii) how sequence similarity networks can be used to identify composite and borrowed words across different languages; (iii) how research on partial homology can inspire new methods and models in both fields; and (iv) how constructive neutral evolution provides an original framework for analyzing convergent evolution in languages resulting from common descent (Sapir's drift). Apart from new analogies between evolutionary processes, we also identified processes which are specific to either biology or linguistics. This shows that general evolution cannot be studied from within one discipline alone. In order to get a full picture of evolution, biologists and linguists need to

  20. Engaging Biology Undergraduates in the Scientific Process through Writing a Theoretical Research Proposal

    Science.gov (United States)

    Stanford, Jennifer S.; Duwel, Laura E.

    2013-01-01

    It has been suggested that research experiences are an important element that should be included in all undergraduate Biology curricula. This is a difficult suggestion to accommodate due to issues with cost, space and time. We addressed this challenge through development of a capstone project in which Biology majors work in groups to develop novel…