WorldWideScience

Sample records for midrobial community analysis

  1. Evolutionary conceptual analysis: faith community nursing.

    Science.gov (United States)

    Ziebarth, Deborah

    2014-12-01

    The aim of the study was to report an evolutionary concept analysis of faith community nursing (FCN). FCN is a source of healthcare delivery in the USA which has grown in comprehensiveness and complexity. With increasing healthcare cost and a focus on access and prevention, FCN has extended beyond the physical walls of the faith community building. Faith communities and healthcare organizations invest in FCN and standardized training programs exist. Using Rodgers' evolutionary analysis, the literature was examined for antecedents, attributes, and consequences of the concept. This design allows for understanding the historical and social nature of the concept and how it changes over time. A search of databases using the keywords FCN, faith community nurse, parish nursing, and parish nurse was done. The concept of FCN was explored using research and theoretical literature. A theoretical definition and model were developed with relevant implications. The search results netted a sample of 124 reports of research and theoretical articles from multiple disciplines: medicine, education, religion and philosophy, international health, and nursing. Theoretical definition: FCN is a method of healthcare delivery that is centered in a relationship between the nurse and client (client as person, family, group, or community). The relationship occurs in an iterative motion over time when the client seeks or is targeted for wholistic health care with the goal of optimal wholistic health functioning. Faith integrating is a continuous occurring attribute. Health promoting, disease managing, coordinating, empowering and accessing health care are other essential attributes. All essential attributes occur with intentionality in a faith community, home, health institution and other community settings with fluidity as part of a community, national, or global health initiative. A new theoretical definition and corresponding conceptual model of FCN provides a basis for future nursing knowledge and model-based applications for evidence-based practice and research. PMID:25097106

  2. GLay: community structure analysis of biological networks

    OpenAIRE

    Su, Gang; Kuchinsky, Allan; Morris, John H.; States, David J.; Meng, Fan

    2010-01-01

    Summary: GLay provides Cytoscape users an assorted collection of versatile community structure algorithms and graph layout functions for network clustering and structured visualization. High performance is achieved by dynamically linking highly optimized C functions to the Cytoscape JAVA program, which makes GLay especially suitable for decomposition, display and exploratory analysis of large biological networks.

  3. Sparse Quadratic Discriminant Analysis and Community Bayes

    OpenAIRE

    Le, Ya; Hastie, Trevor

    2014-01-01

    We develop a class of rules spanning the range between quadratic discriminant analysis and naive Bayes, through a path of sparse graphical models. A group lasso penalty is used to introduce shrinkage and encourage a similar pattern of sparsity across precision matrices. It gives sparse estimates of interactions and produces interpretable models. Inspired by the connected-components structure of the estimated precision matrices, we propose the community Bayes model, which par...

  4. Community health psychology : promoting analysis and action for social change

    OpenAIRE

    Campbell, Catherine; Murray, Michael

    2004-01-01

    Community health psychology is concerned with the theory and method of working with communities to combat disease and to promote health. This introductory article outlines key assumptions and debates underlying this area of research and practice – in the interests of framing the papers in this special edition of the Journal of Health Psychology. Attention is given to the value of emphasising the community level of analysis and action; the role of collective action in improving health; psych...

  5. ESTABLISHMENT OF A COMMUNITY MODELING AND ANALYSIS SUPPORT MECHANISM

    Science.gov (United States)

    During the fall of 2001, a Cooperative Research Agreement between the U.S. Environmental Protection Agency and MCNC began a Community Modeling and Analysis System (CMAS) center. The CMAS will foster development, distribution, and use of the Models-3/CMAQ (Community Multiscale ...

  6. ANALYSIS OF VIRTUAL COMMUNITIES IN TOURISM

    Directory of Open Access Journals (Sweden)

    Silvena DENCHEVA

    2014-01-01

    Full Text Available Internet has changed the way companies interact with customers. Customers have become the active part of the communication with business. Virtual communities are the most popular implication of the usage of Internet into business world. The article presents the nature of virtual communities and how they are functioning in the hospitality industry. The web site of hotel Dobruzda-Dobrich has been analyzed regarding its Internet presence. Internet marketing strategy for improving its internet presence is presented in the paper.

  7. Vulnerability metrics and analysis for communities in complex networks

    Energy Technology Data Exchange (ETDEWEB)

    Rocco S, Claudio M. [Facultad de Ingenieria, Universidad Central de Venezuela, Caracas (Venezuela, Bolivarian Republic of); Ramirez-Marquez, Jose Emmanuel, E-mail: jmarquez@stevens.edu [Systems Development and Maturity Lab, School of Systems and Enterprises, Stevens Institute of Technology, Castle Point on Hudson, Hoboken, NJ 07030 (United States)

    2011-10-15

    This paper applies the problem of community detection in complex networks to identify sets of network elements that are critical to the connectivity of the network and its communities. Specifically, the paper defines a vulnerability set and value for each of the communities in a complex network. Also, for each community it identifies a value of relative vulnerability in comparison with the remaining communities. The approach allows to visualize/identify the critical elements of a complex network. This is an important first step for many recent problems arising in social networks, critical infrastructures and homeland security. By identifying these elements one can prioritize resource allocation to protect, interdict or improve performance in these types of systems. The sets and metrics introduced are illustrated with numerous examples and discussions. Based on the analysis of the examples the manuscript provides an intuitive description of a community's presence in the interior or periphery of a network.

  8. Vulnerability metrics and analysis for communities in complex networks

    International Nuclear Information System (INIS)

    This paper applies the problem of community detection in complex networks to identify sets of network elements that are critical to the connectivity of the network and its communities. Specifically, the paper defines a vulnerability set and value for each of the communities in a complex network. Also, for each community it identifies a value of relative vulnerability in comparison with the remaining communities. The approach allows to visualize/identify the critical elements of a complex network. This is an important first step for many recent problems arising in social networks, critical infrastructures and homeland security. By identifying these elements one can prioritize resource allocation to protect, interdict or improve performance in these types of systems. The sets and metrics introduced are illustrated with numerous examples and discussions. Based on the analysis of the examples the manuscript provides an intuitive description of a community's presence in the interior or periphery of a network.

  9. Comparative network analysis via differential graphlet communities.

    Science.gov (United States)

    Wong, Serene W H; Cercone, Nick; Jurisica, Igor

    2015-01-01

    While current protein interaction data provides a rich resource for molecular biology, it mostly lacks condition-specific details. Abundance of mRNA data for most diseases provides potential to model condition-specific transcriptional changes. Transcriptional data enables modeling disease mechanisms, and in turn provide potential treatments. While approaches to compare networks constructed from healthy and disease samples have been developed, they do not provide the complete comparison, evaluations are performed on very small networks, or no systematic network analyses are performed on differential network structures. We propose a novel method for efficiently exploiting network structure information in the comparison between any graphs, and validate results in non-small cell lung cancer. We introduce the notion of differential graphlet community to detect deregulated subgraphs between any graphs such that the network structure information is exploited. The differential graphlet community approach systematically captures network structure differences between any graphs. Instead of using connectivity of each protein or each edge, we used shortest path distributions on differential graphlet communities in order to exploit network structure information on identified deregulated subgraphs. We validated the method by analyzing three non-small cell lung cancer datasets and validated results on four independent datasets. We observed that the shortest path lengths are significantly longer for normal graphs than for tumor graphs between genes that are in differential graphlet communities, suggesting that tumor cells create "shortcuts" between biological processes that may not be present in normal conditions. PMID:25283527

  10. Link Analysis for Communities Detection on Facebook

    OpenAIRE

    Mellah, Mohamed Adnane; Amine, Abdelmalek; Hamou, Reda Mohamed; Kumar, A. V. Senthil

    2014-01-01

    Social networks have become a part in the daily life of millions of users, which offer wide range of interests and practices. The main characteristic of social networks is its ability to gather different individuals around a common point of view or collective beliefs. Among the current social networking sites, Facebook is the most popular, which has the highest number of users. However, in Facebook, the existence of communities (groups)is a critical question; thus, many rese...

  11. Southern African development community regional situation analysis

    OpenAIRE

    Farr, J. L.; Gumiremhete, R.; Davies, J.; Robins, N. S.

    2005-01-01

    The Southern African Development Community (SADC) groups fourteen sovereign states in the southern and eastern Africa region for the main purpose of fostering co-operation for mutual benefit from development of the resources of the whole region. The region accounts for almost 70% gross domestic product of sub-Saharan Africa and is home to almost a third of its people. In the context of water resources, conditions in the SADC region are highly variable with respect to the relati...

  12. Plant Communities Analysis of Selected Urban Flora of Islamabad

    Directory of Open Access Journals (Sweden)

    Syeda Maria Ali

    2006-01-01

    Full Text Available Variation of plant community composition with environmental parameters (Elevation, pH, nutrients in soil etc. was presented with the aim of determining the relationship of vegetation with environmental parameters in an urban area. Vegetation patterns of an area of 4 km2 were studied between 1300-1800 m in the selected areas of Islamabad city. This area is relatively having wider open spaces and consequently more species diversity. Taking into consideration the importance of soil characters in determining a certain type of vegetation, soil analysis is given due importance. Cluster analysis showed the existence of two major communities with different dominants due to environmental factors acting upon it. Broussonetia papyrifera an invasive species and Dalbergia sissoo an indigenous species are dominantly separated in different communities. Canonical Correspondence Analysis (CCA showed that soil moisture content, electrical conductivity, pH, Elevation, Ca+ and heavy metals were the major edaphic factors correlated with species distribution.

  13. Microbial communities of the Costa Rica Margin: contamination controls and community analysis

    Science.gov (United States)

    Martino, A. J.; Biddle, J.; House, C. H.

    2013-12-01

    Most microbiology work in marine subsurface sediments has been focused in the upper 100-200 meters of sediment, as the switchover from advanced piston coring (APC) to extended core barrel coring (XCB) generally occurs around this depth. This leads to large increases in drilling-induced contamination and interferes in molecular studies. Here, we utilized deep 16S rRNA sequencing of DNA from both the subsurface sediments and the drilling fluid as a strategy for separating sequence information originating from drill-fluid contamination from that which represents the indigenous microbial communities of the sediments. This permitted a characterization of both sediment microbial communities and drilling-fluid communities that was thorough enough to confidently show the differences in the communities. Examination of the results suggests that sequences originating from drilling fluid may be only a minor portion of the data obtained from even the deepest XCB cores examined, and further that the different community composition of the drilling fluid should permit the subtraction of contaminating lineages from the analysis. As part of this work, we also show an extensive community composition analysis of multiple samples from two drilling sites of IODP Expedition 334, on the upper plate of the subduction zone between the Cocos plate and the Caribbean plate, off the Costa Rica Margin. Preliminary analysis of the sequence data suggests that the bacterial communities at both the upper slope site (1379) and the mid-slope site (1378) are dominated by Chloroflexi, Nitrospirae, Actinobacteria, Planctomycetes, and Proteobacteria, while Archaeal communities are dominated by the Miscellaneous Crenarchaeotal Group. Using universal primers revealed that the relative dominance of Bacteria to Archaea differs between the two sites, and the trends of increasing and decreasing abundance with depth are nearly opposite between the sites. At site 1379, the Bacterial to Archaeal relationship seems to be controlled largely by Nitrospirae and the Miscellaneous Crenarchaeotal Group, suggesting a possible connection to nitrogen chemistry. From around 45 meters below seafloor (mbsf) to around 212 mbsf, the two groups have an inverse linear relationship (R2=0.96), and together account for 45×5% of the classified sequences.

  14. Metagenomic analysis of the viral community in Namib Desert hypoliths.

    Science.gov (United States)

    Adriaenssens, Evelien M; Van Zyl, Lonnie; De Maayer, Pieter; Rubagotti, Enrico; Rybicki, Ed; Tuffin, Marla; Cowan, Don A

    2015-02-01

    Hypolithic microbial communities are specialized desert communities inhabiting the underside of translucent rocks. Here, we present the first study of the viral fraction of these communities isolated from the hyperarid Namib Desert. The taxonomic composition of the hypolithic viral communities was investigated and a functional assessment of the sequences determined. Phylotypic analysis showed that bacteriophages belonging to the order Caudovirales, in particular the family Siphoviridae, were most prevalent. Functional analysis and comparison with other metaviromes revealed a relatively high frequency of cell wall-degrading enzymes, ribonucleotide reductases (RNRs) and phage-associated genes. Phylogenetic analyses of terL and phoH marker genes indicated that many of the sequences were novel and distinct from known isolates, and the class distribution of the RNRs suggests that this is a novel environment. The composition of the viral hypolith fraction containing many Bacillus-infecting phages was not completely consistent with Namib hypolith phylotypic surveys of the bacterial hosts, in which the cyanobacterial genus Chroococcidiopsis was found to be dominant. This could be attributed to the lack of sequence information about hypolith viruses/bacteria in public databases or the possibility that hypolithic communities incorporate viruses from the surrounding soil. PMID:24912085

  15. Analysis of stability of community structure across multiple hierarchical levels

    CERN Document Server

    Li, Hui-Jia

    2015-01-01

    The analysis of stability of community structure is an important problem for scientists from many fields. Here, we propose a new framework to reveal hidden properties of community structure by quantitatively analyzing the dynamics of Potts model. Specifically we model the Potts procedure of community structure detection by a Markov process, which has a clear mathematical explanation. Critical topological information regarding to multivariate spin configuration could also be inferred from the spectral significance of the Markov process. We test our framework on some example networks and find it doesn't have resolute limitation problem at all. Results have shown the model we proposed is able to uncover hierarchical structure in different scales effectively and efficiently.

  16. Microbial community analysis of ambient temperature anaerobic digesters

    Energy Technology Data Exchange (ETDEWEB)

    Ciotola, R. [Ohio State Univ., Columbus, OH (United States). Dept. of Food, Agriculture and Biological Engineering

    2010-07-01

    This paper reported on a study in which designs for Chinese and Indian fixed-dome anaerobic digesters were modified in an effort to produce smaller and more affordable digesters. While these types of systems are common in tropical regions of developing countries, they have not been used in colder climates because of the low biogas yield during the winter months. Although there is evidence that sufficient biogas production can be maintained in colder temperatures through design and operational changes, there is a lack of knowledge about the seasonal changes in the composition of the microbial communities in ambient temperature digesters. More knowledge is needed to design and operate systems for maximum biogas yield in temperate climates. The purpose of this study was to cultivate a microbial community that maximizes biogas production at psychrophilic temperatures. The study was conducted on a 300 gallon experimental anaerobic digester on the campus of Ohio State University. Culture-independent methods were used on weekly samples collected from the digester in order to examine microbial community response to changes in ambient temperature. Microbial community profiles were established using universal bacterial and archaeal primers that targeted the 16S rRNA gene. In addition to the methanogenic archaea, this analysis also targeted some of the other numerically and functionally important microbial taxa in anaerobic digesters, such as hydrolytic, fermentative, acetogenic and sulfate reducing bacteria. According to preliminary results, the composition of the microbial community shifts with changes in seasonal temperature.

  17. A microbial community analysis of the octocoral Eunicea fusca

    Scientific Electronic Library Online (English)

    Angela, Duque-Alarcón; Lory Z, Santiago-Vázquez; Russell G, Kerr.

    2012-09-15

    Full Text Available While there is a significant and growing body of knowledge describing the microbial communities of marine invertebrates such as sponges, there are very few such studies focused on octocorals. The octocoral Eunicea fusca is common on reefs in various regions of the Caribbean and has been the subject [...] of natural product investigations. As part of an effort to describe the microbial community associated with octocorals, a culture-independent analysis of the bacterial community of E. fusca was conducted. Specifically, a 16S rDNA clone library analysis was performed to provide baseline data. A total of 40 bacteria members from 11 groups were found. In general, Proteobacteria were the dominant group with a total of 24 species and ?-Proteobacteria represented the highest percentage of bacteria associated with E. fusca (27.5%). Other prominent groups observed were Acidobacteria, Actinobacteria, Cyanobacteria, Planctomycetes, ?-Proteobacteria, Lentisphaerae and Nitrospirae. This is the first analysis of bacterial populations associated with the gorgonian E. fusca.

  18. A Large-Scale Community Structure Analysis In Facebook

    CERN Document Server

    Ferrara, Emilio

    2012-01-01

    In this work we present a large-scale community structure detection and analysis applied to the largest Online Social Network actually existing, namely Facebook. This network gathers more than 500 millions users at 2011. The structure and the characteristics of this social network have been widely investigated during the last years. Although some related work focuses on analyzing clustering phenomena on a small scale, this is the first large-scale study which considers a significant sample of the network. The process of data mining from the social network platform is here described, in order to clarify how the required information has been acquired avoiding privacy related issues. Data have been collected adopting two different techniques of graph mining, and are here discussed accordingly to the structural properties of these samples which have been already investigated in previous works. To the purpose of discovering the community structure of the considered samples, we devised and described two efficient c...

  19. [Application of geostatistical analysis in study of macrophytes community's pattern].

    Science.gov (United States)

    Pan, Wenbin; Deng, Hongbing; Tang, Tao; Cai, Qinghua

    2003-10-01

    In this paper, the Log-log semivariogram and theoretical models of Geostatistics and fractal theory were applied to study the mosaic spatial pattern of macrophytes community and its different characters on different scales in littoral zone of the Baoan Lake, Hubei Province. The macrophytes in the littoral zone with a square area of 25,600 m2, which was divided in to 1,024 grids, were investigated, and the macrophytes species in every grid were recorded. If the species was discovered in the grid, the variable of the grid had a value of 1, otherwise, it was 0. The community had a value of the total species discovered in the grid. By the method, the sampling results of Vallisneria spiralis, Ceratophyllum oryzetorum, Myriophyllum spicatum and the community were made into four worksheets. With help of the software GS+ for Windows to treat these worksheets, we got their log-log semivariogram, isotropic model, anisotropic model, isotropic fractal dimension and anisotropic fractal dimension. According to the results of isotropic models, the exponential models of Vallisneria spiralis and Myriophyllum spicatum indicated their contagious distribution with a high proportion of spatial structure, which indicated that their distribution changed lesser at microscale. In their range of 48.6 m and 34.2 m respectively, they had a spatial autocorrelation. Isotropic models of Ceratophyllum oryzetorum and the community were linear, and their proportions of spatial structure were low, indicating their great change at microscale and their moderate contagious distribution. The isotropic fractal dimension and anisotropic fractal dimension results indicated the dominant pattern of Vallisneria spiralis in the direction of NE-SW, the dominant patterns of Myriophyllum spicatum and Ceratophyllum oryzetorum in the direction of N-S, and the community's dominant pattern in the direction of NW-SE. Compared with other analysis tools, the method had advantages in deciding whether the community components had a spatial autocorrelation and in quantitatively classifying the aggregation density. It provides us a new way to quantitatively describe the pattern of the macrophytes community. PMID:14986367

  20. Analysis of community structure in networks of correlated data

    Energy Technology Data Exchange (ETDEWEB)

    Gomez, S.; Jensen, P.; Arenas, A.

    2008-12-25

    We present a reformulation of modularity that allows the analysis of the community structure in networks of correlated data. The new modularity preserves the probabilistic semantics of the original definition even when the network is directed, weighted, signed, and has self-loops. This is the most general condition one can find in the study of any network, in particular those defined from correlated data. We apply our results to a real network of correlated data between stores in the city of Lyon (France).

  1. Spatial analysis of early successional, temperate forest community structure

    Science.gov (United States)

    Walker, R. H.; Williams, C. A.; MacLean, R. G.; Epstein, H. E.; Vanderhoof, M. K.

    2013-12-01

    The global importance of sequestration of carbon by temperate forests makes characterizing the regrowth of these forests post-disturbance both ecologically and economically important. High intensity disturbances, such as logging, result in substantial alteration of community composition post-disturbance, creating the potential for alterations to the cycling of carbon, water, and nutrients in the ecosystem. Because logging pressure in New England continues to increase, understanding how forest ecosystems in this region respond to disturbance is crucial. This study aims to characterize interspecies interactions within New England forests by identifying synchronous and asynchronous colocation of species following a disturbance. To accomplish this, line-intercept surveys of vegetation were conducted in a clearcut forest stand located within the Harvard Forest LTER site. Survey data collected two (2010) and five (2013) years post-clearcut were analyzed using a one-dimensional Ripley's K. From 2010 to 2013, an increase in the number of interspecies relationships was observed, indicating the development of community structure. Additionally, the analysis found an increase in total vegetative cover from 2010 to 2013, and also found the majority of observed interspecies relationships to be asynchronous relationships. Together, these results imply an increase in resource competition that had the potential to drive the increase in community structure. Specifically, an increase in community structure led to the development of three distinct sub-communities: homogenous fern, tree seedling canopy over ground cover, and shrub dominated. This creates a patchy landscape in the early successional forest that allows for high species diversity (Shannon's H = 2.455). Based on the results of the Ripley's K analyses, species demonstrated definite patterns of synchronicity and asynchronicity based on both specific species interactions as well as functional group interactions. These analyses have important application for species conservation and for predicting the regeneration of tree seedlings, and provide unique information about the interspecies interactions of New England forest communities during one of the most rich and dynamic phases of succession, allowing for more informed decisions to be made regarding the regrowth of forests following a high-intensity disturbance.

  2. An ecosystem analysis of the activated sludge microbial community.

    Science.gov (United States)

    Yiannakopoulou, Trissevyene V

    2010-01-01

    This study was undertaken (i) to investigate the interactions of the activated sludge microbial community in a chemostat with the "environment", such as the substrate composition and variations, (ii) to investigate how these interactions affect the quality of the treated effluent and (iii) to determine the limits or applicability conditions to the indicators and to the prediction potential of the treated effluent quality. This work presents (a) the experimental results obtained from a reactor fed municipal wastewater (Data Set2-DS2) concerning the reactor's operating conditions and the microbial community of the sludge (b) comparisons between DS2 and an older Data Set (DS1) obtained when the reactor was fed synthetic substrate, all other experimental conditions being identical, and (c) simulation results and sensitivity analyses of two model runs (R1 and R2, corresponding to DS1 and DS2). The first trophic level (P(1)) of the DS2 microbial community consisted of bacteria, the second trophic level (P(2)) of bacteria-eating protozoa, rotifers and nematodes and the third trophic level (P(3)) of carnivorous protozoa and arthropods. Rotifers were an important constituent of the DS2 microbial community. The DS1 and DS1 communities differed in total size, trophic level sizes and species composition. Correlations between the major microbial groups of DS2 community and either loading rates or effluent quality attributes were generally low, but the correlation of bacteria with SVI and ammonia in the effluent was better. Also, the ratio of rotifers to protozoa in P(2) was correlated to BOD in the effluent. The results of this work indicate that predictions of the treated effluent quality based only on protozoa may not be safe. Sensitivity analysis of R2 run indicate that, when variation in Y and K(d) biokinetic coefficients of the sludge are combined with fluctuations in composition and quality of municipal wastewater entering the reactor, then sufficient significant prediction of bacteria in the aeration tank is not possible. In order to avoid erroneous oversimplifications regarding phenomena taking place in the sludge and to understand "unexplained" process failures, more ecologically sound methods for studying wastewater treatment (WWT) processes are needed, since WWT are primarily ecosystems interacting with technological systems. PMID:20390906

  3. Rapid fingerprinting of methanogenic communities by high-resolution melting analysis.

    Science.gov (United States)

    Kim, Jaai; Lee, Changsoo

    2014-12-01

    Characterizing microbial community structure using molecular techniques is becoming a popular approach in studies of waste/wastewater treatment processes. A rapid and robust tool to analyze microbial communities is required for efficient process monitoring and control. In this study, a new community fingerprinting method based on high-resolution melting (HRM) analysis was developed and applied to compare methanogenic community structures of five different anaerobic digesters. The new method produced robust community clustering and ordination results comparable to the results from the commonly used denaturing gradient gel electrophoresis (DGGE) performed in parallel. This method transforms melting peak plots (MPs) of community DNA samples generated by HRM analysis to molecular fingerprints and estimates the relationships between the communities based on the fingerprints. The MP-based fingerprinting would provide a good alternative to monitor variations in microbial community structure especially when handling large sample numbers due to its high-throughput capacity and short analysis time. PMID:25443624

  4. Communities in a large social network : visualization and analysis

    OpenAIRE

    Eiesland, Jon Wostryck

    2009-01-01

    Communities have been a hot topic in complex network research the last years. Several algorithms for detecting communities have been developed, and in this thesis we use the sequential clique percolation algorithm to detect communities in a large social network. Our network consists of 5.3 million mobile phone users, with mutual communication data aggregated over 18 weeks. In this thesis we do a visual study of the communities, and we clearly see the nested community structure when we do cliq...

  5. Bacterial community analysis of contaminant soils from Chernobyl

    International Nuclear Information System (INIS)

    Complete text of publication follows: Shortly after the Chernobyl accident in 1986, vegetation, contaminated soil and other radioactive debris were buried in situ in trenches. The aims of this work are to analyse the structure of bacterial communities evolving in this environment since 20 years, and to evaluate the potential role of microorganisms in radionuclide migration in soils. Therefore, soil samples exhibiting contrasted radionuclides content were collected in and around the trench number 22. Bacterial communities were examined using a genetic fingerprinting method that allowed a comparative profiling of the samples (DGGE), with universal and group-specific PCR primers. Our results indicate that Chernobyl soil samples host a wide diversity of Bacteria, with stable patterns for Firmicutes and Actinobacteria and more variable for Proteobacteria. A collection of 650 aerobic and anaerobic culturable isolates was also constructed. A phylogenetic analysis of 250 heterotrophic aerobic isolates revealed that 5 phyla are represented: Beta-, Gamma-proteobacteria, Actinobacteria, Bacteroidetes and spore-forming Firmicutes, which is largely dominant. These collection will be screened for the presence of radionuclide-accumulating species in order to estimate the potential influence of microorganisms in radionuclides migration in soils

  6. GeoChips for Analysis of Microbial Functional Communities

    Energy Technology Data Exchange (ETDEWEB)

    Van Nostrand, Joy D.; Wu, Liyou; He, Zhili; Zhou, Jizhong

    2008-09-30

    Functional gene arrays (FGA) are microarrays that contain probes for genes encoding proteins or enzymes involved in functions of interest and allow for the study of thousands of genes at one time. The most comprehensive FGA to date is the GeoChip, which contains ~;;24,000 probes for ~;;10,000 genes involved in the geochemical cycling of C, N, P, and S, as well as genes involved in metal resistance and reduction and contaminant degradation. This chapter details the methods necessary for GeoChip analysis. Methods covered include preparation of DNA (whole community genome amplification and labeling), array setup (prehybridization steps), hybridization (sample and hybridization buffers), and post hybridization steps (slide washing and array scanning).

  7. Community College Student Mental Health: A Comparative Analysis

    Science.gov (United States)

    Katz, Daniel Seth; Davison, Karen

    2014-01-01

    This study explores community college student mental health by comparing the responses of California community college and traditional university students on the American College Health Association-National College Health Assessment II (ACHA-NCHA II). Using MANOVA, we compared community college and traditional university students, examining…

  8. An Analysis of Valencia Community College's Policy Response to Local Community Agencies' Need for Student Volunteers.

    Science.gov (United States)

    Bennett, Lula M.

    A study was conducted at Valencia Community College (VCC) to evaluate VCC's success in meeting the community's need for volunteers, to determine the needs of student volunteers, and to discover what kinds of students were participating in the student volunteer program. Results of a questionnaire completed by 72 student volunteers indicated that…

  9. Community

    Directory of Open Access Journals (Sweden)

    2008-07-01

    Full Text Available The term community in the English language can be traced back to the 14th century and originates from the French word comuneté and the Latin word communitatem. In English the term initially came to denote five distinct senses. Community served as a distinction of the common people from those of rank (1, as a denotation of a state or organized society (2, the people of a district (3, as a designation for the community of shared interests (4 and as a sense of common identity and characteristics (5. In these early meanings of the term it is important to note the distinction between the designation of actual social groups on the one hand and the indication of a particular relational quality on the other.

  10. Analysis of factors affecting the accuracy, reproducibility, and interpretation of microbial community carbon source utilization patterns

    Science.gov (United States)

    Haack, S.K.; Garchow, H.; Klug, M.J.; Forney, L.J.

    1995-01-01

    We determined factors that affect responses of bacterial isolates and model bacterial communities to the 95 carbon substrates in Biolog microliter plates. For isolates and communities of three to six bacterial strains, substrate oxidation rates were typically nonlinear and were delayed by dilution of the inoculum. When inoculum density was controlled, patterns of positive and negative responses exhibited by microbial communities to each of the carbon sources were reproducible. Rates and extents of substrate oxidation by the communities were also reproducible but were not simply the sum of those exhibited by community members when tested separately. Replicates of the same model community clustered when analyzed by principal- components analysis (PCA), and model communities with different compositions were clearly separated un the first PCA axis, which accounted for >60% of the dataset variation. PCA discrimination among different model communities depended on the extent to which specific substrates were oxidized. However, the substrates interpreted by PCA to be most significant in distinguishing the communities changed with reading time, reflecting the nonlinearity of substrate oxidation rates. Although whole-community substrate utilization profiles were reproducible signatures for a given community, the extent of oxidation of specific substrates and the numbers or activities of microorganisms using those substrates in a given community were not correlated. Replicate soil samples varied significantly in the rate and extent of oxidation of seven tested substrates, suggesting microscale heterogeneity in composition of the soil microbial community.

  11. Species-level and community-level responses to disturbance: a cross-community analysis.

    Science.gov (United States)

    Supp, Sarah R; Ernest, S K Morgan

    2014-07-01

    Communities are comprised of individual species that respond to changes in their environment depending in part on their niche requirements. These species comprise the biodiversity of any given community. Common biodiversity metrics such as richness, evenness, and the species abundance distribution are frequently used to describe biodiversity across ecosystems and taxonomic groups. While it is increasingly clear that researchers will need to forecast changes in biodiversity, ecology currently lacks a framework for understanding the natural background variability in biodiversity or how biodiversity patterns will respond to environmental change. We predict that while species populations depend on local ecological mechanisms (e.g., niche processes) and should respond strongly to disturbance, community-level properties that emerge from these species should generally be less sensitive to disturbance because they depend on regional mechanisms (e.g., compensatory dynamics). Using published data from terrestrial animal communities, we show that community-level properties were generally resilient under a suite of artificial and natural manipulations. In contrast, species responded readily to manipulation. Our results suggest that community-level measures are poor indicators of change, perhaps because many systems display strong compensatory dynamics maintaining community-level properties. We suggest that ecologists consider using multiple metrics that measure composition and structure in biodiversity response studies. PMID:25163105

  12. An Analysis of Health Care Assessments Used for Sustaining Communities

    Directory of Open Access Journals (Sweden)

    Vereda Johnson Williams

    2010-03-01

    Full Text Available This research addresses the needs for creating realistic health care assessment methodologies. The informationacquired from health care assessments shape the policies which will ultimately sustain communities. Health careassessment tools and methods dictate the priorities of community health care. These priorities assist with thedevelopment of community health care research, the exploration of community based need initiatives and thedesign of pertinent policies which meet the demands of community health care. Community health assessmentinvolves people and allows them to express their views, which leads to more self esteem, particularly indisadvantaged communities. Participatory community health care research relates to the continuity of theeconomic, social, institutional and environmental aspects of human society, as well as the non-humanenvironment in which our communities thrive. This research will review the current literature pertinent toparticipatory action research. Additionally, this research will address the advantages, disadvantages and theethical issues of participatory action research methods. Selected case studies are used to explain communitybased models which have identified necessary strategies which have been utilized to articulate and assist currentcommunity health issues in specified populations.

  13. FINGERPRINT ANALYSIS OF BACTERIAL COMMUNITIES ASSOCIATED WITH SINGLE PROTOZOA

    Science.gov (United States)

    GOAL: To describe bacterial communities consumed by and associated with individual protozoa, and to correlate protozoa species with the bacterial communities. METHODS: Individual rumen protozoa were isolated from washed rumen contents using drawn-out glass capillaries. Proteinase K cell lysis fo...

  14. Community characteristics that attract physicians in Japan: a cross-sectional analysis of community demographic and economic factors

    Directory of Open Access Journals (Sweden)

    Toyokawa Satoshi

    2009-02-01

    Full Text Available Abstract Background In many countries, there is a surplus of physicians in some communities and a shortage in others. Population size is known to be correlated with the number of physicians in a community, and is conventionally considered to represent the power of communities to attract physicians. However, associations between other demographic/economic variables and the number of physicians in a community have not been fully evaluated. This study seeks other parameters that correlate with the physician population and show which characteristics of a community determine its "attractiveness" to physicians. Methods Associations between the number of physicians and selected demographic/economic/life-related variables of all of Japan's 3132 municipalities were examined. In order to exclude the confounding effect of community size, correlations between the physician-to-population ratio and other variable-to-population ratios or variable-to-area ratios were evaluated with simple correlation and multiple regression analyses. The equity of physician distribution against each variable was evaluated by the orenz curve and Gini index. Results Among the 21 variables selected, the service industry workers-to-population ratio (0.543, commercial land price (0.527, sales of goods per person (0.472, and daytime population density (0.451 were better correlated with the physician-to-population ratio than was population density (0.409. Multiple regression analysis showed that the service industry worker-to-population ratio, the daytime population density, and the elderly rate were each independently correlated with the physician-to-population ratio (standardized regression coefficient 0.393, 0.355, 0.089 respectively; each p Conclusion Daytime population and service industry population in a municipality are better parameters of community attractiveness to physicians than population. Because attractiveness is supposed to consist of medical demand and the amenities of urban life, the two parameters may represent the amount of medical demand and/or the extent of urban amenities of the community more precisely than population does. The conventional demand-supply analysis based solely on population as the demand parameter may overestimate the inequity of the physician distribution among communities.

  15. Analysis on Influencing Factors of Community Safety Culture Based on the Structural Equation Model

    OpenAIRE

    Li, Zhixin; Xu, Jingzhen; Zhang, Lihua

    2013-01-01

    The purpose of this study is to research community safety culture building train of thought through the analysis of the influence factors of community safety culture, This study employs a Likert scale method for the design of questionnaire, investigate community through questionnaire, obtain the relevant data, and by use of the structural equation model (SEM) of statistics, puts forward that the factors including economy, society, education, since and technology, and management form important...

  16. mcaGUI: microbial community analysis R-Graphical User Interface (GUI)

    OpenAIRE

    Copeland, Wade K.; Krishnan, Vandhana; Beck, Daniel; Settles, Matt; Foster, James A.; Cho, Kyu-chul; Day, Mitch; Hickey, Roxana; Schu?tte, Ursel M. E.; Zhou, Xia; Williams, Christopher J.; Forney, Larry J.; Abdo, Zaid

    2012-01-01

    Summary: Microbial communities have an important role in natural ecosystems and have an impact on animal and human health. Intuitive graphic and analytical tools that can facilitate the study of these communities are in short supply. This article introduces Microbial Community Analysis GUI, a graphical user interface (GUI) for the R-programming language (R Development Core Team, 2010). With this application, researchers can input aligned and clustered sequence data to create custom abundance ...

  17. Terminal Restriction Fragment Length Polymorphism Analysis Program, a Web-Based Research Tool for Microbial Community Analysis

    OpenAIRE

    Marsh, Terence L.; Saxman, Paul; Cole, James; Tiedje, James

    2000-01-01

    Rapid analysis of microbial communities has proven to be a difficult task. This is due, in part, to both the tremendous diversity of the microbial world and the high complexity of many microbial communities. Several techniques for community analysis have emerged over the past decade, and most take advantage of the molecular phylogeny derived from 16S rRNA comparative sequence analysis. We describe a web-based research tool located at the Ribosomal Database Project web site (http://www.cme.msu...

  18. The Hollins Branch Library and its Community: An Analysis of Available Data.

    Science.gov (United States)

    Reenstjerna, Frederick Roberts

    A community analysis study of the Hollins Branch Library, Roanoke, Virginia, was undertaken to evaluate the library's activities and services and provide a base for developing short and long range goals and objectives responsive to community needs. Data were gathered from various sources including regional and local planning agencies, local…

  19. Community of Inquiry in e-Learning: A Critical Analysis of the Garrison and Anderson Model

    Science.gov (United States)

    Jezegou, Annie

    2010-01-01

    This article is based on a constructively critical analysis of the "community of inquiry" model developed by Garrison and Anderson (2003) as part of their "e-learning" research. The authors claim that certain collaborative interactions create "distant presence" fostering the emergence of a "community of inquiry" which has a positive influence on…

  20. Bacterial community analysis of drinking water biofilms in southern sweden.

    Science.gov (United States)

    Lührig, Katharina; Canbäck, Björn; Paul, Catherine J; Johansson, Tomas; Persson, Kenneth M; Rådström, Peter

    2015-03-24

    Next-generation sequencing of the V1-V2 and V3 variable regions of the 16S rRNA gene generated a total of 674,116 reads that described six distinct bacterial biofilm communities from both water meters and pipes. A high degree of reproducibility was demonstrated for the experimental and analytical work-flow by analyzing the communities present in parallel water meters, the rare occurrence of biological replicates within a working drinking water distribution system. The communities observed in water meters from households that did not complain about their drinking water were defined by sequences representing Proteobacteria (82-87%), with 22-40% of all sequences being classified as Sphingomonadaceae. However, a water meter biofilm community from a household with consumer reports of red water and flowing water containing elevated levels of iron and manganese had fewer sequences representing Proteobacteria (44%); only 0.6% of all sequences were classified as Sphingomonadaceae; and, in contrast to the other water meter communities, markedly more sequences represented Nitrospira and Pedomicrobium. The biofilm communities in pipes were distinct from those in water meters, and contained sequences that were identified as Mycobacterium, Nocardia, Desulfovibrio, and Sulfuricurvum. The approach employed in the present study resolved the bacterial diversity present in these biofilm communities as well as the differences that occurred in biofilms within a single distribution system, and suggests that next-generation sequencing of 16S rRNA amplicons can show changes in bacterial biofilm communities associated with different water qualities. PMID:25739379

  1. University-Community Engagement: A grid-group analysis

    OpenAIRE

    David Low

    2008-01-01

    University-community engagement involves complex issues, entangling multiple and interacting points of view, all of which operate in a wider dynamic evolving social environment. For this reason, there is often disagreement about why engagement is necessary or desirable, and whether there is one optimal method to practice it. To address this issue, I argue that university-community engagement can be examined as a form of enquiry. In this view, engagement is viewed as a system that arises throu...

  2. Impact analysis and community development needs at the salt site

    International Nuclear Information System (INIS)

    The Office of Nuclear Waste Isolation (ONWI) has developed a socioeconomic program for a nuclear waste repository constructed in salt. The program is comprised of three elements: impact assessment, impact mitigation, and impact monitoring. The first element, impact assessment, is the focus of ONWI's current activities. Socioeconomic data has been collected for seven salt sites in Texas, Utah, Mississippi and Louisiana. Demographic, economic, community service, governmental and social structure information has been assembled into data base reports for each site area. These socioeconomic reports will be the basis for analyzing community-related impacts. Socioeconomic effects are currently being evaluated for the environmental assessment document required by the Nuclear Waste Policy Act. The approach to evaluating socioeconomic impacts for the environmental assessment impact includes developing the data base necessary for evaluation; assessing impacts of baseline population projected by the states; assessing project-related impacts through the use of an inmigration model and responding to socioeconomic issues raised in public meetings and hearings. The siting, construction, and operation of nuclear repositories will involve an extended period of time and an increased workforce, which can result in some impacts similar to those of other large development projects. The communities affected by a repository site will face increased demands for housing, community services (tremands for housing, community services (transportation, sewer and water, schools, etc.) and land, as well as a desire to maintain the community's ''character''. The management of this expansion and other related community impacts should be structured to meet community needs and goals. The management process should include the formation of an impact management comment, a public participation program, and a technical assistance program

  3. Analysis of Computer Science Communities Based on DBLP

    OpenAIRE

    Biryukov, Maria; Dong, Cailing

    2010-01-01

    It is popular nowadays to bring techniques from bibliometrics and scientometrics into the world of digital libraries to analyze the collaboration patterns and explore mechanisms which underlie community development. In this paper we use the DBLP data to investigate the author's scientific career and provide an in-depth exploration of some of the computer science communities. We compare them in terms of productivity, population stability and collaboration trends.Besides we us...

  4. Community College Finance: A Cost Analysis of Community College Expenditures Related to Maintenance and Operations

    Science.gov (United States)

    Collins, Michael T.

    2011-01-01

    The purpose of this study is to develop a costing model for maintenance and operations expenditures among 16 single-campus California community college districts and assess the impact of a variety of variables including size of student enrollment, physical plant age, acreage, gross square footage, and general obligation facility bonds on district…

  5. FUTISTREFFIT : Participatory Action Research: analysis and evaluation of football as a community youth development tool

    OpenAIRE

    Wesseh, Cucu

    2012-01-01

    Wesseh Cucu. Thesis: Futistreffit – analysis and evaluation. Language: English. Content: 53 pages, 2 appendices. Degree: Bachelor of Social Services. Focus: Community Development. Institution: Diaconia University of Applied Sciences, Järvenpää The aim of this research is to examine football as a positive youth development tool for Learning-Integration. It focuses on community youth work and uses action research as the prime method of analysis and evaluation. The subject of re...

  6. Statistical methods for temporal and space–time analysis of community composition data†

    OpenAIRE

    Legendre, Pierre; Gauthier, Olivier

    2014-01-01

    This review focuses on the analysis of temporal beta diversity, which is the variation in community composition along time in a study area. Temporal beta diversity is measured by the variance of the multivariate community composition time series and that variance can be partitioned using appropriate statistical methods. Some of these methods are classical, such as simple or canonical ordination, whereas others are recent, including the methods of temporal eigenfunction analysis developed for ...

  7. Community violence and urban childhood asthma: a multilevel analysis.

    Science.gov (United States)

    Sternthal, M J; Jun, H-J; Earls, F; Wright, R J

    2010-12-01

    We examined the association between community violence exposure and childhood asthma risk in a multilevel, multimethod, longitudinal study controlling for individual- and neighbourhood-level confounders and pathway variables. Analyses included 2,071 children aged 0-9 yrs at enrolment from the Project on Human Development in Chicago Neighborhoods. Multilevel logistic regression models estimated the likelihood of asthma, controlling for individual-level (child's age, sex, race/ethnicity, maternal asthma, socioeconomic status and family violence in the home) and neighbourhood-level confounders (concentrated disadvantage, collective efficacy and social disorder), and pathway variables (maternal smoking, breastfeeding). In adjusted analyses, medium (OR 1.60, 95% CI 1.17-2.19) and high levels (OR 1.56, 95% CI 1.12-2.18) of community violence were associated with increased asthma risk, relative to low levels. The increased asthma risk remained for African Americans when models included community violence and all other individual-level covariates, but attenuated to borderline nonsignificance when further adjusting for collective efficacy. Community violence is associated with asthma risk when controlling for individual- and neighborhood-level confounders. Neither community violence, nor the other individual-level factors, fully accounted for the excess asthma burden among African Americans. These data suggest that public health interventions outside the biomedical model may be needed to reduce asthma in disadvantaged populations. PMID:20413538

  8. Analysis of open innovation communities from the perspective of Social Network Analysis Analysis of open innovation communities from the perspective of Social Network Analysis Análisis de las comunidades de innovación abierta desde la perspectiva del Análisis de Redes Sociales

    Directory of Open Access Journals (Sweden)

    Rocio Martinez-Torres

    2013-01-01

    Full Text Available Purpose: Open innovation represents an emergent paradigm by which organizations make use of internal and external resources to drive their innovation processes. The growth of information and communication technologies has facilitated the emergence of online open innovation communities which allow a direct contact with customers and users. The aim of this work consists of analyzing the behavior of open innovation community members from the perspective of social network analysis, in order to determine to what extent the activity of users is related to the interest that posted ideas are generating and to what extent the scoring systems based on collective intelligence are adequate for the identification of users posting ideas that can be potentially implemented by the organization.Design/methodology/approach: Open innovation communities can be represented as graphs, where the nodes represent the community members and the arcs between nodes represent the interactions among users according to the different ways of participation allowed within the community. Using social network analysis techniques, several variables representing different participation features of community members can be collected. The correlation coefficients among these variables provide information about the relationships among users' activity, the interest that their posted ideas arouse within the community and the score that posted ideas receive from the rest of the community.Findings and Originality/value: Obtained results show a positive correlation among the different participation possibilities offered by the studied community. That means that users which are active posting ideas are also active commenting or scoring other users' ideas. However, obtained results also show that those ideas generating more interest among community members are not always the ones that receive a better evaluation by other community members. With respect to those ideas which are finally implemented by the organization, obtained results point out that they are in general the ones that arouse more interest within the community rather that the ones that obtain a better evaluation.Research limitations/implications: This work analyzes the case study of IdeaStorm innovation community promoted by Dell. Despite of being a single case study, it is representative enough as IdeaStorm is one of the most popular innovation communities and one of the pioneers in the implementation of the open innovation paradigm.Practical implications: Putting into practice open innovation communities has the drawback of the huge volume of generated information, many times quite difficult to process by the innovation department of the organization. That is the reason why it is quite important for the organization to know the patterns of behavior of community members, how the community scoring system is working and to what extent posted ideas are aligned with the organization strategic innovation policies.Originality/value: This work deals with the issue of putting into practice the open innovation paradigm using social network analysis techniques for modeling the behavior and activity of users belonging to open innovation communities. Moreover, this study not only considers the activity of community members but also the implications for the organization in the form of ideas that have been finally implemented.Purpose: Open innovation represents an emergent paradigm by which organizations make use of internal and external resources to drive their innovation processes. The growth of information and communication technologies has facilitated the emergence of online open innovation communities which allow a direct contact with customers and users. The aim of this work consists of analyzing the behavior of open innovation community members from the perspective of social network analysis, in order to determine to what extent the activity of users is related to the interest that posted ideas are generating and to what extent the scoring systems based on collective intelligence are adequate

  9. High-resolution melt analysis for rapid comparison of bacterial community compositions.

    Science.gov (United States)

    Hjelmsø, Mathis Hjort; Hansen, Lars Hestbjerg; Baelum, Jacob; Feld, Louise; Holben, William E; Jacobsen, Carsten Suhr

    2014-06-01

    In the study of bacterial community composition, 16S rRNA gene amplicon sequencing is today among the preferred methods of analysis. The cost of nucleotide sequence analysis, including requisite computational and bioinformatic steps, however, takes up a large part of many research budgets. High-resolution melt (HRM) analysis is the study of the melt behavior of specific PCR products. Here we describe a novel high-throughput approach in which we used HRM analysis targeting the 16S rRNA gene to rapidly screen multiple complex samples for differences in bacterial community composition. We hypothesized that HRM analysis of amplified 16S rRNA genes from a soil ecosystem could be used as a screening tool to identify changes in bacterial community structure. This hypothesis was tested using a soil microcosm setup exposed to a total of six treatments representing different combinations of pesticide and fertilization treatments. The HRM analysis identified a shift in the bacterial community composition in two of the treatments, both including the soil fumigant Basamid GR. These results were confirmed with both denaturing gradient gel electrophoresis (DGGE) analysis and 454-based 16S rRNA gene amplicon sequencing. HRM analysis was shown to be a fast, high-throughput technique that can serve as an effective alternative to gel-based screening methods to monitor microbial community composition. PMID:24610853

  10. Defining Campus Violence: A Phenomenological Analysis of Community Stakeholder Perspectives

    Science.gov (United States)

    Mayhew, Matthew J.; Caldwell, Rebecca J.; Goldman, Emily Grey

    2011-01-01

    The purpose of this study was to derive an empirically based understanding of campus violence. Grounded in a communication paradigm offered by sociolinguistic scholars, we adopted a phenomenological approach for conducting and analyzing 23 interviews from campus community stakeholders, including students, staff, faculty, administrators, and…

  11. The Community Mental Health Center Movement: A Social Systems Analysis.

    Science.gov (United States)

    Snow, David L.; Newton, Peter M.

    A sociopsychological approach is applied to social systems in examining the community mental health center movement. The interrelated concepts of task(s), social structure, culture, and social process help explicate the overwhelming emphasis on direct clinical service at the cost of indirect service. The historical evolution of the task-mandate…

  12. Molecular Analysis of Endolithic Microbial Communities in Volcanic Glasses

    Science.gov (United States)

    di Meo, C. A.; Giovannoni, S.; Fisk, M.

    2002-12-01

    Terrestrial and marine volcanic glasses become mineralogically and chemically altered, and in many cases this alteration has been attributed to microbial activity. We have used molecular techniques to study the resident microbial communities from three different volcanic environments that may be responsible for this crustal alteration. Total microbial DNA was extracted from rhyolite glass of the 7 million year old Rattlesnake Tuff in eastern Oregon. The DNA was amplified using the polymerase chain reaction (PCR) with bacterial primers targeting the 16S rRNA gene. This 16S rDNA was cloned and screened with restriction fragment length polymorphism (RFLP). Out of 89 total clones screened, 46 belonged to 13 different clone families containing two or more members, while 43 clones were unique. Sequences of eight clones representing the most dominant clone families in the library were 92 to 97% similar to soil bacterial species. In a separate study, young pillow basalts (genes, whereas archaeal genes were quite abundant. A genetic fingerprinting technique, terminal restriction fragment length polymorphism (T-RFLP), was used to compare the archaeal community compositions among the six different basalts. Filtered deep-sea water samples (~15 L) were examined in parallel to identify any overlap between rock- and seawater-associated archaea. The six rock community profiles were quite similar to each other, and the background water communities were also similar, respectively. Both the rock and water communities shared the same dominant peak. To identify the T-RFLP peaks corresponding to the individual members of the rock and seawater communities, clone libraries of the archaeal 16S rDNA for one basalt sample (Dive 3718) and its corresponding background water sample were constructed. The most abundant archaeal genes were closely related to uncultured Group I marine Crenarchaeota that have been previously identified from similar deep-sea habitats. These archaeal genes collectively correspond to the dominant T-RFLP peak present in both the rock and water samples. In a third study, we investigated the microbial community residing in a Hawaiian Scientific Drilling Program core collected near Hilo, Hawaii. Total microbial DNA was extracted from a depth of 1351 m in the drill core (ambient temperature in the drill hole ~16°C), where petrographic evidence suggested the presence of microbial alteration. Archaeal 16S rRNA genes were amplified, cloned, and twelve clones representing the most abundant groups were sequenced. Eleven out of the twelve clones were 97 to 99% similar to Group I marine Crenarchaeota, while the remaining clone was 95% similar to Euryarchaeota, based on BLAST searches of the GenBank database. Our community-level approach to studying microbes living in volcanic glasses has provided a greater understanding of the microbial communities that potentially alter these materials.

  13. Community projects: An experimental analysis of a fair implementation process

    OpenAIRE

    Cicognani, Simona; D Ambrosio, Anna; Gu?th, Werner; Pfuderer, Sinome; Ploner, Matteo

    2012-01-01

    We define and experimentally test a public provision mechanism that meets three basic ethical requirements and allows community members to influence, via monetary bids, which of several projects is implemented. For each project, participants are assigned personal values, which can be positive or negative. We provide either complete or only private information about others' personal values. This produces two distinct public provision games which are experimentally implemented and analysed for ...

  14. An analysis of open source principles in diverse collaborative communities

    OpenAIRE

    Coffin, Jill

    2006-01-01

    Open source culture and practice emerged as software hackers took control over the production, ownership and distribution of their skilled work. This revolution, quiet and unnoticed by most, began over twenty years ago. Along the way, free and open source software hackers developed organizational and dialog structures to support their ethos, creating a successful model for collaboration. This paper applies traits common to successful free software and open source hacker communities as a frame...

  15. Cost-Benefit Analysis of the Community Patent

    OpenAIRE

    Danguy, Je?ro?me; Pottelsberghe La Potterie, Bruno

    2011-01-01

    For more than 40 years, governments and professional associations have acted, voted or lobbied against the implementation of the Community Patent (COMPAT, officially called the EU Patent). The econometric results and simulations presented in this paper suggest that, thanks to its attractiveness in terms of market size and a sound renewal fee structure, the COMPAT would drastically reduce the relative patenting costs for applicants while generating more income for the European Patent Office an...

  16. Sensitivity analysis in the WWTP modelling community – new opportunities and applications

    OpenAIRE

    Sin, Gu?rkan; Ruano, M. V.; Neumann, Marc B.; Ribes, J.; Gernaey, Krist; Ferrer, J.; Van Loosdrecht, Mark C.M.; Gujer, Willi

    2010-01-01

    A mainstream viewpoint on sensitivity analysis in the wastewater modelling community is that it is a first-order differential analysis of outputs with respect to the parameters – typically obtained by perturbing one parameter at a time with a small factor. An alternative viewpoint on sensitivity analysis is related to uncertainty analysis, which attempts to relate the total uncertainty in the outputs to the uncertainty in the inputs. In this paper we evaluate and discuss two such sensitivit...

  17. The productivity of social capital: An econometric analysis of 49 Peruvian highland communities

    OpenAIRE

    Wiig, Henrik

    2003-01-01

    Many empirical studies find a partial negative e?ect of market integration on cooperation in traditional poor small-scale farmer communities in developing countries, blaming an erosion of collective action enhancing norms (Social Capital). This paper takes the empirical analysis one step further by estimating the e?ect on income. A survey on cooperation, institutions and income level was conducted by the author in 49 Peruvian highland communities in order to estimate a production function...

  18. Social trust and self-rated health in US communities: a multilevel analysis

    OpenAIRE

    Subramanian, S. V.; Kim, Daniel J.; Kawachi, Ichiro

    2002-01-01

    This study assessed the contextual and individual effects of social trust on health. Methods consisted of a multilevel regression analysis of self-rated poor health among 21,456 individuals nested within 40 US communities included in the 2000 Social Capital Community Benchmark Survey. Controlling for demographic covariates, a strong income and education gradient was observed for self-rated health. Higher levels of cominunity social trust were associated with a lover probability of reporting p...

  19. Molecular Analysis of Microbial Community Structures in Pristine and Contaminated Aquifers: Field and Laboratory Microcosm Experiments

    OpenAIRE

    Shi, Y.; Zwolinski, M. D.; Schreiber, M. E.; Bahr, J. M.; Sewell, G. W.; Hickey, W. J.

    1999-01-01

    This study used phylogenetic probes in hybridization analysis to (i) determine in situ microbial community structures in regions of a shallow sand aquifer that were oxygen depleted and fuel contaminated (FC) or aerobic and noncontaminated (NC) and (ii) examine alterations in microbial community structures resulting from exposure to toluene and/or electron acceptor supplementation (nitrate). The latter objective was addressed by using the NC and FC aquifer materials for anaerobic microcosm stu...

  20. Benthic diatoms in the Gulf of Bothnia : Community analysis and diversity

    OpenAIRE

    Busse, Svenja

    2002-01-01

    Benthic diatoms are valuable tools for biological monitoring and paleo-ecological reconstruction of past environmental conditions. This thesis aims at describing size-related properties of benthic diatoms and suggests that data assessment for community analysis can be improved by considering the importance of scale. It investigates which environmental factors structure epilithic diatom communities on the coast of the Gulf of Bothnia and identifies environmental factors correlated with phytobe...

  1. Characterization of Antimicrobial Resistance Dissemination across Plasmid Communities Classified by Network Analysis

    Directory of Open Access Journals (Sweden)

    Akifumi Yamashita

    2014-04-01

    Full Text Available The global clustering of gene families through network analysis has been demonstrated in whole genome, plasmid, and microbiome analyses. In this study, we carried out a plasmidome network analysis of all available complete bacterial plasmids to determine plasmid associations. A blastp clustering search at 100% aa identity cut-off and sharing at least one gene between plasmids, followed by a multilevel community network analysis revealed that a surprisingly large number of the plasmids were connected by one largest connected component (LCC, with dozens of community sub-groupings. The LCC consisted mainly of Bacilli and Gammaproteobacteria plasmids. Intriguingly, horizontal gene transfer (HGT was noted between different phyla (i.e., Staphylococcus and Pasteurellaceae, suggesting that Pasteurellaceae can acquire antimicrobial resistance (AMR genes from closely contacting Staphylococcus spp., which produce the external supplement of V-factor (NAD. Such community network analysis facilitate displaying possible recent HGTs like a class 1 integron, str and tet resistance markers between communities. Furthermore, the distribution of the Inc replicon type and AMR genes, such as the extended-spectrum ß-lactamase (ESBL CTX-M or the carbapenemases KPC NDM-1, implies that such genes generally circulate within limited communities belonging to typical bacterial genera. Thus, plasmidome network analysis provides a remarkable discriminatory power for plasmid-related HGT and evolution.

  2. Analysis of stomach bacterial communities in Australian feral horses.

    Science.gov (United States)

    St-Pierre, Benoit; de la Fuente, Gabriel; O'Neill, Sean; Wright, André-Denis G; Al Jassim, Rafat

    2013-01-01

    We investigated the community structure of bacteria that populate the stomach of the Brumby, a breed of feral horses from the Australian outback. Using a 16S rRNA gene clone library, we identified 155 clones that were assigned to 26 OTUs based on a 99.0 % sequence identity cutoff. Two OTUs represented 73.5 % of clones, while 18 OTUs were each assigned only a single clone. Four major bacterial types were identified in the Brumby stomach: Lactobacillaceae, Streptococcaceae, Veillonellaceae and Pasteurellaceae. The first three groups, which represented 98.1 % of the Brumby stomach library clones, belonged to the bacterial phylum Firmicutes. We found that 49.7 % of clones were related to bacterial species previously identified in the equine hindgut, and that 44.5 % of clones were related to symbiotic bacterial species identified in the mouth or throat of either horses or other mammals. Our results indicated that the composition of mutualistic bacterial communities of feral horses was consistent with other studies on domestic horses. In addition to bacterial sequences, we also identified four plastid 16S rRNA gene sequences, which may help in further characterizing the type of vegetation consumed by Brumby horses in their natural environment. PMID:23065252

  3. Characterization of chlorinated and chloraminated drinking water microbial communities in a distribution system simulator using pyrosequencing data analysis

    Science.gov (United States)

    The molecular analysis of drinking water microbial communities has focused primarily on 16S rRNA gene sequence analysis. Since this approach provides limited information on function potential of microbial communities, analysis of whole-metagenome pyrosequencing data was used to...

  4. Investigating Student Communities with Network Analysis of Interactions in a Physics Learning Center

    CERN Document Server

    Brewe, Eric; Sawtelle, Vashti

    2011-01-01

    Developing a sense of community among students is one of the three pillars of an overall reform effort to increase participation in physics, and the sciences more broadly, at Florida International University. The emergence of a research and learning community, embedded within a course reform effort, has contributed to increased recruitment and retention of physics majors. Finn and Rock [1] link the academic and social integration of students to increased rates of retention. We utilize social network analysis to quantify interactions in Florida International University's Physics Learning Center (PLC) that support the development of academic and social integration,. The tools of social network analysis allow us to visualize and quantify student interactions, and characterize the roles of students within a social network. After providing a brief introduction to social network analysis, we use sequential multiple regression modeling to evaluate factors which contribute to participation in the learning community. ...

  5. Network Analysis of International Trade in Art in the European Community Countries

    OpenAIRE

    Bialynicka-birula, Joanna

    2010-01-01

    The issue of international trade in works of art in the European Community countries will be taken up in the paper. It will present the results of network analysis of unique art import and export. The analysis will be based on Eurostat international trade data (Harmonised System for Chapter 97 – works of art, collectors’ pieces and antiques). The analysis of international trade will be held according to respective kinds of works of art i.e.: paintings, drawings and pastels; collages, grap...

  6. Learning for Social Justice: A Cultural Historical Activity Theory Analysis of Community Leadership Empowerment in a Korean American Community Organization

    Science.gov (United States)

    Kim, Junghwan

    2012-01-01

    Community organizations, especially those aiming at social change, play a significant role in establishing societal health and contributing to adult learning in daily communities. Their existence secures marginalized groups' involvement in society and enhances community development by building community leadership with multiple stakeholders…

  7. Conceptualizing the impact of special events on community health service levels: an operational analysis.

    Science.gov (United States)

    Lund, Adam; Turris, Sheila A; Bowles, Ron

    2014-10-01

    Mass gatherings (MG) impact their host and surrounding communities and with inadequate planning, may impair baseline emergency health services. Mass gatherings do not occur in a vacuum; they have both consumptive and disruptive effects that extend beyond the event itself. Mass gatherings occur in real geographic locations that include not only the event site, but also the surrounding neighborhoods and communities. In addition, the impact of small, medium, or large special events may be felt for days, or even months, prior to and following the actual events. Current MG reports tend to focus on the events themselves during published event dates and may underestimate the full impact of a given MG on its host community. In order to account for, and mitigate, the full effects of MGs on community health services, researchers would benefit from a common model of community impact. Using an operations lens, two concepts are presented, the "vortex" and the "ripple," as metaphors and a theoretical model for exploring the broader impact of MGs on host communities. Special events and MGs impact host communities by drawing upon resources (vortex) and by disrupting normal, baseline services (ripple). These effects are felt with diminishing impact as one moves geographically further from the event center, and can be felt before, during, and after the event dates. Well executed medical and safety plans for events with appropriate, comprehensive risk assessments and stakeholder engagement have the best chance of ameliorating the potential negative impact of MGs on communities. Lund A , Turris SA , Bowles R . Conceptualizing the impact of special events on community health service levels: an operational analysis. Prehosp Disaster Med. 2014;29(5):1-7 . PMID:25188753

  8. Regional-scale analysis of subtidal rocky shore community

    Science.gov (United States)

    Derrien-Courtel, Sandrine; Le Gal, Aodren; Grall, Jacques

    2013-12-01

    The French monitoring network, REseau BENThique (REBENT), was launched by the Ministry of the Environment in 2003 following the 1999 Erika oil spill. REBENT aimed to acquire baseline knowledge of coastal benthic habitat distributions with a special focus on biological diversity. This study analyzed data from 38 subtidal rocky reef sites collected by a single diving team of marine biologists along the coast of Brittany from 2004 to 2010. At each site, the depth limits of the algal belts were determined between 0 and -40 m Chart Datum (CD); the flora and fauna compositions and abundances were sampled at -3 and -8 m CD. A total of 364 taxa (156 flora and 208 fauna), belonging to 12 phyla, were identified. The results showed that the depth limit and density of kelp beds increased as water turbidity decreased; moreover, several changes in community structure could be related to water turbidity and temperature. Thus, northern and southern Brittany showed strong differences in diversity and structure of the dominant kelp species ( Laminaria hyperborea and Saccorhiza polyschides). The results from this kelp habitat composition survey (dominant kelp species and indicator species) provided important information for local pressure assessments, like increases in turbidity. The data also provided a reference that could be useful for detecting changes in coastal water temperatures due to global warming.

  9. An Analysis of the Community and Public Library of Pawtucket, Rhode Island.

    Science.gov (United States)

    McKenna, Gerald

    This study is an evaluation and planning tool using information and techniques presented in a seminar conducted in 1975-76 called "Institute on Developing Dynamic Public Library Services Responsive to Community Needs." It is a synthesis and analysis of information available about the City and its Library. Presented in four parts, Part 1 analyzes…

  10. Sport participation analysis: an empirical study on two small communities

    OpenAIRE

    Rodrigues, Pedro Miguel Monteiro; Outeiro, Miguel; Miguel Da?vila, Jose? A?ngel

    2007-01-01

    Information about Sport Participation Index (SPI) is a critical factor in the sport development process. Sociodemographic data can be a cost effective instrument to increase effi ciency of local policies that promote sport participation (SP). Although bibliography about SP is vast, the analysis and comparison of previous works is complex due to heterogeneity in methodologies. There is an enormous disparity in SP results in Portugal: Marivoet (2001) refers that SPI in Portugal is 2...

  11. Voluntary Participation in Community Economic Development in Canada: An Empirical Analysis

    OpenAIRE

    Laura Lamb

    2011-01-01

    This article is an empirical analysis of an individual's decision to participate in community economic development (CED) initiatives in Canada. The objective of the analysis is to better understand how individuals make decisions to volunteer time toward CED initiatives and to determine whether the determinants of participation in CED are unique when compared to those of participation in volunteer activities in general. The dataset employed is Statistics Canada's 2004 Canada Survey of Giving, ...

  12. Analysis of the Bacterial Communities in Lime Concretion Black Soil upon the Incorporation of Crop Residues

    Directory of Open Access Journals (Sweden)

    Shao-Qiang Tao

    2012-09-01

    Full Text Available To analyze the bacterial communities in lime concretion black soil upon the incorporation of crop residues for two years in wheat-maize system, total DNA was directly extracted and PCR-amplified with the F357GC and R518 primers targeting the 16S rRNA genes of V3 region. The amplified fragments were analyzed by perpendicular DGGE. Analyzing of species richness index S and Shannon diversity index H revealed that there was a high diversity of soil bacterial community compositions among all treatments after incorporation of crop residues and fertilizing under field conditions. Eleven DGGE bands recovered were re-amplified, sequenced. Phylogenetic analysis of the representative DGGE fingerprints identified four groups of the prokaryotic communities in the soil by returning wheat residues and fertilizing under field conditions. The bacterial communities belonged to gamma proteobacterium, Cupriavidus sp, halophilic eubacterium, Acidobacterium sp, Sorangium sp, delta proteobacterium, Streptococcus sp and Streptococcus agalactiae were main bacterial communities. Principal Component Analysis (PCA showed that there were the differences in DNA profiles among the six treatments. It showed that wheat residue returning, maize residue returning and fertilizing all can improve bacterial diversity in varying degrees. As far as improvement of bacterial diversity was concerned, wheat residue returning was higher than fertilizing, and fertilizing higher than maize residue returning.

  13. Application of Nonlinear Analysis Methods for Identifying Relationships Between Microbial Community Structure and Groundwater Geochemistry

    International Nuclear Information System (INIS)

    The relationship between groundwater geochemistry and microbial community structure can be complex and difficult to assess. We applied nonlinear and generalized linear data analysis methods to relate microbial biomarkers (phospholipids fatty acids, PLFA) to groundwater geochemical characteristics at the Shiprock uranium mill tailings disposal site that is primarily contaminated by uranium, sulfate, and nitrate. First, predictive models were constructed using feedforward artificial neural networks (NN) to predict PLFA classes from geochemistry. To reduce the danger of overfitting, parsimonious NN architectures were selected based on pruning of hidden nodes and elimination of redundant predictor (geochemical) variables. The resulting NN models greatly outperformed the generalized linear models. Sensitivity analysis indicated that tritium, which was indicative of riverine influences, and uranium were important in predicting the distributions of the PLFA classes. In contrast, nitrate concentration and inorganic carbon were least important, and total ionic strength was of intermediate importance. Second, nonlinear principal components (NPC) were extracted from the PLFA data using a variant of the feedforward NN. The NPC grouped the samples according to similar geochemistry. PLFA indicators of Gram-negative bacteria and eukaryotes were associated with the groups of wells with lower levels of contamination. The more contaminated samples contained microbial communities that wles contained microbial communities that were predominated by terminally branched saturates and branched monounsaturates that are indicative of metal reducers, actinomycetes, and Gram-positive bacteria. These results indicate that the microbial community at the site is coupled to the geochemistry and knowledge of the geochemistry allows prediction of the community composition

  14. Spectral methods for the detection of network community structure: a comparative analysis

    International Nuclear Information System (INIS)

    Spectral analysis has been successfully applied to the detection of community structure of networks, respectively being based on the adjacency matrix, the standard Laplacian matrix, the normalized Laplacian matrix, the modularity matrix, the correlation matrix and several other variants of these matrices. However, the comparison between these spectral methods is less reported. More importantly, it is still unclear which matrix is more appropriate for the detection of community structure. This paper answers the question by evaluating the effectiveness of these five matrices against benchmark networks with heterogeneous distributions of node degree and community size. Test results demonstrate that the normalized Laplacian matrix and the correlation matrix significantly outperform the other three matrices at identifying the community structure of networks. This indicates that it is crucial to take into account the heterogeneous distribution of node degree when using spectral analysis for the detection of community structure. In addition, to our surprise, the modularity matrix exhibits very similar performance to the adjacency matrix, which indicates that the modularity matrix does not gain benefits from using the configuration model as a reference network with the consideration of the node degree heterogeneity

  15. High-Resolution Melt Analysis for Rapid Comparison of Bacterial Community Compositions

    OpenAIRE

    Hjelmsø, Mathis Hjort; Hansen, Lars Hestbjerg; Bælum, Jacob; Feld, Louise; Holben, William E.; Jacobsen, Carsten Suhr

    2014-01-01

    In the study of bacterial community composition, 16S rRNA gene amplicon sequencing is today among the preferred methods of analysis. The cost of nucleotide sequence analysis, including requisite computational and bioinformatic steps, however, takes up a large part of many research budgets. High-resolution melt (HRM) analysis is the study of the melt behavior of specific PCR products. Here we describe a novel high-throughput approach in which we used HRM analysis targeting the 16S rRNA gene to...

  16. Sensitivity analysis in the WWTP modelling community – new opportunities and applications

    DEFF Research Database (Denmark)

    Sin, Gürkan; Ruano, M.V.

    2010-01-01

    A mainstream viewpoint on sensitivity analysis in the wastewater modelling community is that it is a first-order differential analysis of outputs with respect to the parameters – typically obtained by perturbing one parameter at a time with a small factor. An alternative viewpoint on sensitivity analysis is related to uncertainty analysis, which attempts to relate the total uncertainty in the outputs to the uncertainty in the inputs. In this paper we evaluate and discuss two such sensitivity analysis methods for two different purposes/case studies: (i) Applying sensitivity analysis to a plant design (BSM1 plant layout) using Standardized Regression Coefficients (SRC) and (ii) Applying sensitivity analysis to help fine-tuning a fuzzy controller for a BNPR plant using Morris Screening. The results obtained from each case study are then critically discussed in view of practical applications of sensitivity analysis in day-to-day engineering projects.

  17. Community characteristics that attract physicians in Japan: a cross-sectional analysis of community demographic and economic factors

    OpenAIRE

    Toyokawa Satoshi; Noguchi Satomi; Inoue Kazuo; Matsumoto Masatoshi; Kajii Eiji

    2009-01-01

    Abstract Background In many countries, there is a surplus of physicians in some communities and a shortage in others. Population size is known to be correlated with the number of physicians in a community, and is conventionally considered to represent the power of communities to attract physicians. However, associations between other demographic/economic variables and the number of physicians in a community have not been fully evaluated. This study seeks other parameters that correlate with t...

  18. Separation of the bacterial species, Escherichia coli, from mixed-species microbial communities for transcriptome analysis

    Directory of Open Access Journals (Sweden)

    Holder Diane

    2011-03-01

    Full Text Available Abstract Background The study of bacterial species interactions in a mixed-species community can be facilitated by transcriptome analysis of one species in the community using cDNA microarray technology. However, current applications of microarrays are mostly limited to single species studies. The purpose of this study is to develop a method to separate one species, Escherichia coli as an example, from mixed-species communities for transcriptome analysis. Results E. coli cells were separated from a dual-species (E. coli and Stenotrophomonas maltophilia community using immuno-magnetic separation (IMS. High recovery rates of E. coli were achieved. The purity of E. coli cells was as high as 95.0% separated from suspended mixtures consisting of 1.1 - 71.3% E. coli, and as high as 96.0% separated from biofilms with 8.1% E. coli cells. Biofilms were pre-dispersed into single-cell suspensions. The reagent RNAlater (Ambion, Austin, TX was used during biofilm dispersion and IMS to preserve the transcriptome of E. coli. A microarray study and quantitative PCR confirmed that very few E. coli genes (only about eight out of 4,289 ORFs exhibited a significant change in expression during dispersion and separation, indicating that transcriptional profiles of E. coli were well preserved. Conclusions A method based on immuno-magnetic separation (IMS and application of RNAlater was developed to separate a bacterial species, E. coli as an example, from mixed-species communities while preserving its transcriptome. The method combined with cDNA microarray analysis should be very useful to study species interactions in mixed-species communities.

  19. Trenton ICES: demonstration of a grid-connected integrated community energy system. Phase II. Volumes 1 and 2. Preliminary design of ICES system and analysis of community ownership

    Energy Technology Data Exchange (ETDEWEB)

    1978-03-22

    Preliminary design and evaluation for the system has been carried out. The findings of this study are: (1) it is technically feasible, utilizing commercially available hardware; (2) under utility ownership and operation, it will not be economically competitive with conventional alternatives for heating and cooling buildings (analysis contained in companion report under separate cover); (3) under utility ownership and operation, no restrictions have been identified that would prevent the project from proceeding; (4) under community ownership, preliminary analysis indicates that thermal energy produced by Trenton ICES will be approximately 12 percent less expensive than thermal energy produced by oil-fired boilers; and (5) a review and update of institutional analyses performed during Phase 2 has identified no factors that would preclude community ownership and operation of the Trenton ICES. The background data produced for the analysis of the Trenton ICES based on utility ownership and operation can, in large part, be used as the bases for a detailed analysis of community ownership.

  20. Learning Communities in Undergraduate STEM Education: A Quantitative Analysis of how Sense of Community Influences Retention of Students

    Science.gov (United States)

    Archie, T.; Newman, P.

    2012-12-01

    Countless programs are aimed at retaining first year college students in their majors and at their institutions. Additionally, first year students in STEM majors are retained at lower rates, than non-STEM majors. Previous research has shown that students who leave the institution are not as academically and socially integrated into the campus community than students who persist at an institution. Residential learning communities can be thought of as a retention tool by enhancing the academic and social integration of their participants. Academic integration has historically been measured by academic success as indicated by GPA, while social integration has been more difficult to measure. We adapted the Sense of Community Index (SCI) as a measure of social integration. Sense of community (SOC) has been defined as ''a feeling that members have of belonging, a feeling that members matter to one another and to the group, and a shared faith that members' needs will be met through their commitment to be together''. This quantitative study examines sense of community as a means of social integration and explores the relationship between learning communities, students' sense of community, and their intent to persist at a large public university and within their current major. An online survey of 60 first-year college students in a Natural Resources College, examined the relationships between learning community participation, sense of community, and student retention. A logistic regression of sense of community was very effective in predicting students' intent to stay or leave the institution. Structural equation models showed that sense of community was strongly positively related to a students' intent to stay or leave the institution for non-learning community participants, but not for learning community participants. We hypothesized that learning community participants sense of community needs would be more fully met than non-learning community participants. Learning community students showed a weak correlation between sense of community and intent to persist in their major, indicating that these students' departure decisions were based on factors other than sense of community. These finding were consistent with previous research of sense of community which has supported this construct as a needs based hierarchical theory. For example, if students' sense of community needs are met, then they can focus on higher level needs, such as academic success. Conversely, if students' sense of community needs are not being fully met, then this factor remains salient in terms of influencing their departure decision. Our results suggest that learning communities fulfill students' sense of community needs, thus this factor has less influence on learning community participants' decision to leave the institution than their counterparts who do not participate in a learning community. Our results suggest that learning communities are effective in fulfilling students' sense of community needs, thus allowing them to focus their energies on higher order needs such as academic success.

  1. Seasonal changes in the microbial community of a salt marsh, measured by phospholipid fatty acid analysis

    DEFF Research Database (Denmark)

    Keith-Roach, Miranda; Bryan, N.D.

    2002-01-01

    Microbial activity within the environment can have distinct geochemical effects, and so changes in a microbial community structure can result in geochemical change. We examined seasonal changes in both the microbial community and the geochemistry of an inter-tidal salt marsh in north-west England to characterise biogeochemical processes occurring at this site. Phospholipid fatty acid (PLFA) analysis of sediment samples collected at monthly intervals was used to measure seasonal changes in microbial biomass and community structure. The PLFA data were analysed using multivariate techniques (Ward's method and the Mahalanobis distance metric), and we show that the use of the Mahalanobis distance metric improves the statistical analysis by providing detailed information on the reasons samples cluster together and identifying the distinguishing features between the separate clusters. Five clusters of like samples were defined, showing differences in the community structure over the course of a year. At all times, the microbial community was dominated by PLFA associated with aerobic bacteria, but this was most pronounced in summer (August). The abundance of branched fatty acids, a measure of the biomass of anaerobes, started to increase later in the year than did those associated with aerobes and the fungal biomarker 18:2omega6 showed a brief late-summer peak. The salt marsh remained mildly oxic throughout the year despite the increase in microbial respiration, suggested by the large increases in the abundance of PLFA, in the warmer months. The conditions therefore remained most favourable for aerobic species throughout the year, explaining their continual dominance at this site. However, as the abundance of PLFA synthesised by anaerobes increased, increases in dissolved Mn concentrations were observed, which we suggest were due to anaerobic respiration of Mn(IV) to Mn(II). Overall, the geochemical conditions were consistent with the microbial community structure and changes within it.

  2. Habitat niche community-level analysis of an amphibian assemblage at Lake Nabugabo, Uganda

    Directory of Open Access Journals (Sweden)

    M. Behangana

    2008-11-01

    Full Text Available Community structure was studied across six different habitat types in an amphibian assemblage constituted by 24 species belonging to five families, from Lake Nabugabo, Uganda. We employed a suite of different statistical methods, including univariate, multivariate, and Monte Carlo procedures to investigate the randomness/nonrandomness and the seasonal effects (wet versus dry season of the community assembly. We calculated for each species in each habitat type an index of relative abundance by using a time constrained counting technique, with 48 1-h counts for each habitat type. Co-occurrence was analysed by C score with 30 000 simulations; resource partitioning patterns by RA2 and RA3 algorithms with 30 000 simulations; and apparent dissimilarity among species in terms of habitat use by UPGMA dendrograms. After pooling data from wet and dry seasons, it resulted that the amphibian community was non-randomly assembled according to C-score analyses, but both RA2 and RA3 were unable to uncover any competitive structure for the dataset. Seasonal effects were evident, and although C score analyses confirmed a nonrandom structure for the community under study (particularly in wet season, RA3 showed that species with high relative abundance tended to significantly concentrate in one habitat type (swamp forest rather than to partition the habitat resource. UPGMA dendrograms grouped the species differently in dry versus wet seasons. Overall, the comparative evidence of 1 non-random community structure according to C-score analysis, and 2 absence of resource partitioning according to niche overlap null models analysis, suggests that community organization in Lake Nabugabo amphibians is generated by habitat affinities rather than by interspecific competition.

  3. Service utilization in community health centers in China: a comparison analysis with local hospitals

    Directory of Open Access Journals (Sweden)

    Wang Xiaohang

    2006-08-01

    Full Text Available Abstract Background Being an important part of China's Urban Health Care Reform System, Community Health Centers (CHCs have been established throughout the entire country and are presently undergoing substantial reconstruction. However, the services being delivered by the CHCs are far from reaching their performance targets. In order to assess the role of the CHCs, we examined their performance in six cities located in regions of South-East China. The purpose of this investigation was to identify the utilization and the efficiency of community health resources that are able to provide basic medical and public health services. Methods The study was approved by Peking University Health Science Center Institutional Reviewing Board (NO: IRB00001052-T1. Data were collected from all the local health bureaux and processed using SPSS software. Methods of analysis mainly included: descriptive analysis, paired T-test and one-way ANOVA. Results The six main functions of the CHCs were not fully exploited and the surveys that were collected on their efficiency and utilization of resources indicate that they have a low level of performance and lack the trust of local communities. Furthermore, the CHCs seriously lack funding support and operate under difficult circumstances, and residents have less positive attitudes towards them. Conclusion The community health service must be adjusted according to the requirements of urban medical and health reform, taking into account communities' health needs. More research is required on the living standards and health needs of residents living within the CHC's range, taking into consideration the users' needs in expanding the newly implemented service, and at the same time revising the old service system so as to make the development of CHCs realistic and capable of providing a better service to patients. Several suggestions are put forward for an attainable scheme for developing a community health service.

  4. Zooplankton community analysis in the Changjiang River estuary by single-gene-targeted metagenomics

    Science.gov (United States)

    Cheng, Fangping; Wang, Minxiao; Li, Chaolun; Sun, Song

    2014-07-01

    DNA barcoding provides accurate identification of zooplankton species through all life stages. Single-gene-targeted metagenomic analysis based on DNA barcode databases can facilitate longterm monitoring of zooplankton communities. With the help of the available zooplankton databases, the zooplankton community of the Changjiang (Yangtze) River estuary was studied using a single-gene-targeted metagenomic method to estimate the species richness of this community. A total of 856 mitochondrial cytochrome oxidase subunit 1 (cox1) gene sequences were determined. The environmental barcodes were clustered into 70 molecular operational taxonomic units (MOTUs). Forty-two MOTUs matched barcoded marine organisms with more than 90% similarity and were assigned to either the species (similarity>96%) or genus level (similarity<96%). Sibling species could also be distinguished. Many species that were overlooked by morphological methods were identified by molecular methods, especially gelatinous zooplankton and merozooplankton that were likely sampled at different life history phases. Zooplankton community structures differed significantly among all of the samples. The MOTU spatial distributions were influenced by the ecological habits of the corresponding species. In conclusion, single-gene-targeted metagenomic analysis is a useful tool for zooplankton studies, with which specimens from all life history stages can be identified quickly and effectively with a comprehensive database.

  5. Comparative Metagenomic Analysis of Coral Microbial Communities Using a Reference-Independent Approach

    Science.gov (United States)

    Carlos, Camila; Castro, Daniel Bedo Assumpção; Ottoboni, Laura M. M.

    2014-01-01

    By comparing the SEED and Pfam functional profiles of metagenomes of two Brazilian coral species with 29 datasets that are publicly available, we were able to identify some functions, such as protein secretion systems, that are overrepresented in the metagenomes of corals and may play a role in the establishment and maintenance of bacteria-coral associations. However, only a small percentage of the reads of these metagenomes could be annotated by these reference databases, which may lead to a strong bias in the comparative studies. For this reason, we have searched for identical sequences (99% of nucleotide identity) among these metagenomes in order to perform a reference-independent comparative analysis, and we were able to identify groups of microbial communities that may be under similar selective pressures. The identification of sequences shared among the metagenomes was found to be even better for the identification of groups of communities with similar niche requirements than the traditional analysis of functional profiles. This approach is not only helpful for the investigation of similarities between microbial communities with high proportion of unknown reads, but also enables an indirect overview of gene exchange between communities. PMID:25379670

  6. A causal loop analysis of the sustainability of integrated community case management in Rwanda.

    Science.gov (United States)

    Sarriot, Eric; Morrow, Melanie; Langston, Anne; Weiss, Jennifer; Landegger, Justine; Tsuma, Laban

    2015-04-01

    Expansion of community health services in Rwanda has come with the national scale up of integrated Community Case Management (iCCM) of malaria, pneumonia and diarrhea. We used a sustainability assessment framework as part of a large-scale project evaluation to identify factors affecting iCCM sustainability (2011). We then (2012) used causal-loop analysis to identify systems determinants of iCCM sustainability from a national systems perspective. This allows us to develop three high-probability future scenarios putting the achievements of community health at risk, and to recommend mitigating strategies. Our causal loop diagram highlights both balancing and reinforcing loops of cause and effect in the national iCCM system. Financial, political and technical scenarios carry high probability for threatening the sustainability through: (1) reduction in performance-based financing resources, (2) political shocks and erosion of political commitment for community health, and (3) insufficient progress in resolving district health systems--"building blocks"--performance gaps. In a complex health system, the consequences of choices may be delayed and hard to predict precisely. Causal loop analysis and scenario mapping make explicit complex cause-and-effects relationships and high probability risks, which need to be anticipated and mitigated. PMID:25779620

  7. Does social media users’ commenting behavior differ by their local community tie? A computer–assisted linguistic analysis approach

    OpenAIRE

    Xu, Weiai Wayne Department Of Communication At The University At Buffalo; Li, Liangyue Department Of Electrical And Computer Engineering At Northeastern University In Boston; Stefanone, Michael A. Department Of Communication At The University At Buffalo; Fu, Yun Assistant Professor And Founding Director Of The Smile Lab In The Department Of Electrical And Computer Engineering At Northeastern University At Boston

    2013-01-01

    This study is an exploratory attempt to use automatic linguistic analysis for understanding social media users’ news commenting behavior. The study addresses geographically–based dynamics in human–computer interaction, namely, users’ tie to a geographic community. Specifically, the study reveals that commenting behavior differs between users of different levels of local community tie. Comments by local users, those with higher level of local community tie, exhibit different linguistic...

  8. Molecular analysis of microbial community in a groundwater sample polluted by landfill leachate and seawater*

    OpenAIRE

    Tian, Yang-jie; Yang, Hong; Wu, Xiu-juan; Li, Dao-tang

    2005-01-01

    Seashore landfill aquifers are environments of special physicochemical conditions (high organic load and high salinity), and microbes in leachate-polluted aquifers play a significant role for intrinsic bioremediation. In order to characterize microbial diversity and look for clues on the relationship between microbial community structure and hydrochemistry, a culture-independent examination of a typical groundwater sample obtained from a seashore landfill was conducted by sequence analysis of...

  9. Evaluation of PCR primers for denaturing gradient gelelectrophoresis analysis of fungal communities in compost

    OpenAIRE

    Cocolin, Luca Simone

    2003-01-01

    Aims: Three previously published fungal specific PCR primer sets, referred to as the NS, EF and NL primer sets, were evaluated for use in compost microbial community analysis by PCR and denaturing gradient gel electrophoresis (DGGE). Methods and Results: Primers were first evaluated based on their tolerance to PCR inhibitors. Due to its sensitivity to inhibitors, the NS primer set was determined to require a 10-fold smaller volume addition of compost DNA to PCR than the EF and ...

  10. CMEIAS: A Computer-Aided System for the Image Analysis of Bacterial Morphotypes in Microbial Communities.

    Science.gov (United States)

    Liu, J.; Dazzo, F.B.; Glagoleva, O.; Yu, B.; Jain, A.K.

    2001-04-01

    A major challenge in microbial ecology is to develop reliable and facile methods of computer-assisted microscopy that can analyze digital images of complex microbial communities at single cell resolution, and compute useful quantitative characteristics of their organization and structure without cultivation. Here we describe a computer-aided interactive system to analyze the high degree of morphological diversity in growing microbial communities revealed by phase-contrast microscopy. The system, called "CMEIAS" (Center for Microbial Ecology Image Analysis System) consists of several custom plug-ins for UTHSCSA ImageTool, a free downloadable image analysis program operating on a personal computer in a Windows NT environment. CMEIAS uses various measurement features and two object classifiers to extract size and shape measurements of segmented, digital images of microorganisms and classify them into their appropriate morphotype. The first object classifier uses a single measurement feature to analyze relatively simple communities containing only a few morphotypes (e.g., regular rods, cocci, filaments). A second new hierarchical tree classifier uses an optimized subset of multiple measurement features to analyze significantly more complex communities containing greater morphological diversity than ever before possible. This CMEIAS shape classifier automatically categorizes each cell into one of 11 predominant bacterial morphotypes, including cocci, spirals, curved rods, U-shaped rods, regular straight rods, unbranched filaments, ellipsoids, clubs, rods with extended prostheca, rudimentary branched rods, and branched filaments. The training and testing images for development and evaluation of the CMEIAS classifier were obtained from 1,937 phase-contrast grayscale digital images of various diverse communities. The CMEIAS shape classifier had an accuracy of 96.0% on a training set of 1,471 cells and 97.0% on a test set of 4,270 cells representing all 11 bacterial morphotype classes, indicating that accurate classification of rich morphological diversity in microbial communities is now possible. An interactive edit feature was added to address the main sources of error in automatic shape classification, enabling the operator to inspect the assigned morphotype of each bacterium based on visual recognition of its distinctive pseudocolor, reassign it to another morphotype class if necessary, and add up to five other morphotypes to the classification scheme. The shape classifier reports on the number and types of different morphotypes present and the abundance among each of them, thus providing the data needed to compute the morphological diversity within the microbial community. An example of how CMEIAS can augment the analysis of microbial community structure is illustrated by studies of morphological diversity as an indicator of dynamic ecological succession following a nutrient shift-up perturbation in two continuously fed, anaerobic bioreactors with morphologically distinct start communities. Various steps to minimize the limitations of computer-assisted microscopy to classify bacterial morphotypes using CMEIAS are described. In summary, CMEIAS is an accurate, robust, flexible semiautomatic computing tool that can significantly enhance the ability to quantitate bacterial morphotype diversity and should serve as a useful adjunct to the analysis of microbial community structure. This first version of CMEIAS will be released as free, downloadable plug-ins so it can provide wide application in studies of microbial ecology. PMID:11391457

  11. E-Community System towards First Class Mentality Development: An Infrastructure Requirements Analysis

    Directory of Open Access Journals (Sweden)

    Rusli Abdullah

    2010-01-01

    Full Text Available E-Community portal can be classifed as an extension of normal type of knowledge management system (KMS development towards first class mentality. It servers varities of expects in term of capabilities and services especially for the benefits of community. Most of the community today are looking on this matter as a very important issue and try to search the best way to manage or organize this community system for sustain a high rate of continuous improvement. While e-community system (ECS or portal is a system that related to the process of knowledge capture, re-use, searching and representation to the user in a variety of form. The role of system could be determined by looking on the issues on how knowledge can be applied at the right time in the faster ways that based on the simplest command or agent given to the system in order to get the relevant knowledge from the portal. Besides that, system also could be looked on how the best element of infrastructure requirement could be used for, in the benefits of users in order to stored and captured as well as presenting the knowledge portal. The paper presents the analysis of the ECS infrastructure requirement, and its system implementation in a community of practise (CoP especially towards first class mentality development as well as discussing a variety issues that related to its involvement, so that it will help CoPs to increase their productivity and quality as well as to gain return on investment (ROI. 

  12. Phylogenetic analysis of the microbial community in hypersaline petroleum produced water from the Campos Basin.

    Science.gov (United States)

    Piubeli, Francine; Grossman, Matthew J; Fantinatti-Garboggini, Fabiana; Durrant, Lucia R

    2014-10-01

    In this work the archaea and eubacteria community of a hypersaline produced water from the Campos Basin that had been transported and discharged to an onshore storage facility was evaluated by 16S recombinant RNA (rRNA) gene sequence analysis. The produced water had a hypersaline salt content of 10 (w/v), had a carbon oxygen demand (COD) of 4,300 mg/l and contains phenol and other aromatic compounds. The high salt and COD content and the presence of toxic phenolic compounds present a problem for conventional discharge to open seawater. In previous studies, we demonstrated that the COD and phenolic content could be largely removed under aerobic conditions, without dilution, by either addition of phenol degrading Haloarchaea or the addition of nutrients alone. In this study our goal was to characterize the microbial community to gain further insight into the persistence of reservoir community members in the produced water and the potential for bioremediation of COD and toxic contaminants. Members of the archaea community were consistent with previously identified communities from mesothermic reservoirs. All identified archaea were located within the phylum Euryarchaeota, with 98 % being identified as methanogens while 2 % could not be affiliated with any known genus. Of the identified archaea, 37 % were identified as members of the strictly carbon-dioxide-reducing genus Methanoplanus and 59 % as members of the acetoclastic genus Methanosaeta. No Haloarchaea were detected, consistent with the need to add these organisms for COD and aromatic removal. Marinobacter and Halomonas dominated the eubacterial community. The presence of these genera is consistent with the ability to stimulate COD and aromatic removal with nutrient addition. In addition, anaerobic members of the phyla Thermotogae, Firmicutes, and unclassified eubacteria were identified and may represent reservoir organisms associated with the conversion hydrocarbons to methane. PMID:24920265

  13. Phylogenetic Analysis of the Hyperthermophilic Pink Filament Community in Octopus Spring, Yellowstone National Park

    Science.gov (United States)

    Pace, Norman R.

    This journal article reports the molecular phylogenetic approach used to analyze a microbial community associated with the 84 to 88 degrees C outflow from Octopus Spring. The authors perform techniques such as microscopy, DNA extraction and amplification, cloning and sequence analysis of 16S rRNA genes, phylogenetic analysis, and in situ hybridization to determine the limited phylogenetic diversity of the pink filaments including hydrogen-oxidizing bacteria. Located in PubMed, this article contains a link to a printable PDF version.

  14. Models and applications for space weather forecasting and analysis at the Community Coordinated Modeling Center.

    Science.gov (United States)

    Kuznetsova, Maria

    The Community Coordinated Modeling Center (CCMC, http://ccmc.gsfc.nasa.gov) was established at the dawn of the new millennium as a long-term flexible solution to the problem of transition of progress in space environment modeling to operational space weather forecasting. CCMC hosts an expanding collection of state-of-the-art space weather models developed by the international space science community. Over the years the CCMC acquired the unique experience in preparing complex models and model chains for operational environment and developing and maintaining custom displays and powerful web-based systems and tools ready to be used by researchers, space weather service providers and decision makers. In support of space weather needs of NASA users CCMC is developing highly-tailored applications and services that target specific orbits or locations in space and partnering with NASA mission specialists on linking CCMC space environment modeling with impacts on biological and technological systems in space. Confidence assessment of model predictions is an essential element of space environment modeling. CCMC facilitates interaction between model owners and users in defining physical parameters and metrics formats relevant to specific applications and leads community efforts to quantify models ability to simulate and predict space environment events. Interactive on-line model validation systems developed at CCMC make validation a seamless part of model development circle. The talk will showcase innovative solutions for space weather research, validation, anomaly analysis and forecasting and review on-going community-wide model validation initiatives enabled by CCMC applications.

  15. The voluntary community health movement in India: a strengths, weaknesses, opportunities, and threats (SWOT) analysis.

    Science.gov (United States)

    Sharma, M; Bhatia, G

    1996-12-01

    There has been a prolific growth of voluntary organizations in India since independence in 1947. One of the major areas of this growth has been in the field of community health. The purpose of this article is to historically trace the voluntary movement in community health in India, analyze the current status, and predict future trends of voluntary efforts. A review of the literature in the form of a Strengths, Weaknesses, Opportunities, and Threats (SWOT) analysis was the method of this study. Some of the key trends which emerged as the priority areas for progress and for strengthening voluntary organizations in the future were enhancing linkages between health and development; building upon collective force; greater utilization of participatory training; establishing egalitarian and effectual linkages for decision making at the international level; developing self-reliant community-based models; and the need for attaining holistic empowerment at individual, organizational, and community levels through "duty consciousness" as opposed to merely asking for rights. PMID:8912121

  16. A directed network analysis of heterospecific pollen transfer in a biodiverse community.

    Science.gov (United States)

    Fang, Qiang; Huang, Shuang-Quan

    2013-05-01

    Community studies have shown that plant species are often pollinated by multiple pollinators; however, networks of heterospecific pollen transfer (HPT) in natural communities remain largely unexplored. We analyzed pollen deposition on stigmas of 57 flowering species to build a picture of plant-plant interactions via HPT in a biodiverse alpine meadow in southwest China. Plant species were categorized as pollen donors or recipients by their link numbers and link qualities. We identified 3609 heterospecific pollen grains, representing 410 links among 69 pollen species. Each plant species received on average 7.2 pollen species and donated its pollen to 5.5 species; only a few species donated or received large amounts of pollen or pollen from a large number of species. Compared to specialized plants, generalized plants tended to receive more heterospecific pollen but exported no more pollen to other species. Plant position in the network was related to both floral traits (stigma position) and pollinator generalization level. When different species share the same pollinator, bidirectional HPT may occur, but this was rarely observed in the species-rich community, indicating that interspecific pollen interference was largely unidirectional. Our study highlights the importance of understanding how sympatric flowering plants reduce deleterious effects of HPT, for example via stigma position. This study is the first to present a pollen transfer network for an entire community and to unravel its properties using directed network analysis. PMID:23858657

  17. What reassurances do the community need regarding life extension? Evidence from studies of community attitudes and an analysis of film portrayals.

    Science.gov (United States)

    Underwood, Mair

    2014-04-01

    It is increasingly recognized that community attitudes impact on the research trajectory, entry, and reception of new biotechnologies. Yet biogerontologists have generally been dismissive of public concerns about life extension. There is some evidence that biogerontological research agendas have not been communicated effectively, with studies finding that most community members have little or no knowledge of life extension research. In the absence of knowledge, community members' attitudes may well be shaped by issues raised in popular portrayals of life extension (e.g., in movies). To investigate how popular portrayals of life extension may influence community attitudes, I conducted an analysis of 19 films depicting human life extension across different genres. I focussed on how the pursuit of life extension was depicted, how life extension was achieved, the levels of interest in life extension shown by characters in the films, and the experiences of extended life depicted both at an individual and societal level. This paper compares the results of this analysis with the literature on community attitudes to life extension and makes recommendations about the issues in which the public may require reassurance if they are to support and accept life extension technologies. PMID:23931761

  18. Microbial community analysis in rice paddy soils irrigated by acid mine drainage contaminated water.

    Science.gov (United States)

    Sun, Min; Xiao, Tangfu; Ning, Zengping; Xiao, Enzong; Sun, Weimin

    2015-03-01

    Five rice paddy soils located in southwest China were selected for geochemical and microbial community analysis. These rice fields were irrigated with river water which was contaminated by Fe-S-rich acid mine drainage. Microbial communities were characterized by high-throughput sequencing, which showed 39 different phyla/groups in these samples. Among these phyla/groups, Proteobacteria was the most abundant phylum in all samples. Chloroflexi, Acidobacteria, Nitrospirae, and Bacteroidetes exhibited higher relative abundances than other phyla. A number of rare and candidate phyla were also detected. Moreover, canonical correspondence analysis suggested that pH, sulfate, and nitrate were significant factors that shaped the microbial community structure. In addition, a wide diversity of Fe- and S-related bacteria, such as GOUTA19, Shewanella, Geobacter, Desulfobacca, Thiobacillus, Desulfobacterium, and Anaeromyxobacter, might be responsible for biogeochemical Fe and S cycles in the tested rice paddy soils. Among the dominant genera, GOUTA19 and Shewanella were seldom detected in rice paddy soils. PMID:25408313

  19. On the Analysis of a Label Propagation Algorithm for Community Detection

    CERN Document Server

    Kothapalli, Kishore; Sardeshmukh, Vivek

    2012-01-01

    This paper initiates formal analysis of a simple, distributed algorithm for community detection on networks. We analyze an algorithm that we call \\textsc{Max-LPA}, both in terms of its convergence time and in terms of the "quality" of the communities detected. \\textsc{Max-LPA} is an instance of a class of community detection algorithms called \\textit{label propagation} algorithms. As far as we know, most analysis of label propagation algorithms thus far has been empirical in nature and in this paper we seek a theoretical understanding of label propagation algorithms. In our main result, we define a clustered version of \\er random graphs with clusters $V_1, V_2,..., V_k$ where the probability $p$, of an edge connecting nodes within a cluster $V_i$ is higher than $p'$, the probability of an edge connecting nodes in distinct clusters. We show that even with fairly general restrictions on $p$ and $p'$ ($p = \\Omega(\\frac{1}{n^{1/4-\\epsilon}})$ for any $\\epsilon > 0$, $p' = O(p^2)$, where $n$ is the number of nodes...

  20. Succession of Bacterial Community Structure along the Changjiang River Determined by Denaturing Gradient Gel Electrophoresis and Clone Library Analysis

    OpenAIRE

    Sekiguchi, Hiroyuki; Watanabe, Masataka; Nakahara, Tadaatsu; Xu, Baohua; Uchiyama, Hiroo

    2002-01-01

    Bacterial community structure along the Changjiang River (which is more than 2,500 km long) was studied by using denaturing gradient gel electrophoresis (DGGE) and clone library analysis of PCR-amplified 16S ribosomal DNA (rDNA) with universal bacterial primer sets. DGGE profiles and principal-component analysis (PCA) demonstrated that the bacterial community gradually changed from upstream to downstream in both 1998 and 1999. Bacterial diversity, as determined by the Shannon index (H?), gr...

  1. Prospective policy analysis: how an epistemic community informed policymaking on intentional self poisoning in Sri Lanka

    Directory of Open Access Journals (Sweden)

    Anthony Zwi B

    2010-06-01

    Full Text Available Abstract Background Policy analysis is often retrospective and not well suited to helping policy makers decide what to do; in contrast prospective policy analysis seeks to assist in formulating responses to challenging public policy questions. Suicide in Sri Lanka is a major public health problem, with ingestion of pesticides being the primary method. Previous policy interventions have been associated with reduced mortality through restricting access to the most toxic pesticides. Additional means of reducing access are still needed. Methods The prospective policy analysis comprised two stages. The first used a consensus activity within a well defined policy community to generate and frame policy options. The second broadened the analysis to include other stakeholders. We report the consensus activity with seven actors from agriculture, health, and academia. Policy options were identified through two rounds of discussion along with ratings by each participant on their degree of support for each option. Data were analysed quantitatively and discussions analysed with Nvivo 8 to code prominent and recurrent themes. Results The main finding was the strong support and consensus for two proposals: further regulation of pesticides and the novel idea of repackaging pesticides into non-lethal doses. Participants identified several factors that were supportive of future policy change including a strong legislative framework, good links between agriculture, health and academia, and a collaborative relationship with industry. Identified barriers and potential threats to policy change included political interference, difficulties of intersectoral collaboration, acceptability of options to the community, difficulty of implementation in rural communities and the challenge of reducing mortality. Conclusions The development and consideration of policy options within this epistemic community reflected an appreciation and understanding of many of the factors that can facilitate or thwart policy change. The understanding of context, evidence and ideas, implementation and impact influenced how the participants considered and rated the options. Use of epistemic community actors identified the level of support for each option, helped elaborate the particularities of context, as well as the power and influence of ideas. Further examination of the potential barriers and opportunities for these options will determine if broader consensus, involving a wider range of stakeholders, can be achieved and policy change promoted.

  2. An Analysis of Interactions Within and Between Extreme Right Communities in Social Media

    CERN Document Server

    O'Callaghan, Derek; Conway, Maura; Carthy, Joe; Cunningham, Pádraig

    2012-01-01

    Many extreme right groups have had an online presence for some time through the use of dedicated websites. This has been accompanied by increased activity in social media websites in recent years, which may enable the dissemination of extreme right content to a wider audience. In this paper, we present exploratory analysis of the activity of a selection of such groups on Twitter, using network representations based on reciprocal follower and mentions interactions. We find that stable communities of related users are present within individual country networks, where these communities are usually associated with variants of extreme right ideology. Furthermore, we also identify the presence of international relationships between certain groups across geopolitical boundaries.

  3. A Policy Analysis of Missouri Community College Residence Hall Discipline Policies with an Analysis of Changes in the State Fair Community College Residence Hall Policy

    Science.gov (United States)

    Gilgour, Joseph G.

    2012-01-01

    Community colleges in the United States have long been known as institutions of equal opportunity and affordable education. One facet of student life appearing at more and more community colleges is the addition of residence halls. Still, the number of community colleges with on-campus living is relatively small, and for the campuses with…

  4. Laser capture microdissection and metagenomic analysis of intact mucosa-associated microbial communities of human colon.

    Science.gov (United States)

    Wang, Yunwei; Antonopoulos, Dionysios A; Zhu, Xiaorong; Harrell, Laura; Hanan, Ira; Alverdy, John C; Meyer, Folker; Musch, Mark W; Young, Vincent B; Chang, Eugene B

    2010-12-01

    Metagenomic analysis of colonic mucosa-associated microbes has been complicated by technical challenges that disrupt or alter community structure and function. In the present study, we determined the feasibility of laser capture microdissection (LCM) of intact regional human colonic mucosa-associated microbes followed by phi29 multiple displacement amplification (MDA) and massively parallel sequencing for metagenomic analysis. Samples were obtained from the healthy human subject without bowel preparation and frozen sections immediately prepared. Regional mucosa-associated microbes were successfully dissected using LCM with minimal contamination by host cells, their DNA extracted and subjected to phi29 MDA with a high fidelity, prior to shotgun sequencing using the GS-FLX DNA sequencer. Metagenomic analysis of approximately 67 million base pairs of DNA sequences from two samples revealed that the metabolic functional profiles in mucosa-associated microbes were as diverse as those reported in feces, specifically the representation of functional genes associated with carbohydrate, protein, and nucleic acid utilization. In summary, these studies demonstrate the feasibility of the approach to study the structure and metagenomic profiles of human intestinal mucosa-associated microbial communities at small spatial scales. PMID:20931185

  5. Strainer: software for analysis of population variation in community genomic datasets

    Directory of Open Access Journals (Sweden)

    Tyson Gene W

    2007-10-01

    Full Text Available Abstract Background Metagenomic analyses of microbial communities that are comprehensive enough to provide multiple samples of most loci in the genomes of the dominant organism types will also reveal patterns of genetic variation within natural populations. New bioinformatic tools will enable visualization and comprehensive analysis of this sequence variation and inference of recent evolutionary and ecological processes. Results We have developed a software package for analysis and visualization of genetic variation in populations and reconstruction of strain variants from otherwise co-assembled sequences. Sequencing reads can be clustered by matching patterns of single nucleotide polymorphisms to generate predicted gene and protein variant sequences, identify conserved intergenic regulatory sequences, and determine the quantity and distribution of recombination events. Conclusion The Strainer software, a first generation metagenomic bioinformatics tool, facilitates comprehension and analysis of heterogeneity intrinsic in natural communities. The program reveals the degree of clustering among closely related sequence variants and provides a rapid means to generate gene and protein sequences for functional, ecological, and evolutionary analyses.

  6. Validation Analysis of a Geriatric Dehydration Screening Tool in Community-Dwelling and Institutionalized Elderly People

    Directory of Open Access Journals (Sweden)

    Susana Rodrigues

    2015-03-01

    Full Text Available Dehydration is common among elderly people. The aim of this study was to perform validation analysis of a geriatric dehydration-screening tool (DST in the assessment of hydration status in elderly people. This tool was based on the DST proposed by Vivanti et al., which is composed by 11 items (four physical signs of dehydration and seven questions about thirst sensation, pain and mobility, with four questions extra about drinking habits. The resulting questionnaire was evaluated in a convenience sample comprising institutionalized (n = 29 and community-dwelling (n = 74 elderly people. Urinary parameters were assessed (24-h urine osmolality and volume and free water reserve (FWR was calculated. Exploratory factor analysis was used to evaluate the scale’s dimensionality and Cronbach’s alpha was used to measure the reliability of each subscale. Construct’s validity was tested using linear regression to estimate the association between scores in each dimension and urinary parameters. Two factors emerged from factor analysis, which were named “Hydration Score” and “Pain Score”, and both subscales showed acceptable reliabilities. The “Hydration Score” was negatively associated with 24-h urine osmolality in community-dwelling; and the “Pain Score” was negatively associated with 24-h urine osmolality, and positively associated with 24-h urine volume and FWR in institutionalized elderly people.

  7. Validation analysis of a geriatric dehydration screening tool in community-dwelling and institutionalized elderly people.

    Science.gov (United States)

    Rodrigues, Susana; Silva, Joana; Severo, Milton; Inácio, Cátia; Padrão, Patrícia; Lopes, Carla; Carvalho, Joana; Carmo, Isabel do; Moreira, Pedro

    2015-01-01

    Dehydration is common among elderly people. The aim of this study was to perform validation analysis of a geriatric dehydration-screening tool (DST) in the assessment of hydration status in elderly people. This tool was based on the DST proposed by Vivanti et al., which is composed by 11 items (four physical signs of dehydration and seven questions about thirst sensation, pain and mobility), with four questions extra about drinking habits. The resulting questionnaire was evaluated in a convenience sample comprising institutionalized (n = 29) and community-dwelling (n = 74) elderly people. Urinary parameters were assessed (24-h urine osmolality and volume) and free water reserve (FWR) was calculated. Exploratory factor analysis was used to evaluate the scale's dimensionality and Cronbach's alpha was used to measure the reliability of each subscale. Construct's validity was tested using linear regression to estimate the association between scores in each dimension and urinary parameters. Two factors emerged from factor analysis, which were named "Hydration Score" and "Pain Score", and both subscales showed acceptable reliabilities. The "Hydration Score" was negatively associated with 24-h urine osmolality in community-dwelling; and the "Pain Score" was negatively associated with 24-h urine osmolality, and positively associated with 24-h urine volume and FWR in institutionalized elderly people. PMID:25739005

  8. Contaminants reduce the richness and evenness of marine communities: A review and meta-analysis

    Energy Technology Data Exchange (ETDEWEB)

    Johnston, Emma L., E-mail: e.johnston@unsw.edu.a [Evolution and Ecology Research Centre, School of Biological, Earth and Environmental Sciences, University of New South Wales, Sydney, New South Wales 2052 (Australia); Roberts, David A. [Evolution and Ecology Research Centre, School of Biological, Earth and Environmental Sciences, University of New South Wales, Sydney, New South Wales 2052 (Australia)

    2009-06-15

    Biodiversity of marine ecosystems is integral to their stability and function and is threatened by anthropogenic processes. We conducted a literature review and meta-analysis of 216 studies to understand the effects of common contaminants upon diversity in various marine communities. The most common diversity measures were species richness, the Shannon-Wiener index (H') and Pielou evenness (J). Largest effect sizes were observed for species richness, which tended to be the most sensitive index. Pollution was associated with marine communities containing fewer species or taxa than their pristine counterparts. Marine habitats did not vary in their susceptibility to contamination, rather a approx40% reduction in richness occurred across all habitats. No class of contaminant was associated with significantly greater impacts on diversity than any other. Survey studies identified larger effects than laboratory or field experiments. Anthropogenic contamination is strongly associated with reductions in the species richness and evenness of marine habitats. - Contamination substantially reduces the biodiversity of marine communities in all major habitat types and across all major contaminant classes.

  9. Context based Expert Finding in Online Communities using Social Network Analysis

    Directory of Open Access Journals (Sweden)

    Mojtaba Behzadi

    2012-01-01

    Full Text Available Nowadays, online communities are one of the most popular collaborative environments in the Internet where people are free to express their opinions. These communities provide facilities for knowledge sharing in which, people can share their experience with each other. The main problem regarding to the knowledge sharing on online communities is the wide range of information on them without any mechanism to determine their validity. So, for knowledge seekers, it is important to recognize the expertise of each member based on contexts to find the best answers among all replies to his question. Although, lots of researches have been conducted so far to determine the level of people’s expertise, none of them has had context based approach to the problem. In this research a novel method based on social network analysis is proposed to find the experts in different contexts. For evaluation process of the proposed method, Metafilter Forum was chosen and the data has been processed in several steps. First, data were gathered by our crawling program and then extracted, transformed and loaded to data base by ETL operations. Then, experts on specified context were found by applying the proposed method on the processed data. Finally, accuracy of the method was calculated and compared with other methods.

  10. A peptide-based method for 13C Metabolic Flux Analysis in microbial communities.

    Science.gov (United States)

    Ghosh, Amit; Nilmeier, Jerome; Weaver, Daniel; Adams, Paul D; Keasling, Jay D; Mukhopadhyay, Aindrila; Petzold, Christopher J; Martín, Héctor García

    2014-09-01

    The study of intracellular metabolic fluxes and inter-species metabolite exchange for microbial communities is of crucial importance to understand and predict their behaviour. The most authoritative method of measuring intracellular fluxes, 13C Metabolic Flux Analysis (13C MFA), uses the labeling pattern obtained from metabolites (typically amino acids) during 13C labeling experiments to derive intracellular fluxes. However, these metabolite labeling patterns cannot easily be obtained for each of the members of the community. Here we propose a new type of 13C MFA that infers fluxes based on peptide labeling, instead of amino acid labeling. The advantage of this method resides in the fact that the peptide sequence can be used to identify the microbial species it originates from and, simultaneously, the peptide labeling can be used to infer intracellular metabolic fluxes. Peptide identity and labeling patterns can be obtained in a high-throughput manner from modern proteomics techniques. We show that, using this method, it is theoretically possible to recover intracellular metabolic fluxes in the same way as through the standard amino acid based 13C MFA, and quantify the amount of information lost as a consequence of using peptides instead of amino acids. We show that by using a relatively small number of peptides we can counter this information loss. We computationally tested this method with a well-characterized simple microbial community consisting of two species. PMID:25188426

  11. Contaminants reduce the richness and evenness of marine communities: A review and meta-analysis

    International Nuclear Information System (INIS)

    Biodiversity of marine ecosystems is integral to their stability and function and is threatened by anthropogenic processes. We conducted a literature review and meta-analysis of 216 studies to understand the effects of common contaminants upon diversity in various marine communities. The most common diversity measures were species richness, the Shannon-Wiener index (H') and Pielou evenness (J). Largest effect sizes were observed for species richness, which tended to be the most sensitive index. Pollution was associated with marine communities containing fewer species or taxa than their pristine counterparts. Marine habitats did not vary in their susceptibility to contamination, rather a ?40% reduction in richness occurred across all habitats. No class of contaminant was associated with significantly greater impacts on diversity than any other. Survey studies identified larger effects than laboratory or field experiments. Anthropogenic contamination is strongly associated with reductions in the species richness and evenness of marine habitats. - Contamination substantially reduces the biodiversity of marine communities in all major habitat types and across all major contaminant classes.

  12. Molecular Analysis of Bacterial Communities in Biofilms of a Drinking Water Clearwell

    OpenAIRE

    Zhang, Minglu; Liu, Wenjun; Nie, Xuebiao; Li, Cuiping; Gu, Junnong; Zhang, Can

    2012-01-01

    Microbial community structures in biofilms of a clearwell in a drinking water supply system in Beijing, China were examined by clone library, terminal restriction fragment length polymorphism (T-RFLP) and 454 pyrosequencing of the amplified 16S rRNA gene. Six biofilm samples (designated R1–R6) collected from six locations (upper and lower sites of the inlet, middle and outlet) of the clearwell revealed similar bacterial patterns by T-RFLP analysis. With respect to the dominant groups, the p...

  13. Evaluation of SOVAT: An OLAP-GIS decision support system for community health assessment data analysis

    Directory of Open Access Journals (Sweden)

    Parmanto Bambang

    2008-06-01

    Full Text Available Abstract Background Data analysis in community health assessment (CHA involves the collection, integration, and analysis of large numerical and spatial data sets in order to identify health priorities. Geographic Information Systems (GIS enable for management and analysis using spatial data, but have limitations in performing analysis of numerical data because of its traditional database architecture. On-Line Analytical Processing (OLAP is a multidimensional datawarehouse designed to facilitate querying of large numerical data. Coupling the spatial capabilities of GIS with the numerical analysis of OLAP, might enhance CHA data analysis. OLAP-GIS systems have been developed by university researchers and corporations, yet their potential for CHA data analysis is not well understood. To evaluate the potential of an OLAP-GIS decision support system for CHA problem solving, we compared OLAP-GIS to the standard information technology (IT currently used by many public health professionals. Methods SOVAT, an OLAP-GIS decision support system developed at the University of Pittsburgh, was compared against current IT for data analysis for CHA. For this study, current IT was considered the combined use of SPSS and GIS ("SPSS-GIS". Graduate students, researchers, and faculty in the health sciences at the University of Pittsburgh were recruited. Each round consisted of: an instructional video of the system being evaluated, two practice tasks, five assessment tasks, and one post-study questionnaire. Objective and subjective measurement included: task completion time, success in answering the tasks, and system satisfaction. Results Thirteen individuals participated. Inferential statistics were analyzed using linear mixed model analysis. SOVAT was statistically significant (? = .01 from SPSS-GIS for satisfaction and time (p Conclusion Using SOVAT, tasks were completed more efficiently, with a higher rate of success, and with greater satisfaction, than the combined use of SPSS and GIS. The results from this study indicate a potential for OLAP-GIS decision support systems as a valuable tool for CHA data analysis.

  14. Curriculum Materials Analysis. Educational Research Council of America: Concepts and Inquiry. Communities at Home and Abroad: American Communities, Grade 2.

    Science.gov (United States)

    Capron, Barbara J.

    The CMAS, a detailed taxonomy of questions that is used to analyze "Concepts of Inquiry" materials, is described in ED 067 308. A brief summary of the sequential K-12 Cleveland program is given in ED 064 223. Materials for the course are interdisciplinary with a subject matter base of geography focusing on investigating communities. The…

  15. Hygiene and sanitation promotion strategies among ethnic minority communities in Northern Vietnam : a stakeholder analysis

    DEFF Research Database (Denmark)

    Rheinländer, Thilde; Thanh Xuan, Le Thi

    2012-01-01

    Effective rural hygiene and sanitation promotion (RHSP) is a major challenge for many low-income countries. This paper investigates strategies and stakeholders' roles and responsibilities in RHSP implementation in a multi-ethnic area of northern Vietnam, in order to identify lessons learned for future RHSP.A stakeholder analysis was performed, based on 49 semi-structured individual interviews and one group interview with stakeholders in RHSP in a northern province of Vietnam. Participants came from three sectors (agriculture, health and education), unions supported by the Vietnamese government and from four administrative levels (village, commune, district and province). The study villages represented four ethnic minority groups including lowland and highland communities. Stakeholders' roles, responsibilities and promotion methods were outlined, and implementation constraints and opportunities were identified and analysed using thematic content analysis.Effective RHSP in Vietnam is severely constrained despite supporting policies and a multi-sectorial and multi-level framework. Four main barriers for effective implementation of RHSP were identified: (1) weak inter-sectorial collaborations; (2) constraints faced by frontline promoters; (3) almost exclusive information-based and passive promotion methods applied; and (4) context unadjusted promotion strategies across ethnic groups, including a limited focus on socio-economic differences, language barriers and gender roles in the target groups. Highland communities were identified as least targeted and clearly in need of more intensive and effective RHSP.It is recommended that the Vietnamese government gives priority to increasing capacities of and collaboration among stakeholders implementing RHSP activities. This should focus on frontline promoters to perform effective behaviour change communication. It is also recommended to support more participatory and community-based initiatives, which can address the complex socio-economic and cultural determinants of healthin multi-ethnic population groups. These lessons learned can improve future RHSP in Vietnam and are also of relevance for health promotion in other minority population groups in the region and globally.

  16. Lipid and Phylogenetic Analysis of a Gypsum-hosted Endoevaporitic Microbial Community

    Science.gov (United States)

    Turk, K. A.; Jahnke, L. L.; Green, S. J.; Kubo, M. D.; Vogel, M. B.; Des Marais, D. J.

    2007-12-01

    Gypsum evaporites host diverse, productive and volumetrically significant microbial communities and are relevant modern-day analogs to both Precambrian sabkha deposits and, potentially, Martian evaporites. Extensive evaporites form in subaqueous environments of high salinity ponds (>150 permil) maintained by the Exportadora de Sal, S. A. (ESSA) in Guerrero Negro, B.C.S., Mexico. A gypsarenite (reworked clastic gypsum) crust found along the southeast margin of ESSA's Pond 9 was collected in February 2004 and each vibrantly colored layer in the top centimeter was sampled. Extant microbial communities from each layer were characterized using complementary culture-independent molecular techniques, lipid biomarker analysis, and compound specific isotopic analysis. Coupling molecular analysis with lipid biomarker analysis revealed that oxygenic photosynthetic organisms dominate the surface layers (top 3 mm). Polar lipids from the surface layers consisted predominantly of glycolipids, which are characteristic of algae, cyanobacteria and green anoxygenic photosynthetic bacteria. Consistent with prior analyses of gypsum evaporites, 16S rRNA gene clone libraries indicate that cyanobacterial populations belong primarily to the genus Cyanothece. The bacterial community below the surface layers is more diverse and dominated by anaerobic organisms. Phototrophic purple sulfur bacteria, sulfate-reducing bacteria (SRB), and Bacteroidetes were particularly abundant. The relative abundances of SRB increased with depth; Desulfobacteraceae clones were distributed throughout the crust, but not at the surface, while Desulfovibrionaceae clones were found predominantly in the deepest layers. These molecular results are consistent with fatty acid biomarker analysis. ?13C values of major lipid classes in the crust and sediment range from 14 to 36‰, which is considerably lower than corresponding values for benthic Microcoleus-dominated cyanobacterial mats found at lower salinities at ESSA (65-100‰). A mass balance calculation yields ?13C values of approximately 20‰ for the fatty acid fraction in surface layers, only slightly depleted relative to the surface 2 mm of the Microcoleus mat (?13C ~ -17 ‰). The fatty acid fractions in lower anoxic layers are significantly depleted relative to surface crust, with ?13C values approaching -26 permil. In contrast, the Microcoleus mats do not exhibit a substantial trend with depth. The isotopic trend with depth in the crusts may reflect isotopic discrimination associated with carbon fixation by non-oxygenic phototrophs and/or chemautotrophs, or changes in the network of carbon flows within the ecosystem.

  17. Applying Social Network Analysis to Analyze a Web-Based Community

    Directory of Open Access Journals (Sweden)

    Mohammed Al-Taie

    2012-02-01

    Full Text Available this paper deals with a very renowned website (that is Book-Crossing from two angles: The first angle focuses on the direct relations between users and books. Many things can be inferred from this part of analysis such as who is more interested in book reading than others and why? Which books are most popular and which users are most active and why? The task requires the use of certain social network analysis measures (e.g. degree centrality. What does it mean when two users like the same book? Is it the same when other two users have one thousand books in common? Who is more likely to be a friend of whom and why? Are there specific people in the community who are more qualified to establish large circles of social relations? These questions (and of course others were answered through the other part of the analysis, which will take us to probe the potential social relations between users in this community. Although these relationships do not exist explicitly, they can be inferred with the help of affiliation network analysis and techniques such as m-slice. Book-Crossing dataset, which covered four weeks of users' activities during 2004, has always been the focus of investigation for researchers interested in discovering patterns of users' preferences in order to offer the most possible accurate recommendations. However; the implicit social relationships among users that emerge (when putting users in groups based on similarity in book preferences did not gain the same amount of attention. This could be due to the importance recommender systems attain these days (as compared to other research fields as a result to the rapid spread of e-commerce websites that seek to market their products online. Certain social network analysis software, namely Pajek, was used to explore different structural aspects of this community such as brokerage roles, triadic constraints and levels of cohesion. Some overall statistics were also obtained such as network density, average geodesic distance and average degree.

  18. Sensitivity analysis of Markov models for communities of competing sessile organisms.

    Science.gov (United States)

    Spencer, Matthew

    2006-07-01

    1. Communities of competing sessile organisms are often modelled using Markov chains. Sensitivity analysis of the stationary distribution of these models tells us how we expect the abundance of each organism to respond to changes in interactions between species. This is important for conservation and management. 2. Markov models for such communities have usually been formulated in discrete time. Each column of the discrete-time transition matrix must sum to 1 (column stochasticity). Sensitivity analysis therefore involves defining a pattern of compensation that maintains column stochasticity as a single transition probability changes. There is little biological theory about the appropriate compensation pattern, but the usual choices involve changing only the elements of a single column of the transition matrix. 3. I argue that if the underlying dynamics occur in continuous time, each transition probability is the net outcome of direct and many indirect interactions. 4. Determining the consequences of changing a single direct interaction will often be of interest. I show how this can be achieved using a continuous-time model. The resulting discrete-time compensation pattern is quite different from those that have been considered elsewhere, with changes occurring in many columns. 5. I also show how to determine which direct interactions are being changed under any discrete-time compensation pattern. PMID:17009765

  19. Integrated Community Energy Systems: engineering analysis and design bibliography. [368 citations

    Energy Technology Data Exchange (ETDEWEB)

    Calm, J.M.; Sapienza, G.R.

    1979-05-01

    This bibliography cites 368 documents that may be helpful in the planning, analysis, and design of Integrated Community Energy Systems. It has been prepared for use primarily by engineers and others involved in the development and implementation of ICES concepts. These documents include products of a number of Government research, development, demonstration, and commercialization programs; selected studies and references from the literature of various technical societies and institutions; and other selected material. The key programs which have produced cited reports are the Department of Energy Community Systems Program (DOE/CSP), the Department of Housing and Urban Development Modular Integrated Utility Systems Program (HUD/MIUS), and the Department of Health, Education, and Welfare Integrated Utility Systems Program (HEW/IUS). The cited documents address experience gained both in the U.S. and in other countries. Several general engineering references and bibliographies pertaining to technologies or analytical methods that may be helpful in the analysis and design of ICES are also included. The body of relevant literature is rapidly growing and future updates are therefore planned. Each citation includes identifying information, a source, descriptive information, and an abstract. The citations are indexed both by subjects and authors, and the subject index is extensively cross-referenced to simplify its use.

  20. Factor Analysis and Norms for Parent Ratings on the Aberrant Behavior Checklist-Community for Young People in Special Education.

    Science.gov (United States)

    Brown, Elaine C.; Aman, Michael G.; Havercamp, Susan M.

    2002-01-01

    Parents of 601 children and adolescents with mental retardation rated their children on the Aberrant Behavior Checklist-Community (ABC). Factor analysis revealed a factor structure similar to the original ABC but without the inappropriate speech factor. Analysis of subject variables revealed main effects for gender, age, and classroom assignment…

  1. Phytosociological Studies on the Wild Mesembryanthemum Species in Egypt 1. Quantitative Analysis of the Representative Communities

    OpenAIRE

    El Shayeb, F. M.; El Tantawy, H.; El Kholi, A.

    2002-01-01

    Communities of Mesembryanthemum species were studied quantitatively. Surveys were carried out in five habitats supporting M. crystallinum, four habitats supporting M. forsskaolii and six habitats supporting M. nodiflorum. Vegetation analysis of the community types included (density, frequency, cover area, relative density, relative frequency, relative cover, fresh weight and biomass) of each species. Results indicated that M. crystallinum and M. forsskaolii had higher densities than M. nodifl...

  2. Microbial community analysis of shallow subsurface samples with PCR-DGGE

    Energy Technology Data Exchange (ETDEWEB)

    Itaevaara, M.; Suihko, M.-L.; Kapanen, A.; Piskonen, R.; Juvonen, R. [VTT Biotechnology, Espoo (Finland)

    2005-11-15

    This work is part of the site investigations for the disposal of spent nuclear fuel in Olkiluoto bedrock. The purpose of the research was to study the suitability of PCR-DGGE (polymerase chain reaction - denaturing gradient gel electrophoresis) method for monitoring of hydrogeomicrobiology of Olkiluoto repository site. PCR-DGGE method has been applied for monitoring microbial processes in several applications. The benefit of the method is that microorganisms are not cultivated but the presence of microbial communities can be monitored by direct DNA extractions from the environmental samples. Partial 16SrDNA gene sequence is specifically amplified by PCR (polymerase chain reaction) which detect bacteria as a group. The gene sequences are separated in DGGE, and the nucleotide bands are then cut out, extracted, sequenced and identified by the genelibraries by e.g. Blast program. PCR-DGGE method can be used to detect microorganisms which are present abundantly in the microbial communities because small quantities of genes cannot be separated reliably. However, generally the microorganisms involved in several environmental processes are naturally enriched and present as major population. This makes it possible to utilize PCRDGGE as a monitoring method. In this study, we studied the structure of microbial communities in ten ground water samples originating from Olkiluoto. Two universal bacterial primer sets were compared which amplified two different regions of the 16SrDNA gene. The longer sequence amplified resulted in fewer bands in DGGE, in addition there were problems with purification of the sequences after DGGE. The shorter sequence gave more bands in DGGE and more clear results without any amplification problems. Comparison of the sequences from the gene-libraries resulted in the detection of the same species by both primer sets, in addition some different species were detected. Several species were anaerobic bacteria, such as acetogenic and sulphate reducing bacteria (SRB) indicating low redox potential of the samples. In addition phylogenetic trees were constructed for the sequences identified with both long and short primer sets. Phylogenetic trees were in good agreement with each other and indicated similar communties with both methods. In addition we also evaluated the suitability of primers amplifying SRB from the water samples. However, even though the microbial community analysis with the 16SrDNA gene indicated that SRB were present in the microbial community their amplification with the primers used was not successful. (orig.)

  3. Microbial community analysis of shallow subsurface samples with PCR-DGGE

    International Nuclear Information System (INIS)

    This work is part of the site investigations for the disposal of spent nuclear fuel in Olkiluoto bedrock. The purpose of the research was to study the suitability of PCR-DGGE (polymerase chain reaction - denaturing gradient gel electrophoresis) method for monitoring of hydrogeomicrobiology of Olkiluoto repository site. PCR-DGGE method has been applied for monitoring microbial processes in several applications. The benefit of the method is that microorganisms are not cultivated but the presence of microbial communities can be monitored by direct DNA extractions from the environmental samples. Partial 16SrDNA gene sequence is specifically amplified by PCR (polymerase chain reaction) which detect bacteria as a group. The gene sequences are separated in DGGE, and the nucleotide bands are then cut out, extracted, sequenced and identified by the genelibraries by e.g. Blast program. PCR-DGGE method can be used to detect microorganisms which are present abundantly in the microbial communities because small quantities of genes cannot be separated reliably. However, generally the microorganisms involved in several environmental processes are naturally enriched and present as major population. This makes it possible to utilize PCRDGGE as a monitoring method. In this study, we studied the structure of microbial communities in ten ground water samples originating from Olkiluoto. Two universal bacterial primer sets were compared which amplified two different regions of the 16SrDNA gene. The longer sequence amplified resulted in fewer bands in DGGE, in addition there were problems with purification of the sequences after DGGE. The shorter sequence gave more bands in DGGE and more clear results without any amplification problems. Comparison of the sequences from the gene-libraries resulted in the detection of the same species by both primer sets, in addition some different species were detected. Several species were anaerobic bacteria, such as acetogenic and sulphate reducing bacteria (SRB) indicating low redox potential of the samples. In addition phylogenetic trees were constructed for the sequences identified with both long and short primer sets. Phylogenetic trees were in good agreement with each other and indicated similar communties with both methods. In addition we also evaluated the suitability of primers amplifying SRB from the water samples. However, even though the microbial community analysis with the 16SrDNA gene indicated that SRB were present in the microbial community their amplification with the primers used was not successful. (orig.)

  4. Community in Three Undergraduate University Science Courses: An Analysis of Student Perception

    Science.gov (United States)

    Vavala, Robert V.; Namuth-Covert, Deana; Haines, Courtney; Lee, Donald J.; King, James W.; Speth, Carol

    2010-01-01

    Students who feel like part of a classroom community gain more enjoyment and are more academically successful than students who do not feel similar levels of community. This study intended to determine if students in online courses perceive the same level of community as students in face-to-face classes and if outside factors impacted community

  5. A Longitudinal Analysis of Satisfaction with Selected Community Services in a Nonmetropolitan Area.

    Science.gov (United States)

    Molnar, Joseph J.; And Others

    1979-01-01

    There is a relationship between changes in satisfaction with community services and community group membership (businesses, community leaders, households), but changes in attitudes towards individual services are not related to changes in overall community satisfaction, based on a three-year study of such services in three rural Alabama counties.…

  6. Facebook in Higher Education Courses: An Analysis of Students’ Attitudes,Community of Practice, and Classroom Community

    Directory of Open Access Journals (Sweden)

    Casimir C. Barczyk

    2013-02-01

    Full Text Available Educators wanting to enhance their classroom learning environment are finding Facebook to be a beneficial supplement. This study aims to determine students’ attitudes and perceptions of courses into which Facebook has been incorporated. In a posttest only research design involving 106 students at two large public universities, it was found that students were favorably disposed toward the classroom use of Facebook. They perceived that it enhanced their senses of social learning and connectedness, with older students experiencing a stronger effect. Implications for how Facebook can enhance higher education courses and for the management of social media in the classroom are discussed. Key words: Facebook in higher education; Communities of practice; Classroom community; Social learning and effectiveness; Learner-centered activities

  7. Metabolomic analysis of human fecal microbiota: a comparison of feces-derived communities and defined mixed communities.

    Science.gov (United States)

    Yen, Sandi; McDonald, Julie A K; Schroeter, Kathleen; Oliphant, Kaitlyn; Sokolenko, Stanislav; Blondeel, Eric J M; Allen-Vercoe, Emma; Aucoin, Marc G

    2015-03-01

    The extensive impact of the human gut microbiota on its human host calls for a need to understand the types of communication that occur among the bacteria and their host. A metabolomics approach can provide a snapshot of the microbe-microbe interactions occurring as well as variations in the microbes from different hosts. In this study, metabolite profiles from an anaerobic continuous stirred-tank reactors (CSTR) system supporting the growth of several consortia of bacteria representative of the human gut were established and compared. Cell-free supernatant samples were analyzed by 1D (1)H nuclear magnetic resonance (NMR) spectroscopy, producing spectra representative of the metabolic activity of a particular community at a given time. Using targeted profiling, specific metabolites were identified and quantified on the basis of NMR analyses. Metabolite profiles discriminated each bacterial community examined, demonstrating that there are significant differences in the microbiota metabolome between each cultured community. We also found unique compounds that were identifying features of individual bacterial consortia. These findings are important because they demonstrate that metabolite profiles of gut microbial ecosystems can be constructed by targeted profiling of NMR spectra. Moreover, examination of these profiles sheds light on the type of microbes present in the gut and their metabolic interactions. PMID:25670064

  8. GeoChip-based analysis of the functional gene diversity and metabolic potential of soil microbial communities of mangroves.

    Science.gov (United States)

    Bai, Shijie; Li, Jiangwei; He, Zhili; Van Nostrand, Joy D; Tian, Yun; Lin, Guanghui; Zhou, Jizhong; Zheng, Tianling

    2013-08-01

    Mangroves are unique and highly productive ecosystems and harbor very special microbial communities. Although the phylogenetic diversity of sediment microbial communities of mangrove habitats has been examined extensively, little is known regarding their functional gene diversity and metabolic potential. In this study, a high-throughput functional gene array (GeoChip 4.0) was used to analyze the functional diversity, composition, structure, and metabolic potential of microbial communities in mangrove habitats from mangrove national nature reserves in China. GeoChip data indicated that these microbial communities were functionally diverse as measured by the number of genes detected, unique genes, and various diversity indices. Almost all key functional gene categories targeted by GeoChip 4.0 were detected in the mangrove microbial communities, including carbon (C) fixation, C degradation, methane generation, nitrogen (N) fixation, nitrification, denitrification, ammonification, N reduction, sulfur (S) metabolism, metal resistance, antibiotic resistance, and organic contaminant degradation. Detrended correspondence analysis (DCA) of all detected genes showed that Spartina alterniflora (HH), an invasive species, did not harbor significantly different microbial communities from Aegiceras corniculatum (THY), a native species, but did differ from other species, Kenaelia candel (QQ), Aricennia marina (BGR), and mangrove-free mud flat (GT). Canonical correspondence analysis (CCA) results indicated the microbial community structure was largely shaped by surrounding environmental variables, such as total nitrogen (TN), total carbon (TC), pH, C/N ratio, and especially salinity. This study presents a comprehensive survey of functional gene diversity of soil microbial communities from different mangrove habitats/species and provides new insights into our understanding of the functional potential of microbial communities in mangrove ecosystems. PMID:23135227

  9. Analysis of phospholipid fatty acids (PLFA) to characterize microbial communities in aquifers

    Science.gov (United States)

    Green, Christopher T.; Scow, Kate M.

    This paper reviews published applications of lipid-based biochemical techniques for characterizing microbial communities in aquifers and other deep subsurface habitats. These techniques, such as phospholipid fatty acid (PLFA) analysis, can provide information on a variety of microbial characteristics, such as biomass, physiology, taxonomic and functional identity, and overall community composition. In addition, multivariate statistical analysis of lipid data can relate spatial or temporal changes in microbial communities to environmental factors. The use of lipid-based techniques in the study of groundwater microbiology is advantageous because they do not require culturing and can provide quantitative data on entire communities. However, combined effects of physiological and phylogenetic changes on the lipid composition of a community can confound interpretation of the data, and many questions remain about the validity of various lipid techniques. Despite these caveats, lipid-based research has begun to show trends in community composition in contaminated and pristine aquifers that contribute to our understanding of groundwater microbial ecology and have potential for use in optimization of bioremediation of groundwater pollutants. Résumé Ce papier passe en revue les applications des techniques biochimiques basées sur les lipides pour caractériser les communautés microbiennes présentes dans les aquifères et dans les autres habitats souterrains profonds. Ces techniques, telles que l'analyse des acides gras phospholipidiques (PLFA), peuvent fournir des informations sur un ensemble de caractères microbiens, tels que la biomasse, la physiologie, l'identité taxonomique et fonctionnelle, et surtout la composition de la communauté. En outre, l'analyse statistique multivariée des données sur les lipides peut établir les liens entre des changements spatiaux ou temporels dans la communauté microbienne et des facteurs environnementaux. L'utilisation des techniques basées sur les lipides dans l'étude de la microbiologie des eaux souterraines est intéressante parce qu'elle ne nécessite pas de mise en culture et qu'elle peut fournir des données quantitatives sur les communautés dans leur ensemble. Toutefois, les effets combinés de changements physiologiques et phylogénétiques sur la composition d'une communauté peuvent brouiller l'interprétation des données de nombreuses questions se posent sur la validité des différentes techniques lipidiques. Malgré ces oppositions, la recherche basée sur les lipides a commencéà montrer des tendances dans la composition des communautés dans les aquifères pollués et dans ceux non perturbés ces résultats contribuent ainsi à notre compréhension de l'écologie microbienne des eaux souterraines et montrent qu'il existe un potentiel pour leur utilisation en vue d'une optimisation de la dépollution biologique des eaux souterraines. Resumen Se revisan distintas técnicas bioquímicas que se basan en el análisis de lípidos para caracterizar las comunidades microbianas en hábitats subsuperficiales, incluyendo acuíferos. Estas técnicas, entre las que se incluye el análisis de ácidos grasos fosfolípidos (PLFA), pueden proporcionar información sobre toda una serie de características de las comunidades microbianas, como su biomasa, fisiología, identidad taxonómica y funcional y composición. Además, el análisis estadístico multivariado de los datos de lípidos permite relacionar los cambios espaciales o temporales en las comunidades microbianas con factores ambientales. Las técnicas basadas en lípidos son muy útiles para el estudio microbiológico de las aguas subterráneas, puesto que no requieren cultivos y además proporcionan datos cuantitativos de comunidades completas. Sin embargo, la acción combinada de los cambios fisiológicos y filogenéticos en la composición de lípidos en una comunidad pueden confundir la interpretación de los datos, por lo existen muchas cuestiones abiertas respecto a la validez de algunas de estas técnicas. A pesar de es

  10. Cambio: a file format translation and analysis application for the nuclear response emergency community

    International Nuclear Information System (INIS)

    Cambio is an application intended to automatically read and display any spectrum file of any format in the world that the nuclear emergency response community might encounter. Cambio also provides an analysis capability suitable for HPGe spectra when detector response and scattering environment are not well known. Why is Cambio needed: (1) Cambio solves the following problem - With over 50 types of formats from instruments used in the field and new format variations appearing frequently, it is impractical for every responder to have current versions of the manufacturer's software from every instrument used in the field; (2) Cambio converts field spectra to any one of several common formats that are used for analysis, saving valuable time in an emergency situation; (3) Cambio provides basic tools for comparing spectra, calibrating spectra, and isotope identification with analysis suited especially for HPGe spectra; and (4) Cambio has a batch processing capability to automatically translate a large number of archival spectral files of any format to one of several common formats, such as the IAEA SPE or the DHS N42. Currently over 540 analysts and members of the nuclear emergency response community worldwide are on the distribution list for updates to Cambio. Cambio users come from all levels of government, university, and commercial partners around the world that support efforts to counter terrorist nuclear activities. Cambio is Unclassified Unlimited Release (UUR) and Unclassified Unlimited Release (UUR) and distributed by internet downloads with email notifications whenever a new build of Cambio provides for new formats, bug fixes, or new or improved capabilities. Cambio is also provided as a DLL to the Karlsruhe Institute for Transuranium Elements so that Cambio's automatic file-reading capability can be included at the Nucleonica web site.

  11. Cambio : a file format translation and analysis application for the nuclear response emergency community.

    Energy Technology Data Exchange (ETDEWEB)

    Lasche, George P.

    2009-10-01

    Cambio is an application intended to automatically read and display any spectrum file of any format in the world that the nuclear emergency response community might encounter. Cambio also provides an analysis capability suitable for HPGe spectra when detector response and scattering environment are not well known. Why is Cambio needed: (1) Cambio solves the following problem - With over 50 types of formats from instruments used in the field and new format variations appearing frequently, it is impractical for every responder to have current versions of the manufacturer's software from every instrument used in the field; (2) Cambio converts field spectra to any one of several common formats that are used for analysis, saving valuable time in an emergency situation; (3) Cambio provides basic tools for comparing spectra, calibrating spectra, and isotope identification with analysis suited especially for HPGe spectra; and (4) Cambio has a batch processing capability to automatically translate a large number of archival spectral files of any format to one of several common formats, such as the IAEA SPE or the DHS N42. Currently over 540 analysts and members of the nuclear emergency response community worldwide are on the distribution list for updates to Cambio. Cambio users come from all levels of government, university, and commercial partners around the world that support efforts to counter terrorist nuclear activities. Cambio is Unclassified Unlimited Release (UUR) and distributed by internet downloads with email notifications whenever a new build of Cambio provides for new formats, bug fixes, or new or improved capabilities. Cambio is also provided as a DLL to the Karlsruhe Institute for Transuranium Elements so that Cambio's automatic file-reading capability can be included at the Nucleonica web site.

  12. Voluntary Participation in Community Economic Development in Canada: An Empirical Analysis

    Directory of Open Access Journals (Sweden)

    Laura Lamb

    2011-01-01

    Full Text Available This article is an empirical analysis of an individual's decision to participate in community economic development (CED initiatives in Canada. The objective of the analysis is to better understand how individuals make decisions to volunteer time toward CED initiatives and to determine whether the determinants of participation in CED are unique when compared to those of participation in volunteer activities in general. The dataset employed is Statistics Canada's 2004 Canada Survey of Giving, Volunteering and Participating (CSGVP. To date, there has been no prior econometric analysis of the decision to participate in community economic development initiatives in Canada. Results suggest a role for both public policymakers and practitioners in influencing participation in CED. / Cet article constitue une analyse empirique du processus de prise de décision chez les individus en ce qui a trait à la participation aux initiatives canadiennes de développement économique communautaire (DÉC. Le but de l'analyse est de mieux comprendre la façon dont les individus prennent la décision de consacrer du temps au bénévolat dans les initiatives de DÉC. Elle sert aussi à trancher la question de savoir si les facteurs de participation aux initiatives de développement économique communautaire sont uniques ou communs à la participation à des activités bénévoles en général. Les données employées dans le cadre de cette analyse sont puisées de l'Enquête canadienne sur le don, le bénévolat et la participation effectuée par Statistique Canada en 2004. À ce jour, aucune analyse économétrique n'a été menée sur la décision de participer aux initiatives canadiennes de DÉC. Les résultats suggèrent que les responsables de l'élaboration des politiques ainsi que les praticiens influencent tous deux la participation aux initiatives de DÉC.

  13. Diversity Analysis of Bacterial Community from Permafrost Soil of Mo-he in China.

    Science.gov (United States)

    Dan, Dong; Zhang, Dian-Peng; Liu, Wei-Cheng; Lu, Cai-Ge; Zhang, Tao-Tao

    2014-03-01

    The permafrost soil of Mo-he in Northeast China presents a typical cold environment colonized by psychrophilic microorganisms. This study is aimed at assessing the bacterial communities of permafrost soil of Mo-he in China by sequencing the 16S rRNA genes and Mothur analysis. PCR products with universal 16S rRNA gene primers were cloned and partially sequenced, and bacterial identification at the species was performed by comparative analysis with the GenBank/EMBL/DDBJ database. A total of 266 clones were obtained with the average length of 1,050 bp. Mothur analysis showed that the coverage value of clone library was 53.78 %, Shannon diversity (H) was 4.03, Simpson diversity value was 0.018, and 74 operational taxonomic units were generated. Through phylogenetic assignment using BLASTN by more than 97 % similarity, a total of 87 tentative taxa were identified. The majority of bacterial sequences recovered in this study belonged to the Acidobacteria, Proteobacteria, Verrucomicrobia, Bacteroidetes, Chloroflexi and Chlorobi. Among them, Acidobacteria are dominant community, accounting for 30.1 % of total bacteria, followed by Proteobacteria which accounted for 22.2 %. This result reflected the acidic characteristics of the permafrost soil of which pH value was 6.0. Our study indicated that the permafrost soil of Mo-he in China has a high diversity of bacteria and represents a vast potential resource of novel bacteria. As far as we knew, this is the first report on bacterial diversity of permafrost soil of Mo-he in China. PMID:24426176

  14. Cytobank: providing an analytics platform for community cytometry data analysis and collaboration.

    Science.gov (United States)

    Chen, Tiffany J; Kotecha, Nikesh

    2014-01-01

    Cytometry is used extensively in clinical and laboratory settings to diagnose and track cell subsets in blood and tissue. High-throughput, single-cell approaches leveraging cytometry are developed and applied in the computational and systems biology communities by researchers, who seek to improve the diagnosis of human diseases, map the structures of cell signaling networks, and identify new cell types. Data analysis and management present a bottleneck in the flow of knowledge from bench to clinic. Multi-parameter flow and mass cytometry enable identification of signaling profiles of patient cell samples. Currently, this process is manual, requiring hours of work to summarize multi-dimensional data and translate these data for input into other analysis programs. In addition, the increase in the number and size of collaborative cytometry studies as well as the computational complexity of analytical tools require the ability to assemble sufficient and appropriately configured computing capacity on demand. There is a critical need for platforms that can be used by both clinical and basic researchers who routinely rely on cytometry. Recent advances provide a unique opportunity to facilitate collaboration and analysis and management of cytometry data. Specifically, advances in cloud computing and virtualization are enabling efficient use of large computing resources for analysis and backup. An example is Cytobank, a platform that allows researchers to annotate, analyze, and share results along with the underlying single-cell data. PMID:24590675

  15. Dimensionality of Community Satisfaction.

    Science.gov (United States)

    Williams, R. Gary; Knop, Edward

    Using factor analysis (both principal factor solutions and rotated factor solutions) to search for underlying statistical commonality among 12 indicators of community satisfaction in 6 Colorado communities, the research explores various dimensions of community satisfaction that may be important across different communities. The communities under…

  16. Community analysis of plant biomass-degrading microorganisms from Obsidian Pool, Yellowstone National Park.

    Science.gov (United States)

    Vishnivetskaya, Tatiana A; Hamilton-Brehm, Scott D; Podar, Mircea; Mosher, Jennifer J; Palumbo, Anthony V; Phelps, Tommy J; Keller, Martin; Elkins, James G

    2015-02-01

    The conversion of lignocellulosic biomass into biofuels can potentially be improved by employing robust microorganisms and enzymes that efficiently deconstruct plant polysaccharides at elevated temperatures. Many of the geothermal features of Yellowstone National Park (YNP) are surrounded by vegetation providing a source of allochthonic material to support heterotrophic microbial communities adapted to utilize plant biomass as a primary carbon and energy source. In this study, a well-known hot spring environment, Obsidian Pool (OBP), was examined for potential biomass-active microorganisms using cultivation-independent and enrichment techniques. Analysis of 33,684 archaeal and 43,784 bacterial quality-filtered 16S rRNA gene pyrosequences revealed that archaeal diversity in the main pool was higher than bacterial; however, in the vegetated area, overall bacterial diversity was significantly higher. Of notable interest was a flooded depression adjacent to OBP supporting a stand of Juncus tweedyi, a heat-tolerant rush commonly found growing near geothermal features in YNP. The microbial community from heated sediments surrounding the plants was enriched in members of the Firmicutes including potentially (hemi)cellulolytic bacteria from the genera Clostridium, Anaerobacter, Caloramator, Caldicellulosiruptor, and Thermoanaerobacter. Enrichment cultures containing model and real biomass substrates were established at a wide range of temperatures (55-85 °C). Microbial activity was observed up to 80 °C on all substrates including Avicel, xylan, switchgrass, and Populus sp. Independent of substrate, Caloramator was enriched at lower (65 °C) temperatures. PMID:25319238

  17. Characterization of bacterial communities in sediments receiving various wastewater effluents with high-throughput sequencing analysis.

    Science.gov (United States)

    Lu, Xiao-Ming; Lu, Peng-Zhen

    2014-04-01

    454 Pyrosequencing was applied to examine bacterial communities in sediment samples collected from a river receiving effluent discharge from rural domestic sewage (RDS) and various factories, including a tannery (TNS), clothing plant (CTS), and button factory (BTS), respectively. For each sample, 4,510 effective sequences were selected and utilized to do the bacterial diversity and abundance analysis, respectively. In total, 1,288, 2,036, 1,800, and 2,150 operational taxonomic units were obtained at 3% distance cutoff in TNS, CTS, BTS, and RDS, respectively. Bacterial phylotype richness in RDS was higher than the other samples, and TNS had the least richness. The most predominant class in the TNS, CTS, and BTS samples is Betaproteobacteria. Cyanobacteria (no_rank) is the most predominant one in the RDS sample. Circa 31% sequences in TNS were affiliated with the Rhodocyclales order. In the four samples, Aeromonas, Arcobacter, Clostridium, Legionella, Leptospira, Mycobacterium, Pseudomonas, and Treponema genera containing pathogenic bacteria were detected. Characterization of bacterial communities in sediments from various downstream branches indicated that distinct wastewater effluents have similar potential to reduce the natural variability in river ecosystems and contribute to the river biotic homogenization. PMID:24477925

  18. Arctic indigenous youth resilience and vulnerability: comparative analysis of adolescent experiences across five circumpolar communities.

    Science.gov (United States)

    Ulturgasheva, Olga; Rasmus, Stacy; Wexler, Lisa; Nystad, Kristine; Kral, Michael

    2014-10-01

    Arctic peoples today find themselves on the front line of rapid environmental change brought about by globalizing forces, shifting climates, and destabilizing physical conditions. The weather is not the only thing undergoing rapid change here. Social climates are intrinsically connected to physical climates, and changes within each have profound effects on the daily life, health, and well-being of circumpolar indigenous peoples. This paper describes a collaborative effort between university researchers and community members from five indigenous communities in the circumpolar north aimed at comparing the experiences of indigenous Arctic youth in order to come up with a shared model of indigenous youth resilience. The discussion introduces a sliding scale model that emerged from the comparative data analysis. It illustrates how a "sliding scale" of resilience captures the inherent dynamism of youth strategies for "doing well" and what forces represent positive and negative influences that slide towards either personal and communal resilience or vulnerability. The model of the sliding scale is designed to reflect the contingency and interdependence of resilience and vulnerability and their fluctuations between lowest and highest points based on timing, local situation, larger context, and meaning. PMID:25217145

  19. Aerobic remediation of petroleum sludge through soil supplementation: Microbial community analysis

    International Nuclear Information System (INIS)

    Highlights: ? Enhanced aerobic-degradation of PAHs was noticed with increasing soil concentration. ? Lower ring PAHs showed superior degradation over higher ring PAHs. ? Role of dehydrogenase activity, redox pattern and dissolved oxygen was investigated. ? Community analysis detected survival of efficient aromatic degrading microorganisms. - Abstract: The effect of soil concentration on the aerobic degradation of real-field petroleum sludge was studied in slurry phase reactor. Total petroleum hydrocarbons (TPH) and polycyclic aromatic hydrocarbons (PAHs) showed effective removal but found to depend on the soil concentration. Aromatic fraction (48.12%) documented effective degradation compared to aliphatics (47.31%), NSO (28.69%) and asphaltenes (26.66%). PAHs profile showed efficient degradation of twelve individual aromatic compounds where lower ring compounds showed relatively higher degradation efficiency compared to the higher ring compounds. The redox behaviour and dehydrogenase activity showed a linear increment with the degradation pattern. Microbial community composition and changes during bioremediation were studied using denaturing gradient gel electrophoresis (DGGE). Among the 12 organisms identified, Proteobacteria was found to be dominant representing 50% of the total population (25% of ?-proteobacteria; 16.6% of ?-proteobacteria; 8.3% of ?-proteobacteria), while 33.3% were of uncultured bacteria and 16.6% were of firmicutes. firmicutes.

  20. Enabling Space Weather research, analysis, and forecasting at the Community Coordinated Modeling Center

    Science.gov (United States)

    Maddox, M. M.; Hesse, M.; Kuznetsova, M. M.; Chulaki, A.; Rastaetter, L.; Berrios, D.; Pulkkinen, A.; Zheng, Y.; Mullinix, R.; MacNeice, P. J.; Taktakishvili, A.; Mendoza, A. M.; Shim, J.; Bakshi, S. S.; Patel, K. D.; Lee, H.; Donti, N.; Boblitt, J.; Lasota, J.; Zhou, P.; Community Coordinated Modeling Center

    2011-12-01

    The Community Coordinated Modeling Center ( CCMC ) at NASA Goddard Space Flight Center's Space Weather Laboratory is dedicated to enabling and performing research, analysis, and forecasting of both large-scale and local space environments. To accurately specify and forecast the space environment, the CCMC employs the use of a comprehensive collection of physics-based models that cover the entire space weather domain from the sun to the earth. The CCMC's utilization of advanced space weather models, coupled with data from NASA and other missions and facilities, creates a unique and data-rich environment that allows the group to provide a host of space weather products and services. The distribution of scientific research data is at the heart of the CCMC - which has two core goals: (1) facilitate community research and (2) address national space weather needs. These goals are being achieved by providing access to space weather model simulations, model output data, advanced visualization tools, and real-time space weather tools/products. These services cater to a wide audience ranging from expert plasma physicists who execute simulations on CCMC super computers, to citizen scientists who monitor space weather in real-time on CCMC developed mobile applications. This paper will present an overview of CCMC services, and outline some of the technical challenges and design patterns employed by the CCMC in distributing space weather resources.

  1. Pyrosequencing-based analysis of fecal microbial communities in three purebred pig lines.

    Science.gov (United States)

    Pajarillo, Edward Alain B; Chae, Jong Pyo; Balolong, Marilen P; Kim, Hyeun Bum; Seo, Kang-Seok; Kang, Dae-Kyung

    2014-08-01

    This study examined the fecal bacterial diversity of 15-week-old pigs from three purebred lines: Duroc, Landrace, and Yorkshire. Taxon-dependent and -independent analyses were performed to evaluate differences in the fecal bacterial communities and to identify bacterial genera that can be used to discriminate breeds, following high-throughput pyrosequencing of 16S rRNA genes. Among the breeds evaluated, Landrace had the most diverse bacterial community composition. Prevotella, Blautia, Oscillibacter, and Clostridium were detected in all samples regardless of breed. On the other hand, Catenibacterium, Blautia, Dialister, and Sphaerochaeta were differentially detected among breeds, as demonstrated by the canonical loading plot. The discriminant analysis of principal components plot also showed clear separation of the three purebred pig lines, with a certain degree of similarity between Landrace and Yorkshire pigs and a distinct separation between Duroc pigs and the other two breeds. Other factors not related to breed, such as season or time of sampling and pen effects, may contribute to shaping the gut microbiota of pigs. PMID:25047525

  2. Microbial community analysis of fresh and old microbial biofilms on Bayon temple sandstone of Angkor Thom, Cambodia.

    Science.gov (United States)

    Lan, Wensheng; Li, Hui; Wang, Wei-Dong; Katayama, Yoko; Gu, Ji-Dong

    2010-07-01

    The temples of Angkor monuments including Angkor Thom and Bayon in Cambodia and surrounding countries were exclusively constructed using sandstone. They are severely threatened by biodeterioration caused by active growth of different microorganisms on the sandstone surfaces, but knowledge on the microbial community and composition of the biofilms on the sandstone is not available from this region. This study investigated the microbial community diversity by examining the fresh and old biofilms of the biodeteriorated bas-relief wall surfaces of the Bayon Temple by analysis of 16S and 18S rRNA gene sequences. The results showed that the retrieved sequences were clustered in 11 bacterial, 11 eukaryotic and two archaeal divisions with disparate communities (Acidobacteria, Actinobacteria, Bacteroidetes, Cyanobacteria, Proteobacteria; Alveolata, Fungi, Metazoa, Viridiplantae; Crenarchaeote, and Euyarchaeota). A comparison of the microbial communities between the fresh and old biofilms revealed that the bacterial community of old biofilm was very similar to the newly formed fresh biofilm in terms of bacterial composition, but the eukaryotic communities were distinctly different between these two. This information has important implications for understanding the formation process and development of the microbial diversity on the sandstone surfaces, and furthermore to the relationship between the extent of biodeterioration and succession of microbial communities on sandstone in tropic region. PMID:20593173

  3. Back to basics – the influence of DNA extraction and primer choice on phylogenetic analysis in activated sludge communities

    DEFF Research Database (Denmark)

    Albertsen, Mads; Karst, SØren Michael

    DNA extraction and primer choice have a large effect on the observed community structure in all phylogenetic analyses. Although the biases are well known, no comprehensive analysis have been conducted in activated sludge communities. In this study we investigated the effect of bead beating intensity and primer choice on the observed community using 16S rDNA amplicon sequencing. Quantitative fluorescence in situ hybridization (qFISH) was used as a DNA extraction independent method to evaluate the results. The bead beating intensity correlated with cell-wall strength and showed that the manufacture recommended settings were insufficient to retrieve a large part of the community. In addition, the in silico “best” primer set was found to greatly underestimate a number of important phyla when compared to qFISH results. The findings underline the need for sample specific and DNA extraction independent validation in all DNA extraction based studies.

  4. Multiple deprivation, income and poverty in Italy: an analysis based on European Community Household Panel

    Directory of Open Access Journals (Sweden)

    Sergio Brasini

    2007-10-01

    Full Text Available The aim of this article is to examine both the diffusion and intensity of poverty in Italy by utilising two kinds of approach. The first is the usual one, which employs a threshold defined in terms of income in order to identify the poor families. The second, referring to the definition of functioning introduced by Sen, identifies the poor families on the basis of living conditions. The use of this specific approach allows us to take into account new aspects of the phenomenon that the income approach overcame. Our analyses refer to the results of the second wave of the European Community Household Panel, which was delivered in 1995. Regarding income poverty, a logistic discriminant analysis has been performed in order to detect the significantly connected variables, as for the living conditions approach. The latter approach is more effective in the detection of the family state of privation than the former.

  5. Microbial community analysis of perchlorate-reducing cultures growing on zero-valent iron

    International Nuclear Information System (INIS)

    Anaerobic microbial mixed cultures demonstrated its ability to completely remove perchlorate in the presence of zero-valent iron. In order to understand the major microbial reaction in the iron-supported culture, community analysis comprising of microbial fatty acids and polymerase chain reaction-denaturing gradient gel electrophoresis (PCR-DGGE) techniques was performed for perchlorate reducing cultures. Analysis of fatty acid methyl esters (FAMEs) and subsequent principal component analysis (PCA) showed clear distinctions not only between iron-supported perchlorate reducing culture and seed bacteria, but also among perchlorate-reducing cultures receiving different electron donors. The DGGE pattern targeting the chlorite dismutase (cld) gene showed that iron-supported perchlorate reducing culture is similar to hydrogen-fed cultures as compared to acetate-fed culture. The phylogenetic tree suggested that the dominant microbial reaction may be a combination of the autotrophic and heterotrophic reduction of perchlorate. Both molecular and chemotaxonomic experimental results support further understanding in the function of zero-valent iron as an adequate electron source for enhancing the microbial perchlorate reduction in natural and engineered systems.

  6. Community-based physical activity interventions for treatment of type 2 diabetes: A systematic review with meta-analysis

    Directory of Open Access Journals (Sweden)

    RonaldCPlotnikoff

    2013-01-01

    Full Text Available Evidence suggests engaging in regular physical activity (PA can have beneficial outcomes for adults with type 2 diabetes (TD2, including weight loss, reduction of medication usage and improvements in hemoglobin A1c (HbA1c/fasting glucose. While a number of clinical-based physical activity interventions exist, community-based approaches are limited. The objective of this study is to conduct a systematic review with meta-analysis to assess the effectiveness of community-based PA interventions for the treatment of TD2 in adult populations. A search of peer-reviewed publications from 2002 to June 2012 was conducted across several electronic databases to identify interventions evaluated in community settings. Twenty-two studies were identified, and 11 studies reporting HbA1c as an outcome measure were pooled in the meta-analysis. Risk of bias assessment was also conducted. The findings demonstrate community-based PA interventions can be effective in producing increases in PA. Meta-analysis revealed a lowering of HbA1c levels by -0.32% [95% CI -0.65, 0.01], which approached statistical significance (p < 0.06. Our findings can guide future PA community based interventions in adult populations diagnosed with TD2.

  7. Succession of bacterial community structure along the Changjiang River determined by denaturing gradient gel electrophoresis and clone library analysis.

    Science.gov (United States)

    Sekiguchi, Hiroyuki; Watanabe, Masataka; Nakahara, Tadaatsu; Xu, Baohua; Uchiyama, Hiroo

    2002-10-01

    Bacterial community structure along the Changjiang River (which is more than 2,500 km long) was studied by using denaturing gradient gel electrophoresis (DGGE) and clone library analysis of PCR-amplified 16S ribosomal DNA (rDNA) with universal bacterial primer sets. DGGE profiles and principal-component analysis (PCA) demonstrated that the bacterial community gradually changed from upstream to downstream in both 1998 and 1999. Bacterial diversity, as determined by the Shannon index (H'), gradually decreased from upstream to downstream. The PCA plots revealed that the differences in the bacterial communities among riverine stations were not appreciable compared with the differences in two adjacent lakes, Lake Dongting and Lake Poyang. The relative stability of the bacterial communities at the riverine stations was probably due to the buffering action of the large amount of water flowing down the river. Clone library analysis of 16S rDNA revealed that the dominant bacterial groups changed from beta-proteobacteria and the Cytophaga-Flexibacter-Bacteroides group upstream to high-G+C-content gram-positive bacteria downstream and also that the bacterial community structure differed among the stations in the river and the lakes. The results obtained in this study should provide a reference for future changes caused by construction of the Three Gorges Dam. PMID:12324365

  8. Rapid comparison and correlation analysis among massive number of microbial community samples based on MDV data model

    Science.gov (United States)

    Su, Xiaoquan; Hu, Jianqiang; Huang, Shi; Ning, Kang

    2014-09-01

    The research in microbial communities would potentially impact a vast number of applications in ``bio''-related disciplines. Large-scale analyses became a clear trend in microbial community studies, thus it is increasingly important to perform efficient and in-depth data mining for insightful biological principles from large number of samples. However, as microbial communities are from different sources and of different structures, comparison and data-mining from large number of samples become quite difficult. In this work, we have proposed a data model to represent large-scale comparison of microbial community samples, namely the ``Multi-Dimensional View'' data model (the MDV model) that should at least include 3 aspects: samples profile (S), taxa profile (T) and meta-data profile (V). We have also proposed a method for rapid data analysis based on the MDV model and applied it on the case studies with samples from various environmental conditions. Results have shown that though sampling environments usually define key variables, the analysis could detect bio-makers and even subtle variables based on large number of samples, which might be used to discover novel principles that drive the development of communities. The efficiency and effectiveness of data analysis method based on the MDV model have been validated by the results.

  9. Phylogenetic Analysis Suggests That Habitat Filtering Is Structuring Marine Bacterial Communities Across the Globe

    OpenAIRE

    Pontarp, Mikael; Canba?ck, Bjo?rn; Tunlid, Anders; Lundberg, Per

    2012-01-01

    The phylogenetic structure and community composition were analysed in an existing data set of marine bacterioplankton communities to elucidate the evolutionary and ecological processes dictating the assembly. The communities were sampled from coastal waters at nine locations distributed worldwide and were examined through the use of comprehensive clone libraries of 16S ribosomal RNA genes. The analyses show that the local communities are phylogenetically different from each other and that a m...

  10. Comparative molecular analysis of bacterial communities inhabiting pristine and polluted with polycyclic aromatic hydrocarbons Black Sea coastal sediments.

    Science.gov (United States)

    Todorova, Nadezhda H; Mironova, Roumyana S; Karamfilov, Ventzislav K

    2014-06-15

    Molecular analysis was applied to characterize bacterial community structure in sediment samples collected from pristine site and oil-polluted Black Sea harbor. Amplified Ribosomal DNA Restriction Analysis (ARDRA) revealed a high similarity in the restriction patterns of both samples thus not demonstrating the effect of the pollutant on the structure of the bacterial communities. Constructed 16S rRNA gene libraries gave more detailed assessment of members. Results showed that ?- and ?-Proteobacteria were dominant in the oil polluted site, whereas the pristine site was characterized by prevalence of Actinobacteria. The biodegradative potential of the adapted bacterial community in the oil-polluted sediments was demonstrated by the presence of the aromatic ring hydroxylating dioxygenase genes. PMID:24759506

  11. Analysis of the Carnegie Classification of Community Engagement: Patterns and Impact on Institutions

    Science.gov (United States)

    Driscoll, Amy

    2014-01-01

    This chapter describes the impact that participation in the Carnegie Classification for Community Engagement had on the institutions of higher learning that applied for the classification. This is described in terms of changes in direct community engagement, monitoring and reporting on community engagement, and levels of student and professor…

  12. Conflicting Community Commitments: A Dialogical Analysis of a British Woman's World War II Diaries

    Science.gov (United States)

    Gillespie, Alex; Cornish, Flora; Aveling, Emma-Louise; Zittoun, Tania

    2008-01-01

    Recent developments of the concept of "sense of community" have highlighted the multiplicity of people's senses of community. In this article, the authors introduce the theory of the dialogical self as a means of theorizing the conflicts that can arise between a person's commitments to multiple communities. They ask the question, "When faced with…

  13. Changing perspectives on community identity and function: A remote sensing and artifactual re-analysis of Barton Ramie, Belize

    Science.gov (United States)

    Weller, Errin Teresa

    This dissertation presents the results of the remote sensing and artifact re-analysis of the archaeological site of Barton Ramie, Belize. The site was the focus of Dr. Gordon R. Willey's innovative archaeological program in the Belize River Valley to study ancient Maya settlement, environment, and population in 1954-1956. Through the use of artifact analysis combined with the examination of high-resolution Worldview-1 imagery and a Geographic Information System (GIS)-based spatial analysis, I consider how the inhabitants of Barton Ramie forged community functioning and identity. I focus on the range of intra-site diversity including differential access to labor, goods, land, and the activities evidenced in households and non-domestic structures. Using a community theory framework, emphasizing the many practices that tied the community together, I underscore the variability expressed in architectural elaboration, sumptuary goods, ritual, and specialization. That variability has profound implications for understanding community diversity and economic, social, and ritual functioning. High-resolution panchromatic Worldview-1 satellite imagery successfully detected the remains of Barton Ramie settlement. Surface archaeology has been largely destroyed due to extensive agricultural activities in recent decades. GIS analysis and ground-truthing determined that mound size is the primary factor enabling detection of ancient features. The confirmation of features in an intensively plowed environment has implications including settlement, survey, and population for other disturbed environments. I argue that the Barton Ramie community developed from a complex interaction of networks and practices. These include activities at the household level, articulation between households to form sub-communities (or neighborhoods), and a larger imagined community of the Barton Ramie polity. Individual households articulated to form seven discrete sub-communities, bounded by landscape features and indicated by interaction spheres in my GIS analysis. This analysis confirmed Dr. Willey's original observations on neighborhoods and settlement. Each subcommunity had a local ritual structure to integrate the households and mitigate the clear status differences. These differences are seen in high status households on prized land, using architectural elaboration, sumptuary goods, and ritual to maintain their status. Once Barton Ramie is understood as a heterogeneous polity connected to a wider economic network, it can be placed into the wider political interaction of the Belize Valley.

  14. Radiological emergency response for community agencies with cognitive task analysis, risk analysis, and decision support framework.

    Science.gov (United States)

    Meyer, Travis S; Muething, Joseph Z; Lima, Gustavo Amoras Souza; Torres, Breno Raemy Rangel; del Rosario, Trystyn Keia; Gomes, José Orlando; Lambert, James H

    2012-01-01

    Radiological nuclear emergency responders must be able to coordinate evacuation and relief efforts following the release of radioactive material into populated areas. In order to respond quickly and effectively to a nuclear emergency, high-level coordination is needed between a number of large, independent organizations, including police, military, hazmat, and transportation authorities. Given the complexity, scale, time-pressure, and potential negative consequences inherent in radiological emergency responses, tracking and communicating information that will assist decision makers during a crisis is crucial. The emergency response team at the Angra dos Reis nuclear power facility, located outside of Rio de Janeiro, Brazil, presently conducts emergency response simulations once every two years to prepare organizational leaders for real-life emergency situations. However, current exercises are conducted without the aid of electronic or software tools, resulting in possible cognitive overload and delays in decision-making. This paper describes the development of a decision support system employing systems methodologies, including cognitive task analysis and human-machine interface design. The decision support system can aid the coordination team by automating cognitive functions and improving information sharing. A prototype of the design will be evaluated by plant officials in Brazil and incorporated to a future trial run of a response simulation. PMID:22317163

  15. Grid connected integrated community energy system. Phase II: final state 2 report. Cost benefit analysis, operating costs and computer simulation

    Energy Technology Data Exchange (ETDEWEB)

    1978-03-22

    A grid-connected Integrated Community Energy System (ICES) with a coal-burning power plant located on the University of Minnesota campus is planned. The cost benefit analysis performed for this ICES, the cost accounting methods used, and a computer simulation of the operation of the power plant are described. (LCL)

  16. Job Descriptions for Directors of Student Activities at Selected Two Year Community Colleges, with Summary and Analysis.

    Science.gov (United States)

    Laufer, Joseph M.

    Job descriptions for directors of student activities at 32 two-year community colleges are presented. A summary and analysis are provided. The duties that stand out as most common to the position are: (1) supervision of the activities fund; (2) advising the student government; and (3) general responsibility for advising clubs and organizations.…

  17. Improvement of DGGE analysis by modifications of PCR protocols for analysis of microbial community members with low abundance.

    Science.gov (United States)

    Wang, Yong-Feng; Zhang, Fang-Qiu; Gu, Ji-Dong

    2014-06-01

    Denaturing gradient gel electrophoresis (DGGE) is a powerful technique to reveal the community structures and composition of microorganisms in complex natural environments and samples. However, positive and reproducible polymerase chain reaction (PCR) products, which are difficult to acquire for some specific samples due to low abundance of the target microorganisms, significantly impair the effective applications of DGGE. Thus, nested PCR is often introduced to generate positive PCR products from the complex samples, but one problem is also introduced: The total number of thermocycling in nested PCR is usually unacceptably high, which results in skewed community structures by generation of random or mismatched PCR products on the DGGE gel, and this was demonstrated in this study. Furthermore, nested PCR could not resolve the uneven representative issue with PCR products of complex samples with unequal richness of microbial population. In order to solve the two problems in nested PCR, the general protocol was modified and improved in this study. Firstly, a general PCR procedure was used to amplify the target genes with the PCR primers without any guanine cytosine (GC) clamp, and then, the resultant PCR products were purified and diluted to 0.01 ?g ml(-1). Subsequently, the diluted PCR products were utilized as templates to amplify again with the same PCR primers with the GC clamp for 17 cycles, and the products were finally subjected to DGGE analysis. We demonstrated that this is a much more reliable approach to obtain a high quality DGGE profile with high reproducibility. Thus, we recommend the adoption of this improved protocol in analyzing microorganisms of low abundance in complex samples when applying the DGGE fingerprinting technique to avoid biased results. PMID:24728758

  18. Parallel analysis of antimicrobial activities in microbial community by SSCP based on CE.

    Science.gov (United States)

    Chung, Joo Hee; Park, Young Seoub; Kim, Jin; Shin, Gi Won; Nam, Myung Hee; Oh, Min-Kyu; Kim, Chan Wha; Jung, Gyoo Yeol; Hyun Park, Jin

    2007-07-01

    Conventional antimicrobial activity analyses such as the broth dilution method and disk diffusion test are considerably demanding processes for new antimicrobial agent discovery and sensitive diagnosis of infectious diseases. Here, we developed a new antimicrobial activity analysis system using CE-based SSCP (CE-SSCP) combined with 16S rRNA gene-specific PCR (PCR/CE-SSCP). Using this method, the population change in the microbial community in response to specific antimicrobial agents could be quantified with a high sensitivity and accuracy from a small sample amount. Using a mixture of microorganisms comprising Escherichia coli, Corynebacterium glutamicum, Acinetobacter calcoaceticus, and Staphylococcus aureus as a model system, the linear correlation between the genomic DNA concentrations and peak areas in 16S rRNA gene-specific PCR/CE-SSCP was determined; consequently, quantification of cell concentrations could be demonstrated using this method. Compared to the minimum inhibitory concentration (MIC) values from the conventional broth dilution method, this new system provided almost the same MIC values for popular antimicrobial agents such as kanamycin, spectinomycin, and streptomycin. The results demonstrated that the newly developed method can be a substitute for the conventional antimicrobial analysis method and highlighted its high potential in the areas of new antimicrobial agent discovery and clinical diagnosis. PMID:17577886

  19. Use of Spatial Analysis to Assess Geographic Accessibility of Community Pharmacies in São Mateus

    Directory of Open Access Journals (Sweden)

    Brígida Dias Fernandes

    2013-08-01

    Full Text Available Pharmaceutical services contribute to the rational use of medicines by ensuring the provision of appropriate, safe and effective pharmacotherapies. Thus, it is important to investigate whether the geographical distribution of pharmacies causes inequalities in access in countries like Brazil, where there is no federal law regulating the opening of new establishments (in contrast to many European countries. This study analyzed the accessibility of community pharmacies in the city of Sao Mateus, Espírito Santo, Brazil. The authors obtained the geographical coordinates of pharmacies and healthfacilities, which scanned and georeferenced the study area. The 40 pharmacies included in the spatial analysis presented a heterogeneous distribution, with the existence of neighborhoods with an accumulation of pharmacies and others with no pharmacies. The authors found that only 43.7% of the study area received pharmaceutical service coverage, when buffer zones of 350 meters are incorporated, and that most of the districts have a minimum distance of 100 meters between health facilities and pharmacies. It was concluded that the use of GIS proved to be very suitable for analysis of pharmaceutical services, enabling knowledge of the local situation and serving as a stimulus for future studies.

  20. Medicina comunitaria: introducción a un análisis crítico / Community medicine: introduction to a critical analysis

    Scientific Electronic Library Online (English)

    Jairnilson Silva, Paim.

    2009-04-01

    Full Text Available SciELO Public Health | Language: Spanish Abstract in spanish Este artículo de Jairnilson Silva Paim, publicado originalmente en 1976 en la revista Saúde em Debate del Centro Brasileiro de Estudos de Saúde (CEBES), realiza un análisis del concepto "comunidad", como así también de la utilización de las expresiones "salud comunitaria" y "medicina comunitaria" re [...] lacionadas a la propuesta de medicina integral y medicina preventiva. Su publicación en español en la sección Textos fundacionales, apunta a la reconstrucción histórica de un movimiento originado en América Latina como medicina social y/o salud colectiva hace más de cuatro décadas y que en el caso de Brasil tiene como claros antecedentes la obra de Sergio Arouca O Dilema preventivista: contribuição para a compreensão e crítica da medicina preventiva y las de Cecília Donnangelo Medicina e sociedade: o médico e seu mercado de trabalho y Medicina e estrutura social: o campo da emergência da medicina comunitária. Estos tres textos son producto de tesis de doctorado y libre docencia, escritos en el primer lustro de los años '70 al igual que este artículo que estamos publicando, y otros que el CEBES recupera en su número especial del año 2008, titulado Saúde em Debate: Fundamentos da Reforma Sanitária. Abstract in english This article by Jairnilson Silva Paim, originally published in 1976 in the journal Saúde em Debate belonging to the Centro Brasileiro de Estudos de Saúde (CEBES), makes an analysis of the concept of "community", together with the use of the expressions "community health" and "community medicine" rel [...] ated to the proposal of integral medicine and preventive medicine. Its publication in Spanish in the Founding Texts section points at the historical reconstruction of a movement originated in Latin America as social and/or collective medicine more than four decades ago. In the case of Brazil, it has, as clear antecedents, the work of Sergio Arouca O Dilema preventivista: contribuição para a compreensão e crítica da medicina preventiva and Cecília Donnangelo's ones Medicina e sociedade: o médico e seu mercado de trabalho and Medicina e estrutura social: o campo da emergência da medicina comunitária. These three texts are the product of a PhD. thesis and free teaching, written in the early seventies as well as the articles we are publishing and others that the CEBES recovers in its 2008 special issue with the title Saúde em Debate: Fundamentos da Reforma Sanitária.

  1. Medicina comunitaria: introducción a un análisis crítico / Community medicine: introduction to a critical analysis

    Scientific Electronic Library Online (English)

    Jairnilson, Silva Paim.

    2009-04-01

    Full Text Available SciELO Argentina | Language: Spanish Abstract in spanish Este artículo de Jairnilson Silva Paim, publicado originalmente en 1976 en la revista Saúde em Debate del Centro Brasileiro de Estudos de Saúde (CEBES), realiza un análisis del concepto "comunidad", como así también de la utilización de las expresiones "salud comunitaria" y "medicina comunitaria" re [...] lacionadas a la propuesta de medicina integral y medicina preventiva. Su publicación en español en la sección Textos fundacionales, apunta a la reconstrucción histórica de un movimiento originado en América Latina como medicina social y/o salud colectiva hace más de cuatro décadas y que en el caso de Brasil tiene como claros antecedentes la obra de Sergio Arouca O Dilema preventivista: contribuição para a compreensão e crítica da medicina preventiva y las de Cecília Donnangelo Medicina e sociedade: o médico e seu mercado de trabalho y Medicina e estrutura social: o campo da emergência da medicina comunitária. Estos tres textos son producto de tesis de doctorado y libre docencia, escritos en el primer lustro de los años '70 al igual que este artículo que estamos publicando, y otros que el CEBES recupera en su número especial del año 2008, titulado Saúde em Debate: Fundamentos da Reforma Sanitária. Abstract in english This article by Jairnilson Silva Paim, originally published in 1976 in the journal Saúde em Debate belonging to the Centro Brasileiro de Estudos de Saúde (CEBES), makes an analysis of the concept of "community", together with the use of the expressions "community health" and "community medicine" rel [...] ated to the proposal of integral medicine and preventive medicine. Its publication in Spanish in the Founding Texts section points at the historical reconstruction of a movement originated in Latin America as social and/or collective medicine more than four decades ago. In the case of Brazil, it has, as clear antecedents, the work of Sergio Arouca O Dilema preventivista: contribuição para a compreensão e crítica da medicina preventiva and Cecília Donnangelo's ones Medicina e sociedade: o médico e seu mercado de trabalho and Medicina e estrutura social: o campo da emergência da medicina comunitária. These three texts are the product of a PhD. thesis and free teaching, written in the early seventies as well as the articles we are publishing and others that the CEBES recovers in its 2008 special issue with the title Saúde em Debate: Fundamentos da Reforma Sanitária.

  2. The Roles of Government Agency in Assisting CSR Project for Community Development: Analysis from the Recipients Perspectives

    Directory of Open Access Journals (Sweden)

    Sarmila M. S.

    2013-05-01

    Full Text Available Corporate Social responsibility (CSR initiatives by the corporations are playing increasingly significant role in the effort of contributing to community development particularly in the developing country. The international prominence of the initiatives in this area can be traced to the objectives of Millenium Development Goals (MDGs that established corporations as partners of development. However, realizing the corporate sectors constraints in playing the roles as agents of development, the CSR initiatives need to be implemented with the involvement of the government agency to assist community development. This paper will explore the roles played by government agency in CSR project through a case study of successful CSR initiative in Bukit Awang, PasirPuteh Kelantan in Malaysia. A qualitative research strategy that explores the perspective of social actors that involved in the project and thematic data analysis are undertaken for that purpose. The result from the analysis reveals two main roles played by the government agency in CSR project by the corporation to the community. The roles are as the supporting agency and as leader in the community. These roles have assisted in the implementation of the CSR project with the objectives to develop the community involved.

  3. Aerobic degradation study of three fluoroanilines and microbial community analysis: the effects of increased fluorine substitution.

    Science.gov (United States)

    Zhao, Zhi-Qing; Tian, Bao-Hu; Zhang, Xuan; Ghulam, Abbas; Zheng, Tu-Cai; Shen, Dong-Sheng

    2015-02-01

    The fate of fluorinated compounds in the environment, especially polyfluorinated aromatics, is a matter of great concern. In this work, 4-Fluoroaniline (4-FA), 2,4-Difluoroanilines (2,4-DFA), and 2,3,4-Trifluoroanilines (2,3,4-TFA), were chosen as the target pollutants to study their biodegradability under aerobic conditions. The required enriched time of the mixed bacterial culture for degrading 4-FA, 2,4-DFA, and 2,3,4-TFA was 26, 51, and 165 days, respectively, which suggested that the longer enrichment time was required with the increase of fluorine substitution. At the initial concentrations of 100-200 mg L(-1), the 4-FA, 2,4-DFA, and 2,3,4-TFA could be degraded completely by the mixed bacterial culture. The maximum specific degradation rates of 4-FA, 2,4-DFA, and 2,3,4-TFA were 22.48 ± 0.55, 15.27 ± 2.04, and 8.84 ± 0.93 mg FA (g VSS h)(-1), respectively. Also, the three FAs enriched cultures showed certain potential of degrading other two FAs. The results from enzyme assay suggested the expression of meta-cleavage pathways during three FAs degradation. The denaturing gradient gel electrophoresis analysis revealed that unique bacterial communities were formed after FAs enrichment and these were principally composed of ?-Proteobacteria, Oscillatoriophycideae, ?-Proteobacteria, ?-Proteobacteria, Thermales, Xanthomonadales, Deinococci, Flavobacteriia, and Actinobacteridae. The Shannon-Wiener indexes in three FAs enriched culture decreased with the increase of fluorine substitution, indicating the significant effect of fluorine substitution on the microbial diversity. These findings supply important information on the fate of three FAs under aerobic environment, and the bacterial communities in their degradation systems. PMID:25238671

  4. Taxonomic profiling and metagenome analysis of a microbial community from a habitat contaminated with industrial discharges.

    Science.gov (United States)

    Shah, Varun; Zakrzewski, Martha; Wibberg, Daniel; Eikmeyer, Felix; Schlüter, Andreas; Madamwar, Datta

    2013-10-01

    Industrial units, manufacturing dyes, chemicals,solvents, and xenobiotic compounds, produce liquid and solid wastes, which upon conventional treatment are released in the nearby environment and thus are the major cause of pollution. Soil collected from contaminated Kharicut Canalbank (N 22°57.878?; E 072°38.478?), Ahmeda bad, Gujarat,India was used for metagenomic DNA preparation to study the capabilities of intrinsic microbial community in dealing with xenobiotics. Sequencing of metagenomic DNA on the Genome Sequencer FLX System using titanium chemistry resulted in 409,782 reads accounting for 133,529,997 bases of sequence information. Taxonomic analyses and gene annotations were carried out using the bioinformatics platform Sequence Analysis and Management System for Metagenomic Datasets. Taxonomic profiling was carried out by three different complementary approaches: (a) 16S rDNA, (b) environmental gene tags, and (c) lowest common ancestor. The most abundant phylum and genus were found to be “Proteobacteria”and “Pseudomonas,” respectively. Metagenome reads were mapped on sequenced microbial genomes and the highest numbers of reads were allocated to Pseudomonas stutzeri A1501. Assignment of obtained metagenome reads to Gene Ontology terms, Clusters of Orthologous Groups of protein categories, protein family numbers, and Kyoto Encyclopedia of Genes and Genomes hits revealed genomic potential of indigenous microbial community. In total, 157,024 reads corresponded to 37,028 different KEGG hits, and amongst them, 11,574 reads corresponded to 131 different enzymes potentially involved in xenobiotic biodegradation. These enzymes were mapped on biodegradation pathways of xenobiotics to elucidate their roles in possible catalytic reactions. Consequently, information obtained from the present study will act as a baseline which, subsequently along with other“-omic” studies, will help in designing future bioremediation strategies in effluent treatment plants and environmental cleanup projects. PMID:23728164

  5. Meta-analysis of antibiotics and the risk of community-associated Clostridium difficile infection.

    Science.gov (United States)

    Brown, Kevin A; Khanafer, Nagham; Daneman, Nick; Fisman, David N

    2013-05-01

    The rising incidence of Clostridium difficile infection (CDI) could be reduced by lowering exposure to high-risk antibiotics. The objective of this study was to determine the association between antibiotic class and the risk of CDI in the community setting. The EMBASE and PubMed databases were queried without restriction to time period or language. Comparative observational studies and randomized controlled trials (RCTs) considering the impact of exposure to antibiotics on CDI risk among nonhospitalized populations were considered. We estimated pooled odds ratios (OR) for antibiotic classes using random-effect meta-analysis. Our search criteria identified 465 articles, of which 7 met inclusion criteria; all were observational studies. Five studies considered antibiotic risk relative to no antibiotic exposure: clindamycin (OR = 16.80; 95% confidence interval [95% CI], 7.48 to 37.76), fluoroquinolones (OR = 5.50; 95% CI, 4.26 to 7.11), and cephalosporins, monobactams, and carbapenems (CMCs) (OR = 5.68; 95% CI, 2.12 to 15.23) had the largest effects, while macrolides (OR = 2.65; 95% CI, 1.92 to 3.64), sulfonamides and trimethoprim (OR = 1.81; 95% CI, 1.34 to 2.43), and penicillins (OR = 2.71; 95% CI, 1.75 to 4.21) had lower associations with CDI. We noted no effect of tetracyclines on CDI risk (OR = 0.92; 95% CI, 0.61 to 1.40). In the community setting, there is substantial variation in the risk of CDI associated with different antimicrobial classes. Avoidance of high-risk antibiotics (such as clindamycin, CMCs, and fluoroquinolones) in favor of lower-risk antibiotics (such as penicillins, macrolides, and tetracyclines) may help reduce the incidence of CDI. PMID:23478961

  6. In-depth diversity analysis of the bacterial community resident in the camel rumen.

    Science.gov (United States)

    Gharechahi, Javad; Zahiri, Hossein Shahbani; Noghabi, Kambiz Akbari; Salekdeh, Ghasem Hosseini

    2015-02-01

    The rumen compartment of the ruminant digestive tract is an enlarged fermentation chamber which houses a diverse collection of symbiotic microorganisms that provide the host animal with a remarkable ability to digest plant lignocellulosic materials. Characterization of the ruminal microbial community provides opportunities to improve animal food digestion efficiency, mitigate methane emission, and develop efficient fermentation systems to convert plant biomasses into biofuels. In this study, 16S rRNA gene amplicon pyrosequencing was applied in order to explore the structure of the bacterial community inhabiting the camel rumen. Using 76,333 quality-checked, chimera- and singleton-filtered reads, 4954 operational taxonomic units (OTUs) were identified at a 97% species level sequence identity. At the phylum level, more than 96% of the reads were affiliated to OTUs belonging to Bacteroidetes (51%), Firmicutes (31%), Proteobacteria (4.8%), Spirochaetes (3.5%), Fibrobacteres (3.1%), Verrucomicrobia (2.7%), and Tenericutes (0.95%). A total of 15% of the OTUs (746) that contained representative sequences from all major taxa were shared by all animals and they were considered as candidate members of the core camel rumen microbiome. Analysis of microbial composition through the solid and liquid fractions of rumen digesta revealed differential enrichment of members of Fibrobacter, Clostridium, Ruminococcus, and Treponema in the solid fraction, as well as members of Prevotella, Verrucomicrobia, Cyanobacteria, and Succinivibrio in the liquid fraction. The results clearly showed that the camel rumen microbiome was structurally similar but compositionally distinct from that of other ruminants, such as the cow. The unique characteristic of the camel rumen microbiome that differentiated it from those of other ruminants was the significant enrichment for cellulolytic bacteria. PMID:25467553

  7. Resource partitioning in freshwater turtle communities: A null model meta-analysis of available data

    Science.gov (United States)

    Luiselli, Luca

    2008-07-01

    Resource partitioning is one of the most intensely studied issues in ecology since the mid-1900s, nonetheless this issue has never been examined in detail for several important animal groups, including the freshwater turtles. In this paper I re-analyze by null models several studies on resource partitioning by freshwater turtles published in the peer-reviewed literature. These studies originated from all continents and from a variety of climatic and habitat conditions. I used data given in the original papers to recalculate dietary overlap between species. Then, the true datasets were compared to randomly generated datasets produced by 3 × 10 4 Monte Carlo permutations, by using two different randomization algorithms (RA2 and RA3 of Lawlor, 1980). Datasets were inspected to find non-random structure of the various communities along four resource dimensions: macro-habitat, micro-habitat, food, and time. Based on my meta-analysis, I concluded that the micro-habitat resource is the most important dimension (it was the resource partitioned in nearly 80% of the study cases), followed by the food resource dimension (nearly 70%), whereas macro-habitat and time were clearly less important. In relation to micro-habitat dimension, the selection of basking site typology is perhaps the main aspect of the microhabitat niche to be partitioned. Logistic regression models indicated that the presence of a resource partitioning structure in the dataset was influenced only by matrix size, and not by number of species, continent, presence of substantial body size differences among coexisting species, or tropical versus non-tropical origin. A combination of causes may explain the observed patterns: interspecific competition is likely important in shaping several turtle communities, but intrinsic and extrinsic constraints and predation are also relevant.

  8. Pyrosequencing analysis of the protist communities in a High Arctic meromictic lake: DNA preservation and change

    Directory of Open Access Journals (Sweden)

    ConnieLovejoy

    2012-12-01

    Full Text Available High Arctic meromictic lakes are extreme environments characterized by cold temperatures, low nutrient inputs from their polar desert catchments and prolonged periods of low irradiance and darkness. These lakes are permanently stratified with an oxygenated freshwater layer (mixolimnion overlying a saline, anoxic water column (monimolimnion. The physical and chemical properties of the deepest known lake of this type in the circumpolar Arctic, Lake A, on the far northern coast of Ellesmere Island, Canada, have been studied over the last 15 years, but little is known about the lake’s biological communities. We applied high-throughput sequencing of the V4 region of the 18S ribosomal RNA gene to investigate the protist communities down the water column at three sampling times: under the ice at the end of winter in 2008, during an unusual period of warming and ice-out the same year, and again under the ice in mid-summer 2009. Sequences of many protist taxa occurred throughout the water column at all sampling times, including in the deep anoxic layer where growth is highly unlikely. Furthermore, there were sequences for taxonomic groups including diatoms and marine taxa, which have never been observed in Lake A by microscopic analysis. However the sequences of other taxa such as ciliates, chrysophytes, Cercozoa and Telonema varied with depth, between years and during the transition to ice-free conditions. These results imply that there are seasonally active taxa in the surface waters of the lake that are sensitive to depth and change with time. DNA from these taxa is superimposed upon background DNA from multiple internal and external sources that is preserved in the deep, cold, largely anoxic water column.

  9. Comparative analysis of the intestinal bacterial and RNA viral communities from sentinel birds placed on selected broiler chicken farms.

    Science.gov (United States)

    Day, J Michael; Oakley, Brian B; Seal, Bruce S; Zsak, Laszlo

    2015-01-01

    There is a great deal of interest in characterizing the complex microbial communities in the poultry gut, and in understanding the effects of these dynamic communities on poultry performance, disease status, animal welfare, and microbes with human health significance. Investigations characterizing the poultry enteric virome have identified novel poultry viruses, but the roles these viruses play in disease and performance problems have yet to be fully characterized. The complex bacterial community present in the poultry gut influences gut development, immune status, and animal health, each of which can be an indicator of overall performance. The present metagenomic investigation was undertaken to provide insight into the colonization of specific pathogen free chickens by enteric microorganisms under field conditions and to compare the pre-contact intestinal microbiome with the altered microbiome following contact with poultry raised in the field. Analysis of the intestinal virome from contact birds ("sentinels") placed on farms revealed colonization by members of the Picornaviridae, Picobirnaviridae, Reoviridae, and Astroviridae that were not present in pre-contact birds or present in proportionally lower numbers. Analysis of the sentinel gut bacterial community revealed an altered community in the post-contact birds, notably by members of the Lachnospiracea/Clostridium and Lactobacillus families and genera. Members of the avian enteric Reoviridae and Astroviridae have been well-characterized and have historically been implicated in poultry enteric disease; members of the Picobirnaviridae and Picornaviridae have only relatively recently been described in the poultry and avian gut, and their roles in the recognized disease syndromes and in poultry performance in general have not been determined. This metagenomic analysis has provided insight into the colonization of the poultry gut by enteric microbes circulating in commercial broiler flocks, and has identified enteric viruses and virus communities that warrant further study in order to understand their role(s) in avian gut health and disease. PMID:25635690

  10. Waveforms and Sonic Boom Perception and Response (WSPR): Low-Boom Community Response Program Pilot Test Design, Execution, and Analysis

    Science.gov (United States)

    Page, Juliet A.; Hodgdon, Kathleen K.; Krecker, Peg; Cowart, Robbie; Hobbs, Chris; Wilmer, Clif; Koening, Carrie; Holmes, Theresa; Gaugler, Trent; Shumway, Durland L.; Rosenberger, James L.; Philips, Daisy

    2014-01-01

    The Waveforms and Sonic boom Perception and Response (WSPR) Program was designed to test and demonstrate the applicability and effectiveness of techniques to gather data relating human subjective response to multiple low-amplitude sonic booms. It was in essence a practice session for future wider scale testing on naive communities, using a purpose built low-boom demonstrator aircraft. The low-boom community response pilot experiment was conducted in California in November 2011. The WSPR team acquired sufficient data to assess and evaluate the effectiveness of the various physical and psychological data gathering techniques and analysis methods.

  11. Communities and beyond: mesoscopic analysis of a large social network with complementary methods

    CERN Document Server

    Tibely, Gergely; Kovanen, Lauri; Kaski, Kimmo; Kertesz, Janos; Saramaki, Jari

    2010-01-01

    Large complex networks show different levels of organization. At the mesoscopic scale communities are considered the most important structures that relate to system function but also other formations like trees or stars may appear. Communities are characterized as groups of nodes with dense internal and loose inter-group connectivity, but beyond this simple notion, even the definition of a community is a controversial issue. Numerous community detection methods have been proposed and assessed either on small empirical networks or larger synthetic benchmarks. However, little is known about their performance on large real-world networks and about the meaningfulness of the community structure they produce. Here we apply three community detection methods, Infomap, the Louvain method, and clique percolation to a large real-world social network based on mobile telephone calls and compare their results. Benchmarks are fabricated to capture only selected aspects of reality, while large empirical networks are much mor...

  12. Community-level analysis of psbA gene sequences and irgarol tolerance in marine periphyton

    OpenAIRE

    Eriksson, K. M.; Clarke, A. K.; Franzen, L. -g; Kuylenstierna, M.; Martinez Guijarro, Karell; Blanck, H.

    2009-01-01

    This study analyzes psbA gene sequences, predicted D1 protein sequences, species relative abundance, and pollution-induced community tolerance in marine periphyton communities exposed to the antifouling compound Irgarol 1051. The mechanism of action of Irgarol is the inhibition of photosynthetic electron transport at photosystem II by binding to the D1 protein. The metagenome of the communities was used to produce clone libraries containing fragments of the psbA gene encoding the D1 protein. ...

  13. Conceptual Analysis for the Strategic and Operational Knowledge Man-agement of a Port Community

    OpenAIRE

    Duran, Claudia; Cordova, Felisa

    2012-01-01

    Ports working in a network-community that is composed of a group of associative enterprises and logistic chains require managing their strategic and operational knowledge for achieving the efficiency of their activities at both levels. A conceptual model is presented that allows the development of a strategy for a port community through a strategic planning approach using operational knowledge. The different actors that participate in the community, their roles, and the main processes in whic...

  14. Context based Expert Finding in Online Communities using Social Network Analysis

    OpenAIRE

    Mojtaba Behzadi; Amin Omidvar; Kardan, Ahmad A.

    2012-01-01

    Nowadays, online communities are one of the most popular collaborative environments in the Internet where people are free to express their opinions. These communities provide facilities for knowledge sharing in which, people can share their experience with each other. The main problem regarding to the knowledge sharing on online communities is the wide range of information on them without any mechanism to determine their validity. So, for knowledge seekers, it is important to recognize the ex...

  15. Creating community action plans for obesity prevention using the ANGELO (Analysis Grid for Elements Linked to Obesity) Framework

    DEFF Research Database (Denmark)

    Simmons, A; Mavoa, H M

    2009-01-01

    Community-based interventions are an important component of obesity prevention efforts. The literature provides little guidance on priority-setting for obesity prevention in communities, especially for socially and culturally diverse populations. This paper reports on the process of developing prioritized, community-participatory action plans for obesity prevention projects in children and adolescents using the ANGELO (Analysis Grid for Elements Linked to Obesity) Framework. We combined stakeholder engagement processes, the ANGELO Framework (scans for environmental barriers, targeted behaviours, gaps in skills and knowledge) and workshops with key stakeholders to create action plans for six diverse obesity prevention projects in Australia (n = 3), New Zealand, Fiji and Tonga from 2002 to 2005. Some sites included sociocultural contextual analyses in the environmental scans. Target groups were under-5-year-olds (Australia), 4-12-year-olds (Australia) and 13-18-year-olds (all four countries). Over 120 potentialbehavioural, knowledge, skill and environmental elements were identified for prioritization leading into each 2-day workshop. Many elements were common across the diverse cultural communities; however, several unique sociocultural elements emerged in some cultural groups which informed their action plans. Youth were actively engaged in adolescent projects, allowing their needs to be incorporated into the action plans initiating the process of ownership. A common structure for the action plan promoted efficiencies in the process while allowing for community creativity and innovation. The ANGELO is a flexible and efficient way of achieving an agreed plan for obesity prevention with diverse communities. It is responsive to community needs, combines local and international knowledge and creates stakeholder ownership of the action plan.

  16. Regional inequalities in under-5 mortality in Nigeria: a population-based analysis of individual- and community-level determinants

    Directory of Open Access Journals (Sweden)

    Antai Diddy

    2011-03-01

    Full Text Available Abstract Background Regions with geographically diverse ecology and socioeconomic circumstances may have different disease exposures and child health outcomes. This study assessed variations in the risks of death in children under age 5 across regions of Nigeria and determined characteristics at the individual and community levels that explain possible variations among regions. Methods Multilevel Cox proportional hazards analysis was performed using a nationally representative sample of 6,029 children from 2,735 mothers aged 15-49 years and nested within 365 communities from the 2003 Nigeria Demographic and Health Survey. Hazard ratios (HR with 95% confidence intervals (CI were used to express measures of association among the characteristics. Variance partition coefficients and Wald statistic were used to express measures of variation. Results Patterns of under-5 mortality cluster within families and communities. The risks of under-5 deaths were significantly higher for children of mothers residing in the South South (Niger Delta region (HR: 1.30; 95% CI: 1.76-2.20 and children of mothers residing in communities with a low proportion of mothers attending prenatal care by a doctor (HR: 1.36; 95% CI: 1.15-1.86. In addition, the cross-level interaction between mothers' education and community prenatal care by a doctor was associated with a more than 40% higher risk of dying (HR: 1.41; 95% CI: 1.21-1.78. Conclusion The findings suggest the need to differentially focus on community-level interventions aimed at increasing maternal and child health care utilization and improving the socioeconomic position of mothers, especially in disadvantaged regions such as the South South (Niger Delta region. Further studies on community-levels determinants of under-5 mortality are needed.

  17. Phylogenetic Analysis and In Situ Identification of Bacteria Community Composition in an Acidic Sphagnum Peat Bog†

    Science.gov (United States)

    Dedysh, Svetlana N.; Pankratov, Timofei A.; Belova, Svetlana E.; Kulichevskaya, Irina S.; Liesack, Werner

    2006-01-01

    The Bacteria community composition in an acidic Sphagnum peat bog (pH 3.9 to 4.5) was characterized by a combination of 16S rRNA gene clone library analysis, rRNA-targeted fluorescence in situ hybridization (FISH), and cultivation. Among 84 environmental 16S rRNA gene clones, a set of only 16 cloned sequences was closely related (?95% similarity) to taxonomically described organisms. Main groups of clones were affiliated with the Acidobacteria (24 clones), Alphaproteobacteria (20), Verrucomicrobia (13), Actinobacteria (8), Deltaproteobacteria (4), Chloroflexi (3), and Planctomycetes (3). The proportion of cells that hybridized with oligonucleotide probes specific for members of the domains Bacteria (EUB338-mix) and Archaea (ARCH915 and ARC344) accounted for only 12 to 22% of the total cell counts. Up to 24% of the EUB338-positive cells could be assigned by FISH to specific bacterial phyla. Alphaproteobacteria and Planctomycetes were the most numerous bacterial groups (up to 1.3 × 107 and 1.1 × 107 cells g?1 peat, respectively). In contrast to conventional plating techniques, a novel biofilm-mediated enrichment approach allowed us to isolate some representatives of predominant Bacteria groups, such as Acidobacteria and Planctomycetes. This novel strategy has great potential to enable the isolation of a significant proportion of the peat bog bacterial diversity. PMID:16517660

  18. Phylogenetic analysis and in situ identification of bacteria community composition in an acidic Sphagnum peat bog.

    Science.gov (United States)

    Dedysh, Svetlana N; Pankratov, Timofei A; Belova, Svetlana E; Kulichevskaya, Irina S; Liesack, Werner

    2006-03-01

    The Bacteria community composition in an acidic Sphagnum peat bog (pH 3.9 to 4.5) was characterized by a combination of 16S rRNA gene clone library analysis, rRNA-targeted fluorescence in situ hybridization (FISH), and cultivation. Among 84 environmental 16S rRNA gene clones, a set of only 16 cloned sequences was closely related (>or=95% similarity) to taxonomically described organisms. Main groups of clones were affiliated with the Acidobacteria (24 clones), Alphaproteobacteria (20), Verrucomicrobia (13), Actinobacteria (8), Deltaproteobacteria (4), Chloroflexi (3), and Planctomycetes (3). The proportion of cells that hybridized with oligonucleotide probes specific for members of the domains Bacteria (EUB338-mix) and Archaea (ARCH915 and ARC344) accounted for only 12 to 22% of the total cell counts. Up to 24% of the EUB338-positive cells could be assigned by FISH to specific bacterial phyla. Alphaproteobacteria and Planctomycetes were the most numerous bacterial groups (up to 1.3x10(7) and 1.1x10(7) cells g-1 peat, respectively). In contrast to conventional plating techniques, a novel biofilm-mediated enrichment approach allowed us to isolate some representatives of predominant Bacteria groups, such as Acidobacteria and Planctomycetes. This novel strategy has great potential to enable the isolation of a significant proportion of the peat bog bacterial diversity. PMID:16517660

  19. Phospholipid Fatty Acid Analysis of Algal Communities in the San Luis Drain, California

    Science.gov (United States)

    Borglin, S. E.; Stringfellow, W. T.; Hanlon, J. S.

    2005-12-01

    Algal, bacterial, and zooplankton biomass and species diversity were examined by measuring phospholipid fatty acid (PLFA) in water samples along the San Luis Drain in the San Joaquin Valley of California. Algal growth has been has been identified as a major cause of the degradation of water quality in the San Joaquin River. The San Luis Drain is a concrete lined channel than transports agricultural drainage water from the west side of the San Joaquin Valley to the San Joaquin River. Understanding the growth of algae in the San Luis Drain, a potential major input of algae into the San Joaquin River, is central in understanding potential algal control measures for this region. Samples were taken along the length of the drain in early, mid and late summer. Signature fatty acids were used to understand the ecology of algal and zooplankton through total lipid analysis and by analyzing shifts in PLFA composition. It was found that lipids associated with algal growth were highly correlated with chlorophyll measurements, and dips in the chlorophyll concentration corresponded to an increase in zooplankton lipids. Algal community structure was relatively constant along the drain during a sampling event but shifted significantly between sampling event through the summer season.

  20. Collaboration among missouri nonprofit hospitals and local health departments: content analysis of community health needs assessments.

    Science.gov (United States)

    Beatty, Kate E; Wilson, Kristin D; Ciecior, Amanda; Stringer, Lisa

    2015-04-01

    Objectives. We identified the levels of joint action that led to collaboration between hospitals and local health departments (LHDs) using the hospital's community health needs assessments (CHNAs). Methods. In 2014, we conducted a content analysis of Missouri nonprofit hospitals (n?=?34) CHNAs, and identified hospitals based on previously reported collaboration with LHDs. We coded the content according to the level of joint action. A comparison sample (n?=?50) of Missouri nonprofit hospitals provided the basic comparative information on hospital characteristics. Results. Among the hospitals identified by LHDs, 20.6% were "networking," 20.6% were "coordinating," 38.2% were "cooperating," and 2.9% were "collaborating." Almost 18% of study hospitals had no identifiable level of joint action with LHDs based on their CHNAs. In addition, comparison hospitals were more often part of a larger system (74%) compared with study hospitals (52.9%). Conclusions. The results of our study helped develop a better understanding of levels of joint action from a hospital perspective. Our results might assist hospitals and LHDs in making more informed decisions about efficient deployment of resources for assessment processes and implementation plans. PMID:25689184

  1. Connecting subsistence harvest and marine ecology: A cluster analysis of communities by fishing and hunting patterns

    Science.gov (United States)

    Renner, Martin; Huntington, Henry P.

    2014-11-01

    Alaska Native subsistence hunters and fishers are engaged in environmental sampling, influenced by harvest technology and cultural preferences as well as biogeographical factors. We compared subsistence harvest patterns in 35 communities along the Bering, Chukchi, and Beaufort coasts of Alaska to identify affinities and groupings, and to compare those results with previous ecological analyses done for the same region. We used hierarchical cluster analysis to reveal spatial patterns in subsistence harvest records of coastal Alaska Native villages from the southern Bering Sea to the Beaufort Sea. Three main clusters were identified, correlating strongly with geography. The main division separates coastal villages of western Alaska from arctic villages along the northern Chukchi and Beaufort Seas and on islands of the Bering Sea. K-means groupings corroborate this result, with some differences. The second node splits the arctic villages, along the Chukchi, Beaufort and northern Bering Seas, where marine mammals dominate the harvest, from those on islands of the Bering Sea, characterized by seabird and seal harvests. These patterns closely resemble eco-regions proposed on biological grounds. Biogeography thus appears to be a significant factor in groupings by harvest characteristics, suggesting that subsistence harvests are a viable form of ecosystem sampling.

  2. Environmental factors controlling lake diatom communities: a meta-analysis of published data

    Science.gov (United States)

    Blanco, S.

    2014-11-01

    Diatoms play a key role in the development of quantitative methods for environmental reconstruction in lake ecosystems. Diatom-based calibration datasets developed during the last decades allow the inference of past limnological variables such as TP, pH or conductivity and provide information on the autecology and distribution of diatom taxa. However, little is known about the relationships between diatoms and climatic or geographic factors. The response of surface sediment diatom assemblages to abiotic factors is usually examined using canonical correspondence analysis (CCA) and subsequent forward selection of variables based on Monte Carlo permutation tests that show the set of predictors best explaining the distributions of diatom species. The results reported in 40 previous studies using this methodology in different regions of the world are re-analyzed in this paper. Bi- and multivariate statistics (canonical correlation and two-block partial least-squares) were used to explore the correspondence between physical, chemical and physiographical factors and the variables that explain most of the variance in the diatom datasets. Results show that diatom communities respond mainly to chemical variables (pH, nutrients) with lake depth being the most important physiographical factor. However, the relative importance of certain parameters varied along latitudinal and trophic gradients. Canonical analyses demonstrated a strong concordance with regard to the predictor variables and the amount of variance they captured, suggesting that, on a broad scale, lake diatoms give a robust indication of past and present environmental conditions.

  3. Molecular Analysis of the Microbial Communities of Mars Analog Lakes in Western Australia

    Science.gov (United States)

    Mormile, Melanie R.; Hong, Bo-Young; Benison, Kathleen C.

    2009-12-01

    Unique, shallow interdune lakes and groundwaters with extremely low pH and high salinity exist in Australia, along with nearby lakes that possess higher pH values. These acidic hypersaline environments are possibly the best modern terrestrial analogues for past martian environments. However, no previous microbiological analyses of these lakes have been conducted. During the Australian winter of 2005, water samples were taken from several hypersaline lakes located in southern Western Australia that possessed acidic to slightly alkaline pH. These samples were subjected to molecular analysis to identify bacterial communities. DNA extraction and polymerase chain reaction (PCR) amplification of the 16S rRNA gene sequences, by using universal bacterial primers, were also performed on the samples. Extracted DNA was amplified with 1070 forward and 1392 GC-clamped reverse primers and analyzed by using denaturant gradient gel electrophoresis (DGGE). In addition, libraries were developed from DNA retrieved from four lakes, including a marginal marine neutral lake, an inland neutral lake, and two inland acid lakes, and selected clones with distinct operational taxonomic units were sequenced. The DGGE profiles and clone sequence data indicate that there are distinct, abundant, and diverse microbial populations in these Australian hypersaline environments, especially the acidic ones. These results are significant for two reasons: (1) they provide the first microbiological survey of natural acid saline lakes and (2) they hint at the possibility that there could have been a diverse microbial population in acidic hypersaline environments on Mars.

  4. Uncovering allosteric pathways in caspase-1 using Markov transient analysis and multiscale community detection.

    Science.gov (United States)

    Amor, B; Yaliraki, S N; Woscholski, R; Barahona, M

    2014-08-01

    Allosteric regulation at distant sites is central to many cellular processes. In particular, allosteric sites in proteins are major targets to increase the range and selectivity of new drugs, and there is a need for methods capable of identifying intra-molecular signalling pathways leading to allosteric effects. Here, we use an atomistic graph-theoretical approach that exploits Markov transients to extract such pathways and exemplify our results in an important allosteric protein, caspase-1. Firstly, we use Markov stability community detection to perform a multiscale analysis of the structure of caspase-1 which reveals that the active conformation has a weaker, less compartmentalised large-scale structure compared to the inactive conformation, resulting in greater intra-protein coherence and signal propagation. We also carry out a full computational point mutagenesis and identify that only a few residues are critical to such structural coherence. Secondly, we characterise explicitly the transients of random walks originating at the active site and predict the location of a known allosteric site in this protein quantifying the contribution of individual bonds to the communication pathway between the active and allosteric sites. Several of the bonds we identify have been shown experimentally to be functionally critical, but we also predict a number of as yet unidentified bonds which may contribute to the pathway. Our approach offers a computationally inexpensive method for the identification of allosteric sites and communication pathways in proteins using a fully atomistic description. PMID:24947802

  5. Environmental factors controlling lake diatom communities: a meta-analysis of published data

    Directory of Open Access Journals (Sweden)

    S. Blanco

    2014-11-01

    Full Text Available Diatoms play a key role in the development of quantitative methods for environmental reconstruction in lake ecosystems. Diatom-based calibration datasets developed during the last decades allow the inference of past limnological variables such as TP, pH or conductivity and provide information on the autecology and distribution of diatom taxa. However, little is known about the relationships between diatoms and climatic or geographic factors. The response of surface sediment diatom assemblages to abiotic factors is usually examined using canonical correspondence analysis (CCA and subsequent forward selection of variables based on Monte Carlo permutation tests that show the set of predictors best explaining the distributions of diatom species. The results reported in 40 previous studies using this methodology in different regions of the world are re-analyzed in this paper. Bi- and multivariate statistics (canonical correlation and two-block partial least-squares were used to explore the correspondence between physical, chemical and physiographical factors and the variables that explain most of the variance in the diatom datasets. Results show that diatom communities respond mainly to chemical variables (pH, nutrients with lake depth being the most important physiographical factor. However, the relative importance of certain parameters varied along latitudinal and trophic gradients. Canonical analyses demonstrated a strong concordance with regard to the predictor variables and the amount of variance they captured, suggesting that, on a broad scale, lake diatoms give a robust indication of past and present environmental conditions.

  6. Building a Community Infrastructure for Scalable On-Line Performance Analysis Tools around Open|Speedshop

    Energy Technology Data Exchange (ETDEWEB)

    Miller, Barton

    2014-06-30

    Peta-scale computing environments pose significant challenges for both system and application developers and addressing them required more than simply scaling up existing tera-scale solutions. Performance analysis tools play an important role in gaining this understanding, but previous monolithic tools with fixed feature sets have not sufficed. Instead, this project worked on the design, implementation, and evaluation of a general, flexible tool infrastructure supporting the construction of performance tools as “pipelines” of high-quality tool building blocks. These tool building blocks provide common performance tool functionality, and are designed for scalability, lightweight data acquisition and analysis, and interoperability. For this project, we built on Open|SpeedShop, a modular and extensible open source performance analysis tool set. The design and implementation of such a general and reusable infrastructure targeted for petascale systems required us to address several challenging research issues. All components needed to be designed for scale, a task made more difficult by the need to provide general modules. The infrastructure needed to support online data aggregation to cope with the large amounts of performance and debugging data. We needed to be able to map any combination of tool components to each target architecture. And we needed to design interoperable tool APIs and workflows that were concrete enough to support the required functionality, yet provide the necessary flexibility to address a wide range of tools. A major result of this project is the ability to use this scalable infrastructure to quickly create tools that match with a machine architecture and a performance problem that needs to be understood. Another benefit is the ability for application engineers to use the highly scalable, interoperable version of Open|SpeedShop, which are reassembled from the tool building blocks into a flexible, multi-user interface set of tools. This set of tools targeted at Office of Science Leadership Class computer systems and selected Office of Science application codes. We describe the contributions made by the team at the University of Wisconsin. The project built on the efforts in Open|SpeedShop funded by DOE/NNSA and the DOE/NNSA Tri-Lab community, extended Open|Speedshop to the Office of Science Leadership Class Computing Facilities, and addressed new challenges found on these cutting edge systems. Work done under this project at Wisconsin can be divided into two categories, new algorithms and techniques for debugging, and foundation infrastructure work on our Dyninst binary analysis and instrumentation toolkits and MRNet scalability infrastructure.

  7. Community Colleges and Market Responsiveness: A Conceptual Analysis and Proposed Model

    Science.gov (United States)

    Adams, Jimmy L.; Edmonson, Stacey L.; Slate, John R.

    2013-01-01

    In this article, we explore the functions of the traditional community college and its expanding mission in regard to its responsiveness to changing economic conditions and workforce development needs. To date, few researchers have specifically addressed market responsiveness in community college settings across the United States. In addition, we…

  8. Demographic and Market Alternatives Analysis for Foothill-De Anza Community College District.

    Science.gov (United States)

    Lucas, Jim

    This report presents and analyzes data on the demographics of the Foothill-De Anza Community College District (FDCCD) and suggests four alternatives for meeting existing community needs. After a summary of findings and recommendations, data tables and accompanying text focus on: (1) population projections by age; (2) household size trends and…

  9. Analysis of Departmental Functions: The Department of Staff and Instructional Services, Houston Community College System.

    Science.gov (United States)

    Walke, Jean

    The Department of Staff and Instructional Services (SIS) in the Houston Community College System (HCCS) takes a leadership role in providing and promoting products and services required to empower the HCCS in the pursuit of quality service to the campus community. The goals of the SIS department are to adopt Total Quality Service orientation,…

  10. Spatial organization and drivers of the virtual water trade: a community-structure analysis

    Science.gov (United States)

    D'Odorico, Paolo; Carr, Joel; Laio, Francesco; Ridolfi, Luca

    2012-09-01

    The trade of agricultural commodities can be associated with a virtual transfer of the local freshwater resources used for the production of these goods. Thus, trade of food products virtually transfers large amounts of water from areas of food production to far consumption regions, a process termed the ‘globalization of water’. We consider the (time-varying) community structure of the virtual water network for the years 1986-2008. The communities are groups of countries with dense internal connections, while the connections are sparser among different communities. Between 1986 and 2008, the ratio between virtual water flows within communities and the total global trade of virtual water has continuously increased, indicating the existence of well defined clusters of virtual water transfers. In some cases (e.g. Central and North America and Europe in recent years) the virtual water communities correspond to geographically coherent regions, suggesting the occurrence of an ongoing process of regionalization of water resources. However, most communities also include countries located on different ‘sides’ of the world. As such, geographic proximity only partly explains the community structure of virtual water trade. Similarly, the global distribution of people and wealth, whose effect on the virtual water trade is expressed through simple ‘gravity models’, is unable to explain the strength of virtual water communities observed in the past few decades. A gravity model based on the availability of and demand for virtual water in different countries has higher explanatory power, but the drivers of the virtual water fluxes are yet to be adequately identified.

  11. An Analysis of Dialogistic Presence on Community College Web Sites in Nine Mega-States

    Science.gov (United States)

    Shadinger, David Allen

    2010-01-01

    The institutional web site is ubiquitous and has emerged as nearly universal in its utilization as a recruiting and informational tool for the twenty-first century community college. Community colleges have embraced utilization of the Internet through the establishment of institutional web sites containing volumes of information, forms, and links.…

  12. A Longitudinal Analysis of Satisfaction with Selected Community Services in a Non-Metropolitan Area.

    Science.gov (United States)

    Purohit, Sally R.; Molnar, Joseph J.

    Longitudinal changes in satisfaction with selected community services were examined in three nonmetropolitan counties in central Alabama, focusing on variation in changes across three groups (government officials, business leaders, household respondents) and on the relation of changes in satisfaction for individual services to overall community

  13. Community Satisfaction and Social Integration in a Boomtown: A Longitudinal Analysis.

    Science.gov (United States)

    Brown, Ralph B.; And Others

    1989-01-01

    Four community surveys in the boomtown Delta, Utah, 1975-86, revealed that, while some social disruption occurred during rapid growth years, even greater changes occurred in anticipation of the boom. Community satisfaction and social attachment did not recover when the boom was over. Contains 37 references. (SV)

  14. Supercritical Fluid Extraction and Ultra Performance Liquid Chromatography of Respiratory Quinones for Microbial Community Analysis in Environmental and Biological Samples

    Directory of Open Access Journals (Sweden)

    Koichi Fujie

    2012-03-01

    Full Text Available Microbial community structure plays a significant role in environmental assessment and animal health management. The development of a superior analytical strategy for the characterization of microbial community structure is an ongoing challenge. In this study, we developed an effective supercritical fluid extraction (SFE and ultra performance liquid chromatography (UPLC method for the analysis of bacterial respiratory quinones (RQ in environmental and biological samples. RQ profile analysis is one of the most widely used culture-independent tools for characterizing microbial community structure. A UPLC equipped with a photo diode array (PDA detector was successfully applied to the simultaneous determination of ubiquinones (UQ and menaquinones (MK without tedious pretreatment. Supercritical carbon dioxide (scCO2 extraction with the solid-phase cartridge trap proved to be a more effective and rapid method for extracting respiratory quinones, compared to a conventional organic solvent extraction method. This methodology leads to a successful analytical procedure that involves a significant reduction in the complexity and sample preparation time. Application of the optimized methodology to characterize microbial communities based on the RQ profile was demonstrated for a variety of environmental samples (activated sludge, digested sludge, and compost and biological samples (swine and Japanese quail feces.

  15. Development and confirmatory factor analysis of the community norms of child neglect scale.

    Science.gov (United States)

    Goodvin, Rebecca; Johnson, David R; Hardy, Sam A; Graef, Michelle I; Chambers, Jeff M

    2007-02-01

    This article describes the development of the Community Norms of Child Neglect Scale (CNCNS), a new measure of perceptions of child neglect, for use in community samples. The CNCNS differentiates among four subtypes of neglect (failure to provide for basic needs, lack of supervision, emotional neglect, and educational neglect). Scenarios ranging in seriousness for each subtype were presented to a large community sample (N = 3,809). Confirmatory factor analyses indicated that a four-factor model provided a better fit to the data than did a model specifying only one overall neglect factor, suggesting this sample distinguished among the four subtypes of neglect. The authors tested measurement equivalence across individuals who work with children and lay community respondents and across rural and urban respondents, with results indicating a very similar structure across these groups. These initial reliability and validity data suggest that the CNCNS may be of use in comparing perceptions of child neglect among individuals and across communities. PMID:17218649

  16. Conceptual Analysis for the Strategic and Operational Knowledge Man-agement of a Port Community

    Directory of Open Access Journals (Sweden)

    Claudia DURAN

    2012-01-01

    Full Text Available Ports working in a network-community that is composed of a group of associative enterprises and logistic chains require managing their strategic and operational knowledge for achieving the efficiency of their activities at both levels. A conceptual model is presented that allows the development of a strategy for a port community through a strategic planning approach using operational knowledge. The different actors that participate in the community, their roles, and the main processes in which they participate are characterized. Then the vision and the mission of the community, and the strategic objectives in the four perspectives of the Balanced Scorecard: financial, clients, processes, and learning and growth, are defined. Finally, a set of indicators oriented toward the knowledge management of the main actors participating in the community is designed.

  17. Response of soybean rhizosphere communities to human hygiene water addition as determined by community level physiological profiling (CLPP) and terminal restriction fragment length polymorphism (TRFLP) analysis

    Science.gov (United States)

    Kerkhof, L.; Santoro, M.; Garland, J.

    2000-01-01

    In this report, we describe an experiment conducted at Kennedy Space Center in the biomass production chamber (BPC) using soybean plants for purification and processing of human hygiene water. Specifically, we tested whether it was possible to detect changes in the root-associated bacterial assemblage of the plants and ultimately to identify the specific microorganism(s) which differed when plants were exposed to hygiene water and other hydroponic media. Plants were grown in hydroponics media corresponding to four different treatments: control (Hoagland's solution), artificial gray water (Hoagland's+surfactant), filtered gray water collected from human subjects on site, and unfiltered gray water. Differences in rhizosphere microbial populations in all experimental treatments were observed when compared to the control treatment using both community level physiological profiles (BIOLOG) and molecular fingerprinting of 16S rRNA genes by terminal restriction fragment length polymorphism analysis (TRFLP). Furthermore, screening of a clonal library of 16S rRNA genes by TRFLP yielded nearly full length SSU genes associated with the various treatments. Most 16S rRNA genes were affiliated with the Klebsiella, Pseudomonas, Variovorax, Burkholderia, Bordetella and Isosphaera groups. This molecular approach demonstrated the ability to rapidly detect and identify microorganisms unique to experimental treatments and provides a means to fingerprint microbial communities in the biosystems being developed at NASA for optimizing advanced life support operations.

  18. Constructing ecological interaction networks by correlation analysis: hints from community sampling

    Directory of Open Access Journals (Sweden)

    WenJun Zhang

    2011-09-01

    Full Text Available A set of methodology for constructing ecological interaction networks by correlation analysis of community sampling data was presented in this study. Nearly 30 data sets at different levels of taxa for different sampling seasons and locations were used to construct networks and find network properties. I defined the network constructed by Pearson linear correlation is the linear network, and the network constructed by quasi-linear correlation measure (e.g., Spearman correlation is the quasi-linear network. Two taxa with statistically significant linear or quasi-linear correlation are determined to interact. The quasi-linear network is more general than linear network.The results reveled that correlation distributions of Pearson linear correlation and partial linear correlation constructed networks are unimodal functions and most of them are short-head (mostly negative correlations and long-tailed (mostly positive correlations. Spearman correlation distributions are either long-head and short-tailed unimodal functions or monotonically increasing functions. It was found that both mean partial linear correlation and mean Pearson linear correlation were approximately 0. The proportion of positive (partial linear correlations declined significantly with the increase in taxa. The mean (partial linear correlation declined significantly with the increase of taxa. More than 90% of network interactions are positive interactions. The average connectance was 9.8% (9.3% for (partial linear correlation constructed network. The parameter ? in power low distribution (L(x=x-? increased as the decline of taxon level (from functional group to species for the partial linear correlation constructed network. ? is in average 0.8 to 0.9. The number of (positive interactions increased with the number of taxa for both linear and partial linear correlations constructed networks. The addition of a taxon would result in an increase of 0.4 (0.3 interactions (positive interactions in the partial linear correlation constructed network. And the addition of a taxon would result in an increase of 3 interactions (positive interactions in the linear correlation constructed network. For partial linear correlation constructed network, the network connectance decreased as the number of taxa. The constant connectance hypothesis did not hold for our networks. It was found that network structure changed with season and location. The same taxon in the network would connect to different taxa as the change of season and location. A higher level of species aggregation may used to find a more stable network structure. Positive interactions were considered to be caused mainly by mutualism, predation/parasitism, etc. the number and portion of positive interactions may be the most important indices for community stability and functionality. Mutualism is the most significant trophic relationship, seconded by predation/parasitism, and competition is the worst for community stability.

  19. ClimatePipes: User-Friendly Data Access, Manipulation, Analysis & Visualization of Community Climate Models

    Science.gov (United States)

    Chaudhary, A.; DeMarle, D.; Burnett, B.; Harris, C.; Silva, W.; Osmari, D.; Geveci, B.; Silva, C.; Doutriaux, C.; Williams, D. N.

    2013-12-01

    The impact of climate change will resonate through a broad range of fields including public health, infrastructure, water resources, and many others. Long-term coordinated planning, funding, and action are required for climate change adaptation and mitigation. Unfortunately, widespread use of climate data (simulated and observed) in non-climate science communities is impeded by factors such as large data size, lack of adequate metadata, poor documentation, and lack of sufficient computational and visualization resources. We present ClimatePipes to address many of these challenges by creating an open source platform that provides state-of-the-art, user-friendly data access, analysis, and visualization for climate and other relevant geospatial datasets, making the climate data available to non-researchers, decision-makers, and other stakeholders. The overarching goals of ClimatePipes are: - Enable users to explore real-world questions related to climate change. - Provide tools for data access, analysis, and visualization. - Facilitate collaboration by enabling users to share datasets, workflows, and visualization. ClimatePipes uses a web-based application platform for its widespread support on mainstream operating systems, ease-of-use, and inherent collaboration support. The front-end of ClimatePipes uses HTML5 (WebGL, Canvas2D, CSS3) to deliver state-of-the-art visualization and to provide a best-in-class user experience. The back-end of the ClimatePipes is built around Python using the Visualization Toolkit (VTK, http://vtk.org), Climate Data Analysis Tools (CDAT, http://uv-cdat.llnl.gov), and other climate and geospatial data processing tools such as GDAL and PROJ4. ClimatePipes web-interface to query and access data from remote sources (such as ESGF). Shown in the figure is climate data layer from ESGF on top of map data layer from OpenStreetMap. The ClimatePipes workflow editor provides flexibility and fine grained control, and uses the VisTrails (http://www.vistrails.org) workflow engine in the backend.

  20. Phylogenetic Analysis of a Spontaneous Cocoa Bean Fermentation Metagenome Reveals New Insights into Its Bacterial and Fungal Community Diversity

    OpenAIRE

    Illeghems, Koen; Vuyst, Luc; Papalexandratou, Zoi; Weckx, Stefan

    2012-01-01

    This is the first report on the phylogenetic analysis of the community diversity of a single spontaneous cocoa bean box fermentation sample through a metagenomic approach involving 454 pyrosequencing. Several sequence-based and composition-based taxonomic profiling tools were used and evaluated to avoid software-dependent results and their outcome was validated by comparison with previously obtained culture-dependent and culture-independent data. Overall, this approach revealed a wider bacter...

  1. Spontaneous Communities of Learning: A Social Analysis of Learning Ecosystems in Massively Multiplayer Online Gaming (MMOG) Environments

    OpenAIRE

    Galarneau, Lisa

    2005-01-01

    This research project is comprised of a cross-cultural ethnography and social network analysis that seeks to illuminate the spontaneous communities of learning/practice that emerge around the relatively recent phenomenon of massively multiplayer online games. While these games can be played individually to greater or lesser degrees depending on the game, the game play mechanics are generally such that true mastery of the game can often only be achieved by working collaboratively with other pl...

  2. Regional inequalities in under-5 mortality in Nigeria: a population-based analysis of individual- and community-level determinants

    OpenAIRE

    Antai Diddy

    2011-01-01

    Abstract Background Regions with geographically diverse ecology and socioeconomic circumstances may have different disease exposures and child health outcomes. This study assessed variations in the risks of death in children under age 5 across regions of Nigeria and determined characteristics at the individual and community levels that explain possible variations among regions. Methods Multilevel Cox proportional hazards analysis was performed using a nationally representative sample of 6,029...

  3. Supportive Environments for Physical Activity, Community Action and Policy in Eight EU Member States : Comparative Analysis and Specificities of Context

    DEFF Research Database (Denmark)

    Ruetten, Alfred; Frahsa, Annika

    2014-01-01

    BACKGROUND: A multi-level theoretical framework of physical activity (PA) promotion that addresses supportive environments, PA behavior, community action and PA promoting policies is related to research and development in an international comparative study. METHODS: Most-different and most-similar case selection was applied to data from eight EU Member States. Data from semi-structured key informant qualitative interviews, focus group interviews with experts and policy-makers, as well as document analysis were linked to corresponding Eurobarometer data. RESULTS AND DISCUSSION: The framework on the interplay of environment, PA behavior, community action and policies appears to be working across most different countries. Comprehensive systems of PA infrastructures are interlinked with relatively high levels of PA prevalence. These countries implement comprehensive national policies on PA promotion and show a positive perception of related local governments' engagement. Less comprehensive systems of infrastructures interplay with lower levels of PA prevalence, less community action and fewer policies. Differences between similar cases are linked to country-specific contexts. CONCLUSIONS: Framework application and comparative analysis indicates how to relate theory to empirical research and complex data sets. In-depth analysis of country-specific contexts and longitudinal observation on changes within and between countries might advise on how to integrate the framework into intervention research.

  4. Determinants of participation restriction among community dwelling stroke survivors: A path analysis

    Directory of Open Access Journals (Sweden)

    Chang Anne M

    2009-09-01

    Full Text Available Abstract Background Apart from promoting physical recovery and assisting in activities of daily living, a major challenge in stroke rehabilitation is to minimize psychosocial morbidity and to promote the reintegration of stroke survivors into their family and community. The identification of key factors influencing long-term outcome are essential in developing more effective rehabilitation measures for reducing stroke-related morbidity. The aim of this study was to test a theoretical model of predictors of participation restriction which included the direct and indirect effects between psychosocial outcomes, physical outcome, and socio-demographic variables at 12 months after stroke. Methods Data were collected from 188 stroke survivors at 12 months following their discharge from one of the two rehabilitation hospitals in Hong Kong. The settings included patients' homes and residential care facilities. Path analysis was used to test a hypothesized model of participation restriction at 12 months. Results The path coefficients show functional ability having the largest direct effect on participation restriction (? = 0.51. The results also show that more depressive symptoms (? = -0.27, low state self-esteem (? = 0.20, female gender (? = 0.13, older age (? = -0.11 and living in a residential care facility (? = -0.12 have a direct effect on participation restriction. The explanatory variables accounted for 71% of the variance in explaining participation restriction at 12 months. Conclusion Identification of stroke survivors at risk of high levels of participation restriction, depressive symptoms and low self-esteem will assist health professionals to devise appropriate rehabilitation interventions that target improving both physical and psychosocial functioning.

  5. Metagenomic analysis of the bacterial community associated with the taproot of sugar beet.

    Science.gov (United States)

    Tsurumaru, Hirohito; Okubo, Takashi; Okazaki, Kazuyuki; Hashimoto, Megumi; Kakizaki, Kaori; Hanzawa, Eiko; Takahashi, Hiroyuki; Asanome, Noriyuki; Tanaka, Fukuyo; Sekiyama, Yasuyo; Ikeda, Seishi; Minamisawa, Kiwamu

    2015-03-24

    We analyzed a metagenome of the bacterial community associated with the taproot of sugar beet (Beta vulgaris L.) in order to investigate the genes involved in plant growth-promoting traits (PGPTs), namely 1-aminocyclopropane-1-carboxylic acid (ACC) deaminase, indole acetic acid (IAA), N2 fixation, phosphate solubilization, pyrroloquinoline quinone, siderophores, and plant disease suppression as well as methanol, sucrose, and betaine utilization. The most frequently detected gene among the PGPT categories encoded ?-1,3-glucanase (18 per 10(5) reads), which plays a role in the suppression of plant diseases. Genes involved in phosphate solubilization (e.g., for quinoprotein glucose dehydrogenase), methanol utilization (e.g., for methanol dehydrogenase), siderophore production (e.g. isochorismate pyruvate lyase), and ACC deaminase were also abundant. These results suggested that such PGPTs are crucially involved in supporting the growth of sugar beet. In contrast, genes for IAA production (iaaM and ipdC) were less abundant (~1 per 10(5) reads). N2 fixation genes (nifHDK) were not detected; bacterial N2 -fixing activity was not observed in the (15)N2 -feeding experiment. An analysis of nitrogen metabolism suggested that the sugar beet microbiome mainly utilized ammonium and nitroalkane as nitrogen sources. Thus, N2 fixation and IAA production did not appear to contribute to sugar beet growth. Taxonomic assignment of this metagenome revealed the high abundance of Mesorhizobium, Bradyrhizobium, and Streptomyces, suggesting that these genera have ecologically important roles in the taproot of sugar beet. Bradyrhizobium-assigned reads in particular were found in almost all categories of dominant PGPTs with high abundance. The present study revealed the characteristic functional genes in the taproot-associated microbiome of sugar beet, and suggest the opportunity to select sugar beet growth-promoting bacteria. PMID:25740621

  6. Metagenomic Analysis of the Bacterial Community Associated with the Taproot of Sugar Beet

    Science.gov (United States)

    Tsurumaru, Hirohito; Okubo, Takashi; Okazaki, Kazuyuki; Hashimoto, Megumi; Kakizaki, Kaori; Hanzawa, Eiko; Takahashi, Hiroyuki; Asanome, Noriyuki; Tanaka, Fukuyo; Sekiyama, Yasuyo; Ikeda, Seishi; Minamisawa, Kiwamu

    2015-01-01

    We analyzed a metagenome of the bacterial community associated with the taproot of sugar beet (Beta vulgaris L.) in order to investigate the genes involved in plant growth-promoting traits (PGPTs), namely 1-aminocyclopropane-1-carboxylic acid (ACC) deaminase, indole acetic acid (IAA), N2 fixation, phosphate solubilization, pyrroloquinoline quinone, siderophores, and plant disease suppression as well as methanol, sucrose, and betaine utilization. The most frequently detected gene among the PGPT categories encoded ?-1,3-glucanase (18 per 105 reads), which plays a role in the suppression of plant diseases. Genes involved in phosphate solubilization (e.g., for quinoprotein glucose dehydrogenase), methanol utilization (e.g., for methanol dehydrogenase), siderophore production (e.g. isochorismate pyruvate lyase), and ACC deaminase were also abundant. These results suggested that such PGPTs are crucially involved in supporting the growth of sugar beet. In contrast, genes for IAA production (iaaM and ipdC) were less abundant (~1 per 105 reads). N2 fixation genes (nifHDK) were not detected; bacterial N2 -fixing activity was not observed in the 15N2 -feeding experiment. An analysis of nitrogen metabolism suggested that the sugar beet microbiome mainly utilized ammonium and nitroalkane as nitrogen sources. Thus, N2 fixation and IAA production did not appear to contribute to sugar beet growth. Taxonomic assignment of this metagenome revealed the high abundance of Mesorhizobium, Bradyrhizobium, and Streptomyces, suggesting that these genera have ecologically important roles in the taproot of sugar beet. Bradyrhizobium-assigned reads in particular were found in almost all categories of dominant PGPTs with high abundance. The present study revealed the characteristic functional genes in the taproot-associated microbiome of sugar beet, and suggest the opportunity to select sugar beet growth-promoting bacteria. PMID:25740621

  7. Multi-scale analysis of the European airspace using network community detection

    CERN Document Server

    Gurtner, Gérald; Cipolla, Marco; Lillo, Fabrizio; Mantegna, Rosario Nunzio; Miccichè, Salvatore; Pozzi, Simone

    2013-01-01

    We show that the European airspace can be represented as a multi-scale traffic network whose nodes are airports, sectors, or navigation points and links are defined and weighted according to the traffic of flights between the nodes. By using a unique database of the air traffic in the European airspace, we investigate the architecture of these networks with a special emphasis on their community structure. We propose that unsupervised network community detection algorithms can be used to monitor the current use of the airspaces and improve it by guiding the design of new ones. Specifically, we compare the performance of three community detection algorithms, also by using a null model which takes into account the spatial distance between nodes, and we discuss their ability to find communities that could be used to define new control units of the airspace.

  8. Microbial community structures in different wastewater treatment plants as revealed by 454-pyrosequencing analysis.

    Science.gov (United States)

    Hu, Man; Wang, Xiaohui; Wen, Xianghua; Xia, Yu

    2012-08-01

    In this study, 454-pyrosequencing technology was employed to investigate the microbial communities in 12 municipal wastewater treatment plants (WWPTs) with different treatment processes. In total, 202,968 effective sequences of the 16S rRNA gene were generated from 16 samples that widely represented the diversity of the microbial communities. While Proteobacteria was found to be the dominant phylum in some samples, in other samples it was Bacteroidetes. The Simpson's diversity index and evenness index were lowest in samples from membrane bioreactors (MBRs), possibly due to the long sludge retention time (SRT) and low food/microorganism ratio (F/M). For one WWTP which had two disparate treatment processes operating in parallel, the structures of microbial communities in the two systems were compared. The differences found between the two indicated that the treatment process likely had effects on the structure of microbial communities. PMID:22609716

  9. Analysis of Spectral clustering approach for tracking community formation in social network

    Directory of Open Access Journals (Sweden)

    Sanjiv Sharma

    2012-07-01

    Full Text Available The study of tracking community formation in social networks is an active area of research. A common pattern among the cohesive subgroup of people in a network is considered as a community which is a partition of the entire network structure. In recent years, spectral clustering has become one of the most popular modern clustering algorithms. It is simple to implement, can be solved efficiently by standard linear algebra method and very often outperforms traditional clustering algorithms such as the k-means algorithm. Existing method of community tracking methods is based on hierarchical clustering algorithm. This paper establishes that spectral clustering is an efficient way for tracking community formation in social network.

  10. Oral health conditions and frailty in Mexican community-dwelling elderly: a cross sectional analysis

    Directory of Open Access Journals (Sweden)

    Castrejón-Pérez Roberto

    2012-09-01

    Full Text Available Abstract Background Oral health is an important component of general well-being for the elderly. Oral health-related problems include loss of teeth, nonfunctional removable dental prostheses, lesions of the oral mucosa, periodontitis, and root caries. They affect food selection, speaking ability, mastication, social relations, and quality of life. Frailty is a geriatric syndrome that confers vulnerability to negative health-related outcomes. The association between oral health and frailty has not been explored thoroughly. This study sought to identify associations between the presence of some oral health conditions, and frailty status among Mexican community-dwelling elderly. Methods Analysis of baseline data of the Mexican Study of Nutritional and Psychosocial Markers of Frailty, a cohort study carried out in a representative sample of people aged 70 and older residing in one district of Mexico City. Frailty was defined as the presence of three or more of the following five components: weight loss, exhaustion, slowness, weakness, and low physical activity. Oral health variables included self-perception of oral health compared with others of the same age; utilization of dental services during the last year, number of teeth, dental condition (edentate, partially edentate, or completely dentate, utilization and functionality of removable partial or complete dentures, severe periodontitis, self-reported chewing problems and xerostomia. Covariates included were gender, age, years of education, cognitive performance, smoking status, recent falls, hospitalization, number of drugs, and comorbidity. The association between frailty and dental variables was determined performing a multivariate logistic regression analysis. Final models were adjusted by socio-demographic and health factors Results Of the 838 participants examined, 699 had the information needed to establish the criteria for diagnosis of frailty. Those who had a higher probability of being frail included women (OR?=?1.9, those who reported myocardial infarction (OR?=?3.8, urinary incontinence (OR?=?2.7, those who rated their oral health worse than others (OR?=?3.2, and those who did not use dental services (OR?=?2.1. For each additional year of age and each additional drug consumed, the probability of being frail increased 10% and 30%, respectively. Conclusions Utilization of dental services and self-perception of oral health were associated with a higher probability of being frail.

  11. Community-Level Analysis of psbA Gene Sequences and Irgarol Tolerance in Marine Periphyton?

    Science.gov (United States)

    Eriksson, K. M.; Clarke, A. K.; Franzen, L.-G.; Kuylenstierna, M.; Martinez, K.; Blanck, H.

    2009-01-01

    This study analyzes psbA gene sequences, predicted D1 protein sequences, species relative abundance, and pollution-induced community tolerance in marine periphyton communities exposed to the antifouling compound Irgarol 1051. The mechanism of action of Irgarol is the inhibition of photosynthetic electron transport at photosystem II by binding to the D1 protein. The metagenome of the communities was used to produce clone libraries containing fragments of the psbA gene encoding the D1 protein. Community tolerance was quantified with a short-term test for the inhibition of photosynthesis. The communities were established in a continuous flow of natural seawater through microcosms with or without added Irgarol. The selection pressure from Irgarol resulted in an altered species composition and an inducted community tolerance to Irgarol. Moreover, there was a very high diversity in the psbA gene sequences in the periphyton, and the composition of psbA and D1 fragments within the communities was dramatically altered by increased Irgarol exposure. Even though tolerance to this type of compound in land plants often depends on a single amino acid substitution (Ser264?Gly) in the D1 protein, this was not the case for marine periphyton species. Instead, the tolerance mechanism likely involves increased degradation of D1. When we compared sequences from low and high Irgarol exposure, differences in nonconserved amino acids were found only in the so-called PEST region of D1, which is involved in regulating its degradation. Our results suggest that environmental contamination with Irgarol has led to selection for high-turnover D1 proteins in marine periphyton communities at the west coast of Sweden. PMID:19088321

  12. Community-level analysis of psbA gene sequences and irgarol tolerance in marine periphyton.

    Science.gov (United States)

    Eriksson, K M; Clarke, A K; Franzen, L-G; Kuylenstierna, M; Martinez, K; Blanck, H

    2009-02-01

    This study analyzes psbA gene sequences, predicted D1 protein sequences, species relative abundance, and pollution-induced community tolerance in marine periphyton communities exposed to the antifouling compound Irgarol 1051. The mechanism of action of Irgarol is the inhibition of photosynthetic electron transport at photosystem II by binding to the D1 protein. The metagenome of the communities was used to produce clone libraries containing fragments of the psbA gene encoding the D1 protein. Community tolerance was quantified with a short-term test for the inhibition of photosynthesis. The communities were established in a continuous flow of natural seawater through microcosms with or without added Irgarol. The selection pressure from Irgarol resulted in an altered species composition and an inducted community tolerance to Irgarol. Moreover, there was a very high diversity in the psbA gene sequences in the periphyton, and the composition of psbA and D1 fragments within the communities was dramatically altered by increased Irgarol exposure. Even though tolerance to this type of compound in land plants often depends on a single amino acid substitution (Ser(264)-->Gly) in the D1 protein, this was not the case for marine periphyton species. Instead, the tolerance mechanism likely involves increased degradation of D1. When we compared sequences from low and high Irgarol exposure, differences in nonconserved amino acids were found only in the so-called PEST region of D1, which is involved in regulating its degradation. Our results suggest that environmental contamination with Irgarol has led to selection for high-turnover D1 proteins in marine periphyton communities at the west coast of Sweden. PMID:19088321

  13. Community-acquired pneumonia in the childhood: analysis of the diagnostic methods

    Directory of Open Access Journals (Sweden)

    Henry I. Z. Requejo

    2007-04-01

    Full Text Available Immunological assays such as CIE, LA, and Dot-ELISA were compared in order to diagnose community-acquired pneumonia. Serum, pleural fluid and urine samples were comparatively employed for bacterial antigen detection. Dot-ELISA proved to be an original and practical alternative procedure for detecting bacterial polysaccharide antigens from pleural fluid and/or concentrated urine samples, providing a rapid diagnosis for pediatric patients with community-acquired pneumonia.

  14. Analysis of microbial community in Japanese vineyard soils by culture-independent molecular approach

    OpenAIRE

    Keiko Fujita; Seiichi Furuya; Minako Kohno; et al.

    2010-01-01

    Keiko Fujita, Seiichi Furuya, Minako Kohno, Shunji Suzuki, Tsutomu TakayanagiInstitute of Enology and Viticulture, University of Yamanashi, Kofu, Yamanashi, JapanAbstract: Soil microbes play an important role in the management of soil environment. They form various microbial communities in response to environmental factors, including soil texture and chemical components. Because of this, it is difficult to determine the microbial community structure of soil. In vineyard soils, the overall mic...

  15. Inside an Open Source Software Community: Empirical Analysis on Individual and Group Level

    OpenAIRE

    Wolfgang Maass

    2004-01-01

    An established Open Source Software community (Apache Cocoon) was explored using an online questionnaire about demographic data and individual and group-related factors. Individual factors encompassed forms of contributions, motivation, expertise and knowledge. Role structures, expectations towards other members, trust and collaboration issues were analysed at group level. More than 60% of the developer community completed this questionnaire. Results provide a valuable basis for deeper unders...

  16. Banding together for bandwidth: An analysis of survey results from wireless community network participants

    OpenAIRE

    Shaffer, Gwen University Of California

    2011-01-01

    Using a resource mobilization framework, this study attempts to better understand the factors motivating people to join wireless community networks that enable members to share bandwidth. In addition, the research illuminates ties between this kind of peer-to-peer networking and civic engagement at a broader level. An in depth survey completed by 43 respondents from throughout Europe and North America found that participants in this movement felt a stronger sense of community, as well as were...

  17. OOPS, Turning MIT Opencourseware into Chinese: An analysis of a community of practice of global translators

    OpenAIRE

    Mimi Miyoung Lee; Meng-Fen Grace Lin; Bonk, Curtis J.

    2007-01-01

    An all-volunteer organization called the Opensource Opencourseware Prototype System (OOPS), headquartered in Taiwan, was initially designed to translate open source materials from MIT OpenCourseWare (OCW) site into Chinese. Given the recent plethora of open educational resources (OER), such as the OCW, the growing use of such resources by the world community, and the emergence of online global education communities to localize resources such as the OOPS, a key goal of this research was to und...

  18. Comparative Analysis of the Composition of Intestinal Bacterial Communities in Dastarcus helophoroides Fed Different Diets

    OpenAIRE

    Wang, Wei-wei; He, Cai; Cui, Jun; Wang, Hai-dong; Li, Meng-lou

    2014-01-01

    The diversity of the intestinal bacterial communities in Dastarcus helophoroides (Fairmaire) (Coleoptera: Bothrideridae) larvae and adults was assayed by PCR-DGGE to determine whether different artificial diets could influence these bacterial communities. Two diets were used for feeding the larvae and four for the adults. Escherichia, Desemzia, Staphylococcus, Asticcacaulis, Cellvibrio, Aurantimonas, and Planomicrobium were isolated from the gut of the adults, with Escherichia and Staphylococ...

  19. Social media use by community-based organizations conducting health promotion: a content analysis

    OpenAIRE

    Ramanadhan, Shoba; Mendez, Samuel R.; Rao, Megan; Viswanath, Kasisomayajula

    2013-01-01

    Background: Community-based organizations (CBOs) are critical channels for the delivery of health promotion programs. Much of their influence comes from the relationships they have with community members and other key stakeholders and they may be able to harness the power of social media tools to develop and maintain these relationships. There are limited data describing if and how CBOs are using social media. This study assesses the extent to which CBOs engaged in health promotion use popula...

  20. Biological oxygen demand optode analysis of coral reef-associated microbial communities exposed to algal exudates

    Directory of Open Access Journals (Sweden)

    AK Gregg

    2013-07-01

    Full Text Available Algae-derived dissolved organic matter has been hypothesized to induce mortality of reef building corals. One proposed killing mechanism is a zone of hypoxia created by rapidly growing microbes. To investigate this hypothesis, biological oxygen demand (BOD optodes were used to quantify the change in oxygen concentrations of microbial communities following exposure to exudates generated by turf algae and crustose coralline algae (CCA. BOD optodes were embedded with microbial communities cultured from Montastraea annularis and Mussismilia hispida, and respiration was measured during exposure to turf and CCA exudates. The oxygen concentrations along the optodes were visualized with a low-cost Submersible Oxygen Optode Recorder (SOOpR system. With this system we observed that exposure to exudates derived from turf algae stimulated higher oxygen drawdown by the coral-associated bacteria than CCA exudates or seawater controls. Furthermore, in both turf and CCA exudate treatments, all microbial communities (coral-, algae-associated and pelagic contributed significantly to the observed oxygen drawdown. This suggests that the driving factor for elevated oxygen consumption rates is the source of exudates rather than the initially introduced microbial community. Our results demonstrate that exudates from turf algae may contribute to hypoxia-induced coral stress in two different coral genera as a result of increased biological oxygen demand of the local microbial community. Additionally, the SOOpR system developed here can be applied to measure the BOD of any culturable microbe or microbial community.

  1. Functional gene array-based analysis of microbial community structure in groundwaters with a gradient of contaminant levels.

    Science.gov (United States)

    Waldron, Patricia J; Wu, Liyou; Van Nostrand, Joy D; Schadt, Chris W; He, Zhili; Watson, David B; Jardine, Philip M; Palumbo, Anthony V; Hazen, Terry C; Zhou, Jizhong

    2009-05-15

    To understand how contaminants affect microbial community diversity, heterogeneity, and functional structure, six groundwater monitoring wells from the Field Research Center of the U.S. Department of Energy Environmental Remediation Science Program (ERSP; Oak Ridge, TN), with a wide range of pH, titrate, and heavy metal contamination were investigated. DNA from the groundwater community was analyzed with a functional gene array containing 2006 probes to detect genes involved in metal resistance, sulfate reduction, organic contaminant degradation, and carbon and nitrogen cycling. Microbial diversity decreased in relation to the contamination levels of the wells. Highly contaminated wells had lower gene diversity but greater signal intensity than the pristine well. The microbial composition was heterogeneous, with 17-70% overlap between differentwells. Metal-resistant and metal-reducing microorganisms were detected in both contaminated and pristine wells, suggesting the potential for successful bioremediation of metal-contaminated groundwaters. In addition, results of Mantel tests and canonical correspondence analysis indicate that nitrate, sulfate, pH, uranium, and technetium have a significant (p < 0.05) effect on microbial community structure. This study provides an overall picture of microbial community structure in contaminated environments with functional gene arrays by showing that diversity and heterogeneity can vary greatly in relation to contamination. PMID:19544850

  2. Functional gene array-based analysis of microbial community structure in groundwaters with a gradient of contaminant levels

    Energy Technology Data Exchange (ETDEWEB)

    Waldron, P.J.; Wu, L.; Van Nostrand, J.D.; Schadt, C.W.; Watson, D.B.; Jardine, P.M.; Palumbo, A.V.; Hazen, T.C.; Zhou, J.

    2009-06-15

    To understand how contaminants affect microbial community diversity, heterogeneity, and functional structure, six groundwater monitoring wells from the Field Research Center of the U.S. Department of Energy Environmental Remediation Science Program (ERSP; Oak Ridge, TN), with a wide range of pH, nitrate, and heavy metal contamination were investigated. DNA from the groundwater community was analyzed with a functional gene array containing 2006 probes to detect genes involved in metal resistance, sulfate reduction, organic contaminant degradation, and carbon and nitrogen cycling. Microbial diversity decreased in relation to the contamination levels of the wells. Highly contaminated wells had lower gene diversity but greater signal intensity than the pristine well. The microbial composition was heterogeneous, with 17-70% overlap between different wells. Metal-resistant and metal-reducing microorganisms were detected in both contaminated and pristine wells, suggesting the potential for successful bioremediation of metal-contaminated groundwaters. In addition, results of Mantel tests and canonical correspondence analysis indicate that nitrate, sulfate, pH, uranium, and technetium have a significant (p < 0.05) effect on microbial community structure. This study provides an overall picture of microbial community structure in contaminated environments with functional gene arrays by showing that diversity and heterogeneity can vary greatly in relation to contamination.

  3. Home visitation program effectiveness and the influence of community behavioral norms: a propensity score matched analysis of prenatal smoking cessation

    Directory of Open Access Journals (Sweden)

    Matone Meredith

    2012-11-01

    Full Text Available Abstract Background The influence of community context on the effectiveness of evidence-based maternal and child home visitation programs following implementation is poorly understood. This study compared prenatal smoking cessation between home visitation program recipients and local-area comparison women across 24 implementation sites within one state, while also estimating the independent effect of community smoking norms on smoking cessation behavior. Methods Retrospective cohort design using propensity score matching of Nurse-Family Partnership (NFP clients and local-area matched comparison women who smoked cigarettes in the first trimester of pregnancy. Birth certificate data were used to classify smoking status. The main outcome measure was smoking cessation in the third trimester of pregnancy. Multivariable logistic regression analysis examined, over two time periods, the association of NFP exposure and the association of baseline county prenatal smoking rate on prenatal smoking cessation. Results The association of NFP participation and prenatal smoking cessation was stronger in a later implementation period (35.5% for NFP clients vs. 27.5% for comparison women, p? Conclusions Following a statewide implementation, program recipients of NFP demonstrated increased smoking cessation compared to comparison women, with a stronger program effect in later years. The significant association of county smoking rate with cessation suggests that community behavioral norms may present a challenge for evidence-based programs as models are translated into diverse communities.

  4. Empowering Community Setting and Community Mobilization

    OpenAIRE

    Fedi, Angela

    2009-01-01

    Empowering community settings exist in many community domains. One domain includes groups and organizations that empower oppressed citizens to challenge societal culture and institutions, and take action to change them. To be considered empowering, a community setting must have both an empowering process, and lead to an empowered outcome. Our study tried to answer the following question: Does the empowering community setting model provide a potentially useful framework for analysis of communi...

  5. Pre-design and life cycle cost analysis of a hybrid power system for rural and remote communities in Afghanistan

    Directory of Open Access Journals (Sweden)

    Mir Sayed Shah Danish

    2014-08-01

    Full Text Available In view of the present situation of the Afghanistan electricity sector, the photovoltaic and diesel generator stand-alone hybrid power system is increasingly attractive for application in rural and remote communities. Thousands of rural communities in Afghanistan depend solely on traditional kerosene for illumination and rarely have access to electricity sources such as DC battery for radio and other small appliances. This study is conducted to offer real-life solution to this problem. The hybrid system is investigated to meet the domestic load demand that is estimated based on the communities’ electricity consumption culture. At first, customary pre-design is pursued. Afterwards, the break-even point and net present value algorithms are applied for economic analysis. That makes this study differ from the previous academic literature. The concepts developed in this study are targeted for a cost-effective hybrid system, which is appropriate for rural and remote residents’ lifestyle change and improvement. Based on the academic research methods, overall analysis procedures can fit as an analogy, especially for developing countries.

  6. Evaluating community investments in the mining sector using multi-criteria decision analysis to integrate SIA with business planning

    International Nuclear Information System (INIS)

    Gaining senior management's commitment to long-term social development projects, which are characterised by uncertainty and complexity, is made easier if projects are shown to benefit the site's strategic goals. However, even though the business case for community investment may have been accepted at a general level, as a strategy for competitive differentiation, risk mitigation and a desire to deliver - and to be seen to deliver - a 'net benefit' to affected communities, mining operations are still faced with implementation challenges. Case study research on mining companies, including interviews with social investment decision-makers, has assisted in developing the Social Investment Decision Analysis Tool (SIDAT), a decision model for evaluating social projects in order to create value for both the company and the community. Multi-criteria decision analysis techniques integrating business planning processes with social impact assessment have proved useful in assisting mining companies think beyond the traditional drivers (i.e. seeking access to required lands and peaceful relations with neighbours), to broader issues of how they can meet their business goals and contribute to sustainable development in the regions in which they operate

  7. Determining in situ periphyton community responses to nutrient and atrazine gradients via pigment analysis.

    Science.gov (United States)

    Dalton, Rebecca L; Boutin, Céline; Pick, Frances R

    2015-05-15

    Agrochemicals, including fertilizers and herbicides, are significant contributors of non-point source pollution to surface waters and have the potential to negatively affect periphyton. We characterized periphyton communities using pigment markers to assess the effects of nutrient enrichment and the herbicide atrazine with in situ experimental manipulations and by examining changes in community structure along existing agrochemical gradients. In 2008, the addition of nutrients (20mg/L nitrate and 1.25mg/L reactive phosphate), atrazine (20?g/L) and a combination of both nutrients and atrazine had no significant effect on periphyton biomass or community structure in a stream periphytometer experiment. In 2009, similar experiments with higher concentrations of atrazine (200?g/L) at two stream sites led to some minor effects. In contrast, at the watershed scale (2010) periphyton biomass (mg/m(2) chlorophyll a) increased significantly along correlated gradients of nitrate and atrazine but no direct effects of reactive phosphate were observed. Across the watershed, the average periphyton community was composed of Bacillariophyceae (60.9%), Chlorophyceae (28.1%), Cryptophyceae (6.9%) and Euglenophyceae (4.1%), with the Bacillariophyceae associated with high turbidity and the Chlorophyceae with nitrate enrichment. Overall, effects of nitrate on periphyton biomass and community structure superseded effects of reactive phosphate and atrazine. PMID:25700361

  8. Social capital and adolescent smoking in schools and communities: a cross-classified multilevel analysis.

    Science.gov (United States)

    De Clercq, Bart; Pfoertner, Timo-Kolja; Elgar, Frank J; Hublet, Anne; Maes, Lea

    2014-10-01

    We sought to determine whether social capital at the individual-, school- and community-level can explain variance in adolescent smoking and accounts for social inequalities in smoking. We collected data as part of the 2005/6 Health Behavior in School-aged Children survey, a nationally representative survey of the health and well-being of high school pupils in Belgium (Flanders). Social capital was assessed by structural and cognitive components of family social capital, a four-factor school social capital scale and a cognitive community social capital scale. We fitted non-hierarchical multilevel models to the data, with 8453 adolescents nested within a cross-classification of 167 schools and 570 communities. Significant variation in adolescent regular smoking was found between schools, but not between communities. Only structural family social capital and cognitive school social capital variables negatively related to regular smoking. No interactions between socio-economic status and social capital variables were found. Our findings suggest that previously observed community-level associations with adolescent smoking may be a consequence of unmeasured confounding. Distinguishing nested contexts of social capital is important because their associations with smoking differ. PMID:25150654

  9. Community Cardiovascular Disease Risk From Cross-Sectional General Practice Clinical Data: A Spatial Analysis

    Science.gov (United States)

    Gilmour, Bridget; McRae, Ian; Konings, Paul; Dawda, Paresh; Del Fante, Peter; van Weel, Chris

    2015-01-01

    Introduction Cardiovascular disease (CVD) continues to be a leading cause of illness and death among adults worldwide. The objective of this study was to calculate a CVD risk score from general practice (GP) clinical records and assess spatial variations of CVD risk in communities. Methods We used GP clinical data for 4,740 men and women aged 30 to 74 years with no history of CVD. A 10-year absolute CVD risk score was calculated based on the Framingham risk equation. The individual risk scores were aggregated within each Statistical Area Level One (SA1) to predict the level of CVD risk in that area. Finally, the pattern of CVD risk was visualized to highlight communities with high and low risk of CVD. Results The overall 10-year risk of CVD in our sample population was 14.6% (95% confidence interval [CI], 14.3%–14.9%). Of the 4,740 patients in our study, 26.7% were at high risk, 29.8% were at moderate risk, and 43.5% were at low risk for CVD over 10 years. The proportion of patients at high risk for CVD was significantly higher in the communities of low socioeconomic status. Conclusion This study illustrates methods to further explore prevalence, location, and correlates of CVD to identify communities of high levels of unmet need for cardiovascular care and to enable geographic targeting of effective interventions for enhancing early and timely detection and management of CVD in those communities. PMID:25719216

  10. Criteria and indicators for the assessment of community forestry outcomes: a comparative analysis from Canada.

    Science.gov (United States)

    Teitelbaum, Sara

    2014-01-01

    In Canada, there are few structured evaluations of community forestry despite more than twenty years of practice. This article presents a criteria and indicator framework, designed to elicit descriptive information about the types of socio-economic results being achieved by community forests in the Canadian context. The criteria and indicators framework draws on themes proposed by other researchers both in the field of community forestry and related areas. The framework is oriented around three concepts described as amongst the underlying objectives of community forestry, namely participatory governance, local economic benefits and multiple forest use. This article also presents the results of a field-based application of the criteria and indicators framework, comparing four case studies in three Canadian provinces. All four are community forests with direct tenure rights to manage and benefit from forestry activities. Results reveal that in terms of governance, the case studies adhere to two different models, which we name 'interest group' vs. 'local government'. Stronger participatory dimensions are evident in two case studies. In the area of local economic benefits, the four case studies perform similarly, with some of the strongest benefits being in employment creation, especially for those case studies that offer non-timber activities such as recreation and education. Two of four cases have clearly adopted a multiple-use approach to management. PMID:24321286

  11. A guide to statistical analysis in microbial ecology: a community-focused, living review of multivariate data analyses.

    Science.gov (United States)

    Buttigieg, Pier Luigi; Ramette, Alban

    2014-12-01

    The application of multivariate statistical analyses has become a consistent feature in microbial ecology. However, many microbial ecologists are still in the process of developing a deep understanding of these methods and appreciating their limitations. As a consequence, staying abreast of progress and debate in this arena poses an additional challenge to many microbial ecologists. To address these issues, we present the GUide to STatistical Analysis in Microbial Ecology (GUSTA ME): a dynamic, web-based resource providing accessible descriptions of numerous multivariate techniques relevant to microbial ecologists. A combination of interactive elements allows users to discover and navigate between methods relevant to their needs and examine how they have been used by others in the field. We have designed GUSTA ME to become a community-led and -curated service, which we hope will provide a common reference and forum to discuss and disseminate analytical techniques relevant to the microbial ecology community. PMID:25314312

  12. Analysis of denitrifier community in a bioaugmented sequencing batch reactor for the treatment of coking wastewater containing pyridine and quinoline

    Energy Technology Data Exchange (ETDEWEB)

    Bai, Yaohui; Xing, Rui; Wen, Donghui; Tang, Xiaoyan [Peking Univ., Beijing (CN). Key Lab. of Water and Sediment Sciences (Ministry of Education); Sun, Qinghua [Peking Univ., Beijing (CN). Key Lab. of Water and Sediment Sciences (Ministry of Education); Chinese Center for Disease Control and Prevention, Beijing (China). Inst. of Environmental Health and Related Product Safety

    2011-05-15

    The denitrifier community and associated nitrate and nitrite reduction in the bioaugmented and general sequencing batch reactors (SBRs) during the treatment of coking wastewater containing pyridine and quinoline were investigated. The efficiency and stability of nitrate and nitrite reduction in SBR was considerably improved after inoculation with four pyridine- or quinoline-degrading bacterial strains (including three denitrifying strains). Terminal restriction fragment length polymorphism (T-RFLP) based on the nosZ gene revealed that the structures of the denitrifier communities in bioaugmented and non-bioaugmented reactors were distinct and varied during the course of the experiment. Bioaugmentation protected indigenous denitrifiers from disruptions caused by pyridine and quinoline. Clone library analysis showed that one of the added denitrifiers comprised approximately 6% of the denitrifier population in the bioaugmented sludge. (orig.)

  13. Community analysis of bacteria colonizing intestinal tissue of neonates with necrotizing enterocolitis

    Directory of Open Access Journals (Sweden)

    Kloppenborg Julie

    2011-04-01

    Full Text Available Abstract Background Necrotizing enterocolitis (NEC is the most common gastrointestinal emergency in newborn neonates. Bacteria are believed to be important in the pathogenesis of NEC but bacterial characterization has only been done on human faecal samples and experimental animal studies. The aim of this study was to investigate the microbial composition and the relative number of bacteria in inflamed intestinal tissue surgically removed from neonates diagnosed with NEC (n = 24. The bacterial populations in the specimens were characterized by laser capture microdissection and subsequent sequencing combined with fluorescent in situ hybridization (FISH, using bacterial rRNA-targeting oligonucleotide probes. Results Bacteria were detected in 22 of the 24 specimens, 71% had moderate to high densities of bacteria. The phyla detected by 16S rRNA gene sequencing were: Proteobacteria (49.0%, Firmicutes (30.4%, Actinobacteria (17.1% and Bacteroidetes (3.6%. A major detected class of the phylum Proteobacteria belonged to ?-proteobacteria. Surprisingly, Clostridium species were only detected in 4 of the specimens by FISH, but two of these specimens exhibited histological pneumatosis intestinalis and both specimens had a moderate to a high density of C. butyricum and C. parputrificum detected by using species specific FISH probes. A 16S rRNA gene sequence tag similar to Ralstonia species was detected in most of the neonatal tissues and members of this genus have been reported to be opportunistic pathogens but their role in NEC has still to be clarified. Conclusion In this study, in situ identification and community analysis of bacteria found in tissue specimens from neonates with NEC, were analysed for the first time. Although a large variability of bacteria was found in most of the analyzed specimens, no single or combination of known potential pathogenic bacteria species was dominating the samples suggestive NEC as non-infectious syndrome. However there was a significant correlation between the presence of C. butyricum &C. parputrificum and histological pneumatosis intestinalis. Finally this study emphasizes the possibility to examine the microbial composition directly on excised human tissues to avoid biases from faecal samples or culturing.

  14. Community analysis of bacteria colonizing intestinal tissue of neonates with necrotizing enterocolitis

    DEFF Research Database (Denmark)

    Smith, Birgitte; Bodé, Susan

    2011-01-01

    BACKGROUND: Necrotizing enterocolitis (NEC) is the most common gastrointestinal emergency in newborn neonates. Bacteria are believed to be important in the pathogenesis of NEC but bacterial characterization has only been done on human faecal samples and experimental animal studies. The aim of this study was to investigate the microbial composition and the relative number of bacteria in inflamed intestinal tissue surgically removed from neonates diagnosed with NEC (n = 24). The bacterial populations in the specimens were characterized by laser capture microdissection and subsequent sequencing combined with fluorescent in situ hybridization (FISH), using bacterial rRNA-targeting oligonucleotide probes. RESULTS: Bacteria were detected in 22 of the 24 specimens, 71% had moderate to high densities of bacteria. The phyla detected by 16S rRNA gene sequencing were: Proteobacteria (49.0%), Firmicutes (30.4%), Actinobacteria (17.1%) and Bacteroidetes (3.6%). A major detected class of the phylum Proteobacteria belonged to ?-proteobacteria. Surprisingly, Clostridium species were only detected in 4 of the specimens by FISH, but two of these specimens exhibited histological pneumatosis intestinalis and both specimens had a moderate to a high density of C. butyricum and C. parputrificum detected by using species specific FISH probes. A 16S rRNA gene sequence tag similar to Ralstonia species was detected in most of the neonatal tissues and members of this genus have been reported to be opportunistic pathogens but their role in NEC has still to be clarified. CONCLUSION: In this study, in situ identification and community analysis of bacteria found in tissue specimens from neonates with NEC, were analysed for the first time. Although a large variability of bacteria was found in most of the analyzed specimens, no single or combination of known potential pathogenic bacteria species was dominating the samples suggestive NEC as non-infectious syndrome. However there was a significant correlation between the presence of C. butyricum & C. parputrificum and histological pneumatosis intestinalis. Finally this study emphasizes the possibility to examine the microbial composition directly on excised human tissues to avoid biases from faecal samples or culturing.

  15. Comparative analysis of microbial community of novel lactic acid fermentation inoculated with different undefined mixed cultures.

    Science.gov (United States)

    Liang, Shaobo; Gliniewicz, Karol; Mendes-Soares, Helena; Settles, Matthew L; Forney, Larry J; Coats, Erik R; McDonald, Armando G

    2015-03-01

    Three undefined mixed cultures (activated sludge) from different municipal wastewater treatment plants were used as seeds in a novel lactic acid fermentation process fed with potato peel waste (PPW). Anaerobic sequencing batch fermenters were run under identical conditions to produce predominantly lactic acid. Illumina sequencing was used to examine the 16S rRNA genes of bacteria in the three seeds and fermenters. Results showed that the structure of microbial communities of three seeds were different. All three fermentation products had unique community structures that were dominated (>96%) by species of the genus Lactobacillus, while members of this genus constituted fermentations. Results of this study suggest the structure of microbial communities in lactic acid fermentation of PPW with undefined mixed cultures were robust and resilient, which provided engineering prospects for the microbial utilization of carbohydrate wastes to produce lactic acid. PMID:25545096

  16. Communities and Hierarchical Structures in Dynamic Social Networks: Analysis and Visualization

    CERN Document Server

    Gilbert, Frédéric; Zaidi, Faraz; Jourdan, Fabien; Bourqui, Romain

    2014-01-01

    Detection of community structures in social networks has attracted lots of attention in the domain of sociology and behavioral sciences. Social networks also exhibit dynamic nature as these networks change continuously with the passage of time. Social networks might also present a hierarchical structure led by individuals that play important roles in a society such as Managers and Decision Makers. Detection and Visualization of these networks changing over time is a challenging problem where communities change as a function of events taking place in the society and the role people play in it. In this paper we address these issues by presenting a system to analyze dynamic social networks. The proposed system is based on dynamic graph discretization and graph clustering. The system allows detection of major structural changes taking place in social communities over time and reveals hierarchies by identifying influential people in a social networks. We use two different data sets for the empirical evaluation and...

  17. Microbial Community Analysis of a Single Chamber Microbial Fuel Cell Using Potato Wastewater

    Energy Technology Data Exchange (ETDEWEB)

    Zhen Li; Rishika Haynes; Eugene Sato; Malcolm Shields; Yoshiko Fujita; Chikashi Sato

    2014-04-01

    Microbial fuel cells (MFCs) convert chemical energy to electrical energy via bioelectrochemical reactions mediated by microorganisms. We investigated the diversity of the microbial community in an air cathode single chamber MFC that utilized potato-process wastewater as substrate. Terminal Restriction Fragment Length Polymorphism (T-RFLP) results indicated that the bacterial communities on the anode, cathode, control electrode, and MFC bulk fluid were similar, but differed dramatically from that of the anaerobic domestic sludge and potato wastewater inoculum. The 16S rDNA sequencing results showed that microbial species detected on the anode were predominantly within the phyla of Proteobacteria, Firmicutes, and Bacteroidetes. Fluorescent microscopy results indicated that there was a clear enhancement of biofilm formation on the anode. Results of this study could help improve understanding of the complexity of microbial communities and optimize the microbial composition for generating electricity by MFCs that utilize potato wastewater.

  18. Seeding the Kernels in graphs: toward multi-resolution community analysis

    International Nuclear Information System (INIS)

    Current endeavors in community detection suffer from the resolution limit problem and can be quite expensive for large networks, especially those based on optimization schemes. We propose a conceptually different approach for multi-resolution community detection, by introducing the kernels from statistical literature into the graph, which mimic the node interaction that decays locally with the geodesic distance. The modular structure naturally arises as the patterns inherent in the interaction landscape, which can be easily identified by the hill climbing process. The range of node interaction, and henceforth the resolution of community detection, is controlled via tuning the kernel bandwidth in a systematic way. Our approach is computationally efficient and its effectiveness is demonstrated using both synthetic and real networks with multiscale structures.

  19. Analysis of Bacterial and Archaeal Communities along a High-Molecular-Weight Polyacrylamide Transportation Pipeline System in an Oil Field.

    Science.gov (United States)

    Li, Cai-Yun; Li, Jing-Yan; Mbadinga, Serge Maurice; Liu, Jin-Feng; Gu, Ji-Dong; Mu, Bo-Zhong

    2015-01-01

    Viscosity loss of high-molecular-weight partially hydrolyzed polyacrylamide (HPAM) solution was observed in a water injection pipeline before being injected into subterranean oil wells. In order to investigate the possible involvement of microorganisms in HPAM viscosity loss, both bacterial and archaeal community compositions of four samples collected from different points of the transportation pipeline were analyzed using PCR-amplification of the 16S rRNA gene and clone library construction method together with the analysis of physicochemical properties of HPAM solution and environmental factors. Further, the relationship between environmental factors and HPAM properties with microorganisms were delineated by canonical correspondence analysis (CCA). Diverse bacterial and archaeal groups were detected in the four samples. The microbial community of initial solution S1 gathered from the make-up tank is similar to solution S2 gathered from the first filter, and that of solution S3 obtained between the first and the second filter is similar to that of solution S4 obtained between the second filter and the injection well. Members of the genus Acinetobacter sp. were detected with high abundance in S3 and S4 in which HPAM viscosity was considerably reduced, suggesting that they likely played a considerable role in HPAM viscosity loss. This study presents information on microbial community diversity in the HPAM transportation pipeline and the possible involvement of microorganisms in HPAM viscosity loss and biodegradation. The results will help to understand the microbial community contribution made to viscosity change and are beneficial for providing information for microbial control in oil fields. PMID:25849654

  20. Influence of commonly used primer systems on automated ribosomal intergenic spacer analysis of bacterial communities in environmental samples.

    Science.gov (United States)

    Purahong, Witoon; Stempfhuber, Barbara; Lentendu, Guillaume; Francioli, Davide; Reitz, Thomas; Buscot, François; Schloter, Michael; Krüger, Dirk

    2015-01-01

    Due to the high diversity of bacteria in many ecosystems, their slow generation times, specific but mostly unknown nutrient requirements and syntrophic interactions, isolation based approaches in microbial ecology mostly fail to describe microbial community structure. Thus, cultivation independent techniques, which rely on directly extracted nucleic acids from the environment, are a well-used alternative. For example, bacterial automated ribosomal intergenic spacer analysis (B-ARISA) is one of the widely used methods for fingerprinting bacterial communities after PCR-based amplification of selected regions of the operon coding for rRNA genes using community DNA. However, B-ARISA alone does not provide any taxonomic information and the results may be severely biased in relation to the primer set selection. Furthermore, amplified DNA stemming from mitochondrial or chloroplast templates might strongly bias the obtained fingerprints. In this study, we determined the applicability of three different B-ARISA primer sets to the study of bacterial communities. The results from in silico analysis harnessing publicly available sequence databases showed that all three primer sets tested are specific to bacteria but only two primers sets assure high bacterial taxa coverage (1406f/23Sr and ITSF/ITSReub). Considering the study of bacteria in a plant interface, the primer set ITSF/ITSReub was found to amplify (in silico) sequences of some important crop species such as Sorghum bicolor and Zea mays. Bacterial genera and plant species potentially amplified by different primer sets are given. These data were confirmed when DNA extracted from soil and plant samples were analyzed. The presented information could be useful when interpreting existing B-ARISA results and planning B-ARISA experiments, especially when plant DNA can be expected. PMID:25749323

  1. Community and cultivation analysis of arsenite oxidizing biofilms at Hot Creek.

    Science.gov (United States)

    Salmassi, Tina M; Walker, Jeffrey J; Newman, Dianne K; Leadbetter, Jared R; Pace, Norman R; Hering, Janet G

    2006-01-01

    At Hot Creek in California, geothermally derived arsenite is rapidly oxidized to arsenate. This process is mediated by microorganisms colonizing the surfaces of submerged aquatic macrophytes in the creek. Here we describe a multifaceted approach to characterizing this biofilm community and its activity. Molecular techniques were used to describe the community as a function of 16S-rRNA gene diversity. Cultivation-based strategies were used to enumerate and isolate three novel arsenite oxidizers, strains YED1-18, YED6-4 and YED6-21. All three strains are beta-Proteobacteria, of the genus Hydrogenophaga. Because these strains were isolated from the highest (i.e. million-fold) dilutions of disrupted biofilm suspensions, they represent the most numerically significant arsenite oxidizers recovered from this community. One clone (Hot Creek Clone 44) obtained from an inventory of the 16S rDNA sequence diversity present in the biofilm was found to be 99.6% identical to the 16S rDNA sequence of the isolate YED6-21. On the basis of most probable number (MPN) analyses, arsenite-oxidizing bacteria were found to account for 6-56% of the cultivated members of the community. Using MPN values, we could estimate an upper bound on the value of V(max) for the community of 1 x 10(-9)micromole arsenite min(-1) cell(-1). This estimate represents the first normalization of arsenite oxidation rates to MPN cell densities for a microbial community in a field incubation experiment. PMID:16343321

  2. Community Energy: Analysis of Hydrogen Distributed Energy Systems with Photovoltaics for Load Leveling and Vehicle Refueling

    Energy Technology Data Exchange (ETDEWEB)

    Steward, D.; Zuboy, J.

    2014-10-01

    Energy storage could complement PV electricity generation at the community level. Because PV generation is intermittent, strategies must be implemented to integrate it into the electricity system. Hydrogen and fuel cell technologies offer possible PV integration strategies, including the community-level approaches analyzed in this report: (1) using hydrogen production, storage, and reconversion to electricity to level PV generation and grid loads (reconversion scenario); (2) using hydrogen production and storage to capture peak PV generation and refuel hydrogen fuel cell electric vehicles (FCEVs) (hydrogen fueling scenario); and (3) a comparison scenario using a battery system to store electricity for EV nighttime charging (electric charging scenario).

  3. Comparative Metagenomic Analysis of Soil Microbial Communities across Three Hexachlorocyclohexane Contamination Levels

    OpenAIRE

    Sangwan, Naseer; Lata, Pushp; Dwivedi, Vatsala; Singh, Amit; Niharika, Neha; Kaur, Jasvinder; Anand, Shailly; Malhotra, Jaya; Jindal, Swati; Nigam, Aeshna; Lal, Devi; Dua, Ankita; Saxena, Anjali; Garg, Nidhi; Verma, Mansi

    2012-01-01

    This paper presents the characterization of the microbial community responsible for the in-situ bioremediation of hexachlorocyclohexane (HCH). Microbial community structure and function was analyzed using 16S rRNA amplicon and shotgun metagenomic sequencing methods for three sets of soil samples. The three samples were collected from a HCH-dumpsite (450 mg HCH/g soil) and comprised of a HCH/soil ratio of 0.45, 0.0007, and 0.00003, respectively. Certain bacterial; (Chromohalobacter, Marinimicr...

  4. Community-acquired pneumonia in the childhood: analysis of the diagnostic methods

    Scientific Electronic Library Online (English)

    Henry I. Z., Requejo.

    2007-04-01

    Full Text Available SciELO Brazil | Language: English Abstract in english Immunological assays such as CIE, LA, and Dot-ELISA were compared in order to diagnose community-acquired pneumonia. Serum, pleural fluid and urine samples were comparatively employed for bacterial antigen detection. Dot-ELISA proved to be an original and practical alternative procedure for detectin [...] g bacterial polysaccharide antigens from pleural fluid and/or concentrated urine samples, providing a rapid diagnosis for pediatric patients with community-acquired pneumonia.

  5. Analysis of soil fungal communities by amplicon pyrosequencing: current approaches to data analysis and the introduction of the pipeline SEED.

    Czech Academy of Sciences Publication Activity Database

    V?trovský, Tomáš; Baldrian, Petr

    2013-01-01

    Ro?. 49, ?. 8 (2013), s. 1027-1037. ISSN 0178-2762 R&D Projects: GA MŠk LD12050; GA MŠk LD12048; GA ?R GAP504/12/0709 Institutional support: RVO:61388971 Keywords : Fungal community * Internal transcribed spacer * Pyrosequencing pipeline Subject RIV: EE - Microbiology, Virology Impact factor: 3.396, year: 2013

  6. Community Dental Health Promotion for Children: Integrating Applied Behavior Analysis and Public Health.

    Science.gov (United States)

    Kramer, Kathryn D.; Geller, E. Scott

    1987-01-01

    The article examines community dental health promotion for children in terms of factors impacting children's dental health (water fluoridation, dental health education, behavior change strategies, use of dental services, and dental phobias). Proposed is a large scale behavior change approach to public dental health which integrates applied…

  7. Microbial Communities in Biofilms of an Acid Mine Drainage Site Determined by Phospholipid Analysis

    Science.gov (United States)

    Das Gupta, S.; Fang, J.

    2008-12-01

    Phospholipids were extracted to determine the microbial biomass and community structure of biofims from an acid mine drainage (AMD) at the Green Valley coal mine site (GVS) in western Indiana. The distribution of specific biomarkers indicated the presence of a variety of microorganisms. Phototrophic microeukaryotes, which include Euglena mutabilis, algae, and cyanobacteria were the most dominant organisms, as indicated by the presence of polyunsaturated fatty acids. The presence of terminally methyl branched fatty acids suggests the presence of Gram-positive bacteria, and the mid-methyl branched fatty acids indicates the presence of sulfate-reducing bacteria. Fungi appear to also be an important part of the AMD microbial communities as suggested by the presence of 18:2 fatty acid. The acidophilic microeukaryotes Euglena dominated the biofilm microbial communities. These microorganisms appear to play a prominent role in the formation and preservation of stromatolites and in releasing oxygen to the atmosphere by oxygenic photosynthesis. Thus, the AMD environment comprises a host of microorganisms spreading out within the phylogenetic tree of life. Novel insights on the roles of microbial consortia in the formation and preservation of stromatolites and the production of oxygen through photosynthesis in AMD systems may have significance in the understanding of the interaction of Precambrian microbial communities in environments that produced microbially-mediated sedimentary structures and that caused oxygenation of Earth's atmosphere.

  8. Pyrosequence analysis of bacterial communities in aerobic bioreactors treating polycyclic aromatic hydrocarbon-contaminated soil.

    Science.gov (United States)

    Singleton, David R; Richardson, Stephen D; Aitken, Michael D

    2011-11-01

    Two aerobic, lab-scale, slurry-phase bioreactors were used to examine the biodegradation of polycyclic aromatic hydrocarbons (PAHs) in contaminated soil and the associated bacterial communities. The two bioreactors were operated under semi-continuous (draw-and-fill) conditions at a residence time of 35 days, but one was fed weekly and the other monthly. Most of the quantified PAHs, including high-molecular-weight compounds, were removed to a greater extent in the weekly-fed bioreactor, which achieved total PAH removal of 76%. Molecular analyses, including pyrosequencing of 16S rRNA genes, revealed significant shifts in the soil bacterial communities after introduction to the bioreactors and differences in the abundance and types of bacteria in each of the bioreactors. The weekly-fed bioreactor displayed a more stable bacterial community with gradual changes over time, whereas the monthly-fed bioreactor community was less consistent and may have been more strongly influenced by the influx of untreated soil during feeding. Phylogenetic groups containing known PAH-degrading bacteria previously identified through stable-isotope probing of the untreated soil were differentially affected by bioreactor conditions. Sequences from members of the Acidovorax and Sphingomonas genera, as well as the uncultivated "Pyrene Group 2" were abundant in the bioreactors. However, the relative abundances of sequences from the Pseudomonas, Sphingobium, and Pseudoxanthomonas genera, as well as from a group of unclassified anthracene degraders, were much lower in the bioreactors compared to the untreated soil. PMID:21369833

  9. Comparative analysis of the composition of intestinal bacterial communities in Dastarcus helophoroides fed different diets.

    Science.gov (United States)

    Wang, Wei-Wei; He, Cai; Cui, Jun; Wang, Hai-Dong; Li, Meng-Lou

    2014-01-01

    The diversity of the intestinal bacterial communities in Dastarcus helophoroides (Fairmaire) (Coleoptera: Bothrideridae) larvae and adults was assayed by PCR-DGGE to determine whether different artificial diets could influence these bacterial communities. Two diets were used for feeding the larvae and four for the adults. Escherichia, Desemzia, Staphylococcus, Asticcacaulis, Cellvibrio, Aurantimonas, and Planomicrobium were isolated from the gut of the adults, with Escherichia and Staphylococcus being the main bacterial communities, and the quantities of intestinal bacterial were different in the adults fed different diets. Specifically, the amount of intestinal bacteria from the adults fed different diets had the following ranking according to the major component of the diet: ant powder > darkling beetle pupa powder > cricket powder > silkworm pupa powder. Escherichia, Bacillus, Staphylococcus, Kurthia, Planococcaceae, Ralstonia, Leptothrix, Acinetobacter, and Pseudomonas were isolated from the gut of the larvae. The quantity of intestinal bacteria from the larvae fed the darkling beetle pupae was greater than that from the larvae fed other artificial diets. This study, for the first time, investigated the effect of artificial diets on the bacterial community and the intestinal microbial diversity of D. helophoroides. PMID:25373234

  10. Comparative denaturing gradient gel electrophoresis analysis of fungal communities associated with whole plant corn silage.

    Science.gov (United States)

    May, L A; Smiley, B; Schmidt, M G

    2001-09-01

    Significant portions of grain produced for livestock consumption are convened into ensiled forage. Silage producers have long recognized the positive effects of using an inoculant to insure the proper transformation of forage into a palatable and digestible feedstuff. When silage is fed from a storage structure, exposure to air stimulates the growth of epiphytic aerobes that may result in the loss of up to 50% of the dry matter. Moreover, fungi have been found to be associated with ensiled forage, but their growth is normally suppressed by the anaerobic conditions. However, the introduction of oxygen results in a fungal bloom, and the fungi and the associated metabolites may result in lost productivity in the livestock consuming the contaminated forage. In this study, we report on the diversity of the fungal community associated with whole plant corn silage during the ensiling process, and the effect of two different bacterial inoculants as compared with the uninoculated natural epiphytic fermentation on the distribution of the fungi associated with the silage. The fungal community from duplicate mini-silo packages of the same treatment was analyzed by denaturing gradient gel electrophoresis and direct sequencing of the resulting operational taxonomic units. This method proved useful in analyzing the complex microbial communities associated with the forage in that it was possible to determine that one inoculant dramatically influenced the fungal community associated with whole plant corn silage. PMID:11683465

  11. An Analysis of Step-In/Step-Out Students at Valencia Community College.

    Science.gov (United States)

    Bennett, Lula M.

    In order to determine the characteristics, educational motivations, and opinions of "step-in/step-out" students at Valencia Community College (VCC), the author sent questionnaires to 200 persons selected at random from those who had enrolled for less than 12 hours credit between September 1975 and January 1977 and who were eligible to return but…

  12. Needs Analysis for Designing an Information/Library Technician Curriculum for Pikes Peak Community College.

    Science.gov (United States)

    Alire, Camila A.

    1986-01-01

    Reports on the methods and findings of a study conducted by the Pikes Peak Community College to determine the need for a paraprofessional library training program. Examines library paraprofessionals' subject area interests, perceptions of job concerns and weaknesses, preferred class times, and biographical information on respondents. (DMM)

  13. A Community Stakeholder Analysis of Drug Resistance Strategies of Rural Native Hawaiian Youth

    Science.gov (United States)

    Okamoto, Scott K.; Helm, Susana; Delp, Justin A.; Stone, Kristina; Dinson, Ay-Laina; Stetkiewicz, Jennifer

    2011-01-01

    This study examines and validates the drug resistance strategies identified by rural Hawaiian youth from prior research with a sample of community stakeholders on the Island of Hawai'i. One hundred thirty-eight stakeholders with a vested interest in reducing youth substance use (i.e., teachers, principals, social service agency providers, and…

  14. Austin Community College Employee Satisfaction Survey, Spring 2000: Results and Analysis.

    Science.gov (United States)

    Oburn, Martha L.

    Austin Community College mailed an Employee Satisfaction Survey in spring 2000 to 2,903 employees. The survey form asked respondents to rate college-wide and/or campus services that they had requested or received during the past year in terms of promptness, quality, attitude and overall service. The overall survey return rate was 15.4%, but rates…

  15. Stable isotope analysis reveals community-level variation in fish trophodynamics across a fringing coral reef

    Science.gov (United States)

    Wyatt, A. S. J.; Waite, A. M.; Humphries, S.

    2012-12-01

    In contrast to trophodynamic variations, the marked zonation in physical and biological processes across coral reefs and the concomitant changes in habitat and community structure are well documented. In this study, we demonstrate consistent spatial changes in the community-level trophodynamics of 46 species of fish across the fringing Ningaloo Reef, Western Australia, using tissue stable isotope and fatty acid analyses. Increasing nitrogen (?15N) and decreasing carbon (?13C) isotope ratios in the tissues of herbivores, planktivores and carnivores with increasing proximity to the ocean were indicative of increased reliance on oceanic productivity. In contrast, detritivores and corallivores displayed no spatial change in ?15N or ?13C, indicative of the dependence on reef-derived material across the reef. Higher ?13C, as well as increased benthic- and bacterial-specific fatty acids, suggested reliance on reef-derived production increased in back-reef habitats. Genus-level analyses supported community- and trophic group-level trends, with isotope modelling of species from five genera ( Abudefduf sexfasciatus, Chromis viridis, Dascyllus spp., Pomacentrus spp. and Stegastes spp.), demonstrating declining access to oceanic zooplankton and, in the case of Pomacentrus spp. and Stegastes spp., a switch to herbivory in the back-reef. The spatial changes in fish trophodynamics suggest that the relative roles of oceanic and reef-derived nutrients warrant more detailed consideration in reef-level community ecology.

  16. Analysis of written advertising material distributed through community pharmacies in Riyadh, Saudi Arabia

    OpenAIRE

    Sa, Al-aqeel; Jf, Al-sabhan; Ny, Sultan

    2013-01-01

    Background: Advertising is a crucial component of pharmaceutical industry promotion. Research indicates that information on advertisement materials might be inadequate, inaccurate, biased, and misleading. Objective: To analyse and critically assess the information presented in print pharmaceutical advertisements in Saudi Arabia.Methods: Pharmaceutical advertisements were collected from 280 community pharmacies in Riyadh city, Saudi Arabia. The advertisements were evaluated using criteria deri...

  17. One-year reciprocal relationship between community participation and mental wellbeing in Australia: A panel analysis.

    Science.gov (United States)

    Ding, Ning; Berry, Helen L; O'Brien, Léan V

    2015-03-01

    The links between social capital and mental wellbeing are established but the direction of the social capital-wellbeing relationship is rarely systematically examined. This omission undermines the validity of social capital as a basis for health interventions. The aim of this paper was to explore the short-term (one-year) reciprocal relationship between community participation - an important component of social capital - and mental wellbeing. We used nationally representative Household, Income and Labour Dynamics in Australia (HILDA) Survey data, 2005-11. The HILDA Survey is an annual cohort study from which was extracted a sub-sample of panel data (the same people participating across multiple waves) enabling us to use fixed effects regression methods to model the longitudinal association of mental health and participation controlling for individual heterogeneity. The results showed that better mental wellbeing in one year was generally related to more community participation the next year, while greater past community participation was linked to better mental wellbeing the next year independent of (i) initial mental wellbeing, (ii) multiple potentially confounding factors and (iii) unobserved and time-constant heterogeneity. Political participation was marginally related to worse mental health in both directions. The results also showed that the association between community participation and mental wellbeing the next year is weaker for those with poor initial wellbeing than for initially healthier respondents. Our findings may inform the trial and scientific evaluation of programs aimed at increasing informal social connectedness and civic engagement to promote mental wellbeing. PMID:25633762

  18. Math College-Readiness of Texas Community College Students: A Multi-Year Analysis

    Science.gov (United States)

    Abraham, Reni A.

    2013-01-01

    Purpose: The purpose of this study was to examine the college-readiness in math of Texas community college students using archival data from the Texas Higher Education Coordinating Board (THECB). Data analyzed were the rate of all first-time in college (FTIC) developmental education students who scored below the Texas college-readiness standards…

  19. The Faculty Identities of Community College Adjuncts Teaching in the Humanities: A Discourse Analysis Study

    Science.gov (United States)

    Thirolf, Kathryn Q.

    2012-01-01

    Research has shown that forming a professional identity is central in the process of becoming an effective teacher (Alsup, 2006; Danielewicz, 2001). Yet, little is known about the faculty identity development of part-time faculty, who represent nearly 70% of all faculty at community colleges (AFT Higher Education, 2009). Addressing this critical…

  20. An Analysis of the Community College Concept in the Socialist Republic of Viet Nam

    Science.gov (United States)

    Epperson, Cynthia K.

    2010-01-01

    The purpose of this study was to discover if core characteristics exist forming a Vietnamese community college model and to determine if the characteristics would explain the model. This study utilized three theoretical orientations while reviewing the existing literature, formulating the research questions, examining the data and drawing…

  1. Mobilizing a low-income African-American community around tobacco control: a force field analysis.

    Science.gov (United States)

    Ellis, G A; Reed, D F; Scheider, H

    1995-11-01

    A statewide tobacco control campaign in California has been highly successful in reducing public exposure to the health hazards of secondhand smoke. Over 250 cities and counties in California have enacted local ordinances to regulate smoking in public places and workplaces. Although low-income people of color are disproportionately affected by the use of tobacco, the issue of regulating secondhand smoke tends to be a lower priority in communities that are confronted by other, more immediately pressing social justice issues, such as high rates of violence and lack of economic opportunity. This article describes the process undertaken by a county health department to mobilize a low-income African American community in a San Francisco Bay Area city to support a local ordinance mandating 100% smoke-free workplaces and restaurants. These efforts are more likely to succeed if health advocates (1) reframe issues in a context that acknowledges the political, economic, and social justice realities and strengths of the community; (2) organize within existing local networks and foster the integration of tobacco issues into the group's existing work; and (3) can defer their own agendas during times of community grieving and healing. PMID:8550369

  2. Community Involvement and Victimization at School: An Analysis through Family, Personal and Social Adjustment

    Science.gov (United States)

    Jimenez, Teresa Isabel; Musitu, Gonzalo; Ramos, Manuel Jesus; Murgui, Sergio

    2009-01-01

    The present study analyzes the impact of adolescents' community involvement on victimization by peers at school through various indicators of family, personal and social adjustment (openness of communication with mother and father, life satisfaction, social self-esteem, and loneliness). Participating in the project were 565 adolescents aged 11 to…

  3. Factors Associated with Community Adjustment of Young Adults with Serious Emotional Disturbance: A Longitudinal Analysis.

    Science.gov (United States)

    Armstrong, Kathleen H.; Dedrick, Robert F.; Greenbaum, Paul E.

    2003-01-01

    Rates of change in behaviors in relation to community adjustment were examined for 292 participants in the 7-year longitudinal National Adolescent and Child Treatment Study (NACTS) as they transitioned to the adult world. Participants with initially higher social-adaptive behavior and whose behavior improved over time attained higher adjustment…

  4. Functional gene array-based analysis of microbial communities in heavy metals-contaminated lake sediments.

    Science.gov (United States)

    Kang, Sanghoon; Van Nostrand, Joy D; Gough, Heidi L; He, Zhili; Hazen, Terry C; Stahl, David A; Zhou, Jizhong

    2013-11-01

    Lake DePue (IL, USA) has been contaminated for > 80 years by an adjacent Zn-smelting facility. Previous work indicated that sulfate reduction increased and biomass declined as pore-water metal concentrations increased, while 16S rRNA gene profiles remained relatively stable. To better understand this phenomenon, the sediment microbial community structure and functional potential were investigated using a functional gene microarray (GeoChip) targeting > 10,000 functional genes. Nonmetric multidimensional scaling and clustering analyses showed that the overall community structure was similar across all sites based on the relative abundance of all detected genes, but some individual gene categories did show differences. A subset of sulfate reduction genes (dsr) and the most relevant metal resistance genes were more abundant than other categories and were highly correlated with metal contamination. The most significant correlations were between pore-water metal concentrations and dsr, with Zn, Cd, and Mn as the most predictive for the presence of dsr. These results suggest that metal contamination influences sediment microbial community structure and function by increasing the abundance of relevant metal-resistant and sulfate-reducing populations. These populations therefore appear to contribute significantly to the resistance and stability of the microbial communities throughout the gradient of metal contamination in Lake DePue. PMID:23710534

  5. Microbial community analysis of food-spoilage bacteria in commercial custard creams using culture-dependent and independent methods.

    Science.gov (United States)

    Arakawa, K; Kawai, Y; Iioka, H; Tanioka, M; Nishimura, J; Kitazawa, H; Tsurumi, K; Saito, T

    2008-08-01

    Custard cream is made from highly nutritive raw materials such as milk and sugar and is easily spoiled by the multiplication of specific microbial contaminants or residents. However, this spoilage microbial community has not been studied. We determined the spoilage microbiota in commercial custard creams using culture-dependent and independent methods. Using the culture-dependent analysis with various agar media, 185 bacterial colonies and 43 eukaryal colonies were isolated from 7 commercial custard cream products. All bacterial isolates were morphologically, physiologically, and genetically identified as bacilli, staphylococci, lactic acid bacteria, and psychrotrophic gram-negative rods. Using culture-independent molecular analysis, the PCR-denaturing gradient gel electrophoresis technique, spoilage of the commercial custard creams was found to be caused by bacilli, staphylococci, lactic acid bacteria, psychrotrophic gram-negative rods, Anoxybacillus sp., Caurobacter sp., and Streptococcus sp. bacteria. The detected spoilage bacteria were the same species as previously detected in spoiled milk products and shown in other reports, suggesting that spoilage bacteria in a raw material easily grow in processed foods made from milk. We determined the spoilage microbial communities in commercial custard creams, and these are the first data concerning spoilage microbiota in nonfermented processed foods using a culture-independent analysis. Our study will be useful for the manufacture and safe preservation of dairy products because the first step toward safe food preservation by food manufacturers is to understand the spoilage microbiota in a target food to select optimal preservatives and to reduce the use of food additives. PMID:18650270

  6. PhyloChip microarray analysis reveals altered gastrointestinal microbial communities in a rat model of colonic hypersensitivity

    Energy Technology Data Exchange (ETDEWEB)

    Nelson, T.A.; Holmes, S.; Alekseyenko, A.V.; Shenoy, M.; DeSantis, T.; Wu, C.H.; Andersen, G.L.; Winston, J.; Sonnenburg, J.; Pasricha, P.J.; Spormann, A.

    2010-12-01

    Irritable bowel syndrome (IBS) is a chronic, episodic gastrointestinal disorder that is prevalent in a significant fraction of western human populations; and changes in the microbiota of the large bowel have been implicated in the pathology of the disease. Using a novel comprehensive, high-density DNA microarray (PhyloChip) we performed a phylogenetic analysis of the microbial community of the large bowel in a rat model in which intracolonic acetic acid in neonates was used to induce long lasting colonic hypersensitivity and decreased stool water content and frequency, representing the equivalent of human constipation-predominant IBS. Our results revealed a significantly increased compositional difference in the microbial communities in rats with neonatal irritation as compared with controls. Even more striking was the dramatic change in the ratio of Firmicutes relative to Bacteroidetes, where neonatally irritated rats were enriched more with Bacteroidetes and also contained a different composition of species within this phylum. Our study also revealed differences at the level of bacterial families and species. The PhyloChip is a useful and convenient method to study enteric microflora. Further, this rat model system may be a useful experimental platform to study the causes and consequences of changes in microbial community composition associated with IBS.

  7. Pyrosequencing analysis yields comprehensive assessment of microbial communities in pilot-scale two-stage membrane biofilm reactors.

    Science.gov (United States)

    Ontiveros-Valencia, Aura; Tang, Youneng; Zhao, He-Ping; Friese, David; Overstreet, Ryan; Smith, Jennifer; Evans, Patrick; Rittmann, Bruce E; Krajmalnik-Brown, Rosa

    2014-07-01

    We studied the microbial community structure of pilot two-stage membrane biofilm reactors (MBfRs) designed to reduce nitrate (NO3(-)) and perchlorate (ClO4(-)) in contaminated groundwater. The groundwater also contained oxygen (O2) and sulfate (SO4(2-)), which became important electron sinks that affected the NO3(-) and ClO4(-) removal rates. Using pyrosequencing, we elucidated how important phylotypes of each "primary" microbial group, i.e., denitrifying bacteria (DB), perchlorate-reducing bacteria (PRB), and sulfate-reducing bacteria (SRB), responded to changes in electron-acceptor loading. UniFrac, principal coordinate analysis (PCoA), and diversity analyses documented that the microbial community of biofilms sampled when the MBfRs had a high acceptor loading were phylogenetically distant from and less diverse than the microbial community of biofilm samples with lower acceptor loadings. Diminished acceptor loading led to SO4(2-) reduction in the lag MBfR, which allowed Desulfovibrionales (an SRB) and Thiothrichales (sulfur-oxidizers) to thrive through S cycling. As a result of this cooperative relationship, they competed effectively with DB/PRB phylotypes such as Xanthomonadales and Rhodobacterales. Thus, pyrosequencing illustrated that while DB, PRB, and SRB responded predictably to changes in acceptor loading, a decrease in total acceptor loading led to important shifts within the "primary" groups, the onset of other members (e.g., Thiothrichales), and overall greater diversity. PMID:24917125

  8. Building ties: social capital network analysis of a forest community in a biosphere reserve in Chiapas, Mexico

    Directory of Open Access Journals (Sweden)

    Felipe Reyes

    2012-09-01

    Full Text Available Governance of the commons depends on the capacity to generate collective action. Networks and rules that foster that collective action have been defined as social capital. However, their causal link is still not fully understood. We use social network analysis to assess social capital, decision-making, and collective action in a forest-based common pool resource management in La Sepultura Biosphere Reserve (Chiapas, Mexico. Our research analyzes the productive networks and the evolution of coffee groups in one community. The network shows some centrality, with richer landholders tending to occupy core positions and poorer landless peasants occupying peripheral ones. This has fostered the community's environmentally oriented development but has also caused internal conflicts. Market requirements have shaped different but complementary productive networks, where organic coffee commercialization is the main source of bridging ties, which has resulted in more connectivity and resilience. Conservation attitudes, along with the institutional setting of the community, have promoted collective action. The unresolved conflicts, however, still leave some concerns about governance in the future.

  9. [Analysis of microbial community variation in the domestication process of sludge in a sulfate-reducing reactor].

    Science.gov (United States)

    Zeng, Guo-Qu; Jia, Xiao-Shan; Zheng, Xiao-Hong; Yang, Li-Ping; Sun, Guo-Ping

    2014-11-01

    The variations of microbial community in the sludge of sulfate-reducing UASB during domestication period were analyzed by PCR-DGGE technique. The results showed that the diversity of microbial community was strongly related to the sulfate reduction and COD removal performance. The sulfate reduction rate of the reactor was about 95% when the Shannon index of microbial community was higher than 3.45. The preponderant bands in DGGE figure were excised and cloned, and the sequencing analysis indicated there were Firmicutes, Proteobacteria, Deinococcus-Thermus and Chloroflexi in the sludge, which accounted for 50.0%, 28.6% 14.3% and 7.1% of the total sequences of samples, respectively. The anaerobic fermentative bacteria of Clostridium sp. were predominant in the whole domestication period, but the predominant species was changing. Some anaerobic bacteria like Chloroflexi sp. and Geopsychrobacter sp. were detected to be dominant species, which then disappeared along with further domestication, but anaerobic bacteria Geobacter sp. became gradually predominant in the domestication process. Species of Desulfovibrio sp. were detected to be predominant only in the last two phases of domestication. PMID:25639102

  10. Human Papillomavirus Community in Healthy Persons, Defined by Metagenomics Analysis of Human Microbiome Project Shotgun Sequencing Data Sets

    OpenAIRE

    Ma, Yingfei; Madupu, Ramana; Karaoz, Ulas; Nossa, Carlos W.; Yang, Liying; Yooseph, Shibu; Yachimski, Patrick S.; Brodie, Eoin L.; Nelson, Karen E.; Pei, Zhiheng

    2014-01-01

    Human papillomavirus (HPV) causes a number of neoplastic diseases in humans. Here, we show a complex normal HPV community in a cohort of 103 healthy human subjects, by metagenomics analysis of the shotgun sequencing data generated from the NIH Human Microbiome Project. The overall HPV prevalence was 68.9% and was highest in the skin (61.3%), followed by the vagina (41.5%), mouth (30%), and gut (17.3%). Of the 109 HPV types as well as additional unclassified types detected, most were undetecta...

  11. Recycling of carbon/energy taxes and the labor market. A general equilibrium analysis for the European Community

    International Nuclear Information System (INIS)

    A quantitative assessment of a cost shift from labor to energy by means of a carbon/energy tax is provided. In the analysis a general equilibrium model for the European Community is utilized, focusing on the modelling of labor supply. The importance of the feedback from an induced increase in labor demand to wage formation is highlighted. (It is shown that the goals of C)2 reduction and improved employment are complementary, provided that the reduction in labor costs, financed by the carbon/energy tax, is not offset by increased wage claims. Under this condition reduced CO2 is consistent with an increase in GDP. 1 fig., 3 tabs., 17 refs

  12. Prevalence and age of onset of Parkinson's disease in Cardiff: a community based cross sectional study and meta-analysis.

    OpenAIRE

    Wickremaratchi, Mm; Perera, D.; O Loghlen, C.; Sastry, D.; Morgan, E.; Jones, A.; Edwards, P.; Robertson, Np; Butler, C.; Morris, Hr; Ben-shlomo, Y.

    2009-01-01

    BACKGROUND: Previous prevalence studies of Parkinson's disease (PD) in the UK have spanned a 40 year period and have predominantly been in the North of the country. These have presented rates by current age but have not examined this by age at disease onset. METHODS: A community based prevalence study was undertaken which attempted to identify all clinically diagnosed cases of PD from primary and secondary care for the city of Cardiff, Wales, UK. A meta-analysis of all past studies in the UK,...

  13. Community patterns of stigma towards persons living with HIV: A population-based latent class analysis from rural Vietnam

    LENUS (Irish Health Repository)

    Pharris, Anastasia

    2011-09-18

    Abstract Background The negative effects of stigma on persons living with HIV (PLHIV) have been documented in many settings and it is thought that stigma against PLHIV leads to more difficulties for those who need to access HIV testing, treatment and care, as well as to limited community uptake of HIV prevention and testing messages. In order to understand and prevent stigma towards PLHIV, it is important to be able to measure stigma within communities and to understand which factors are associated with higher stigma. Methods To analyze patterns of community stigma and determinants to stigma toward PLHIV, we performed an exploratory population-based survey with 1874 randomly sampled adults within a demographic surveillance site (DSS) in rural Vietnam. Participants were interviewed regarding knowledge of HIV and attitudes towards persons living with HIV. Data were linked to socioeconomic and migration data from the DSS and latent class analysis and multinomial logistic regression were conducted to examine stigma group sub-types and factors associated with stigma group membership. Results We found unexpectedly high and complex patterns of stigma against PLHIV in this rural setting. Women had the greatest odds of belong to the highest stigma group (OR 1.84, 95% CI 1.42-2.37), while those with more education had lower odds of highest stigma group membership (OR 0.45, 95% CI 0.32-0.62 for secondary education; OR 0.19, 95% CI 0.10-0.35 for tertiary education). Long-term migration out of the district (OR 0.61, 95% CI 0.4-0.91), feeling at-risk for HIV (OR 0.42, 95% CI 0.27-0.66), having heard of HIV from more sources (OR 0.44, 95% CI 0.3-0.66), and knowing someone with HIV (OR 0.76, 95% CI 0.58-0.99) were all associated with lower odds of highest stigma group membership. Nearly 20% of the population was highly unsure of their attitudes towards PLHIV and persons in this group had significantly lower odds of feeling at-risk for HIV (OR 0.54, 95% CI 0.33-0.90) or of knowing someone with HIV (OR 0.32, 95% CI 0.22-0.46). Conclusions Stigma towards PLHIV is high generally, and very high in some sub-groups, in this community setting. Future stigma prevention efforts could be enhanced by analyzing community stigma sub-groups and tailoring intervention messages to community patterns of stigma.

  14. Phylogenetic analysis of atmospheric halotolerant bacterial communities at high altitude in an Asian dust (KOSA) arrival region, Suzu City

    International Nuclear Information System (INIS)

    The microbial communities transported by Asian desert dust (KOSA) events have attracted much attention as bioaerosols because the transported microorganisms are thought to influence the downwind ecosystems in Korea and Japan. However, the atmospheric microbial community has not been investigated at high altitude in the KOSA arrival area. In this study, to estimate the viability and diversity of atmospheric halotolerant bacteria, which are expected to resist to various environmental stresses as well as high salinities, bioaerosol samples were collected at 10 and 600 m above the ground within the KOSA arrival area, Suzu City, Japan, during KOSA events. During the sampling period, the particle numbers at 600 m were higher than those at 10 m, suggesting that large particles of aerosol fall from the high altitude of 600 m to the ground surface. The microorganisms in bioaerosol samples grew in media containing up to 15% NaCl concentrations demonstrating the viability of the halotolerant bacteria in bioaerosol samples. The PCR-DGGE analysis using 16S rDNA revealed that the bacterial species in NaCl-amended cultures were similar to the bacteria detected from the genomic DNA directly extracted from the bioaerosol samples. The 16S rDNA sequences of bacterial communities in bioaerosol samples were classified into 4 phylotypes belonging to the Bacilluscereus or Bacillussubtilis group. The bioaerosol samples collected at 600 m included 2 phylotypes belonging to B. subtilis, and onhylotypes belonging to B. subtilis, and one phylotype among all 4 phylotypes was identical between the samples at 10 and 600 m. In the atmosphere at 600 m, the halotolerant bacterial community was expected to remain viable, and the species composition was expected to include a few species of the genus Bacillus. During this investigation period, these atmospheric bacteria may have been vertically transported to the ground surface, where the long-range KOSA particle transport from China is frequently observed.

  15. Analysis: Economic Impacts of Wind Applications in Rural Communities; June 18, 2004 -- January 31, 2005

    Energy Technology Data Exchange (ETDEWEB)

    Pedden, M.

    2006-01-01

    The purpose of this report is to compile completed studies on the economic impact of wind farms in rural communities and then to compare these studies. By summarizing the studies in an Excel spreadsheet, the raw data from a study is easily compared with the data from other studies. In this way, graphs can be made and conclusions drawn. Additionally, the creation of a database in which economic impact studies are summarized allows a greater understanding of the type of information gathered in an economic impact study, the type of information that is most helpful in using these studies to promote wind energy development in rural communities, and the limitations on collecting data for these studies.

  16. Searching for feminism: an analysis of community psychology literature relevant to women's concerns.

    Science.gov (United States)

    Angelique, H L; Culley, M R

    2000-12-01

    Articles published in both the American Journal of Community Psychology and Journal of Community Psychology, from their inception in 1973 through 1997, were content analyzed for women relevance, diversity, feminism, and historical change. Overall, 9.8% of the articles reviewed (N = 2,178) were considered women relevant, 4% recognized diversity among women, and 3% were considered feminist. There was an average yearly increase in women-relevant and feminist articles from 7.3 pre-1990 to 11.2 post-1990, and 1.6 pre-1990 to 4.6 post-1990, respectively. Overall, mental health and motherhood were the most addressed content areas. Among feminist articles, gender roles and violence against women were most salient. Race and SES were the most noted issues of diversity in both women-relevant and feminist articles. While an increase in feminist publications by both journals is promising, stereotypes of women and other oppressed groups continue to be perpetuated. PMID:11109479

  17. Community Detecting and Feature Analysis in Real Directed Weighted Social Networks

    Directory of Open Access Journals (Sweden)

    Yao Liu

    2013-06-01

    Full Text Available Real social networks usually have some structural features of the complex networks, such as community structure, the scale-free degree distribution, clustering, "small world" network, dynamic evolution and so on. A new community detecting algorithm for directed and weighted social networks is proposed in this paper. Due to the use of more reference information, the accuracy of the algorithm is better than some of the typical detecting algorithms. And because of the use of heap structure and multi-task modular architecture, the algorithm also got a high computational efficiency than other algorithms. The effectiveness and efficiency of the algorithm is validated by experiments on real social networks. Based on the theories and models of complex networks, the features of the real large social networks are analyzed.

  18. Geographic analysis of thermal equilibria: A bioenergetic model for predicting thermal response of aquatic insect communities

    International Nuclear Information System (INIS)

    The thermal regime immediately downstream from bottom release reservoirs is often characterized by reduced diel and seasonal (winter warm/summer cool) conditions. These unusual thermal patterns have often been implicated as a primary factor underlying observed downstream changes in the species composition of aquatic macroinvertebrate communities. The potential mechanisms for selective elimination of benthic species by unusual thermal regimes has been reviewed. Although the effects of temperature on the rate and magnitude of larval growth and development has been included in the list of potential mechanisms, only recently have field studies below dams focused on this interrelationship. This study investigates the overall community structure as well as the seasonal pattern of larval growth and development for several univoltine species of insects in the Delaware River below or near the hypolimnetic discharge of the Cannonsville and Pepeacton dams. These dams, which are located on the West and East branches of the Delaware River, respectively, produce a thermal gradient extending about 70 km downstream

  19. Analysis of a benthic community food web using isotopically labelled potential food

    International Nuclear Information System (INIS)

    A series of experiments was designed to reveal the trophic structure of a benthic community using kelp holdfasts as microcosms within the kelp-bed community. The experimental food comprised zooplankton represented by 3H2O-labelled Artemia sp. eggs and nauplii (200 to 300 ?m), detritus derived from 14C-labelled kelp (60 to 90 ?m), and phytoplankton represented by 14C-labelled Dunaliella primolecta (5 to 10 ?m) cultures. Separate experiments of short duration (1 to 2 h) were used to indicate the primary consumers on each type of food, while longer experiments (4, 8 and 16 h) suggested the secondary consumers (coprophagous and carnivorous species). Several species were found to be omnivorous. (orig.)

  20. Comparative analysis of two community stressors' long-term mental health effects

    International Nuclear Information System (INIS)

    The investigation directly compared the long-term mental health consequences of two community-wide stressors, the Three Mile Island (TMI) nuclear accident and widespread unemployment due to layoff, in demographically comparable samples of women. Results showed a marked degree of similarity in the stressors' effects: Levels of subclinical symptomatology were elevated to similar degrees in each sample during the year following stressor onset, and symptom levels remained elevated in each sample 2 to 3 1/2 years later. Moreover, variables identified as predictors of enduring psychological distress were virtually identical for the two samples. Additional analyses revealed that the mental health status of unemployed husbands mediated the negative psychological effects of layoff on their wives. Implications of these results for understanding the long-term consequences of exposure to community-wide stress are discussed

  1. Metagenomic Analysis of Stress Genes in Microbial Mat Communities from Antarctica and the High Arctic

    OpenAIRE

    Varin, Thibault; Lovejoy, Connie; Jungblut, Anne D.; Vincent, Warwick F.; Corbeil, Jacques

    2012-01-01

    Polar and alpine microbial communities experience a variety of environmental stresses, including perennial cold and freezing; however, knowledge of genomic responses to such conditions is still rudimentary. We analyzed the metagenomes of cyanobacterial mats from Arctic and Antarctic ice shelves, using high-throughput pyrosequencing to test the hypotheses that consortia from these extreme polar habitats were similar in terms of major phyla and subphyla and consequently in their potential respo...

  2. A Community Stakeholder Analysis of Drug Resistance Strategies of Rural Native Hawaiian Youth

    OpenAIRE

    Okamoto, Scott K.; Helm, Susana; Delp, Justin A.; Stone, Kristina; Dinson, Ay-laina; Stetkiewicz, Jennifer

    2011-01-01

    This study examines and validates the drug resistance strategies identified by rural Hawaiian youth from prior research with a sample of community stakeholders on the Island of Hawai‘i. One hundred thirty-eight stakeholders with a vested interest in reducing youth substance use (i.e., teachers, principals, social service agency providers, and older youth) completed a web-based survey comprised of 15 drug-related problem situations and 413 responses developed by Hawaiian youth. The findings ...

  3. International Trade and Integration of the European Community : An Econometric Analysis

    OpenAIRE

    Jaquemin, Alexis; Sapir, Andre?

    1987-01-01

    The paper contributes to the policy debate on European integration by analyzing inte-Community trade and studying the structural determinants of intra-EC trade are distinguished: (1) factors related to inter-industry trade; (2) factors pertaining to intra-industry trade; (3) factors which reflect natural and policy-induced barriers to trade; and (4) factors reflecting supply constraints. Distinction is drawn between two contrasting factors that favor intra-area trade: those that foster econom...

  4. Mangrove community in an abandoned crick kiln: A structural and association analysis

    OpenAIRE

    Sumit Manna; Anirban Roy; Tushar Kanti Ghara

    2012-01-01

    Background: The presence of brick kiln along the Hoogly river sites of lower Bengal is very usualand this phenomenon is not only restricted to India alone but also to other south Asian countries.The abandoned brick kiln are important habitat for the formation of mangrove community due totidal action, loose silty substratum and less anthropogenic interference. In this context, the aim ofthe present study is to visualize how the structural and association pattern regulate the communitydynamics ...

  5. A comparative analysis of pressure sore treatment modalities in community settings

    OpenAIRE

    Small, N.; Mulder, M.; Mackenzie, M. J.; Nel, M.

    2002-01-01

    The management of pressure sores in community settings, poses a clinical problem which challenges the patient’s tolerance and the clinician’s diligence and ingenuity. Pressure sores can be painful, lead to infection and are associated with considerable morbidity and increased mortality (Patterson & Bennett, 1995:919; Bale, Banks, Hagelstein & Harding, 1998:65). Treatment costs of these wounds are high in terms of resources (Colin 1995:65; Wood, Griffiths & Stoner, 1997:256). H...

  6. Multisubstrate Isotope Labeling and Metagenomic Analysis of Active Soil Bacterial Communities

    OpenAIRE

    Verastegui, Y.; Cheng, J.; Engel, K.; Kolczynski, D.; Mortimer, S.; Lavigne, J.; Montalibet, J.; Romantsov, T.; Hall, M.; Mcconkey, B. J.; Rose, D. R.; Tomashek, J. J.; Scott, B. R.; Charles, T. C.; Neufeld, J. D.

    2014-01-01

    Soil microbial diversity represents the largest global reservoir of novel microorganisms and enzymes. In this study, we coupled functional metagenomics and DNA stable-isotope probing (DNA-SIP) using multiple plant-derived carbon substrates and diverse soils to characterize active soil bacterial communities and their glycoside hydrolase genes, which have value for industrial applications. We incubated samples from three disparate Canadian soils (tundra, temperate rainforest, and agricultural) ...

  7. Culture-independent analysis of bacterial communities in hemolymph of American lobsters with epizootic shell disease.

    Science.gov (United States)

    Quinn, Robert A; Smolowitz, Roxanna; Chistoserdov, Andrei Y

    2013-03-26

    Epizootic shell disease (ESD) of the American lobster Homarus americanus H. Milne Edwards, 1837 is a disease of the carapace that presents grossly as large, melanized, irregularly shaped lesions, making the lobsters virtually unmarketable because of their grotesque appearance. We analyzed the bacterial communities present in the hemolymph of lobsters with and without ESD using nested-PCR of the 16S rRNA genes followed by denaturing gradient gel electrophoresis. All lobsters tested (n = 42) had bacterial communities in their hemolymph, and the community profiles were highly similar regardless of the sampling location or disease state. A number of bacteria were detected in a high proportion of samples and from numerous locations, including a Sediminibacterium sp. closely related to a symbiont of Tetraponera ants (38/42) and a Ralstonia sp. (27/42). Other bacteria commonly encountered included various Bacteroidetes, Pelomonas aquatica, and a Novosphingobium sp. One bacterium, a different Sediminibacterium sp., was detected in 20% of diseased animals (n = 29), but not in the lobsters without signs of ESD (n = 13). The bacteria in hemolymph were not the same as those known to be present in lesion communities except for the detection of a Thalassobius sp. in 1 individual. This work demonstrates that hemolymph bacteremia and the particular bacterial species present do not correlate with the incidence of ESD, providing further evidence that microbiologically, ESD is a strictly cuticular disease. Furthermore, the high incidence of the same species of bacteria in hemolymph of lobsters may indicate that they have a positive role in lobster fitness, rather than in disease, and further investigation of the role of bacteria in lobster hemolymph is required. PMID:23548364

  8. A social constructivist analysis of the 2007 banking crisis: building trust and transparency through community currencies

    OpenAIRE

    Breitstein, Lance; Dini, Paolo

    2011-01-01

    This article examines the 2007 banking crisis from an interdisciplinary and, in particular, social constructivist perspective to identify its structural and systemic causes. After presenting and explaining a wide meta-theoretical framework that can accommodate different understandings of socio-economic action, it argues that some of the scale-invariant properties of community currency systems could usefully be applied to global finance. On this basis, it presents a concrete proposal for stren...

  9. Analysis of Fuel Cell Driven Ground Source Heat Pump Systems in Community Buildings

    OpenAIRE

    Jong-Keun Shin; Young-Don Choi; Dong-Hwa Jeong; Jae-Ki Byun

    2013-01-01

    In the present study, a fuel cell driven ground source heat pump (GSHP) system is applied in a community building and heat pump system performance is analyzed by computational methods. Conduction heat transfer between the brine pipe and ground is analyzed by TEACH code in order to predict the performance of the heat pump system. The predicted coefficient of performance (COP) of the heat pump system and the energy cost were compared with the variation of the location of the objective building,...

  10. Analysis of the Health Status of Foreign Brides in A Community Hospital in Taipei County.

    OpenAIRE

    Hua-Yu Wu; Fu-Hsiung Su; Shu-Chen Liu; Kai-Yang Sung; Hong-Jer Chang; Yi-Hui Liu

    2004-01-01

    Background: Very few studies regarding the health status of foreign brides in Taiwan areso far available. The purpose of this study was to analyze the health status offoreign brides in a community hospital setting in Taipei County.Methods: We retrieved and analyzed 493 foreign brides' medical records recordedbetween November 1, 2002 and October 31, 2003. The records included amedical history, physical examination parameters, serological test data forinfectious diseases, urinalysis for drug us...

  11. A multiple criteria analysis for-household solid waste management in the urban community of Dakar

    OpenAIRE

    Kapepula, K. M.; Colson, Ge?rard; Sabri, Karim; Thonart, Philippe

    2007-01-01

    Household solid waste management is a severe problem in big cities of developing countries. Mismanaged solid waste dumpsites produce bad sanitary, ecological and economic consequences for the whole population, especially for the poorest urban inhabitants. Dealing with this problem, this paper utilizes field data collected in the urban community of Dakar, in view of ranking nine areas of the city with respect to multiple criteria of nuisance. Nine criteria are built and organized in three fami...

  12. Ecological analysis of the first generation of community clinical oncology programs.

    OpenAIRE

    Schopler, J. H.

    1993-01-01

    OBJECTIVE. An ecological framework is proposed for assessing factors important to consider in allocating funds to promote sound performance of interorganizational programs. DATA SOURCE/STUDY SETTING. This framework is used to examine the first generation of Community Clinical Oncology Programs (CCOPs) funded by the National Cancer Institute (NCI) from 1983-1986 to coordinate clinical research activity at the local level. The research reported is based on secondary data collected for the Commu...

  13. The Analysis of Global Problems of the World Community and the Purposes of a Millenium ?????? ?????????? ??????? ???????? ?????????? ? ????? ???????????

    Directory of Open Access Journals (Sweden)

    Kizim Nikolay A.

    2010-04-01

    Full Text Available In article sights of scientists at modern global problems of the world community are analyzed. Results of researches on this point in question of scientists and the organizations are considered: the Roman club, the United Nations Organization, the World bank of reconstruction and development, the World Economic Forum. The history of researches of global problems of mankind is analyzed. Author's vision of classification of global problems of mankind is offered.? ?????? ????????????? ??????? ?????? ?? ??????????? ?????????? ???????? ???????? ??????????. ??????????????? ?????????? ???????????? ?? ??????? ??????? ?????? ? ???????????: ???????? ?????, ???, ?????????? ????? ????????????? ? ????????, ?????????? ?????????????? ??????. ???????????????? ??????? ???????????? ?????????? ??????? ????????????. ?????????? ????????? ??????? ????????????? ?????????? ??????? ????????????.

  14. Health and the Roma Community: analysis of the situation in Spain

    OpenAIRE

    La Parra Casado, Daniel

    2009-01-01

    The situation of the Spanish Roma population, in terms of health, was virtually unknown until now. Despite the importance of the Spanish Roma community, estimated to total approximately 500,000 to 700,000 people, it has been invisible in the National Health Surveys [Encuesta Nacional de Salud de España (ENSE)] that the Ministry of Health and Consumption, initially with the Centre of Sociological Research, and today, with the National Statistics Institute, has been producing in order to deter...

  15. Rural Communities on the Cambodian Central Plain: A Comparative Analysis Based on Five Communes

    Directory of Open Access Journals (Sweden)

    Jean-Christophe Diepart

    2013-05-01

    Full Text Available Introduction Rural Development in Cambodia in Transition With nearly 85 percent of its population living in rural communities, it is obvious that rural development issues occupy a prominent place in the overall development of Cambodia. As the country’s population rapidly increases, people in rural areas depend upon agriculture as their means of subsistence. In parallel, agriculture must meet the growing and diversifying urban food demand, while generating resources for export. The complex pro...

  16. Rural Communities on the Cambodian Central Plain: A Comparative Analysis Based on Five Communes

    OpenAIRE

    Jean-Christophe Diepart; Dr. Thomas Dogot; Ly Viboth; Loeung Chanthy; Bora Kathy

    2006-01-01

    Introduction Rural Development in Cambodia in Transition With nearly 85 percent of its population living in rural communities, it is obvious that rural development issues occupy a prominent place in the overall development of Cambodia. As the country’s population rapidly increases, people in rural areas depend upon agriculture as their means of subsistence. In parallel, agriculture must meet the growing and diversifying urban food demand, while generating resources for export. The complex ...

  17. Analysis of fecal Lactobacillus community structure in patients with early rheumatoid arthritis.

    Science.gov (United States)

    Liu, Xiaofei; Zou, Qinghua; Zeng, Benhua; Fang, Yongfei; Wei, Hong

    2013-08-01

    The objective of this study was to analyze human fecal Lactobacillus community and its relationship with rheumatoid arthritis. Samples taken from rheumatoid arthritis (RA) patients and healthy individuals were analyzed by quantitative real-time PCR. Bacterial DNA was extracted from feces, and amplicons of the Lactobacillus-specific regions of 16S rRNA were analyzed by denaturing gradient gel electrophoresis. The richness, Shannon-Wiener index, and evenness of gut microbiota of both groups were analyzed to compare fecal Lactobacillus community structures. Results of this study demonstrated that fecal microbiota of RA patients contained significantly more Lactobacillus (10.62 ± 1.72 copies/g) than the control group (8.93 ± 1.60 copies/g). Significant increases were observed in RA patients in terms of the richness, Shannon-Wiener, and evenness measures, indicating more bacterial species, and increased bacterial diversity and abundance. These results suggest a potential relationship between Lactobacillus communities and the development and progression of rheumatoid arthritis. PMID:23483307

  18. Phylogenetic analysis of epibacterial communities on the surfaces of four red macroalgae

    Science.gov (United States)

    Wu, Hongqing; Liu, Min; Zhang, Wuchang; Xiao, Tian

    2014-12-01

    Macroalgal surfaces are prone to being attached by bacteria. Epibacterial community structures on marine macroalgae are host-specific but temporally and spatially variable. In this study, we investigated the structure of epibacterial communities on the surfaces of four red macroalgae, Gracilaria lemaneiformis, Gloiopeltis furcata, Mazzaella sp. and Porphyra yezoensis, by analyzing the sequences of 16S rRNA gene libraries. Healthy individuals of all macroalgae species were collected in winter from a farm at Dalian, China. The results showed that the epibacterial communities were mainly dominated by ?-Proteobacteria, ?-Proteobacteria and Bacteroidetes. Deinococcus-Thermus, Spirochaetes and ?-Proteobacteria were also found. The majority of cloned sequences shared the greatest similarity to those of culturable organisms. A large portion of sequences from the ?-Proteobacteria homed in Roseobacter clade, i.e., genera Ahrensia, Roseovarius, Litoreibacter, Octadecabacter, Thaiassobacter and Sulfitobacter, while members of Bacteroidetes mainly belonged to family Flavobacteriaceae. The cloned sequences could be separated into 66 OTUs at 0.01 distance value, and rare common OTUs were found among libraries. At genus level, Pseudoalteromonas dominated Gr. lemaneiformis and Gl. furcata libraries, accounting for 72.2% and 47.3%, respectively. Sulfitobacter dominated P. yezoensis library, accounting for 35.4%. A previously undefined cluster within Deinococcus-Thermus dominated Mazzaella sp. library, accounting for 24.6% of the all. These results indicated that a broad range of bacteria inhabited the surfaces of these macroalgae.

  19. Integrated metagenomics and network analysis of soil microbial community of the forest timberline

    Science.gov (United States)

    Ding, Junjun; Zhang, Yuguang; Deng, Ye; Cong, Jing; Lu, Hui; Sun, Xin; Yang, Caiyun; Yuan, Tong; van Nostrand, Joy D.; Li, Diqiang; Zhou, Jizhong; Yang, Yunfeng

    2015-01-01

    The forest timberline responds quickly and markedly to climate changes, rendering it a ready indicator. Climate warming has caused an upshift of the timberline worldwide. However, the impact on belowground ecosystem and biogeochemical cycles remain elusive. To understand soil microbial ecology of the timberline, we analyzed microbial communities via 16s rRNA Illumina sequencing, a microarray-based tool named GeoChip 4.0 and a random matrix theory-based association network approach. We selected 24 sampling sites at two vegetation belts forming the timberline of Shennongjia Mountain in Hubei Province of China, a region with extraordinarily rich biodiversity. We found that temperature, among all of measured environmental parameters, showed the most significant and extensive linkages with microbial biomass, microbial diversity and composition at both taxonomic and functional gene levels, and microbial association network. Therefore, temperature was the best predictor for microbial community variations in the timberline. Furthermore, abundances of nitrogen cycle and phosphorus cycle genes were concomitant with NH4+-N, NO3--N and total phosphorus, offering tangible clues to the underlying mechanisms of soil biogeochemical cycles. As the first glimpse at both taxonomic and functional compositions of soil microbial community of the timberline, our findings have major implications for predicting consequences of future timberline upshift.

  20. Cultivation-independent analysis of microbial communities on Austrian raw milk hard cheese rinds.

    Science.gov (United States)

    Schornsteiner, Elisa; Mann, Evelyne; Bereuter, Othmar; Wagner, Martin; Schmitz-Esser, Stephan

    2014-06-16

    "Vorarlberger Bergkäse" (VB) is an Austrian artisanal hard cheese produced from raw cow's milk. The composition of its rind microbiota and the changes in the microbial communities during ripening have not previously been investigated. This study used 16S and 18S rRNA gene cloning and sequencing to characterize the bacterial and fungal communities of seven pooled cheese rind samples taken in seven different ripening cellars of three Austrian dairy facilities. A total of 408 clones for 16S and 322 clones for 18S rRNA gene libraries were used for taxonomic classification, revealing 39 bacterial and seven fungal operational taxonomic units (OTUs). Bacterial OTUs belonged to four different phyla. Most OTUs were affiliated to genera often found in cheese, including high numbers of coryneforms. The most abundant OTU from 16S rRNA gene libraries showed highest similarity to Halomonas. Young cheese rinds were dominated by Actinobacteria or Proteobacteria, particularly by Halomonas and Brevibacterium aurantiacum, while Staphyloccocus equorum was most abundant in old cheeses. The most abundant 18S rRNA OTU had highest similarity to the filamentous fungus Scopulariopsis brevicaulis. Pairwise correlation analyses revealed putative co-occurrences between a number of OTUs. It was possible to discriminate the different cheese rind microbiota at the community-level by facility affiliation and ripening time. This work provides insights into the microbial composition of VB cheese rinds and might allow the processing- and ripening conditions to be improved to enhance the quality of the product. PMID:24794620

  1. Specific deterrence, community context, and drunk driving: an event history analysis.

    Science.gov (United States)

    Lee, Chang-Bae; Teske, Raymond H C

    2015-03-01

    Previous studies about recidivism of offenders have focused primarily on the nature of the sanctions and factors specific to the individual offender. This study addressed both individual and community factors, using a cohort of felony-level, driving while intoxicated (DWI) probationers (N = 370) charged in Harris County, Texas. The study investigated specific deterrent effects of sanctions on success or failure of probationers while controlling for the community contexts to observe how informal social control processes contextualize individual-level predictors. Results of a series of event history analyses tracking probationers for a period of 8 years indicated that severity of punishment, swiftness of punishment, criminal history, and completion of DWI education programs significantly affected the probationer's survival time, whereas no significant influence of community contexts on survival time or success was observed. Reducing the felony charge to a misdemeanor, a shorter period of probation, and past criminal history, combined with an almost immediate guilty plea, were significantly associated with short-term failure on probation. PMID:25646012

  2. Multi-species community test (PICT-concept): analysis of pollution induced effects in aquatic systems using periphyton in situ communities; Biozoenotisches Testverfahren (PICT-Konzept). Analyse von Schadstoff-induzierten Effekten in Gewaessern mit autotrophen Aufwuchszoenosen

    Energy Technology Data Exchange (ETDEWEB)

    Schmitt-Jansen, M.; Reiners, S.; Altenburger, R. [UFZ - Umweltforschungszentrum Leipzig-Halle, Sektion Chemische Oekotoxikologie, Leipzig (Germany)

    2004-07-01

    A community test is introduced using in situ periphyton communities and the pollution induced community tolerance for ecotoxicological testing. It was the aim of the study to evaluate the feasibility of the test for the assessment of xenobiotics and contaminated environmental aquatic samples. We conclude that the test using periphyton communities and considering the development of tolerance is able to evaluate a causal analysis of chronic effects of pollutants on community level. The multi-species test using in situ communities reflects a higher biological organisation level than a single species laboratory test. (orig.) [German] Es wird ein biozoenotisches Testverfahren vorgestellt, das mit natuerlichem autotrophen Aufwuchs arbeitet und eingesetzt wurde, um eine Schadstoff-induzierte Toleranz von Lebensgemeinschaften zu detektieren. Es wurde geprueft, inwieweit sich das Testsystem zur prospektiven oekotoxikologischen Bewertung von Schadstoffen und der standortspezifischen Beurteilung von kontaminierten Umweltproben eignet. Das Testsystem mit Aufwuchsgemeinschaften ist unter Beruecksichtigung der Schadstoff-induzierten Toleranz in der Lage, eine Kausalanalyse der Schadstoffwirkung auf Gemeinschaftsebene, retrospektiv bei chronischer Belastung, zu leisten. Der Test kommt als Mehrartensystem mit in situ Lebensgemeinschaften der nauerlichen Komplexitaet eines Oekosystems naeher als die populationdynamische Wirkungsbeurteilung des Einzelartenlabortestsystems. (orig.)

  3. Community analysis of arbuscular mycorrhizal fungi in roots of Poncirus trifoliata and Citrus reticulata based on SSU rDNA.

    Science.gov (United States)

    Wang, Peng; Wang, Yin

    2014-01-01

    Morphological observation of arbuscular mycorrhizal fungi (AMF) species in rhizospheric soil could not accurately reflect the actual AMF colonizing status in roots, while molecular identification of indigenous AMF colonizing citrus rootstocks at present was rare in China. In our study, community of AMF colonizing trifoliate orange (Poncirus trifoliata L. Raf.) and red tangerine (Citrus reticulata Blanco) were analyzed based on small subunit of ribosomal DNA genes. Morphological observation showed that arbuscular mycorrhizal (AM) colonization, spore density, and hyphal length did not differ significantly between two rootstocks. Phylogenetic analysis showed that 173 screened AMF sequences clustered in at least 10 discrete groups (GLO1~GLO10), all belonging to the genus of Glomus Sensu Lato. Among them, GLO1 clade (clustering with uncultured Glomus) accounting for 54.43% clones was the most common in trifoliate orange roots, while GLO6 clade (clustering with Glomus intraradices) accounting for 35.00% clones was the most common in red tangerine roots. Although, Shannon-Wiener indices exhibited no notable differences between both rootstocks, relative proportions of observed clades analysis revealed that composition of AMF communities colonizing two rootstocks varied severely. The results indicated that native AMF species in citrus rhizosphere had diverse colonization potential between two different rootstocks in the present orchards. PMID:25162057

  4. Municipal solid waste management: Identification and analysis of engineering indexes representing demand and costs generated in virtuous Italian communities

    Energy Technology Data Exchange (ETDEWEB)

    Gamberini, R., E-mail: rita.gamberini@unimore.it; Del Buono, D.; Lolli, F.; Rimini, B.

    2013-11-15

    Highlights: • Collection and analysis of real life data in the field of Municipal Solid Waste (MSW) generation and costs for management. • Study of 92 virtuous Italian communities. • Elaboration of trends of engineering indexes useful during design and evaluation of MSWM systems. - Abstract: The definition and utilisation of engineering indexes in the field of Municipal Solid Waste Management (MSWM) is an issue of interest for technicians and scientists, which is widely discussed in literature. Specifically, the availability of consolidated engineering indexes is useful when new waste collection services are designed, along with when their performance is evaluated after a warm-up period. However, most published works in the field of MSWM complete their study with an analysis of isolated case studies. Conversely, decision makers require tools for information collection and exchange in order to trace the trends of these engineering indexes in large experiments. In this paper, common engineering indexes are presented and their values analysed in virtuous Italian communities, with the aim of contributing to the creation of a useful database whose data could be used during experiments, by indicating examples of MSWM demand profiles and the costs required to manage them.

  5. Top-down controls on bacterial community structure: microbial network analysis of bacteria, T4-like viruses and protists.

    Science.gov (United States)

    Chow, Cheryl-Emiliane T; Kim, Diane Y; Sachdeva, Rohan; Caron, David A; Fuhrman, Jed A

    2014-04-01

    Characterizing ecological relationships between viruses, bacteria and protists in the ocean are critical to understanding ecosystem function, yet these relationships are infrequently investigated together. We evaluated these relationships through microbial association network analysis of samples collected approximately monthly from March 2008 to January 2011 in the surface ocean (0-5 m) at the San Pedro Ocean Time series station. Bacterial, T4-like myoviral and protistan communities were described by Automated Ribosomal Intergenic Spacer Analysis and terminal restriction fragment length polymorphism of the gene encoding the major capsid protein (g23) and 18S ribosomal DNA, respectively. Concurrent shifts in community structure suggested similar timing of responses to environmental and biological parameters. We linked T4-like myoviral, bacterial and protistan operational taxonomic units by local similarity correlations, which were then visualized as association networks. Network links (correlations) potentially represent synergistic and antagonistic relationships such as viral lysis, grazing, competition or other interactions. We found that virus-bacteria relationships were more cross-linked than protist-bacteria relationships, suggestive of increased taxonomic specificity in virus-bacteria relationships. We also found that 80% of bacterial-protist and 74% of bacterial-viral correlations were positive, with the latter suggesting that at monthly and seasonal timescales, viruses may be following their hosts more often than controlling host abundance. PMID:24196323

  6. Municipal solid waste management: Identification and analysis of engineering indexes representing demand and costs generated in virtuous Italian communities

    International Nuclear Information System (INIS)

    Highlights: • Collection and analysis of real life data in the field of Municipal Solid Waste (MSW) generation and costs for management. • Study of 92 virtuous Italian communities. • Elaboration of trends of engineering indexes useful during design and evaluation of MSWM systems. - Abstract: The definition and utilisation of engineering indexes in the field of Municipal Solid Waste Management (MSWM) is an issue of interest for technicians and scientists, which is widely discussed in literature. Specifically, the availability of consolidated engineering indexes is useful when new waste collection services are designed, along with when their performance is evaluated after a warm-up period. However, most published works in the field of MSWM complete their study with an analysis of isolated case studies. Conversely, decision makers require tools for information collection and exchange in order to trace the trends of these engineering indexes in large experiments. In this paper, common engineering indexes are presented and their values analysed in virtuous Italian communities, with the aim of contributing to the creation of a useful database whose data could be used during experiments, by indicating examples of MSWM demand profiles and the costs required to manage them

  7. Multi criteria analysis for sustainability assessments of electricity generation systems in a rural community in South Africa

    Energy Technology Data Exchange (ETDEWEB)

    Amigun, B.; Mehlwana, M. [Council for Scientific and Industrial Research, Pretoria (South Africa). Sustainable Energy Futures, Natural Resources and the Environment; Musango, J.K. [Department of Energy (DoE), Pretoria (South Africa); Brent, A.C. [Stellenbosch Univ. (South Africa). Centre for Renewable and Sustainable Energy Studies

    2011-07-01

    One of the key challenges of the energy policy in South Africa is to ensure that rural areas have access to electricity. This is reflected in the key energy policy documents (the 1998 Energy White Paper and the 2002 Renewable Energy White Paper). Both these documents identified renewable energy resources as immediate alternatives to grid electricity in especially remote rural communities that are characterised by low population densities. Centralised energy generation and transmission is very costly and inefficient in these areas due to greater transmission and distribution losses. While the cost of electricity in South Africa is relatively cheaper, it is not accessible for many rural households. There are still over two million households in rural areas without access to electricity. This paper presents a multi-criteria decision analysis (MCDA) using the Analytical Hierarchy Process (AHP) technique to compare various electricity technologies (mainly renewables) in a specific rural community of South Africa using social, economic, environment and technical indicators. These technologies were than ranked against each indicator assuming that the high-level criteria have equal importance for sustainable development. It is demonstrated that energy from wind is the most sustainable, followed by photovoltaic, anaerobic digestion (biogas) and then gasification. A sensitivity analysis was also performed to verify the stability of the priority ranking. The outcome of this study will specifically assist energy planners and decision-makers to choose the best alternative from a range of technology alternatives in a milieu of conflicting and competing criteria. (orig.)

  8. Adirondack lakes survey: An interpretive analysis of fish communities and water chemistry, 1984--1987

    Energy Technology Data Exchange (ETDEWEB)

    Baker, J.P. (Baker (Joan P.), Raleigh, NC (USA)); Gherini, S.A.; Munson, R.K. (Tetra Tech, Inc., Pasadena, CA (USA)); Christensen, S.W. (Oak Ridge National Lab., TN (USA)); Driscoll, C.T. (Syracuse Univ., NY (USA)); Gallagher, J. (Adirondack Lakes Survey Corp., Ray Brook, NY (USA)); Newton, R.M. (Smith Coll., Northampton, MA (USA)); Reckhow, K.H. (Duke Univ., Durham, NC (USA)); Schofield, C.L. (Co

    1990-01-01

    The Adirondack Lakes Survey Corporation (ALSC) was formed as a cooperative effort of the New York State Department of Environmental Conservation and the Empire State Electric Energy Research Corporation to better characterize the chemical and biological status of Adirondack lakes. Between 1984 and 1987, the ALSC surveyed 1469 lakes within the Adirondack ecological zone. As a follow-up to the survey, the ALSC sponsored a series of interpretive analyses of the ALSC data base. The primary objectives of these analyses were as follows: Evaluate the influence of mineral acids (from acidic deposition) and nonmineral acids (natural organic acids) on lake pH levels; classify Adirondack lakes according to lake and watershed features expected to influence their responsiveness to changes in acidic deposition; evaluate the sensitivity of Adirondack lakes to changes in environmental conditions, such as changes in mineral acids or dissolved organic carbon concentrations; identify lake characteristics important in explaining the observed present-day status of fish communities in Adirondack lakes, in particular the relative importance of lake acidity; evaluate changes that have occurred over time in Adirondack fish communities and probable causes for these trends by using the available historical data on fish communities in the Adirondacks and the ALSC data base; and determine the degree to which the existing fish resource might be at risk from continued acidic deposition, or might recover if acidity levels were reduced. The basic approach examined relationships observed in the ALSC data base among watershed characteristics, lake chemistry, and fish status. Individual reports are processed separately for the data bases.

  9. Comparative analysis of bacterial communities in a potato field as determined by pyrosequencing

    DEFF Research Database (Denmark)

    Inceoglu, Özgül; Abu Al-Soud, Waleed

    2011-01-01

    Background: Plants selectively attract particular soil microorganisms, in particular consumers of root-excreted compounds. It is unclear to what extent cultivar type and/or growth stage affect this process. Methodology/Principal Findings: DNA-based pyrosequencing was used to characterize the structure of bacterial communities in a field cropped with potato. The rhizospheres of six cultivars denoted Aveka, Aventra, Karnico, Modena, Premiere and Desiree, at three growth stages (young, flowering and senescence) were examined, in addition to corresponding bulk soils. Around 350,000 sequences were obtained (5,700 to 38,000 per sample). Across all samples, rank abundance distributions best fitted the power law model, which indicates a community composed of a few highly dominant species next to numerous rare species. Grouping of the sequences showed that members of the Actinobacteria, Alphaproteobacteria, next to as-yet-unclassified bacteria, dominated. Other groups that were consistently found, albeit at lower abundance, were Beta-, Gamma- and Deltaproteobacteria and Acidobacteria. Principal components analyses revealed that rhizosphere samples were significantly different from corresponding bulk soil in each growth stage. Furthermore, cultivar effects were found in the young plant stage, whereas these became insignificant in the flowering and senescence stages. Besides, an effect of time of season was observed for both rhizosphere and bulk soils. The analyzed rhizosphere samples of the potato cultivars were grouped into two groups, in accordance with the allocation of carbon to starch in their tubers, i.e. Aveka, Aventra and Karnico (high) versus Premiere and Desiree (low) and thus replicates per group were established. Conclusions: Across all potato cultivars, the young plant stages revealed cultivar-dependent bacterial community structures, which disappeared in the flowering and senescence stages. Furthermore, Pseudomonas, Beta-, Alpha- and Deltaproteobacteria flourished under different ecological conditions than the Acidobacteria.

  10. Analysis of behavioral change techniques in community-led total sanitation programs.

    Science.gov (United States)

    Sigler, Rachel; Mahmoudi, Lyana; Graham, Jay Paul

    2015-03-01

    The lack of sanitation facilitates the spread of diarrheal diseases-a leading cause of child deaths worldwide. As of 2012, an estimated 1 billion people still practiced open defecation (OD). To address this issue, one behavioral change approach used is community-led total sanitation (CLTS). It is now applied in an estimated 66 countries worldwide, and many countries have adopted this approach as their main strategy for scaling up rural sanitation coverage. While it appears that many of the activities used in CLTS-that target community-level changes in sanitation behaviors instead of household-level changes-have evolved out of existing behavior change frameworks and techniques, it is less clear how these activities are adapted by different organizations and applied in different country contexts. The aims of this study are to (i) show which behavior change frameworks and techniques are the most common in CLTS interventions; (ii) describe how activities are implemented in CLTS interventions by region and context; and (3) determine which activities program implementers considered the most valuable in achieving open defecation free (ODF) status and sustaining it. The results indicate that a wide range of activities are conducted across the different programs and often go beyond standard CLTS activities. CLTS practitioners ranked follow-up and monitoring activities as the most important activities for achieving an ODF community, yet only 1 of 10 organizations conducted monitoring and follow-up throughout their project. Empirical studies are needed to determine which specific behavioral change activities are most effective at ending OD and sustaining it. PMID:25209916

  11. Trenton ICES: demonstration of a grid connected integrated community energy system. Phase II. Volume 3. Preliminary design of ICES system and analysis of community ownership: computer printouts

    Energy Technology Data Exchange (ETDEWEB)

    1978-03-22

    This volume supplements Vol. 2 and consists entirely of computer printouts. The report consists of three parts: (1) hourly log of plant simulation based on 1982 ICES Community, with thermal storage, on-peak and off-peak electric generation, and 80% maximum kW trip-off; (2) same as (1) except without thermal storage; and (3) hourly load and demand profiles--1979, 1980, and 1982 ICES communities.

  12. A comparative analysis of pressure sore treatment modalities in community settings

    Directory of Open Access Journals (Sweden)

    N. Small

    2002-09-01

    Full Text Available The management of pressure sores in community settings, poses a clinical problem which challenges the patient’s tolerance and the clinician’s diligence and ingenuity. Pressure sores can be painful, lead to infection and are associated with considerable morbidity and increased mortality (Patterson & Bennett, 1995:919; Bale, Banks, Hagelstein & Harding, 1998:65. Treatment costs of these wounds are high in terms of resources (Colin 1995:65; Wood, Griffiths & Stoner, 1997:256. However, since there are untold cost in terms of pain and suffering to the patient, it is impossible to calculate the true cost of pressure sores (Dealey, 1994:87.

  13. 16S rDNA pyrosequencing analysis of bacterial community in heavy metals polluted soils

    OpenAIRE

    Go?e?biewski, Marcin; Deja-sikora, Edyta; Cichosz, Marcin; Tretyn, Andrzej; Wro?bel, Borys

    2014-01-01

    Soil contamination with heavy metals is a widespread problem, especially prominent on grounds lying in the vicinity of mines, smelters, and other industrial facilities. Many such areas are located in Southern Poland; they are polluted mainly with Pb, Zn, Cd, or Cu, and locally also with Cr. As for now, little is known about most bacterial species thriving in such soils and even less about a core bacterial community—a set of taxa common to polluted soils. Therefore, we wanted to answer the q...

  14. Hierarchical spatial point process analysis for a plant community with high biodiversity

    DEFF Research Database (Denmark)

    Illian, Janine B.; MØller, Jesper

    2009-01-01

    A complex multivariate spatial point pattern of a plant community with high biodiversity is modelled using a hierarchical multivariate point process model. In the model, interactions between plants with different post-fire regeneration strategies are of key interest. We consider initially a maximum likelihood approach to inference where problems arise due to unknown interaction radii for the plants. We next demonstrate that a Bayesian approach provides a flexible framework for incorporating prior information concerning the interaction radii. From an ecological perspective, we are able both to confirm existing knowledge on species' interactions and to generate new biological questions and hypotheses on species' interactions. Udgivelsesdato: September

  15. Spatial point process analysis for a plant community with high biodiversity

    DEFF Research Database (Denmark)

    Illian, Janine; MØller, Jesper

    2006-01-01

    A complex multivariate spatial point pattern for a plant community with high biodiversity is modelled using a hierarchical multivariate point process model. In the model, interactions between plants with different post-fire regeneration strategies are of key interest. We consider initially a maximum likelihood approach to inference where problems arise due to unknown interaction radii for the plants. We next demonstrate that a Bayesian approach provides a flexible framework for incorporating prior information concerning the interaction radii. From an ecological perspective, we are able both to confirm existing knowledge on species' interactions and to generate new biological questions and hypotheses on species' interactions.

  16. Comparative molecular analysis of chemolithoautotrophic bacterial diversity and community structure from coastal saline soils, Gujarat, India

    Directory of Open Access Journals (Sweden)

    Yousuf Basit

    2012-07-01

    Full Text Available Abstract Background Soils harbour high diversity of obligate as well as facultative chemolithoautotrophic bacteria that contribute significantly to CO2 dynamics in soil. In this study, we used culture dependent and independent methods to assess the community structure and diversity of chemolithoautotrophs in agricultural and coastal barren saline soils (low and high salinity. We studied the composition and distribution of chemolithoautotrophs by means of functional marker gene cbbL encoding large subunit of ribulose-1,5-bisphosphate carboxylase/oxygenase and a phylogenetic marker 16S rRNA gene. The cbbL form IA and IC genes associated with carbon fixation were analyzed to gain insight into metabolic potential of chemolithoautotrophs in three soil types of coastal ecosystems which had a very different salt load and sulphur content. Results In cbbL libraries, the cbbL form IA was retrieved only from high saline soil whereas form IC was found in all three soil types. The form IC cbbL was also amplified from bacterial isolates obtained from all soil types. A number of novel monophyletic lineages affiliated with form IA and IC phylogenetic trees were found. These were distantly related to the known cbbL sequences from agroecosystem, volcanic ashes and marine environments. In 16S rRNA clone libraries, the agricultural soil was dominated by chemolithoautotrophs (Betaproteobacteria whereas photoautotrophic Chloroflexi and sulphide oxidizers dominated saline ecosystems. Environmental specificity was apparently visible at both higher taxonomic levels (phylum and lower taxonomic levels (genus and species. The differentiation in community structure and diversity in three soil ecosystems was supported by LIBSHUFF (P?=?0.001 and UniFrac. Conclusion This study may provide fundamentally new insights into the role of chemolithoautotrophic and photoautotrophic bacterial diversity in biochemical carbon cycling in barren saline soils. The bacterial communities varied greatly among the three sites, probably because of differences in salinity, carbon and sulphur contents. The cbbL form IA-containing sulphide-oxidizing chemolithotrophs were found only in high saline soil clone library, thus giving the indication of sulphide availability in this soil ecosystem. This is the first comparative study of the community structure and diversity of chemolithoautotrophic bacteria in coastal agricultural and saline barren soils using functional (cbbL and phylogenetic (16S rDNA marker genes.

  17. Community Media: Muting the Democratic Media Discourse?

    OpenAIRE

    Carpentier, N.; Lie, R.; Servaes, J.

    2003-01-01

    Focuses on the concept of community media. Components that construct the identity of community media; Multi-theoretical approaches for analysis of community media; Definition of community media based on the concept of alternative media; Link between community media and civil society; Problems faced by community media organizations in European countries.

  18. Comparative metagenomic analysis of soil microbial communities across three hexachlorocyclohexane contamination levels.

    Science.gov (United States)

    Sangwan, Naseer; Lata, Pushp; Dwivedi, Vatsala; Singh, Amit; Niharika, Neha; Kaur, Jasvinder; Anand, Shailly; Malhotra, Jaya; Jindal, Swati; Nigam, Aeshna; Lal, Devi; Dua, Ankita; Saxena, Anjali; Garg, Nidhi; Verma, Mansi; Kaur, Jaspreet; Mukherjee, Udita; Gilbert, Jack A; Dowd, Scot E; Raman, Rajagopal; Khurana, Paramjit; Khurana, Jitendra P; Lal, Rup

    2012-01-01

    This paper presents the characterization of the microbial community responsible for the in-situ bioremediation of hexachlorocyclohexane (HCH). Microbial community structure and function was analyzed using 16S rRNA amplicon and shotgun metagenomic sequencing methods for three sets of soil samples. The three samples were collected from a HCH-dumpsite (450 mg HCH/g soil) and comprised of a HCH/soil ratio of 0.45, 0.0007, and 0.00003, respectively. Certain bacterial; (Chromohalobacter, Marinimicrobium, Idiomarina, Salinosphaera, Halomonas, Sphingopyxis, Novosphingobium, Sphingomonas and Pseudomonas), archaeal; (Halobacterium, Haloarcula and Halorhabdus) and fungal (Fusarium) genera were found to be more abundant in the soil sample from the HCH-dumpsite. Consistent with the phylogenetic shift, the dumpsite also exhibited a relatively higher abundance of genes coding for chemotaxis/motility, chloroaromatic and HCH degradation (lin genes). Reassembly of a draft pangenome of Chromohalobacter salaxigenes sp. (?8X coverage) and 3 plasmids (pISP3, pISP4 and pLB1; 13X coverage) containing lin genes/clusters also provides an evidence for the horizontal transfer of HCH catabolism genes. PMID:23029440

  19. Bacterial community analysis of swine manure treated with autothermal thermophilic aerobic digestion.

    Science.gov (United States)

    Han, Il; Congeevaram, Shankar; Ki, Dong-Won; Oh, Byoung-Taek; Park, Joonhong

    2011-02-01

    Due to the environmental problems associated with disposal of livestock sludge, many stabilization studies emphasizing on the sludge volume reduction were performed. However, little is known about the microbial risk present in sludge and its stabilized products. This study microbiologically explored the effects of anaerobic lagoon fermentation (ALF) and autothermal thermophilic aerobic digestion (ATAD) on pathogen-related risk of raw swine manure by using culture-independent 16S rDNA cloning and sequencing methods. In raw swine manure, clones closely related to pathogens such as Dialister pneumosintes, Erysipelothrix rhusiopathiae, Succinivibrioan dextrinosolvens, and Schineria sp. were detected. Meanwhile, in the mesophilic ALF-treated swine manure, bacterial community clones closely related to pathogens such as Schineria sp. and Succinivibrio dextrinosolvens were still detected. Interestingly, the ATAD treatment resulted in no detection of clones closely related to pathogens in the stabilized thermophilic bacterial community, with the predominance of novel Clostridia class populations. These findings support the superiority of ATAD in selectively reducing potential human and animal pathogens compared to ALF, which is a typical manure stabilization method used in livestock farms. PMID:20922382

  20. The effects of community factors on school participation in Turkey: A multilevel analysis

    Science.gov (United States)

    Gumus, Sedat

    2014-05-01

    Turkey, like many developing countries, is facing considerable problems in terms of low school attendance rates, late enrolment and early dropout of girls in particular. Numerous studies have already been conducted, both in Turkey and elsewhere, to determine the factors affecting school enrolment of boys and girls. Existing studies in Turkey, however, have focused extensively on the association between household-level factors and school participation, ignoring the role of the broader environment in which children live. Using a recent, large-scale and nationally representative data set, this paper investigates school participation at both primary and secondary levels in Turkey, giving specific attention to community- level factors. In taking into account socioeconomic context variables using the multilevel modelling method, this study contributes significantly to current school participation literature in Turkey. The author's findings highlight the importance of community/context factors in explaining low school enrolment in Turkey. The results of the study can help policy makers develop a systematic understanding of the relationship between socioeconomic context and school participation, and enable them to make more appropriate decisions for improving school participation across the country.

  1. Analysis of Fuel Cell Driven Ground Source Heat Pump Systems in Community Buildings

    Directory of Open Access Journals (Sweden)

    Jong-Keun Shin

    2013-05-01

    Full Text Available In the present study, a fuel cell driven ground source heat pump (GSHP system is applied in a community building and heat pump system performance is analyzed by computational methods. Conduction heat transfer between the brine pipe and ground is analyzed by TEACH code in order to predict the performance of the heat pump system. The predicted coefficient of performance (COP of the heat pump system and the energy cost were compared with the variation of the location of the objective building, the water saturation rate of the soil, and the driven powers of the heat pump system. Compared to the late-night electricity driven system, a significant reduction of energy cost can be accomplished by employing the fuel cell driven heat pump system. This is due to the low cost of electricity production of the fuel cell system and to the application of the recovered waste heat generated during the electricity production process to the heating of the community building.

  2. Nitrogen removal efficiency and microbial community analysis of ANAMMOX biofilter at ambient temperature.

    Science.gov (United States)

    Taotao, Zeng; Dong, Li; Huiping, Zeng; Shuibo, Xie; Wenxin, Qiu; Yingjiu, Liu; Jie, Zhang

    2015-03-01

    An upflow anaerobic biofilter (AF) was developed to investigate anaerobic ammonium-oxidizing (ANAMMOX) efficiency in treating low-strength wastewater at ambient temperature (15.3-23.2 °C). Denaturing gradient gel electrophoresis (DGGE) and fluorescence in situ hybridization were used to investigate treatment effects on the microbial community. Stepwise decreases in influent ammonia concentration could help ANAMMOX bacteria selectively acclimate to low-ammonia conditions. With an influent ammonia concentration of 46.5 mg/L, the AF reactor obtained an average nitrogen removal rate of 2.26 kg/(m(3) day), and a removal efficiency of 75.9%. polymerase chain reaction-DGGE results showed that microbial diversity in the low matrix was greater than in the high matrix. Microbial community structures changed when the influent ammonia concentration decreased. The genus of functional ANAMMOX bacteria was Candidatus Kuenenia stuttgartiensis, which remained stationary across study phases. Visual observation revealed that the relative proportions of ANAMMOX bacteria decreased from 41.6 to 36.3% across three study phases. The AF bioreactor successfully maintained high activity due to the ANAMMOX bacteria adaptation to low temperature and substrate conditions. PMID:25768219

  3. [Microbial community structure analysis of unexploited oil and gas fields by PCR-DGGE].

    Science.gov (United States)

    Man, Peng; Qi, Hong-Yan; Hu, Qing; Ma, An-Zhou; Bai, Zhi-Hui; Zhuang, Guo-Qiang

    2012-01-01

    Microbial communities of different depths (30, 60, 100, 150, 200cm) from the unexploited oilfield, gas field and control area were studied by PCR-DGGE and sequencing methods. The objectives of this study were to understand the microbial distribution in the regions of unexploited oil and gas fields, and to investigate the potential microbial indicators of oil and gas resources. The results showed that the Dice coefficients between different depths were very low (26-69.9). The microbial communities in the soil of 150 cm and 200 cm depth had greater richness (S > or = 19), diversity (H > or = 2.69) and evenness (E > or = 0. 90). The results of sequencing demonstrated that the bands from oilfield were mainly grouped into alpha-Proteobacteria, gamma-Proteobacteria, Actinobacteria, Acidobacteria with the predominance of gamma-Proteobacteria (75%). Most of the bands were related to oil-associated and hydrocarbon degrading bacteria, such as Methylophaga and Alcanivorax. While the gas field had alpha, beta, gamma, delta-Proteobacteria and Bacteroidetes, and gamma-Proteobacteria accounted for only 24%. More strains showed relativity to methanotrophs, such as Methylocystaceae. Thus, 150 cm and 200 cm were more suitable as the oil-gas exploration sampling depth. Methylocystaceae may act as potential indicators for gas resources, Methylophaga and Alcanivorax for oil. PMID:22452227

  4. Microbial community analysis of Deepwater Horizon oil-spill impacted sites along the Gulf coast using functional and phylogenetic markers.

    Science.gov (United States)

    Looper, Jessica K; Cotto, Ada; Kim, Byung-Yong; Lee, Ming-Kuo; Liles, Mark R; Ní Chadhain, Sinéad M; Son, Ahjeong

    2013-10-01

    We investigated the impact of the Deepwater Horizon oil spill on microbial communities in wetland sediment and seawater samples collected from sites along the Gulf shore. Based on GC/MS analysis, the sediment from Bay Jimmy, LA had detectable signs of hydrocarbon contamination, identified as n-alkanes in the GC/MS spectrum similar to that of the Deepwater Horizon source oil (MC-252). To identify changes in microbial assemblage structure and functional diversity in response to hydrocarbon contamination, five genes (bacterial 16S rRNA, Pseudomonas-specific 16S rRNA, alkB, P450, and PAH-RHD?) were selected based on the specific enzymes encoded by bacteria to degrade alkanes or polycyclic aromatic hydrocarbons. A quantitative PCR analysis revealed the presence of alkane and PAH-degrading genes in both contaminated and non-contaminated samples with no significant difference in gene content between contaminated and non-contaminated samples. However, the ribotype analysis based on pyrosequencing identified 17 bacteria genera known for their capacity to degrade hydrocarbons, including Mycobacterium, Novosphingobium, Parvibaculum, Pseudomonas, and Sphingomonas, in the contaminated sediment sample. Furthermore, the contaminated sample had a very high relative abundance of 16S rRNA gene sequences affiliated with the genus Parvibaculum, members of which have been characterized for their degradative abilities. These data suggest that specific bacterial taxa within the genus Parvibaculum have the capacity for hydrocarbon degradation and could use the hydrocarbons as a carbon and energy source, resulting in a dominant population in a hydrocarbon-contaminated soil. In summary, when exposed to the spilled oil, the distinct wetland microbial communities responded with decreased diversity and increased abundance of selective degradative species. PMID:24061682

  5. Higher Education Research as Tribe, Territory and/or Community: A Co-Citation Analysis

    Science.gov (United States)

    Tight, Malcolm

    2008-01-01

    This article builds upon existing research which has been mapping and analysing the field of higher education research, and, in particular, on the analysis of the articles (n = 406) in 17 specialist higher education journals published in the English language outside of North America during the year 2000. It extends that analysis by examining the…

  6. COMMUNITY RIGHT-TO-KNOW AND EMERGENCY PLANNING: USING COMPUTERS TO CONDUCT HAZARDS ANALYSIS

    Science.gov (United States)

    The paper discusses the process of hazards analysis and the basic building blocks of systems used for data storage, retrieval, correlation, and analysis, to better inform people choosing and/or evaluating the systems. The remainder of the paper discusses: (1) the process of hazar...

  7. Project Final Report: Building a Community Infrastructure for Scalable On-Line Performance Analysis Tools around Open|SpeedShop

    Energy Technology Data Exchange (ETDEWEB)

    Galarowicz, James

    2014-01-06

    In this project we created a community tool infrastructure for program development tools targeting Petascale class machines and beyond. This includes tools for performance analysis, debugging, and correctness tools, as well as tuning and optimization frameworks. The developed infrastructure provides a comprehensive and extensible set of individual tool building components. We started with the basic elements necessary across all tools in such an infrastructure followed by a set of generic core modules that allow a comprehensive performance analysis at scale. Further, we developed a methodology and workflow that allows others to add or replace modules, to integrate parts into their own tools, or to customize existing solutions. In order to form the core modules, we built on the existing Open|SpeedShop infrastructure and decomposed it into individual modules that match the necessary tool components. At the same time, we addressed the challenges found in performance tools for petascale systems in each module. When assembled, this instantiation of community tool infrastructure provides an enhanced version of Open|SpeedShop, which, while completely different in its architecture, provides scalable performance analysis for petascale applications through a familiar interface. This project also built upon and enhances capabilities and reusability of project partner components as specified in the original project proposal. The overall project team’s work over the project funding cycle was focused on several areas of research, which are described in the following sections. The reminder of this report also highlights related work as well as preliminary work that supported the project. In addition to the project partners funded by the Office of Science under this grant, the project team included several collaborators who contribute to the overall design of the envisioned tool infrastructure. In particular, the project team worked closely with the other two DOE NNSA laboratories Los Alamos and Sandia leveraging co-funding for Krell by ASC’s Common Computing Environment (CCE) program as laid out in the original proposal. The ASC CCE co-funding, coordinated through LLNL, was for 50% of the total project funding, with the ASC CCE portion of the funding going entirely to Krell, while the ASCR funding itself was split between Krell and the funded partners. This report covers the entire project from both funding sources. Additionally, the team leveraged the expertise of software engineering researchers from Carnegie Mellon University, who specialize in software framework design, in order to achieve a broadly acceptable component framework. The Component Based Tool Framework (CBTF) software has been released to the community. Information related to the project and the released software can be found on the CBTF wiki page at: http://sourceforge.net/p/cbtf/wiki/Home

  8. Microarray-based analysis of survival of soil microbial community during ozonation

    Energy Technology Data Exchange (ETDEWEB)

    Wang, Jian; Van Nostrand, Joy D.; He, Zhili; Wu, Liyou; Deng, Ye; Zhang, Xu; Zhou, Jizhong; Li, Guanghe

    2010-05-17

    A 15 h ozonation was performed on bioremediated soil to remove recalcitrant residual oil. To monitor the survival of indigenous microorganisms in the soil during in-situ chemical oxidation(ISCO) culturing and a functional genearray, GeoChip, was used to examine the functional genes and structure of the microbial community during ozonation (0h, 2h, 4h, 6h, 10hand15h). Breakthrough ozonation decreased the population of cultivable heterotrophic bacteria by about 3 orders of magnitude. The total functional gene abundance and diversity decreased during ozonation, as the number of functional genes was reduced by 48percent after 15 h. However, functional genes were evenly distributed during ozonation as judged by the Shannon-Weaver Evenness index. A sharp decrease in gene number was observed in the first 6 h of ozonation followed by a slower decrease in the next 9 h, which was consistent with microbial populations measured by a culture based method. Functional genes involved in carbon, nitrogen, phosphors and sulfur cycling, metal resistance and organic remediation were detected in all samples. Though the pattern of gene categories detected was similar for all time points, hierarchica lcluster of all functional genes and major functional categories all showed a time-serial pattern. Bacteria, archaea and fungi decreased by 96.1percent, 95.1percent and 91.3percent, respectively, after 15 h ozonation. Delta proteobacteria, which were reduced by 94.3percent, showed the highest resistance to ozonation while Actinobacteria, reduced by 96.3percent, showed the lowest resistance. Microorganisms similar to Rhodothermus, Obesumbacterium, Staphylothermus, Gluconobacter, and Enterococcus were dominant at all time points. Functional genes related to petroleum degradation decreased 1~;;2 orders of magnitude. Most of the key functional genes were still detected after ozonation, allowing a rapid recovery of the microbial community after ozonation. While ozone had a large impact on the indigenous soil microorganisms, a fraction of the key functional gene-containing microorganisms survived during ozonation and kept the community functional.

  9. Distance learning students in “communities of practice” An analysis of nursing education offered in three different learning programmes.

    Directory of Open Access Journals (Sweden)

    Trine Ungermann Fredskild

    2008-11-01

    Full Text Available The purpose of this study was to understand the impact of the distance learning programme on learning processes in nursing education. It was the purpose to highlight the differences and similarities in the traditional nursing programme vs. the distance learning programme. Empirically, the article builds on a comparative study of two Danish nursing schools and three different nursing classes, including one based on the distance learning programme. The three different nursing classes cover the ways of studying in nursing education in Denmark. Observations were conducted with the classes as a whole. Interviews were conducted with 7 students from the distance learning programme, 6 from the traditional programme and 5 from the credit transfer class. The interpretative approach was selected to form the background of this study. The observation, as well as the interview guide was formed on the basis of Etienne Wengers theory: “Learning in communities of practice”. The analysis was based on concepts from the same theoretical background, as the observations and interviews. Findings from the study show that the distance-learning students have a selective and targeted way of engaging in communities of practice. Findings in relation to age, to being well prepared and feeling responsible for own learning, in relation to doing a self study and to knowledge forms, seem to have precise relevance for the differences between the ways of studying in nursing education.

  10. The emergence of community health worker programmes in the late apartheid era in South Africa: An historical analysis.

    Science.gov (United States)

    van Ginneken, Nadja; Lewin, Simon; Berridge, Virginia

    2010-09-01

    There is re-emerging interest in community health workers (CHWs) as part of wider policies regarding task-shifting within human resources for health. This paper examines the history of CHW programmes established in South Africa in the later apartheid years (1970s-1994) - a time of innovative initiatives. After 1994, the new democratic government embraced primary healthcare (PHC), however CHW initiatives were not included in their health plan and most of these programmes subsequently collapsed. Since then a wide array of disease-focused CHW projects have emerged, particularly within HIV care. Thirteen oral history interviews and eight witness seminars were conducted in South Africa in April 2008 with founders and CHWs from these earlier programmes. These data were triangulated with written primary sources and analysed using thematic content analysis. The study suggests that 1970s-1990s CHW programmes were seen as innovative, responsive, comprehensive and empowering for staff and communities, a focus which respondents felt was lost within current programmes. The growth of these earlier projects was underpinned by the struggle against apartheid. Respondents felt that the more technical focus of current CHW programmes under-utilise a valuable human resource which previously had a much wider social and health impact. These prior experiences and lessons learned could usefully inform policy-making frameworks for CHWs in South Africa today. PMID:20638169

  11. Network analysis suggests a potentially ‘evil' alliance of opportunistic pathogens inhibited by a cooperative network in human milk bacterial communities

    Science.gov (United States)

    (Sam) Ma, Zhanshan; Guan, Qiong; Ye, Chengxi; Zhang, Chengchen; Foster, James A.; Forney, Larry J.

    2015-01-01

    The critical importance of human milk to infants and even human civilization has been well established. Yet our understanding of the milk microbiome has been limited to cataloguing OTUs and computation of community diversity. To the best of our knowledge, there has been no report on the bacterial interactions within the milk microbiome. To bridge this gap, we reconstructed a milk bacterial community network based on Hunt et al. Our analysis revealed that the milk microbiome network consists of two disconnected sub-networks. One sub-network is a fully connected complete graph consisting of seven genera as nodes and all of its pair-wise interactions among the bacteria are facilitative or cooperative. In contrast, the interactions in the other sub-network of eight nodes are mixed but dominantly cooperative. Somewhat surprisingly, the only ‘non-cooperative' nodes in the second sub-network are mutually cooperative Staphylococcus and Corynebacterium that include some opportunistic pathogens. This potentially ‘evil' alliance between Staphylococcus and Corynebacterium could be inhibited by the remaining nodes that cooperate with one another in the second sub-network. We postulate that the ‘confrontation' between the ‘evil' alliance and ‘benign' alliance and the shifting balance between them may be responsible for dysbiosis of the milk microbiome that permits mastitis. PMID:25651890

  12. Network analysis suggests a potentially 'evil' alliance of opportunistic pathogens inhibited by a cooperative network in human milk bacterial communities.

    Science.gov (United States)

    Sam Ma, Zhanshan; Guan, Qiong; Ye, Chengxi; Zhang, Chengchen; Foster, James A; Forney, Larry J

    2015-01-01

    The critical importance of human milk to infants and even human civilization has been well established. Yet our understanding of the milk microbiome has been limited to cataloguing OTUs and computation of community diversity. To the best of our knowledge, there has been no report on the bacterial interactions within the milk microbiome. To bridge this gap, we reconstructed a milk bacterial community network based on Hunt et al. Our analysis revealed that the milk microbiome network consists of two disconnected sub-networks. One sub-network is a fully connected complete graph consisting of seven genera as nodes and all of its pair-wise interactions among the bacteria are facilitative or cooperative. In contrast, the interactions in the other sub-network of eight nodes are mixed but dominantly cooperative. Somewhat surprisingly, the only 'non-cooperative' nodes in the second sub-network are mutually cooperative Staphylococcus and Corynebacterium that include some opportunistic pathogens. This potentially 'evil' alliance between Staphylococcus and Corynebacterium could be inhibited by the remaining nodes that cooperate with one another in the second sub-network. We postulate that the 'confrontation' between the 'evil' alliance and 'benign' alliance and the shifting balance between them may be responsible for dysbiosis of the milk microbiome that permits mastitis. PMID:25651890

  13. Metaproteomic Analysis of a Chemosynthetic Hydrothermal Vent Community Reveals Insights into Key-Metabolic Processes

    Science.gov (United States)

    Steen, I.; Stokke, R.; Lanzen, A.; Pedersen, R.; Øvreås, L.; Urich, T.

    2010-12-01

    In 2005 researchers at the Centre for Geobiology, University of Bergen, Norway, discovered two active vent fields at the southwestern Mohns Ridge in the Norwegian-Greenland Sea. The fields harbours both low-temperature iron deposits and high-temperature white smoker vents. Distinct microbial mats were abundantly present and located in close vicinity to the hydrothermal vent sites. Characteristics of the mat environment were steep physical and chemical gradients with temperatures ranging from 10°C in the top layer to 90°C at 10 cm bsf and high concentrations of hydrogen sulfide and methane. The work presented here focus on the In situ community activities, and is part of an integrated strategy combining metagenomics, metatranscriptomics and metaproteomics to in-depth characterise these newly discovered hydrothermal vent communities. Extracted proteins were separated via SDS-PAGE. Peptides extracted after In-gel tryptic digest was injected into an Ultimate 3000 nanoLC system connected to a linear quadropole ion trap-orbitrap (LTQ-Orbitrap XL) mass spectrometer equipped with a nanoelectrospray ion source. A custom database of open reading frames (ORFs) from the combined metatranscriptome and metagenome datasets was implemented and searched against using Mascot 2.2; the IRMa tool box [1] was used in peptide validation. Validated ORFs were subjected to a Blastp search against Refseq with an E-value cut-off of 0.001. A total of 1097 proteins with ? 2 peptides were identified of which 921 gave a hit against Refseq, containing 519 unique proteins. Key enzymes of the sulfur oxidation pathway (sox) were found, which were taxonomically affiliated to Epsilonproteobacteria. In addition, this group actively expressed hydrogenases and membrane proteins involved in aerobic and anaerobic respiratory chains. Enzymes of dissimilatory sulfate-reduction (APS-reductase, AprAB and DsrA2) were found with closest hit to members of the Deltaproteobacteria. These findings indicate an internal sulfur cycle within the community. The community contained expressed enzymes of a variety of carbon metabolism pathways. Key enzymes of the reverse TCA cycle for fixation of CO2 and the Wood-Ljungdahl pathway for oxidation of acetyl-CoA and / or the fixation of CO2 were found. Key enzymes of aerobic and anaerobic methane-oxidation pathways were identified as well, namely particulate methane monooxygenase and methyl-Coenzyme M reductase. Various house-keeping gene-products, like cold- and heat shock proteins as well as ribosomal proteins and ATP synthases were identified. This approach has a future potential of broadening our understanding of environmental complexity and regulation in response to geochemical constraints. [1] Dupierris, V., Masselon, C., Court, M., Kieffer-Jaquinod, S., and Bruley, C. (2009) A toolbox for validation of mass spectrometry peptides identification and generation of database: IRMa. Bioinformatics 25, 1980-1981.

  14. Analysis of sclerotia-associated fungal communities in cool-temperate forest soils in north Japan.

    Science.gov (United States)

    Amasya, Anzilni F; Narisawa, Kazuhiko; Watanabe, Makiko

    2015-03-24

    We herein investigated sclerotia that were obtained from cool-temperate forests in Mt. Chokai and Mt. Iwaki in north Japan and tentatively identified as the resting bodies of Cenococcum geophilum. The profiles of sclerotia-associated fungal communities were obtained through T-RFLP combined with clone library techniques. Our results showed that sclerotia in Mt. Chokai and Mt. Iwaki were predominated by Arthrinium arundinis and Inonotus sp., respectively. The results of the present study suggested that these sclerotia-associated species were responsible for the formation of sclerotia or sclerotia were originally formed by C. geophilum, but were subsequently occupied by these species after C. geophilum germinated or failed to survive due to competition. PMID:25740175

  15. Microbial community shifts on an anammox reactor after a temperature shock using 454-pyrosequencing analysis.

    Science.gov (United States)

    Isanta, Eduardo; Bezerra, Tercia; Fernández, Isaac; Suárez-Ojeda, María Eugenia; Pérez, Julio; Carrera, Julián

    2015-04-01

    To explore the changes in the microbial community structure during the recovery process of an anammox reactor after a temperature shock, the 454-pyrosequencing technique was used. The temperature shock reduced the nitrogen removal rate up to 92% compared to that just before the temperature shock, and it took 70days to recover a similar nitrogen removal rate to that before the temperature shock (ca. 0.30gNL(-1)d(-1)). Pyrosequencing results indicated that microbial diversity in the reactor decreased as the reactor progressively recovered from the temperature shock. Anammox bacteria were accounted as 6%, 35% and 46% of total sequence reads in samples taken 13, 45 and 166days after the temperature shock. These results were in agreement with N-removal performance results and anammox activity measured in the reactor during the recovery process. An anammox specific primer was used to precisely determine the anammox species in the biomass samples. PMID:25656864

  16. Measures of precision for dissimilarity-based multivariate analysis of ecological communities.

    Science.gov (United States)

    Anderson, Marti J; Santana-Garcon, Julia

    2015-01-01

    Ecological studies require key decisions regarding the appropriate size and number of sampling units. No methods currently exist to measure precision for multivariate assemblage data when dissimilarity-based analyses are intended to follow. Here, we propose a pseudo multivariate dissimilarity-based standard error (MultSE) as a useful quantity for assessing sample-size adequacy in studies of ecological communities. Based on sums of squared dissimilarities, MultSE measures variability in the position of the centroid in the space of a chosen dissimilarity measure under repeated sampling for a given sample size. We describe a novel double resampling method to quantify uncertainty in MultSE values with increasing sample size. For more complex designs, values of MultSE can be calculated from the pseudo residual mean square of a permanova model, with the double resampling done within appropriate cells in the design. R code functions for implementing these techniques, along with ecological examples, are provided. PMID:25438826

  17. Biodegradation of chloro- and bromobenzoic acids: Effect of milieu conditions and microbial community analysis.

    Science.gov (United States)

    Gaza, Sarah; Felgner, Annika; Otto, Johannes; Kushmaro, Ariel; Ben-Dov, Eitan; Tiehm, Andreas

    2015-04-28

    Monohalogenated benzoic acids often appear in industrial wastewaters where biodegradation can be hampered by complex mixtures of pollutants and prevailing extreme milieu conditions. In this study, the biodegradation of chlorinated and brominated benzoic acids was conducted at a pH range of 5.0-9.0, at elevated salt concentrations and with pollutant mixtures including fluorinated and iodinated compounds. In mixtures of the isomers, the degradation order was primarily 4-substituted followed by 3-substituted and then 2-substituted halogenated benzoic acids. If the pH and salt concentration were altered simultaneously, long adaptation periods were required. Community analyses were conducted in liquid batch cultures and after immobilization on sand columns. The Alphaproteobacteria represented an important fraction in all of the enrichment cultures. On the genus level, Afipia sp. was detected most frequently. In particular, Bacteroidetes were detected in high numbers with chlorinated benzoic acids. PMID:25625627

  18. ??????????????????????? Analysis of Endophytic Fungal Community from Roots of Two Transgenic Rice

    Directory of Open Access Journals (Sweden)

    ???

    2012-09-01

    Full Text Available ????????????????????????????????????????????????????????????????????????????????????????Gaeumannomyces??????????????????23.23%?????????????????????????????????????????????????????????????????????????????????21.25%?26.56%??????????????????????????????????????????????? Endophytic fungal community in roots of two transgenic rice (antifungal genes was studied by isolation and staining observation. Compared with non-transgenic rice, the isolation frequency and diversity of the endophytic fungi from two transgenic rice in different growth stages exhibited no significant differences in contrast with the control. Gaeumannomyces was the dominant population of endophytic fungi in the roots of rice with the dominance of 23.23%, and could be isolated in either the two transgenic rice or the control, and any growth stages. By staining observation, the infection rates of endophytic fungi in seedlings of transgenic rice were significantly lower than the control by 21.25% and 26.56% respectively, but there were no significant differences in tillering and maturity. Therefore, it is inferred that the transgenic rice had no significant effect on fungal communities in rice roots.

  19. New Visualization and Analysis Tools for Magnetospheric, Heliospheric, and Solar Models from the Community Coordinated Modeling Center

    Science.gov (United States)

    Berrios, D.; LaSota, J.; Donti, N.; Boblitt, J.; Mullinix, R.; Maddox, M. M.

    2011-12-01

    The Community Coordinated Modeling Center (CCMC) at NASA Goddard Space Flight Center has developed new analysis tools to help scientists analyze space weather simulation data executed at the CCMC. Space Weather Explorer 2 is a Java-based application that can visualize, in 2D and 3D, large data files on common hardware. A new WebGL and HTML5-based version of Space Weather Explorer, along with a data streaming server, allows even more users to access larger datasets than normally possible. The tool allows users to remotely and easily share visualization data with others, bringing collaborative research to a new level. We will demonstrate how these tools enable new insights into the structures and dynamics of complex heliophysics phenomena such as coronal mass ejections (CMEs), flux transfer events (FTEs), and Kelvin-Helmholtz vortices.

  20. Analysis of Bidding Networks in eBay: Aggregate Preference Identification through Community Detection

    OpenAIRE

    Jin, R. Kang-xing; Parkes, David C.; Wolfe, Patrick J.

    2007-01-01

    Statistical analysis of networks plays a critical role in the context of economics and the social sciences. Here we construct a bidding network to represent the behavior of users of the eBay marketplace. We study the eBay markets for digital cameras and liquid crystal display screens, and employ network analysis to identify aggregate structure in bidder preferences. The network that we construct associates auctions with nodes, and weighted edges between nodes capture the number of bidders com...

  1. Phylogenetic analysis of a spontaneous cocoa bean fermentation metagenome reveals new insights into its bacterial and fungal community diversity.

    Science.gov (United States)

    Illeghems, Koen; De Vuyst, Luc; Papalexandratou, Zoi; Weckx, Stefan

    2012-01-01

    This is the first report on the phylogenetic analysis of the community diversity of a single spontaneous cocoa bean box fermentation sample through a metagenomic approach involving 454 pyrosequencing. Several sequence-based and composition-based taxonomic profiling tools were used and evaluated to avoid software-dependent results and their outcome was validated by comparison with previously obtained culture-dependent and culture-independent data. Overall, this approach revealed a wider bacterial (mainly ?-Proteobacteria) and fungal diversity than previously found. Further, the use of a combination of different classification methods, in a software-independent way, helped to understand the actual composition of the microbial ecosystem under study. In addition, bacteriophage-related sequences were found. The bacterial diversity depended partially on the methods used, as composition-based methods predicted a wider diversity than sequence-based methods, and as classification methods based solely on phylogenetic marker genes predicted a more restricted diversity compared with methods that took all reads into account. The metagenomic sequencing analysis identified Hanseniaspora uvarum, Hanseniaspora opuntiae, Saccharomyces cerevisiae, Lactobacillus fermentum, and Acetobacter pasteurianus as the prevailing species. Also, the presence of occasional members of the cocoa bean fermentation process was revealed (such as Erwinia tasmaniensis, Lactobacillus brevis, Lactobacillus casei, Lactobacillus rhamnosus, Lactococcus lactis, Leuconostoc mesenteroides, and Oenococcus oeni). Furthermore, the sequence reads associated with viral communities were of a restricted diversity, dominated by Myoviridae and Siphoviridae, and reflecting Lactobacillus as the dominant host. To conclude, an accurate overview of all members of a cocoa bean fermentation process sample was revealed, indicating the superiority of metagenomic sequencing over previously used techniques. PMID:22666442

  2. Place-classification analysis of community vulnerability to near-field tsunami threats in the U.S. Pacific Northwest (Invited)

    Science.gov (United States)

    Wood, N. J.; Jones, J.; Spielman, S.

    2013-12-01

    Near-field tsunami hazards are credible threats to many coastal communities throughout the world. Along the U.S. Pacific Northwest coast, low-lying areas could be inundated by a series of catastrophic tsunami waves that begin to arrive in a matter of minutes following a Cascadia subduction zone (CSZ) earthquake. This presentation summarizes analytical efforts to classify communities with similar characteristics of community vulnerability to tsunami hazards. This work builds on past State-focused inventories of community exposure to CSZ-related tsunami hazards in northern California, Oregon, and Washington. Attributes used in the classification, or cluster analysis, include demography of residents, spatial extent of the developed footprint based on mid-resolution land cover data, distribution of the local workforce, and the number and type of public venues, dependent-care facilities, and community-support businesses. Population distributions also are characterized by a function of travel time to safety, based on anisotropic, path-distance, geospatial modeling. We used an unsupervised-model-based clustering algorithm and a v-fold, cross-validation procedure (v=50) to identify the appropriate number of community types. We selected class solutions that provided the appropriate balance between parsimony and model fit. The goal of the vulnerability classification is to provide emergency managers with a general sense of the types of communities in tsunami hazard zones based on similar characteristics instead of only providing an exhaustive list of attributes for individual communities. This classification scheme can be then used to target and prioritize risk-reduction efforts that address common issues across multiple communities. The presentation will include a discussion of the utility of proposed place classifications to support regional preparedness and outreach efforts.

  3. Web-Based Phylogenetic Assignment Tool for Analysis of Terminal Restriction Fragment Length Polymorphism Profiles of Microbial Communities

    OpenAIRE

    Kent, Angela D.; Smith, Dan J.; Benson, Barbara J.; Triplett, Eric W.

    2003-01-01

    Culture-independent DNA fingerprints are commonly used to assess the diversity of a microbial community. However, relating species composition to community profiles produced by community fingerprint methods is not straightforward. Terminal restriction fragment length polymorphism (T-RFLP) is a community fingerprint method in which phylogenetic assignments may be inferred from the terminal restriction fragment (T-RF) sizes through the use of web-based resources that predict T-RF sizes for know...

  4. HydroDesktop as a Community Designed and Developed Resource for Hydrologic Data Discovery and Analysis

    Science.gov (United States)

    Ames, D. P.

    2013-12-01

    As has been seen in other informatics fields, well-documented and appropriately licensed open source software tools have the potential to significantly increase both opportunities and motivation for inter-institutional science and technology collaboration. The CUAHSI HIS (and related HydroShare) projects have aimed to foster such activities in hydrology resulting in the development of many useful community software components including the HydroDesktop software application. HydroDesktop is an open source, GIS-based, scriptable software application for discovering data on the CUAHSI Hydrologic Information System and related resources. It includes a well-defined plugin architecture and interface to allow 3rd party developers to create extensions and add new functionality without requiring recompiling of the full source code. HydroDesktop is built in the C# programming language and uses the open source DotSpatial GIS engine for spatial data management. Capabilities include data search, discovery, download, visualization, and export. An extension that integrates the R programming language with HydroDesktop provides scripting and data automation capabilities and an OpenMI plugin provides the ability to link models. Current revision and updates to HydroDesktop include migration of core business logic to cross platform, scriptable Python code modules that can be executed in any operating system or linked into other software front-end applications.

  5. Comparative human health risk analysis of coastal community water and waste service options.

    Science.gov (United States)

    Schoen, Mary E; Xue, Xiaobo; Hawkins, Troy R; Ashbolt, Nicholas J

    2014-08-19

    As a pilot approach to describe adverse human health effects from alternative decentralized community water systems compared to conventional centralized services (business-as-usual [BAU]), selected chemical and microbial hazards were assessed using disability adjusted life years (DALYs) as the common metric. The alternatives included: (1) composting toilets with septic system, (2) urine-diverting toilets with septic system, (3) low flush toilets with blackwater pressure sewer and on-site greywater collection and treatment for nonpotable reuse, and (4) alternative 3 with on-site rainwater treatment and use. Various pathogens (viral, bacterial, and protozoan) and chemicals (disinfection byproducts [DBPs]) were used as reference hazards. The exposure pathways for BAU included accidental ingestion of contaminated recreational water, ingestion of cross-connected sewage to drinking water, and shower exposures to DBPs. The alternative systems included ingestion of treated greywater from garden irrigation, toilet flushing, and crop consumption; and ingestion of treated rainwater while showering. The pathways with the highest health impact included the ingestion of cross-connected drinking water and ingestion of recreational water contaminated by septic seepage. These were also among the most uncertain when characterizing input parameters, particularly the scale of the cross-connection event, and the removal of pathogens during groundwater transport of septic seepage. A comparison of the health burdens indicated potential health benefits by switching from BAU to decentralized water and wastewater systems. PMID:24988142

  6. Nucleic acid based quantitative microbial community analysis in different marine and terrestrial sediments

    Science.gov (United States)

    Schippers, A.; Blazejak, A.; Köweker, G.

    2009-12-01

    Sub-seafloor sediments harbour over half of all prokaryotic cells on Earth. This immense cell number is calculated from numerous microscopic cell counts (AODC) in ODP sediment cores. Since AODC can not differentiate between living or dead cells, the population size of living microorganisms and the abundance of different prokaryotic groups are unknown. Recent molecular nucleic acid and biomarker analyses showed that a high proportion of the cells are alive and that the microbial communities of deep marine sediments harbour members of distinct, uncultured bacterial and archaeal lineages. The main objective of our project is the quantification of living prokaryotes in various sediments. Deep sediment samples from the Pacific and the Atlantic Oceans (ODP Legs 201 and 207, IODP Exp. 307 and 308), sediments from the Indian Ocean (RV Sonne 189-2) and the Black Sea (RV Meteor 51/4) as well as terrestrial Chesapeake Bay Sediments (ICDP) were analyzed using Catalyzed Reporter Deposition - Fluorescence In Situ Hybridisation (CARD - FISH) and quantitative, real-time PCR (Q-PCR), targeting either the 16S rRNA gene or the functional genes dsrA, mcrA and aprA to quantify microorganisms of various phylogenetic or physiological groups (e.g. JS1 cluster and Chloroflexi). At all sediment sites, cell numbers decreased with depth, however, the abundance of particular microbial groups varied at different sites and depths. The results indicate that global estimates of the deep biosphere should be reconsidered.

  7. Metagenomic analysis of a permafrost microbial community reveals a rapid response to thaw.

    Science.gov (United States)

    Mackelprang, Rachel; Waldrop, Mark P; DeAngelis, Kristen M; David, Maude M; Chavarria, Krystle L; Blazewicz, Steven J; Rubin, Edward M; Jansson, Janet K

    2011-12-15

    Permafrost contains an estimated 1672?Pg carbon (C), an amount roughly equivalent to the total currently contained within land plants and the atmosphere. This reservoir of C is vulnerable to decomposition as rising global temperatures cause the permafrost to thaw. During thaw, trapped organic matter may become more accessible for microbial degradation and result in greenhouse gas emissions. Despite recent advances in the use of molecular tools to study permafrost microbial communities, their response to thaw remains unclear. Here we use deep metagenomic sequencing to determine the impact of thaw on microbial phylogenetic and functional genes, and relate these data to measurements of methane emissions. Metagenomics, the direct sequencing of DNA from the environment, allows the examination of whole biochemical pathways and associated processes, as opposed to individual pieces of the metabolic puzzle. Our metagenome analyses reveal that during transition from a frozen to a thawed state there are rapid shifts in many microbial, phylogenetic and functional gene abundances and pathways. After one week of incubation at 5?°C, permafrost metagenomes converge to be more similar to each other than while they are frozen. We find that multiple genes involved in cycling of C and nitrogen shift rapidly during thaw. We also construct the first draft genome from a complex soil metagenome, which corresponds to a novel methanogen. Methane previously accumulated in permafrost is released during thaw and subsequently consumed by methanotrophic bacteria. Together these data point towards the importance of rapid cycling of methane and nitrogen in thawing permafrost. PMID:22056985

  8. Responses of soil microbial communities to water stress: results from a meta-analysis.

    Science.gov (United States)

    Manzoni, Stefano; Schimel, Joshua P; Porporato, Amilcare

    2012-04-01

    Soil heterotrophic respiration and nutrient mineralization are strongly affected by environmental conditions, in particular by moisture fluctuations triggered by rainfall events. When soil moisture decreases, so does decomposers' activity, with microfauna generally undergoing stress sooner than bacteria and fungi. Despite differences in the responses of individual decomposer groups to moisture availability (e.g., bacteria are typically more sensitive than fungi to water stress), we show that responses of decomposers at the community level are different in soils and surface litter, but similar across biomes and climates. This results in a nearly constant soil-moisture threshold corresponding to the point when biological activity ceases, at a water potential of about -14 MPa in mineral soils and -36 MPa in surface litter. This threshold is shown to be comparable to the soil moisture value where solute diffusion becomes strongly inhibited in soil, while in litter it is dehydration rather than diffusion that likely limits biological activity around the stress point. Because of these intrinsic constraints and lack of adaptation to different hydro-climatic regimes, changes in rainfall patterns (primary drivers of the soil moisture balance) may have dramatic impacts on soil carbon and nutrient cycling. PMID:22690643

  9. Analysis of written advertising material distributed through community pharmacies in Riyadh, Saudi Arabia

    Directory of Open Access Journals (Sweden)

    Al-Aqeel SA

    2013-09-01

    Full Text Available Background: Advertising is a crucial component of pharmaceutical industry promotion. Research indicates that information on advertisement materials might be inadequate, inaccurate, biased, and misleading. Objective: To analyse and critically assess the information presented in print pharmaceutical advertisements in Saudi Arabia.Methods: Pharmaceutical advertisements were collected from 280 community pharmacies in Riyadh city, Saudi Arabia. The advertisements were evaluated using criteria derived from the Saudi Food and Drug Authority (SFDA regulation, the World Health Organization (WHO ethical medicinal drug promotion criteria, and other principles reported in similar studies. The data were extracted independently by two of the researchers using a standardized assessment form. Results: One hundred eighty five printed advertisements were included in the final sample. Approximately half of the advertisements (n = 94, 51% were for over-the-counter (OTC medications, and 71 (38% were for prescription-only medication. Information such as the name of active ingredients was available in 168 (90.8% advertisements, therapeutic uses were mentioned in 156 (98.7% of analysed advertisements. Safety information related to side effects, precautions, and major interactions were stated in 53 (28.5%, 58 (31%, and 33 (16.5% advertisements, respectively. Only 119 advertisements (64% provided references for information presented. Conclusions: Our findings suggest that print advertisements do not convey all the information necessary for safe prescribing. These results have implications for the regulation of drug advertising and the continuing education of pharmacists.

  10. Microbial community analysis of a methane-oxidizing biofilm using ribosomal tag pyrosequencing.

    Science.gov (United States)

    Kim, Tae Gwan; Lee, Eun-Hee; Cho, Kyung-Suk

    2012-03-01

    Current ecological knowledge of methanotrophic biofilms is incomplete, although they have been broadly studied in biotechnological processes. Four individual DNA samples were prepared from a methanotrophic biofilm, and a multiplex 16S rDNA pyrosequencing was performed. A complete library (before being de-multiplexed) contained 33,639 sequences (average length, 415 nt). Interestingly, methanotrophs were not dominant, only making up 23% of the community. Methylosinus, Methylomonas, and Methylosarcina were the dominant methanotrophs. Type II methanotrophs were more abundant than type I (56 vs. 44%), but less richer and diverse. Dominant non-methanotrophic genera included Hydrogenophaga, Flavobacterium, and Hyphomicrobium. The library was de-multiplexed into four libraries, with different sequencing efforts (3,915-20,133 sequences). Sørrenson abundance similarity results showed that the four libraries were almost identical (indices > 0.97), and phylogenetic comparisons using UniFrac test and P-test revealed the same results. It was demonstrated that the pyrosequencing was highly reproducible. These survey results can provide an insight into the management and/or manipulation of methanotrophic biofilms. PMID:22450792

  11. Applying Social Network Analysis to Analyze a Web-Based Community

    OpenAIRE

    Mohammed Al-Taie

    2012-01-01

    this paper deals with a very renowned website (that is Book-Crossing) from two angles: The first angle focuses on the direct relations between users and books. Many things can be inferred from this part of analysis such as who is more interested in book reading than others and why? Which books are most popular and which users are most active and why? The task requires the use of certain social network analysis measures (e.g. degree centrality). What does it mean when two users like the same b...

  12. Metagenomic analysis of a complex marine planktonic thaumarchaeal community from the Gulf of Maine.

    Science.gov (United States)

    Tully, Benjamin J; Nelson, William C; Heidelberg, John F

    2012-01-01

    Thaumarchaea, which represent as much as 20% of prokaryotic biomass in the open ocean, have been linked to environmentally relevant biogeochemical processes, such as ammonia oxidation (nitrification) and inorganic carbon fixation. We have used culture-independent methods to study this group because current cultivation limitations have proved a hindrance in studying these organisms. From a metagenomic data set obtained from surface waters from the Gulf of Maine, we have identified 36,111 sequence reads (containing 30 Mbp) likely derived from environmental planktonic Thaumarchaea. Metabolic analysis of the raw sequences and assemblies identified copies of the catalytic subunit required in aerobic ammonia oxidation. In addition, genes that comprise a nearly complete carbon assimilation pathway in the form of the 3-hyroxypropionate/4-hydroxybutyrate cycle were identified. Comparative genomics contrasting the putative environmental thaumarchaeal sequences and 'Candidatus Nitrosopumilus maritimus SCM1' revealed a number of genomic islands absent in the Gulf of Maine population. Analysis of these genomic islands revealed an integrase-associated island also found in distantly related microbial species, variations in the abundance of genes predicted to be important in thaumarchaeal respiratory chain, and the absence of a high-affinity phosphate uptake operon. Analysis of the underlying sequence diversity suggests the presence of at least two dominant environmental populations. Attempts to assemble complete environmental genomes were unsuccessful, but analysis of scaffolds revealed two diverging populations, including a thaumarchaeal-related scaffold with the full urease operon. Ultimately, the analysis revealed a number of insights into the metabolic potential of a predominantly uncultivated lineage of organisms. The predicted functions in the thaumarchaeal metagenomic sequences are directly supported by historic measurements of nutrient concentrations and provide new avenues of research in regards to understanding the role Thaumarchaea play in the environment. PMID:22050608

  13. (Draft) Community air pollution and mortality: Analysis of 1980 data from US metropolitan areas

    Energy Technology Data Exchange (ETDEWEB)

    Lipfert, F.W.

    1992-11-01

    1980 data from up to 149 metropolitan areas were used to define cross-sectional associations between community air pollution and excess'' human mortality. The regression model proposed by Ozkaynak and Thurston (1987), which accounted for age, race, education, poverty, and population density, was evaluated and several new models were developed. The new models also accounted for migration, drinking water hardness, and smoking, and included a more detailed description of race. Cause-of-death categories analyzed include all causes, all non-external'' causes, major cardiovascular diseases, and chronic obstructive pulmonary diseases (COPD). Both annual mortality rates and their logarithms were analyzed. Air quality data were obtained from the EPA AIRS database (TSP, SO[sub 4][sup =], Mn, and ozone) and from the inhalable particulate network (PM[sub 15], PM[sub 2.5] and SO[sub 4][sup =], for 63[sup 4] locations). The data on particulates were averaged across all monitoring stations available for each SMSA and the TSP data were restricted to the year 1980. The associations between mortality and air pollution were found to be dependent on the socioeconomic factors included in the models, the specific locations included in the data set, and the type of statistical model used. Statistically significant associations were found as follows: between TSP and mortality due to non-external causes with log-linear models, but not with a linear model betweenestimated 10-year average (1980--90) ozone levels and 1980 non-external and cardiovascular deaths; and between TSP and COPD mortality for both linear and log-linear models. When the sulfate contribution to TSP was subtracted, the relationship with COPD mortality was strengthened.

  14. (Draft) Community air pollution and mortality: Analysis of 1980 data from US metropolitan areas

    Energy Technology Data Exchange (ETDEWEB)

    Lipfert, F.W.

    1992-11-01

    1980 data from up to 149 metropolitan areas were used to define cross-sectional associations between community air pollution and ``excess`` human mortality. The regression model proposed by Ozkaynak and Thurston (1987), which accounted for age, race, education, poverty, and population density, was evaluated and several new models were developed. The new models also accounted for migration, drinking water hardness, and smoking, and included a more detailed description of race. Cause-of-death categories analyzed include all causes, all ``non-external`` causes, major cardiovascular diseases, and chronic obstructive pulmonary diseases (COPD). Both annual mortality rates and their logarithms were analyzed. Air quality data were obtained from the EPA AIRS database (TSP, SO{sub 4}{sup =}, Mn, and ozone) and from the inhalable particulate network (PM{sub 15}, PM{sub 2.5} and SO{sub 4}{sup =}, for 63{sup 4} locations). The data on particulates were averaged across all monitoring stations available for each SMSA and the TSP data were restricted to the year 1980. The associations between mortality and air pollution were found to be dependent on the socioeconomic factors included in the models, the specific locations included in the data set, and the type of statistical model used. Statistically significant associations were found as follows: between TSP and mortality due to non-external causes with log-linear models, but not with a linear model betweenestimated 10-year average (1980--90) ozone levels and 1980 non-external and cardiovascular deaths; and between TSP and COPD mortality for both linear and log-linear models. When the sulfate contribution to TSP was subtracted, the relationship with COPD mortality was strengthened.

  15. Analysis of the Health Status of Foreign Brides in A Community Hospital in Taipei County.

    Directory of Open Access Journals (Sweden)

    Hua-Yu Wu

    2004-12-01

    Full Text Available Background: Very few studies regarding the health status of foreign brides in Taiwan areso far available. The purpose of this study was to analyze the health status offoreign brides in a community hospital setting in Taipei County.Methods: We retrieved and analyzed 493 foreign brides' medical records recordedbetween November 1, 2002 and October 31, 2003. The records included amedical history, physical examination parameters, serological test data forinfectious diseases, urinalysis for drug use, stool sample data for intestinalparasites, and chest radiography mainly to rule out tuberculosis.Results: Of the 493 foreign brides included in this study, 247 were from China(50.1%; 122 from Burma (24.7%, 55 from Indonesia (11.2%, and 32 fromVietnam (6.5%. A small proportion of women, 69 (14%, were infected withintestinal parasites. Seven subjects (1.4 % had tuberculosis, of which 4(0.8% were diagnosed as having old tuberculosis. None of the foreign brideswas positive for the HIV antibody or on the syphilis screening. The seronegativerate of anti-rubella IgG among the foreign brides was 14.4%. Threepercent of the brides had an elevated morphine level (? 300 ng/mL, butnone of them was positive (? 500 ng/mL for amphetamine.Conclusions: Future national statistics should include brides from China. The main concernsabout foreign brides are the low vaccination rate against rubella virus,the high infection rate with intestinal parasites, and the high prevalence oftuberculosis. A nationwide survey should be carried out in order to assess thehealth status of all foreign brides in Taiwan.

  16. Multi-scales analysis of the global change impact on the diversity of the aphid communities

    International Nuclear Information System (INIS)

    The primary objective of this project is to investigate the effects of global change on the biodiversity of aphid communities in Western Europe. Biodiversity has been examined at 3 levels: total number of species, phenology and reproductive strategy. Data were provided by EXAMINE, the European suction traps network which has been now operating for 35 years. 392 different species have been identified. At each location, total number of species has been regularly increasing, one additional species being caught every 1 or 2 years depending on location. This is due to introduced species but also to warming which favours rare species. No general trend of increasing density has been detected, but phenological earliness of almost all species (annual date of first appearance in suction traps) is strongly correlated with temperature and especially with mean daily temperature (during more or less long periods of time lying principally in February and March) or number of days below 0 C. Strong relationships between aphid phenology and environmental variables have been found and there is strong discrimination between species with different life cycle strategies, and between species feeding on herbs and trees, suggesting the possible value of trait-based groupings in predicting responses to environmental changes. These preliminary results suggest that 1) biodiversity has increased during the last decades; 2) there is a pool of species among which some of them reach a detectable density only during years where temperatures are high enough; 3) a set of newly introduced species succeed in settling being favoured by warming and 4) phenology of aphids is expected to advance and their abundance to increase with temperature, and the possible role of natural enemies to regulate abundant species is discussed. (author)

  17. Brief Report: Impact of Applied Behaviour Analysis (ABA) on Carer Burden and Community Participation in Challenging Behaviour--Results from a Randomised Controlled Trial

    Science.gov (United States)

    Hassiotis, A.; Robotham, D.; Canagasabey, A.; Marston, L.; Thomas, B.; King, M.

    2012-01-01

    Background: Applied behaviour analysis (ABA) reduces challenging behaviour in people with intellectual disability. There is interest, however, in whether such interventions reduce carer burden and increase community participation in this group. Methods: A 6-month randomised controlled trial was followed by a longer-term naturalistic follow-up of…

  18. Organizational Knowledge and Communities of Practice.

    Science.gov (United States)

    Davenport, Elisabeth; Hall, Hazel

    2002-01-01

    Discusses communities of practice and their role in organizational knowledge. Topics include situated learning and situated actions; distributed cognition; discourse analysis, conversation analysis, and genre analysis; performative perspective; interpretive approach; motivation; creating environments for participation in communities of practice;…

  19. Shaping Communities out of Triangles

    CERN Document Server

    Prat-Pérez, Arnau; Brunat, Josep M; Larriba-Pey, Josep-Lluis

    2012-01-01

    Community detection has arisen as one of the most relevant topics in the field of graph data mining due to its importance in many fields such as biology, social networks or network traffic analysis. The metrics proposed to shape communities are generic and follow two approaches: maximizing the internal density of such communities or reducing the connectivity of the internal vertices with those outside the community. However, these metrics take the edges as a set and do not consider the internal layout of the edges in the community. We define a set of properties oriented to social networks that ensure that communities are cohesive, structured and well defined. Then, we propose the Weighted Community Clustering (WCC), which is a community metric based on triangles. We proof that analyzing communities by triangles gives communities that fulfill the listed set of properties, in contrast to previous metrics. Finally, we experimentally show that WCC correctly captures the concept of community in social networks usi...

  20. LC/IRMS analysis: A powerful technique to trace carbon flow in microphytobenthic communities in intertidal sediments

    Science.gov (United States)

    Moerdijk-Poortvliet, Tanja C. W.; Stal, Lucas J.; Boschker, Henricus T. S.

    2014-09-01

    Microphytobenthic communities are important for primary production in intertidal marine sediments. Extracellular polymeric substances (EPS), comprising polysaccharides and proteins, play a key role in the structure and functioning of microphytobenthic biofilms and allow interactions between the benthic microalgae and the associated heterotrophic bacteria. The use of stable isotopes has provided major insights into the functioning of these microbial ecosystems. Until recently, gas chromatography-isotope ratio mass spectrometry (GC/IRMS) was the principal method for compound specific stable isotope analysis in these studies. Liquid chromatography linked to IRMS (LC/IRMS) is a more recently developed technique that broadens the range of compounds that can be targeted, in particular enabling the analysis of 13C in non-volatile, aqueous soluble organic compounds, such as carbohydrates and amino acids. In this paper we present an overview of the possibilities and limitations of the LC/IRMS technique to study metabolic processes in microphytobenthic biofilms consisting of mainly diatoms. With a preliminary in-situ labeling experiment, we show that the biosynthesis of carbohydrates and amino acids in EPS and total carbohydrate and amino acid pools can be determined by LC/IRMS. Water extractable EPS were composed predominantly of carbohydrates, whereas amino acids played a minor role, both in terms of content and production. By using LC/IRMS, we will be able to quantify the biosynthesis of metabolites and, hence, to unravel in detail the metabolic pathways of the transfer of carbon from the diatoms via EPS to the bacteria.

  1. A Community Organizing Case Study: An Analysis of Cap-It's Strategy to Prevent the Location of a Toxic Waste Incinerator in Their Community.

    Science.gov (United States)

    Jacobs, J

    1992-01-01

    With the great proliferation of chemical manufacturing in the past half-century, the dilemma of dealing with the waste produced has become an increasing problem facing communities. One method that is gaining increased acceptance by both government and industry is incineration. Many citizens have formed groups to protest these facilities because of their concerns about health risks, especially exposure to carcinogens. This case study profiles one such group, CAP-IT, a collection of middle-class residents living in a small working-class town and their successful battle to prevent the siting of a hazardous waste incinerator. CAP-IT's strategy will be critiqued using methods advanced by Lee Staples, Nicholas Freudenburg and Kurt Lewin to demonstrate the power of community organizing activities. PMID:20840988

  2. The prevalence of child sexual abuse in community and student samples: A meta-analysis

    OpenAIRE

    Pereda Beltran, Noemi?; Guilera Ferre?, Georgina; Forns, Maria; Go?mez Benito, Juana

    2009-01-01

    Background: Studies conducted internationally confirm that child sexual abuse is a much more widespread problem than previously thought, with even the lowest prevalence rates including a large number of victims that need to be taken into account. Objective: To carry out a meta-analysis of the prevalence of child sexual abuse in order to establish an overall international figure. Methods: Studies were retrieved from various electronic databases. The measure of interest was the prevalence of ab...

  3. RegaDB: community-driven data management and analysis for infectious diseases

    OpenAIRE

    Libin, P.; Beheydt, G.; Deforche, K.; Imbrechts, S.; Ferreira, F.; Laethem, K.; Theys, K.; Carvalho, A. P.; Cavaco-silva, J.; Lapadula, G.; Torti, C.; Assel, M.; Wesner, S.; Snoeck, J.; Ruelle, J.

    2013-01-01

    Summary: RegaDB is a free and open source data management and analysis environment for infectious diseases. RegaDB allows clinicians to store, manage and analyse patient data, including viral genetic sequences. Moreover, RegaDB provides researchers with a mechanism to collect data in a uniform format and offers them a canvas to make newly developed bioinformatics tools available to clinicians and virologists through a user friendly interface.

  4. Functional Characteristics of an Endophyte Community Colonizing Rice Roots as Revealed by Metagenomic Analysis

    OpenAIRE

    Sessitsch, A.; Hardoim, P. R.; Doring, J.; Weilharter, A.; Krause, A.; Woyke, T.; Mitter, B.; Hauberg-lotte, L.; Friedrich, F.; Rahalkar, M.; Hurek, T.; Sarkar, A.; Bodrossy, L.; Overbeek, L. S.; Brar, D.

    2012-01-01

    Roots are the primary site of interaction between plants and microorganisms. To meet food demands in changing climates, improved yields and stress resistance are increasingly important, stimulating efforts to identify factors that affect plant productivity. The role of bacterial endophytes that reside inside plants remains largely unexplored, because analysis of their specific functions is impeded by difficulties in cultivating most prokaryotes. Here, we present the first metagenomic approach...

  5. Evaluation of methods for preparing hydrogen-producing seed inocula under thermophilic condition by process performance and microbial community analysis.

    Science.gov (United States)

    O-Thong, Sompong; Prasertsan, Poonsuk; Birkeland, Nils-Kåre

    2009-01-01

    Five methods for preparation of hydrogen-producing seeds (base, acid, 2-bromoethanesulfonic acid (BESA), load-shock and heat shock treatments) as well as an untreated anaerobic digested sludge were compared for their hydrogen production performance and responsible microbial community structures under thermophilic condition (60 degrees C). The results showed that the load-shock treatment method was the best for enriching thermophilic hydrogen-producing seeds from mixed anaerobic cultures as it completely repressed methanogenic activity and gave the a maximum hydrogen production yield of 1.96 mol H(2) mol(-1) hexose with an hydrogen production rate of 11.2 mmol H(2) l(-1)h(-1). Load-shock and heat-shock treatments resulted in a dominance of Thermoanaerobacterium thermosaccharolyticum with acetic acid and butyric acid type of fermentation while base- and acid-treated seeds were dominated by Clostridium sp. and BESA-treated seeds were dominated by Bacillus sp. The comparative experimental results from hydrogen production performance and microbial community analysis showed that the load-shock treatment method was better than the other four methods for enriching thermophilic hydrogen-producing seeds from anaerobic digested sludge. Load-shock treated sludge was implemented in palm oil mill effluent (POME) fermentation and was found to give maximum hydrogen production rates of 13.34 mmol H(2) l(-1)h(-1) and resulted in a dominance of Thermoanaerobacterium spp. Load-shock treatment is an easy and practical method for enriching thermophilic hydrogen-producing bacteria from anaerobic digested sludge. PMID:18768309

  6. Pyrosequencing analysis of a bacterial community associated with lava-formed soil from the Gotjawal forest in Jeju, Korea

    Science.gov (United States)

    Kim, Jong-Shik; Lee, Keun Chul; Kim, Dae-Shin; Ko, Suk-Hyung; Jung, Man-Young; Rhee, Sung-Keun; Lee, Jung-Sook

    2015-01-01

    In this study, we analyzed the bacterial diversity in soils collected from Gyorae Gotjawal forest, where globally unique topography, geology, and ecological features support a forest grown on basalt flows from 110,000 to 120,000 years ago and 40,000 to 50,000 years ago. The soils at the site are fertile, with rocky areas, and are home to endangered species of plants and animals. Rainwater penetrates to the groundwater aquifer, which is composed of 34% organic matter containing rare types of soil and no soil profile. We determined the bacterial community composition using 116,475 reads from a 454-pyrosequencing analysis. This dataset included 12,621 operational taxonomic units at 3% dissimilarity, distributed among the following groups: Proteobacteria (56.2%) with 45.7% of ?-Proteobacteria, Actinobacteria (25%), Acidobacteria (10.9%), Chloroflexi (2.4%), and Bacteroidetes (0.9%). In addition, 16S rRNA gene sequences were amplified using polymerase chain reaction and domain-specific primers to construct a clone library based on 142 bacterial clones. These clones were affiliated with the following groups: Proteobacteria (56%) with 51% of ?-Proteobacteria, Acidobacteria (7.8%), Actinobacteria (17.6%), Chloroflexi (2.1%), Bacilli (1.4%), Cyanobacteria (2.8%), and Planctomycetes (1.4%). Within the phylum Proteobacteria, 56 of 80 clones were tentatively identified as 12 unclassified genera. Several new genera and a new family were discovered within the Actinobacteria clones. Results from 454-pyrosequencing revealed that 57% and 34% of the sequences belonged to undescribed genera and families, respectively. The characteristics of Gotjawal soil, which are determined by lava morphology, vegetation, and groundwater penetration, might be reflected in the bacterial community composition. PMID:25604185

  7. Adult carrion arthropod community in a tropical rainforest of Malaysia: analysis on three common forensic entomology animal models.

    Science.gov (United States)

    Azwandi, A; Nina Keterina, H; Owen, L C; Nurizzati, M D; Omar, B

    2013-09-01

    Decomposing carrion provides a temporary microhabitat and food source for a distinct community of organisms. Arthropods constitute a major part of this community and can be utilized to estimate the postmortem interval (PMI) of cadavers during criminal investigations. However, in Malaysia, knowledge of carrion arthropod assemblages and their succession is superficial. Therefore, a study on three types of forensic entomology animal model was conducted from 27 September 2010 to 28 October 2010 in a tropical rainforest at National University of Malaysia, Bangi, Selangor, Malaysia. Over one month collections of arthropods were made on nine animal carcasses: three laboratory rats (Rattus norvegicus, mean weight: 0.508 ± 0.027 kg), three rabbits (Oryctolagus cuniculus, mean weight: 2.538 ± 0.109 kg) and three long tailed macaque (Macaca fascicularis, mean weight: 5.750 ± 0.551 kg). A total of 31,433 arthropods belonging to eight orders and twenty-eight families were collected from all carcasses. Among 2924 of adults flies collected, approximately 19% were calliphorids with Chrysomya megacephala (Fabricius, 1794) being the most abundant. Arthropod taxon richness was lower on rat carcasses compared to that of rabbit and monkey carcasses, and this was more apparent during the first week of decomposition. However, there were no significant differences in Shannon-Weiner index (H'), Simpson dominance index (C) and Pielou's Evenness index (J) between different animal model. The arthropod assemblages associated to animal model were different significantly (p<0.05) while decomposition stage was a significant factor influencing insect assemblages (p<0.05). Analysis on the arthropods succession indicated that some taxa have a clear visitation period while the others, particularly Coleoptera, did not show a clear successional pattern thus require futher insect succession study. Although human bodies were not possible for the succession study, most of the arthropods collected are necrophagous, and will also possibly colonize human cadaver, and potentially be useful in assisting in estimates of PMI in future forensic cases in Malaysia. PMID:24189678

  8. How many people have alcohol use disorders?: using the harmful dysfunction analysis to reconcile prevalence estimates in two community surveys

    Directory of Open Access Journals (Sweden)

    JeromeCWakefield

    2014-02-01

    Full Text Available Community prevalence rates of alcohol use disorders (AUDs provided by epidemiological studies using DSM-based diagnostic criteria pose several challenges: the rates appear implausibly high to many epidemiologists; they do not converge across similar studies; and, due to low service utilization by those diagnosed as disordered, they yield estimates of unmet need for services so high that credibility for planning purposes is jeopardized. For example, two early community studies using DSM diagnostic criteria, the Epidemiologic Catchment Area Study (ECA and the National Comorbidity Survey (NCS, yielded lifetime AUD prevalence rates of 14% and 24%, respectively, with NCS unmet need for services 19% of the entire population. Attempts to address these challenges by adding clinical significance requirements to diagnostic criteria have proven unsuccessful. Hypothesizing that these challenges are due to high rates of false positive diagnoses of problem drinking as AUDs, we test an alternative approach. We use the harmful dysfunction (HD analysis of the concept of mental disorder as a guide to construct more valid criteria within the framework of the standard out-of-control model of AUD. The proposed HD criteria require harm and dysfunction, where harm can be any negative social, personal, or physical outcome, and dysfunction requires either withdrawal symptoms or inability to stop drinking. Using HD criteria, ECA and NCS lifetime prevalences converge to much-reduced rates of 6% and 6.8%, respectively. Due to higher service utilization rates, NCS lifetime unmet need is reduced to 3.4%. Service-use and duration comparisons suggest increased diagnostic validity. Moreover, HD criteria eliminate 90% of transient teenage drinking from disorder status. The HD version of the out-of-control model thus potentially resolves the three classic prevalence challenges while offering a more rigorous approach to distinguishing AUDs from problematic drinking.

  9. Metagenome Sequence Analysis of Filamentous Microbial Communities Obtained from Geochemically Distinct Geothermal Channels Reveals Specialization of Three Aquificales Lineages

    Directory of Open Access Journals (Sweden)

    WilliamP.Inskeep

    2013-05-01

    Full Text Available The Aquificales are thermophilic microorganisms that inhabit hydrothermal systems worldwide and are considered one of the earliest lineages of the domain Bacteria. We analyzed metagenome sequence obtained from six thermal ‘filamentous streamer’ communities (~40 Mbp per site, which targeted three different groups of Aquificales found in Yellowstone National Park (YNP. Unassembled metagenome sequence and PCR-amplified 16S rRNA gene libraries revealed that acidic, sulfidic sites were dominated by Hydrogenobaculum (Aquificaceae populations, whereas the circumneutral pH (6.5 - 7.8 sites containing dissolved sulfide were dominated by Sulfurihydrogenibium spp. (Hydrogenothermaceae. Thermocrinis (Aquificaceae populations were found primarily in the circumneutral sites with undetectable sulfide, and to a lesser extent in one sulfidic system at pH 8. Phylogenetic analysis of assembled sequence containing 16S rRNA genes as well as conserved protein-encoding genes revealed that the composition and function of these communities varied across geochemical conditions. Each Aquificales lineage contained genes for CO2 fixation by the reverse TCA cycle, but only the Sulfurihydrogenibium populations perform citrate cleavage using ATP citrate lyase (Acl. The Aquificaceae populations use an alternative pathway catalyzed by two separate enzymes, citryl CoA synthetase (Ccs and citryl CoA lyase (Ccl. All three Aquificales lineages contained evidence of aerobic respiration, albeit due to completely different types of heme Cu oxidases (subunit I involved in oxygen reduction. The distribution of Aquificales populations and differences among functional genes involved in energy generation and electron transport is consistent with the hypothesis that geochemical parameters (e.g., pH, sulfide, H2, O2 have resulted in niche specialization among members of the Aquificales.

  10. The methodology for developing a prospective meta-analysis in the family planning community

    Directory of Open Access Journals (Sweden)

    Jacobson Janet C

    2011-04-01

    Full Text Available Abstract Background Prospective meta-analysis (PMA is a collaborative research design in which individual sites perform randomized controlled trials (RCTs and pool the data for meta-analysis. Members of the PMA collaboration agree upon specific research interventions and outcome measures, ideally before initiation but at least prior to any individual trial publishing results. This allows for uniform reporting of primary and secondary outcomes. With this approach, heterogeneity among trials contributing data for the final meta-analysis is minimized while each site maintains the freedom to design a specific trial. This paper describes the process of creating a PMA collaboration to evaluate the impact of misoprostol on ease of intrauterine device (IUD insertion in nulliparous women. Methods After the principal investigator developed a preliminary PMA protocol, he identified potential collaborating investigators at other sites. One site already had a trial underway and another site was in the planning stages of a trial meeting PMA requirements. Investigators at six sites joined the PMA collaborative. Each site committed to enroll subjects to meet a pre-determined total sample size. A final common research plan and site responsibilities were developed and agreed upon through email and face-to-face meetings. Each site committed to contribute individual patient data to the PMA collaboration, and these data will be analyzed and prepared as a multi-site publication. Individual sites retain the ability to analyze and publish their site's independent findings. Results All six sites have obtained Institutional Review Board approval and each has obtained individual funding to meet the needs of that site's study. Sites have shared resources including study protocols and consents to decrease costs and improve study flow. This PMA protocol is registered with the Cochrane Collaboration and data will be analyzed according to Cochrane standards for meta-analysis. Conclusions PMA is a novel research method that improves meta-analysis by including several study sites, establishing uniform reporting of specific outcomes, and yet allowing some independence on the part of individual sites with respect to the conduct of research. The inclusion of several sites increases statistical power to address important clinical questions. Compared to multi-center trials, PMA methodology encourages collaboration, aids in the development of new investigators, decreases study costs, and decreases time to publication. Trial Registration ClinicalTrials.gov: NCT00613366, NCT00886834, NCT01001897, NCT01147497 and NCT01307111

  11. Community contextual predictors of endoscopic colorectal cancer screening in the USA: spatial multilevel regression analysis

    Directory of Open Access Journals (Sweden)

    Mobley Lee R

    2010-09-01

    Full Text Available Abstract Background Colorectal cancer (CRC is the second leading cause of cancer death in the United States, and endoscopic screening can both detect and prevent cancer, but utilization is suboptimal and varies across geographic regions. We use multilevel regression to examine the various predictors of individuals' decisions to utilize endoscopic CRC screening. Study subjects are a 100% population cohort of Medicare beneficiaries identified in 2001 and followed through 2005. The outcome variable is a binary indicator of any sigmoidoscopy or colonoscopy use over this period. We analyze each state separately and map the findings for all states together to reveal patterns in the observed heterogeneity across states. Results We estimate a fully adjusted model for each state, based on a comprehensive socio-ecological model. We focus the discussion on the independent contributions of each of three community contextual variables that are amenable to policy intervention. Prevalence of Medicare managed care in one's neighborhood was associated with lower probability of screening in 12 states and higher probability in 19 states. Prevalence of poor English language ability among elders in one's neighborhood was associated with lower probability of screening in 15 states and higher probability in 6 states. Prevalence of poverty in one's neighborhood was associated with lower probability of screening in 36 states and higher probability in 5 states. Conclusions There are considerable differences across states in the socio-ecological context of CRC screening by endoscopy, suggesting that the current decentralized configuration of state-specific comprehensive cancer control programs is well suited to respond to the observed heterogeneity. We find that interventions to mediate language barriers are more critically needed in some states than in others. Medicare managed care penetration, hypothesized to affect information about and diffusion of new endoscopic technologies, has a positive association in only a minority of states. This suggests that managed care plans' promotion of this cost-increasing technology has been rather limited. Area poverty has a negative impact in the vast majority of states, but is positive in five states, suggesting there are some effective cancer control policies in place targeting the poor with supplemental resources promoting CRC screening.

  12. Community health education for rural women: analysis of a training programme.

    Science.gov (United States)

    Kaithathara, S

    1982-01-01

    A regional community health program established in South Orissa, India, is described. It was found that women are the best health workers and educators in rural areas since cultural beliefs are more deeply rooted among them, they look after the sick in the family, they can enter every house where men cannot, and the risk of malpractice and misuse of training is less with women. A cultural obstacle was that sickness among these people is considered a curse of the spirit of their ancestors. The 1st phase of the program is a live-in experience in which the trainees come together for training classes. The causes and treatment of nutritional deficiency diseases, especially malnutrition, early blindness, and anemia are discussed. Posters, charts, and tape recordings proved to keep their attention, as did analogies taken from their daily experience, and communication through song and dance. At the end of 3 weeks the women have to take a test and are then taken back to their villages by the staff of each health center. They have been found to communicate well with their own people, understood the difficulty of changing local beliefs, and did not need formal educational environments in order to communicate. The 2nd phase, after 3-4 months of work experience, is a training course providing them with a chance to share their experiences and gain a deeper understanding of society, teaching about the causes, effects, and treatment of common diseases, with emphasis put on health education, especially food preparation and diet. Also taught were basics of market values, social customs, and causes of poverty. The women again returned to their villages to conduct more in-depth health education. After 4 months, the women return for the 3rd phase in which they were taught home nursing and first aid, discussed social injustices, finances, and other topics. When they returned to their villages they were able to provide the people with medical, family, and personal help. Some went on to become members of the village committees and were given new respect by male members of the village. The 4th phase involved sharing experiences once again and learning organizational skills. Some major obstacles were: 1) using health workers is a part of the total system that does not really meet the needs of the common people, 2) political problems, and 3) institutional problems. PMID:12279419

  13. Pharmaceutical consultations in community pharmacies: utility of the Roter Interaction Analysis System to study pharmacist-patient communication.

    Science.gov (United States)

    Cavaco, Afonso; Roter, Debra

    2010-06-01

    Communication is a key issue in the delivery of healthcare services. In the pharmacy context, pharmacist-patient communication may vary from brief counselling episodes to extensive pharmaceutical care consultations. Many community pharmacies have developed practices to facilitate the effective delivery of pharmacy care, in particular to chronic patients, although the nature and extent of the services differ widely from country to country. Diabetes-focused pharmaceutical care is an example highlighting both the opportunities and challenges associated with an expansion of pharmacy services from product dispensing to pharmaceutical consultations. An area of particular challenge of such an expansion of pharmaceutical services is the development of expertise in the delivery of patient-centred pharmaceutical consultations. Although well known to medicine and nursing, patient-centredness has not been routinely incorporated into the training of pharmacists, evaluation of pharmacy practice or conduct of pharmacy-related research. There are few studies of the communication process based on analysis of an objective record such as an audio or video recording and the common perspective is largely a one-way information flow from pharmacist to patient. This has hampered the field's ability to link pharmacy communication to outcomes, including patient adherence and satisfaction with services. An extensive body of communication research on physician-patient interaction, employing the Roter Interaction Analysis System (RIAS), exists and the system presents a potentially useful tool in the pharmacy context. The purpose of this essay is to explore the utility of the RIAS for analysis of pharmacist-patient interaction and its implication for improving patient care and optimizing pharmacy-specific outcomes. PMID:20509347

  14. Energy analysis of the coal fuel cycle: Community health and resource change in an Appalachian coal county

    International Nuclear Information System (INIS)

    In spite of steadily expanding coal development in this decade in the USA, there has been little systematic assessment of occupational and public health implications of increased production in specific regions of the USA. Preliminary analysis of a prototype Appalachian area is presented. Anderson County, Tennessee, the prototype area chosen for evaluation, lies in the Upper East Tennessee Coalfield. This county is uniquely suited for study since every process of the coal fuel cycle (extraction, transport, combustion, power production and waste disposal) takes place within the county boundary. By extensive exploitation of both surface and underground methods of extraction, this county has maintained a leading position in Tennessee's coal production for several years. Concepts of energy analysis and systematized data presentation were used to convert information gathered from diverse sources into comparable energy units (kcal). Concepts and methodology implemented in the analysis can be applied most appropriately to existing conditions in other counties of the Appalachian Coal Basin. Findings are presented for calendar year 1978. For the year of study, the major energy loss to the county was depletion of the coal resource base by use of inefficient mining techniques (a loss of 10.5x1012kcal fuel equivalents). Another loss is to community health, which is depleted by lost productivity of, and compensation payments to, victims of mining accidents and occupationvictims of mining accidents and occupational disease such as 'black lung' (15x109kcal). Another countywide depletion process is roadbed and bridge deterioration caused by large volumes of heavy coal-haul vehicular traffic (10x109kcal). These losses are being borne mainly by residents of the Appalachian host region, with little systematic compensation by consumers of the coal resource. It is expected that these losses will increase in magnitude as national coal use increases. (author)

  15. Phylogenetic and functional gene analysis of the bacterial and archaeal communities associated with the surface microlayer of an estuary.

    Science.gov (United States)

    Cunliffe, Michael; Schäfer, Hendrik; Harrison, Emma; Cleave, Simon; Upstill-Goddard, Robert; Murrell, J Colin

    2008-07-01

    The surface microlayer (SML) is the thin biogenic film found at the surface of a water body. The SML is poorly understood but has been shown to be important in biogeochemical cycling and sea-air gas exchange. We sampled the SML of the Blyth estuary at two sites (salinities 21 and 31 psu) using 47 mm polycarbonate membranes. DNA was extracted from the SML and corresponding subsurface water (0.4 m depth) and microbial (bacteria and archaea) community analysis was performed using denaturing gradient gel electrophoresis of 16S rRNA gene PCR amplicons. The diversity of bacterial functional genes that encode enzyme subunits for methane monooxygenase (pmoA and mmoX) and carbon monoxide dehydrogenase (coxL) was assessed using PCR, clone library construction and restriction fragment length polymorphism (RFLP) analysis. Methanotroph genes were present only in low copy numbers and pmoA was detected only in subsurface samples. Diversity of mmoX genes was low and most of the clone sequences detected were similar to those of mmoX from Methylomonas spp. Interestingly, some sequences detected in the SML were different from those detected in the subsurface. RFLP analysis of coxL clone libraries indicated a high diversity of carbon monoxide (CO)-utilizing bacteria in the estuary. The habitats of the closely related coxL sequences suggest that CO-utilizing bacteria in the estuary are recruited from both marine and freshwater/terrestrial inputs. In contrast, methanotroph recruitment appears to occur solely from freshwater input into the estuary. PMID:18356822

  16. Intercomparison of the community multiscale air quality model and CALGRID using process analysis.

    Science.gov (United States)

    O'Neill, Susan M; Lamb, Brian K

    2005-08-01

    This study was designed to examine the similarities and differences between two advanced photochemical air quality modeling systems: EPA Models-3/CMAQ and CALGRID/CALMET. Both modeling systems were applied to an ozone episode that occurred along the I-5 urban corridor in western Washington and Oregon during July 11-14, 1996. Both models employed the same modeling domain and used the same detailed gridded emission inventory. The CMAQ model was run using both the CB-IV and RADM2 chemical mechanisms, while CALGRID was used with the SAPRC-97 chemical mechanism. Outputfrom the Mesoscale Meteorological Model (MM5) employed with observational nudging was used in both models. The two modeling systems, representing three chemical mechanisms and two sets of meteorological inputs, were evaluated in terms of statistical performance measures for both 1- and 8-h average observed ozone concentrations. The results showed that the different versions of the systems were more similar than different, and all versions performed well in the Portland region and downwind of Seattle but performed poorly in the more rural region north of Seattle. Improving the meteorological input into the CALGRID/CALMET system with planetary boundary layer (PBL) parameters from the Models-3/CMAQ meteorology preprocessor (MCIP) improved the performance of the CALGRID/CALMET system. The 8-h ensemble case was often the best performer of all the cases indicating that the models perform better over longer analysis periods. The 1-h ensemble case, derived from all runs, was not necessarily an improvement over the five individual cases, but the standard deviation about the mean provided a measure of overall modeling uncertainty. Process analysis was applied to examine the contribution of the individual processes to the species conservation equation. The process analysis results indicated that the two modeling systems arrive at similar solutions by very different means. Transport rates are faster and exhibit greater fluctuations in the CMAQ cases than in the CALGRID cases, which lead to different placement of the urban ozone plumes. The CALGRID cases, which rely on the SAPRC97 chemical mechanism, exhibited a greater diurnal production/loss cycle of ozone concentrations per hour compared to either the RADM2 or CBIV chemical mechanisms in the CMAQ cases. These results demonstrate the need for specialized process field measurements to confirm whether we are modeling ozone with valid processes. PMID:16124311

  17. A Multifactor Analysis of Fungal and Bacterial Community Structure in the Root Microbiome of Mature Populus deltoides Trees

    OpenAIRE

    Shakya, Migun; Gottel, Neil; Castro, Hector; Yang, Zamin K.; Gunter, Lee; Labbe?, Jessy; Muchero, Wellington; Bonito, Gregory; Vilgalys, Rytas; Tuskan, Gerald; Podar, Mircea; Schadt, Christopher W.

    2013-01-01

    Bacterial and fungal communities associated with plant roots are central to the host health, survival and growth. However, a robust understanding of the root-microbiome and the factors that drive host associated microbial community structure have remained elusive, especially in mature perennial plants from natural settings. Here, we investigated relationships of bacterial and fungal communities in the rhizosphere and root endosphere of the riparian tree species Populus deltoides, and the infl...

  18. Rapid comparison and correlation analysis among massive number of microbial community samples based on MDV data model

    OpenAIRE

    Su, Xiaoquan; Hu, Jianqiang; Huang, Shi; Ning, Kang

    2014-01-01

    The research in microbial communities would potentially impact a vast number of applications in “bio”-related disciplines. Large-scale analyses became a clear trend in microbial community studies, thus it is increasingly important to perform efficient and in-depth data mining for insightful biological principles from large number of samples. However, as microbial communities are from different sources and of different structures, comparison and data-mining from large number of samples bec...

  19. Building Safer Communities: The Integrated Community Safety Approach

    Energy Technology Data Exchange (ETDEWEB)

    Fawcett, Ricky Lee; Kerr, Thomas A; Jordan, Steven Albert

    2001-03-01

    This paper discusses an integrated community safety approach to creating safer communities. It defines community broadly to include two categories of community members: “industry” and “neighbors.” Potential community members within the “industry” category include facilities, government/regulators, customers, stockholders, and suppliers. Within the “neighbors” category are towns, cities, counties, states; people/commodity flow systems; news media and special interest groups; environment; and families of employees. Each of these potential community members and its characteristics are discussed. The integrated community safety approach consists of three major activities: (1) define the boundaries of the community; (2) facilitate the sense of community; and (3) address the needs of the community. Defining the boundaries of the community includes determining the geographical and social boundaries; this is accomplished through conducting a hazard analysis and community involvement to identify all of the community members. Facilitating the sense of community includes conducting a capability/needs assessment and continuing community involvement to identify the issues and concerns of community members. Addressing the needs of the community involves master planning to consider safety issues in all community development actions and continuing community education and involvement. The integrated community safety approach is a workable approach for existing industries and their neighbors as well as new projects that industries and their neighbors might be considering. By using this socio-technical approach to integrating industry and all of its neighbors into a safer community, the integrated community safety approach will better assure the viability and safety of industry and its neighbors while maintaining or improving the overall quality of life.

  20. DIFFERENTIAL MORTALITY IN A LONG-LIVING COMMUNITY IN SARDINIA (ITALY): A COHORT ANALYSIS.

    Science.gov (United States)

    Salaris, Luisa

    2014-06-01

    Summary The majority of studies on longevity in Sardinia point to an exceptional level of longevity, particularly for males, in this region of Italy. This study used individual data, considering selected groups of individuals such as centenarians, or focusing on cohorts of newborns in a large time period, that have previously been treated as a single group. An analysis on decennial birth cohorts from 1872 to 1911 in a selected village located in the Blue Zone area of longevity in Sardinia was used to gain insight into sex differentials in mortality in this area of high longevity and to separate differences between cohorts' experiences, considering the possible role of significant events in determining differential mortality among them. The results show that there is not a secular trend in survival in the birth cohorts under study, but rather that several points of mortality convergence and crossover occur, which make the estimates derived from conventional sensitivity tests of survival curves unreliable. Differences among birth cohorts' experiences are more marked among the male population and at early adult ages. External events are shown to play a relevant role in mortality variations, despite not having an impact on the ageing process. The results highlight that, although there are not statistically significant differences between the two sexes, the male population is exposed to a higher risk of death and proves to be more vulnerable to external changes. This suggests that extreme contextual conditions, both favourable and unfavourable, may significantly affect the mortality trajectories of a population. PMID:24911445

  1. A community of curious souls: an analysis of commenting behavior on TED talks videos.

    Science.gov (United States)

    Tsou, Andrew; Thelwall, Mike; Mongeon, Philippe; Sugimoto, Cassidy R

    2014-01-01

    The TED (Technology, Entertainment, Design) Talks website hosts video recordings of various experts, celebrities, academics, and others who discuss their topics of expertise. Funded by advertising and members but provided free online, TED Talks have been viewed over a billion times and are a science communication phenomenon. Although the organization has been derided for its populist slant and emphasis on entertainment value, no previous research has assessed audience reactions in order to determine the degree to which presenter characteristics and platform affect the reception of a video. This article addresses this issue via a content analysis of comments left on both the TED website and the YouTube platform (on which TED Talks videos are also posted). It was found that commenters were more likely to discuss the characteristics of a presenter on YouTube, whereas commenters tended to engage with the talk content on the TED website. In addition, people tended to be more emotional when the speaker was a woman (by leaving comments that were either positive or negative). The results can inform future efforts to popularize science amongst the public, as well as to provide insights for those looking to disseminate information via Internet videos. PMID:24718634

  2. Constant Communities in Complex Networks

    CERN Document Server

    Chakraborty, Tanmoy; Ganguly, Niloy; Bhowmick, Sanjukta; Mukherjee, Animesh

    2013-01-01

    Identifying community structure is a fundamental problem in network analysis. Most community detection algorithms are based on optimizing a combinatorial parameter, for example modularity. This optimization is generally NP-hard, thus merely changing the vertex order can alter their assignments to the community. However, there has been very less study on how vertex ordering influences the results of the community detection algorithms. Here we identify and study the properties of invariant groups of vertices (constant communities) whose assignment to communities are, quite remarkably, not affected by vertex ordering. The percentage of constant communities can vary across different applications and based on empirical results we propose metrics to evaluate these communities. Using constant communities as a pre-processing step, one can significantly reduce the variation of the results. Finally, we present a case study on phoneme network and illustrate that constant communities, quite strikingly, form the core func...

  3. Analysis of bacterial communities and bacterial pathogens in a biogas plant by the combination of ethidium monoazide, PCR and Ion Torrent sequencing

    DEFF Research Database (Denmark)

    Luo, Gang; Angelidaki, Irini

    2014-01-01

    The present study investigated the changes of bacterial community composition including bacterial pathogens along a biogas plant, i.e. from the influent, to the biogas reactor and to the post-digester. The effects of post-digestion temperature and time on the changes of bacterial community composition and bacterial pathogens were also studied. Microbial analysis was made by Ion Torrent sequencing of the PCR amplicons from ethidium monoazide treated samples, and ethidium monoazide was used to cleave DNA from dead cells and exclude it from PCR amplification. Both similarity and taxonomic analysis showed that the bacterial community composition in the influent was changed after anaerobic digestion. Firmicutes were dominant in all the samples, while Proteobacteria decreased in the biogas reactor compared with the influent. Variations of bacterial community composition in the biogas reactor with time were also observed. This could be attributed to varying composition of the influent. Batch experiments showed that the methane recovery from the digested residues (obtained from biogas reactor) was mainly related with post-digestion temperature. However, post-digestion time rather than temperature had a significant effect on the changes of bacterial community composition. The changes of bacterial community composition were also reflected in the changes of relative abundance of bacterial pathogens. The richness and relative abundance of bacterial pathogens were reduced after anaerobic digestion in the biogas reactor. It was found in batch experiments that bacterial pathogens showed the highest relative abundance and richness after 30days' post-digestion. Streptococcus bovis was found in all the samples. Our results showed that special attention should be paid to the post-digestion since the increase in relative abundance of bacterial pathogens after post-digestion might reflect regrowth of bacterial pathogens and limit biosolids disposal vectors. © 2014 Elsevier Ltd.

  4. Effect of storage temperature on prokaryotic cell counts and community composition analysis from fixed and filtered seawater samples

    Science.gov (United States)

    Beardsley, Christine; Moss, Shaun M.; Azam, Farooq

    2008-06-01

    Marine, pelagic prokaryotes commonly are visualized and enumerated by epifluorescence microscopy after staining with fluorescent, DNA-binding dyes and sample preparation and storage has a major influence on obtaining reliable estimates. However, sampling often takes place in remote locations and the recommended continuous sample storage at -20°C until further sample evaluation is often logistically challenging or infeasible. We investigated the effect of storage temperature on fixed and filtered seawater samples for subsequent enumeration of total prokaryotic cells and community composition analysis by fluorescence in situ hybridization (FISH). Prokaryotic abundance in surface seawater was not significantly different after 99 days when filters were stored either at room temperature (RT) or at -20°C. Furthermore, there was no loss in detection rates of phylotypes by FISH from filters stored at RT or -20°C for 28-30 days. We conclude that fixed and filtered seawater samples intended for total prokaryote counts or for FISH may be maintained long-term at room temperature, and this should logistically facilitate diverse studies of prokaryote ecology, biogeography, and the occurrence of human and fish/shellfish pathogens.

  5. Analysis of the nuclear fuel cycle in European Community countries up to the year 2000 ESARDA point of view

    International Nuclear Information System (INIS)

    The use of nuclear energy for electricity production has substantially increased during the past years, and present day projections indicate a further increase for the next decade. The presently available safeguards technology satisfies the actual needs but the projected evolution of the nuclear fuel cycle is expected to pose new technical challenges. Experience has taught that much time elapses between the development of safeguard techniques and the routine field application. Therefore it appears reasonable to consider long term trends of RandD activities in the light of the described fuel cycle evolution. ESARDA has made a first step in this direction by making a fuel cycle analysis up to the year 2000, which should provide the orientation for RandD in the future. In May 1988, the seven ESARDA working groups met at Karlsruhe to address this theme and to analyse the safeguards relevant features of the future fuel cycle within the European Community (EC) countries and how they influence the further development of presently available techniques in the field of measurements, containment and surveillance (C/S), data evaluation, etc. The preliminary results of this meeting are presented in the paper

  6. Uncertainty Analysis of Runoff Simulations and Parameter Identifiability in the Community Land Model – Evidence from MOPEX Basins

    Energy Technology Data Exchange (ETDEWEB)

    Huang, Maoyi; Hou, Zhangshuan; Leung, Lai-Yung R.; Ke, Yinghai; Liu, Ying; Fang, Zhufeng; Sun, Yu

    2013-12-01

    With the emergence of earth system models as important tools for understanding and predicting climate change and implications to mitigation and adaptation, it has become increasingly important to assess the fidelity of the land component within earth system models to capture realistic hydrological processes and their response to the changing climate and quantify the associated uncertainties. This study investigates the sensitivity of runoff simulations to major hydrologic parameters in version 4 of the Community Land Model (CLM4) by integrating CLM4 with a stochastic exploratory sensitivity analysis framework at 20 selected watersheds from the Model Parameter Estimation Experiment (MOPEX) spanning a wide range of climate and site conditions. We found that for runoff simulations, the most significant parameters are those related to the subsurface runoff parameterizations. Soil texture related parameters and surface runoff parameters are of secondary significance. Moreover, climate and soil conditions play important roles in the parameter sensitivity. In general, site conditions within water-limited hydrologic regimes and with finer soil texture result in stronger sensitivity of output variables, such as runoff and its surface and subsurface components, to the input parameters in CLM4. This study demonstrated the feasibility of parameter inversion for CLM4 using streamflow observations to improve runoff simulations. By ranking the significance of the input parameters, we showed that the parameter set dimensionality could be reduced for CLM4 parameter calibration under different hydrologic and climatic regimes so that the inverse problem is less ill posed.

  7. Potential therapeutic drug target identification in Community Acquired-Methicillin Resistant Staphylococcus aureus (CA-MRSA) using computational analysis

    Science.gov (United States)

    Yadav, Pramod Kumar; Singh, Gurmit; Singh, Satendra; Gautam, Budhayash; Saad, Esmaiel IF

    2012-01-01

    The emergence of multidrug-resistant strain of community-acquired methicillin resistant Staphylococcus aureus (CA-MRSA) strain has highlighted the urgent need for the alternative and effective therapeutic approach to combat the menace of this nosocomial pathogen. In the present work novel potential therapeutic drug targets have been identified through the metabolic pathways analysis. All the gene products involved in different metabolic pathways of CA-MRSA in KEGG database were searched against the proteome of Homo sapiens using the BLASTp program and the threshold of E-value was set to as 0.001. After database searching, 152 putative targets were identified. Among all 152 putative targets, 39 genes encoding for putative targets were identified as the essential genes from the DEG database which are indispensable for the survival of CA-MRSA. After extensive literature review, 7 targets were identified as potential therapeutic drug target. These targets are Fructose-bisphosphate aldolase, Phosphoglyceromutase, Purine nucleoside phosphorylase, Uridylate kinase, Tryptophan synthase subunit beta, Acetate kinase and UDP-N-acetylglucosamine 1-carboxyvinyltransferase. Except Uridylate kinase all the identified targets were involved in more than one metabolic pathways of CA-MRSA which underlines the importance of drug targets. These potential therapeutic drug targets can be exploited for the discovery of novel inhibitors for CA-MRSA using the structure based drug design (SBDD) strategy. PMID:23055607

  8. Visual Analysis of the Quantitative Composition of Metagenomic Communities: the AmphoraVizu Webserver.

    Science.gov (United States)

    Kerepesi, Csaba; Szalkai, Balázs; Grolmusz, Vince

    2015-04-01

    Low-cost DNA sequencing methods have given rise to an enormous development of metagenomics in the past few years. One basic- and difficult-task is the phylogenetic annotation of the metagenomic samples studied. The difficulty comes from the fact that the typical environmental sample contains hundreds of unknown and still uncharacterized microorganisms. There are several possible methods to assign at least partial phylogenetic information to these uncharacterized data. Originally, the 16S ribosomal RNA was used as phylogenetic marker, then genome sequence alignments and similarity measures between the unknown genome and the reference genomes were applied (e.g., in the MEGAN software), and more recently, phylogeny-based methods applying suitable sets of marker genes were suggested (AMPHORA, AMPHORA2, and the webserver implementation AmphoraNet). Here, we present a visual analysis tool that is capable of demonstrating the quantitative relations gained from the output of the AMPHORA2 program or the easy-to-use AmphoraNet webserver. Our web-based tool, the AmphoraVizu webserver, makes the phylogenetic distribution of the metagenomic sample clearly visible by using the native output format of AMPHORA2 or AmphoraNet. The user may set the phylogenetic resolution (i.e., superkingdom, phylum, class, order, family, genus, and species) along with the chart type and will receive the distribution data detailed for all relevant marker genes in the sample. For publication quality results, the chart labels can be customized by the user. The visualization webserver is available at the address http://amphoravizu.pitgroup.org . The AmphoraNet webserver is available at http://amphoranet.pitgroup.org . The open-source version of the AmphoraVizu program is available for download at http://pitgroup.org/apps/amphoravizu/AmphoraVizu.pl . PMID:25296554

  9. Implications of Strain- and Species-Level Sequence Divergence for Community and Isolate Shotgun Proteomic Analysis

    Energy Technology Data Exchange (ETDEWEB)

    Denef, Vincent [University of California, Berkeley; Shah, Manesh B [ORNL; Verberkmoes, Nathan C [ORNL; Hettich, Robert {Bob} L [ORNL; Banfield, Jillian F. [University of California, Berkeley

    2007-01-01

    The recent surge in microbial genomic sequencing, combined with the development of high-throughput liquid chromatography-mass-spectrometry-based (LC/LC-MS/MS) proteomics, has raised the question of the extent to which genomic information of one strain or environmental sample can be used to profile proteomes of related strains or samples. Even with decreasing sequencing costs, it remains impractical to obtain genomic sequence for every strain or sample analyzed. Here, we evaluate how shotgun proteomics is affected by amino acid divergence between the sample and the genomic database using a probability-based model and a random mutation simulation model constrained by experimental data. To assess the effects of nonrandom distribution of mutations, we also evaluated identification levels using in silico peptide data from sequenced isolates with average amino acid identities (AAI) varying between 76 and 98%. We compared the predictions to experimental protein identification levels for a sample that was evaluated using a database that included genomic information for the dominant organism and for a closely related variant (95% AAI). The range of models set the boundaries at which half of the proteins in a proteomic experiment can be identified to be 77-92% AAI between orthologs in the sample and database. Consistent with this prediction, experimental data indicated loss of half the identifiable proteins at 90% AAI. Additional analysis indicated a 6.4% reduction of the initial protein coverage per 1% amino acid divergence and total identification loss at 86% AAI. Consequently, shotgun proteomics is capable of cross-strain identifications but avoids most crossspecies false positives.

  10. A community resource for high-throughput quantitative RT-PCR analysis of transcription factor gene expression in Medicago truncatula

    Directory of Open Access Journals (Sweden)

    Redman Julia C

    2008-07-01

    Full Text Available Abstract Background Medicago truncatula is a model legume species that is currently the focus of an international genome sequencing effort. Although several different oligonucleotide and cDNA arrays have been produced for genome-wide transcript analysis of this species, intrinsic limitations in the sensitivity of hybridization-based technologies mean that transcripts of genes expressed at low-levels cannot be measured accurately with these tools. Amongst such genes are many encoding transcription factors (TFs, which are arguably the most important class of regulatory proteins. Quantitative reverse transcription-polymerase chain reaction (qRT-PCR is the most sensitive method currently available for transcript quantification, and one that can be scaled up to analyze transcripts of thousands of genes in parallel. Thus, qRT-PCR is an ideal method to tackle the problem of TF transcript quantification in Medicago and other plants. Results We established a bioinformatics pipeline to identify putative TF genes in Medicago truncatula and to design gene-specific oligonucleotide primers for qRT-PCR analysis of TF transcripts. We validated the efficacy and gene-specificity of over 1000 TF primer pairs and utilized these to identify sets of organ-enhanced TF genes that may play important roles in organ development or differentiation in this species. This community resource will be developed further as more genome sequence becomes available, with the ultimate goal of producing validated, gene-specific primers for all Medicago TF genes. Conclusion High-throughput qRT-PCR using a 384-well plate format enables rapid, flexible, and sensitive quantification of all predicted Medicago transcription factor mRNAs. This resource has been utilized recently by several groups in Europe, Australia, and the USA, and we expect that it will become the 'gold-standard' for TF transcript profiling in Medicago truncatula.

  11. Morphometric analysis of nodules in human onchocerciasis collected in communities of the southern Chiapas focus, México.

    Science.gov (United States)

    González-Goméz, B E; Gómez-Priego, A; Méndez-Samperio, P; De-La-Rosa-Arana, J L

    2012-04-01

    Human onchocerciasis is a disease that remains as an important public health problem. The morphometric and physical characteristics of 363 Onchocerca volvulus nodules collected in the major endemic focus of onchocerciasis in Southern Chiapas (Soconusco), was assessed. In the present work we found that treatment the morphometry of 363 onchocercal nodules preserved in a 67% glycerol solution was determined by measuring the length, width and thick of each nodule with a Vernier caliper. The mass was determined with an analytical balance and the volume by measuring the water displacement, while the specific gravity was calculated by dividing mass over the volume. Statistical analysis was calculated for each parameter. The results showed that the nodules were rather longer than wider or thicker. Morphometric characteristics were 9.87 +/-3.70 (mean +/- standard deviation), 7.52 +/- 2.81, and 4.62 +/-+/- 2.06 mm for length, width and thick respectively. In regard to the shape, 62.81% of the nodules showed a lenticular shape, while 18.18% were spherical and 19.01% were ovoid. Based on the distribution of frequencies of the length, the nodules were classified in three groups: the "small" (5.77 +/- 0.73 mm; n = 104, 28.65%), the "medium" group (9.86 +/- 2.05 mm; n = 203 nodules, 55.92%), and the group of the "big" ones (16.03 +/- 1.91 mm; n = 56, 15.43%). Moreover, the physical characteristics were: for the mass 0.33 +/- 0.24 g, the volume of displaced water was 0.28 +/- 0.26 ml, and the specific gravity was 1.10 +/- 0.55 g/ml. The results indicated that most of the Mexican Onchocerca nodules have a lenticular shape with average size of 10x7x5 mm, which is useful in the knowledge of the genus biodiversity and can be taken as a parameter in clinical or epidemiological trials, where onchocerciasis remains as a public health problem. PMID:22662599

  12. Mobilizing Ideas in Knowledge Networks: A Social Network Analysis of the Human Resource Management Community 1990-2005

    Science.gov (United States)

    Henneberg, Stephan C.; Swart, Juani; Naude, Peter; Jiang, Zhizhong; Mouzas, Stefanos

    2009-01-01

    Purpose: The purpose of this paper is to show the role of social networks in mobilizing how actors both impact and are impacted on by their colleagues. It seeks to compare the human resource management (HRM) academic community with two other comparable communities, and to identify those groups that are seen to work closely together.…

  13. Constructing Achievement Orientations toward Literacy: An Analysis of Sociocultural Activity in Latino Home and Community Contexts. CIERA Report.

    Science.gov (United States)

    Monzo, Lilia; Rueda, Robert

    Minority children are often thought to lack an achievement orientation. This paper discusses the home and community contexts of Latina/o immigrant children in a low-income community in Southern California, to demonstrate how sociocultural factors interact to produce motivation. Findings reveal that even among demographically similar families, a…

  14. Exploring Community Influences on Leadership and Reform: A Micro-Level and Macro-Level Analysis of Poverty and Culture.

    Science.gov (United States)

    Capper, Colleen

    This comparative study explored community influences on leadership and educational reform in representative school districts located in low socioeconomic class, culturally diverse communities. The study compared outcomes of one state's efforts to educate disabled preschool children (ages 3-5) in school districts in low socioeconomic settings with…

  15. Phylogenetic analysis and in situ identification of the intestinal microbial community of rainbow trout ( Oncorhynchus mykiss , Walbaum)

    DEFF Research Database (Denmark)

    Huber, I.; Spanggaard, Bettina

    2004-01-01

    Aims: To identify the dominant culturable and nonculturable microbiota of rainbow trout intestine.Methods and Results: Microbial density of rainbow trout intestine was estimated by direct microscopic counts (4('),6-diamidino-2-phenylindole, DAPI) and by culturing on tryptone soya agar (TSA). Differential gradient gel electrophoresis analysis of bacterial DNA from intestinal samples, re-amplification of bands and sequence analysis was used to identify the bacteria that dominated samples where aerobic counts were less than or equal to2% of the DAPI counts. 16S rDNA gene sequences of 146 bacterial isolates and three sequences of uncultured bacteria were identified. A set of oligonucleotide probes was constructed and used to detect and enumerate the bacterial community structure of the gastrointestinal tract of rainbow trout by fluorescence in situ hybridization (FISH). Members of the gamma subclass of Proteobacteria (mainly Aeromonas and Enterobacteriaceae) dominated the bacterial population structure. Acinetobacter, Pseudomonas, Shewanella, Plesiomonas and Proteus were also identified together with isolates belonging to the beta subclass of Proteobacteria and Gram-positive bacteria with high and low DNA G + C content. In most samples, the aerobic count (on TSA) was 50-90% of the direct (DAPI) count. A bacterium representing a previously unknown phylogenetic lineage with only 89% 16S rRNA gene sequence similarity to Anaerofilum pentosovorans was detected in intestinal samples where aerobic counts were less than or equal to2% of direct (DAPI) counts. Ten to 75% of the microbial population in samples with low aerobic counts hybridized (FISH) with a probe constructed against this not-yet cultured bacterium.Conclusions: Proteobacteria belonging to the gamma subclass dominated the intestinal microbiota of rainbow trout. However, in some samples the microflora was dominated by uncultivated, presumed anaerobic, micro-organisms. The bacterial population structure of rainbow trout intestine, as well as total bacterial counts, varied from fish to fish.Significance and Impact of the Study: Good correlation was seen between cultivation results and in situ analysis, however, a molecular approach was crucial for the identification of organisms uncultivated on TSA

  16. Determining the Level of Application of Hazard Analysis and Critical Control Point (HACCP) Principles in Smoked Fish at Two Fishing Communities in Ebonyi State

    OpenAIRE

    Nwakpa, J. N.; Ikwor, T. N.; Ugwu, L. L. C.

    2014-01-01

    The study assessed and determined quality control on species of smoked fish using traditional method in two communities of Iyonu in Ishielu Local Government Area and Oziza in Afikpo North Local Government Area of Ebonyi State. The principles of Hazard Analysis and Critical Control Point (HACCP) was determined by the use of questionnaire administered to forty respondents, interview session was conducted to assess the cooperation and acceptability of HACCP programm...

  17. Use of Multiplex Terminal Restriction Fragment Length Polymorphism for Rapid and Simultaneous Analysis of Different Components of the Soil Microbial Community?

    OpenAIRE

    Singh, Brajesh K.; Nazaries, Loic; Munro, Stacey; Anderson, Ian C.; Campbell, Colin D.

    2006-01-01

    A multiplex terminal restriction fragment length polymorphism (M-TRFLP) fingerprinting method was developed and validated for simultaneous analysis of the diversity and community structure of two or more microbial taxa (up to four taxa). The reproducibility and robustness of the method were examined using soil samples collected from different habitats. DNA was PCR amplified separately from soil samples using individual taxon-specific primers for bacteria, archaea, and fungi. The same samples ...

  18. In the shadow of a new smoke free policy: A discourse analysis of health care providers' engagement in tobacco control in community mental health

    OpenAIRE

    Malchy Leslie A; Moffat Barbara M; Johnson Joy L

    2010-01-01

    Abstract Background The prevalence of tobacco use among individuals with mental illness remains a serious public health concern. Tobacco control has received little attention in community mental health despite the fact that many individuals with mental illness are heavy smokers and experience undue tobacco-related health consequences. Methods This qualitative study used methods of discourse analysis to examine the perceptions of health care providers, both professionals and paraprofessionals,...

  19. Comparative analysis of bacterial community-metagenomics in coastal Gulf of Mexico sediment microcosms following exposure to Macondo oil (MC252).

    Science.gov (United States)

    Koo, Hyunmin; Mojib, Nazia; Thacker, Robert W; Bej, Asim K

    2014-11-01

    The indigenous bacterial communities in sediment microcosms from Dauphin Island (DI), Petit Bois Island (PB) and Perdido Pass (PP) of the coastal Gulf of Mexico were compared following treatment with Macondo oil (MC252) using pyrosequencing and culture-based approaches. After quality-based trimming, 28,991 partial 16S rRNA sequence reads were analyzed by rarefaction, confirming that analyses of bacterial communities were saturated with respect to species diversity. Changes in the relative abundances of Proteobacteria, Bacteroidetes and Firmicutes played an important role in structuring bacterial communities in oil-treated sediments. Proteobacteria were dominant in oil-treated samples, whereas Firmicutes and Bacteroidetes were either the second or the third most abundant taxa. Tenericutes, members of which are known for oil biodegradation, were detected shortly after treatment, and continued to increase in DI and PP sediments. Multivariate statistical analyses (ADONIS) revealed significant dissimilarity of bacterial communities between oil-treated and untreated samples and among locations. In addition, a similarity percentage analysis showed the contribution of each species to the contrast between untreated and oil-treated samples. PCR amplification using DNA from pure cultures of Exiguobacterium,  Pseudoalteromonas,  Halomonas and Dyadobacter, isolated from oil-treated microcosm sediments, produced amplicons similar to polycyclic aromatic hydrocarbon-degrading genes. In the context of the 2010 Macondo blowout, the results from our study demonstrated that the indigenous bacterial communities in coastal Gulf of Mexico sediment microcosms responded to the MC252 oil with altered community structure and species composition. The rapid proliferation of hydrocarbonoclastic bacteria suggests their involvement in the degradation of the spilt oil in the Gulf of Mexico ecosystem. PMID:25205599

  20. The Topography of Poverty in the United States: A Spatial Analysis Using County-Level Data From the Community Health Status Indicators Project

    Directory of Open Access Journals (Sweden)

    James B. Holt, PhD, MPA

    2007-10-01

    Full Text Available Socioeconomic and health-related data at the county level are now available through the Community Health Status Indicators (CHSI database. These data are useful for assessing the health of communities and regions. Users of the CHSI data can access online reports and an online mapping application for visualizing patterns in various community-related measures. It also is possible to download these data to conduct local analyses. This paper describes a spatial analysis of poverty in the United States at the county level for 2000. Spatial statistical techniques in a geographic information system were used to quantify significant spatial patterns, such as concentrated poverty rates and spatial outliers. The analysis revealed significant and stark patterns of poverty. A distinctive north–south demarcation of low versus high poverty concentrations was found, along with isolated pockets of high and low poverty within areas in which the predominant poverty rates were opposite. This pattern can be described as following a continental poverty divide. These insights can be useful in explicating the underlying processes involved in forming such spatial patterns that result in concentrated wealth and poverty. The spatial analytic techniques are broadly applicable to socioeconomic and health-related data and can provide important information about the spatial structure of datasets, which is important for choosing appropriate analysis methods.

  1. Ultradeep 16S rRNA Sequencing Analysis of Geographically Similar but Diverse Unexplored Marine Samples Reveal Varied Bacterial Community Composition

    Science.gov (United States)

    Karutha Pandian, Shunmugiah

    2013-01-01

    Background Bacterial community composition in the marine environment differs from one geographical location to another. Reports that delineate the bacterial diversity of different marine samples from geographically similar location are limited. The present study aims to understand whether the bacterial community compositions from different marine samples harbour similar bacterial diversity since these are geographically related to each other. Methods and Principal Findings In the present study, 16S rRNA deep sequencing analysis targeting V3 region was performed using Illumina bar coded sequencing. A total of 22.44 million paired end reads were obtained from the metagenomic DNA of Marine sediment, Rhizosphere sediment, Seawater and the epibacterial DNA of Seaweed and Seagrass. Diversity index analysis revealed that Marine sediment has the highest bacterial diversity and the least bacterial diversity was observed in Rhizosphere sediment. Proteobacteria, Actinobacteria and Bacteroidetes were the dominant taxa present in all the marine samples. Nearly 62–71% of rare species were identified in all the samples and most of these rare species were unique to a particular sample. Further taxonomic assignment at the phylum and genus level revealed that the bacterial community compositions differ among the samples. Conclusion This is the first report that supports the fact that, bacterial community composition is specific for specific samples irrespective of its similar geographical location. Existence of specific bacterial community for each sample may drive overall difference in bacterial structural composition of each sample. Further studies like whole metagenomic sequencing will throw more insights to the key stone players and its interconnecting metabolic pathways. In addition, this is one of the very few reports that depicts the unexplored bacterial diversity of marine samples (Marine sediment, Rhizosphere sediment, Seawater) and the host associated marine samples (Seaweed and Seagrass) at higher depths from uncharacterised coastal region of Palk Bay, India using next generation sequencing technology. PMID:24167548

  2. Metagenome sequence analysis of filamentous microbial communities obtained from geochemically distinct geothermal channels reveals specialization of three aquificales lineages.

    DEFF Research Database (Denmark)

    Takacs-Vesbach, Cristina; Inskeep, William P

    2013-01-01

    The Aquificales are thermophilic microorganisms that inhabit hydrothermal systems worldwide and are considered one of the earliest lineages of the domain Bacteria. We analyzed metagenome sequence obtained from six thermal "filamentous streamer" communities (?40 Mbp per site), which targeted three different groups of Aquificales found in Yellowstone National Park (YNP). Unassembled metagenome sequence and PCR-amplified 16S rRNA gene libraries revealed that acidic, sulfidic sites were dominated by Hydrogenobaculum (Aquificaceae) populations, whereas the circum-neutral pH (6.5-7.8) sites containing dissolved sulfide were dominated by Sulfurihydrogenibium spp. (Hydrogenothermaceae). Thermocrinis (Aquificaceae) populations were found primarily in the circum-neutral sites with undetectable sulfide, and to a lesser extent in one sulfidic system at pH 8. Phylogenetic analysis of assembled sequence containing 16S rRNA genes as well as conserved protein-encoding genes revealed that the composition and function of thesecommunities varied across geochemical conditions. Each Aquificales lineage contained genes for CO2 fixation by the reverse-TCA cycle, but only the Sulfurihydrogenibium populations perform citrate cleavage using ATP citrate lyase (Acl). The Aquificaceae populations use an alternative pathway catalyzed by two separate enzymes, citryl-CoA synthetase (Ccs), and citryl-CoA lyase (Ccl). All three Aquificales lineages contained evidence of aerobic respiration, albeit due to completely different types of heme Cu oxidases (subunit I) involved in oxygen reduction. The distribution of Aquificales populations and differences among functional genes involved in energy generation and electron transport is consistent with the hypothesis that geochemical parameters (e.g., pH, sulfide, H2, O2) have resulted in niche specialization among members of the Aquificales.

  3. Patterns of comorbidity in community-dwelling older people hospitalised for fall-related injury: A cluster analysis

    Directory of Open Access Journals (Sweden)

    Finch Caroline F

    2011-08-01

    Full Text Available Abstract Background Community-dwelling older people aged 65+ years sustain falls frequently; these can result in physical injuries necessitating medical attention including emergency department care and hospitalisation. Certain health conditions and impairments have been shown to contribute independently to the risk of falling or experiencing a fall injury, suggesting that individuals with these conditions or impairments should be the focus of falls prevention. Since older people commonly have multiple conditions/impairments, knowledge about which conditions/impairments coexist in at-risk individuals would be valuable in the implementation of a targeted prevention approach. The objective of this study was therefore to examine the prevalence and patterns of comorbidity in this population group. Methods We analysed hospitalisation data from Victoria, Australia's second most populous state, to estimate the prevalence of comorbidity in patients hospitalised at least once between 2005-6 and 2007-8 for treatment of acute fall-related injuries. In patients with two or more comorbid conditions (multicomorbidity we used an agglomerative hierarchical clustering method to cluster comorbidity variables and identify constellations of conditions. Results More than one in four patients had at least one comorbid condition and among patients with comorbidity one in three had multicomorbidity (range 2-7. The prevalence of comorbidity varied by gender, age group, ethnicity and injury type; it was also associated with a significant increase in the average cumulative length of stay per patient. The cluster analysis identified five distinct, biologically plausible clusters of comorbidity: cardiopulmonary/metabolic, neurological, sensory, stroke and cancer. The cardiopulmonary/metabolic cluster was the largest cluster among the clusters identified. Conclusions The consequences of comorbidity clustering in terms of falls and/or injury outcomes of hospitalised patients should be investigated by future studies. Our findings have particular relevance for falls prevention strategies, clinical practice and planning of follow-up services for these patients.

  4. Cost-Effectiveness Analysis of Community Active Case Finding and Household Contact Investigation for Tuberculosis Case Detection in Urban Africa

    Science.gov (United States)

    Sekandi, Juliet N.; Dobbin, Kevin; Oloya, James; Okwera, Alphonse; Whalen, Christopher C.; Corso, Phaedra S.

    2015-01-01

    Introduction Case detection by passive case finding (PCF) strategy alone is inadequate for detecting all tuberculosis (TB) cases in high burden settings especially Sub-Saharan Africa. Alternative case detection strategies such as community Active Case Finding (ACF) and Household Contact Investigations (HCI) are effective but empirical evidence of their cost-effectiveness is sparse. The objective of this study was to determine whether adding ACF or HCI compared with standard PCF alone represent cost-effective alternative TB case detection strategies in urban Africa. Methods A static decision modeling framework was used to examine the costs and effectiveness of three TB case detection strategies: PCF alone, PCF+ACF, and PCF+HCI. Probability and cost estimates were obtained from National TB program data, primary studies conducted in Uganda, published literature and expert opinions. The analysis was performed from the societal and provider perspectives over a 1.5 year time-frame. The main effectiveness measure was the number of true TB cases detected and the outcome was incremental cost-effectiveness ratios (ICERs) expressed as cost in 2013 US$ per additional true TB case detected. Results Compared to PCF alone, the PCF+HCI strategy was cost-effective at US$443.62 per additional TB case detected. However, PCF+ACF was not cost-effective at US$1492.95 per additional TB case detected. Sensitivity analyses showed that PCF+ACF would be cost-effective if the prevalence of chronic cough in the population screened by ACF increased 10-fold from 4% to 40% and if the program costs for ACF were reduced by 50%. Conclusions Under our baseline assumptions, the addition of HCI to an existing PCF program presented a more cost-effective strategy than the addition of ACF in the context of an African city. Therefore, implementation of household contact investigations as a part of the recommended TB control strategy should be prioritized. PMID:25658592

  5. Critical analysis of science-related texts in a breastfeeding information, support, and advocacy community of practice

    Science.gov (United States)

    Lottero-Perdue, Pamela S.

    This study examines the way in which women in a breastfeeding information, support, and advocacy (BISA) community of practice critically engage with written/oral science-related texts. The range of texts that these participants encounter is explored and two critical reading approaches are investigated: (1) critical science reading, or reading to assess text validity; and (2) critical science-related text analysis (CSTA), or reading to determine the way in which a text positions subjects or reality, is indicative of particular interests, or leaves out particular voices. The former has been addressed by science education research; the latter is based upon feminist poststructuralism and critical literacy literature. Participants in BISA encounter a wide range of science-related texts, and, to varying degrees, assess the validity of these texts based upon what they know about science, their own and others' experiences, and practical knowledge. Participants also engage in CSTA to greater and lesser extents. Also, experts in BISA are entrusted by participants in the organization to identify valid and trustworthy texts. Differences in critical science reading across participants and texts are discussed, as are the purposes for critical science reading and conditions in BISA that support these critical practices. This study informs both science education and critical literacy research, argues that critical science reading and CSTA are worthwhile practices of both everyday folks and students, and suggests that educators encourage engagement in these practices by presenting students with conflicting science-related texts, encouraging doubt in and epistemic distancing from science-related texts, and modeling critical engagement with science-related texts for students.

  6. RIM-DB: a taxonomic framework for community structure analysis of methanogenic archaea from the rumen and other intestinal environments.

    Science.gov (United States)

    Seedorf, Henning; Kittelmann, Sandra; Henderson, Gemma; Janssen, Peter H

    2014-01-01

    Methane is formed by methanogenic archaea in the rumen as one of the end products of feed fermentation in the ruminant digestive tract. To develop strategies to mitigate anthropogenic methane emissions due to ruminant farming, and to understand rumen microbial differences in animal feed conversion efficiency, it is essential that methanogens can be identified and taxonomically classified with high accuracy. Currently available taxonomic frameworks offer only limited resolution beyond the genus level for taxonomic assignments of sequence data stemming from high throughput sequencing technologies. Therefore, we have developed a QIIME-compatible database (DB) designed for species-level taxonomic assignment of 16S rRNA gene amplicon data targeting methanogenic archaea from the rumen, and from animal and human intestinal tracts. Called RIM-DB (Rumen and Intestinal Methanogen-DB), it contains a set of 2,379 almost full-length chimera-checked 16S rRNA gene sequences, including 20 previously unpublished sequences from isolates from three different orders. The taxonomy encompasses the recently-proposed seventh order of methanogens, the Methanomassiliicoccales, and allows differentiation between defined groups within this order. Sequence reads from rumen contents from a range of ruminant-diet combinations were taxonomically assigned using RIM-DB, Greengenes and SILVA. This comparison clearly showed that taxonomic assignments with RIM-DB resulted in the most detailed assignment, and only RIM-DB taxonomic assignments allowed methanogens to be distinguished taxonomically at the species level. RIM-DB complements the use of comprehensive databases such as Greengenes and SILVA for community structure analysis of methanogens from the rumen and other intestinal environments, and allows identification of target species for methane mitigation strategies. PMID:25165621

  7. RIM-DB: a taxonomic framework for community structure analysis of methanogenic archaea from the rumen and other intestinal environments

    Directory of Open Access Journals (Sweden)

    Henning Seedorf

    2014-08-01

    Full Text Available Methane is formed by methanogenic archaea in the rumen as one of the end products of feed fermentation in the ruminant digestive tract. To develop strategies to mitigate anthropogenic methane emissions due to ruminant farming, and to understand rumen microbial differences in animal feed conversion efficiency, it is essential that methanogens can be identified and taxonomically classified with high accuracy. Currently available taxonomic frameworks offer only limited resolution beyond the genus level for taxonomic assignments of sequence data stemming from high throughput sequencing technologies. Therefore, we have developed a QIIME-compatible database (DB designed for species-level taxonomic assignment of 16S rRNA gene amplicon data targeting methanogenic archaea from the rumen, and from animal and human intestinal tracts. Called RIM-DB (Rumen and Intestinal Methanogen-DB, it contains a set of 2,379 almost full-length chimera-checked 16S rRNA gene sequences, including 20 previously unpublished sequences from isolates from three different orders. The taxonomy encompasses the recently-proposed seventh order of methanogens, the Methanomassiliicoccales, and allows differentiation between defined groups within this order. Sequence reads from rumen contents from a range of ruminant-diet combinations were taxonomically assigned using RIM-DB, Greengenes and SILVA. This comparison clearly showed that taxonomic assignments with RIM-DB resulted in the most detailed assignment, and only RIM-DB taxonomic assignments allowed methanogens to be distinguished taxonomically at the species level. RIM-DB complements the use of comprehensive databases such as Greengenes and SILVA for community structure analysis of methanogens from the rumen and other intestinal environments, and allows identification of target species for methane mitigation strategies.

  8. Analysis of the effectiveness of physical rehabilitation according spirographic indicators in community-acquired pneumonia during convalescence

    Directory of Open Access Journals (Sweden)

    Kalmykova Y.S.

    2014-05-01

    Full Text Available Purpose : to make a program of physical rehabilitation for convalescents after community-acquired pneumonia, promotes normalization of respiratory function. The objectives of the study was to evaluate the dynamics spirographic indicators during convalescence community-acquired pneumonia. Material: the study involved 28 women aged 19 to 24 years with a diagnosis of community-acquired pneumonia after convalescent. Results: the positive influence of physiotherapy based dance aerobics; morning hygienic gymnastics; therapeutic massage and physical therapy on indicators of lung volumes, ventilation and bronchial patency according spirographic research. Conclusion: in community-acquired pneumonia during the convalescence period recommended physical rehabilitation, which includes curative gymnastics based on dance aerobics, morning hygienic gymnastics, massage therapy, physiotherapy. It improves the functionality of the cardiorespiratory system, nonspecific immunity and overall physical performance level.

  9. Metaproteome analysis of the microbial community during leaf litter decomposition - the impact of stoichiometry and temperature perturbations

    Science.gov (United States)

    Keiblinger, K. M.; Schneider, T.; Leitner, S.; Hämmerle, I.; Riedel, K.; Zechmeister-Boltenstern, S.

    2012-04-01

    Leaf litter decomposition is the breakdown of dead plant material, a terrestrial ecosystem process of paramount importance. Nutrients released during decomposition play a key role for microbial growth and plant productivity. These processes are controlled by abiotic factors, such as climate, and by biotic factors, such as litter nutrient concentration and stoichiometry (carbon:nutrient ratio) and activity of soil organisms. Future climate change scenarios predict temperature perturbations, therefore following changes of microbial community composition and possible feedbacks on ecosystem processes are of key interest; especially as our knowledge about the microbial regulation of these processes is still scarce. Our aim was to elucidate how temperature perturbations and leaf litter stoichiometry affect the composition of the microbial decomposer community. To this end a terrestrial microcosm experiment using beech (Fagus sylvatica) litter with different stoichiometry was conducted. In a semi-quantitative metaproteomics approach (1D-SDS PAGE combined with liquid chromatography and tandem mass spectrometry; unique spectral counting) we used the intrinsic metabolic function of proteins to relate specific microbial activities to their phylogenetic origin in multispecies communities. Decomposer communities varied on litter with different stoichiometry so that microbial decomposers (fungi and bacteria) were favoured in litter with narrow C:nutrient ratios. The fungal community was dominated by Ascomycota (Eurotiomycetes, Sordariomycetes) and Basidiomycota (Agaricomycetes) and the bacterial community was dominated by Proteobacteria, Actinobacteria and Firmicutes. The extracellular enzymes we detected belonged mainly to classes of xylanases, pectinases, cellulases and proteases and were almost exclusively of fungal origin (particularly Ascomycota). Temperature stress (heat and frost) evoked strong changes in community composition, enzyme activities, dissolved organic nitrogen and litter pH. Freeze treatments resulted in increased fungal abundance and a decline in residual plant litter material, indicating slightly accelerated decomposition. Extracellular enzyme activities were especially blocked by heat treatment. Using metaproteomics enabled us to link the composition of the microbial community to its ecosystem function.

  10. Shotgun metagenomic analysis of metabolic diversity and microbial community structure in experimental vernal pools subjected to nitrate pulse

    Science.gov (United States)

    2013-01-01

    Background Human activities have greatly increased nitrogen (N) levels in natural habitats through atmospheric N deposition and nutrient leaching, which can have large effects on N cycling and other ecosystem processes. Because of the significant role microorganisms play in N cycling, high inputs of nitrogenous compounds, such as nitrate (NO3-), into natural ecosystems could have cascading effects on microbial community structure and the metabolic processes that microbes perform. To investigate the multiple effects of NO3- pollution on microbial communities, we created two shotgun metagenomes from vernal pool microcosms that were either enriched with a solution of 10 mg NO3--N (+NO3-) or received distilled water as a control (?N). Results After only 20 hours of exposure to NO3-, the initial microbial community had shifted toward one containing a higher proportional abundance of stress tolerance and fermentation environmental gene tags (EGTs). Surprisingly, we found no changes to N metabolism EGTs, even though large shifts in denitrification rates were seen between the?+NO3- and –N microcosms. Thus, in the absence of NO3- addition, it is plausible that the microbes used other respiratory pathways for energy. Respiratory pathways involving iron may have been particularly important in our –N microcosms, since iron acquisition EGTs were proportionally higher in the –N metagenome. Additionally, we noted a proportional increase in Acidobacteria and Alphaproteobacteria EGTs in response to NO3- addition. These community shifts in were not evident with TRFLP, suggesting that metagenomic analyses may detect fine-scale changes not possible with community profiling techniques. Conclusions Our results suggest that the vernal pool microbial communities profiled here may rely on their metabolic plasticity for growth and survival when certain resources are limiting. The creation of these metagenomes also highlights how little is known about the effects of NO3- pollution on microbial communities, and the relationship between community stability and function in response to disturbance. PMID:23574744

  11. GeoChip-Based Analysis of the Functional Gene Diversity and Metabolic Potential of Microbial Communities in Acid Mine Drainage? †

    OpenAIRE

    Xie, Jianping; He, Zhili; Liu, Xinxing; Liu, Xueduan; Nostrand, Joy D.; Deng, Ye; Wu, Liyou; Zhou, Jizhong; Qiu, Guanzhou

    2010-01-01

    Acid mine drainage (AMD) is an extreme environment, usually with low pH and high concentrations of metals. Although the phylogenetic diversity of AMD microbial communities has been examined extensively, little is known about their functional gene diversity and metabolic potential. In this study, a comprehensive functional gene array (GeoChip 2.0) was used to analyze the functional diversity, composition, structure, and metabolic potential of AMD microbial communities from three copper mines i...

  12. Metagenomic Analysis of Respiratory Tract DNA Viral Communities in Cystic Fibrosis and Non-Cystic Fibrosis Individuals

    OpenAIRE

    Willner, Dana; Furlan, Mike; Haynes, Matthew; Schmieder, Robert; Angly, Florent E.; Silva, Joas; Tammadoni, Sassan; Nosrat, Bahador; Conrad, Douglas; Rohwer, Forest

    2009-01-01

    The human respiratory tract is constantly exposed to a wide variety of viruses, microbes and inorganic particulates from environmental air, water and food. Physical characteristics of inhaled particles and airway mucosal immunity determine which viruses and microbes will persist in the airways. Here we present the first metagenomic study of DNA viral communities in the airways of diseased and non-diseased individuals. We obtained sequences from sputum DNA viral communities in 5 individuals wi...

  13. The gene regulatory network basis of the “community effect,” and analysis of a sea urchin embryo example

    OpenAIRE

    Bolouri, Hamid; Davidson, Eric H.

    2009-01-01

    The “Community Effect” denotes intra-territorial signaling amongst cells which constitute a particular tissue or embryonic progenitor field. The cells of the territory express the same transcriptional regulatory state, and the intra-territorial signaling is essential to maintenance of this specific regulatory state. The structure of the underlying gene regulatory network (GRN) subcircuitry explains the genomically wired mechanism by which community effect signaling is linked to the contin...

  14. Home visitation program effectiveness and the influence of community behavioral norms: a propensity score matched analysis of prenatal smoking cessation

    OpenAIRE

    Matone Meredith; Reilly Amanda Lr, O.; Luan Xianqun; Localio Russell; Rubin David M

    2012-01-01

    Abstract Background The influence of community context on the effectiveness of evidence-based maternal and child home visitation programs following implementation is poorly understood. This study compared prenatal smoking cessation between home visitation program recipients and local-area comparison women across 24 implementation sites within one state, while also estimating the independent effect of community smoking norms on smoking cessation behavior. Methods Retrospective cohort design us...

  15. Spatial and Temporal Analysis of the Microbial Community in Slow Sand Filters Used for Treating Horticultural Irrigation Water

    OpenAIRE

    Calvo-bado, Leo A.; Pettitt, Tim R.; Parsons, Nick; Petch, Geoff M.; Morgan, J. Alun W.; Whipps, John M.

    2003-01-01

    An experimental slow sand filter (SSF) was constructed to study the spatial and temporal structure of a bacterial community suppressive to an oomycete plant pathogen, Phytophthora cryptogea. Passage of water through the mature sand column resulted in complete removal of zoospores of the plant pathogen. To monitor global changes in the microbial community, bacterial and fungal numbers were estimated on selective media, direct viable counts of fungal spores were made, and the ATP content was me...

  16. Community Impacts of International Service-Learning and Study Abroad: An Analysis of Focus Groups with Program Leaders

    OpenAIRE

    Wood, Cynthia A.; Sarah Banks; Shari Galiardi; Jennifer Koehn; Kathleen Schroeder

    2012-01-01

    The ethical practice of international service-learning requires participants and institutions to examine their potential impacts on vulnerable host communities. This study reports on a series of focus groups with leaders of short-term international service-learning and other study abroad programs. The results of these focus groups suggests that while program leaders do not generally take into account the potential impacts of their programs on local communities in the design or implementation ...

  17. Bacterial community dynamics in a swine wastewater anaerobic reactor revealed by 16S rDNA sequence analysis.

    Science.gov (United States)

    Liu, An-Chi; Chou, Chu-Yang; Chen, Ling-Ling; Kuo, Chih-Horng

    2015-01-20

    Anaerobic digestion is a microbiological process of converting organic wastes into digestate and biogas in the absence of oxygen. In practice, disturbance to the system (e.g., organic shock loading) may cause imbalance of the microbial community and lead to digester failure. To examine the bacterial community dynamics after a disturbance, this study simulated an organic shock loading that doubled the chemical oxygen demand (COD) loading using a 4.5L swine wastewater anaerobic completely stirred tank reactor (CSTR). Before the shock (loading rate=0.65gCOD/L/day), biogas production rate was about 1-2L/L/day. After the shock, three periods representing increased biogas production rates were observed during days 1-7 (?4.0L/L/day), 13 (3.3L/L/day), and 21-23 (?6.1L/L/day). For culture-independent assessments of the bacterial community composition, the 454 pyrosequencing results indicated that the community contained >2500 operational taxonomic units (OTUs) and was dominated by three phyla: Bacteroidetes, Firmicutes, and Proteobacteria. The shock induced dynamic changes in the community composition, which was re-stabilized after approximately threefold hydraulic retention time (HRT). Intriguingly, upon restabilization, the community composition became similar to that observed before the shock, rather than reaching a new equilibrium. PMID:25500375

  18. Pyrosequencing analysis of free-living and attached bacterial communities in Meiliang Bay, Lake Taihu, a large eutrophic shallow lake in China.

    Science.gov (United States)

    Tang, Xiangming; Li, Linlin; Shao, Keqiang; Wang, Boweng; Cai, Xianlei; Zhang, Lei; Chao, Jianying; Gao, Guang

    2015-01-01

    To elucidate the relationship between particle-attached (PA, ?5.0 ?m) and free-living (FL, 0.2-5.0 ?m) bacterial communities, samplings were collected seasonally from November 2011 to August 2012 in Meiliang Bay, Lake Taihu, China. We used 454 pyrosequencing of 16S rRNA genes to study bacterial diversity and structure of PA and FL communities. The analysis rendered 37?985 highly qualified reads, subsequently assigned to 1755 operational taxonomic units (97% similarity) for the 8 samples. Although 27 high-level taxonomic groups were obtained, the 3 dominant phyla (Proteobacteria, Actinobacteria, and Bacteroidetes) comprised about 75.9% and 82.4% of the PA and FL fractions, respectively. Overall, we found no significant differences between community types, as indicated by ANOSIM R statistics (R = 0.063, P > 0.05) and the Parsimony test (P = 0.222). Dynamics of bacterial communities were correlated with changes in concentrations of total suspended solids (TSS) and total phosphorus (TP). In summer, a significant taxonomic overlap in the 2 size fractions was observed when Cyanobacteria, a major contributor of TSS and TP, dominated in the water, highlighting the potential rapid exchange between PA and FL bacterial populations in large shallow eutrophic lakes. PMID:25496473

  19. Use of multiplex terminal restriction fragment length polymorphism for rapid and simultaneous analysis of different components of the soil microbial community.

    Science.gov (United States)

    Singh, Brajesh K; Nazaries, Loic; Munro, Stacey; Anderson, Ian C; Campbell, Colin D

    2006-11-01

    A multiplex terminal restriction fragment length polymorphism (M-TRFLP) fingerprinting method was developed and validated for simultaneous analysis of the diversity and community structure of two or more microbial taxa (up to four taxa). The reproducibility and robustness of the method were examined using soil samples collected from different habitats. DNA was PCR amplified separately from soil samples using individual taxon-specific primers for bacteria, archaea, and fungi. The same samples were also subjected to a multiplex PCR with the primers for all three taxa. The terminal restriction fragment length polymorphism profiles generated for the two sets of PCR products were almost identical not only in terms of the presence of peaks but also in terms of the relative peak intensity. The M-TRFLP method was then used to investigate rhizosphere bacterial, fungal, and rhizobial/agrobacterial communities associated with the dwarf shrub Calluna vulgaris growing in either open moorland, a mature pine forest, or a transition zone between these two habitats containing naturally regenerating pine trees. Rhizosphere microbial communities associated with Vaccinium myrtillus collected from the native pine forest were also investigated. In this study, individual PCR products from the three taxa were also pooled before restriction digestion and fragment size analysis. The terminal restriction fragment length polymorphism profiles obtained with PCR products amplified individually and with multiplexed and pooled PCR products were found to be consistent with each other in terms of the number, position, and relative intensity of peaks. The results presented here confirm that M-TRFLP analysis is a highly reproducible and robust molecular tool for simultaneous investigation of multiple taxa, which allows more complete and higher resolution of microbial communities to be obtained more rapidly and economically. PMID:16936053

  20. Bacterial Community Analysis, New Exoelectrogen Isolation and Enhanced Performance of Microbial Electrochemical Systems Using Nano-Decorated Anodes

    Science.gov (United States)

    Xu, Shoutao

    Microbial electrochemical systems (MESs) have attracted much research attention in recent years due to their promising applications in renewable energy generation, bioremediation, and wastewater treatment. In a MES, microorganisms interact with electrodes via electrons, catalyzing oxidation and reduction reactions at the anode and the cathode. The bacterial community of a high power mixed consortium MESs (maximum power density is 6.5W/m2) was analyzed by using denature gradient gel electrophoresis (DGGE) and 16S DNA clone library methods. The bacterial DGGE profiles were relatively complex (more than 10 bands) but only three brightly dominant bands in DGGE results. These results indicated there are three dominant bacterial species in mixed consortium MFCs. The 16S DNA clone library method results revealed that the predominant bacterial species in mixed culture is Geobacter sp (66%), Arcobacter sp and Citrobacter sp. These three bacterial species reached to 88% of total bacterial species. This result is consistent with the DGGE result which showed that three bright bands represented three dominant bacterial species. Exoelectrogenic bacterial strain SX-1 was isolated from a mediator-less microbial fuel cell by conventional plating techniques with ferric citrate as electron acceptor under anaerobic conditions. Phylogenetic analysis of the 16S rDNA sequence revealed that it was related to the members of Citrobacter genus with Citrobacter sp. sdy-48 being the most closely related species. The bacterial strain SX-1 produced electricity from citrate, acetate, glucose, sucrose, glycerol, and lactose in MFCs with the highest current density of 205 mA/m2 generated from citrate. Cyclic voltammetry analysis indicated that membrane associated proteins may play an important role in facilitating electron transfer from the bacteria to the electrode. This is the first study that demonstrates that Citrobacter species can transfer electrons to extracellular electron acceptors. Citrobacter strain SX-1 is capable of generating electricity from a wide range of substrates in MFCs. This finding increases the known diversity of power generating exoelectrogens and provids a new strain to explore the mechanisms of extracellular electron transfer from bacteria to electrode. The wide range of substrate utilization by SX-1 increases the application potential of MFCs in renewable energy generation and waste treatment. Anode properties are critical for the performance of microbial electrolysis cells (MECs). Inexpensive Fe nanoparticle modified graphite disks were used as anodes to preliminarily investigate the effects of nanoparticles on the performance of Shewanella oneidensis MR-1 in MECs. Results demonstrated that average current densities produced with Fe nanoparticle decorated anodes were up to 5.9-fold higher than plain graphite anodes. Whole genome microarray analysis of the gene expression showed that genes encoding biofilm formation were significantly up-regulated as a response to nanoparticle decorated anodes. Increased expression of genes related to nanowires, flavins and c-type cytochromes indicate that enhanced mechanisms of electron transfer to the anode may also have contributed to the observed increases in current density. The majority of the remaining differentially expressed genes were associated with electron transport and anaerobic metabolism demonstrating a systemic response to increased power loads. The carbon nanotube (CNT) is another form of nano materials. Carbon nanotube (CNT) modified graphite disks were used as anodes to investigate the effects of nanostructures on the performance S. oneidensis MR-1 in microbial electrolysis cells (MECs). The current densities produced with CNT decorated anodes were up to 5.6-fold higher than plain graphite anodes. Global transcriptome analysis showed that cytochrome c genes associated with extracellular electron transfer are up-expressed by CNT decorated anodes, which is the leading factor to contribute current increase in CNT decorated anode MECs. The up regulated genes encoded to flavin a

  1. A multifactor analysis of fungal and bacterial community structure of the root microbiome of mature Populus deltoides trees

    Energy Technology Data Exchange (ETDEWEB)

    Shakya, Migun [ORNL; Gottel, Neil R [ORNL; Castro Gonzalez, Hector F [ORNL; Yang, Zamin [ORNL; Gunter, Lee E [ORNL; Labbe, Jessy L [ORNL; Muchero, Wellington [ORNL; Bonito, Gregory [Duke University; Vilgalys, Rytas [Duke University; Tuskan, Gerald A [ORNL; Podar, Mircea [ORNL; Schadt, Christopher Warren [ORNL

    2013-01-01

    Bacterial and fungal communities associated with plant roots are central to the host- health, survival and growth. However, a robust understanding of root-microbiome and the factors that drive host associated microbial community structure have remained elusive, especially in mature perennial plants from natural settings. Here, we investigated relationships of bacterial and fungal communities in the rhizosphere and root endosphere of the riparian tree species Populus deltoides, and the influence of soil parameters, environmental properties (host phenotype and aboveground environmental settings), host plant genotype (Simple Sequence Repeat (SSR) markers), season (Spring vs. Fall) and geographic setting (at scales from regional watersheds to local riparian zones) on microbial community structure. Each of the trees sampled displayed unique aspects to it s associated community structure with high numbers of Operational Taxonomic Units (OTUs) specific to an individual trees (bacteria >90%, fungi >60%). Over the diverse conditions surveyed only a small number of OTUs were common to all samples within rhizosphere (35 bacterial and 4 fungal) and endosphere (1 bacterial and 1 fungal) microbiomes. As expected, Proteobacteria and Ascomycota were dominant in root communities (>50%) while other higher-level phylogenetic groups (Chytridiomycota, Acidobacteria) displayed greatly reduced abundance in endosphere compared to the rhizosphere. Variance partitioning partially explained differences in microbiome composition between all sampled roots on the basis of seasonal and soil properties (4% to 23%). While most variation remains unattributed, we observed significant differences in the microbiota between watersheds (Tennessee vs. North Carolina) and seasons (Spring vs. Fall). SSR markers clearly delineated two host populations associated with the samples taken in TN vs. NC, but overall genotypic distances did not have a significant effect on corresponding communities that could be separated from other measured effects.

  2. Molecular Analysis of Bacterial Community DNA in Sludge Undergoing Autothermal Thermophilic Aerobic Digestion (ATAD: Pitfalls and Improved Methodology to Enhance Diversity Recovery

    Directory of Open Access Journals (Sweden)

    Anna V. Piterina

    2010-03-01

    Full Text Available Molecular analysis of the bacterial community structure associated with sludge processed by autothermal thermophilic aerobic digestion (ATAD, was performed using a number of extraction and amplification procedures which differed in yield, integrity, ability to amplify extracted templates and specificity in recovering species present. Interference to PCR and qPCR amplification was observed due to chelation, nuclease activity and the presence of thermolabile components derived from the ATAD sludge. Addition of selected adjuvant restored the ability to amplify community DNA, derived from the thermophilic sludge, via a number of primer sets of ecological importance and various DNA polymerases. Resolution of community profiles by molecular techniques was also influenced by the ATAD sludge extraction procedure as demonstrated by PCR-DGGE profiling and comparison of taxonomic affiliations of the most predominant members within 16S rRNA gene libraries constructed from ATAD DNA extracted by different methods. Several modifications have been shown to be necessary to optimize the molecular analysis of the ATAD thermal niche which may have general applicability to diversity recovery from similar environments.

  3. Content analysis and key informant interviews to examine community response to the purchase, possession, and/or use of tobacco by minors.

    Science.gov (United States)

    Hrywna, Mary; Adler, Raychel Kubby; Delnevo, Cristine D; Slade, John D

    2004-06-01

    The aim of this study was to identify and describe local ordinances in New Jersey that make it illegal for minors to purchase, possess, and/or use tobacco (PPU). A coding instrument was formulated and content analysis of each ordinance was conducted between March 1999 andJanuary 2002. Additionally, key informant interviews with community officials were conducted by telephone between September 2000 and February 2002 to collect qualitative information on implementation and enforcement. Content analysis of identified ordinances assessed when the ordinance was enacted, specific laws and clauses included, enforcing party, area of jurisdiction, and penalties associated with a citation. Key informant interviews assessed the catalyst for enacting the ordinance, penalties, enforcement activity, and method of tracking citations. As of January 2002, 48 municipalities in New Jersey had passed mandates banning minor purchase, possession, and/or use of tobacco. Of the 48 ordinances reviewed, 71% were passed during or after 1998. Nearly all of the ordinances (94%) included prohibited minor usage of tobacco, 77% prohibited minor possession of tobacco and 23% prohibited minor purchase of tobacco. In over 80% of communities, municipal police departments were responsible for enforcement. Two out of 35 communities reached for interview reported having a formal system for tracking enforcement or citations. The results illustrate that local PPU ordinances in New Jersey vary widely both in principle and in practice, suggesting that such ordinances may be too heterogeneous and lacking in cohesion to have any impact on youth smoking. PMID:15141896

  4. Elucidation of the Microbial Community in Activated Sludge Using PCR-DGGE Analysis in Arid and Semi Arid Regions of Rajasthan

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    Chandra Shivani

    2013-01-01

    Full Text Available Activated sludge is the most commonly used process to treat sewage and industrial waste waterby micro organisms. The activated sludge system depends on the activities of microbial communitiespresent in the sludge. However, exact knowledge of the microbial community structure in waste watertreatment plants is limited. In this study, the bacterial diversity of activated sludge was investigated inthe two waste water treatment plants by using denaturing gradient gel electrophoresis (DGGE of PCRamplified16S ribosomal DNA fragments. Dominant bands from DGGE profiles were excised andsubjected to sequencing to identify the dominant genotypes. Sequence analysis gave insights into theidentities of the predominant bacterial populations present. The DNA sequencing results indicated themicrobial diversity, revealing that the dominant bacteria present in Bramhapuri waste water treatmentplant is Acinetobacter sp. whereas the dominant bacteria in Pratapnagar (Delawas waste watertreatment plant is Alpha-proteobacteria. Futhermore, cluster analysis of the DGGE profiles indicatedsignificant diversity in the bacterial community by depicting two distinct clusters for each waste watertreatment plant. These data endorse the ability of PCR-DGGE method to identify and characterizebacterial community from activated sludge.

  5. Comparative analysis between protist communities from the deep-sea pelagic ecosystem and specific deep hydrothermal habitats.

    Science.gov (United States)

    Sauvadet, Anne-Laure; Gobet, Angélique; Guillou, Laure

    2010-11-01

    Protist communities associated with deep seawater and bivalves from six hydrothermal sites in the Pacific Ocean were characterized by microscopy and molecular rRNA gene surveys (18S rRNA) and compared with planktonic communities from Pacific deep-pelagic seawater (from 500 to 3000 m in depth). Genetic libraries from larger size fractions (>3 µm) of deep-pelagic water were mainly dominated by Dinophyceae, whereas small size fractions (Calyptogena magnifica, dominated by Ciliophora (primarily belonging to Phyllopharyngea, Oligohymenophorea and Oligotrichea) and Cercozoa. Interestingly, protist communities retrieved from the pallial cavity liquid of hydrothermal bivalves were remarkably homogeneous along the Southern East Pacific Rise, in contrast to bivalves collected on the Mid-Atlantic Ridge hydrothermal vents and cold seeps from the Gulf of Mexico. Hence, complex protist communities seem to occur inside hydrothermal bivalves, and these metazoa may constitute a stable micro-niche for micro-eukaryotes, including grazers, detritivores, symbionts and potential parasites. From these communities, new lineages within the ciliates may emerge. PMID:20561018

  6. Comparative analysis of the composition of bacterial communities from two constructed wetlands for municipal and swine wastewater treatment.

    Science.gov (United States)

    Arroyo, Paula; Ansola, Gemma; Blanco, Ivan; Molleda, Patricia; de Luis Calabuig, Estanislao; Sáenz de Miera, Luis E

    2010-03-01

    This work provides information about bacterial community structure in natural wastewater treatment systems treating different types of wastewater. The diversity and composition of bacterial communities associated with the rhizosphere of Typha latifolia and Salix atrocinerea were studied and compared among two different natural wastewater treatment systems, using the direct sequencing of the 16S ribosomal RNA codifying genes. Phylogenetic affiliations of the bacteria detected allowed us to define the main groups present in these particular ecosystems. Moreover, bacterial community structure was studied through two diversity indices. Ten identified and five non-identified phyla were found in the samples; the phylum Proteobacteria was the predominant group in the four ecosystems. The results showed a bacterial community dominated by beta-proteobacteria and a lower diversity value in the swine wastewater treatment system. The municipal wastewater treatment system presented a high diverse community in both macrophytes (Typha latifolia and Salix atrocinerea), with gamma-proteobacteria and alpha-proteobacteria, respectively, as the most abundant groups. PMID:20009257

  7. Bacterial communities of traditional salted and fermented seafoods from Jeju Island of Korea using 16S rRNA gene clone library analysis.

    Science.gov (United States)

    Kim, Min-Soo; Park, Eun-Jin

    2014-05-01

    Jeotgal, which is widely consumed as a nutritional supplement in Korea, is traditional type of preserved seafood that is prepared by salting and fermenting. Here, we report on the bacterial community structure and diversity of jeotgal obtained from the Korean island of Jeju, which has a subtropical climate. Two samples of Jeotgal were collected from Jeju, made from either damselfish (Chromis notata; jari-dom-jeot, J1 and J2) or silver-stripe round herring (Spratelloides gracilis; ggot-myulchi-jeot, K1 and K2). The physical characteristics (pH and salinity) were assessed and the bacterial communities characterized using 16S rRNA gene-clone library analysis and cultural isolation. No difference was found in the community composition between the J and K fermented seafoods. Both fermented seafoods had relatively high salinity (26% to 33%) and high pH values (pH 6.08 to 6.72). Based on the 16S rRNA gene sequences, the halophilic lactic-acid bacteria Tetragenococcus halophilus and T. muriaticus were observed to be dominant in the J and K fermented seafoods, accompanied by halophilic bacteria including Halanaerobium spp., Halomonas spp., and Chromohalobacter spp. When compared with 7 other types of fermented seafood from a previous study, the communities of the J and K fermented seafoods were separated by the most influential group, the genus Tetragenococcus. The results suggest that these 2 types of traditional salted fermented seafood from Jeju have distinct communities dominated by Tetragenococcus spp., which are derived from the raw ingredients and are dependent on the physical conditions. This may explain how the seafoods that are made in Jeju may differ from other jeotgals. PMID:24689962

  8. Street-Level Bureaucrats at Work: A Municipality-Level Institutional Analysis of Community-Based Natural Resource Management Implementation Practice in the Pasture Sector of Kyrgyzstan

    Directory of Open Access Journals (Sweden)

    Wibke Crewett

    2015-03-01

    Full Text Available The article looks into lowest-level policy implementers’ (street-level bureaucrats’ role in donor-initiated natural resource governance reforms. The article employs an institutional analysis framework with a specific policy implementation focus. A multiple case study reviews a resource user information campaign during the early phase of a community-based pasture management reform in Kyrgyzstan. It finds implementation rule simplification by policy implementers at the expense of full resource user involvement as a result of an insufficient contextual fit of the formal information rules. The results emphasize the need of well-designed implementation rules in order to ensure full and equitable resource user involvement in community-based natural resource management (CBNRM.

  9. [Canonical correspondence analysis between phytoplankton community and environmental factors in macrophtic lakes of the middle and lower reaches of Yangtze River].

    Science.gov (United States)

    Meng, Rui; He, Lian-Sheng; Guo, Long-Gen; Xi, Bei-Dou; Li, Zhong-Qiang; Shu, Jian-Min; Diao, Xiao-Jun; Li, Bi-Cai

    2013-07-01

    The phytoplankton communities in 4 macrophtic lakes (Longgan Lake, Liangzi Lake, Futou Lake and Baoan Lake) in Middle-Lower Yangtze Plain were investigated in September 2011, and 7 phylum and 231 species of phytoplankton were detected in the waters. The results indicated that phytoplankton was mainly composed of Cyanophyta, Bacillariophyta and Chlorophyta. The four lakes were mesotrophic. And the main phytoplankton was Phormidium foveolarum, Synedra ulna, Phormidium tenu and Tribonema minus. The relationships between the distribution of phytoplankton and environmental factors in each sampling site were studies by canonical correspondence analysis. The results demonstrated that pH and Total phosphorus are the key factors for the distribution of phytoplankton communities in 4 typical macrophtic lakes in Middle-Lower Yangtze Plain. PMID:24027987

  10. Exercise and global well-being in community-dwelling adults with fibromyalgia: a systematic review with meta-analysis

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    Hootman Jennifer M

    2010-04-01

    Full Text Available Abstract Background Exercise has been recommended for improving global-well being in adults with fibromyalgia. However, no meta-analysis has determined the effects of exercise on global well-being using a single instrument and when analyzed separately according to intention-to-treat and per-protocol analyses. The purpose of this study was to fill that gap. Methods Studies were derived from six electronic sources, cross-referencing from retrieved studies and expert review. Dual selection of randomized controlled exercise training studies published between January 1, 1980 and January 1, 2008 and in which global well-being was assessed using the Fibromyalgia Impact Questionnaire (FIQ were included. Dual abstraction of data for study, subject and exercise program characteristics as well as assessment of changes in global well-being using the total score from the FIQ was conducted. Risk of bias was assessed using the Cochrane bias assessment tool. Random-effects models and Hedge's standardized effect size (g were used to pool results according to per-protocol and intention-to-treat analyses. Results Of 1,025 studies screened, 7 representing 5 per-protocol and 5 intention-to-treat outcomes in 473 (280 exercise, 193 control primarily female (99% participants 18-73 years of age were included. Small, statistically significant improvements in global well-being were observed for per-protocol (g and 95% confidence interval, -0.39, -0.69 to -0.08 and intention-to-treat (-0.34, -0.53 to -0.14 analyses. No statistically significant within-group heterogeneity was found (per-protocol, Qw = 6.04, p = 0.20, I2 = 33.8%; intention-to-treat, Qw = 3.19, p = 0.53, I2 = 0% and no between-group differences for per-protocol and intention-to-treat outcomes were observed (Qb = 0.07, p = 0.80. Changes were equivalent to improvements of 8.2% for per-protocol analyses and 7.3% for intention-to-treat analyses. Conclusions The results of this study suggest that exercise improves global well-being in community-dwelling women with fibromyalgia. However, additional research on this topic is needed, including research in men as well as optimal exercise programs for improving global well-being in adults.

  11. Analysis of bacterial community during the fermentation of pulque, a traditional Mexican alcoholic beverage, using a polyphasic approach.

    Science.gov (United States)

    Escalante, Adelfo; Giles-Gómez, Martha; Hernández, Georgina; Córdova-Aguilar, María Soledad; López-Munguía, Agustín; Gosset, Guillermo; Bolívar, Francisco

    2008-05-31

    In this study, the characterization of the bacterial community present during the fermentation of pulque, a traditional Mexican alcoholic beverage from maguey (Agave), was determined for the first time by a polyphasic approach in which both culture and non-culture dependent methods were utilized. The work included the isolation of lactic acid bacteria (LAB), aerobic mesophiles, and 16S rDNA clone libraries from total DNA extracted from the maguey sap (aguamiel) used as substrate, after inoculation with a sample of previously produced pulque and followed by 6-h fermentation. Microbiological diversity results were correlated with fermentation process parameters such as sucrose, glucose, fructose and fermentation product concentrations. In addition, medium rheological behavior analysis and scanning electron microscopy in aguamiel and during pulque fermentation were also performed. Our results showed that both culture and non-culture dependent approaches allowed the detection of several new and previously reported species within the alpha-, gamma-Proteobacteria and Firmicutes. Bacteria diversity in aguamiel was composed by the heterofermentative Leuconostoc citreum, L. mesenteroides, L. kimchi, the gamma-Proteobacteria Erwinia rhapontici, Enterobacter spp. and Acinetobacter radioresistens. Inoculation with previously fermented pulque incorporated to the system microbiota, homofermentative lactobacilli related to Lactobacillus acidophilus, several alpha-Proteobacteria such as Zymomonas mobilis and Acetobacter malorum, other gamma-Proteobacteria and an important amount of yeasts, creating a starting metabolic diversity composed by homofermentative and heterofermentative LAB, acetic and ethanol producing microorganisms. At the end of the fermentation process, the bacterial diversity was mainly composed by the homofermentative Lactobacillus acidophilus, the heterofermentative L. mesenteroides, Lactococcus lactis subsp. lactis and the alpha-Proteobacteria A. malorum. After a 6-h fermentation, 83.27% of total sugars detected after inoculation were consumed (228.4 mM hexose equivalents) and a carbon (C) recovery of 66.18% in fermentation products was estimated. They were produced 284.4 mM C as ethanol, 71.5 mM C as acetic acid and 19 mM C as lactic acid, demonstrating the presence of homo- and heterofermentative, acetic and alcoholic metabolisms in the final product. It was also found, after hydrolysis, that the exopolysaccharide produced during the fermentation was mainly composed by fructose residues, probably inulin or levan. PMID:18450312

  12. Forest Cover and Stream Flow in a Headwater of the Blue Nile: Complementing Observational Data Analysis with Community Perception

    OpenAIRE

    Gebrehiwot, Solomon Gebreyohannis; Taye, Ayele; Bishop, Kevin

    2010-01-01

    This study analyses the relation of forest cover and stream flow on the 266 km2 Koga watershed in a headwater of Blue Nile Basin using both observed hydrological data and community perception. The watershed declined from 16% forest cover in 1957 to 1% by 1986. The hydrological record did not reveal changes in the flow regime between 1960 and 2002 despite the reduction in forest area. This agrees with the perception of the downstream community living near the gauging station. The upstream com...

  13. Forest Cover and Stream Flow in a Headwater of the Blue Nile : Complementing Observational Data Analysis with Community Perception

    OpenAIRE

    Bishop, Kevin; Gebrehiwot, Solomon; Taye, Ayale

    2010-01-01

    This study analyses the relation of forest cover and stream flow on the 266 km2 Koga watershed in the headwaters of Blue Nile Basin using both observed hydrological data and community perception. The watershed went from 16% forest cover in 1957 to 1% by 1986. The hydrological record did not reveal changes in the flow regime between 1960 and 2002 despite the reduction in forest area. This agrees with the perception of the downstream community living near the gauging station. The upstream commu...

  14. Learning in the Permaculture Community of Practice in England: An Analysis of the Relationship between Core Practices and Boundary Processes

    Science.gov (United States)

    Ingram, Julie; Maye, Damian; Kirwan, James; Curry, Nigel; Kubinakova, Katarina

    2014-01-01

    Purpose: This article utilizes the Communities of Practice (CoP) framework to examine learning processes among a group of permaculture practitioners in England, specifically examining the balance between core practices and boundary processes. Design/methodology/approach: The empirical basis of the article derives from three participatory workshops…

  15. An Analysis of Some Aspects of Social Conflict at Henry Ford Community College (1963-1973). Research Summary #4.

    Science.gov (United States)

    Howe, Ray A.

    This paper summarizes the findings of a ten-year longitudinal research study of attitude changes among faculty resulting, at least partially, from their collective bargaining experience. The study focused on Henry Ford Community College (Michigan), using the participant-observation approach. A number of techniques for gathering qualitative…

  16. Comparative analysis of the quality of water supply in the National Forest of Ipanema and Communities Mursa and Smith

    Directory of Open Access Journals (Sweden)

    Andres Zamaro Fatoreto

    2011-10-01

    Full Text Available The object of this research is the water quality of the Conservation Unit, Ipanema National Forest - National Forest, which has an important remnant of Atlantic Forest of São Paulo State administered by the Chico Mendes Institute for Biodiversity Conservation (ICMBio, Ministry of the Environment (MMA. The National Forest is located between the cities of Araçoiaba da Serra / SP, Iperó / SP and Capela do Alto / SP, has an area of approximately 5,000 ha, in which about 80 families totaling 270 people. Of this total, the families are divided into two categories: officials and ICMBio Tourist Guides. In both categories of homes, water supply is done in two ways: through a central borehole and water coming from the Ribeirão River Iron. Ribeirão Rio Iron, in addition to supplying families residing in the National Forest, also supplies two communities that go beyond the limit of the National Forest of Ipanema, which are the Community and the Community of Smith Mursa. In this context, this article aims to present the results of water quality Ribeirão River and Iron and the artesian well located in central National Forest. The study aims to contribute to the communities that consume this water, since the location of the object of research do not have any treatment and did not have any support from the local authority.

  17. Analysis of bacterial community in two wastewater treatment plants by denaturing gradient gel electrophoresis and fluorescent in situ hybridization

    International Nuclear Information System (INIS)

    A combination of denaturing gradient gel electrophoresis (DGGE) and oligonucleotide probes was used to characterize and follow the dynamic of bacterial community in two wastewater treatment plants with an A2 O system of each plant. To complete this technique, we used Fluorescent in situ Hybridization (FISH) to quantify the main groups in activated sludges samples. (Author)

  18. Analysis of bacterial community in two wastewater treatment plants by denaturing gradient gel electrophoresis and fluorescent in situ hybridization

    Energy Technology Data Exchange (ETDEWEB)

    Rodriguez Rodriguez, E. M.; Ferrero Infestas, E. M.; Garcia Encin, P. A.

    2009-07-01

    A combination of denaturing gradient gel electrophoresis (DGGE) and oligonucleotide probes was used to characterize and follow the dynamic of bacterial community in two wastewater treatment plants with an A{sub 2} O system of each plant. To complete this technique, we used Fluorescent in situ Hybridization (FISH) to quantify the main groups in activated sludges samples. (Author)

  19. A Comparative Analysis of a Game-Based Mobile Learning Model in Low-Socioeconomic Communities of India

    Science.gov (United States)

    Kim, Paul; Buckner, Elizabeth; Kim, Hyunkyung; Makany, Tamas; Taleja, Neha; Parikh, Vallabhi

    2012-01-01

    This study explores the effectiveness of a game-based mobile learning model for children living in underdeveloped regions with significant contextual variations. Data for this study came from a total of 210 children between the ages of 6-14 years old from six marginalized communities in India. The findings reveal that children with little or no…

  20. Comparative analysis of intestinal microbial community diversity between healthy and orally infected ducklings with Salmonella enteritidis by ERIC-PCR

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    Sheng-Yan Cao, Ming-Shu Wang, An-Chun Cheng, Xue-Feng Qi, Xiao-Yan Yang, Shu-Xuan Deng, Nian-Chun Yin, Zhen-Hua Zhang, Deng-Chun Zhou, De-Kang Zhu, Qi-Hui Luo, Xiao-Yue Chen

    2008-02-01

    Full Text Available AIM: To analyze the difference of intestinal microbial community diversity between healthy and (S. enteritidis orally infected ducklings.METHODS: Enterobacterial Repetitive Intergenic Consensus (ERIC-PCR was applied to analyze the intestinal microbial community diversity and dynamic change including duodenum, jejunum, ileum, cecum and rectum from healthy ducklings and 7-day-old ducklings after oral infection with S. enteritidis at different time points.RESULTS: The intestinal microbial community of the control healthy ducklings was steady and the ERIC-PCR band numbers of the control healthy ducklings were the least with rectum and were the most with caecum. ERIC-PCR bands of orally inoculated ducklings did not obviously change until 24 h after inoculation (p.i.. The numbers of the ERIC-PCR bands gradually decreased from 24 h to 72 h p.i., and then, with the development of disease, the band numbers gradually increased until 6 d p.i. The prominent bacteria changed because of S. enteritidis infection and the DNAstar of staple of ERIC-PCR showed that aerobe and facultative aerobe (Escherichia coli, Shigella, Salmonella became preponderant bacilli in the intestine of orally infected ducklings with SE.CONCLUSION: This study has provided significant data to clarify the intestinal microbial community diversity and dynamic change of healthy and S. enteritidis orally infected ducklings, and valuable insight into the pathogenesis of S. enteritidis infection in both human and animals.

  1. A Trend Analysis of Manufacturing-Related Program Graduates of Community and Technical Colleges: Great Lakes and Plains Regions

    Science.gov (United States)

    Eighmy, Myron A.

    2009-01-01

    Manufacturers in the United States are struggling to recruit and hire high-skilled workers needed to maintain productivity and to compete globally. While the total number employed in the manufacturing sector is shrinking, the demand for high-skilled workers has increased. Community and technical colleges have traditionally been an important source…

  2. Analysis of the Postsecondary Training Certificate Program in Floral Design and Marketing at Florida Community College at Jacksonville.

    Science.gov (United States)

    Gordon, Howard R. D.; Cooper, Sharon P.

    In 1990, a study was conducted at Florida Community College at Jacksonville (FCCJ) to determine enrollment, withdrawal, and placement patterns in the college's floral design and marketing certificate program and to identify changes needed to strengthen the program. The program focused on the theory and practice of floral design and marketing,…

  3. A new coupon design for simultaneous analysis of in situ microbial biofilm formation and community structure in drinking water distribution systems.

    Science.gov (United States)

    Deines, Peter; Sekar, Raju; Husband, P Stewart; Boxall, Joby B; Osborn, A Mark; Biggs, Catherine A

    2010-06-01

    This study presents a new coupon sampling device that can be inserted directly into the pipes within water distribution systems (WDS), maintaining representative near wall pipe flow conditions and enabling simultaneous microscopy and DNA-based analysis of biofilms formed in situ. To evaluate this sampling device, fluorescent in situ hybridization (FISH) and denaturing gradient gel electrophoresis (DGGE) analyses were used to investigate changes in biofilms on replicate coupons within a non-sterile pilot-scale WDS. FISH analysis demonstrated increases in bacterial biofilm coverage of the coupon surface over time, while the DGGE analysis showed the development of increasingly complex biofilm communities, with time-specific clustering of these communities. This coupon design offers improvements over existing biofilm sampling devices in that it enables simultaneous quantitative and qualitative compositional characterization of biofilm assemblages formed within a WDS, while importantly maintaining fully representative near wall pipe flow conditions. Hence, it provides a practical approach that can be used to capture the interactions between biofilm formation and changing abiotic conditions, boundary shear stress, and turbulent driven exchange within WDS. PMID:20300747

  4. Diversity and Functional Analysis of Bacterial Communities Associated with Natural Hydrocarbon Seeps in Acidic Soils at Rainbow Springs, Yellowstone National Park

    OpenAIRE

    Hamamura, Natsuko; Olson, Sarah H.; Ward, David M.; Inskeep, William P.

    2005-01-01

    In this paper we describe the bacterial communities associated with natural hydrocarbon seeps in nonthermal soils at Rainbow Springs, Yellowstone National Park. Soil chemical analysis revealed high sulfate concentrations and low pH values (pH 2.8 to 3.8), which are characteristic of acid-sulfate geothermal activity. The hydrocarbon composition of the seep soils consisted almost entirely of saturated, acyclic alkanes (e.g., n-alkanes with chain lengths of C15 to C30, as well as branched alkane...

  5. Grid connected Integrated Community Energy System: Phase II. Detailed feasibibility analysis and preliminary design. Final report, Stage 2. Volume 1. Executive summary

    Energy Technology Data Exchange (ETDEWEB)

    1978-11-01

    The preliminary design and cost analysis of a proposed Integrated Community Energy System (ICES) to serve a multi-million square footage medical complex of the Health Education Authority of Louisiana are presented. This ICES is designed as a multi-fuel plant (coal or natural gas), operation is to begin in 1982, and the system will initially supply 40 x 10/sup 6/ kWh of electric power and 854 x 10/sup 0/ lbs of steam annually to meet the heating, refrigeration, and power demands of the complex. The total construction cost of the ICES is estimated as $35 million. (LCL)

  6. Mathematical models of ecology and evolution : Analysis of size-structured populations and communities in aquatic ecosystems

    DEFF Research Database (Denmark)

    Zhang, Lai

    2012-01-01

    Understanding the dynamics and structure of populations and communities is one of the most important challenges in ecological theory. The thesis consists of theoretical investigations of how these phenomena at high level are in uenced by the ecological and evolutionary processes occurring at low level (i.e. individual level). Individual-level processes are all parameterized with body size. Being one of the important characteristics of individual organisms, body size determines the qualitative and quantitative relationships among individuals, and in uences most, if not all, key life-history processes. By characterizing species and life history with traits, the interrelationship between community-level properties of ecological interest and individual-level performance is explored. Paper I examines the in uences of two dierent mechanisms of energy partitioning among individual life-history processes: net-assimilation mechanism of ????rule and net-reproduction mechanism of size dependence using a simple model comprising a size-structured consumer Daphina and an unstructured resource alge. It is found that in contrast to the former mechanism, the latter tends to destabilize population dynamics but as a trade-o promotes species survival by shortening juvenile delay between birth and the onset of reproduction. Paper II compares the size-spectrum and food-web representations of communities using two traits (body size and habitat location) based unstructured population model of Lotka-Volterra type and shows a robust reconciliation between the two representations. Paper III investigates the eects of growth variability induced by the trait (maximum body size) on the dynamics of marine size spectrum. It shows that the introduction of trait expands the set of parameters for which the equilibrium is stable, and if the community is unstable, the non-linear non-equilibrium dynamics has much smaller, slower, and more regular oscillations than if trait is excluded. Paper IV develops four types of density-dependent interference competition at the individual level in a trait (size at maturation) based size-structured population model, that is, interference in foraging, maintenance, survival, and recruitment. Their impacts on the ecology and evolution of size-structured populations and communities are explored. Ecologically, interference aects population demographic properties either negatively or positively, depending on the balance between interference induced gain and cost. Evolutionarily, the maturation size is either depressed (interference in foraging and maintenance) or elevated (interference in survival and recruitment) in a monomorphic population environment. Moreover, among the four interference mechanisms, survival interference is more likely to produce large communities with complex trophic patterns through gradual evolution and successive speciation

  7. Individual and community level socioeconomic inequalities in contraceptive use in 10 Newly Independent States: a multilevel cross-sectional analysis

    Directory of Open Access Journals (Sweden)

    Janevic Teresa

    2012-11-01

    Full Text Available Abstract Introduction Little is known regarding the association between socioeconomic factors and contraceptive use in the Newly Independent States (NIS, countries that have experienced profound changes in reproductive health services during the transition from socialism to a market economy. Methods Using 2005–2006 data from Demographic Health Surveys (Armenia, Azerbaijan, and Moldova and Multiple Indicator Cluster Surveys (Belarus, Georgia, Kazakhstan, Kyrgyzstan, Tajikistan, Ukraine, and Uzbekistan, we examined associations between individual and community socioeconomic status with current modern contraceptive use (MCU among N?=?55,204 women aged 15–49 married or in a union. Individual socioeconomic status was measured using quintiles of wealth index and education level (higher than secondary school, secondary school or less. Community socioeconomic status was measured as the percentage of households in the poorest quintile of the nationals household wealth index (0%, 0–25%, or greater than 25%. We used multilevel logistic regression to estimate associations adjusted for age, number of children, urban/rural, and socioeconomic variables. Results MCU varied by country from 14% (in Azerbaijan to 62% (in Belarus. Overall, women living in the poorest communities were less likely than those in the richest to use modern contraceptives (adjusted odds ratio (aOR = 0.82, 95% Confidence Interval?=?0.76, 0.89. Similarly, there was an increasing odds of MCU with increasing individual-level wealth. Women with a lower level of education also had lower odds of MCU than those with a higher level of education (aOR?=?.75, 95%CI?=?0.71, 0.79. In country-specific analyses, community-level socioeconomic inequalities were apparent in 4 of 10 countries; in contrast, inequalities by individual-level wealth were apparent in 7 countries and by education in 8 countries. All countries in which community-level socioeconomic status was associated with MCU were in Central Asia, whereas at the individual-level inequalities of the largest magnitude were found in the Caucasus. There were no distinct patterns found in Eastern European countries. Conclusions Community-level socioeconomic inequalities in MCU were most pronounced in Central Asian countries, whereas individual-level socioeconomic inequalities in MCU were most pronounced in the Caucasus. It is important to consider multilevel contextual determinants of modern contraceptive use in the development of reproductive health and family planning programs.

  8. Expanding access to off-grid rural electrification in Africa: An analysis of community-based micro-grids in Kenya

    Science.gov (United States)

    Kirubi, Charles Gathu

    Community micro-grids have played a central role in increasing access to off-grid rural electrification (RE) in many regions of the developing world, notably South Asia. However, the promise of community micro-grids in sub-Sahara Africa remains largely unexplored. My study explores the potential and limits of community micro-grids as options for increasing access to off-grid RE in sub-Sahara Africa. Contextualized in five community micro-grids in rural Kenya, my study is framed through theories of collective action and combines qualitative and quantitative methods, including household surveys, electronic data logging and regression analysis. The main contribution of my research is demonstrating the circumstances under which community micro-grids can contribute to rural development and the conditions under which individuals are likely to initiate and participate in such projects collectively. With regard to rural development, I demonstrate that access to electricity enables the use of electric equipment and tools by small and micro-enterprises, resulting in significant improvement in productivity per worker (100--200% depending on the task at hand) and a corresponding growth in income levels in the order of 20--70%, depending on the product made. Access to electricity simultaneously enables and improves delivery of social and business services from a wide range of village-level infrastructure (e.g. schools, markets, water pumps) while improving the productivity of agricultural activities. Moreover, when local electricity users have an ability to charge and enforce cost-reflective tariffs and electricity consumption is closely linked to productive uses that generate incomes, cost recovery is feasible. By their nature---a new technology delivering highly valued services by the elites and other members, limited local experience and expertise, high capital costs---community micro-grids are good candidates for elite-domination. Even so, elite control does not necessarily lead to elite capture. Experiences from different micro-grid settings illustrate the manner in which a coincidence of interest between the elites and the rest of members and access to external support can create incentives and mechanisms to enable community-wide access to scarce services, hence mitigating elite capture. Moreover, access to external support was found to increase the likelihood of participation for the relatively poor households. The policy-relevant message from this research is two-fold. In rural areas with suitable sites for micro-hydro power, the potential for community micro-grids appear considerable to the extent that this option would seem to represent "the road not taken" as far as policies and initiatives aimed at expanding RE are concerned in Kenya and other African countries with comparable settings. However, local participatory initiatives not complimented by external technical assistance run a considerable risk of locking rural households into relatively more costly and poor-quality services. By taking advantage of existing and/or building a dense network of local organizations, including micro-finance agencies, the government and development partners can make available to local communities the necessary support---financial, technical or regulatory---essential for efficient design of micro-grids in addition to facilitating equitable distribution of electricity benefits.

  9. Community relations

    International Nuclear Information System (INIS)

    The interaction of the oil and gas companies with the Northern communities regarding drilling activities was an important aspect of oil and gas operations conducted in the Beaufort Sea. During the 1960s the industry and aboriginal people basically ignored each other. Later, the industry put more emphasis on community consultation until finally two-way communication was established. Respect for the land and the environment were very important to aboriginal people who depended on the land and its resources for their traditional way of life. Community relations policies by the various companies involved in the area, and the impact they have had on their respective communities were recounted. Not all efforts were successful, however, the companies and the communities learned from their experiences, and by the time operations ceased, the communities seemed to be more appreciative of the ways they were being treated by the oil companies. 22 figs

  10. Analysis of community solar systems for combined space and domestic hot water heating using annual cycle thermal energy storage

    Energy Technology Data Exchange (ETDEWEB)

    Hooper, F.C.; McClenahan, J.D.; Cook, J.D.; Baylin, F.; Monte, R.; Sillman, S.

    1980-01-01

    A simplified design procedure is examined for estimating the storage capacity and collector area for annual-cycle-storage, community solar heating systems in which 100% of the annual space heating energy demand is provided from the solar source for the typical meteorological year. Hourly computer simulations of the performance of these systems were carried out for 10 cities in the United States for 3 different building types and 4 community sizes. These permitted the use of design values for evaluation of a more simplified system sizing method. Results of this study show a strong correlation between annual collector efficiency and two major, location-specific, annual weather parameters: the mean air temperature during daylignt hours and the total global insolation on the collector surface. Storage capacity correlates well with the net winter load, which is a measure of the seasonal variation in the total load, a correlation which appears to be independent of collector type.

  11. A Proposed Taxonomy of Anaerobic Fungi (Class Neocallimastigomycetes) Suitable for Large-Scale Sequence-Based Community Structure Analysis

    OpenAIRE

    Kittelmann, Sandra; Naylor, Graham E.; Koolaard, John P.; Janssen, Peter H.

    2012-01-01

    Anaerobic fungi are key players in the breakdown of fibrous plant material in the rumen, but not much is known about the composition and stability of fungal communities in ruminants. We analyzed anaerobic fungi in 53 rumen samples from farmed sheep (4 different flocks), cattle, and deer feeding on a variety of diets. Denaturing gradient gel electrophoresis fingerprinting of the internal transcribed spacer 1 (ITS1) region of the rrn operon revealed a high diversity of anaerobic fungal phylotyp...

  12. Metabarcoding Is Powerful yet Still Blind: A Comparative Analysis of Morphological and Molecular Surveys of Seagrass Communities.

    Science.gov (United States)

    Cowart, Dominique A; Pinheiro, Miguel; Mouchel, Olivier; Maguer, Marion; Grall, Jacques; Miné, Jacques; Arnaud-Haond, Sophie

    2015-01-01

    In the context of the sixth wave of extinction, reliable surveys of biodiversity are increasingly needed to infer the cause and consequences of species and community declines, identify early warning indicators of tipping points, and provide reliable impact assessments before engaging in activities with potential environmental hazards. DNA metabarcoding has emerged as having potential to provide speedy assessment of community structure from environmental samples. Here we tested the reliability of metabarcoding by comparing morphological and molecular inventories of invertebrate communities associated with seagrasses through estimates of alpha and beta diversity, as well as the identification of the most abundant taxa. Sediment samples were collected from six Zostera marina seagrass meadows across Brittany, France. Metabarcoding surveys were performed using both mitochondrial (Cytochrome Oxidase I) and nuclear (small subunit 18S ribosomal RNA) markers, and compared to morphological inventories compiled by a long-term benthic monitoring network. A sampling strategy was defined to enhance performance and accuracy of results by preventing the dominance of larger animals, boosting statistical support through replicates, and using two genes to compensate for taxonomic biases. Molecular barcodes proved powerful by revealing a remarkable level of diversity that vastly exceeded the morphological survey, while both surveys identified congruent differentiation of the meadows. However, despite the addition of individual barcodes of common species into taxonomic reference databases, the retrieval of only 36% of these species suggest that the remaining were either not present in the molecular samples or not detected by the molecular screening. This finding exemplifies the necessity of comprehensive and well-curated taxonomic reference libraries and multi-gene surveys. Overall, results offer methodological guidelines and support for metabarcoding as a powerful and repeatable method of characterizing communities, while also presenting suggestions for improvement, including implementation of pilot studies prior to performing full "blind" metabarcoding assessments to optimize sampling and amplification protocols. PMID:25668035

  13. Genotypic analysis of ?-tubulin in Onchocerca volvulus from communities and individuals showing poor parasitological response to ivermectin treatment

    OpenAIRE

    Osei-atweneboana, Mike Y.; Boakye, Daniel A.; Awadzi, Kwablah; Gyapong, John O.; Prichard, Roger K.

    2012-01-01

    Ivermectin (IVM) has been in operational use for the control of onchocerciasis for two decades and remains the only drug of choice. To investigate the parasitological responses and genetic profile of Onchocerca volvulus, we carried out a 21 month epidemiological study to determine the response of the parasite to IVM in 10 Ghanaian endemic communities. Onchocerca nodules were surgically removed from patients in three IVM response categories (good, intermediate and poor) and one IVM naïve com...

  14. Combination of GIS and multicriteria analysis to delineate polluted zones in Baruwa Community of Lagos, Southwestern Nigeria

    International Nuclear Information System (INIS)

    Nineteen hand-dug wells were sampled from five different localities within Baruwa community of Lagos namely: Baruwa (BAR), Fatade (FATJ, Gowon Estate (GOW), Abesan (ABE), and Low Cost Housing Estate (LCH). Three control hand dug wells were also sampled from Ipaja (IPA), Asipa (ASI) and Agege (AGE). Chemical and statistical analyses were carried out on the water samples to determine their quality and usage while electrical resistively soundings were conducted to determine the aquiferous units. The study area was mapped by GIS using parameters such as distance from spillage point, total dissolved solid, conductivity, depth of water table, altitude etc. The present study focused on the use of GIS, hydrochemical and geophysical techniques to delineate polluted zones in the Baruwa community aquifers and to suggest possible remedial measures. Hydrochemical results show that samples collected from Baruwa community have been contaminated while samples collected from the control wells are potable. The results of the sounding data show a system of four to five geoelectric layers with variable thicknesses. The lithounits include top soil, saturated clay, sandy clay, sand and conglomeratic sand with average resistivity of the 64, 32, 167, 278 and 1299 m respectively. The relatively high resistivity of the first aquifer (20 m) suggests hydrocarbon contamination from wells within Baruwa community while, low resistivity values were observed from the first aquifers of the control welfrom the first aquifers of the control wells. However, prolific uncontaminated aquifers constitute the last layer (>30 m) and could be recommended for borehole drilling in the study area. The outcome of this investigation could be used for groundwater exploration in the area. The outcome of this investigation could be used for groundwater exploration in the area and could also be applied to the broader domain of land-use management

  15. Metabarcoding Is Powerful yet Still Blind: A Comparative Analysis of Morphological and Molecular Surveys of Seagrass Communities

    Science.gov (United States)

    Cowart, Dominique A.; Pinheiro, Miguel; Mouchel, Olivier; Maguer, Marion; Grall, Jacques; Miné, Jacques; Arnaud-Haond, Sophie

    2015-01-01

    In the context of the sixth wave of extinction, reliable surveys of biodiversity are increasingly needed to infer the cause and consequences of species and community declines, identify early warning indicators of tipping points, and provide reliable impact assessments before engaging in activities with potential environmental hazards. DNA metabarcoding has emerged as having potential to provide speedy assessment of community structure from environmental samples. Here we tested the reliability of metabarcoding by comparing morphological and molecular inventories of invertebrate communities associated with seagrasses through estimates of alpha and beta diversity, as well as the identification of the most abundant taxa. Sediment samples were collected from six Zostera marina seagrass meadows across Brittany, France. Metabarcoding surveys were performed using both mitochondrial (Cytochrome Oxidase I) and nuclear (small subunit 18S ribosomal RNA) markers, and compared to morphological inventories compiled by a long-term benthic monitoring network. A sampling strategy was defined to enhance performance and accuracy of results by preventing the dominance of larger animals, boosting statistical support through replicates, and using two genes to compensate for taxonomic biases. Molecular barcodes proved powerful by revealing a remarkable level of diversity that vastly exceeded the morphological survey, while both surveys identified congruent differentiation of the meadows. However, despite the addition of individual barcodes of common species into taxonomic reference databases, the retrieval of only 36% of these species suggest that the remaining were either not present in the molecular samples or not detected by the molecular screening. This finding exemplifies the necessity of comprehensive and well-curated taxonomic reference libraries and multi-gene surveys. Overall, results offer methodological guidelines and support for metabarcoding as a powerful and repeatable method of characterizing communities, while also presenting suggestions for improvement, including implementation of pilot studies prior to performing full “blind” metabarcoding assessments to optimize sampling and amplification protocols. PMID:25668035

  16. Community-level influences on women's experience of intimate partner violence and terminated pregnancy in Nigeria: a multilevel analysis

    Directory of Open Access Journals (Sweden)

    Antai Diddy

    2012-11-01

    Full Text Available Abstract Background Intimate partner violence (IPV is a major public health problem with serious consequences for women’s physical, mental, sexual and reproductive health. Reproductive health outcomes such as unwanted and terminated pregnancies, fetal loss or child loss during infancy, non-use of family planning methods, and high fertility are increasingly recognized. However, little is known about the role of community influences on women's experience of IPV and its effect on terminated pregnancy, given the increased awareness of IPV being a product of social context. This study sought to examine the role of community-level norms and characteristics in the association between IPV and terminated pregnancy in Nigeria. Methods Multilevel logistic regression analyses were performed on nationally-representative cross-sectional data including 19,226 women aged 15–49 years in Nigeria. Data were collected by a stratified two-stage sampling technique, with 888 primary sampling units (PSUs selected in the first sampling stage, and 7,864 households selected through probability sampling in the second sampling stage. Results Women who had experienced physical IPV, sexual IPV, and any IPV were more likely to have terminated a pregnancy compared to women who had not experienced these IPV types. IPV types were significantly associated with factors reflecting relationship control, relationship inequalities, and socio-demographic characteristics. Characteristics of the women aggregated at the community level (mean education, justifying wife beating, mean age at first marriage, and contraceptive use were significantly associated with IPV types and terminated pregnancy. Conclusion Findings indicate the role of community influence in the association between IPV-exposure and terminated pregnancy, and stress the need for screening women seeking abortions for a history of abuse.

  17. The Roles of Government Agency in Assisting CSR Project for Community Development: Analysis from the Recipients Perspectives

    OpenAIRE

    Sarmila M. S.; Zaimah R.; Lyndon, N.; Azima A. M.; Suhana Saad; Selvadurai, S.

    2013-01-01

    Corporate Social responsibility (CSR) initiatives by the corporations are playing increasingly significant role in the effort of contributing to community development particularly in the developing country. The international prominence of the initiatives in this area can be traced to the objectives of Millenium Development Goals (MDGs) that established corporations as partners of development. However, realizing the corporate sectors constraints in playing the roles as agents of development, t...

  18. Dientes ChiquiTICOS: an analysis of juvenile dentition and dental health in Costa Rican indigenous communities

    OpenAIRE

    Garci?a, Alfredo; Guzzo, Christina M.

    2007-01-01

    This study surveyed the dental health of three Costa Rican indigenous populations and two rural, non-indigenous communities. Sixty-six individuals, both children and adults, were interviewed regarding dental hygiene practices and the dentition of eighty-eight children from the ages of two to thirteen was examined. The indigenous populations, on average, showed a more important number of anterior dental pathologies as compared to a non-indigenous group (42% vs 20%). Collectively, both access t...

  19. Integrated Proteomic and Metabolomic Analysis of an Artificial Microbial Community for Two-Step Production of Vitamin C

    OpenAIRE

    Ma, Qian; Zhou, Jian; Zhang, Weiwen; Meng, Xinxin; Sun, Junwei; Yuan, Ying-jin

    2011-01-01

    An artificial microbial community consisted of Ketogulonicigenium vulgare and Bacillus megaterium has been used in industry to produce 2-keto-gulonic acid (2-KGA), the precursor of vitamin C. During the mix culture fermentation process, sporulation and cell lysis of B. megaterium can be observed. In order to investigate how these phenomena correlate with 2-KGA production, and to explore how two species interact with each other during the fermentation process, an integrated time-series proteom...

  20. Microbial community analysis in sludge of anaerobic wastewater treatment systems : integrated culture-dependent and culture-independent approaches

    OpenAIRE

    Roest, C.

    2007-01-01

    The need for clean water is increasing and anaerobic wastewater treatment can be used as a cost-effective solution for purification of organically polluted industrial waste streams. This thesis presents results from microbiological investigations of several full-scale and lab-scale anaerobic wastewater treatments systems. Anaerobic wastewater treatment has gained popularity and is now one of the key technologies in environmental biotechnology. However, knowledge of the microbial community str...

  1. Broadening engineering education: bringing the community in : commentary on "social responsibility in French engineering education: a historical and sociological analysis".

    Science.gov (United States)

    Conlon, Eddie

    2013-12-01

    Two issues of particular interest in the Irish context are (1) the motivation for broadening engineering education to include the humanities, and an emphasis on social responsibility and (2) the process by which broadening can take place. Greater community engagement, arising from a socially-driven model of engineering education, is necessary if engineering practice is to move beyond its present captivity by corporate interests. PMID:24072611

  2. Grid connected integrated community energy system. Phase II: final stage 2 report. Finance plan, capital costs and institutional analysis

    Energy Technology Data Exchange (ETDEWEB)

    1978-03-22

    The development of a grid-connected Integrated Community Energy System (ICES) is described. This system will supply electric power to the Northern States Power Co. in Minnesota and steam for the University of Minnesota, Augsburg College, two Minneapolis hospitals, and the Dept. of Health building. The fossil-fuel power plant would be located on the University of Minnesota campus. The costs, financing, and legal agreements involved in this project are presented and discussed. (LCL)

  3. Start-up of bio-hydrogen production reactor seeded with sewage sludge and its microbial community analysis.

    Science.gov (United States)

    Gong, M L; Ren, N Q; Xing, D F

    2005-01-01

    Start-up of a continuously stirred tank reactor for bio-hydrogen production under different initial organic loading rate (OLR) of 3, 7 and 10 kgCOD/m3 d, respectively, was carried out with sewage sludge as inoculum. Molasses wastewater was used as substrate and hydraulic retention time was kept at 6 h. This study aimed to assess OLR on the formation of fermentation types and the structure of microbial communities during the start-up period. It was found that at an initial OLR of 7 kgCOD/m3 d and an initial biomass of 6.24 gVSS/L, an equilibrial microbial community of ethanol-type fermentation could be established within 30 days. The observed average specific hydrogen production rate was 276 mLH2/gVSS d, which was 40% higher than that of the one acclimated with 3 kgCOD/m3 d. Based on denaturing gradient gel electrophoresis profiles, significant microbial population shifts took place at the first 15 days, but a longer period up to 30 days was required to establish a microbial community with stable metabolic activity. PMID:16180417

  4. Detection and analysis of elusive members of a novel and diverse archaeal community within a thermal spring streamer consortium.

    Science.gov (United States)

    Colman, Daniel R; Thomas, Raquela; Maas, Kendra R; Takacs-Vesbach, Cristina D

    2015-03-01

    Recent metagenomic analyses of Yellowstone National Park (YNP) thermal spring communities suggested the presence of minor archaeal populations that simultaneous PCR-based assays using traditional 'universal' 16S rRNA gene primers failed to detect. Here we use metagenomics to identify PCR primers effective at detecting elusive members of the Archaea, assess their efficacy, and describe the diverse and novel archaeal community from a circum-neutral thermal spring from the Bechler region of YNP. We determined that a less commonly used PCR primer, Arch349F, captured more diversity in this spring than the widely used A21F primer. A search of the PCR primers against the RDP 16S rRNA gene database indicated that Arch349F also captured the largest percentage of Archaea, including 41 % more than A21F. Pyrosequencing using the Arch349F primer recovered all of the phylotypes present in the clone-based portion of the study and the metagenome of this spring in addition to several other populations of Archaea, some of which are phylogenetically novel. In contrast to the lack of amplification with traditional 16S rRNA gene primers, our comprehensive analyses suggested a diverse archaeal community in the Bechler spring, with implications for recently discovered groups such as the Geoarchaeota and other undescribed archaeal groups. PMID:25477209

  5. Objects For Online Community Bulding:Online Community Building

    OpenAIRE

    Tosic, Selver

    2008-01-01

    This research project explains the transition from traditional real life communities to the online communities. In addition to giving a detailed description and analysis of the new way of interacting, it also shows the negative sides of this communication form. This paper also explores a new approach on how to facilitate an online community building on the Socio-semantic web. This approach is based on the object oriented programming technique, together with platform independence. Object orien...

  6. Online Community Transition Detection

    DEFF Research Database (Denmark)

    Tan, Biying; Zhu, Feida

    2014-01-01

    Mining user behavior patterns in social networks is of great importance in user behavior analysis, targeted marketing, churn prediction and other applications. However, less effort has been made to study the evolution of user behavior in social communities. In particular, users join and leave communities over time. How to automatically detect the online community transitions of individual users is a research problem of immense practical value yet with great technical challenges. In this paper, we propose an algorithm based on the Minimum Description Length (MDL) principle to trace the evolution of community transition of individual users, adaptive to the noisy behavior. Experiments on real data sets demonstrate the efficiency and effectiveness of our proposed method.

  7. Molecular analysis of microbial communities identified in different developmental stages of Ixodes scapularis ticks from Westchester and Dutchess Counties, New York.

    Science.gov (United States)

    Moreno, Claudia X; Moy, Fred; Daniels, Thomas J; Godfrey, Henry P; Cabello, Felipe C

    2006-05-01

    Ixodes scapularis ticks play an important role in the transmission of a wide variety of pathogens between various mammalian species, including humans. Pathogens transmitted by ticks include Borrelia, Anaplasma and Babesia. Although ticks may harbour both pathogenic and non-pathogenic microflora, little is known about how the diversity of the microflora within ticks may influence the transmission of pathogens. To begin addressing this question, we examined the composition of bacterial communities present in Ixodes scapularis collected from Westchester and Dutchess Counties, New York State, at different developmental and nutritional stages. Genetic fingerprints of bacterial populations were generated by temporal temperature gradient gel electrophoresis (TTGE) separation of individual polymerase chain reaction (PCR)-amplified 16S rRNA gene fragments, followed by DNA sequence analysis for bacterial identification. The fingerprints of the TTGE bands were grouped into five clusters. The most abundant DNA sequence found in all the samples was Rickettsia, followed by Pseudomonas and Borrelia. Ralstonia, Anaplasma, Enterobacterias, Moraxella, Rhodococcus and uncultured proteobacterium were present as well. We also determined the prevalence of Anaplasma phagocytophilum and Borrelia burgdorferi by PCR and DNA sequence analysis. Statistical analyses indicated significant variations in the bacterial communities depending on tick developmental stage and degree of engorgement. We suggest that these two elements affect microbial diversity within the tick and may in turn influence pathogen transmission to humans and animals after tick bite. PMID:16623735

  8. NABIR Assessment Element, Expanded Rapid, Comprehensive, Lipid Biomarker Analysis for Subsurface, Community Composition and Nutritional/Physiological Status as Monitors of Remediation and Detoxification Effectiveness

    International Nuclear Information System (INIS)

    NABIR funding at the University of Tennessee Center for Biomarker Analysis (CBA) has led to several key contributions to the investigation of bioremediation of metals and radionuclides. This lab has played an integral part in assessing microbial communities at the field scale at the ORNL FRC (Istok et al., 2004) and two UMTRA sites (Anderson et al., 2003, Chang et al., 2001). Our work over the period of the grant has resulted in 42-peer reviewed publications, 62 presentations (14 of which were international), and one patent pending. Currently CBA has 2 papers in press. The main objectives relating to the field portion of this program were to provide comprehensive biomarker analysis for NABIR collaborators to enhance the understanding of microbial geo-bioprocesses involved in the effective immobilization of metals (We have worked with and published or currently are publishing with 10 groups of NAIBR investigators). The laboratory portion of our research centered on methods development and has led to three major innovations that could result in a systematic way of evaluating sites for potential bioremediation. The first of these is the development of an in situ sampling device (Peacock et al., 2004, Anderson et al., 2003, Istok et al., 2004) for the collection and concentration of microbial biomass. The second is the development of expanded lipid analysis based on the significantly greater sensitivity and selectivity of the LC/MS/MS that allows the analysis of respiratory quinones, diglycerides, sterols, intact phospholipids, poly-hydroxyalkonates, and potentially archaeol, and caldarchaeols from archea. These new analyses are accomplished more rapidly and with increased sensitivities and resolution than in the past (Lytle et al., 2000a, 2000b, 2001a, Geyer et al., 2004). The third advance is the coupling of lipid analysis with 13C enrichment experiments (Lytle et al., 2001b, Geyer et al. 2005). With this technique it is now possible to follow the active portion of the in situ microbial community with a resolution heretofore not possible. These three advances in technology have been initially demonstrated at the NABIR Field Research Center (FRC) in Oak Ridge, TN and at the UMTRA Old Rifle site in Colorado. Microbial communities are of primary importance in the use of bioimmobilization strategies for metals and radionuclides from contaminated groundwater and sediments. These communities represent a potentially transformable agent that is able to affect virtually all biogeochemical pathways. Microorganisms can alter metal chemistry and mobility through reduction, accumulation, and immobilization and have been shown to be responsible for mineral formation and dissolution. Research is directed to provide collaborating NABIR investigators a rapid, comprehensive, and cost-effective suite of biomarker measurements to quantify microbial community structure, activity, and effectiveness, thereby providing defensible evidence that a desired bioprocess is occurring or may occur at a given site

  9. NABIR Assessment Element, Expanded Rapid, Comprehensive, Lipid Biomarker Analysis for Subsurface, Community Composition and Nutritional/Physiological Status as Monitors of Remediation and Detoxification Effectiveness

    Energy Technology Data Exchange (ETDEWEB)

    David C. White

    2005-09-14

    NABIR funding at the University of Tennessee Center for Biomarker Analysis (CBA) has led to several key contributions to the investigation of bioremediation of metals and radionuclides. This lab has played an integral part in assessing microbial communities at the field scale at the ORNL FRC (Istok et al., 2004) and two UMTRA sites (Anderson et al., 2003, Chang et al., 2001). Our work over the period of the grant has resulted in 42-peer reviewed publications, 62 presentations (14 of which were international), and one patent pending. Currently CBA has 2 papers in press. The main objectives relating to the field portion of this program were to provide comprehensive biomarker analysis for NABIR collaborators to enhance the understanding of microbial geo-bioprocesses involved in the effective immobilization of metals (We have worked with and published or currently are publishing with 10 groups of NAIBR investigators). The laboratory portion of our research centered on methods development and has led to three major innovations that could result in a systematic way of evaluating sites for potential bioremediation. The first of these is the development of an in situ sampling device (Peacock et al., 2004, Anderson et al., 2003, Istok et al., 2004) for the collection and concentration of microbial biomass. The second is the development of expanded lipid analysis based on the significantly greater sensitivity and selectivity of the LC/MS/MS that allows the analysis of respiratory quinones, diglycerides, sterols, intact phospholipids, poly-hydroxyalkonates, and potentially archaeol, and caldarchaeols from archea. These new analyses are accomplished more rapidly and with increased sensitivities and resolution than in the past (Lytle et al., 2000a, 2000b, 2001a, Geyer et al., 2004). The third advance is the coupling of lipid analysis with 13C enrichment experiments (Lytle et al., 2001b, Geyer et al. 2005). With this technique it is now possible to follow the active portion of the in situ microbial community with a resolution heretofore not possible. These three advances in technology have been initially demonstrated at the NABIR Field Research Center (FRC) in Oak Ridge, TN and at the UMTRA Old Rifle site in Colorado. Microbial communities are of primary importance in the use of bioimmobilization strategies for metals and radionuclides from contaminated groundwater and sediments. These communities represent a potentially transformable agent that is able to affect virtually all biogeochemical pathways. Microorganisms can alter metal chemistry and mobility through reduction, accumulation, and immobilization and have been shown to be responsible for mineral formation and dissolution. Research is directed to provide collaborating NABIR investigators a rapid, comprehensive, and cost-effective suite of biomarker measurements to quantify microbial community structure, activity, and effectiveness, thereby providing defensible evidence that a desired bioprocess is occurring or may occur at a given site.

  10. Community Connections

    Science.gov (United States)

    Kemball, Mark

    2009-01-01

    This article discusses the results of a CASE survey, compiled in April 2009, which was sent to almost 2,800 members who had previously indicated that community relations were part of their professional responsibilities or interests. The survey suggests that the role and practice of community relations in a public institution is somewhat different…

  11. A new method for tracing flows of nitrogen and carbon through bacteria and algae in aquatic microbial communities: Analysis of 15N- and 13C-incorporation into D-alanine and other hydrolysable amino acids

    OpenAIRE

    Veuger, B.

    2006-01-01

    Nitrogen flows through bacteria and algae in aquatic microbial communities are an important part of the nitrogen cycle, which plays a central role in aquatic ecosystems. However, work on uptake and retention of nitrogen in bacteria versus algae in natural microbial communities has long been hampered by a lack of adequate methodology, especially in turbid waters and sediments. This thesis deals with the development, validation and application of a new method for analysis of nitrogen and carbon...

  12. Community Ecology

    CERN Document Server

    1988-01-01

    This book presents the proceedings of a workshop on community ecology organized at Davis, in April, 1986, sponsored by the Sloan Foundation. There have been several recent symposia on community ecology (Strong et. al., 1984, Diamond and Case, 1987) which have covered a wide range of topics. The goal of the workshop at Davis was more narrow: to explore the role of scale in developing a theoretical approach to understanding communities. There are a number of aspects of scale that enter into attempts to understand ecological communities. One of the most basic is organizational scale. Should community ecology proceed by building up from population biology? This question and its ramifications are stressed throughout the book and explored in the first chapter by Simon Levin. Notions of scale have long been important in understanding physical systems. Thus, in understanding the interactions of organisms with their physical environment, questions of scale become paramount. These more physical questions illustrate the...

  13. Role Assessment of GIS Analysis and its Reliability while Ranking Urban Sustainability Using Scenarios Specific to Regional Climate, Community and Culture

    Science.gov (United States)

    Salmi, H. Al; Abdulmuttalib, H. M.

    2012-07-01

    Urban Sustainability expresses the level of conservation of a city while living a town or consuming its urban resources, but the measurement of urban sustainability depends on what are considered important indicators of conservation besides the permitted levels of consumption in accordance with adopted criteria. This criterion should have common factors that are shared for all the members tested or cities to be evaluated as in this particular case for Abu Dhabi, but also have specific factors that are related to the geographic place, community and culture, that is the measures of urban sustainability specific to a middle east climate, community and culture where GIS Vector and Raster analysis have a role or add a value in urban sustainability measurements or grading are considered herein. Scenarios were tested using various GIS data types to replicate urban history (ten years period), current status and expected future of Abu Dhabi City setting factors to climate, community needs and culture. The useful Vector or Raster GIS data sets that are related to every scenario where selected and analysed in the sense of how and how much it can benefit the urban sustainability ranking in quantity and quality tests, this besides assessing the suitable data nature, type and format, the important topology rules to be considered, the useful attributes to be added, the relationships which should be maintained between data types of a geo- database, and specify its usage in a specific scenario test, then setting weights to each and every data type representing some elements of a phenomenon related to urban suitability factor. The results of assessing the role of GIS analysis provided data collection specifications such as the measures of accuracy reliable to a certain type of GIS functional analysis used in an urban sustainability ranking scenario tests. This paper reflects the prior results of the research that is conducted to test the multidiscipline evaluation of urban sustainability using different indicator metrics, that implement vector GIS Analysis and Raster GIS analysis as basic tools to assist the evaluation and increase of its reliability besides assessing and decomposing it, after which a hypothetical implementation of the chosen evaluation model represented by various scenarios was implemented on the planned urban sustainability factors for a certain period of time to appraise the expected future grade of urban sustainability and come out with advises associated with scenarios for assuring gap filling and relative high urban future sustainability. The results this paper is reflecting are concentrating on the elements of vector and raster GIS analysis that assists the proper urban sustainability grading within the chosen model, the reliability of spatial data collected; analysis selected and resulted spatial information. Starting from selecting some important indicators to comprise the model which include regional culture, climate and community needs an example of what was used is Energy Demand & Consumption (Cooling systems). Thus, this factor is related to the climate and it's regional specific as the temperature varies around 30-45 degrees centigrade in city areas, GIS 3D Polygons of building data used to analyse the volume of buildings, attributes "building heights", estimate the number of floors from the equation, following energy demand was calculated and consumption for the unit volume, and compared it in scenario with possible sustainable energy supply or using different environmental friendly cooling systems this is followed by calculating the cooling system effects on an area unit selected to be 1 sq. km, combined with the level of greenery area, and open space, as represented by parks polygons, trees polygons, empty areas, pedestrian polygons and road surface area polygons. (initial measures showed that cooling system consumption can be reduced by around 15-20% with a well-planned building distributions, proper spaces and with using environmental friendly products and building material, temperature le

  14. Effectiveness of interventions for hypertension care in the community – a meta-analysis of controlled studies in China

    Directory of Open Access Journals (Sweden)

    Lu Zuxun

    2012-07-01

    Full Text Available Abstract Background Hypertension is a serious public health problem in China and in other developing countries. Our aim is to conduct a systematic review of studies on the effectiveness of community interventions for hypertension management in China. Methods China National Knowledge Infrastructure, PubMed, and references of retrieved articles were searched to identify randomised or quasi-randomised controlled studies that evaluated community hypertension care in mainland China. One reviewer extracted and a second reviewer checked data from the included studies. Results We included 94 studies, 93 of which were in Chinese language, that evaluated the following interventions: health education, improved monitoring, family-support, self-management, healthcare management changes and training of providers. The study quality was generally poor, with high risk of biased outcome reporting and significant heterogeneity between studies. When reported, the vast majority of the included studies reported statistically significantly improved outcomes in the intervention group. By assuming zero treatment effects for missing outcomes, the weighted reduction in the intervention group was 6?9 (95% CI: 4?9 to 8?9 mm Hg for systolic BP, and 3?8 (95% CI: 2?6 to 5?0 mm Hg for diastolic BP. Exploratory subgroup analyses found no significant differences between different interventions. Conclusions After taking account of possible reporting biases, a wide range of community interventions for hypertension care remain effective. The findings have implications for China and other low and middle income countries facing similar challenges. Because of significant heterogeneity and high risk of bias in the available studies, further well designed studies should be conducted in China to provide high quality evidence to inform policy decisions on hypertension control.

  15. Comparison of DNA extraction kits for PCR-DGGE analysis of human intestinal microbial communities from fecal specimens

    Directory of Open Access Journals (Sweden)

    Nakatsu Cindy H

    2010-05-01

    Full Text Available Abstract Background The influence of diet on intestinal microflora has been investigated mainly using conventional microbiological approaches. Although these studies have advanced knowledge on human intestinal microflora, it is imperative that new methods are applied to facilitate scientific progress. Culture-independent molecular fingerprinting method of Polymerase Chain Reaction and Denaturing Gradient Gel Electrophoresis (PCR-DGGE has been used to study microbial communities in a variety of environmental samples. However, these protocols must be optimized prior to their application in order to enhance the quality and accuracy of downstream analyses. In this study, the relative efficacy of four commercial DNA extraction kits (Mobio Ultra Clean® Fecal DNA Isolation Kit, M; QIAamp® DNA Stool Mini Kit, Q; FastDNA® SPIN Kit, FSp; FastDNA® SPIN Kit for Soil, FSo were evaluated. Further, PCR-DGGE technique was also assessed for its feasibility in detecting differences in human intestinal bacterial fingerprint profiles. Method Total DNA was extracted from varying weights of human fecal specimens using four different kits, followed by PCR amplification of bacterial 16S rRNA genes, and DGGE separation of the amplicons. Results Regardless of kit, maximum DNA yield was obtained using 10 to 50 mg (wet wt of fecal specimens and similar DGGE profiles were obtained. However, kits FSp and FSo extracted significantly larger amounts of DNA per g dry fecal specimens and produced more bands on their DGGE profiles than kits M and Q due to their use of bead-containing lysing matrix and vigorous shaking step. DGGE of 16S rRNA gene PCR products was suitable for capturing the profiles of human intestinal microbial community and enabled rapid comparative assessment of inter- and intra-subject differences. Conclusion We conclude that extraction kits that incorporated bead-containing lysing matrix and vigorous shaking produced high quality DNA from human fecal specimens (10 to 50 mg, wet wt that can be resolved as bacterial community fingerprints using PCR-DGGE technique. Subsequently, PCR-DGGE technique can be applied for studying variations in human intestinal microbial communities.

  16. Disturbance promotes non-indigenous bacterial invasion in soil microcosms : analysis of the roles of resource availability and community structure

    DEFF Research Database (Denmark)

    Liu, Manqiang; Strandmark, Lisa BjØrnlund

    2012-01-01

    Invasion-biology is largely based on non-experimental observation of larger organisms. Here, we apply an experimental approach to the subject. By using microbial-based microcosm-experiments, invasion-biology can be placed on firmer experimental, and hence, less anecdotal ground. A better understanding of the mechanisms that govern invasion-success of bacteria in soil communities will provide knowledge on the factors that hinder successful establishment of bacteria artificially inoculated into soil, e.g. for remediation purposes. Further, it will yield valuable information on general principles of invasion biology in other domains of life.

  17. Effectiveness of exercise programs to reduce falls in older people with dementia living in the community: a systematic review and meta-analysis

    Directory of Open Access Journals (Sweden)

    Burton E

    2015-02-01

    Full Text Available Elissa Burton,1,2 Vinicius Cavalheri,1 Richard Adams,3 Colleen Oakley Browne,4 Petra Bovery-Spencer,4 Audra M Fenton,3 Bruce W Campbell,5 Keith D Hill1,6 1School of Physiotherapy and Exercise Science, Curtin University, Perth, WA, Australia; 2Research Department, Silver Chain, Perth, WA, Australia; 3Community Services, West Gippsland Healthcare Group, Warragul, VIC, Australia; 4Falls Prevention for People Living with Dementia Project, Central West Gippsland Primary Care Partnership, Moe, VIC, Australia; 5Allied Health, Latrobe Regional Hospital, Traralgon, VIC, Australia; 6Preventive and Public Health Division, National Ageing Research Institute, Melbourne, VIC, Australia Objective: The objective of this systematic review and meta-analysis is to evaluate the effectiveness of exercise programs to reduce falls in older people with dementia who are living in the community.Method: Peer-reviewed articles (randomized controlled trials [RCTs] and quasi-experimental trials published in English between January 2000 and February 2014, retrieved from six electronic databases – Medline (ProQuest, CINAHL, PubMed, PsycInfo, EMBASE and Scopus – according to predefined inclusion criteria were included. Where possible, results were pooled and meta-analysis was conducted.Results: Four articles (three RCT and one single-group pre- and post-test pilot study were included. The study quality of the three RCTs was high; however, measurement outcomes, interventions, and follow-up time periods differed across studies. On completion of the intervention period, the mean number of falls was lower in the exercise group compared to the control group (mean difference [MD] [95% confidence interval {CI}] =-1.06 [-1.67 to -0.46] falls. Importantly, the exercise intervention reduced the risk of being a faller by 32% (risk ratio [95% CI] =0.68 [0.55–0.85]. Only two other outcomes were reported in two or more of the studies (step test and physiological profile assessment. No between-group differences were observed in the results of the step test (number of steps (MD [95% CI] =0.51 [-1.77 to 2.78] or the physiological profile assessment (MD [95% CI] =-0.10 [-0.62 to 0.42].Conclusion: Findings from this review suggest that an exercise program may potentially assist in preventing falls of older people with dementia living in the community. However, further research is needed with studies using larger sample sizes, standardized measurement outcomes, and longer follow-up periods, to inform evidence-based recommendations. Keywords: cognitive impairment, older people, physical activity, fallers, community dwelling

  18. Community Structure in Jazz

    CERN Document Server

    Gleiser, P M; Gleiser, Pablo; Danon, Leon

    2003-01-01

    Using a database of jazz recordings we study the collaboration network of jazz musicians. We define the network at two different levels. First we study the collaboration network between individuals, where two musicians are connected if they have played in the same band. Then we consider the collaboration between bands, where two bands are connected if they have a musician in common. The community structure analysis reveals that these constructions capture essential ingredients of the social interactions between jazz musicians. We observe correlations between recording locations, racial segregation and the community structure. A quantitative analysis of the community size distribution reveals a surprising similarity with an e-mail based social network recently studied.

  19. Analysis of substrate degradation, metabolite formation and microbial community responses in sand bioreactors treating winery wastewater: a comparative study.

    Science.gov (United States)

    Welz, P J; Palmer, Z; Isaacs, S; Kirby, B; le Roes-Hill, M

    2014-12-01

    There is a global need for the implementation of more cost-effective green technologies for the treatment of effluent from wineries. However, systems reliant on microbial biodegradation may be adversely affected by the highly seasonal character of cellar waste. In this study, the biodegradation of two different formulations of winery effluent in sand bioreactors was compared. The degradation of organic substrates and formation of metabolites was monitored by physicochemical analyses of pore water and final effluent samples. Changes in the bacterial community structures were detected using molecular fingerprinting. In wastewater with an overall COD of 2027 mg/L, a formulation with a high concentration of acetate (800 mg COD/L) was more recalcitrant to degradation than a formulation with a high concentration of glucose (800 mg COD/L). Ethanol, glucose and phenolics were degraded preferentially in the deeper layers of the sand bioreactors (average Eh 25 mV) than in the superficial layers (average Eh 102 mV). The redox status also played a pivotal role on the bacterial community composition. The study yielded valuable insight that can be utilized in the design (configuration and operation) of full scale sand bioreactors. PMID:25026370

  20. Extraction of bulk DNA from Thar Desert soils for optimization of PCR-DGGE based microbial community analysis

    Scientific Electronic Library Online (English)

    Raj, Kumar Gothwal; Vinod, Kumar Nigam; M. Krishna, Mohan; Dinakar, Sasmal; Purnendu, Ghosh.

    2007-07-15

    Full Text Available A reliable method for characterizing microbial communities on the basis of their differences in the 16S ribosomal RNA (rRNA) gene sequences in the hot arid zone sandy soils has been optimized. A desert plant (Calligonum polygonoides) was chosen to provide the rhizospheric soil samples, collected fro [...] m three different agro-ecological locations. Total community DNA was efficiently extracted at small-scale level using direct lysis with hot sodium dodecyl sulphate (SDS), glass bead beating and finally subjecting the sandy soil to liquid nitrogen freeze-thaw cycles. To amplify V3 region of bacterial 16S rRNA gene, universal conserved primers were used. Second round polymerase chain reaction (PCR) was attempted to increase product concentration and to minimize the effect of inhibitory substances. To enhance the detection sensitivity of the denaturing gradient gel electrophoresis (DGGE), the effect of change in template DNA concentration was studied. The separation of bands were greatly enhanced in the fingerprints obtained after the second round of PCR representing low abundant species which were not differentiated at single optimized concentration of DNA

  1. Analysis of bacterial community composition of a spring water from the Western Ghats, India using culture dependent and molecular approaches.

    Science.gov (United States)

    Ruckmani, Arunachalam; Chakrabarti, Tapan

    2011-01-01

    Cultivation based and culture independent molecular approaches were used to characterize the composition and structure of bacterial community from a natural warm spring in the Western Ghats, a biodiversity 'hotspot'. Dilution plating was done on three types of media with varying nutrient levels. Relatively nutritionally poor medium supported growth of highest number of bacteria (4.98 × 10(3) ml(-1)) compared to nutritionally rich media. On the basis of different morphological features on the plate, 62 aerobic and heterotrophic bacterial strains were isolated and their 16S rRNA genes were sequenced and analyzed. On the basis of sequence similarity these isolates were found to be distributed in 21 different genera belonging to Proteobacteria (58%) followed by Firmicutes (26%), Actinobacteria (13%) and Bacteroidetes (3%). Amplification of 16S rRNA gene of the community DNA using eubacterial primers, followed by cloning and sequencing revealed that predominant members of the habitat belong to the phylum Cyanobacteria (60%) followed by Proteobacteria (19.5%), Bacteroidetes (6.67%), Actinobacteria (4.4%) and Firmicutes (2.2%) and small ribosomal subunit of a plastid (of Chlorophyta, 2.2%). PMID:20461383

  2. Analysis of the Involvement and Impressions of the Local Community on the Tourism Development of Ilocos Norte

    Directory of Open Access Journals (Sweden)

    Orpia Cherie B.

    2014-01-01

    Full Text Available Tourism development is not possible without the involvement of the local community in various development stage and tourism activities. They can be involved right from planning, construction, operation, and promotion activities. It generates investment, foreign exchange and employment to the locals. This study sought how the local community is involved and what are their impressions in Ilocos Norte’s Tourism developments. It also sought to determine the demographic qualities differentiates against tourism development involvement and their impressions. The study used non-probability convenience sampling in various towns in Ilocos Norte. Questionnaire type of survey and unstructured interviews were employed to the locals and to the local government units. Local residents perceive the tourism activities to provide employment opportunities, income, foreign exchange, and promote cultural heritage. Very few perceive to be a contributor to pollution and depletion of natural resources.. Most people have an impression that it has improved their way of life thru more access to their town, business opportunities, and more infrastructure. However, most of them has an impression that cleanliness and safety has gotten worse. Most people like to participate in tourism activities thru investment, employment and planning.

  3. Analysis of the bacterial community in a laboratory-scale nitrification reactor and a wastewater treatment plant by 454-pyrosequencing.

    Science.gov (United States)

    Ye, Lin; Shao, Ming-Fei; Zhang, Tong; Tong, Amy Hin Yan; Lok, Si

    2011-10-01

    For full understanding of the microbial community in the wastewater treatment bioreactors, one of the feasible and effective ways is to investigate the massive genetic information contained in the activated sludge. In this study, high-throughput pyrosequencing was applied to analyze the 16S rRNA gene of bacteria in a laboratory-scale nitrification reactor and a full-scale wastewater treatment plant. In total, 27,458 and 26,906 effective sequence reads of the 16S rRNA gene were obtained from the Reactor and the wastewater treatment plant activated sludge samples respectively. The taxonomic complexities in the two samples were compared at phylum and genus levels. According to the pyrosequencing results, even for a laboratory-scale reactor as simple as that in this study, a small size clone library is far from enough to reflect the whole profile of the bacterial community. In addition, it was found that the commonly used informatics tool "RDP classifier" may drastically assign Nitrosomonas sequences into a wrong taxonomic unit resulting in underestimation of