WorldWideScience

Sample records for midrobial community analysis

  1. Chapter 11. Community analysis-based methods

    Energy Technology Data Exchange (ETDEWEB)

    Cao, Y.; Wu, C.H.; Andersen, G.L.; Holden, P.A.

    2010-05-01

    Microbial communities are each a composite of populations whose presence and relative abundance in water or other environmental samples are a direct manifestation of environmental conditions, including the introduction of microbe-rich fecal material and factors promoting persistence of the microbes therein. As shown by culture-independent methods, different animal-host fecal microbial communities appear distinctive, suggesting that their community profiles can be used to differentiate fecal samples and to potentially reveal the presence of host fecal material in environmental waters. Cross-comparisons of microbial communities from different hosts also reveal relative abundances of genetic groups that can be used to distinguish sources. In increasing order of their information richness, several community analysis methods hold promise for MST applications: phospholipid fatty acid (PLFA) analysis, denaturing gradient gel electrophoresis (DGGE), terminal restriction fragment length polymorphism (TRFLP), cloning/sequencing, and PhyloChip. Specific case studies involving TRFLP and PhyloChip approaches demonstrate the ability of community-based analyses of contaminated waters to confirm a diagnosis of water quality based on host-specific marker(s). The success of community-based MST for comprehensively confirming fecal sources relies extensively upon using appropriate multivariate statistical approaches. While community-based MST is still under evaluation and development as a primary diagnostic tool, results presented herein demonstrate its promise. Coupled with its inherently comprehensive ability to capture an unprecedented amount of microbiological data that is relevant to water quality, the tools for microbial community analysis are increasingly accessible, and community-based approaches have unparalleled potential for translation into rapid, perhaps real-time, monitoring platforms.

  2. 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

  3. Social network analysis community detection and evolution

    CERN Document Server

    Missaoui, Rokia

    2015-01-01

    This book is devoted to recent progress in social network analysis with a high focus on community detection and evolution. The eleven chapters cover the identification of cohesive groups, core components and key players either in static or dynamic networks of different kinds and levels of heterogeneity. Other important topics in social network analysis such as influential detection and maximization, information propagation, user behavior analysis, as well as network modeling and visualization are also presented. Many studies are validated through real social networks such as Twitter. This edit

  4. Metagenomic analysis of microbial communities and beyond

    DEFF Research Database (Denmark)

    Schreiber, Lars

    2014-01-01

    From small clone libraries to large next-generation sequencing datasets – the field of community genomics or metagenomics has developed tremendously within the last years. This chapter will summarize some of these developments and will also highlight pitfalls of current metagenomic analyses....... It will illustrate the general workflow of a metagenomic study and introduce the three different metagenomic approaches: (1) the random shotgun approach that focuses on the metagenome as a whole, (2) the targeted approach that focuses on metagenomic amplicon sequences, and (3) the function-driven approach that uses...... heterologous expression of metagenomic DNA fragments to discover novel metabolic functions. Lastly, the chapter will shortly discuss the meta-analysis of gene expression of microbial communities, more precisely metatranscriptomics and metaproteomics....

  5. Refugee community organisations: a social capital analysis

    OpenAIRE

    Kellow, Alexa

    2011-01-01

    This thesis considers how refugee-led community organisations generate social capital for their service users. The concept of social capital has become popular in policy debates in recent years, and previous research has attributed social capital creation for their service users to refugee community organisations (RCOs). This research aimed to analyse the process by which social capital is created by refugee community organisations, and what this means for the members of these organisations i...

  6. Analysis of the Community Benefit Standard in Texas Hospitals.

    Science.gov (United States)

    Worthy, James Corbett; Anderson, Cheryl L

    2016-01-01

    The federal government provides special tax-exemption status, known as the community benefit standard, to some nonprofit hospitals. It is not known if hospitals that claim the community benefit standard provide more or different services from those provided by hospitals that do not claim the community benefit status. Guided by the socioecological model, this quantitative study investigated 95 hospitals serving 52 counties in South Texas--43 that claimed a community benefit and 52 that did not. The independent variables were hospitals that claimed the community benefit standard versus hospitals that did not. The dependent variables were the three essential criteria and the 13 reported services used to meet the community benefit standard. The study results show that all hospitals that claimed the community benefit standard met two of the three required criteria. However, only 22 of 43 hospitals had a full-time emergency department (ED), the third criterion. Χ² analysis showed statistically significant differences for only two of the five common services: having an ED and community education for community benefit hospitals versus noncommunity benefit hospitals. On average, hospitals that claimed the community benefit spent 100 times more money on community services than hospitals that did not claim the community benefit. Further investigation is needed to determine the reasons for the gap in services pertaining to EDs, trauma care, neonatal intensive care, free-standing clinics, collaborative efforts, other medical services, education of patients, community health education, and other education services. PMID:27111928

  7. Interspecific associations and community structure: A local survey and analysis in a grass community

    Directory of Open Access Journals (Sweden)

    WenJun Zhang

    2014-09-01

    Full Text Available Interspecific associations in the plant community may help to understand the self-organizing assembly and succession of the community. In present study, Pearson correlation, net correlation, Spearman rank correlation, and point correlation were used to detect the interspecific (inter-family associations of grass species (families using the sampling data collected in a grass community of Zhuhai, China. We found that most associations between grass species (families were positive associations. The competition/interference/niche separation between grass species (families was not significant. A lot of pairs of grass species and families with statistically significant interspecific (inter-family associations based on four correlation measures were discovered. Cluster trees for grass species/families were obtained by using cluster analysis. Relationship among positive/negative associations, interspecific relationship and community succession/stability/robustness was discussed. I held that species with significant positive or negative associations are generally keystone species in the community. Although both negative and positive associations occur in the community succession, the adaptation and selection will finally result in the successful coexistence of the species with significant positive associations in the climax community. As the advance of community succession, the significant positive associations increase and maximize in climax community, and the significant negative associations increase to a maximum and then decline into climax community. Dominance of significant positive associations in the climax community means the relative stablility and equilibrium of the community. No significant associations usually account for the majority of possible interspecific associations at each phase of community succession. They guarantee the robustness of community. They are candidates of keystone species. Lose of some existing keystone species might be

  8. 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.

  9. 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; psycho-...

  10. Analysis of gaming community using Soft System Methodology

    OpenAIRE

    Hurych, Jan

    2015-01-01

    This diploma thesis aims to analyse virtual gaming community and it's problems in case of community belonging to EU server of the game called World of Tanks. To solve these problems, Soft System Methodology by P. Checkland, is used. The thesis includes analysis of significance of gaming communities for the gaming industry as a whole. Gaming community is then defined as a soft system. There are 3 problems analysed in the practical part of the thesis using newer version of SSM. One iteration of...

  11. Metagenomic analysis of soil microbial communities

    OpenAIRE

    Đokić Lidija; Savić M.; Narančić Tanja; Vasiljević Branka

    2010-01-01

    Ramonda serbica and Ramonda nathaliae, rare resurrection plants growing in the Balkan Peninsula, produce a high amount of phenolic compounds as a response to stress. The composition and size of bacterial communities in two rhizosphere soil samples of these plants were analyzed using a metagenomic approach. Fluorescent in situ hybridization (FISH) experiments together with DAPI staining showed that the metabolically active bacteria represent only a small fraction, approximately 5%, of total so...

  12. Community Analysis of Global Financial Markets

    Directory of Open Access Journals (Sweden)

    Irena Vodenska

    2016-05-01

    Full Text Available We analyze the daily returns of stock market indices and currencies of 56 countries over the period of 2002–2012. We build a network model consisting of two layers, one being the stock market indices and the other the foreign exchange markets. Synchronous and lagged correlations are used as measures of connectivity and causality among different parts of the global economic system for two different time intervals: non-crisis (2002–2006 and crisis (2007–2012 periods. We study community formations within the network to understand the influences and vulnerabilities of specific countries or groups of countries. We observe different behavior of the cross correlations and communities for crisis vs. non-crisis periods. For example, the overall correlation of stock markets increases during crisis while the overall correlation in the foreign exchange market and the correlation between stock and foreign exchange markets decrease, which leads to different community structures. We observe that the euro, while being central during the relatively calm period, loses its dominant role during crisis. Furthermore we discover that the troubled Eurozone countries, Portugal, Italy, Greece and Spain, form their own cluster during the crisis period.

  13. Metagenomic analysis of soil microbial communities

    Directory of Open Access Journals (Sweden)

    Đokić Lidija

    2010-01-01

    Full Text Available Ramonda serbica and Ramonda nathaliae, rare resurrection plants growing in the Balkan Peninsula, produce a high amount of phenolic compounds as a response to stress. The composition and size of bacterial communities in two rhizosphere soil samples of these plants were analyzed using a metagenomic approach. Fluorescent in situ hybridization (FISH experiments together with DAPI staining showed that the metabolically active bacteria represent only a small fraction, approximately 5%, of total soil bacteria. Using universal bacteria - specific primers 16S rDNA genes were amplified directly from metagenomic DNAs and two libraries were constructed. The Restriction Fragment Length Polymorphism (RLFP method was used in library screening. Amongst 192 clones, 35 unique operational taxonomic units (OTUs were determined from the rhizosphere of R. nathaliae, and 13 OTUs out of 80 clones in total from the library of R. serbica. Representative clones from each OTU were sequenced. The majority of sequences from metagenomes showed very little similarity to any cultured bacteria. In conclusion, the bacterial communities in the studied soil samples showed quite poor diversity. .

  14. Market Analysis Identifies Community and School Education Goals.

    Science.gov (United States)

    Lindle, Jane C.

    1989-01-01

    Principals must realize the positive effects that marketing can have on improving schools and building support for them. Market analysis forces clarification of the competing needs and interests present in the community. The four marketing phases are needs assessment, analysis, goal setting, and public relations and advertising. (MLH)

  15. THE EVANGELICAL-LUTHERAN COMMUNITY IN AZERBAIJAN: A RETROSPECTIVE ANALYSIS

    OpenAIRE

    Zeinalova, Sudaba

    2007-01-01

    This article looks at the life of the Protestant religious community in Azerbaijan, studies the history of how the German population that formed the foundation of the Protestant, Evangelical-Lutheran community migrated to Azerbaijan, and sheds light on the activity of the Lutheran church. A scientific analysis of the ethnoconfessional diversity that exists today in Azerbaijan reconfirms the peace-loving and respectful attitude of the Azerbaijani people toward different cultures, and the tradi...

  16. Metagenomics meets time series analysis: unraveling microbial community dynamics

    NARCIS (Netherlands)

    Faust, K.; Lahti, L.M.; Gonze, D.; Vos, de W.M.; Raes, J.

    2015-01-01

    The recent increase in the number of microbial time series studies offers new insights into the stability and dynamics of microbial communities, from the world's oceans to human microbiota. Dedicated time series analysis tools allow taking full advantage of these data. Such tools can reveal periodic

  17. 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

  18. Metagenomic analysis of the microbial community in kefir grains.

    Science.gov (United States)

    Nalbantoglu, Ufuk; Cakar, Atilla; Dogan, Haluk; Abaci, Neslihan; Ustek, Duran; Sayood, Khalid; Can, Handan

    2014-08-01

    Kefir grains as a probiotic have been subject to microbial community identification using culture-dependent and independent methods that target specific strains in the community, or that are based on limited 16S rRNA analysis. We performed whole genome shotgun pyrosequencing using two Turkish Kefir grains. Sequencing generated 3,682,455 high quality reads for a total of ∼1.6 Gbp of data assembled into 6151 contigs with a total length of ∼24 Mbp. Species identification mapped 88.16% and 93.81% of the reads rendering 4 Mpb of assembly that did not show any homology to known bacterial sequences. Identified communities in the two grains showed high concordance where Lactobacillus was the most abundant genus with a mapped abundance of 99.42% and 99.79%. This genus was dominantly represented by three species Lactobacillus kefiranofaciens, Lactobacillus buchneri and Lactobacillus helveticus with a total mapped abundance of 97.63% and 98.74%. We compared and verified our findings with 16S pyrosequencing and model based 16S data analysis. Our results suggest that microbial community profiling using whole genome shotgun data is feasible, can identify novel species data, and has the potential to generate a more accurate and detailed assessment of the underlying bacterial community, especially for low abundance species.

  19. Correlation network analysis applied to complex biofilm communities.

    Directory of Open Access Journals (Sweden)

    Ana E Duran-Pinedo

    Full Text Available The complexity of the human microbiome makes it difficult to reveal organizational principles of the community and even more challenging to generate testable hypotheses. It has been suggested that in the gut microbiome species such as Bacteroides thetaiotaomicron are keystone in maintaining the stability and functional adaptability of the microbial community. In this study, we investigate the interspecies associations in a complex microbial biofilm applying systems biology principles. Using correlation network analysis we identified bacterial modules that represent important microbial associations within the oral community. We used dental plaque as a model community because of its high diversity and the well known species-species interactions that are common in the oral biofilm. We analyzed samples from healthy individuals as well as from patients with periodontitis, a polymicrobial disease. Using results obtained by checkerboard hybridization on cultivable bacteria we identified modules that correlated well with microbial complexes previously described. Furthermore, we extended our analysis using the Human Oral Microbe Identification Microarray (HOMIM, which includes a large number of bacterial species, among them uncultivated organisms present in the mouth. Two distinct microbial communities appeared in healthy individuals while there was one major type in disease. Bacterial modules in all communities did not overlap, indicating that bacteria were able to effectively re-associate with new partners depending on the environmental conditions. We then identified hubs that could act as keystone species in the bacterial modules. Based on those results we then cultured a not-yet-cultivated microorganism, Tannerella sp. OT286 (clone BU063. After two rounds of enrichment by a selected helper (Prevotella oris OT311 we obtained colonies of Tannerella sp. OT286 growing on blood agar plates. This system-level approach would open the possibility of

  20. [A phylogenetic analysis of plant communities of Teberda Biosphere Reserve].

    Science.gov (United States)

    Shulakov, A A; Egorov, A V; Onipchenko, V G

    2016-01-01

    Phylogenetic analysis of communities is based on the comparison of distances on the phylogenetic tree between species of a community under study and those distances in random samples taken out of local flora. It makes it possible to determine to what extent a community composition is formed by more closely related species (i.e., "clustered") or, on the opposite, it is more even and includes species that are less related with each other. The first case is usually interpreted as a result of strong influence caused by abiotic factors, due to which species with similar ecology, a priori more closely related, would remain: In the second case, biotic factors, such as competition, may come to the fore and lead to forming a community out of distant clades due to divergence of their ecological niches: The aim of this' study Was Ad explore the phylogenetic structure in communities of the northwestern Caucasus at two spatial scales - the scale of area from 4 to 100 m2 and the smaller scale within a community. The list of local flora of the alpine belt has been composed using the database of geobotanic descriptions carried out in Teberda Biosphere Reserve at true altitudes exceeding.1800 m. It includes 585 species of flowering plants belonging to 57 families. Basal groups of flowering plants are.not represented in the list. At the scale of communities of three classes, namely Thlaspietea rotundifolii - commumties formed on screes and pebbles, Calluno-Ulicetea - alpine meadow, and Mulgedio-Aconitetea subalpine meadows, have not demonstrated significant distinction of phylogenetic structure. At intra level, for alpine meadows the larger share of closely related species. (clustered community) is detected. Significantly clustered happen to be those communities developing on rocks (class Asplenietea trichomanis) and alpine (class Juncetea trifidi). At the same time, alpine lichen proved to have even phylogenetic structure at the small scale. Alpine (class Salicetea herbaceae) that

  1. SmashCommunity: A metagenomic annotation and analysis tool

    DEFF Research Database (Denmark)

    Arumugam, Manimozhiyan; Harrington, Eoghan D; Foerstner, Konrad U;

    2010-01-01

    SUMMARY: SmashCommunity is a stand-alone metagenomic annotation and analysis pipeline suitable for data from Sanger and 454 sequencing technologies. It supports state-of-the-art software for essential metagenomic tasks such as assembly and gene prediction. It provides tools to estimate...... the quantitative phylogenetic and functional compositions of metagenomes, to compare compositions of multiple metagenomes and to produce intuitive visual representations of such analyses. AVAILABILITY: SmashCommunity is freely available at http://www.bork.embl.de/software/smash CONTACT: bork@embl.de....

  2. Metagenomics meets time series analysis: unraveling microbial community dynamics.

    Science.gov (United States)

    Faust, Karoline; Lahti, Leo; Gonze, Didier; de Vos, Willem M; Raes, Jeroen

    2015-06-01

    The recent increase in the number of microbial time series studies offers new insights into the stability and dynamics of microbial communities, from the world's oceans to human microbiota. Dedicated time series analysis tools allow taking full advantage of these data. Such tools can reveal periodic patterns, help to build predictive models or, on the contrary, quantify irregularities that make community behavior unpredictable. Microbial communities can change abruptly in response to small perturbations, linked to changing conditions or the presence of multiple stable states. With sufficient samples or time points, such alternative states can be detected. In addition, temporal variation of microbial interactions can be captured with time-varying networks. Here, we apply these techniques on multiple longitudinal datasets to illustrate their potential for microbiome research.

  3. 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.

  4. Analysis of activity in open-source communities using social network analysis techniques

    OpenAIRE

    Martínez Torres, María del Rocío

    2014-01-01

    The success of an open-source software project is closely linked to the successful organization and development of the underlying virtual community. In particular, participation is the most important mechanism by which the development of the project is supported. The main objective of this paper is to analyse the online participation in virtual communities using social network analysis techniques in order to obtain the main patterns of behaviour of users within communities. Sev...

  5. Analysis of virtual communities supporting OSS projects using social network analysis

    OpenAIRE

    S. L. Toral; Martínez Torres, María del Rocío; Barrero, Federico

    2010-01-01

    This paper analyses the behaviour of virtual communities for Open Source Software (OSS) projects. The development of OSS projects relies on virtual communities, which are built on relationships among members, being their final objective sharing knowledge and improving the underlying project. This study addresses the interactive collaboration in these kinds of communities applying social network analysis (SNA). In particular, SNA techniques will be used to identify those members pl...

  6. 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.

  7. Phylogenetic analysis of the bacterial communities in marine sediments.

    OpenAIRE

    Gray, J P; Herwig, R P

    1996-01-01

    For the phylogenetic analysis of microbial communities present in environmental samples microbial DNA can be extracted from the sample, 16S rDNA can be amplified with suitable primers and the PCR, and clonal libraries can be constructed. We report a protocol that can be used for efficient cell lysis and recovery of DNA from marine sediments. Key steps in this procedure include the use of a bead mill homogenizer for matrix disruption and uniform cell lysis and then purification of the released...

  8. 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).

  9. 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

  10. CORSSA: The Community Online Resource for Statistical Seismicity Analysis

    Science.gov (United States)

    Michael, Andrew J.; Wiemer, Stefan

    2010-01-01

    Statistical seismology is the application of rigorous statistical methods to earthquake science with the goal of improving our knowledge of how the earth works. Within statistical seismology there is a strong emphasis on the analysis of seismicity data in order to improve our scientific understanding of earthquakes and to improve the evaluation and testing of earthquake forecasts, earthquake early warning, and seismic hazards assessments. Given the societal importance of these applications, statistical seismology must be done well. Unfortunately, a lack of educational resources and available software tools make it difficult for students and new practitioners to learn about this discipline. The goal of the Community Online Resource for Statistical Seismicity Analysis (CORSSA) is to promote excellence in statistical seismology by providing the knowledge and resources necessary to understand and implement the best practices, so that the reader can apply these methods to their own research. This introduction describes the motivation for and vision of CORRSA. It also describes its structure and contents.

  11. Using Social Network Analysis to Evaluate Community Capacity Building of a Regional Community Cancer Network

    Science.gov (United States)

    Luque, John; Tyson, Dinorah Martinez; Lee, Ji-Hyun; Gwede, Clement; Vadaparampil, Susan; Noel-Thomas, Shalewa; Meade, Cathy

    2010-01-01

    The Tampa Bay Community Cancer Network (TBCCN) is one of 25 Community Network Programs funded by the National Cancer Institute's (NCI's) Center to Reduce Cancer Health Disparities with the objectives to create a collaborative infrastructure of academic and community based organizations and to develop effective and sustainable interventions to…

  12. Analysis of intestinal bacterial community diversity of adult Dastarcus helophoroides.

    Science.gov (United States)

    Zhang, Z Q; He, C; Li, M L

    2014-01-01

    Polymerase chain reaction denaturing gradient gel electrophoresis (PCR-DGGE), and a culture-dependent technique were used to study the diversity of the intestinal bacterial community in adult Dastarcus helophoroides (Fairmaire) (Coleoptera: Bothrideridae). Universal bacterial primers targeting 200 bp regions of the 16S rDNA gene were used in the PCR-DGGE assay, and 14 bright bands were obtained. The intestinal bacteria detected by PCR-DGGE were classified to Enterococcus (Lactobacillales: Enterococcaceae), Bacillus (Bacillales: Bacillaceae), Cellvibrio (Pseudomonadales: Pseudomonadaceae), Caulobacter (Caulobacterales: Caulobacteraceae), and uncultured bacteria, whereas those isolated by the culture-dependent technique belonged to Staphylococcus (Bacillales: Staphylococcaceae), Pectobacterium Enterobacteriales: Enterobacteriaceae), and Enterobacter (Enterobacteriales: Enterobacteriaceae). These intestinal bacteria represented the groups Lactobacillales (Enterococcus), Pseudomonadales (Cellvibrio), Caulobacterales (Caulobacter), Bacilli (Bacillus and Staphylococcus), and Gammaproteobacteria (Pectobacterium and Enterobacter). Our results demonstrated that PCR-DGGE analysis and the culture-dependent technique were useful in determining the intestinal bacteria of D. helophoroides and the two methods should be integrated to characterize the microbial community and diversity. PMID:25373236

  13. Microbial community analysis of a full-scale DEMON bioreactor.

    Science.gov (United States)

    Gonzalez-Martinez, Alejandro; Rodriguez-Sanchez, Alejandro; Muñoz-Palazon, Barbara; Garcia-Ruiz, Maria-Jesus; Osorio, Francisco; van Loosdrecht, Mark C M; Gonzalez-Lopez, Jesus

    2015-03-01

    Full-scale applications of autotrophic nitrogen removal technologies for the treatment of digested sludge liquor have proliferated during the last decade. Among these technologies, the aerobic/anoxic deammonification process (DEMON) is one of the major applied processes. This technology achieves nitrogen removal from wastewater through anammox metabolism inside a single bioreactor due to alternating cycles of aeration. To date, microbial community composition of full-scale DEMON bioreactors have never been reported. In this study, bacterial community structure of a full-scale DEMON bioreactor located at the Apeldoorn wastewater treatment plant was analyzed using pyrosequencing. This technique provided a higher-resolution study of the bacterial assemblage of the system compared to other techniques used in lab-scale DEMON bioreactors. Results showed that the DEMON bioreactor was a complex ecosystem where ammonium oxidizing bacteria, anammox bacteria and many other bacterial phylotypes coexist. The potential ecological role of all phylotypes found was discussed. Thus, metagenomic analysis through pyrosequencing offered new perspectives over the functioning of the DEMON bioreactor by exhaustive identification of microorganisms, which play a key role in the performance of bioreactors. In this way, pyrosequencing has been proven as a helpful tool for the in-depth investigation of the functioning of bioreactors at microbiological scale.

  14. A Comparative Analysis of Community Wind Power DevelopmentModels

    Energy Technology Data Exchange (ETDEWEB)

    Bolinger, Mark; Wiser, Ryan; Wind, Tom; Juhl, Dan; Grace, Robert; West, Peter

    2005-05-20

    For years, farmers in the United States have looked with envy on their European counterparts ability to profitably farm the wind through ownership of distributed, utility-scale wind projects. Only within the past few years, however, has farmer- or community-owned windpower development become a reality in the United States. The primary hurdle to this type of development in the United States has been devising and implementing suitable business and legal structures that enable such projects to take advantage of tax-based federal incentives for windpower. This article discusses the limitations of such incentives in supporting farmer- or community-owned wind projects, describes four ownership structures that potentially overcome such limitations, and finally conducts comparative financial analysis on those four structures, using as an example a hypothetical 1.5 MW farmer-owned project located in the state of Oregon. We find that material differences in the competitiveness of each structure do exist, but that choosing the best structure for a given project will largely depend on the conditions at hand; e.g., the ability of the farmer(s) to utilize tax credits, preference for individual versus cooperative ownership, and the state and utility service territory in which the project will be located.

  15. 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).

  16. The Academic Robotics Community in the UK Web based data construction and analysis of a distributed community of practice

    OpenAIRE

    Mark Tomlinson

    2002-01-01

    This paper explores a scientific community of mainly academic researchers within the discipline of robotics. Data are constructed wholly from web-based resources such as web pages, electronic CVs and bibliographic search engines to identify teams of people working together, career patterns, and the research programmes of this group. Techniques from social network analysis are applied to the data to reveal the structures and relationships within the community. The paper is set within the conte...

  17. Integrating software architectures for distributed simulations and simulation analysis communities.

    Energy Technology Data Exchange (ETDEWEB)

    Goldsby, Michael E.; Fellig, Daniel; Linebarger, John Michael; Moore, Patrick Curtis; Sa, Timothy J.; Hawley, Marilyn F.

    2005-10-01

    The one-year Software Architecture LDRD (No.79819) was a cross-site effort between Sandia California and Sandia New Mexico. The purpose of this research was to further develop and demonstrate integrating software architecture frameworks for distributed simulation and distributed collaboration in the homeland security domain. The integrated frameworks were initially developed through the Weapons of Mass Destruction Decision Analysis Center (WMD-DAC), sited at SNL/CA, and the National Infrastructure Simulation & Analysis Center (NISAC), sited at SNL/NM. The primary deliverable was a demonstration of both a federation of distributed simulations and a federation of distributed collaborative simulation analysis communities in the context of the same integrated scenario, which was the release of smallpox in San Diego, California. To our knowledge this was the first time such a combination of federations under a single scenario has ever been demonstrated. A secondary deliverable was the creation of the standalone GroupMeld{trademark} collaboration client, which uses the GroupMeld{trademark} synchronous collaboration framework. In addition, a small pilot experiment that used both integrating frameworks allowed a greater range of crisis management options to be performed and evaluated than would have been possible without the use of the frameworks.

  18. The Ambivalence of Community: A Critical Analysis of Rural Education's Oldest Trope

    Science.gov (United States)

    Corbett, Michael

    2014-01-01

    The concept of community has been central to the discourse of rural education for generations. At the same time, community has been and continues to be a deeply problematic concept. I begin this analysis with Raymond Williams's characterization of the idea of community as a uniquely positive concept, arguing that this framing is, as Williams…

  19. 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…

  20. Interspecific associations and community structure: A local survey and analysis in a grass community

    OpenAIRE

    WenJun Zhang

    2014-01-01

    Interspecific associations in the plant community may help to understand the self-organizing assembly and succession of the community. In present study, Pearson correlation, net correlation, Spearman rank correlation, and point correlation were used to detect the interspecific (inter-family) associations of grass species (families) using the sampling data collected in a grass community of Zhuhai, China. We found that most associations between grass species (families) were positive association...

  1. Feature Analysis and Modeling of the Network Community Structure

    Institute of Scientific and Technical Information of China (English)

    袁超; 柴毅; 魏善碧

    2012-01-01

    Community structure has an important influence on the structural and dynamic characteristics of the complex systems.So it has attracted a large number of researchers.However,due to its complexity,the mechanism of action of the community structure is still not clear to this day.In this paper,some features of the community structure have been discussed.And a constraint model of the community has been deduced.This model is effective to identify the communities.And especially,it is effective to identify the overlapping nodes between the communities.Then a community detection algorithm,which has linear time complexity,is proposed based on this constraint model,a proposed node similarity model and the Modularity Q.Through some experiments on a series of real-world and synthetic networks,the high performances of the algorithm and the constraint model have been illustrated.

  2. Metagenomic analysis of microbial community in uranium-contaminated soil.

    Science.gov (United States)

    Yan, Xun; Luo, Xuegang; Zhao, Min

    2016-01-01

    Uranium tailing is a serious pollution challenge for the environment. Based on metagenomic sequencing analysis, we explored the functional and structural diversity of the microbial community in six soil samples taken at different soil depths from uranium-contaminated and uncontaminated areas. Kyoto Encyclopedia of Genes and Genomes Orthology (KO) groups were obtained using a Basic Local Alignment Search Tool search based on the universal protein resource database. The KO-pathway network was then constructed using the selected KOs. Finally, alpha and beta diversity analyses were performed to explore the differences in soil bacterial diversity between the radioactive soil and uncontaminated soil. In total, 30-68 million high-quality reads were obtained. Sequence assembly yielded 286,615 contigs; and these contigs mostly annotated to 1699 KOs. The KO distributions were similar among the six soil samples. Moreover, the proportion of the metabolism of other amino acids (e.g., beta-alanine, taurine, and hypotaurine) and signal transduction was significantly lower in radioactive soil than in uncontaminated soil, whereas the proportion of membrane transport and carbohydrate metabolism was higher. Additionally, KOs were mostly enriched in ATP-binding cassette transporters and two-component systems. According to diversity analyses, Actinobacteria and Proteobacteria were the dominant phyla in radioactive and uncontaminated soil, and Robiginitalea, Microlunatus, and Alicyclobacillus were the dominant genera in radioactive soil. Taken together, these results demonstrate that soil microbial community, structure, and functions show significant changes in uranium-contaminated soil. The dominant categories such as Actinobacteria and Proteobacteria may be applied in environmental governance for uranium-contaminated soil in southern China.

  3. Networked Community Change: Understanding Community Systems Change through the Lens of Social Network Analysis.

    Science.gov (United States)

    Lawlor, Jennifer A; Neal, Zachary P

    2016-06-01

    Addressing complex problems in communities has become a key area of focus in recent years (Kania & Kramer, 2013, Stanford Social Innovation Review). Building on existing approaches to understanding and addressing problems, such as action research, several new approaches have emerged that shift the way communities solve problems (e.g., Burns, 2007, Systemic Action Research; Foth, 2006, Action Research, 4, 205; Kania & Kramer, 2011, Stanford Social Innovation Review, 1, 36). Seeking to bring clarity to the emerging literature on community change strategies, this article identifies the common features of the most widespread community change strategies and explores the conditions under which such strategies have the potential to be effective. We identify and describe five common features among the approaches to change. Then, using an agent-based model, we simulate network-building behavior among stakeholders participating in community change efforts using these approaches. We find that the emergent stakeholder networks are efficient when the processes are implemented under ideal conditions.

  4. Bacterial community analysis of Tatsoi cultivated by hydroponics.

    Science.gov (United States)

    Koo, Ok K; Kim, Hun; Kim, Hyun J; Baker, Christopher A; Ricke, Steven C

    2016-07-01

    Tatsoi (Brassica narinosa) is a popular Asian salad green that is mostly consumed as a source of fresh produce. The purpose of this study was to assess the microbial diversity of Tatsoi cultivated in a hydroponic system and of its ecosystem. Tatsoi leaves, nutrient solution, and perlite/earth samples from a trickle feed system (TFS) and an ebb-and-flow system (EFS) were collected and their microbial communities were analyzed by pyrosequencing analysis. The results showed that most bacteria in the leaves from the TFS contained genus Sporosarcina (99.6%), while Rhizobium (60.4%) was dominant in the leaves from the EFS. Genus Paucibacter (18.21%) and Pelomonas (12.37%) were the most abundant microbiota in the nutrient solution samples of the TFS. In the EFS, the nutrient solution samples contained mostly genus Rhodococcus and Acinetobacter. Potential microbial transfer between the leaves and the ecosystem was observed in the EFS, while samples in the TFS were found to share only one species between the leaves, nutrient solution, and earth. Together, these results show that the bacterial populations in Tatsoi and in its ecosystem are highly diverse based on the cultivation system. PMID:27070460

  5. Bacterial community analysis of Tatsoi cultivated by hydroponics.

    Science.gov (United States)

    Koo, Ok K; Kim, Hun; Kim, Hyun J; Baker, Christopher A; Ricke, Steven C

    2016-07-01

    Tatsoi (Brassica narinosa) is a popular Asian salad green that is mostly consumed as a source of fresh produce. The purpose of this study was to assess the microbial diversity of Tatsoi cultivated in a hydroponic system and of its ecosystem. Tatsoi leaves, nutrient solution, and perlite/earth samples from a trickle feed system (TFS) and an ebb-and-flow system (EFS) were collected and their microbial communities were analyzed by pyrosequencing analysis. The results showed that most bacteria in the leaves from the TFS contained genus Sporosarcina (99.6%), while Rhizobium (60.4%) was dominant in the leaves from the EFS. Genus Paucibacter (18.21%) and Pelomonas (12.37%) were the most abundant microbiota in the nutrient solution samples of the TFS. In the EFS, the nutrient solution samples contained mostly genus Rhodococcus and Acinetobacter. Potential microbial transfer between the leaves and the ecosystem was observed in the EFS, while samples in the TFS were found to share only one species between the leaves, nutrient solution, and earth. Together, these results show that the bacterial populations in Tatsoi and in its ecosystem are highly diverse based on the cultivation system.

  6. Community College Student Mental Health: A Comparative Analysis

    Science.gov (United States)

    Katz, Daniel

    2013-01-01

    Though there are at least 12.4 million community college students, accounting for 44% of all undergraduates within the United States (Cohen & Brawer, 2008), little academic research has explored the mental health needs of community college students as a distinct population ( Floyd, 2003; Townsend & LaPaglia, 2000; Townsend, Donaldson,…

  7. George Washington Community High School: Analysis of a Partnership Network

    Science.gov (United States)

    Bringle, Robert G.; Officer, Starla D. H.; Grim, Jim; Hatcher, Julie A.

    2009-01-01

    After five years with no public schools in their community, residents and neighborhood organizations of the Near Westside of Indianapolis advocated for the opening of George Washington Community High School (GWCHS). As a neighborhood in close proximity to the campus of Indiana University-Purdue University Indianapolis, the Near Westside and campus…

  8. Illusions of Resilience? An Analysis of Community Responses to Change in Northern Norway.

    Directory of Open Access Journals (Sweden)

    Helene Amundsen

    2012-12-01

    Full Text Available This article contributes to our understanding of community resilience. Community resilience is the ability of a community to cope and adjust to stresses caused by social, political, and environmental change and to engage community resources to overcome adversity and take advantage of opportunities in response to change. Through an analysis of local responses to multiple challenges, six dimensions of community resilience were found in one village in northern Norway. These dimensions; community resources, community networks, institutions and services, people–place connections, active agents, and learning; are activated in processes and activities in the village to respond to current challenges. Although this corroborates findings from other community resilience research, this research suggests that community resilience is both complex and dynamic over time. Although communities may consider themselves resilient to today’s challenges, the rate and magnitude of expected systemic global changes, especially climate change, means that future resilience cannot be taken for granted. This work concludes that there is a risk that community resilience may be an illusion, leading to complacency about the need for adaption to multiple factors of change. Hence, the ability of communities to actively engage in reflexive learning processes is of importance for both adaptation and future resilience.

  9. CORSSA: Community Online Resource for Statistical Seismicity Analysis

    Science.gov (United States)

    Zechar, J. D.; Hardebeck, J. L.; Michael, A. J.; Naylor, M.; Steacy, S.; Wiemer, S.; Zhuang, J.

    2011-12-01

    Statistical seismology is critical to the understanding of seismicity, the evaluation of proposed earthquake prediction and forecasting methods, and the assessment of seismic hazard. Unfortunately, despite its importance to seismology-especially to those aspects with great impact on public policy-statistical seismology is mostly ignored in the education of seismologists, and there is no central repository for the existing open-source software tools. To remedy these deficiencies, and with the broader goal to enhance the quality of statistical seismology research, we have begun building the Community Online Resource for Statistical Seismicity Analysis (CORSSA, www.corssa.org). We anticipate that the users of CORSSA will range from beginning graduate students to experienced researchers. More than 20 scientists from around the world met for a week in Zurich in May 2010 to kick-start the creation of CORSSA: the format and initial table of contents were defined; a governing structure was organized; and workshop participants began drafting articles. CORSSA materials are organized with respect to six themes, each will contain between four and eight articles. CORSSA now includes seven articles with an additional six in draft form along with forums for discussion, a glossary, and news about upcoming meetings, special issues, and recent papers. Each article is peer-reviewed and presents a balanced discussion, including illustrative examples and code snippets. Topics in the initial set of articles include: introductions to both CORSSA and statistical seismology, basic statistical tests and their role in seismology; understanding seismicity catalogs and their problems; basic techniques for modeling seismicity; and methods for testing earthquake predictability hypotheses. We have also begun curating a collection of statistical seismology software packages.

  10. Building the Community Online Resource for Statistical Seismicity Analysis (CORSSA)

    Science.gov (United States)

    Michael, A. J.; Wiemer, S.; Zechar, J. D.; Hardebeck, J. L.; Naylor, M.; Zhuang, J.; Steacy, S.; Corssa Executive Committee

    2010-12-01

    Statistical seismology is critical to the understanding of seismicity, the testing of proposed earthquake prediction and forecasting methods, and the assessment of seismic hazard. Unfortunately, despite its importance to seismology - especially to those aspects with great impact on public policy - statistical seismology is mostly ignored in the education of seismologists, and there is no central repository for the existing open-source software tools. To remedy these deficiencies, and with the broader goal to enhance the quality of statistical seismology research, we have begun building the Community Online Resource for Statistical Seismicity Analysis (CORSSA). CORSSA is a web-based educational platform that is authoritative, up-to-date, prominent, and user-friendly. We anticipate that the users of CORSSA will range from beginning graduate students to experienced researchers. More than 20 scientists from around the world met for a week in Zurich in May 2010 to kick-start the creation of CORSSA: the format and initial table of contents were defined; a governing structure was organized; and workshop participants began drafting articles. CORSSA materials are organized with respect to six themes, each containing between four and eight articles. The CORSSA web page, www.corssa.org, officially unveiled on September 6, 2010, debuts with an initial set of approximately 10 to 15 articles available online for viewing and commenting with additional articles to be added over the coming months. Each article will be peer-reviewed and will present a balanced discussion, including illustrative examples and code snippets. Topics in the initial set of articles will include: introductions to both CORSSA and statistical seismology, basic statistical tests and their role in seismology; understanding seismicity catalogs and their problems; basic techniques for modeling seismicity; and methods for testing earthquake predictability hypotheses. A special article will compare and review

  11. Strategy analysis of cardiopulmonary resuscitation training in the community

    OpenAIRE

    Wang, Jin; Ma, Li; Lu, Yuan-qiang

    2015-01-01

    Bystander cardiopulmonary resuscitation (CPR) is a crucial therapy for sudden cardiac arrest. This appreciation produced immense efforts by professional organizations to train laypeople for CPR skills. However, the rate of CPR training is low and varies widely across communities. Several strategies are used in order to improve the rate of CPR training and are performed in some advanced countries. The Chinese CPR training in communities could gain enlightenment from them.

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

    Directory of Open Access Journals (Sweden)

    David Low

    2008-09-01

    Full Text Available 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 through the recognition of the dissent it embodies. As such, enquiry functions to process disagreements into diverse methods of communication. Most of the disagreements utilised by universities are derived from external sources, thus university-based enquiry must necessarily involve a dialogue with a broader community or environment. In this sense, university-community engagement can be viewed most generally as a method that processes disagreements into shared understandings through enquiry. To demonstrate how university-community engagement functions from an enquiry point of view, I use Mary Douglas’ grid-group diagramming method to develop a critical typology for classifying university-community engagement. My modified grid-group diagram provides a structured typological space within which four distinct methods of university-community engagement can be identified and discussed – both in relation to their internal communicational characteristics, and in relation to each other. The university-engagement grid-group diagram is constructed by locating each of Douglas’ four quadrants within Charles Peirce’s four methods of enquiry. Peirce’s work is introduced because each of his four methods of enquiry deals specifically with how disagreements are processed and resolved. When Peirce’s methods for fixing belief are located in Douglas’ grid-group diagram, they create a sense-making framework for university-community engagement. It is argued

  13. Perspective for Aquaponic Systems: "Omic" Technologies for Microbial Community Analysis.

    Science.gov (United States)

    Munguia-Fragozo, Perla; Alatorre-Jacome, Oscar; Rico-Garcia, Enrique; Torres-Pacheco, Irineo; Cruz-Hernandez, Andres; Ocampo-Velazquez, Rosalia V; Garcia-Trejo, Juan F; Guevara-Gonzalez, Ramon G

    2015-01-01

    Aquaponics is the combined production of aquaculture and hydroponics, connected by a water recirculation system. In this productive system, the microbial community is responsible for carrying out the nutrient dynamics between the components. The nutrimental transformations mainly consist in the transformation of chemical species from toxic compounds into available nutrients. In this particular field, the microbial research, the "Omic" technologies will allow a broader scope of studies about a current microbial profile inside aquaponics community, even in those species that currently are unculturable. This approach can also be useful to understand complex interactions of living components in the system. Until now, the analog studies were made to set up the microbial characterization on recirculation aquaculture systems (RAS). However, microbial community composition of aquaponics is still unknown. "Omic" technologies like metagenomic can help to reveal taxonomic diversity. The perspectives are also to begin the first attempts to sketch the functional diversity inside aquaponic systems and its ecological relationships. The knowledge of the emergent properties inside the microbial community, as well as the understanding of the biosynthesis pathways, can derive in future biotechnological applications. Thus, the aim of this review is to show potential applications of current "Omic" tools to characterize the microbial community in aquaponic systems.

  14. Perspective for Aquaponic Systems: "Omic" Technologies for Microbial Community Analysis.

    Science.gov (United States)

    Munguia-Fragozo, Perla; Alatorre-Jacome, Oscar; Rico-Garcia, Enrique; Torres-Pacheco, Irineo; Cruz-Hernandez, Andres; Ocampo-Velazquez, Rosalia V; Garcia-Trejo, Juan F; Guevara-Gonzalez, Ramon G

    2015-01-01

    Aquaponics is the combined production of aquaculture and hydroponics, connected by a water recirculation system. In this productive system, the microbial community is responsible for carrying out the nutrient dynamics between the components. The nutrimental transformations mainly consist in the transformation of chemical species from toxic compounds into available nutrients. In this particular field, the microbial research, the "Omic" technologies will allow a broader scope of studies about a current microbial profile inside aquaponics community, even in those species that currently are unculturable. This approach can also be useful to understand complex interactions of living components in the system. Until now, the analog studies were made to set up the microbial characterization on recirculation aquaculture systems (RAS). However, microbial community composition of aquaponics is still unknown. "Omic" technologies like metagenomic can help to reveal taxonomic diversity. The perspectives are also to begin the first attempts to sketch the functional diversity inside aquaponic systems and its ecological relationships. The knowledge of the emergent properties inside the microbial community, as well as the understanding of the biosynthesis pathways, can derive in future biotechnological applications. Thus, the aim of this review is to show potential applications of current "Omic" tools to characterize the microbial community in aquaponic systems. PMID:26509157

  15. Funding Ohio Community Colleges: An Analysis of the Performance Funding Model

    Science.gov (United States)

    Krueger, Cynthia A.

    2013-01-01

    This study examined Ohio's community college performance funding model that is based on seven student success metrics. A percentage of the regular state subsidy is withheld from institutions; funding is earned back based on the three-year average of success points achieved in comparison to other community colleges in the state. Analysis of…

  16. The Community College and a Rising Global Imaginary: An Analysis of Practical Reasoning, 1950-2013

    Science.gov (United States)

    Ayers, David F.; Palmadessa, Allison L.

    2015-01-01

    Through an analysis of 245 issues of the "Community College Journal" published between 1950 and 2013, we show how three discourses--international understanding and geopolitics, economic competitiveness, and global citizenship--informed practical reasoning about a rising global imaginary and its implications for the community college. By…

  17. Shared Governance in the Community College: An Analysis of Formal Authority in Collective Bargaining Agreements

    Science.gov (United States)

    McDermott, Linda A.

    2012-01-01

    This qualitative study examines shared governance in Washington State's community and technical colleges and provides an analysis of faculty participation in governance based on formal authority in collective bargaining agreements. Contracts from Washington's thirty community and technical college districts were reviewed in order to…

  18. Using Social Network Analysis to Understand Sense of Community in an Online Learning Environment

    Science.gov (United States)

    Shen, Demei; Nuankhieo, Piyanan; Huang, Xinxin; Amelung, Christopher; Laffey, James

    2008-01-01

    This study uses social network analysis (SNA) in an innovative way to describe interaction and explain how interaction influences sense of community of students in online learning environments. The findings reveal differences on sense of community between two similarly structured online courses, and show unique interaction patterns for students in…

  19. A Comparative Analysis of Community Detection Algorithms on Artificial Networks

    CERN Document Server

    Yang, Zhao; Tessone, Claudio Juan

    2016-01-01

    Many community detection algorithms have been developed to uncover the mesoscopic properties of complex networks. However how good an algorithm is, in terms of accuracy and computing time, remains still open. Testing algorithms on real-world network has certain restrictions which made their insights potentially biased: the networks are usually small, and the underlying communities are not defined objectively. In this study, we employ the Lancichinetti-Fortunato-Radicchi benchmark graph to test eight state-of-the-art algorithms. We quantify the accuracy using complementary measures and algorithms' computing time. Based on simple network properties and the aforementioned results, we provide guidelines that help to choose the most adequate community detection algorithm for a given network. Moreover, these rules allow uncovering limitations in the use of specific algorithms given macroscopic network properties. Our contribution is threefold: firstly, we provide actual techniques to determine which is the most sui...

  20. Analysis of Computer Science Communities Based on DBLP

    CERN Document Server

    Biryukov, Maria; 10.1007/978-3-642-15464-5_24

    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 use these features to compare the sets of topranked conferences with their lower ranked counterparts.

  1. Conceptualizing age-friendly community characteristics in a sample of urban elders: an exploratory factor analysis.

    Science.gov (United States)

    Smith, Richard J; Lehning, Amanda J; Dunkle, Ruth E

    2013-01-01

    Accurate conceptualization and measurement of age-friendly community characteristics would help to reduce barriers to documenting the effects on elders of interventions to create such communities. This article contributes to the measurement of age-friendly communities through an exploratory factor analysis of items reflecting an existing US Environmental Protection Agency policy framework. From a sample of urban elders (n = 1,376), we identified 6 factors associated with demographic and health characteristics: access to business and leisure, social interaction, access to health care, neighborhood problems, social support, and community engagement. Future research should explore the effects of these factors across contexts and populations.

  2. Data analysis in community and landscape ecology. 2nd Edition.

    NARCIS (Netherlands)

    Jongman, R.H.G.; Braak, ter C.J.F.; Tongeren, van O.F.R.

    1995-01-01

    Ecologists need to analyze their field data to interpret relationships within plant and animal communities and with their environments. The purpose of this book is to show ecologists and environmental scientists what numerical and statistical methods are most useful, how to use them and interpret th

  3. 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…

  4. A Learning Community's Potential Academic Impact: A Qualitative Analysis

    Science.gov (United States)

    Firmin, Michael W.; Warner, Susan C.; Rose, Stephanie Firebaugh; Johnson, Courtney B.; Firmin, Ruth L.

    2012-01-01

    Learning Communities (LC) in higher education can serve as powerful connectors among individuals, particularly when integrating minority and White students. We conducted 24 in-depth interviews, using qualitative research methodology, with the 2004 cohort of LC students from a private, selective, Midwest university. Seniors at the time of…

  5. Community College Mission Influence on Culture: An Organizational Analysis

    Science.gov (United States)

    Stephens, E. Gerome

    2013-01-01

    Strong agreement of mission and culture has been found in more effective colleges (Fjortoft & Smart, 1994). For leaders, the culture of an organization provides the context for which decisions about organizational change processes can be made (Malm, 2008). The purpose of this study was to explore the culture present within a community college…

  6. AN ANALYSIS OF PHARMACY SERVICES BY PHARMACIST IN COMMUNITY PHARMACY

    Directory of Open Access Journals (Sweden)

    Max Joseph Herman

    2013-03-01

    Full Text Available ABSTRACT Background: Up to now there are more than 60 schools of pharmacy with a variety of accreditation level in lndonesia. Previous study found that the standard of pharmaceutical services at various service facilities (hospitals, primary health care and community pharmacy can not be fully implemented because of the limited competency of pharmacist. This study was conducted to identify the qualification of pharmacist who delivers services in community pharmacy in compliance with the Indonesian Health Law No. 36 of 2009. As mandated in the Health Law No. 36 of 2009, the government is obliged to establish minimum requirements that must be possessed. Methods: This cross sectional study was conducted in 2010 at 2 community pharmacies in each of 3 cities, i.e. Bandung, DI Yogyakarta and Surabaya. Other than ten pharmacists delivering services in community pharmacies, there were pharmacists as informants from 4 institutions in each city selected, i.e. six pharmacists from two Schools of Pharmacy, three pharmacists from three Regional Indonesian Pharmacists Association,six pharmacists from three District Health Offices and three Provincial Health Offices. Primary data collection through in-depth interviews and observation as well as secondary data collection concerning standard operating procedures, monitoring documentation and academic curricula has been used. Descriptive data were analysed qualitatively Results: The findings indicate that pharmacists' qualification to deliver services in a community pharmacy in accordance with the Government Regulation No. 51 of 2009, Standards of Pharmacy Services in Community Pharmacy and Good Pharmaceutical Practices (GPP was varied. Most pharmacists have already understood their roles in pharmacy service, but to practice it in accordance with the standards or guidelines they are still having problems. It is also acknowledged by pharmacists in other institutions, including School of Pharmacy, Regional

  7. 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 (microbial life. Total DNA was extracted from the basalt glass and screened for the presence of both bacteria and archaea using the PCR. Repeated attempts with different primer sets yielded no bacterial 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

  8. Using Analysis of Governance to Unpack Community-Based Conservation: A Case Study from Tanzania.

    Science.gov (United States)

    Robinson, Lance W; Makupa, Enock

    2015-11-01

    Community-based conservation policies and programs are often hollow with little real devolution. But to pass a judgment of community-based or not community-based on such initiatives and programs obscures what is actually a suite of attributes. In this paper, we analyze governance around a specific case of what is nominally community-based conservation-Ikona Wildlife Management Area (WMA) in Tanzania-using two complementary sets of criteria. The first relates to governance "powers": planning powers, regulatory powers, spending powers, revenue-generating powers, and the power to enter into agreements. The second set of criteria derive from the understanding of governance as a set of social functions: social coordination, shaping power, setting direction, and building community. The analysis helps to detail ways in which the Tanzanian state through policy and regulations has constrained the potential for Ikona WMA to empower communities and community actors. Although it has some features of community-based conservation, community input into how the governance social functions would be carried out in the WMA was constrained from the start and is now largely out of community hands. The two governance powers that have any significant community-based flavor-spending powers and revenue-generating powers-relate to the WMA's tourism activities, but even here the picture is equivocal at best. The unpacking of governance that we have done, however, reveals that community empowerment through the processes associated with creating and recognizing indigenous and community-conserved areas is something that can be pursued through multiple channels, some of which might be more strategic than others.

  9. Using Analysis of Governance to Unpack Community-Based Conservation: A Case Study from Tanzania

    Science.gov (United States)

    Robinson, Lance W.; Makupa, Enock

    2015-11-01

    Community-based conservation policies and programs are often hollow with little real devolution. But to pass a judgment of community-based or not community-based on such initiatives and programs obscures what is actually a suite of attributes. In this paper, we analyze governance around a specific case of what is nominally community-based conservation—Ikona Wildlife Management Area (WMA) in Tanzania—using two complementary sets of criteria. The first relates to governance "powers": planning powers, regulatory powers, spending powers, revenue-generating powers, and the power to enter into agreements. The second set of criteria derive from the understanding of governance as a set of social functions: social coordination, shaping power, setting direction, and building community. The analysis helps to detail ways in which the Tanzanian state through policy and regulations has constrained the potential for Ikona WMA to empower communities and community actors. Although it has some features of community-based conservation, community input into how the governance social functions would be carried out in the WMA was constrained from the start and is now largely out of community hands. The two governance powers that have any significant community-based flavor—spending powers and revenue-generating powers—relate to the WMA's tourism activities, but even here the picture is equivocal at best. The unpacking of governance that we have done, however, reveals that community empowerment through the processes associated with creating and recognizing indigenous and community-conserved areas is something that can be pursued through multiple channels, some of which might be more strategic than others.

  10. 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...

  11. Promoting law enforcement for child protection: a community analysis.

    OpenAIRE

    Lavelle, J M; Hovell, M F; West, M P; Wahlgren, D. R.

    1992-01-01

    The Colorado Occupant Protection Project (COPP) intervention provided police with brief instruction concerning the importance of citations for drivers' failure to use child safety seats and special coupons to accompany citations. Coupons were exchangeable by drivers for a safety seat and brief training in its use, plus a waiver of the $50 citation fine. Over 4.5 years of archival records were employed, using an ABA design and a comparison community to evaluate the program. Few tickets were is...

  12. A Comparative Analysis of Community Detection Algorithms on Artificial Networks

    Science.gov (United States)

    Yang, Zhao; Algesheimer, René; Tessone, Claudio J.

    2016-08-01

    Many community detection algorithms have been developed to uncover the mesoscopic properties of complex networks. However how good an algorithm is, in terms of accuracy and computing time, remains still open. Testing algorithms on real-world network has certain restrictions which made their insights potentially biased: the networks are usually small, and the underlying communities are not defined objectively. In this study, we employ the Lancichinetti-Fortunato-Radicchi benchmark graph to test eight state-of-the-art algorithms. We quantify the accuracy using complementary measures and algorithms’ computing time. Based on simple network properties and the aforementioned results, we provide guidelines that help to choose the most adequate community detection algorithm for a given network. Moreover, these rules allow uncovering limitations in the use of specific algorithms given macroscopic network properties. Our contribution is threefold: firstly, we provide actual techniques to determine which is the most suited algorithm in most circumstances based on observable properties of the network under consideration. Secondly, we use the mixing parameter as an easily measurable indicator of finding the ranges of reliability of the different algorithms. Finally, we study the dependency with network size focusing on both the algorithm’s predicting power and the effective computing time.

  13. A Comparative Analysis of Community Detection Algorithms on Artificial Networks

    Science.gov (United States)

    Yang, Zhao; Algesheimer, René; Tessone, Claudio J.

    2016-01-01

    Many community detection algorithms have been developed to uncover the mesoscopic properties of complex networks. However how good an algorithm is, in terms of accuracy and computing time, remains still open. Testing algorithms on real-world network has certain restrictions which made their insights potentially biased: the networks are usually small, and the underlying communities are not defined objectively. In this study, we employ the Lancichinetti-Fortunato-Radicchi benchmark graph to test eight state-of-the-art algorithms. We quantify the accuracy using complementary measures and algorithms’ computing time. Based on simple network properties and the aforementioned results, we provide guidelines that help to choose the most adequate community detection algorithm for a given network. Moreover, these rules allow uncovering limitations in the use of specific algorithms given macroscopic network properties. Our contribution is threefold: firstly, we provide actual techniques to determine which is the most suited algorithm in most circumstances based on observable properties of the network under consideration. Secondly, we use the mixing parameter as an easily measurable indicator of finding the ranges of reliability of the different algorithms. Finally, we study the dependency with network size focusing on both the algorithm’s predicting power and the effective computing time. PMID:27476470

  14. Microbial Community Analysis of the Costa Rica Margin from a Metagenomic Perspective

    Science.gov (United States)

    Leon Zayas, R. I.; Martino, A. J.; House, C. H.; Biddle, J.

    2015-12-01

    The taxonomic distribution and metabolic capabilities of microbial communities in the subseafloor are poorly understood. In this study we aimed to analyze the microbial community of samples obtained from the Costa Rica margin in two different sites, one where three samples were collected at 2 meters below the sea floor (mbsf), 33 mbsf and 93 mbsf, and another from 22 mbsf to 45 mbsf. Whole community analysis of conserved gene markers show that the microbial community varies with depth, in composition as well as in average genome size. Genome sizes do not increase with depth and metabolic strategies change with streamlined functions at depth. Specific metabolic processes are found to be performed by distinct members of the microbial community. Changes within the microbial populations related to depth, age and geochemistry are able to be investigated.

  15. Microbial community analysis of anaerobic reactors treating soft drink wastewater.

    Directory of Open Access Journals (Sweden)

    Takashi Narihiro

    Full Text Available The anaerobic packed-bed (AP and hybrid packed-bed (HP reactors containing methanogenic microbial consortia were applied to treat synthetic soft drink wastewater, which contains polyethylene glycol (PEG and fructose as the primary constituents. The AP and HP reactors achieved high COD removal efficiency (>95% after 80 and 33 days of the operation, respectively, and operated stably over 2 years. 16S rRNA gene pyrotag analyses on a total of 25 biofilm samples generated 98,057 reads, which were clustered into 2,882 operational taxonomic units (OTUs. Both AP and HP communities were predominated by Bacteroidetes, Chloroflexi, Firmicutes, and candidate phylum KSB3 that may degrade organic compound in wastewater treatment processes. Other OTUs related to uncharacterized Geobacter and Spirochaetes clades and candidate phylum GN04 were also detected at high abundance; however, their relationship to wastewater treatment has remained unclear. In particular, KSB3, GN04, Bacteroidetes, and Chloroflexi are consistently associated with the organic loading rate (OLR increase to 1.5 g COD/L-d. Interestingly, KSB3 and GN04 dramatically decrease in both reactors after further OLR increase to 2.0 g COD/L-d. These results indicate that OLR strongly influences microbial community composition. This suggests that specific uncultivated taxa may take central roles in COD removal from soft drink wastewater depending on OLR.

  16. Is the contribution of community forest users financially efficient? A household level benefit-cost analysis of community forest management in Nepal

    Directory of Open Access Journals (Sweden)

    Rajesh Kumar Rai

    2016-02-01

    Full Text Available Community forestry in Nepal is considered an exemplary forest management regime. However, the economics behind managing a community forest is not fully studied. This study examines whether the benefits generated from community forest management justify the contributions of forest users. The study is based on a survey of community forest users in Chitwan, Nepal. A household level benefit-cost analysis was performed to quantify and compare the costs and benefits from community forest management. Only direct benefits were included in the analysis. The study shows that older forest user groups derive more benefits to households compared to more recently established ones. The extent of timber harvesting also substantially influences the size of the household benefits. In addition, redistribution of benefits at the household level, in terms of income generating activities and payment for involvement in forest management activities, also enhances household benefits. Sensitivity analysis suggests that the current practice of community forest management enhances the welfare of rural households in this subsistence community. However, this finding is sensitive to assumptions regarding the opportunity cost of time. The study also found that the household costs of community forest management depend upon two factors – the area of community forest and the size of the forest area relative to the number of households.

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

    DEFF Research Database (Denmark)

    Hjelmsø, Mathis Hjort; Hansen, Lars Hestbjerg; Bælum, Jacob;

    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-r...

  18. Game Theoretical Analysis on Cooperation Stability and Incentive Effectiveness in Community Networks.

    Directory of Open Access Journals (Sweden)

    Kaida Song

    Full Text Available Community networks, the distinguishing feature of which is membership admittance, appear on P2P networks, social networks, and conventional Web networks. Joining the network costs money, time or network bandwidth, but the individuals get access to special resources owned by the community in return. The prosperity and stability of the community are determined by both the policy of admittance and the attraction of the privileges gained by joining. However, some misbehaving users can get the dedicated resources with some illicit and low-cost approaches, which introduce instability into the community, a phenomenon that will destroy the membership policy. In this paper, we analyze on the stability using game theory on such a phenomenon. We propose a game-theoretical model of stability analysis in community networks and provide conditions for a stable community. We then extend the model to analyze the effectiveness of different incentive policies, which could be used when the community cannot maintain its members in certain situations. Then we verify those models through a simulation. Finally, we discuss several ways to promote community network's stability by adjusting the network's properties and give some proposal on the designs of these types of networks from the points of game theory and stability.

  19. Bioconductor workflow for microbiome data analysis: from raw reads to community analyses

    OpenAIRE

    Callahan, Ben J.; Sankaran, Kris; Fukuyama, Julia A.; McMurdie, Paul J.; Holmes, Susan P; Garud, Nandita R.; Charlop-Powers, Zachary; Lahti, Leo

    2016-01-01

    High-throughput sequencing of PCR-amplified taxonomic markers (like the 16S rRNA gene) has enabled a new level of analysis of complex bacterial communities known as microbiomes. Many tools exist to quantify and compare abundance levels or microbial composition of communities in different conditions. The sequencing reads have to be denoised and assigned to the closest taxa from a reference database. Common approaches use a notion of 97% similarity and normalize the data by subsampling to equal...

  20. Economic Analysis of Cost-Effectiveness of Community Engagement to Improve Health

    OpenAIRE

    Andrew Street; Roy Carr-Hill

    2008-01-01

    Liberty of association is one of the building blocks of a democratic society, and presumes that community engagement in a democratic society is universally a good thing. This presumption is not subject to economic analysis, but the issue considered here is whether community engagement is a better vehicle for improving the community’s health than another approach. The problems of applying the standard framework of economic evaluation to consider this issue include: multiple perspectives and ti...

  1. Exploring the Implications of Community Mural Arts: A Case Analysis of a 'Groundswell' Mural Project

    OpenAIRE

    Pontious, Jacquelyn Rae

    2014-01-01

    Groundswell, a New York-based nonprofit community arts organization, creates high quality public art with youth and artists throughout the five boroughs of the City. This study examines how the nonprofit utilizes mural making, a potentially democratic art form, to provide opportunities for individual and collective impact. I undertook key informant interviews and documents analysis to explore the complex model the nonprofit employs to create a collaborative and community-based art process fo...

  2. Analysis of prescriptions dispensed at community pharmacies in Nablus, Palestine.

    Science.gov (United States)

    Sawalha, A F; Sweileh, W M; Zyoud, S H; Al-Jabi, S W; Shamseh, F F Bni; Odah, A

    2010-07-01

    We investigated the prescription quality and prescribing trends of private clinicians in Nablus governorate, Palestine. A total of 363 prescriptions were collected from a random sample of 36 community pharmacies over a study period of 288 working hours. Data regarding elements in the prescription and the types of drugs prescribed were analysed. Physician-related variables were mostly noted, however, patient's address and weight were absent in all prescriptions and less than half included age and sex. Information regarding strength of the medications prescribed was missing in over 70% of prescriptions. Other drug-related variables like frequency and instruction of use were present in over 80% of prescriptions. Antimicrobial agents were the most commonly prescribed followed by NSAIDs/analgesics. Amoxicillin alone or in combination was the most commonly prescribed antimicrobial agents followed by cefuroxime. Prescription writing quality in Nablus is deficient in certain aspects and improvement is required. PMID:20799538

  3. Development and application of functional gene arrays for microbial community analysis

    Institute of Scientific and Technical Information of China (English)

    Z.L.HE; J.D.VAN NOSTRAND; L.Y.WU; J.Z.ZHOU

    2008-01-01

    Functional gene markers can provide important information about functional gene diversity and potential activity of microbial communities.Although microarray technology has been successfully applied to study gene expression for pure cultures,simple,and artificial microbial communities,adapting such a technology to analyze complex microbial communities still presents a lot of challenges in terms of design,sample preparation,and data analysis.This work is focused on the development and application of functional gene arrays (FGAs) to target key functional gene markers for microbial community studies.A few key issues specifically related to FGAs,such as oligonucleotide probe design,nucleic acid extraction and purification,data analysis,specificity,sensitivity,and quantitative capability are discussed in detail.Recent studies have demonstrated that FGAs can provide specific,sensitive,and potentially quantitative information about microbial communities from a variety of natural environments and controlled ecosystems.This technology is expected to revolutionize the analysis of microbial communities,and link microbial structure to ecosystem functioning.

  4. 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…

  5. 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. ...

  6. 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.

  7. 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...

  8. Sample Preparation for Fungal Community Analysis by High-Throughput Sequencing of Barcode Amplicons.

    Science.gov (United States)

    Clemmensen, Karina Engelbrecht; Ihrmark, Katarina; Durling, Mikael Brandström; Lindahl, Björn D

    2016-01-01

    Fungal species participate in vast numbers of processes in the landscape around us. However, their often cryptic growth, inside various substrates and in highly diverse species assemblages, has been a major obstacle to thorough analysis of fungal communities, hampering exhaustive description of the fungal kingdom. Recent technological developments allowing rapid, high-throughput sequencing of mixed communities from many samples at once are currently having a tremendous impact in fungal community ecology. Universal DNA extraction followed by amplification and sequencing of fungal species-level barcodes such as the nuclear internal transcribed spacer (ITS) region now enable identification and relative quantification of fungal community members across well-replicated experimental settings. Here, we present the sample preparation procedure presently used in our laboratory for fungal community analysis by high-throughput sequencing of amplified ITS2 markers. We focus on the procedure optimized for studies of total fungal communities in humus-rich soils, wood, and litter. However, this procedure can be applied to other sample types and markers. We focus on the laboratory-based part of sample preparation, that is, the procedure from the point where samples enter the laboratory until amplicons are submitted for sequencing. Our procedure comprises four main parts: (1) universal DNA extraction, (2) optimization of PCR conditions, (3) production of tagged ITS amplicons, and (4) preparation of the multiplexed amplicon mix to be sequenced. The presented procedure is independent of the specific high-throughput sequencing technology used, which makes it highly versatile. PMID:26791497

  9. 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.

  10. Quantitative Analysis on Economic Contribution of Community Health Service in China

    Institute of Scientific and Technical Information of China (English)

    张新平; 王铁军

    2004-01-01

    Summary: In China, the implementation of community health service shows that the prevention is an essential and important part of our national health system and is helpful to decrease the medical expenditure gradually. According to the data from Health Statistic Information Center of Ministry of Health in China, we calculated that the total health expenditure of China would be decreased 8000. 0 million yuan only in 2001, among which, 1188.3 million, 1953.9 million and 4833.0 million yuan were respectively saved for the government budget, the society and resident if implementing the policy of community health service powerfully. And every outpatient can save 15.46 yuan per time. By the quantitative analysis on the economic contribution of community health service, it can be proved that a great economic benefit could be gotten from the implementation of community health service.

  11. Analysis Grid for Environments Linked to Obesity (ANGELO) framework to develop community-driven health programmes in an Indigenous community in Canada.

    Science.gov (United States)

    Willows, Noreen; Dyck Fehderau, David; Raine, Kim D

    2016-09-01

    Indigenous First Nations people in Canada have high chronic disease morbidity resulting in part from enduring social inequities and colonialism. Obesity prevention strategies developed by and for First Nations people are crucial to improving the health status of this group. The research objective was to develop community-relevant strategies to address childhood obesity in a First Nations community. Strategies were derived from an action-based workshop based on the Analysis Grid for Environments Linked to Obesity (ANGELO) framework. Thirteen community members with wide-ranging community representation took part in the workshop. They combined personal knowledge and experience with community-specific and national research to dissect the broad array of environmental factors that influenced childhood obesity in their community. They then developed community-specific action plans focusing on healthy eating and physical activity for children and their families. Actions included increasing awareness of children's health issues among the local population and community leadership, promoting nutrition and physical activity at school, and improving recreation opportunities. Strengthening children's connection to their culture was considered paramount to improving their well-being; thus, workshop participants developed programmes that included elders as teachers and reinforced families' acquaintance with First Nations foods and activities. The research demonstrated that the ANGELO framework is a participatory way to develop community-driven health programmes. It also demonstrated that First Nations people involved in the creation of solutions to health issues in their communities may focus on decolonising approaches such as strengthening their connection to indigenous culture and traditions. External funds were not available to implement programmes and there was no formal follow-up to determine if community members implemented programmes. Future research needs to examine the

  12. Metagenomic analysis provides insights into functional capacity in a hyperarid desert soil niche community.

    Science.gov (United States)

    Vikram, Surendra; Guerrero, Leandro D; Makhalanyane, Thulani P; Le, Phuong T; Seely, Mary; Cowan, Don A

    2016-06-01

    In hyperarid ecosystems, macroscopic communities are often restricted to cryptic niches, such as hypoliths (microbial communities found beneath translucent rocks), which are widely distributed in hyperarid desert environments. While hypolithic communities are considered to play a major role in productivity, the functional guilds implicated in these processes remain unclear. Here, we describe the metagenomic sequencing, assembly and analysis of hypolithic microbial communities from the Namib Desert. Taxonomic analyses using Small Subunit phylogenetic markers showed that bacterial phylotypes (93%) dominated the communities, with relatively small proportions of archaea (0.43%) and fungi (5.6%). Refseq-viral database analysis showed the presence of double stranded DNA viruses (7.8% contigs), dominated by Caudovirales (59.2%). Analysis of functional genes and metabolic pathways revealed that cyanobacteria were primarily responsible for photosynthesis with the presence of multiple copies of genes for both photosystems I and II, with a smaller but significant fraction of proteobacterial anoxic photosystem II genes. Hypolithons demonstrated an extensive genetic capacity for the degradation of phosphonates and mineralization of organic sulphur. Surprisingly, we were unable to show the presence of genes representative of complete nitrogen cycles. Taken together, our analyses suggest an extensive capacity for carbon, phosphate and sulphate cycling but only limited nitrogen biogeochemistry. PMID:26470632

  13. [Analysis of Prokaryotic Community Structure in River Waters of the Ningbo Sanjiang Mouth].

    Science.gov (United States)

    Hu, An-yi; Li, Jiang-wei; Yang, Xiao-yong; Wang, Hong-jie; Yu, Chang-ping

    2015-07-01

    The prokaryotic community structure in river waters of the Ningbo Sanjiang Mouth was analyzed for the first time using 16S rRNA gene based-Illumina Miseq high-throughput sequencing. A total of 215 504 high-quality sequences were obtained, and the results of alpha-diversity analysis revealed that Yongjiang River Watershed (YRW) harbored high diversity and richness of prokaryotic communities. Taxonomic assignment analysis indicated that β-Proteobacterium, Actinobacteria and Bacteroidetes dominated in the river water of YRW, and accounted for 78. 88% of the total prokaryotic communities. Hydrological condition may play an important role in influencing the composition and structure of YRW prokaryotic community. In addition, several kinds of sewer- and fecal-pollution indicator bacterial groups were observed in this area with the highest abundance of pollution indicator bacteria occurring in the water sample of Yuyao River, implying that the Yuyao River might have a high potential risk of sewer- and fecal-pollution. Moreover, a total of 76 species and 18 subspecies of potential pathogenic bacteria, which accounted for 2. 19% and 0. 40% of total sequences respectively, were identified using BLASTN analysis with a local pathogenic bacteria database. Overall, this study provided an important basic data for shedding light on the structure and ecological function of YRW prokaryotic community. PMID:26489316

  14. Investigating student communities with network analysis of interactions in a physics learning center

    Science.gov (United States)

    Brewe, Eric; Kramer, Laird; Sawtelle, Vashti

    2012-06-01

    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. 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 that contribute to participation in the learning community. Results of the sequential multiple regression indicate that the PLC learning community is an equitable environment as we find that gender and ethnicity are not significant predictors of participation in the PLC. We find that providing students space for collaboration provides a vital element in the formation of a supportive learning community.

  15. 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 (similaritymetagenomic 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.

  16. Comparative analysis of model assessment in community detection

    CERN Document Server

    Kawamoto, Tatsuro

    2016-01-01

    Bayesian cluster inference with a flexible generative model allows us to detect various types of structures. However, it has problems stemming from computational complexity and difficulties in model assessment. We consider the stochastic block model with restricted hyperparameter space, which is known to correspond to modularity maximization. We show that it not only reduces computational complexity, but is also beneficial for model assessment. Using various criteria, we conduct a comparative analysis of the model assessments, and analyze whether each criterion tends to overfit or underfit. We also show that the learning of hyperparameters leads to qualitative differences in Bethe free energy and cross-validation errors.

  17. Analysis of the attempt to establish a community currency into a Scottish Neighbourhood; focusing on community participation and engagement

    OpenAIRE

    McLoughlin, James

    2012-01-01

    The Transition Town Movement is a grassroots, community development movement which emerged in the UK and which aims to make communities more sustainable, stronger and more resilient in the face of environmental, economic and social problems we currently face. One initiative which has been adopted by the Transition Town Movement is community currencies; a broad term for a currency that operates within defined boundary (such as a community), alongside national currency and which facilitates th...

  18. A Discourse Analysis of Collaboration between Academic and Student Affairs in Community Colleges

    Science.gov (United States)

    Gulley, Needham Yancey

    2016-01-01

    The purpose of this study was to understand the nature of collaboration between academic affairs and student affairs units in the community college context from a qualitative perspective. A discourse analysis study was conducted to explore the ways in which collaborative practice was discussed and understood by chief and midlevel academic and…

  19. A Social Network Analysis of Teaching and Research Collaboration in a Teachers' Virtual Learning Community

    Science.gov (United States)

    Lin, Xiaofan; Hu, Xiaoyong; Hu, Qintai; Liu, Zhichun

    2016-01-01

    Analysing the structure of a social network can help us understand the key factors influencing interaction and collaboration in a virtual learning community (VLC). Here, we describe the mechanisms used in social network analysis (SNA) to analyse the social network structure of a VLC for teachers and discuss the relationship between face-to-face…

  20. Critical Social Network Analysis in Community Colleges: Peer Effects and Credit Attainment

    Science.gov (United States)

    González Canché, Manuel S.; Rios-Aguilar, Cecilia

    2014-01-01

    This chapter discusses the importance of conducting critical social network analysis (CSNA) in higher education. To illustrate the benefits of CSNA, the authors use existing institutional data to examine peer effects in community colleges. The chapter ends with a discussion of the implications of using a CSNA approach to measure inequities in…

  1. Chapter 2: Predicting Newcomer Integration in Online Knowledge Communities by Automated Dialog Analysis

    NARCIS (Netherlands)

    Nistor, Nicolae; Dascalu, Mihai; Stavarache, Lucia; Tarnai, Christian; Trausan-Matu, Stefan

    2016-01-01

    Nistor, N., Dascalu, M., Stavarache, L.L., Tarnai, C., & Trausan-Matu, S. (2015). Predicting Newcomer Integration in Online Knowledge Communities by Automated Dialog Analysis. In Y. Li, M. Chang, M. Kravcik, E. Popescu, R. Huang, Kinshuk & N.-S. Chen (Eds.), State-of-the-Art and Future Directions of

  2. The Northwest Indiana Center for Data and Analysis: A Case Study of Academic Library Community Engagement

    Science.gov (United States)

    Sandberg, Scott; Morris, Cele; Sutherland, Timothy

    2013-01-01

    This paper details community engagement activity of an academic library coordinated within a broader university strategic plan. The Anderson Library at Indiana University Northwest (IU-Northwest) supports a service called the Northwest Indiana Center for Data and Analysis. Created in 1996 with funding made available from the Indiana University…

  3. Metagenomic analysis of fungal communities inhabiting the fairy ring zone of Tricholoma matsutake.

    Science.gov (United States)

    Kim, Miae; Yoon, Hyeokjun; You, Young-Hyun; Kim, Ye-Eun; Woo, Ju-Ri; Seo, Yeonggyo; Lee, Gyeong-Min; Kim, Young Ja; Kong, Won-Sik; Kim, Jong-Guk

    2013-10-28

    Tricholoma matsutake, an ectomycorrhiza that has mutual relationships with the rootlet of Pinus denisflora, forms a fruiting body that serves as a valuable food in Asia. However, the artificial culture of this fungus has not been successful. Soil fungi, including T. matsutake, coexist with many other microorganisms and plants; therefore, complex microbial communities have an influence on the fruiting body formation of T. matsutake. Here, we report on the structures of fungal communities associated with the fairy ring of T. matsutake through the pyrosequencing method. Soil samples were collected inside the fairy ring zone, in the fairy ring zone, and outside the fairy ring zone. A total of 37,125 sequencing reads were obtained and 728 to 1,962 operational taxonomic units (OTUs) were observed in the sampling zones. The fairy ring zone had the lowest OTUs and the lowest fungal diversity of all sampling zones. The number of OTUs and fungal taxa inside and outside the fairy ring zone was, respectively, about 2 times and 1.5 times higher than the fairy ring. Taxonomic analysis showed that each sampling zone has different fungal communities. In particular, out of 209 genera total, 6 genera in the fairy ring zone, such as Hemimycena, were uniquely present and 31 genera, such as Mycena, Boletopsis, and Repetophragma, were specifically absent. The results of metagenomic analysis based on the pyrosequencing indicate a decrease of fungal communities in the fairy ring zone and changes of fungal communities depending on the fairy ring growth of T. matsutake.

  4. Metagenomic analysis of the turkey gut RNA virus community

    Directory of Open Access Journals (Sweden)

    Scheffler Brian E

    2010-11-01

    Full Text Available Abstract Viral enteric disease is an ongoing economic burden to poultry producers worldwide, and despite considerable research, no single virus has emerged as a likely causative agent and target for prevention and control efforts. Historically, electron microscopy has been used to identify suspect viruses, with many small, round viruses eluding classification based solely on morphology. National and regional surveys using molecular diagnostics have revealed that suspect viruses continuously circulate in United States poultry, with many viruses appearing concomitantly and in healthy birds. High-throughput nucleic acid pyrosequencing is a powerful diagnostic technology capable of determining the full genomic repertoire present in a complex environmental sample. We utilized the Roche/454 Life Sciences GS-FLX platform to compile an RNA virus metagenome from turkey flocks experiencing enteric disease. This approach yielded numerous sequences homologous to viruses in the BLAST nr protein database, many of which have not been described in turkeys. Our analysis of this turkey gut RNA metagenome focuses in particular on the turkey-origin members of the Picornavirales, the Caliciviridae, and the turkey Picobirnaviruses.

  5. Metagenomic Analysis of Bacterial Communities of Antarctic Surface Snow

    Directory of Open Access Journals (Sweden)

    Anna eLopatina

    2016-03-01

    Full Text Available The diversity of bacteria present in surface snow around four Russian stations in Eastern Antarctica was studied by high throughput sequencing of amplified 16S rRNA gene fragments and shotgun metagenomic sequencing. Considerable class- and genus-level variation between the samples was revealed indicating a presence of inter-site diversity of bacteria in Antarctic snow. Flavobacterium was a major genus in one sampling site and was also detected in other sites. The diversity of flavobacterial type II-C CRISPR spacers in the samples was investigated by metagenome sequencing. Thousands of unique spacers were revealed with less than 35% overlap between the sampling sites, indicating an enormous natural variety of flavobacterial CRISPR spacers and, by extension, high level of adaptive activity of the corresponding CRISPR-Cas system. None of the spacers matched known spacers of flavobacterial isolates from the Northern hemisphere. Moreover, the percentage of spacers with matches with Antarctic metagenomic sequences obtained in this work was significantly higher than with sequences from much larger publically available environmental metagenomic database. The results indicate that despite the overall very high level of diversity, Antarctic Flavobacteria comprise a separate pool that experiences pressures from mobile genetic elements different from those present in other parts of the world. The results also establish analysis of metagenomic CRISPR spacer content as a powerful tool to study bacterial populations diversity.

  6. 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

  7. 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.

  8. [Prophylaxis of Community-Acquired Pneumonia Outbreaks with Pneumococcal Polysaccharide Vaccine. Prospects Analysis for Russian Military Community].

    Science.gov (United States)

    Guchev, I A; Klochkov, O I; Sinopalnikov, A I

    2016-01-01

    Pneumococcal pneumonia and other diseases caused by pneumococci still remain the main factors of high morbidity and mortality rates throughout the world. Pneumococci as the leading pathogens of community-acquired pneumonia (CAP), acute otitis media and sinusitis also cause a number of other serious systemic disorders including invasive infections with high mortality in spite of the antimicrobial resistance status and adequate antimicrobials choice. Pneumococcal infections are responsible for 5-35% or more of community-acquired pneumonias. The burden of pneumonia (up to 100-200 per thousand) is recorded among military recruits in training centers. Since the specific environment of the soldiers could be carrected, their health protection requires medical surveillance. For these reasons, polysaccharide and more immunogenic conjugated pneumococcal vaccines were developed. There is now an urgent need to understand whether such vaccines are effective in military conscripts. Controversy about the effectiveness and value of the polysaccharide (PPV-23) vaccine as a CAP morbidity restriction measure still persists. There were implemented plenty of metaanalyses of pneumococcal vaccines in adults. Some of them showed that the vaccine was effective against bacteremic pneumococcal pneumonia in 'low risk' healthy adults and elders. There have been a number of poor quality observational studies in Russia where 'all pneumonia cases' were considered as an endpoint. It remains controversial whether these observational studies provide adequate evidence to justify the use of the polysaccharide vaccine in the groups of healthy young men for whom it is being advocated. In our analysis we found weak evidence supporting pneumococcal vaccination with PPV-23 for this group. Nevertheless, favorable tendency was found to immunize. It is the reason for a trail to find pharmacoepidemiological support for vaccination by novel conjugated vaccines with better immunogenicity. PMID:27337866

  9. [Molecular analysis of the microbial communities of the Dagang Kongdian flooding bed oilfield].

    Science.gov (United States)

    She, Yue-hui; Zhang, Xue-li; Zhang, Fan; Wang, Ling-hua; Zhao, Li-ping

    2005-06-01

    Both PCR-TGGE (temperature gradient gel electrophoresis, TGGE) and 16S rRNA gene clone library construction were used to comparatively analyze the microbial communities of a water injection well (WW) and an oil well (OW) in Dagang oilfield. TGGE analysis of the PCR amplified 16S rDNA V3 region products showed great difference between these two microbial communities. Six major bands were detected in the TGGE profile of the WW sample, while only one predominant band in the OW sample was found. Two 16S rRNA gene clone libraries were also constructed, and 108 and 50 clones were selected from the WW and OW library respectively for amplified ribosomal DNA restriction analysis (ARDRA). 33 taxanomic operational units (OTUs) were found in the WW library with 6 major OTUs, while only 8 OTUs were found in the OW library with one OTU predominant. The results of TGGE and clone library profiling analysis both indicated that microbial community of the WW had higher diversity than the OW. Sequence analysis of the representative clone of each OTU showed that most bacteria of the WW were affiliated with alpha, beta, and gamma Proteobacteria and Actinobacteria, especially Rhodobacter (47%). Most bacteria of the OW were affiliated with alpha, beta, and gamma Proteobacteria, especially Pseudomonas (62%). Molecular analysis of the microbial diversity in oilfield provides foundation for better application of MEOR (Microbial Enhanced Oil Recovery). PMID:15989220

  10. 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.

  11. 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.

  12. Analysis of microbial community structure and composition in leachates from a young landfill by 454 pyrosequencing.

    Science.gov (United States)

    Köchling, Thorsten; Sanz, José Luis; Gavazza, Sávia; Florencio, Lourdinha

    2015-07-01

    Microorganisms are responsible for degrading the raw leachate generated in sanitary landfills, extracting the soluble fraction of the landfill waste and biotransforming organic matter and toxic residues. To increase our understanding of these highly contaminated ecosystems, we analyzed the microbial communities in the leachate produced by three landfill cells of different ages. Using high-throughput 454 pyrosequencing of the 16S rRNA gene, we describe the structure of the leachate communities and present their compositional characteristics. All three communities exhibited a high level of abundance but were undersampled, as indicated by the results of the rarefaction analysis. The distribution of the taxonomic operational units (OTUs) was highly skewed, suggesting a community structure with a few dominant members that are key for the degradation process and numerous rare microorganisms, which could act as a resilient microorganism seeder pool. Members of the phylum Firmicutes were dominant in all of the samples, accounting for up to 62% of the bacterial sequences, and their proportion increased with increasing landfill age. Other abundant phyla included Bacteroidetes, Proteobacteria, and Spirochaetes, which together with Firmicutes comprised 90% of the sequences. The data illustrate a microbial community that degrades organic matter in raw leachate in the early stages, before the methanogenic phase takes place. The genera found fit well into the classical pathways of anaerobic digestion processes. PMID:25652654

  13. An Analysis of Research Topics within a Community : the Example of Knowledge Science

    OpenAIRE

    Nie, Kun; Ji, Zhe; Nakamori, Yoshiteru

    2007-01-01

    This Paper presents a new approach how to analyze research topics within a given research community. Under the guidance of the I-system methodology, this paper conducts both top-down and bottom-up analysis. For the bottom-up analysis, similarity measurement and hierarchical clustering are applied to obtain a tree-like dendrogram structure of research topics; for the top-down analysis, the experts' knowledge is included. Then resulting from the iterative dialogue between the above two stages o...

  14. Zooplankton diversity analysis through single-gene sequencing of a community sample

    Directory of Open Access Journals (Sweden)

    Nishida Mutsumi

    2009-09-01

    Full Text Available Abstract Background Oceans cover more than 70% of the earth's surface and are critical for the homeostasis of the environment. Among the components of the ocean ecosystem, zooplankton play vital roles in energy and matter transfer through the system. Despite their importance, understanding of zooplankton biodiversity is limited because of their fragile nature, small body size, and the large number of species from various taxonomic phyla. Here we present the results of single-gene zooplankton community analysis using a method that determines a large number of mitochondrial COI gene sequences from a bulk zooplankton sample. This approach will enable us to estimate the species richness of almost the entire zooplankton community. Results A sample was collected from a depth of 721 m to the surface in the western equatorial Pacific off Pohnpei Island, Micronesia, with a plankton net equipped with a 2-m2 mouth opening. A total of 1,336 mitochondrial COI gene sequences were determined from the cDNA library made from the sample. From the determined sequences, the occurrence of 189 species of zooplankton was estimated. BLASTN search results showed high degrees of similarity (>98% between the query and database for 10 species, including holozooplankton and merozooplankton. Conclusion In conjunction with the Census of Marine Zooplankton and Barcode of Life projects, single-gene zooplankton community analysis will be a powerful tool for estimating the species richness of zooplankton communities.

  15. 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.

  16. Integrative microbial community analysis reveals full-scale enhanced biological phosphorus removal under tropical conditions

    Science.gov (United States)

    Law, Yingyu; Kirkegaard, Rasmus Hansen; Cokro, Angel Anisa; Liu, Xianghui; Arumugam, Krithika; Xie, Chao; Stokholm-Bjerregaard, Mikkel; Drautz-Moses, Daniela I.; Nielsen, Per Halkjær; Wuertz, Stefan; Williams, Rohan B. H.

    2016-05-01

    Management of phosphorus discharge from human waste is essential for the control of eutrophication in surface waters. Enhanced biological phosphorus removal (EBPR) is a sustainable, efficient way of removing phosphorus from waste water without employing chemical precipitation, but is assumed unachievable in tropical temperatures due to conditions that favour glycogen accumulating organisms (GAOs) over polyphosphate accumulating organisms (PAOs). Here, we show these assumptions are unfounded by studying comparative community dynamics in a full-scale plant following systematic perturbation of operational conditions, which modified community abundance, function and physicochemical state. A statistically significant increase in the relative abundance of the PAO Accumulibacter was associated with improved EBPR activity. GAO relative abundance also increased, challenging the assumption of competition. An Accumulibacter bin-genome was identified from a whole community metagenomic survey, and comparative analysis against extant Accumulibacter genomes suggests a close relationship to Type II. Analysis of the associated metatranscriptome data revealed that genes encoding proteins involved in the tricarboxylic acid cycle and glycolysis pathways were highly expressed, consistent with metabolic modelling results. Our findings show that tropical EBPR is indeed possible, highlight the translational potential of studying competition dynamics in full-scale waste water communities and carry implications for plant design in tropical regions.

  17. Integrative microbial community analysis reveals full-scale enhanced biological phosphorus removal under tropical conditions

    Science.gov (United States)

    Law, Yingyu; Kirkegaard, Rasmus Hansen; Cokro, Angel Anisa; Liu, Xianghui; Arumugam, Krithika; Xie, Chao; Stokholm-Bjerregaard, Mikkel; Drautz-Moses, Daniela I.; Nielsen, Per Halkjær; Wuertz, Stefan; Williams, Rohan B. H.

    2016-01-01

    Management of phosphorus discharge from human waste is essential for the control of eutrophication in surface waters. Enhanced biological phosphorus removal (EBPR) is a sustainable, efficient way of removing phosphorus from waste water without employing chemical precipitation, but is assumed unachievable in tropical temperatures due to conditions that favour glycogen accumulating organisms (GAOs) over polyphosphate accumulating organisms (PAOs). Here, we show these assumptions are unfounded by studying comparative community dynamics in a full-scale plant following systematic perturbation of operational conditions, which modified community abundance, function and physicochemical state. A statistically significant increase in the relative abundance of the PAO Accumulibacter was associated with improved EBPR activity. GAO relative abundance also increased, challenging the assumption of competition. An Accumulibacter bin-genome was identified from a whole community metagenomic survey, and comparative analysis against extant Accumulibacter genomes suggests a close relationship to Type II. Analysis of the associated metatranscriptome data revealed that genes encoding proteins involved in the tricarboxylic acid cycle and glycolysis pathways were highly expressed, consistent with metabolic modelling results. Our findings show that tropical EBPR is indeed possible, highlight the translational potential of studying competition dynamics in full-scale waste water communities and carry implications for plant design in tropical regions. PMID:27193869

  18. Phylogenetic analysis of bacterial community in deep-sea sediment from the western Pacific "warm pool"

    Institute of Scientific and Technical Information of China (English)

    2005-01-01

    A depth profile of bacterial community structure in one deep-sea sediment core of the western Pacific "warm pool" (WP) was investigated and compared with that in a sediment sample from the eastern Pacific (EP) by phylogenetic analysis of 16S rDNA fragments.Five bacterial 16S rDNA clone libraries were constructed, and t33 clones with different restriction fragment length polymorphism(RFLP) patterns were sequenced. A phylogenetic analysis of these sequences revealed that the bacterial diversity in a sample from the WP was more abundant than that in the EP sample. The bacterial population in the sediment core of WP was composed of eight major lineages of the domain bacteria. Among them the γ-Proteobacteria was the predominant and most diverse group in each section of WP sediment core, followed by the α-Proteobacteria. The genus Colwellia belonging to γ-Proteobacteria was predominant in this sample.The shift of bacterial communities among different sections of the WP sediment core was δ-, ε-Proteobacteria, and Cytopahga-Flexibacteria-Bacteroides (CFB) group. The ratios between them in the bacterial communities all showed inversely proportional to the depth of sediment. The sequences related to sulphate reducing bacteria (SRB) were detected in every section. The bacterial community structure in this sediment core might be related to the environmental characteristics of the surface seawater of the western Pacific WP.

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

    Energy Technology Data Exchange (ETDEWEB)

    Schryver, Jack C.; Brandt, Craig C.; Pfiffner, Susan M.; Palumbo, A V.; Peacock, Aaron D.; White, David C.; McKinley, James P.; Long, Philip E.

    2006-02-01

    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 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.

  20. Community occupancy before-after-control-impact (CO-BACI) analysis of Hurricane Gudrun on Swedish forest birds.

    Science.gov (United States)

    Russell, James C; Stjernman, Martin; Lindström, Åke; Smith, Henrik G

    2015-04-01

    Resilience of ecological communities to perturbation is important in the face of increased global change from anthropogenic stressors. Monitoring is required to detect the impact of, and recovery from, perturbations, and before-after-control-impact (BACI) analysis provides a powerful framework in this regard. However, species in a community are not observed with perfect detection, and occupancy analysis is required to correct for imperfect detectability of species. We present a Bayesian community occupancy before-after-control-impact (CO-BACI) framework to monitor ecological community response to perturbation when constituent species are imperfectly detected. We test the power of the model to detect changes in community composition following an acute perturbation with simulation. We then apply the model to a study of the impact of a large hurricane on the forest bird community of Sweden, using data from the national bird survey scheme. Although simulation shows the model can detect changes in community occupancy following an acute perturbation, application to a Swedish forest bird community following a major hurricane detected no change in community occupancy despite widespread forest loss. Birds with landscape occupancy less than 50% required correcting for detectability. We conclude that CO-BACI analysis is a useful tool that can incorporate rare species in analyses and detect occupancy changes in ecological communities following perturbation, but, because it does not include abundance, some impacts may be overlooked.

  1. Community occupancy before-after-control-impact (CO-BACI) analysis of Hurricane Gudrun on Swedish forest birds.

    Science.gov (United States)

    Russell, James C; Stjernman, Martin; Lindström, Åke; Smith, Henrik G

    2015-04-01

    Resilience of ecological communities to perturbation is important in the face of increased global change from anthropogenic stressors. Monitoring is required to detect the impact of, and recovery from, perturbations, and before-after-control-impact (BACI) analysis provides a powerful framework in this regard. However, species in a community are not observed with perfect detection, and occupancy analysis is required to correct for imperfect detectability of species. We present a Bayesian community occupancy before-after-control-impact (CO-BACI) framework to monitor ecological community response to perturbation when constituent species are imperfectly detected. We test the power of the model to detect changes in community composition following an acute perturbation with simulation. We then apply the model to a study of the impact of a large hurricane on the forest bird community of Sweden, using data from the national bird survey scheme. Although simulation shows the model can detect changes in community occupancy following an acute perturbation, application to a Swedish forest bird community following a major hurricane detected no change in community occupancy despite widespread forest loss. Birds with landscape occupancy less than 50% required correcting for detectability. We conclude that CO-BACI analysis is a useful tool that can incorporate rare species in analyses and detect occupancy changes in ecological communities following perturbation, but, because it does not include abundance, some impacts may be overlooked. PMID:26214914

  2. The Structure of Witnessed Community Violence amongst Urban African American Mothers: Latent Class Analysis of a Community Sample

    Directory of Open Access Journals (Sweden)

    Cynthia R. Ronzio

    2011-01-01

    Full Text Available The prevalence of witnessed community violence (WCV amongst urban populations in the USA is striking. WCV can be harmful to one's psychological health, and for mothers, the consequences may be more far-reaching as their mental health affects parenting and child development. This study used telephone interviews (n = 209 to explore the patterns and covariates of WCV amongst a sample of urban, African American mothers of infants. Mothers reported whether they had witnessed 11 different forms of violence in their current neighborhoods. A latent class analysis revealed two distinct groups of mothers, those with higher versus lower-exposure to WCV. Mothers in the higher-exposure group were more likely to be low-income, to have a high school education or less, and to have higher anxiety scores than those in the lower-exposure group. Depression was not associated with higher exposure to WCV. Distinguishing between higher- and lower-exposure samples can inform the development of targeted prevention and intervention strategies for metropolitan areas.

  3. New Primers for Denaturing Gradient Gel Electrophoresis Analysis of Nitrate-Reducing Bacterial Community in Soil

    Institute of Scientific and Technical Information of China (English)

    R.PASTORELLI; R.PICCOLO; S.SIMONCINI; S.LANDI

    2013-01-01

    The narG gene is frequently used as a molecular marker for bacterial nitrate-reducing community analysis.In this study,a new set of primers targeting the narG gene was designed and applied to semi-nested polymerase chain reaction-denaturing gradient gel electrophoresis (PCR-DGGE) assay.The potential of the new primers was verified on DNA directly extracted from soils from five different experimental sites distributed in Central and Southern Italy.Specificity of the primers was determined by excision,amplification,and sequencing of bands resolved by DGGE.A phylogenetic analysis showed the correlation between the sequences retrieved from the soils studied and the narG sequences from β and γ-Proteobacteria.These primers expanded the existing molecular tools for ecological study on the size and diversity of nitrate-reducing bacterial community in soil.

  4. Energy analysis and renovation proposal for the community health centre Fužine building

    OpenAIRE

    Strmljan, Eva

    2016-01-01

    European environmental policy demands a transition toward nearly zero-energy buildings. Its goal is to reduce energy consumption and increase the use of renewable energy sources. In the diploma thesis, different building energy parameters needed to evaluate energy efficiency are presented and calculated for the Community health Centre Fužine building. Firstly an analysis was carried out to determine whether the building complies with the c...

  5. Identifying Gender-Preferred Communication Styles within Online Cancer Communities: A Retrospective, Longitudinal Analysis

    OpenAIRE

    Durant, Kathleen T.; McCray, Alexa T.; Charles Safran

    2012-01-01

    BACKGROUND: The goal of this research is to determine if different gender-preferred social styles can be observed within the user interactions at an online cancer community. To achieve this goal, we identify and measure variables that pertain to each gender-specific social style. METHODS AND FINDINGS: We perform social network and statistical analysis on the communication flow of 8,388 members at six different cancer forums over eight years. Kruskal-Wallis tests were conducted to measure the ...

  6. Analysis of domestic tourism between the Spanish peninsular autonomous communities: specialization and competitive advantage

    Directory of Open Access Journals (Sweden)

    José J. Benítez Rochel

    2011-01-01

    Full Text Available This paper presents an implementation of shift share analysis ofnational tourism between the Spanish peninsular autonomous communities withovernight stays in hotels data. Thus, it achieves a more complete interpretation ofthe available statistical information. Among other things, it allows us to know theposition which each region has in terms of specialization and competitive advantageand, hence, the potential markets for development can be identified.

  7. A comparison of fungal communities from four salt marsh plants using automated ribosomal intergenic spacer analysis (ARISA).

    Science.gov (United States)

    Torzilli, Albert P; Sikaroodi, Masoumeh; Chalkley, David; Gillevet, Patrick M

    2006-01-01

    Fungal decomposers are important contributors to the detritus-based food webs of salt marsh ecosystems. Knowing the composition of salt marsh fungal communities is essential in understanding how detritus processing is affected by changes in community dynamics. Automated ribosomal intergenic spacer analysis (ARISA) was used to examine the composition of fungal communities associated with four temperate salt marsh plants, Spartina alterniflora (short and tall forms), Juncus roemerianus, Distichlis spicata and Sarcocornia perennis. Plant tissues were homogenized and subjected to a particle-filtration protocol that yielded 106 microm particulate fractions, which were used as a source of fungal isolates and fungal DNA. Genera identified from sporulating cultures demonstrated that the 106 microm particles from each host plant were reliable sources of fungal DNA for ARISA. Analysis of ARISA data by principal component analysis (PCA), principal coordinate analysis (PCO) and species diversity comparisons indicated that the fungal communities from the two grasses, S. alterniflora and D. spicata were more similar to each other than they were to the distinct communities associated with J. roemerianus and S. perennis. Principal component analysis also showed no consistent, seasonal pattern in the composition of these fungal communities. Comparisons of ARISA fingerprints from the different fungal communities and those from pure cultures of selected Spartina ascomycetes supported the host/substrate specificity observed for the fungal communities.

  8. Integrated community case management in Malawi: an analysis of innovation and institutional characteristics for policy adoption.

    Science.gov (United States)

    Rodríguez, Daniela C; Banda, Hastings; Namakhoma, Ireen

    2015-12-01

    In 2007, Malawi became an early adopter of integrated community case management for childhood illnesses (iCCM), a policy aimed at community-level treatment for malaria, diarrhoea and pneumonia for children below 5 years. Through a retrospective case study, this article explores critical issues in implementation that arose during policy formulation through the lens of the innovation (i.e. iCCM) and of the institutions involved in the policy process. Data analysis is founded on a documentary review and 21 in-depth stakeholder interviews across institutions in Malawi. Findings indicate that the characteristics of iCCM made it a suitable policy to address persistent challenges in child mortality, namely that ill children were not interacting with health workers on a timely basis and consequently were dying in their communities. Further, iCCM was compatible with the Malawian health system due to the ability to build on an existing community health worker cadre of health surveillance assistants (HSAs) and previous experiences with treatment provision at the community level. In terms of institutions, the Ministry of Health (MoH) demonstrated leadership in the overall policy process despite early challenges of co-ordination within the MoH. WHO, United Nations Children's Fund (UNICEF) and implementing organizations played a supportive role in their position as knowledge brokers. Greater challenges were faced in the organizational capacity of the MoH. Regulatory issues around HSA training as well as concerns around supervision and overburdening of HSAs were discussed, though not fully addressed during policy development. Similarly, the financial sustainability of iCCM, including the mechanisms for channelling funding flows, also remains an unresolved issue. This analysis highlights the role of implementation questions during policy development. Despite several outstanding concerns, the compatibility between iCCM as a policy alternative and the local context laid the

  9. Integrated community case management in Malawi: an analysis of innovation and institutional characteristics for policy adoption.

    Science.gov (United States)

    Rodríguez, Daniela C; Banda, Hastings; Namakhoma, Ireen

    2015-12-01

    In 2007, Malawi became an early adopter of integrated community case management for childhood illnesses (iCCM), a policy aimed at community-level treatment for malaria, diarrhoea and pneumonia for children below 5 years. Through a retrospective case study, this article explores critical issues in implementation that arose during policy formulation through the lens of the innovation (i.e. iCCM) and of the institutions involved in the policy process. Data analysis is founded on a documentary review and 21 in-depth stakeholder interviews across institutions in Malawi. Findings indicate that the characteristics of iCCM made it a suitable policy to address persistent challenges in child mortality, namely that ill children were not interacting with health workers on a timely basis and consequently were dying in their communities. Further, iCCM was compatible with the Malawian health system due to the ability to build on an existing community health worker cadre of health surveillance assistants (HSAs) and previous experiences with treatment provision at the community level. In terms of institutions, the Ministry of Health (MoH) demonstrated leadership in the overall policy process despite early challenges of co-ordination within the MoH. WHO, United Nations Children's Fund (UNICEF) and implementing organizations played a supportive role in their position as knowledge brokers. Greater challenges were faced in the organizational capacity of the MoH. Regulatory issues around HSA training as well as concerns around supervision and overburdening of HSAs were discussed, though not fully addressed during policy development. Similarly, the financial sustainability of iCCM, including the mechanisms for channelling funding flows, also remains an unresolved issue. This analysis highlights the role of implementation questions during policy development. Despite several outstanding concerns, the compatibility between iCCM as a policy alternative and the local context laid the

  10. Unravelling the community structure of the climate system by using lags and symbolic time-series analysis

    Science.gov (United States)

    Tirabassi, Giulio; Masoller, Cristina

    2016-07-01

    Many natural systems can be represented by complex networks of dynamical units with modular structure in the form of communities of densely interconnected nodes. Unraveling this community structure from observed data requires the development of appropriate tools, particularly when the nodes are embedded in a regular space grid and the datasets are short and noisy. Here we propose two methods to identify communities, and validate them with the analysis of climate datasets recorded at a regular grid of geographical locations covering the Earth surface. By identifying mutual lags among time-series recorded at different grid points, and by applying symbolic time-series analysis, we are able to extract meaningful regional communities, which can be interpreted in terms of large-scale climate phenomena. The methods proposed here are valuable tools for the study of other systems represented by networks of dynamical units, allowing the identification of communities, through time-series analysis of the observed output signals.

  11. QUALIMETRIC ESTIMATION OF INTEGRATION OF RESEARCHERS INTO THE SCIENTIFIC COMMUNITY, BASED ON THE ANALYSIS OF CITATIONS

    Directory of Open Access Journals (Sweden)

    Loyko V. I.

    2016-04-01

    Full Text Available The article presents the criteria for evaluating the integration of researchers in the scientific community, based on an analysis of its citations. It is known, that one of the major components of interscientific communication (communication in the scientific community is a citation of scientific publications (monographs, articles, etc.. According to the sociological approach, a scientist is a part of society, ie, scientific community; under scientific community we understand scientific mega environment (opposed to research groups of institutions and their structural units. Integration of a researcher to the community has many aspects: on the one hand, it is - the importance of his work to the scientific community, on the other hand, it is - the use of a scientist social mega environment for building for their personal and professional development to improve their research and improve the quality of its results (in the context of the article we will consider the second aspect. Methodological bases of the research: systematic, competence, sociological, and mega-system qualimetric approaches. Methods: modeling, methods of quality control, methods of set theory, relations and graphs. Evaluation (diagnostics involvement of scientists in the scientific community - is more complicated metrology task than the evaluation of the significance of the results of its research activities. For the authors it is clear that a mature scientist (with a high level of research competence should intensively use the potential of the social and the cultural science international environment (community for their personal and professional development, to improve the efficiency of this research activities and the quality of this results. The proposed indicators can be considered as group indicator variables reflecting the level of the behavioral component of the research competence (scientist. Using social media for researcher’s potential – it is necessary, but not

  12. 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

  13. Community analysis of ammonia and nitrite oxidizers in start-up of aerobic granular sludge reactor

    Institute of Scientific and Technical Information of China (English)

    2007-01-01

    A lab-scale sequencing batch reactor (SBR) was setup and the aerobic granular sludge was successfully incubated by using anaerobic granular sludge as seed sludge. Nitrogen was partially removed by simultaneous nitrification and denitrification (SND) via nitrite with free ammonia (FA) of about 10 mg/L. The denaturing gradient gel electrophoresis (DGGE) method was used to investigate community structure of α-Proteobacteria, β-Proteobacteria, ammonia oxidizing bacteria (AOB), and Nitrospira populations during start-up. The population sizes of bacteria, AOB and Nitrospira were examined using real-time PCR method. The analysis of community structure and Shannon index showed that stable structure of AOB population was obtained at the day 35, while the communities of α-Proteobacteria, β-Proteobacteria, and Nitrospira became stable after day 45. At stable stage, the average cell densities were 1.1×1012, 2.2×1010 and 1.0×1010 cells/L for bacteria, AOB and Nitrospira, respectively. The relationship between characteristics of nitrifying bacteria community and nitrogenous substrate utilization constant was discussed by calculating Pearson correlation. Certain correlation seemed to exist between population size, biodiversity, and degradation constant. And the influence of population size might be greater than that of biodiversity.

  14. MG-RAST, a Metagenomics Service for Analysis of Microbial Community Structure and Function.

    Science.gov (United States)

    Keegan, Kevin P; Glass, Elizabeth M; Meyer, Folker

    2016-01-01

    Approaches in molecular biology, particularly those that deal with high-throughput sequencing of entire microbial communities (the field of metagenomics), are rapidly advancing our understanding of the composition and functional content of microbial communities involved in climate change, environmental pollution, human health, biotechnology, etc. Metagenomics provides researchers with the most complete picture of the taxonomic (i.e., what organisms are there) and functional (i.e., what are those organisms doing) composition of natively sampled microbial communities, making it possible to perform investigations that include organisms that were previously intractable to laboratory-controlled culturing; currently, these constitute the vast majority of all microbes on the planet. All organisms contained in environmental samples are sequenced in a culture-independent manner, most often with 16S ribosomal amplicon methods to investigate the taxonomic or whole-genome shotgun-based methods to investigate the functional content of sampled communities. Metagenomics allows researchers to characterize the community composition and functional content of microbial communities, but it cannot show which functional processes are active; however, near parallel developments in transcriptomics promise a dramatic increase in our knowledge in this area as well. Since 2008, MG-RAST (Meyer et al., BMC Bioinformatics 9:386, 2008) has served as a public resource for annotation and analysis of metagenomic sequence data, providing a repository that currently houses more than 150,000 data sets (containing 60+ tera-base-pairs) with more than 23,000 publically available. MG-RAST, or the metagenomics RAST (rapid annotation using subsystems technology) server makes it possible for users to upload raw metagenomic sequence data in (preferably) fastq or fasta format. Assessments of sequence quality, annotation with respect to multiple reference databases, are performed automatically with minimal

  15. Capacity Building and Community Resilience: A Pilot Analysis of Education and Employment Indicators before and after an Extension Intervention

    Science.gov (United States)

    Weaver, Russell

    2016-01-01

    This article reports on an analysis of the effects of a quasinatural experiment in which 16 rural communities participated in public discussion, leadership training, and community visioning as part of an Extension program at Montana State University. Difference-in-differences methods reveal that key U.S. Census socioeconomic indicators either…

  16. Project management competence analysis in rural communities through territorial representation: application to Aymara women communities in Puno (Peru)

    OpenAIRE

    Sastre Merino, Susana; Ríos Carmenado, Ignacio de los

    2012-01-01

    The acquisition of technical, contextual and behavioral competences is a prerequisite for sustainable development and strengthening of rural communities. Territorial display of the status of these skills helps to design the necessary learning, so its inclusion in planning processes is useful for decision making. The article discusses the application of visual representation of competences in a rural development project with Aymara women communities in Peru. The results show an improvement of ...

  17. Use of multi-criteria analysis (MCA for supporting community forest management

    Directory of Open Access Journals (Sweden)

    Khadka C

    2012-04-01

    Full Text Available Sustainable forest management usually involves the use of criteria and indicators (C&I allowing the monitoring, reporting and assessment of management activities at national, regional and forest management unit levels. Experiences of such concepts are scarce in Nepal, particularly with regard to the evaluation of management activities within a Multi-Criteria Analysis (MCA framework. In this contribution we describe how a MCA approach can be used to efficiently exploit information, knowledge, and preferences of stakeholders to address community forest management problems. Beside rating and ranking techniques, the Analytic Hierarchy Process (AHP is used to examine the importance of six criteria and forty-four indicators in a sustainable forest management context with a broad range of stakeholder groups. An evaluation of four management strategies in the Shree Gyneshwar community forest user group allows to demonstrate the relevance of changing priorities for different criteria. A passive adaptive management strategy focusing on a multiple use of natural resources and the introduction of production-oriented measures were identified as the most preferable option. The results of this study show that the multi-criteria analysis approach, and in particular the AHP, can assist decision-makers in efficiently evaluating management problems and generating ideas for the long-term strategic planning process of community forest management, even under complex socio-economic and ecological conditions. In that context, compromise solutions enjoy a higher possibility of being successful, taking into account the different views of stakeholder groups.

  18. 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…

  19. 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

  20. Mean-variance portfolio analysis data for optimizing community-based photovoltaic investment.

    Science.gov (United States)

    Shakouri, Mahmoud; Lee, Hyun Woo

    2016-03-01

    The amount of electricity generated by Photovoltaic (PV) systems is affected by factors such as shading, building orientation and roof slope. To increase electricity generation and reduce volatility in generation of PV systems, a portfolio of PV systems can be made which takes advantages of the potential synergy among neighboring buildings. This paper contains data supporting the research article entitled: PACPIM: new decision-support model of optimized portfolio analysis for community-based photovoltaic investment [1]. We present a set of data relating to physical properties of 24 houses in Oregon, USA, along with simulated hourly electricity data for the installed PV systems. The developed Matlab code to construct optimized portfolios is also provided in . The application of these files can be generalized to variety of communities interested in investing on PV systems. PMID:26937458

  1. [Grey correlation and cluster analysis on relationship between Cercidiphyllum japonicum community and its environment].

    Science.gov (United States)

    Pan, K; Liu, Z

    2001-04-01

    The relationship between 10 years old C. japonicum plantation forest community and its environmental conditions was studied by grey correlation method and cluster analysis. The results showed that there existed closer relations among soil organic matter, available Ca, Fe, Mg and N. Except for N and Mn, all soil available elements tested had no direct impact on the absorption and accumulation of corresponding elements by the community. The tree species in different habitats was found to absorb soil elements selectively to some extent. The factors affecting the basal diameter, DBH, height and biomass of C. japonicum could be lined as soil chemical characteristics > soil physical properties > climate factors, in which, available P had little impact on the growth of C. japonicum. It is suggested that C. japonicum could be restored in the area with higher air moisture and with fertile porous soil between elevation of 2200-2700 m. PMID:11757353

  2. Mean-variance portfolio analysis data for optimizing community-based photovoltaic investment.

    Science.gov (United States)

    Shakouri, Mahmoud; Lee, Hyun Woo

    2016-03-01

    The amount of electricity generated by Photovoltaic (PV) systems is affected by factors such as shading, building orientation and roof slope. To increase electricity generation and reduce volatility in generation of PV systems, a portfolio of PV systems can be made which takes advantages of the potential synergy among neighboring buildings. This paper contains data supporting the research article entitled: PACPIM: new decision-support model of optimized portfolio analysis for community-based photovoltaic investment [1]. We present a set of data relating to physical properties of 24 houses in Oregon, USA, along with simulated hourly electricity data for the installed PV systems. The developed Matlab code to construct optimized portfolios is also provided in . The application of these files can be generalized to variety of communities interested in investing on PV systems.

  3. High-throughput metagenomic technologies for complex microbial community analysis: open and closed formats.

    Science.gov (United States)

    Zhou, Jizhong; He, Zhili; Yang, Yunfeng; Deng, Ye; Tringe, Susannah G; Alvarez-Cohen, Lisa

    2015-01-27

    Understanding the structure, functions, activities and dynamics of microbial communities in natural environments is one of the grand challenges of 21st century science. To address this challenge, over the past decade, numerous technologies have been developed for interrogating microbial communities, of which some are amenable to exploratory work (e.g., high-throughput sequencing and phenotypic screening) and others depend on reference genes or genomes (e.g., phylogenetic and functional gene arrays). Here, we provide a critical review and synthesis of the most commonly applied "open-format" and "closed-format" detection technologies. We discuss their characteristics, advantages, and disadvantages within the context of environmental applications and focus on analysis of complex microbial systems, such as those in soils, in which diversity is high and reference genomes are few. In addition, we discuss crucial issues and considerations associated with applying complementary high-throughput molecular technologies to address important ecological questions.

  4. Comparative analysis of the intestinal bacterial communities in different species of carp by pyrosequencing.

    Science.gov (United States)

    Li, Tongtong; Long, Meng; Gatesoupe, François-Joël; Zhang, Qianqian; Li, Aihua; Gong, Xiaoning

    2015-01-01

    Gut microbiota is increasingly regarded as an integral component of the host, due to important roles in the modulation of the immune system, the proliferation of the intestinal epithelium and the regulation of the dietary energy intake. Understanding the factors that influence the composition of these microbial communities is essential to health management, and the application to aquatic animals still requires basic investigation. In this study, we compared the bacterial communities harboured in the intestines and in the rearing water of grass carp (Ctenopharyngodon idellus), crucian carp (Carassius cuvieri), and bighead carp (Hypophthalmichthys nobilis), by using 454-pyrosequencing with barcoded primers targeting the V4 to V5 regions of the bacterial 16S rRNA gene. The specimens of the three species were cohabiting in the same pond. Between 6,218 and 10,220 effective sequences were read from each sample, resulting in a total of 110,398 sequences for 13 samples from gut microbiota and pond water. In general, the microbial communities of the three carps were dominated by Fusobacteria, Firmicutes, Proteobacteria and Bacteroidetes, but the abundance of each phylum was significantly different between species. At the genus level, the overwhelming group was Cetobacterium (97.29 ± 0.46 %) in crucian carp, while its abundance averaged c. 40 and 60 % of the sequences read in the other two species. There was higher microbial diversity in the gut of filter-feeding bighead carp than the gut of the two other species, with grazing feeding habits. The composition of intestine microbiota of grass carp and crucian carp shared higher similarity when compared with bighead carp. The principal coordinates analysis (PCoA) with the weighted UniFrac distance and the heatmap analysis suggested that gut microbiota was not a simple reflection of the microbial community in the local habitat but resulted from species-specific selective pressures, possibly dependent on behavioural, immune

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

    OpenAIRE

    Koichi Fujie; Hiroyuki Daimon; Yoichi Atsuta; Muhammad Hanif

    2012-01-01

    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 analysi...

  6. Community-level impacts of white-tailed deer on understorey plants in North American forests: a meta-analysis.

    Science.gov (United States)

    Habeck, Christopher W; Schultz, Alexis K

    2015-01-01

    The impacts of introduced or overabundant large herbivores are a concern for the conservation of forest plant communities and the sustainability of ecosystem function. White-tailed deer (Odocoileus virginianus) are considered ecologically overabundant in much of North America. Previous work suggests that impacts of deer overabundance are broadly negative and are consequently degrading forests at multiple ecological and taxonomic levels. However, no quantitative synthesis currently exists to verify the generality or magnitude of these impacts. Here, we report the results of a meta-analysis quantifying the effects of deer exclusion on the diversity, cover and abundance of woody, herbaceous and whole community components of forest understories in North America. In addition, we explore the relationships of environmental and experimental factors on the direction and magnitude of plant community outcomes using meta-regression. Using 119 calculated effect sizes sourced from 25 peer-reviewed articles, we constructed 10 community-specific data sets and found strongly positive diversity, cover and abundance responses of the woody community to deer exclusion, but no significant effects for the herbaceous or whole community components of forest understories. Local deer density and time since exclusion were significant moderators of both whole community and woody community richness. Local deer density also moderated the effects of deer exclusion on whole community cover. Plot area, in contrast, showed no relationship to any of the community response outcomes. We suggest that the use of inadequate diversity indices, non-native species replacement or legacy effects of chronic deer overabundance might explain why the herbaceous and whole community components of forest understories showed no diversity or cover responses to deer exclusion. We also suggest some strategies to increase opportunities for future quantitative syntheses of deer impacts on forests, including providing

  7. MEGAN Community Edition - Interactive Exploration and Analysis of Large-Scale Microbiome Sequencing Data.

    Directory of Open Access Journals (Sweden)

    Daniel H Huson

    2016-06-01

    Full Text Available There is increasing interest in employing shotgun sequencing, rather than amplicon sequencing, to analyze microbiome samples. Typical projects may involve hundreds of samples and billions of sequencing reads. The comparison of such samples against a protein reference database generates billions of alignments and the analysis of such data is computationally challenging. To address this, we have substantially rewritten and extended our widely-used microbiome analysis tool MEGAN so as to facilitate the interactive analysis of the taxonomic and functional content of very large microbiome datasets. Other new features include a functional classifier called InterPro2GO, gene-centric read assembly, principal coordinate analysis of taxonomy and function, and support for metadata. The new program is called MEGAN Community Edition (CE and is open source. By integrating MEGAN CE with our high-throughput DNA-to-protein alignment tool DIAMOND and by providing a new program MeganServer that allows access to metagenome analysis files hosted on a server, we provide a straightforward, yet powerful and complete pipeline for the analysis of metagenome shotgun sequences. We illustrate how to perform a full-scale computational analysis of a metagenomic sequencing project, involving 12 samples and 800 million reads, in less than three days on a single server. All source code is available here: https://github.com/danielhuson/megan-ce.

  8. MEGAN Community Edition - Interactive Exploration and Analysis of Large-Scale Microbiome Sequencing Data

    Science.gov (United States)

    Huson, Daniel H.; Beier, Sina; Flade, Isabell; Ruscheweyh, Hans-Joachim; Tappu, Rewati

    2016-01-01

    There is increasing interest in employing shotgun sequencing, rather than amplicon sequencing, to analyze microbiome samples. Typical projects may involve hundreds of samples and billions of sequencing reads. The comparison of such samples against a protein reference database generates billions of alignments and the analysis of such data is computationally challenging. To address this, we have substantially rewritten and extended our widely-used microbiome analysis tool MEGAN so as to facilitate the interactive analysis of the taxonomic and functional content of very large microbiome datasets. Other new features include a functional classifier called InterPro2GO, gene-centric read assembly, principal coordinate analysis of taxonomy and function, and support for metadata. The new program is called MEGAN Community Edition (CE) and is open source. By integrating MEGAN CE with our high-throughput DNA-to-protein alignment tool DIAMOND and by providing a new program MeganServer that allows access to metagenome analysis files hosted on a server, we provide a straightforward, yet powerful and complete pipeline for the analysis of metagenome shotgun sequences. We illustrate how to perform a full-scale computational analysis of a metagenomic sequencing project, involving 12 samples and 800 million reads, in less than three days on a single server. All source code is available here: https://github.com/danielhuson/megan-ce PMID:27327495

  9. PIXE analysis of hair samples from artisanal mining communities in the Acupan region, Benguet, Philippines

    Science.gov (United States)

    Clemente, Eligia; Sera, K.; Futatsugawa, S.; Murao, S.

    2004-06-01

    The mountainous regions of Benguet Province in the Philippines is home to some 10,000 small-scale miners who make out a living by extracting gold. In these communities, the method of extraction still involves the use of mercury, via amalgamation. In the separation of gold from mercury the method involves the release of mercury vapor into the atmosphere. This is therefore expected to affect the people living in the nearby areas. This study involves the accumulation of baseline data on the extent of mercury contamination in humans through the analysis of their hair. In 1989, Hursh et al. [Arch. Environ. Health 44 (2) (1989) 120] studied human volunteers and found that uptake of mercury vapor through the skin is only about 1% of the uptake through inhalation [World Health Organization, IPCS, EHC118, Inorganic Mercury, Geneva, 1991, p. 42]. In this light, any residual mercury which might have deposited in human hair is speculated to give an indication of how much mercury vapor the subject could have actually inhaled. A high concentration of mercury in the sample can therefore be indicative of the high rate of intake of the mercury vapor through inhalation. A sampling of the community consisted of both male (83%) and female (17%) subjects who ranged in age from 8 to 66 years old. Hair analysis was done using particle induced X-ray emission at the Iwate Medical University through Dr. Sera. With Zn set as a standard element, the rest of the elements were determined using the standard-free method. In order to obtain the conversion coefficient for hair samples, many hair samples were analyzed by this method and the internal standard method which involves the preparation of the hair samples by chemical ashing. The results obtained were comparable. The PIXE results for these samples showed the analysis of 26 elements but for our purposes, however, only the mercury analysis will be considered. Results of the analysis showed the hair samples to contain 0-27 ppm, with only seven

  10. PIXE analysis of hair samples from artisanal mining communities in the Acupan region, Benguet, Philippines

    International Nuclear Information System (INIS)

    The mountainous regions of Benguet Province in the Philippines is home to some 10,000 small-scale miners who make out a living by extracting gold. In these communities, the method of extraction still involves the use of mercury, via amalgamation. In the separation of gold from mercury the method involves the release of mercury vapor into the atmosphere. This is therefore expected to affect the people living in the nearby areas. This study involves the accumulation of baseline data on the extent of mercury contamination in humans through the analysis of their hair. In 1989, Hursh et al. [Arch. Environ. Health 44 (2) (1989) 120] studied human volunteers and found that uptake of mercury vapor through the skin is only about 1% of the uptake through inhalation [World Health Organization, IPCS, EHC118, Inorganic Mercury, Geneva, 1991, p. 42]. In this light, any residual mercury which might have deposited in human hair is speculated to give an indication of how much mercury vapor the subject could have actually inhaled. A high concentration of mercury in the sample can therefore be indicative of the high rate of intake of the mercury vapor through inhalation. A sampling of the community consisted of both male (83%) and female (17%) subjects who ranged in age from 8 to 66 years old. Hair analysis was done using particle induced X-ray emission at the Iwate Medical University through Dr. Sera. With Zn set as a standard element, the rest of the elements were determined using the standard-free method. In order to obtain the conversion coefficient for hair samples, many hair samples were analyzed by this method and the internal standard method which involves the preparation of the hair samples by chemical ashing. The results obtained were comparable. The PIXE results for these samples showed the analysis of 26 elements but for our purposes, however, only the mercury analysis will be considered. Results of the analysis showed the hair samples to contain 0-27 ppm, with only seven

  11. Systemic Analysis of the Cultural Production of a Virtual Learning Community

    Directory of Open Access Journals (Sweden)

    Germán Alejandro Miranda Díaz

    2013-04-01

    Full Text Available This paper describes a systemic analysis from the standpoint of activity theory of the cultural emergence of a virtual learning community as a complex system. Three levels of analysis were employed: data mining, visualization of complex systems and analysis of discursive interactions, with the aim of understanding the emerging phenomena of online learning and in order to have the necessary elements to assist in planning the formation of virtual communities in formal settings. This was carried out using six years of activity from 3,324 people from different documentary sources: 9,871,531 CMS records; 1,371,907 from LMS; 67,828 IRC statements; and 27,798 online forum comments. In the process, we observed how action aimed at socialization and discussion of its object evolve into historical-cultural milestones such as the culture of merit as opposed to certification, the division of labor and the process of transition from free software to free culture.

  12. Statistical methods for temporal and space-time analysis of community composition data.

    Science.gov (United States)

    Legendre, Pierre; Gauthier, Olivier

    2014-03-01

    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 multiscale exploration (i.e. addressing several scales of variation) of univariate or multivariate response data, reviewed, to our knowledge for the first time in this review. These methods are illustrated with ecological data from 13 years of benthic surveys in Chesapeake Bay, USA. The following methods are applied to the Chesapeake data: distance-based Moran's eigenvector maps, asymmetric eigenvector maps, scalogram, variation partitioning, multivariate correlogram, multivariate regression tree, and two-way MANOVA to study temporal and space-time variability. Local (temporal) contributions to beta diversity (LCBD indices) are computed and analysed graphically and by regression against environmental variables, and the role of species in determining the LCBD values is analysed by correlation analysis. A tutorial detailing the analyses in the R language is provided in an appendix. PMID:24430848

  13. Analysis of bacterial community in bulking sludge using culture-dependent and -independent approaches

    Institute of Scientific and Technical Information of China (English)

    Decai Jin; Ping Wang; Zhihui Bai; Xinxin Wang; Hong Peng; Rong Qi; Zhisheng Yu; Guoqiang Zhuang

    2011-01-01

    The bacterial community of a bulking sludge from a municipal wastewater treatment plant with anoxic-anaerobic-oxic process was investigated by combination of cultivation and 16S rRNA gene clone library analysis for understanding the causes of bulking.A total of 28 species were obtained from 63 isolates collected from six culture media.The most cultivable species belonged to γ-Proteobacteria including Klebsiella sp.,Pseudomonas sp.,Aeromonas sp.and Acinetobacter sp.Further analysis of these strains by repetitive sequence based on polymerase chain reaction (rep-PCR) technology showed that rep-PCR yielded discriminatory banding patterns within the same genus using REP and BOX primer sets.While the culture-independent assessment revealed that β-Proteobacteria was the dominant group in the bulking sample.Sequence analysis revealed that the highest proportion (14.7%) of operational taxonomic units was 98% similar to Candidatus Accumulibacter phosphatis,which is used to remove phosphorous from wastewater.Our results indicated that combining different approaches can produce complementary information,thus generate a more accurate view of microbial community in bulking sludge.

  14. Analysis of culturable and unculturable microbial community in bensulfuron-methyl contaminated paddy soils

    Institute of Scientific and Technical Information of China (English)

    LIN Xiaoyan; ZHAO Yuhua; FU Qinglin; M. L. Umashankara; FENG Zhihong

    2008-01-01

    To investigate the influence of bensulfuron-methyl (BSM) on culturable microbial quantities and unculturable microbial community structures, conventional and molecular biological methods were employed in five BSM treated soils with three replications, respectively. The results obtained with traditional culture-dependent methods showed that a low-level of BSM had slight and transient effects on culturable microorganisms; nevertheless, high concentration of BSM resulted in a dramatic decrease in bacterial colony forming units (cfus). The result obtained using denaturing gradient gel electrophoresis (DGGE) revealed that more than 17 bands were observed in low BSM contaminated soil samples and only 10 bands were detected in samples with high BSM contamination. In other words, the diversity of soil community structure is related to the concentration of BSM. Cluster analysis showed that the community structure under low level of contamination was more similar to that of the control, while heavy contaminated amendments were far away from the above group. In a sense, the cooperation of the traditional method and the molecular biological method is more powerful to study the soil microbial information in contaminated ecosystem.

  15. Bioconductor workflow for microbiome data analysis: from raw reads to community analyses.

    Science.gov (United States)

    Callahan, Ben J; Sankaran, Kris; Fukuyama, Julia A; McMurdie, Paul J; Holmes, Susan P

    2016-01-01

    High-throughput sequencing of PCR-amplified taxonomic markers (like the 16S rRNA gene) has enabled a new level of analysis of complex bacterial communities known as microbiomes. Many tools exist to quantify and compare abundance levels or microbial composition of communities in different conditions. The sequencing reads have to be denoised and assigned to the closest taxa from a reference database. Common approaches use a notion of 97% similarity and normalize the data by subsampling to equalize library sizes. In this paper, we show that statistical models allow more accurate abundance estimates. By providing a complete workflow in R, we enable the user to do sophisticated downstream statistical analyses, including both parameteric and nonparametric methods. We provide examples of using the R packages dada2, phyloseq, DESeq2, ggplot2 and vegan to filter, visualize and test microbiome data. We also provide examples of supervised analyses using random forests, partial least squares and linear models as well as nonparametric testing using community networks and the ggnetwork package.

  16. Sourdough microbial community dynamics: An analysis during French organic bread-making processes.

    Science.gov (United States)

    Lhomme, Emilie; Urien, Charlotte; Legrand, Judith; Dousset, Xavier; Onno, Bernard; Sicard, Delphine

    2016-02-01

    Natural sourdoughs are commonly used in bread-making processes, especially for organic bread. Despite its role in bread flavor and dough rise, the stability of the sourdough microbial community during and between bread-making processes is debated. We investigated the dynamics of lactic acid bacteria (LAB) and yeast communities in traditional organic sourdoughs of five French bakeries during the bread-making process and several months apart using classical and molecular microbiology techniques. Sourdoughs were sampled at four steps of the bread-making process with repetition. The analysis of microbial density over 68 sourdough/dough samples revealed that both LAB and yeast counts changed along the bread-making process and between bread-making runs. The species composition was less variable. A total of six LAB and nine yeast species was identified from 520 and 1675 isolates, respectively. The dominant LAB species was Lactobacillus sanfranciscensis, found for all bakeries and each bread-making run. The dominant yeast species changed only once between bread-making processes but differed between bakeries. They mostly belonged to the Kazachstania clade. Overall, this study highlights the change of population density within the bread-making process and between bread-making runs and the relative stability of the sourdough species community during bread-making process.

  17. Bioconductor workflow for microbiome data analysis: from raw reads to community analyses

    Science.gov (United States)

    Callahan, Ben J.; Sankaran, Kris; Fukuyama, Julia A.; McMurdie, Paul J.; Holmes, Susan P.

    2016-01-01

    High-throughput sequencing of PCR-amplified taxonomic markers (like the 16S rRNA gene) has enabled a new level of analysis of complex bacterial communities known as microbiomes. Many tools exist to quantify and compare abundance levels or microbial composition of communities in different conditions. The sequencing reads have to be denoised and assigned to the closest taxa from a reference database. Common approaches use a notion of 97% similarity and normalize the data by subsampling to equalize library sizes. In this paper, we show that statistical models allow more accurate abundance estimates. By providing a complete workflow in R, we enable the user to do sophisticated downstream statistical analyses, including both parameteric and nonparametric methods. We provide examples of using the R packages dada2, phyloseq, DESeq2, ggplot2 and vegan to filter, visualize and test microbiome data. We also provide examples of supervised analyses using random forests, partial least squares and linear models as well as nonparametric testing using community networks and the ggnetwork package. PMID:27508062

  18. Quantitative Analysis of Lung Ultrasonography for the Detection of Community-Acquired Pneumonia: A Pilot Study

    Directory of Open Access Journals (Sweden)

    Francesco Corradi

    2015-01-01

    Full Text Available Background and Objective. Chest X-ray is recommended for routine use in patients with suspected pneumonia, but its use in emergency settings is limited. In this study, the diagnostic performance of a new method for quantitative analysis of lung ultrasonography was compared with bedside chest X-ray and visual lung ultrasonography for detection of community-acquired pneumonia, using thoracic computed tomography as a gold standard. Methods. Thirty-two spontaneously breathing patients with suspected community-acquired pneumonia, undergoing computed tomography examination, were consecutively enrolled. Each hemithorax was evaluated for the presence or absence of abnormalities by chest X-ray and quantitative or visual ultrasonography. Results. Quantitative ultrasonography showed higher sensitivity (93%, specificity (95%, and diagnostic accuracy (94% than chest X-ray (64%, 80%, and 69%, resp., visual ultrasonography (68%, 95%, and 77%, resp., or their combination (77%, 75%, and 77%, resp.. Conclusions. Quantitative lung ultrasonography was considerably more accurate than either chest X-ray or visual ultrasonography in the diagnosis of community-acquired pneumonia and it may represent a useful first-line approach for confirmation of clinical diagnosis in emergency settings.

  19. An Item Response Theory Analysis of the Community of Inquiry Scale

    Directory of Open Access Journals (Sweden)

    Mehmet Barış Horzum

    2015-04-01

    Full Text Available The aim of this study is to examine validity and reliability of Community of Inquiry Scale commonly used in online learning by the means of Item Response Theory. For this purpose, Community of Inquiry Scale version 14 is applied on 1,499 students of a distance education center’s online learning programs at a Turkish state university via internet. The collected data is analyzed by using a statistical software package. Research data is analyzed in three aspects, which are checking model assumptions, checking model-data fit and item analysis. Item and test features of the scale are examined by the means of Graded Response Theory. In order to use this model of IRT, after testing the assumptions out of the data gathered from 1,499 participants, data model compliance was examined. Following the affirmative results gathered from the examinations, all data is analyzed by using GRM. As a result of the study, the Community of Inquiry Scale adapted to Turkish by Horzum (in press is found to be reliable and valid by the means of Classical Test Theory and Item Response Theory.

  20. Bioconductor workflow for microbiome data analysis: from raw reads to community analyses.

    Science.gov (United States)

    Callahan, Ben J; Sankaran, Kris; Fukuyama, Julia A; McMurdie, Paul J; Holmes, Susan P

    2016-01-01

    High-throughput sequencing of PCR-amplified taxonomic markers (like the 16S rRNA gene) has enabled a new level of analysis of complex bacterial communities known as microbiomes. Many tools exist to quantify and compare abundance levels or microbial composition of communities in different conditions. The sequencing reads have to be denoised and assigned to the closest taxa from a reference database. Common approaches use a notion of 97% similarity and normalize the data by subsampling to equalize library sizes. In this paper, we show that statistical models allow more accurate abundance estimates. By providing a complete workflow in R, we enable the user to do sophisticated downstream statistical analyses, including both parameteric and nonparametric methods. We provide examples of using the R packages dada2, phyloseq, DESeq2, ggplot2 and vegan to filter, visualize and test microbiome data. We also provide examples of supervised analyses using random forests, partial least squares and linear models as well as nonparametric testing using community networks and the ggnetwork package. PMID:27508062

  1. Comparative pyrosequencing analysis of bacterial community change in biofilm formed on seawater reverse osmosis membrane.

    Science.gov (United States)

    Kim, In S; Lee, Jinwook; Kima, Sung-Jo; Yu, Hye-Weon; Jang, Am

    2014-01-01

    The change in bacterial community structure induced by bacterial competition and succession was investigated during seawater reverse osmosis (SWRO) in order to elucidate a possible link between the bacterial consortium on SWRO membranes and biofouling. To date, there has been no definitive characterization of the microbial diversity in SWRO in terms of distinguishing time-dependent changes in the richness or abundance of bacterial species. For bacterial succession within biofilms on the membrane surface, SWRO using a cross-flow filtration membrane test unit was operated for 5 and 100h, respectively. As results of the pyrosequencing analysis, bacterial communities differed considerably among seawater and the 5 and 100 h samples. From a total of 33,876 pyrosequences (using a 95% sequence similarity), there were less than 1% of shared species, confirming the influence of the operational time factor and lack of similarity of these communities. During SWRO operation, the abundance of Pseudomonas stutzeri BBSPN3 (GU594474) belonging to gamma-Proteobacteria suggest that biofouling of SWRO membrane might be driven by the dominant influence of a specific species. In addition, among the bacterial competition of five bacterial species (Pseudomonas aeruginosa, Bacillus sp., Rhodobacter sp., Flavobacterium sp., and Mycobacterium sp.) competing for bacterial colonization on the SWRO membrane surfaces, it was exhibited that Bacillus sp. was the most dominant. The dominant influences ofPseudomonas sp. and Bacillus sp. on biofouling during actual SWRO is decisive depending on higher removal efficiency of the seawater pretreatment. PMID:24600849

  2. Comparative pyrosequencing analysis of bacterial community change in biofilm formed on seawater reverse osmosis membrane.

    Science.gov (United States)

    Kim, In S; Lee, Jinwook; Kima, Sung-Jo; Yu, Hye-Weon; Jang, Am

    2014-01-01

    The change in bacterial community structure induced by bacterial competition and succession was investigated during seawater reverse osmosis (SWRO) in order to elucidate a possible link between the bacterial consortium on SWRO membranes and biofouling. To date, there has been no definitive characterization of the microbial diversity in SWRO in terms of distinguishing time-dependent changes in the richness or abundance of bacterial species. For bacterial succession within biofilms on the membrane surface, SWRO using a cross-flow filtration membrane test unit was operated for 5 and 100h, respectively. As results of the pyrosequencing analysis, bacterial communities differed considerably among seawater and the 5 and 100 h samples. From a total of 33,876 pyrosequences (using a 95% sequence similarity), there were less than 1% of shared species, confirming the influence of the operational time factor and lack of similarity of these communities. During SWRO operation, the abundance of Pseudomonas stutzeri BBSPN3 (GU594474) belonging to gamma-Proteobacteria suggest that biofouling of SWRO membrane might be driven by the dominant influence of a specific species. In addition, among the bacterial competition of five bacterial species (Pseudomonas aeruginosa, Bacillus sp., Rhodobacter sp., Flavobacterium sp., and Mycobacterium sp.) competing for bacterial colonization on the SWRO membrane surfaces, it was exhibited that Bacillus sp. was the most dominant. The dominant influences ofPseudomonas sp. and Bacillus sp. on biofouling during actual SWRO is decisive depending on higher removal efficiency of the seawater pretreatment.

  3. A retrospective analysis of a community-based health program in Papua New Guinea.

    Science.gov (United States)

    Ashwell, Helen Elizabeth Scott; Barclay, Lesley

    2009-06-01

    The Women and Children's Health Project was a large Australian funded aid Project that sought to improve the health of women and children in Papua New Guinea between 1998 and 2004. Community development and health promotion interventions aimed to increase community support for attended birth and children's health. Green and Kreuter's [Green, L. W. and Kreuter, M. W. (2005) Health Program Planning: An Educational and Ecological Approach, 4th edition. McGraw-Hill, New York] precede-proceed model of health program planning was applied retrospectively to critique the design, implementation and evaluation of the Project. An outcome evaluation (2006) provided data for this analysis and investigated long-term impact using a multi-methods approach. Application of the precede-proceed model was useful, but the model fails to sufficiently well identify 'inhibiting factors' as part of the educational and ecological assessment during the planning phase. Pre-defined objectives and contractually obligated outputs in a donor funded business model negatively influenced Project activity and outcomes. Despite this and the challenging context for implementation, Project interventions improved interaction between the community and health systems, and improved use of maternal child health services. PMID:19342392

  4. Community analysis of biting midges (Culicoides Latr.) on livestock farms in Denmark

    DEFF Research Database (Denmark)

    Nielsen, S. A.; Banta, G.; Rasmussen, Anne-Marie;

    2014-01-01

    This study presents descriptive statistics and community analysis of adult biting midges trapped at 16 livestock farms by means of light traps on Zealand and Lolland-Falster, Denmark. A total of 9,047 male and female Culicoides divided into 24 species, were caught. Biotic and abiotic factors...... and organic practices were tested significantly different. Total numbers of Culicoides individuals were higher on the organic farms than on the conventional farms. The larger loads of biting midges on the organic farms may be due to free-ranging animals that attracted the midges on pastures and carried them...

  5. Development of a cost-effective metabarcoding strategy for analysis of the marine phytoplankton community.

    Science.gov (United States)

    Yoon, Tae-Ho; Kang, Hye-Eun; Kang, Chang-Keun; Lee, Sang Heon; Ahn, Do-Hwan; Park, Hyun; Kim, Hyun-Woo

    2016-01-01

    We developed a cost-effective metabarcoding strategy to analyze phytoplankton community structure using the Illumina MiSeq system. The amplicons (404-411 bp) obtained by end-pairing of two reads were sufficiently long to distinguish algal species and provided barcode data equivalent to those generated with the Roche 454 system, but at less than 1/20th of the cost. The original universal primer sequences targeting the 23S rDNA region and the PCR strategy were both modified, and this resulted in higher numbers of eukaryotic algal sequences by excluding non-photosynthetic proteobacterial sequences supporting effectiveness of this strategy. The novel strategy was used to analyze the phytoplankton community structure of six water samples from the East/Japan Sea: surface and 50 m depths at coastal and open-sea sites, with collections in May and July 2014. In total, 345 operational taxonomic units (OTUs) were identified, which covered most of the prokaryotic and eukaryotic algal phyla, including Dinophyta, Rhodophyta, Ochrophyta, Chlorophyta, Streptophyta, Cryptophyta, Haptophyta, and Cyanophyta. This highlights the importance of plastid 23S primers, which perform better than the currently used 16S primers for phytoplankton community surveys. The findings also revealed that more efforts should be made to update 23S rDNA sequences as well as those of 16S in the databases. Analysis of algal proportions in the six samples showed that community structure differed depending on location, depth and season. Across the six samples evaluated, the numbers of OTUs in each phylum were similar but their relative proportions varied. This novel strategy would allow laboratories to analyze large numbers of samples at reasonable expense, whereas this has not been possible to date due to cost and time. In addition, we expect that this strategy will generate a large amount of novel data that could potentially change established methods and tools that are currently used in the realms of

  6. Development of a cost-effective metabarcoding strategy for analysis of the marine phytoplankton community.

    Science.gov (United States)

    Yoon, Tae-Ho; Kang, Hye-Eun; Kang, Chang-Keun; Lee, Sang Heon; Ahn, Do-Hwan; Park, Hyun; Kim, Hyun-Woo

    2016-01-01

    We developed a cost-effective metabarcoding strategy to analyze phytoplankton community structure using the Illumina MiSeq system. The amplicons (404-411 bp) obtained by end-pairing of two reads were sufficiently long to distinguish algal species and provided barcode data equivalent to those generated with the Roche 454 system, but at less than 1/20th of the cost. The original universal primer sequences targeting the 23S rDNA region and the PCR strategy were both modified, and this resulted in higher numbers of eukaryotic algal sequences by excluding non-photosynthetic proteobacterial sequences supporting effectiveness of this strategy. The novel strategy was used to analyze the phytoplankton community structure of six water samples from the East/Japan Sea: surface and 50 m depths at coastal and open-sea sites, with collections in May and July 2014. In total, 345 operational taxonomic units (OTUs) were identified, which covered most of the prokaryotic and eukaryotic algal phyla, including Dinophyta, Rhodophyta, Ochrophyta, Chlorophyta, Streptophyta, Cryptophyta, Haptophyta, and Cyanophyta. This highlights the importance of plastid 23S primers, which perform better than the currently used 16S primers for phytoplankton community surveys. The findings also revealed that more efforts should be made to update 23S rDNA sequences as well as those of 16S in the databases. Analysis of algal proportions in the six samples showed that community structure differed depending on location, depth and season. Across the six samples evaluated, the numbers of OTUs in each phylum were similar but their relative proportions varied. This novel strategy would allow laboratories to analyze large numbers of samples at reasonable expense, whereas this has not been possible to date due to cost and time. In addition, we expect that this strategy will generate a large amount of novel data that could potentially change established methods and tools that are currently used in the realms of

  7. Development of a cost-effective metabarcoding strategy for analysis of the marine phytoplankton community

    Science.gov (United States)

    Yoon, Tae-Ho; Kang, Hye-Eun; Kang, Chang-Keun; Lee, Sang Heon; Ahn, Do-Hwan

    2016-01-01

    We developed a cost-effective metabarcoding strategy to analyze phytoplankton community structure using the Illumina MiSeq system. The amplicons (404–411 bp) obtained by end-pairing of two reads were sufficiently long to distinguish algal species and provided barcode data equivalent to those generated with the Roche 454 system, but at less than 1/20th of the cost. The original universal primer sequences targeting the 23S rDNA region and the PCR strategy were both modified, and this resulted in higher numbers of eukaryotic algal sequences by excluding non-photosynthetic proteobacterial sequences supporting effectiveness of this strategy. The novel strategy was used to analyze the phytoplankton community structure of six water samples from the East/Japan Sea: surface and 50 m depths at coastal and open-sea sites, with collections in May and July 2014. In total, 345 operational taxonomic units (OTUs) were identified, which covered most of the prokaryotic and eukaryotic algal phyla, including Dinophyta, Rhodophyta, Ochrophyta, Chlorophyta, Streptophyta, Cryptophyta, Haptophyta, and Cyanophyta. This highlights the importance of plastid 23S primers, which perform better than the currently used 16S primers for phytoplankton community surveys. The findings also revealed that more efforts should be made to update 23S rDNA sequences as well as those of 16S in the databases. Analysis of algal proportions in the six samples showed that community structure differed depending on location, depth and season. Across the six samples evaluated, the numbers of OTUs in each phylum were similar but their relative proportions varied. This novel strategy would allow laboratories to analyze large numbers of samples at reasonable expense, whereas this has not been possible to date due to cost and time. In addition, we expect that this strategy will generate a large amount of novel data that could potentially change established methods and tools that are currently used in the realms of

  8. 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 (α = .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

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

    Science.gov (United States)

    Rheinländer, Thilde; Xuan, Le Thi Thanh; Hoat, Luu Ngoc; Dalsgaard, Anders; Konradsen, Flemming

    2012-10-01

    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

  10. Microbial community analysis of an Alabama coastal salt marsh impacted by the Deepwater Horizon Oil Spill

    Science.gov (United States)

    Beazley, M. J.; Martinez, R.; Rajan, S.; Powell, J.; Piceno, Y.; Tom, L.; Andersen, G. L.; Hazen, T. C.; Van Nostrand, J. D.; Zhou, J.; Mortazavi, B.; Sobecky, P. A.

    2011-12-01

    Microbial community responses of an Alabama coastal salt marsh environment to the Deepwater Horizon oil spill were studied by 16S rRNA (PhyloChip) and functional gene (GeoChip) microarray-based analysis. Oil and tar balls associated with the oil spill arrived along the Alabama coast in June 2010. Marsh and inlet sediment samples collected in June, July, and September 2010 from a salt marsh ecosystem at Point Aux Pines Alabama were analyzed to determine if bacterial community structure changed as a result of oil perturbation. Sediment total petroleum hydrocarbon (TPH) concentrations ranged from below detection to 189 mg kg-1 and were randomly dispersed throughout the salt marsh sediments. Total DNA extracted from sediment and particulates were used for PhyloChip and GeoChip hybridization. A total of 4000 to 8000 operational taxonomic units (OTUs) were detected in marsh and inlet samples. Distinctive changes in the number of detectable OTUs were observed between June, July, and September 2010. Surficial inlet sediments demonstrated a significant increase in the total number of OTUs between June and September that correlated with TPH concentrations. The most significant increases in bacterial abundance were observed in the phyla Actinobacteria, Firmicutes, Gemmatimonadetes, Proteobacteria, and Verrucomicrobia. Bacterial richness in marsh sediments also correlated with TPH concentrations with significant changes primarily in Acidobacteria, Actinobacteria, Firmicutes, Fusobacteria, Nitrospirae, and Proteobacteria. GeoChip microarray analysis detected 5000 to 8300 functional genes in marsh and inlet samples. Surficial inlet sediments demonstrated distinctive increases in the number of detectable genes and gene signal intensities in July samples compared to June. Signal intensities increased (> 1.5-fold) in genes associated with petroleum degradation. Genes related to metal resistance, stress, and carbon cycling also demonstrated increases in oiled sediments. This study

  11. 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. δ13C 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

  12. 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

  13. Metagenomic analysis reveals symbiotic relationship among bacteria in Microcystis-dominated community

    Directory of Open Access Journals (Sweden)

    Meili eXie

    2016-02-01

    Full Text Available Microcystis bloom, a cyanobacterial mass occurrence often found in eutrophicated water bodies, is one of the most serious threats to freshwater ecosystems worldwide. In nature, Microcystis forms aggregates or colonies that contain heterotrophic bacteria. The Microcystis-bacteria colonies were persistent even when they were maintained in lab culture for a long period. The relationship between Microcystis and the associated bacteria was investigated by a metagenomic approach in this study. We developed a visualization-guided method of binning for genome assembly after total colony DNA sequencing. We found that the method was effective in grouping sequences and it did not require reference genome sequence. Individual genomes of the colony bacteria were obtained and they provided valuable insights into microbial community structures. Analysis of metabolic pathways based on these genomes revealed that while all heterotrophic bacteria were dependent upon Microcystis for carbon and energy, Vitamin B12 biosynthesis, which is required for growth by Microcystis, was accomplished in a cooperative fashion among the bacteria. Our analysis also suggests that individual bacteria in the colony community contributed a complete pathway for degradation of benzoate, which is inhibitory to the cyanobacterial growth, and its ecological implication for Microcystis bloom is discussed.

  14. 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.

  15. End to End Digitisation and Analysis of Three-Dimensional Coral Models, from Communities to Corallites.

    Science.gov (United States)

    Gutierrez-Heredia, Luis; Benzoni, Francesca; Murphy, Emma; Reynaud, Emmanuel G

    2016-01-01

    Coral reefs hosts nearly 25% of all marine species and provide food sources for half a billion people worldwide while only a very small percentage have been surveyed. Advances in technology and processing along with affordable underwater cameras and Internet availability gives us the possibility to provide tools and softwares to survey entire coral reefs. Holistic ecological analyses of corals require not only the community view (10s to 100s of meters), but also the single colony analysis as well as corallite identification. As corals are three-dimensional, classical approaches to determine percent cover and structural complexity across spatial scales are inefficient, time-consuming and limited to experts. Here we propose an end-to-end approach to estimate these parameters using low-cost equipment (GoPro, Canon) and freeware (123D Catch, Meshmixer and Netfabb), allowing every community to participate in surveys and monitoring of their coral ecosystem. We demonstrate our approach on 9 species of underwater colonies in ranging size and morphology. 3D models of underwater colonies, fresh samples and bleached skeletons with high quality texture mapping and detailed topographic morphology were produced, and Surface Area and Volume measurements (parameters widely used for ecological and coral health studies) were calculated and analysed. Moreover, we integrated collected sample models with micro-photogrammetry models of individual corallites to aid identification and colony and polyp scale analysis. PMID:26901845

  16. 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.; Bardgett, R.D.;

    2002-01-01

    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...... 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...

  17. FoodMicrobionet: A database for the visualisation and exploration of food bacterial communities based on network analysis.

    Science.gov (United States)

    Parente, Eugenio; Cocolin, Luca; De Filippis, Francesca; Zotta, Teresa; Ferrocino, Ilario; O'Sullivan, Orla; Neviani, Erasmo; De Angelis, Maria; Cotter, Paul D; Ercolini, Danilo

    2016-02-16

    Amplicon targeted high-throughput sequencing has become a popular tool for the culture-independent analysis of microbial communities. Although the data obtained with this approach are portable and the number of sequences available in public databases is increasing, no tool has been developed yet for the analysis and presentation of data obtained in different studies. This work describes an approach for the development of a database for the rapid exploration and analysis of data on food microbial communities. Data from seventeen studies investigating the structure of bacterial communities in dairy, meat, sourdough and fermented vegetable products, obtained by 16S rRNA gene targeted high-throughput sequencing, were collated and analysed using Gephi, a network analysis software. The resulting database, which we named FoodMicrobionet, was used to analyse nodes and network properties and to build an interactive web-based visualisation. The latter allows the visual exploration of the relationships between Operational Taxonomic Units (OTUs) and samples and the identification of core- and sample-specific bacterial communities. It also provides additional search tools and hyperlinks for the rapid selection of food groups and OTUs and for rapid access to external resources (NCBI taxonomy, digital versions of the original articles). Microbial interaction network analysis was carried out using CoNet on datasets extracted from FoodMicrobionet: the complexity of interaction networks was much lower than that found for other bacterial communities (human microbiome, soil and other environments). This may reflect both a bias in the dataset (which was dominated by fermented foods and starter cultures) and the lower complexity of food bacterial communities. Although some technical challenges exist, and are discussed here, the net result is a valuable tool for the exploration of food bacterial communities by the scientific community and food industry. PMID:26704067

  18. FoodMicrobionet: A database for the visualisation and exploration of food bacterial communities based on network analysis.

    Science.gov (United States)

    Parente, Eugenio; Cocolin, Luca; De Filippis, Francesca; Zotta, Teresa; Ferrocino, Ilario; O'Sullivan, Orla; Neviani, Erasmo; De Angelis, Maria; Cotter, Paul D; Ercolini, Danilo

    2016-02-16

    Amplicon targeted high-throughput sequencing has become a popular tool for the culture-independent analysis of microbial communities. Although the data obtained with this approach are portable and the number of sequences available in public databases is increasing, no tool has been developed yet for the analysis and presentation of data obtained in different studies. This work describes an approach for the development of a database for the rapid exploration and analysis of data on food microbial communities. Data from seventeen studies investigating the structure of bacterial communities in dairy, meat, sourdough and fermented vegetable products, obtained by 16S rRNA gene targeted high-throughput sequencing, were collated and analysed using Gephi, a network analysis software. The resulting database, which we named FoodMicrobionet, was used to analyse nodes and network properties and to build an interactive web-based visualisation. The latter allows the visual exploration of the relationships between Operational Taxonomic Units (OTUs) and samples and the identification of core- and sample-specific bacterial communities. It also provides additional search tools and hyperlinks for the rapid selection of food groups and OTUs and for rapid access to external resources (NCBI taxonomy, digital versions of the original articles). Microbial interaction network analysis was carried out using CoNet on datasets extracted from FoodMicrobionet: the complexity of interaction networks was much lower than that found for other bacterial communities (human microbiome, soil and other environments). This may reflect both a bias in the dataset (which was dominated by fermented foods and starter cultures) and the lower complexity of food bacterial communities. Although some technical challenges exist, and are discussed here, the net result is a valuable tool for the exploration of food bacterial communities by the scientific community and food industry.

  19. The Structure of Witnessed Community Violence amongst Urban African American Mothers: Latent Class Analysis of a Community Sample

    OpenAIRE

    Ronzio, Cynthia R.; Mitchell, Stephanie J.; Jichuan Wang

    2011-01-01

    The prevalence of witnessed community violence (WCV) amongst urban populations in the USA is striking. WCV can be harmful to one's psychological health, and for mothers, the consequences may be more far-reaching as their mental health affects parenting and child development. This study used telephone interviews (n = 209) to explore the patterns and covariates of WCV amongst a sample of urban, African American mothers of infants. Mothers reported whether they had witnessed 11 different forms o...

  20. 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.

  1. 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…

  2. Bioconductor workflow for microbiome data analysis: from raw reads to community analyses [version 1; referees: 2 approved

    OpenAIRE

    Callahan, Ben J.; Kris Sankaran; Fukuyama, Julia A.; McMurdie, Paul J.; Holmes, Susan P

    2016-01-01

    High-throughput sequencing of PCR-amplified taxonomic markers (like the 16S rRNA gene) has enabled a new level of analysis of complex bacterial communities known as microbiomes. Many tools exist to quantify and compare abundance levels or microbial composition of communities in different conditions. The sequencing reads have to be denoised and assigned to the closest taxa from a reference database. Common approaches use a notion of 97% similarity and normalize the data by subsampling to equal...

  3. Metagenome-scale analysis yields insights into the structure and function of microbial communities in a copper bioleaching heap

    OpenAIRE

    Zhang, Xian; Niu, Jiaojiao; Liang, Yili; Liu, Xueduan; Yin, Huaqun

    2016-01-01

    Background Metagenomics allows us to acquire the potential resources from both cultivatable and uncultivable microorganisms in the environment. Here, shotgun metagenome sequencing was used to investigate microbial communities from the surface layer of low grade copper tailings that were industrially bioleached at the Dexing Copper Mine, China. A bioinformatics analysis was further performed to elucidate structural and functional properties of the microbial communities in a copper bioleaching ...

  4. Ammonia biofiltration and community analysis of ammonia-oxidizing bacteria in biofilters.

    Science.gov (United States)

    Jun, Yin; Wenfeng, Xu

    2009-09-01

    Biological removal of ammonia was investigated using compost and sludge as packing materials in laboratory-scale biofilters. The aim of this study is to characterize the composition of ammonia-oxidizing bacteria (AOB) in two biofilters designed to remove ammonia. Experimental tests and measurements included analysis of removal efficiency and metabolic products. The inlet concentration of ammonia applied was 20-100 mg m(-3). Removal efficiencies of BFC and BFS were in the range of 97-99% and 95-99%, respectively. Periodic analysis of the biofilter packing materials showed ammonia was removed from air stream by nitrification and by the improved absorption of NH(3) in the resultant acidity. Nitrate was the dominant product of NH(3) transformation. Changes in the composition of AOB were examined by using nested PCR, denaturing gradient gel electrophoresis (DGGE) and sequencing of DGGE bands. DGGE analysis of biofilter samples revealed that shifts in the community structure of AOB were observed in the experiment; however, the idle phase did not cause the structural shift of AOB. Phylogenetic analysis revealed the population of AOB showed Nitrosospira sp. remains the predominant population in BFC, while Nitrosomonas sp. is the predominant population in BFS.

  5. Segmental analysis of thallium 201 myocardial perfusion scintigraphy: its value in a community hospital.

    Science.gov (United States)

    Tendera, M; Campbell, W B; Moyers, J R

    1984-08-01

    In a community hospital, we correlated results of thallium 201 myocardial scintigraphy with coronary arteriographic data in 79 patients. Scintigraphy was 92% sensitive and 85% specific in detecting coronary artery disease. There were no false-negative scintigrams in patients with double or triple vessel disease. The most important factors determining sensitivity of the method in detecting individual coronary stenoses were (1) location of the stenosis in the coronary tree, (2) number of vessels involved, and (3) degree of obstruction. Higher prevalence of perfusion defects in areas of 90% to 99% stenosis as compared with 50% to 89% lesions was of borderline statistical significance (86% vs 59%; P = .06). Myocardial perfusion scintigraphy was unable to predict the number of significantly narrowed coronary vessels. Predictive value of a perfusion defect for a significant coronary stenosis was 87% for anterior, 88% for septal, 90% for lateral, 89% for posterior, and 78% for inferior segment. We conclude that segmental analysis of myocardial scintigrams may be of value in a community hospital. PMID:6463700

  6. 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 γ-proteobacteria; 16.6% of β-proteobacteria; 8.3% of α-proteobacteria), while 33.3% were of uncultured bacteria and 16.6% were of firmicutes.

  7. Comparison of DNA extraction methods in analysis of salivary bacterial communities.

    Science.gov (United States)

    Lazarevic, Vladimir; Gaïa, Nadia; Girard, Myriam; François, Patrice; Schrenzel, Jacques

    2013-01-01

    Culture-independent high-throughput sequencing-based methods are widely used to study bacterial communities. Although these approaches are superior to traditional culture-based methods, they introduce bias at the experimental and bioinformatics levels. We assessed the diversity of the human salivary microbiome by pyrosequencing of the 16S rDNA V1-3 amplicons using metagenomic DNA extracted by two different protocols: a simple proteinase K digestion without a subsequent DNA clean-up step, and a bead-beating mechanical lysis protocol followed by column DNA purification. A high degree of congruence was found between the two extraction methods, most notably in regard to the microbial community composition. The results showed that for a given bioinformatics pipeline, all the taxa with an average proportion >0.12% in samples processed using one extraction method were also detected in samples extracted using the other method. The same taxa tended to be abundant and frequent for both extraction methods. The relative abundance of sequence reads assigned to the phyla Actinobacteria, Spirochaetes, TM7, Synergistetes, and Tenericutes was significantly higher in the mechanically-treated samples than in the enzymatically-treated samples, whereas the phylum Firmicutes showed the opposite pattern. No significant differences in diversity indices were found between the extraction methods, although the mechanical lysis method revealed higher operational taxonomic unit richness. Differences between the extraction procedures outweighed the variations due to the bioinformatics analysis pipelines used.

  8. Comparison of DNA extraction methods in analysis of salivary bacterial communities.

    Directory of Open Access Journals (Sweden)

    Vladimir Lazarevic

    Full Text Available Culture-independent high-throughput sequencing-based methods are widely used to study bacterial communities. Although these approaches are superior to traditional culture-based methods, they introduce bias at the experimental and bioinformatics levels. We assessed the diversity of the human salivary microbiome by pyrosequencing of the 16S rDNA V1-3 amplicons using metagenomic DNA extracted by two different protocols: a simple proteinase K digestion without a subsequent DNA clean-up step, and a bead-beating mechanical lysis protocol followed by column DNA purification. A high degree of congruence was found between the two extraction methods, most notably in regard to the microbial community composition. The results showed that for a given bioinformatics pipeline, all the taxa with an average proportion >0.12% in samples processed using one extraction method were also detected in samples extracted using the other method. The same taxa tended to be abundant and frequent for both extraction methods. The relative abundance of sequence reads assigned to the phyla Actinobacteria, Spirochaetes, TM7, Synergistetes, and Tenericutes was significantly higher in the mechanically-treated samples than in the enzymatically-treated samples, whereas the phylum Firmicutes showed the opposite pattern. No significant differences in diversity indices were found between the extraction methods, although the mechanical lysis method revealed higher operational taxonomic unit richness. Differences between the extraction procedures outweighed the variations due to the bioinformatics analysis pipelines used.

  9. Clustering drug-drug interaction networks with energy model layouts: community analysis and drug repurposing

    Science.gov (United States)

    Udrescu, Lucreţia; Sbârcea, Laura; Topîrceanu, Alexandru; Iovanovici, Alexandru; Kurunczi, Ludovic; Bogdan, Paul; Udrescu, Mihai

    2016-01-01

    Analyzing drug-drug interactions may unravel previously unknown drug action patterns, leading to the development of new drug discovery tools. We present a new approach to analyzing drug-drug interaction networks, based on clustering and topological community detection techniques that are specific to complex network science. Our methodology uncovers functional drug categories along with the intricate relationships between them. Using modularity-based and energy-model layout community detection algorithms, we link the network clusters to 9 relevant pharmacological properties. Out of the 1141 drugs from the DrugBank 4.1 database, our extensive literature survey and cross-checking with other databases such as Drugs.com, RxList, and DrugBank 4.3 confirm the predicted properties for 85% of the drugs. As such, we argue that network analysis offers a high-level grasp on a wide area of pharmacological aspects, indicating possible unaccounted interactions and missing pharmacological properties that can lead to drug repositioning for the 15% drugs which seem to be inconsistent with the predicted property. Also, by using network centralities, we can rank drugs according to their interaction potential for both simple and complex multi-pathology therapies. Moreover, our clustering approach can be extended for applications such as analyzing drug-target interactions or phenotyping patients in personalized medicine applications. PMID:27599720

  10. Molecular analysis of Staphylococcus epidermidis strains isolated from community and hospital environments in China.

    Directory of Open Access Journals (Sweden)

    Xin Du

    Full Text Available BACKGROUND: Staphylococcus epidermidis is a common cause of nosocomial infections worldwide. This study analyzed the differences in genetic endowment and clonal lineages with pathogenesis and resistance traits of S. epidermidis isolates collected from community and hospital environments (patients and healthcare staff of the same ecological niche, time period, and geographical location in China. METHODOLOGY/PRINCIPAL FINDINGS: Molecular epidemiology and population analysis showed that nasal colonization rates of S. epidermidis in the community of Shanghai area of China and in healthcare personnel were 44.8% (methicillin-resistant S. epidermidis, MRSE: 17.2% and 61.3% (MRSE: 30.0%, respectively. 86.7% of clinical isolates were MRSE. Among the strains studied, 44 sequence types (STs were identified with 91.7% belonging to clonal complex 2 (CC2. Only 40.8% isolates from patients were also found in healthy individuals. MRSE-ST2-SCCmecIII was the predominant clone in clinical isolates, almost resistant to all antibiotics tested. Biofilm-related genes IS256 and icaA were detected in majority of the predominant clinical MRSE-ST2 clone with a 40.5% biofilm-positive rate. No ST2 isolate was found in community setting. We found a high prevalence of arginine catabolic mobile element (ACME (74.1%. The prevalence of ACME-arc and ACME-opp3 clusters was 71.6% and 32.4%, respectively. Methicillin-sensitive S. epidermidis (MSSE isolates harbored more ACME (83.3% than MRSE isolates (67.7%, and there was no association between ACME and SCCmec types. An association was found between low-level ACME presence and invasive infections. CONCLUSIONS/SIGNIFICANCE: We observed a high level of diversity within S. epidermidis in this study, with CC2 as the dominant clonal complex in both community and hospital settings. Only 40.8% of the isolates from patients were also found in healthy individuals. Contrary to that biofilm formation and multiple antibiotic resistance were

  11. Disturbance, Response, and Persistence in Self-Organized Forested Communities: Analysis of Robustness and Resilience in Five Communities in Southern Indiana

    Directory of Open Access Journals (Sweden)

    Burney Fischer

    2010-12-01

    Full Text Available We develop an analytic framework for the analysis of robustness in social-ecological systems (SESs over time. We argue that social robustness is affected by the disturbances that communities face and the way they respond to them. Using Ostrom's ontological framework for SESs, we classify the major factors influencing the disturbances and responses faced by five Indiana intentional communities over a 15-year time frame. Our empirical results indicate that operational and collective-choice rules, leadership and entrepreneurship, monitoring and sanctioning, economic values, number of users, and norms/social capital are key variables that need to be at the core of future theoretical work on robustness of self-organized systems.

  12. Place-classification analysis of community vulnerability to near-field tsunami threats in the U.S. Pacific Northwest

    Science.gov (United States)

    Wood, N. J.; Spielman, S.

    2012-12-01

    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 tsunamis that begin to arrive in a matter of minutes following a major Cascadia subduction zone (CSZ) earthquake. Previous research has documented the residents, employees, tourists at public venues, customers at local businesses, and vulnerable populations at dependent-care facilities that are in CSZ-related tsunami-prone areas of northern California, Oregon, and the open-ocean coast of Washington. Community inventories of demographic attributes and other characteristics of the at-risk population have helped emergency managers to develop preparedness and outreach efforts. Although useful for distinct risk-reduction issues, these data can be difficult to fully appreciate holistically given the large number of community attributes. This presentation summarizes analytical efforts to classify communities with similar characteristics of community exposure 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, fall into several categories, including 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. As we were unsure of the number of different types of communities, 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. Ultimately we selected class solutions that provided the appropriate balance between parsimony and model fit. The goal of the exposure classification is to provide emergency managers with

  13. Isolation and Phylogenetic Analysis of Thermophile Community Within Tanjung Sakti Hot Spring, South Sumatera, Indonesia

    Directory of Open Access Journals (Sweden)

    Heni Yohandini

    2015-07-01

    Full Text Available A community of thermophiles within Tanjung Sakti Hot Spring (South Sumatera have been cultivated and identified based on 16S ribosomal RNA gene sequence. The hot spring has temperature 80C-91C and pH 7-8. We used a simple method for culturing the microbes, by enriching the spring water with nutrient broth media. Phylogenetic analysis showed that the method could recover microbes, which clustered within four distinct taxonomic groups: Anoxybacillus, Geobacillus, Brevibacillus, and Bacillus. These microbes closely related to Anoxybacillus rupiensis, Anoxybacillus flavithermus, Geobacillus pallidus, Brevibacillus thermoruber, Bacillus licheniformis, and Bacillus thermoamylovorans. The 16S ribosomal RNA gene sequence of one isolate only had 96% similarity with Brevibacillus sequence in GenBank.

  14. Analysis of Heat Environment Indexes Using Integrated Remote Sensing and Site Measurement Techniques in a Community

    Institute of Scientific and Technical Information of China (English)

    Kun Li; Jian Kang; YeHao Song; Dong Jiang

    2014-01-01

    Remote sensing and on⁃site measurement are used to determine the heat environment within a community, and are compared the differences for heat analysis. The two methods perform differently for various underlying surfaces. The individual methods can detect different aspects of the heat environment, which used in combination are useful for heat island research. The differences in estimated air and surface temperatures are smaller in open space and more obvious for vegetated surfaces. Ventilation does not affect the difference between air and surface temperature in open areas, and the vegetation surface and shading moderates surface temperature more effectively than the water surface; The forest is a type of underlying surface with heat comfortable, in which the feeling of air temperature is much difference to the structure of heat environment that should be survey and detected separately. The two methods can be used to study different aspects of the heat environment, thus forming a comprehensive approach for planners in urban and rural spaces.

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

    DEFF Research Database (Denmark)

    Smith, Birgitte; Bodé, Susan; Petersen, Bodil L.;

    2011-01-01

    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......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...

  16. Soil-specific limitations for access and analysis of soil microbial communities by metagenomics.

    Science.gov (United States)

    Lombard, Nathalie; Prestat, Emmanuel; van Elsas, Jan Dirk; Simonet, Pascal

    2011-10-01

    Metagenomics approaches represent an important way to acquire information on the microbial communities present in complex environments like soil. However, to what extent do these approaches provide us with a true picture of soil microbial diversity? Soil is a challenging environment to work with. Its physicochemical properties affect microbial distributions inside the soil matrix, metagenome extraction and its subsequent analyses. To better understand the bias inherent to soil metagenome 'processing', we focus on soil physicochemical properties and their effects on the perceived bacterial distribution. In the light of this information, each step of soil metagenome processing is then discussed, with an emphasis on strategies for optimal soil sampling. Then, the interaction of cells and DNA with the soil matrix and the consequences for microbial DNA extraction are examined. Soil DNA extraction methods are compared and the veracity of the microbial profiles obtained is discussed. Finally, soil metagenomic sequence analysis and exploitation methods are reviewed.

  17. A social network analysis of Twitter: Mapping the digital humanities community

    Directory of Open Access Journals (Sweden)

    Martin Grandjean

    2016-12-01

    Full Text Available Defining digital humanities might be an endless debate if we stick to the discussion about the boundaries of this concept as an academic “discipline”. In an attempt to concretely identify this field and its actors, this paper shows that it is possible to analyse them through Twitter, a social media widely used by this “community of practice”. Based on a network analysis of 2,500 users identified as members of this movement, the visualisation of the “who’s following who?” graph allows us to highlight the structure of the network’s relationships, and identify users whose position is particular. Specifically, we show that linguistic groups are key factors to explain clustering within a network whose characteristics look similar to a small world.

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

    DEFF Research Database (Denmark)

    Smith, Birgitte; Bodé, Susan; Petersen, Bodil L.;

    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...... 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...

  19. An analysis of a low-energy, low-water use community in Mexico City

    Science.gov (United States)

    Bermudez Alcocer, Jose Luis

    This study investigated how to determine a potential scenario to reduce energy, water and transportation use in Mexico City by implementing low-energy, low-water use communities. The proposed mixed-use community has multi-family apartments and a small grocery store. The research included the analysis of: case studies, energy simulation, and hand calculations for water, transportation and cost analysis. The previous case studies reviewed include: communities in Mexico City, Mexico, Austin, Texas, Phoenix, Arizona, New York City, New York and San Diego, California in terms of successful low-energy, low-water use projects. The analysis and comparison of these centers showed that the Multifamiliar Miguel Aleman is an excellent candidate to be examined for Mexico City. This technical potential study evaluated energy conserving measures such as low-energy appliances and efficient lighting that could be applied to the apartments in Mexico City to reduce energy-use. The use of the simulations and manual calculations showed that the application of the mixed-use concept was successful in reducing the energy and water use and the corresponding carbon footprint. Finally, this technical potential study showed taking people out of their cars as a result of the presence of the on-site grocery store, small recreation center and park on the ground floor also reduced their overall transportation energy-use. The improvement of the whole community (i.e., apartments plus grocery store) using energy-efficient measures provided a reduction of 70 percent of energy from the base-case. In addition a 69 percent reduction in water-use was achieved by using water-saving fixtures and greywater reuse technologies for the complex. The combination of high-efficiency automobiles and the presence of the on-site grocery store, small recreation center and park potentially reduced the transportation energy-use by 65 percent. The analysis showed an energy cost reduction of 82 percent reduction for

  20. Social acceptance of wind energy development and planning in rural communities of Australia: A consumer analysis

    International Nuclear Information System (INIS)

    Social acceptance is necessary for widespread adoption of new renewable energy technologies. A lack of social acceptance by local community residents is a barrier to increasing the renewable energy mix and targets in Australia. This study empirically evaluated predictor importance of key constructs of social acceptance, using responses from a sample of 226 survey respondents in Australia. Regression analysis suggest that ‘Concerns with wind turbines’ was the predictor most strongly correlated with Social Acceptance, followed by ‘Annoyance with wind turbines’, and then ‘Consultation with stakeholders’. Implications of the study and recommendations for consideration by various interest groups (such as policy makers, and potential entrepreneurs) are discussed. This research contributes to theory building rather than theory testing of social acceptance of wind energy development

  1. Bovine Genome Database: supporting community annotation and analysis of the Bos taurus genome

    Directory of Open Access Journals (Sweden)

    Childs Kevin L

    2010-11-01

    Full Text Available Abstract Background A goal of the Bovine Genome Database (BGD; http://BovineGenome.org has been to support the Bovine Genome Sequencing and Analysis Consortium (BGSAC in the annotation and analysis of the bovine genome. We were faced with several challenges, including the need to maintain consistent quality despite diversity in annotation expertise in the research community, the need to maintain consistent data formats, and the need to minimize the potential duplication of annotation effort. With new sequencing technologies allowing many more eukaryotic genomes to be sequenced, the demand for collaborative annotation is likely to increase. Here we present our approach, challenges and solutions facilitating a large distributed annotation project. Results and Discussion BGD has provided annotation tools that supported 147 members of the BGSAC in contributing 3,871 gene models over a fifteen-week period, and these annotations have been integrated into the bovine Official Gene Set. Our approach has been to provide an annotation system, which includes a BLAST site, multiple genome browsers, an annotation portal, and the Apollo Annotation Editor configured to connect directly to our Chado database. In addition to implementing and integrating components of the annotation system, we have performed computational analyses to create gene evidence tracks and a consensus gene set, which can be viewed on individual gene pages at BGD. Conclusions We have provided annotation tools that alleviate challenges associated with distributed annotation. Our system provides a consistent set of data to all annotators and eliminates the need for annotators to format data. Involving the bovine research community in genome annotation has allowed us to leverage expertise in various areas of bovine biology to provide biological insight into the genome sequence.

  2. Improving financial performance by modeling and analysis of radiology procedure scheduling at a large community hospital.

    Science.gov (United States)

    Lu, Lingbo; Li, Jingshan; Gisler, Paula

    2011-06-01

    Radiology tests, such as MRI, CT-scan, X-ray and ultrasound, are cost intensive and insurance pre-approvals are necessary to get reimbursement. In some cases, tests may be denied for payments by insurance companies due to lack of pre-approvals, inaccurate or missing necessary information. This can lead to substantial revenue losses for the hospital. In this paper, we present a simulation study of a centralized scheduling process for outpatient radiology tests at a large community hospital (Central Baptist Hospital in Lexington, Kentucky). Based on analysis of the central scheduling process, a simulation model of information flow in the process has been developed. Using such a model, the root causes of financial losses associated with errors and omissions in this process were identified and analyzed, and their impacts were quantified. In addition, "what-if" analysis was conducted to identify potential process improvement strategies in the form of recommendations to the hospital leadership. Such a model provides a quantitative tool for continuous improvement and process control in radiology outpatient test scheduling process to reduce financial losses associated with process error. This method of analysis is also applicable to other departments in the hospital. PMID:20703560

  3. Metagenomic Analysis of the Indian Ocean Picocyanobacterial Community: Structure, Potential Function and Evolution.

    Directory of Open Access Journals (Sweden)

    Beatriz Díez

    Full Text Available Unicellular cyanobacteria are ubiquitous photoautotrophic microbes that contribute substantially to global primary production. Picocyanobacteria such as Synechococcus and Prochlorococcus depend on chlorophyll a-binding protein complexes to capture light energy. In addition, Synechococcus has accessory pigments organized into phycobilisomes, and Prochlorococcus contains chlorophyll b. Across a surface water transect spanning the sparsely studied tropical Indian Ocean, we examined Synechococcus and Prochlorococcus occurrence, taxonomy and habitat preference in an evolutionary context. Shotgun sequencing of size fractionated microbial communities from 0.1 μm to 20 μm and subsequent phylogenetic analysis indicated that cyanobacteria account for up to 15% of annotated reads, with the genera Prochlorococcus and Synechococcus comprising 90% of the cyanobacterial reads, even in the largest size fraction (3.0-20 mm. Phylogenetic analyses of cyanobacterial light-harvesting genes (chl-binding pcb/isiA, allophycocyanin (apcAB, phycocyanin (cpcAB and phycoerythin (cpeAB mostly identified picocyanobacteria clades comprised of overlapping sequences obtained from Indian Ocean, Atlantic and/or Pacific Oceans samples. Habitat reconstructions coupled with phylogenetic analysis of the Indian Ocean samples suggested that large Synechococcus-like ancestors in coastal waters expanded their ecological niche towards open oligotrophic waters in the Indian Ocean through lineage diversification and associated streamlining of genomes (e.g. loss of phycobilisomes and acquisition of Chl b; resulting in contemporary small celled Prochlorococcus. Comparative metagenomic analysis with picocyanobacteria populations in other oceans suggests that this evolutionary scenario may be globally important.

  4. Metagenomic Analysis of the Indian Ocean Picocyanobacterial Community: Structure, Potential Function and Evolution.

    Science.gov (United States)

    Díez, Beatriz; Nylander, Johan A A; Ininbergs, Karolina; Dupont, Christopher L; Allen, Andrew E; Yooseph, Shibu; Rusch, Douglas B; Bergman, Birgitta

    2016-01-01

    Unicellular cyanobacteria are ubiquitous photoautotrophic microbes that contribute substantially to global primary production. Picocyanobacteria such as Synechococcus and Prochlorococcus depend on chlorophyll a-binding protein complexes to capture light energy. In addition, Synechococcus has accessory pigments organized into phycobilisomes, and Prochlorococcus contains chlorophyll b. Across a surface water transect spanning the sparsely studied tropical Indian Ocean, we examined Synechococcus and Prochlorococcus occurrence, taxonomy and habitat preference in an evolutionary context. Shotgun sequencing of size fractionated microbial communities from 0.1 μm to 20 μm and subsequent phylogenetic analysis indicated that cyanobacteria account for up to 15% of annotated reads, with the genera Prochlorococcus and Synechococcus comprising 90% of the cyanobacterial reads, even in the largest size fraction (3.0-20 mm). Phylogenetic analyses of cyanobacterial light-harvesting genes (chl-binding pcb/isiA, allophycocyanin (apcAB), phycocyanin (cpcAB) and phycoerythin (cpeAB)) mostly identified picocyanobacteria clades comprised of overlapping sequences obtained from Indian Ocean, Atlantic and/or Pacific Oceans samples. Habitat reconstructions coupled with phylogenetic analysis of the Indian Ocean samples suggested that large Synechococcus-like ancestors in coastal waters expanded their ecological niche towards open oligotrophic waters in the Indian Ocean through lineage diversification and associated streamlining of genomes (e.g. loss of phycobilisomes and acquisition of Chl b); resulting in contemporary small celled Prochlorococcus. Comparative metagenomic analysis with picocyanobacteria populations in other oceans suggests that this evolutionary scenario may be globally important. PMID:27196065

  5. 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.

  6. 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; Ziegler, Anja Sloth;

    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...

  7. Back to Basics – The Influence of DNA Extraction and Primer Choice on Phylogenetic Analysis of Activated Sludge Communities

    DEFF Research Database (Denmark)

    Albertsen, Mads; Karst, Søren Michael; Ziegler, Anja Sloth;

    2015-01-01

    DNA extraction and primer choice have a large effect on the observed community structure in allmicrobial amplicon sequencing analyses. Although the biases are well known, no com- prehensive analysis has been conducted in activated sludge communities. In this study we systematically explored...... and metatranscriptomics. Quantitative fluorescence in situ hybridization was used as a DNA extraction-independent method for qualitative comparison. In general, an effect on the observed community was found on all parameters tested, although bead beating and primer choice had the largest effect. The effect of bead...... the impact of a number of parameters on the observed microbial community: bead beating intensity, primer choice, extracellular DNA removal, and various PCR settings. In total, 176 samples were subjected to 16S rRNA amplicon sequencing, and selected samples were investigated throughmetagenomics...

  8. A Statistical Analysis of the Community Structure of a Weighted Collaboration Network Among Rappers

    CERN Document Server

    Smith, R D

    2006-01-01

    The social network formed by the collaboration between rappers is studied using standard statistical techniques for analyzing complex networks. In addition, the community structure of the rap music community is analyzed using a new method that uses weighted edges to determine which connections are most important and revealing among all the communities. The results of this method as well as possible reasons for the structure of the rap music community are discussed.

  9. An Analysis of Gender and Major Differences upon Undergraduate Student Attitudes about Community Service Learning

    Science.gov (United States)

    Shukla, P. K.; Shukla, Monica P.

    2014-01-01

    Community Service Learning (CSL) believes that university and colleges should incorporate community based service projects into courses. There are faculty and administrator supporters who argue for such proposals to require community service learning components into classes, but there are also faculty and administrator critics of such proposals.…

  10. Public and Tribal Community College Institutional Review Boards: A National Descriptive Analysis

    Science.gov (United States)

    Ocean, Mia; Hirschi, Melissa

    2016-01-01

    It is currently unknown how many Institutional Review Boards (IRBs) exist at community colleges. This study investigates the percentage of public and Tribal community colleges that have active IRBs. It also examines the potential relationships between states that allow community colleges to confer baccalaureate degrees, or that have articulation…

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

    Directory of Open Access Journals (Sweden)

    Ronald C Plotnikoff

    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.

  12. Social Development Needs Analysis as a tool for SIA to guide corporate-community investment: Applications in the minerals industry

    International Nuclear Information System (INIS)

    Mining companies are faced with growing societal demands that a sufficient portion of the benefits from mining should flow to local communities to ensure they are adequately compensated for the negative social impacts they experience. This paper considers how a more equitable benefit distribution system can be achieved through voluntary initiatives, recognising companies as potential agents for social development through the provision of improved services and infrastructure, capacity-building, employment and local economic development initiatives. Social Development Needs Analysis is introduced as an enhancement to participatory Social Impact Assessment methods to give practical guidance to site managers in evaluating community investment alternatives. Social Development Needs Analysis aims to identify the priority social issues that need to be addressed in order for a company to contribute to a net positive impact in the community while building assets for the business

  13. 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.

  14. 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

  15. THE ANALYSIS OF SEMI INTENSIVE NATIVE CHICKEN FARMING IN RURAL COMMUNITIES

    Directory of Open Access Journals (Sweden)

    E. Wantasen

    2015-04-01

    Full Text Available The study was aimed to determine the income for semi intensive native chicken farming and todetermine the factors influence it. The study was conducted by survey method and direct interview usingquestionnaire to 35 members of farmers group “Poyuyanan” in Poyowa Besar Village, SouthKotamobagu Dstrict North Sulawesi Province. Data were analyzed by using descriptive and quantitativeanalysis using multiple regression analysis of Cobb-Douglass model. The result showed that farmer withan average ownership of 8 hens could obtain income equivalent to 37.9 kg of rice per month. Theregression analysis showed that altogether the dependent variables had effect to income as much 81.2%(R2 = 0.821. Partially variables that could increase farmers’ income were hatching rate, number ofproductive hen, cost of production and number of eggs hatched. Mortality was the only variable thatdecreased farmers’ income. Cost of production in semi intensive native chicken farming which mainlyfor buying feed could increase the production and income for farmers that in turn would support foodavailability of rural communities in Poyowa Besar Villages

  16. Household waste compositional analysis variation from insular communities in the framework of waste prevention strategy plans

    Energy Technology Data Exchange (ETDEWEB)

    Zorpas, Antonis A., E-mail: antonis.zorpas@ouc.ac.cy [Cyprus Open University, Faculty of Pure and Applied Science, Environmental Conservation and Management, P.O. Box 12794, 2252 Latsia, Nicosia (Cyprus); Lasaridi, Katia, E-mail: klasaridi@hua.gr [Harokopio University, Department of Geography, 70 El. Venizelou, 176 71 Athens, Kallithea (Greece); Voukkali, Irene [Institute of Environmental Technology and Sustainable Development, ENVITECH LTD, Department of Research and Development, P.O. Box 34073, 5309 (Cyprus); Loizia, Pantelitsa, E-mail: irenevoukkali@envitech.org [Institute of Environmental Technology and Sustainable Development, ENVITECH LTD, Department of Research and Development, P.O. Box 34073, 5309 (Cyprus); Chroni, Christina [Harokopio University, Department of Geography, 70 El. Venizelou, 176 71 Athens, Kallithea (Greece)

    2015-04-15

    Highlights: • Waste framework directive has set clear waste prevention procedures. • Household Compositional analysis. • Waste management plans. • Zero waste approach. • Waste generation. - Abstract: Waste management planning requires reliable data regarding waste generation, affecting factors on waste generation and forecasts of waste quantities based on facts. In order to decrease the environmental impacts of waste management the choice of prevention plan as well as the treatment method must be based on the features of the waste that are produced in a specific area. Factors such as culture, economic development, climate, and energy sources have an impact on waste composition; composition influences the need of collecting waste more or less frequently of waste collection and disposition. The research question was to discover the main barriers concerning the compositional analysis in Insular Communities under warm climate conditions and the findings from this study enabled the main contents of a waste management plan to be established. These included advice to residents on waste minimisation, liaison with stakeholders and the expansion of kerbside recycling schemes.

  17. Molecular analysis of bacterial isolates and total community DNA from kraft pulp mill effluent treatment systems.

    Science.gov (United States)

    Fortin, N; Fulthorpe, R R; Allen, D G; Greer, C W

    1998-06-01

    Chloroaliphatics are major components of bleached kraft mill effluents. Gene probes and oligonucleotide primers were developed to monitor kraft pulp mill effluent treatment systems for the presence of key genes (dehalogenases) responsible for the dehalogenation of chloroaliphatic organics. The primers were used for polymerase chain reaction (PCR) analysis of genomic DNA extracted from dehalogenating bacterial isolates and from total community DNA extracted from water and sediments of mill effluent treatment system. PCR amplification with oligonucleotide primers designed from dhlB, encoding the haloacid dehalogenase from Xanthobacter autotrophicus, revealed the presence of dehalogenase genes in both aerated lagoons and stabilization basins. Similarly, positive results were obtained with mmoX primers designed from the soluble methane monooxygenase gene of Methylococcus capsulatus Bath. The haloacetate dehalogenase encoding gene (dehH2) from Moraxella sp. was typically not detected in mill effluent treatment systems unless the biomass was selectively enriched. DNA sequence analysis of several PCR fragaments revealed significant similarity to known dehalogenase amd methane monooxygenase genes. The results indicated a broad distribution of known dehalogenation genes and bacteria with chloroorganic-degrading potential in the mill effluent treatment systems. PMID:9734304

  18. Supercritical Fluid Extraction of Quinones from Compost for Microbial Community Analysis

    Directory of Open Access Journals (Sweden)

    Ni Luh Gede Ratna Juliasih

    2015-01-01

    Full Text Available Supercritical fluid extraction (SFE was used to extract quinones from compost to monitor the microbial community dynamics during composting. The 0.3 g of dried compost was extracted using 3 mL min−1 of carbon dioxide (90% and methanol (10% at 45°C and 25 MPa for a 30 min extraction time. The extracted quinones were analysed using ultra performance liquid chromatography (UPLC with 0.3 mL min−1 of methanol mobile phase for a 50 min chromatographic run time. A comparable detected amount of quinones was obtained using the developed method and an organic solvent extraction method, being 36.06 μmol kg−1 and 34.54 μmol kg−1, respectively. Significantly low value of dissimilarity index (D between the two methods (0.05 indicated that the quinone profile obtained by both methods was considered identical. The developed method was then applied to determine the maturity of the compost by monitoring the change of quinone during composting. The UQ-9 and MK-7 were predominant quinones in the initial stage of composting. The diversity of quinone became more complex during the cooling and maturation stages. This study showed that SFE had successfully extracted quinones from a complex matrix with simplification and rapidity of the analysis that is beneficial for routine analysis.

  19. Application of exploratory factor analysis to assess fish consumption in a university community

    Directory of Open Access Journals (Sweden)

    Erika da Silva Maciel

    2013-03-01

    Full Text Available The objective of this research was to use the technique of Exploratory Factor Analysis (EFA for the adequacy of a tool for the assessment of fish consumption and the characteristics involved in this process. Data were collected during a campaign to encourage fish consumption in Brazil with the voluntarily participation of members of a university community. An assessment instrument consisting of multiple-choice questions and a five-point Likert scale was designed and used to measure the importance of certain attributes that influence the choice and consumption of fish. This study sample was composed of of 224 individuals, the majority were women (65.6%. With regard to the frequency of fish consumption, 37.67% of the volunteers interviewed said they consume the product two or three times a month, and 29.6% once a week. The Exploratory Factor Analysis (EFA was used to group the variables; the extraction was made using the principal components and the rotation using the Quartimax method. The results show clusters in two main constructs, quality and consumption with Cronbach Alpha coefficients of 0.75 and 0.69, respectively, indicating good internal consistency.

  20. Bacterial community analysis of cypermethrin enrichment cultures and bioremediation of cypermethrin contaminated soils.

    Science.gov (United States)

    Akbar, Shamsa; Sultan, Sikander; Kertesz, Michael

    2015-07-01

    Cypermethrin is widely used for insect control; however, its toxicity toward aquatic life requires its complete removal from contaminated areas where the natural degradation ability of microbes can be utilized. Agricultural soil with extensive history of CM application was used to prepare enrichment cultures using cypermethrin as sole carbon source for isolation of cypermethrin degrading bacteria and bacterial community analysis using PCR-DGGE of 16 S rRNA gene. DGGE analysis revealed that dominant members of CM enrichment culture were associated with α-proteobacteria followed by γ-proteobacteria, Firmicutes, and Actinobacteria. Three potential CM-degrading isolates identified as Ochrobactrum anthropi JCm1, Bacillus megaterium JCm2, and Rhodococcus sp. JCm5 degraded 86-100% of CM (100 mg L(-1) ) within 10 days. These isolates were also able to degrade other pyrethroids, carbofuran, and cypermethrin degradation products. Enzyme activity assays revealed that enzymes involved in CM-degradation were inducible and showed activity when strains were grown on cypermethrin. Degradation kinetics of cypermethrin (200 mg kg(-1)) in soils inoculated with isolates JCm1, JCm2, and JCm5 suggested time-dependent disappearance of cypermethrin with rate constants of 0.0516, 0.0425, and 0.0807 d(-1), respectively, following first order rate kinetics. The isolated bacterial strains were among dominant genera selected under CM enriched conditions and represent valuable candidates for in situ bioremediation of contaminated soils and waters.

  1. Household waste compositional analysis variation from insular communities in the framework of waste prevention strategy plans

    International Nuclear Information System (INIS)

    Highlights: • Waste framework directive has set clear waste prevention procedures. • Household Compositional analysis. • Waste management plans. • Zero waste approach. • Waste generation. - Abstract: Waste management planning requires reliable data regarding waste generation, affecting factors on waste generation and forecasts of waste quantities based on facts. In order to decrease the environmental impacts of waste management the choice of prevention plan as well as the treatment method must be based on the features of the waste that are produced in a specific area. Factors such as culture, economic development, climate, and energy sources have an impact on waste composition; composition influences the need of collecting waste more or less frequently of waste collection and disposition. The research question was to discover the main barriers concerning the compositional analysis in Insular Communities under warm climate conditions and the findings from this study enabled the main contents of a waste management plan to be established. These included advice to residents on waste minimisation, liaison with stakeholders and the expansion of kerbside recycling schemes

  2. Identifying Gender-Preferred Communication Styles within Online Cancer Communities: A Retrospective, Longitudinal Analysis

    Science.gov (United States)

    Durant, Kathleen T.; McCray, Alexa T.; Safran, Charles

    2012-01-01

    Background The goal of this research is to determine if different gender-preferred social styles can be observed within the user interactions at an online cancer community. To achieve this goal, we identify and measure variables that pertain to each gender-specific social style. Methods and Findings We perform social network and statistical analysis on the communication flow of 8,388 members at six different cancer forums over eight years. Kruskal-Wallis tests were conducted to measure the difference between the number of intimate (and highly intimate) dyads, relationship length, and number of communications. We determine that two patients are more likely to form an intimate bond on a gender-specific cancer forum (ovarian P = <0.0001, breast P = 0.0089, prostate P = 0.0021). Two female patients are more likely to form a highly intimate bond on a female-specific cancer forum (Ovarian P<0.0001, Breast P<0.01). Typically a male patient communicates with more members than a female patient (Ovarian forum P = 0.0406, Breast forum P = 0.0013). A relationship between two patients is longer on the gender-specific cancer forums than a connection between two members not identified as patients (ovarian forum P = 0.00406, breast forum P = 0.00013, prostate forum P = .0.0003). Conclusion The high level of interconnectedness among the prostate patients supports the hypothesis that men prefer to socialize in large, interconnected, less-intimate groups. A female patient is more likely to form a highly intimate connection with another female patient; this finding is consistent with the hypothesis that woman prefer fewer, more intimate connections. The relationships of same-gender cancer patients last longer than other relationships; this finding demonstrates homophily within these online communities. Our findings regarding online communication preferences are in agreement with research findings from person-to-person communication preference studies

  3. Identifying gender-preferred communication styles within online cancer communities: a retrospective, longitudinal analysis.

    Directory of Open Access Journals (Sweden)

    Kathleen T Durant

    Full Text Available BACKGROUND: The goal of this research is to determine if different gender-preferred social styles can be observed within the user interactions at an online cancer community. To achieve this goal, we identify and measure variables that pertain to each gender-specific social style. METHODS AND FINDINGS: We perform social network and statistical analysis on the communication flow of 8,388 members at six different cancer forums over eight years. Kruskal-Wallis tests were conducted to measure the difference between the number of intimate (and highly intimate dyads, relationship length, and number of communications. We determine that two patients are more likely to form an intimate bond on a gender-specific cancer forum (ovarian P = <0.0001, breast P = 0.0089, prostate P = 0.0021. Two female patients are more likely to form a highly intimate bond on a female-specific cancer forum (Ovarian P<0.0001, Breast P<0.01. Typically a male patient communicates with more members than a female patient (Ovarian forum P = 0.0406, Breast forum P = 0.0013. A relationship between two patients is longer on the gender-specific cancer forums than a connection between two members not identified as patients (ovarian forum P = 0.00406, breast forum P = 0.00013, prostate forum P = .0.0003. CONCLUSION: The high level of interconnectedness among the prostate patients supports the hypothesis that men prefer to socialize in large, interconnected, less-intimate groups. A female patient is more likely to form a highly intimate connection with another female patient; this finding is consistent with the hypothesis that woman prefer fewer, more intimate connections. The relationships of same-gender cancer patients last longer than other relationships; this finding demonstrates homophily within these online communities. Our findings regarding online communication preferences are in agreement with research findings from person-to-person communication

  4. The Nanomaterial Registry: facilitating the sharing and analysis of data in the diverse nanomaterial community

    Directory of Open Access Journals (Sweden)

    Ostraat ML

    2013-09-01

    Full Text Available Michele L Ostraat, Karmann C Mills, Kimberly A Guzan, Damaris MurryRTI International, Durham, NC, USAAbstract: The amount of data being generated in the nanotechnology research space is significant, and the coordination, sharing, and downstream analysis of the data is complex and consistently deliberated. The complexities of the data are due in large part to the inherently complicated characteristics of nanomaterials. Also, testing protocols and assays used for nanomaterials are diverse and lacking standardization. The Nanomaterial Registry has been developed to address such challenges as the need for standard methods, data formatting, and controlled vocabularies for data sharing. The Registry is an authoritative, web-based tool whose purpose is to simplify the community's level of effort in assessing nanomaterial data from environmental and biological interaction studies. Because the registry is meant to be an authoritative resource, all data-driven content is systematically archived and reviewed by subject-matter experts. To support and advance nanomaterial research, a set of minimal information about nanomaterials (MIAN has been developed and is foundational to the Registry data model. The MIAN has been used to create evaluation and similarity criteria for nanomaterials that are curated into the Registry. The Registry is a publicly available resource that is being built through collaborations with many stakeholder groups in the nanotechnology community, including industry, regulatory, government, and academia. Features of the Registry website (https://www.nanomaterialregistry.org/ currently include search, browse, side-by-side comparison of nanomaterials, compliance ratings based on the quality and quantity of data, and the ability to search for similar nanomaterials within the Registry. This paper is a modification and extension of a proceedings paper for the Institute of Electrical and Electronics Engineers.Keywords: nanoinformatics

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

    Directory of Open Access Journals (Sweden)

    Sophie eCharvet

    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.

  6. The Prevalence of Thyroid Nodules and an Analysis of Related Lifestyle Factors in Beijing Communities.

    Science.gov (United States)

    Jiang, Hua; Tian, Yongfeng; Yan, Wenhua; Kong, Yue; Wang, Haibin; Wang, Anping; Dou, Jingtao; Liang, Ping; Mu, Yiming

    2016-04-01

    Thyroid nodules (TNs) have annual increasing trends worldwide, and large-scale investigations on the prevalence of TNs in Beijing communities have not been conducted since the introduction of salt iodization in 1995. We performed a cross-sectional study to determine the prevalence of TNs, their epidemiological characteristics, and their correlation with lifestyle factors. A total of 6324 permanent residents aged 18 years or older (mean age, 52.15 ± 11.58 years) from seven representative communities in Beijing were included in the analyses. Once informed consent was obtained, the subjects were asked to complete questionnaires, a physical examination, and thyroid ultrasound. A total of 3100 cases had TNs. The overall prevalence rate was 49.0%, and the age-standardized prevalence was 40.1%, which increased significantly as age increased (p literacy levels (p physical labor and exercise intensity (p < 0.001, p = 0.009). Logistic regression analysis showed that age (Odds ratio (OR) = 1.039 (1.034-1.044), p < 0.001), the female sex (OR = 1.789 (1.527-2.097)), Body mass index (BMI) (OR = 1.019 (1.005-1.034)), and current smoking habits (OR = 1.246 (1.046-1.483)) were independent risk factors for TNs. Our findings indicate that there is a high prevalence of TNs in Beijing, with a higher prevalence in females than in males. Moreover, the prevalence increases as age increases. Smoking and BMI are independent risk factors for TNs. Therefore, intervention against smoking and weight loss might help reduce the risk of TN occurrence. PMID:27110805

  7. 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

  8. Community perspectives on public health biobanking: an analysis of community meetings on the Michigan BioTrust for Health.

    Science.gov (United States)

    Thiel, Daniel B; Platt, Tevah; Platt, Jodyn; King, Susan B; Kardia, Sharon L R

    2014-04-01

    Biobanks raise challenges for developing ethically sound and practicable consent policies. Biobanks comprised of dried bloodspots (DBS) left over from newborn screening, maintained for long-term storage, and potential secondary research applications are no exception. Michigan has been a leader in transforming its DBS collection, marketing its biobank of de-identified samples for health research use. The Michigan BioTrust for Health includes approximately 4 million unconsented retrospective samples collected as early as 1984 and prospective samples added since the fall of 2010 with blanket parental consent. We engaged Michigan citizens to ascertain public attitudes, knowledge, and beliefs about the BioTrust and informed consent. A convenience sampling of 393 participants from communities around the state of Michigan (oversampling for minority populations) participated in meetings addressing newborn screening, the BioTrust and informed consent, yielding quantitative and qualitative survey and discussion data. Participants affirmed the principle of voluntary informed participation in research and advocated for greater public awareness of the existence of the BioTrust. Most expressed support for the use of DBS for research and a desire for greater involvement in granting permission for research use. Opinions varied as to which specific research uses were acceptable. Participants indicated a desire for greater engagement, public awareness, and more active decision making on the part of biobank participants and parents. Diversity of opinion over which research areas were deemed acceptable problematizes the blanket consent model that currently applies to the BioTrust's prospective DBS collection and that could become the new norm for research using de-identified data under proposed changes to the Common Rule. PMID:23893769

  9. 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)

  10. Professional Learning Communities and Teacher Well-Being? A Comparative Analysis of Primary Schools in England and Finland

    Science.gov (United States)

    Webb, Rosemary; Vulliamy, Graham; Sarja, Anneli; Hamalainen, Seppo; Poikonen, Pirjo-Liisa

    2009-01-01

    The article is a comparative analysis of the policy and practice of professional learning communities (PLCs) in primary schools in England and Finland. The concept of PLC has become a globally fashionable one and has been explicitly advocated in policy documents in both countries. Drawing from a database of qualitative semi-structured interviews…

  11. Plant community and ecological analysis of woodland vegetation in Metema Area, Amhara National Regional State, Northwestern Ethiopia

    Institute of Scientific and Technical Information of China (English)

    Haile Adamu Wale; Tamrat Bekele; Gemedo Dalle

    2012-01-01

    We studied woodland vegetation in broad-leaved deciduous woodlands of Metema in northwestern Amhara regional state,Ethiopia to determine plant community types and species distribution patterns and their relationships with environmental variables,including altitude,pH,cation exchange capacity,electrical conductivity (EC),and moisture.We used a selective approach with a systematic sampling design.A total of 74 quadrats,each 25m × 25m at intervals of 150-200 m were sampled along the established transect lines.For herbaceous vegetation and soil data collection,five subquadrats each 1m × 1m were established at the four corners and the center of each quadrat.Three community types were identified using TWINSPAN analysis.All three community types showed high diversity (Shannon-Weiner index),the highest in community type Ⅱ at 3.55.The highest similarity coefficient was 0.49 (49%) between community types Ⅱ and Ⅲ,reflecting 0.51 (51%) dissimilarity in their species richness.The canonical correspondence ordination diagram revealed that the distribution pattern of community type Ⅰ was explained by moisture while that of community types Ⅲ and Ⅱ was explained by EC and altitude and moisture,respectively.Altitude was the most statistically significant environmental variable,followed by moisture and EC in determining the total variation in species composition and distribution patterns while pH and cation exchange capacity were non significant.In conclusion,we recommend that any intervention should take into account these three discrete community types and their environmental settings to make the intervention more successful.

  12. Genotypic analysis of β-tubulin in Onchocerca volvulus from communities and individuals showing poor parasitological response to ivermectin treatment.

    Science.gov (United States)

    Osei-Atweneboana, Mike Y; Boakye, Daniel A; Awadzi, Kwablah; Gyapong, John O; Prichard, Roger K

    2012-12-01

    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 community. DNA from adult worms was analyzed to determine any association between genotype and IVM response phenotypic. Embryogramme analysis showed significantly higher reproductive activity in worms from poor response communities, which had up to 41% of females with live stretched microfilaria (mf) in utero, despite IVM treatment, compared with good response communities, which had no intra-uterine stretched mf. β-tubulin isotype 1 gene has been shown to be linked to IVM selection in O. volvulus and also known to be associated with IVM resistance in veterinary nematodes. We have genotyped the full length genomic DNA sequence of the β-tubulin gene from 127 adult worms obtained from the four community categories. We found SNPs at 24 sites over the entire 3696 bp. Eight of the SNPs occurred at significantly higher (p < 0.05) frequencies in the poor response communities compared with the good response communities and the IVM naïve community. Phenotypic and genotypic analyses show that IVM resistance has been selected and the genotype (1183GG/1188CC/1308TT/1545GG) was strongly associated with the resistance phenotype. Since the region in the β-tubulin gene where these four SNPs occur is within 362 bp, it is feasible to develop a genetic marker for the early detection of IVM resistance. PMID:24533268

  13. 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

  14. 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

  15. Comparative Analysis of Prokaryotic Communities Associated with Organic and Conventional Farming Systems.

    Directory of Open Access Journals (Sweden)

    Elizaveta Pershina

    Full Text Available One of the most important challenges in agriculture is to determine the effectiveness and environmental impact of certain farming practices. The aim of present study was to determine and compare the taxonomic composition of the microbiomes established in soil following long-term exposure (14 years to a conventional and organic farming systems (CFS and OFS accordingly. Soil from unclared forest next to the fields was used as a control. The analysis was based on RT-PCR and pyrosequencing of 16S rRNA genes of bacteria and archaea. The number of bacteria was significantly lower in CFS than in OFS and woodland. The highest amount of archaea was detected in woodland, whereas the amounts in CFS and OFS were lower and similar. The most common phyla in the soil microbial communities analyzed were Proteobacteria (57.9%, Acidobacteria (16.1%, Actinobacteria (7.9%, Verrucomicrobia (2.0%, Bacteroidetes (2.7% and Firmicutes (4.8%. Woodland soil differed from croplands in the taxonomic composition of microbial phyla. Croplands were enriched with Proteobacteria (mainly the genus Pseudomonas, while Acidobacteria were detected almost exclusively in woodland soil. The most pronounced differences between the CFS and OFS microbiomes were found within the genus Pseudomonas, which significantly (p<0,05 increased its number in CFS soil compared to OFS. Other differences in microbiomes of cropping systems concerned minor taxa. A higher relative abundance of bacteria belonging to the families Oxalobacteriaceae, Koribacteriaceae, Nakamurellaceae and genera Ralstonia, Paenibacillus and Pedobacter was found in CFS as compared with OFS. On the other hand, microbiomes of OFS were enriched with proteobacteria of the family Comamonadaceae (genera Hylemonella and Hyphomicrobiaceae, actinobacteria from the family Micrococcaceae, and bacteria of the genera Geobacter, Methylotenera, Rhizobium (mainly Rhizobium leguminosarum and Clostridium. Thus, the fields under OFS and CFS did

  16. Comparative phylogenetic microarray analysis of microbial communities in TCE-contaminated soils.

    Science.gov (United States)

    Nemir, Audra; David, Maude M; Perrussel, Ronan; Sapkota, Amy; Simonet, Pascal; Monier, Jean-Michel; Vogel, Timothy M

    2010-07-01

    The arrival of chemicals in a soil or groundwater ecosystem could upset the natural balance of the microbial community. Since soil microorganisms are the first to be exposed to the chemicals released into the soil environment, we evaluated the use of a phylogenetic microarray as a bio-indicator of community perturbations due to the exposure to trichloroethylene (TCE). The phylogenetic microarray, which measures the presence of different members of the soil community, was used to evaluate unpolluted soils exposed to TCE as well as to samples from historically TCE polluted sites. We were able to determine an apparent threshold at which the microbial community structure was significantly affected (about 1ppm). In addition, the members of the microbial community most affected were identified. This approach could be useful for assessing environmental impact of chemicals on the biosphere as well as important members of the microbial community involved in TCE degradation. PMID:20444493

  17. 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...

  18. Income Distribution, Communities and the Quality of Public Education: A Policy Analysis

    OpenAIRE

    Raquel Fernandez; Richard Rogerson

    1992-01-01

    This paper analyzes within the context of a multicommunity model the effects of several policies that affect the financing of public education. The key features of the model are: (I) individuals differ with respect to income, (ii) individuals choose in which community to reside, (iii) communities are characterized by a proportional tax on income and a quality of public education, and (iv) a community's tax rate is chosen by majority vote. We examine three types of policies: subsidies for resi...

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

    OpenAIRE

    Duran, Claudia; Felisa CORDOVA

    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...

  20. [Analysis of environmental gradient and community of forest-swamp ecotone in Changbai mountains].

    Science.gov (United States)

    Mu, C; Han, S; Luo, J; Wang, X

    2001-02-01

    This paper discussed the change pattern between environmental gradients and community structure, productivity and plant diversity of forest-swamp ecotones, and the mechanism forming those community's traits, which could supply a theoretical basis for conserving and managing the biological resources of ecotonal communities. By setting up sample belts along the environmental gradients on three kinds of ecotones between forests and swamps in Changbai Mountains and through investigating initial data and establishing regression models, the authors studied the dynamic pattern of species composition, diameter class and age class of dominant species, plant diversity, community productivity of forest-swamp ecotone communities with environmental gradients. The results showed that the distribution patterns of community structure characteristics, plant diversity and community productivity were consistent with the changes of environmental gradients of forest-swamp ecotones. Along the environmental gradient from swamp to forest, the displace of dominant species happened, and the species number increased by positive exponent. The diameter distribution of trees decreased by inverse curve, and the age class of trees was suited to cubic distribution. The plant diversity increased by quadratic, and the community biomass increased by cubic power curve along the environmental gradients. The above-mentioned results suggested that the relationships between communities and environmental gradients were closely related. PMID:11813409

  1. 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.

  2. Taxonomic and functional metagenomic analysis of anodic communities in two pilot-scale microbial fuel cells treating different industrial wastewaters.

    Science.gov (United States)

    Kiseleva, Larisa; Garushyants, Sofya K; Ma, Hongwu; Simpson, David J W; Fedorovich, Viatcheslav; Cohen, Michael F; Goryanin, Igor

    2015-01-01

    The combined processes of microbial biodegradation accompanied by extracellular electron transfer make microbial fuel cells (MFCs) a promising new technology for cost-effective and sustainable wastewater treatment. Although a number of microbial species that build biofilms on the anode surfaces of operating MFCs have been identified, studies on the metagenomics of entire electrogenic communities are limited. Here we present the results of whole-genome metagenomic analysis of electrochemically active robust anodic microbial communities, and their anaerobic digester (AD) sludge inocula, from two pilot-scale MFC bioreactors fed with different distillery wastewaters operated under ambient conditions in distinct climatic zones. Taxonomic analysis showed that Proteobacteria, Bacteroidetes and Firmicutes were abundant in AD sludge from distinct climatic zones, and constituted the dominant core of the MFC microbiomes. Functional analysis revealed species involved in degradation of organic compounds commonly present in food industry wastewaters. Also, accumulation of methanogenic Archaea was observed in the electrogenic biofilms, suggesting a possibility for simultaneous electricity and biogas recovery from one integrated wastewater treatment system. Finally, we found a range of species within the anode communities possessing the capacity for extracellular electron transfer, both via direct contact and electron shuttles, and show differential distribution of bacterial groups on the carbon cloth and activated carbon granules of the anode surface. Overall, this study provides insights into structural shifts that occur in the transition from an AD sludge to an MFC microbial community and the metabolic potential of electrochemically active microbial populations with wastewater-treating MFCs. PMID:26673789

  3. Taxonomic and functional metagenomic analysis of anodic communities in two pilot-scale microbial fuel cells treating different industrial wastewaters.

    Science.gov (United States)

    Kiseleva, Larisa; Garushyants, Sofya K; Ma, Hongwu; Simpson, David J W; Fedorovich, Viatcheslav; Cohen, Michael F; Goryanin, Igor

    2015-01-01

    The combined processes of microbial biodegradation accompanied by extracellular electron transfer make microbial fuel cells (MFCs) a promising new technology for cost-effective and sustainable wastewater treatment. Although a number of microbial species that build biofilms on the anode surfaces of operating MFCs have been identified, studies on the metagenomics of entire electrogenic communities are limited. Here we present the results of whole-genome metagenomic analysis of electrochemically active robust anodic microbial communities, and their anaerobic digester (AD) sludge inocula, from two pilot-scale MFC bioreactors fed with different distillery wastewaters operated under ambient conditions in distinct climatic zones. Taxonomic analysis showed that Proteobacteria, Bacteroidetes and Firmicutes were abundant in AD sludge from distinct climatic zones, and constituted the dominant core of the MFC microbiomes. Functional analysis revealed species involved in degradation of organic compounds commonly present in food industry wastewaters. Also, accumulation of methanogenic Archaea was observed in the electrogenic biofilms, suggesting a possibility for simultaneous electricity and biogas recovery from one integrated wastewater treatment system. Finally, we found a range of species within the anode communities possessing the capacity for extracellular electron transfer, both via direct contact and electron shuttles, and show differential distribution of bacterial groups on the carbon cloth and activated carbon granules of the anode surface. Overall, this study provides insights into structural shifts that occur in the transition from an AD sludge to an MFC microbial community and the metabolic potential of electrochemically active microbial populations with wastewater-treating MFCs.

  4. Aging Chart: a community resource for rapid exploratory pathway analysis of age-related processes.

    Science.gov (United States)

    Moskalev, Alexey; Zhikrivetskaya, Svetlana; Shaposhnikov, Mikhail; Dobrovolskaya, Evgenia; Gurinovich, Roman; Kuryan, Oleg; Pashuk, Aleksandr; Jellen, Leslie C; Aliper, Alex; Peregudov, Alex; Zhavoronkov, Alex

    2016-01-01

    Aging research is a multi-disciplinary field encompassing knowledge from many areas of basic, applied and clinical research. Age-related processes occur on molecular, cellular, tissue, organ, system, organismal and even psychological levels, trigger the onset of multiple debilitating diseases and lead to a loss of function, and there is a need for a unified knowledge repository designed to track, analyze and visualize the cause and effect relationships and interactions between the many elements and processes on all levels. Aging Chart (http://agingchart.org/) is a new, community-curated collection of aging pathways and knowledge that provides a platform for rapid exploratory analysis. Building on an initial content base constructed by a team of experts from peer-reviewed literature, users can integrate new data into biological pathway diagrams for a visible, intuitive, top-down framework of aging processes that fosters knowledge-building and collaboration. As the body of knowledge in aging research is rapidly increasing, an open visual encyclopedia of aging processes will be useful to both the new entrants and experts in the field. PMID:26602690

  5. A comprehensive study on volatile fatty acids production from rice straw coupled with microbial community analysis.

    Science.gov (United States)

    Park, Gwon Woo; Seo, Charles; Jung, Kwonsu; Chang, Ho Nam; Kim, Woong; Kim, Yeu-Chun

    2015-06-01

    Rice straw is one of the most abundant renewable energy sources available. Through anaerobic acidogenesis, the substance of rice straw can be converted to volatile fatty acids (VFAs). VFAs itself is of value and is a precursor to biofuels. Hence, it can be converted to mixed alcohols by addition of hydrogen, and biodiesel can be produced as a carbon source for oleaginous microorganism. To maximize VFAs production during anaerobic digestion (AD), response surface analysis (RSM) was carried out with respect to temperature, substrate concentration, and pH variables. Optimization results showed maximal VFAs concentration of 12.37 g/L at 39.23 °C, 52.85 g/L of rice straw, and pH 10. In quantification of microbial community by quantitative polymerase chain reaction, the bacterial profile showed that the growth of methanogens was effectively inhibited by methanogenic inhibitors. Furthermore, 454 pyrosequencing showed that members of the Ruminococcaceae family, capable of hydrolyzing lignocellulosic biomass, were the most dominant species in many RSM trials. This study provided a useful insight on the biological improvement of AD performance through the combinational linkage between process parameters and microbial information. PMID:25651880

  6. Viral infection in community-acquired pneumonia: a systematic review and meta-analysis

    Directory of Open Access Journals (Sweden)

    Michael Burk

    2016-06-01

    Full Text Available The advent of PCR has improved the identification of viruses in patients with community-acquired pneumonia (CAP. Several studies have used PCR to establish the importance of viruses in the aetiology of CAP. We performed a systematic review and meta-analysis of the studies that reported the proportion of viral infection detected via PCR in patients with CAP. We excluded studies with paediatric populations. The primary outcome was the proportion of patients with viral infection. The secondary outcome was short-term mortality. Our review included 31 studies. Most obtained PCR via nasopharyngeal or oropharyngeal swab. The pooled proportion of patients with viral infection was 24.5% (95% CI 21.5–27.5%. In studies that obtained lower respiratory samples in >50% of patients, the proportion was 44.2% (95% CI 35.1–53.3%. The odds of death were higher in patients with dual bacterial and viral infection (OR 2.1, 95% CI 1.32–3.31. Viral infection is present in a high proportion of patients with CAP. The true proportion of viral infection is probably underestimated because of negative test results from nasopharyngeal or oropharyngeal swab PCR. There is increased mortality in patients with dual bacterial and viral infection.

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

    Institute of Scientific and Technical Information of China (English)

    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 16S rDNA clone library. Two sets of universal 16S rDNA primers were used to amplify DNA extracted from the groundwater so that problems arising from primer efficiency and specificity could be reduced. Of 74 clones randomly selected from the libraries, 30 contained unique sequences whose analysis showed that the majority of them belonged to bacteria (95.9%), with Proteobacteria (63.5%) being the dominant division. One archaeal sequence and one eukaryotic sequence were found as well. Bacterial sequences belonging to the following phylogenic groups were identified: Bacteroidetes (20.3%), β, γ, δ and ε-subdivisions of Proteobacteria (47.3%, 9.5%, 5.4% and 1.3%, respectively), Firmicutes (1.4%), Actinobacteria (2.7%), Cyanobacteria (2.7%). The percentages of Proteobacteria and Bacteroides in seawater were greater than those in the groundwater from a non-seashore landfill, indicating a possible influence of seawater. Quite a few sequences had close relatives in marine or hypersaline environments. Many sequences showed affiliations with microbes involved in anaerobic fermentation. The remarkable abundance of sequences related to (per)chlorate-reducing bacteria (C1RB) in the groundwater was significant and worthy of further study.

  8. Riparian plant community responses to increased flooding: a meta-analysis.

    Science.gov (United States)

    Garssen, Annemarie G; Baattrup-Pedersen, Annette; Voesenek, Laurentius A C J; Verhoeven, Jos T A; Soons, Merel B

    2015-08-01

    A future higher risk of severe flooding of streams and rivers has been projected to change riparian plant community composition and species richness, but the extent and direction of the expected change remain uncertain. We conducted a meta-analysis to synthesize globally available experimental evidence and assess the effects of increased flooding on (1) riparian adult plant and seedling survival, (2) riparian plant biomass and (3) riparian plant species composition and richness. We evaluated which plant traits are of key importance for the response of riparian plant species to flooding. We identified and analysed 53 papers from ISI Web of Knowledge which presented quantitative experimental results on flooding treatments and corresponding control situations. Our meta-analysis demonstrated how longer duration of flooding, greater depth of flooding and, particularly, their combination reduce seedling survival of most riparian species. Plant height above water level, ability to elongate shoots and plasticity in root porosity were decisive for adult plant survival and growth during longer periods of flooding. Both 'quiescence' and 'escape' proved to be successful strategies promoting riparian plant survival, which was reflected in the wide variation in survival (full range between 0 and 100%) under fully submerged conditions, while plants that protrude above the water level (>20 cm) almost all survive. Our survey confirmed that the projected increase in the duration and depth of flooding periods is sufficient to result in species shifts. These shifts may lead to increased or decreased riparian species richness depending on the nutrient, climatic and hydrological status of the catchment. Species richness was generally reduced at flooded sites in nutrient-rich catchments and sites that previously experienced relatively stable hydrographs (e.g. rain-fed lowland streams). Species richness usually increased at sites in desert and semi-arid climate regions (e.g. intermittent

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

    Energy Technology Data Exchange (ETDEWEB)

    Miller, Barton

    2014-06-30

    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.

  10. 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; Bell, A C;

    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...

  11. Structure in Community College Career-Technical Programs: A Qualitative Analysis. CCRC Working Paper No. 50

    Science.gov (United States)

    Van Noy, Michelle; Weiss, Madeline Joy; Jenkins, Davis; Barnett, Elisabeth A.; Wachen, John

    2012-01-01

    Using data obtained from interviews and program websites at Washington community and technical colleges, the authors of this study examine the structure of community college career-technical programs in allied health, business and marketing, computer and information studies, and mechanics and repair. A framework for structure with four…

  12. The Influence of Place-Based Communities on Information Behavior: A Comparative Grounded Theory Analysis

    Science.gov (United States)

    Gibson, Amelia N.

    2013-01-01

    This study examines the effect of experiential place and local community on information access and behavior for two communities of parents of children with Down syndrome. It uncovers substantive issues associated with health information seeking, government and education-related information access, and information overload and avoidance within the…

  13. Identification of Institutional Genderedness through Organizational Operations: An Analysis of Community College Working Environments

    Science.gov (United States)

    Jones, Stephanie J.; Warnick, Erika M.; Taylor, Colette M.

    2015-01-01

    Though the number of women employed in the workforce has increased, there continues to be an inequity in employment of women in the highest ranks of community colleges. Guided by gendered organizational theory, the study looked at both overt and covert knowledge of genderedness at community colleges. As one might infer, institutional genderedness…

  14. Community Colleges Expanded Role into Awarding Bachelor's Degrees. ECS Education Policy Analysis

    Science.gov (United States)

    Fulton, Mary

    2015-01-01

    A growing number of states allow community colleges to award bachelor's degrees as one strategy to meet workforce demands, address affordability, and increase access to educational opportunities. Offering bachelor's degrees traditionally has been the domain of four-year institutions, while community colleges have been established to award…

  15. Sense of Community Belonging and Health in Canada: A Regional Analysis

    Science.gov (United States)

    Kitchen, Peter; Williams, Allison; Chowhan, James

    2012-01-01

    This article investigates the association between sense of community belonging and health among settlements of different size and across the urban to rural continuum in Canada. Using data from the recent 2007/08 Canadian Community Health Survey (CCHS), the objective is to identify the major health, social and geographic determinants of sense of…

  16. Refining a Multidimensional Model of Community Adjustment through an Analysis of Postschool Follow-Up Data.

    Science.gov (United States)

    Thompson, James R.; McGrew, Kevin S.; Johnson, David R.; Bruininks, Robert H.

    2000-01-01

    Survey data were collected on the life experiences and status of 388 young adults with disabilities out of school for 1 to 5 years. Results support a 7-factor model of community adjustment: personal satisfaction, employment-economic integration, community assimilation, need for support services, recreation-leisure integration, social network…

  17. An Item Response Theory Analysis of the Community of Inquiry Scale

    Science.gov (United States)

    Horzum, Mehmet Baris; Uyanik, Gülden Kaya

    2015-01-01

    The aim of this study is to examine validity and reliability of Community of Inquiry Scale commonly used in online learning by the means of Item Response Theory. For this purpose, Community of Inquiry Scale version 14 is applied on 1,499 students of a distance education center's online learning programs at a Turkish state university via internet.…

  18. A Quantitative Analysis of Livelihoods in Community Forestry in the Northern Bolivian Amazon

    NARCIS (Netherlands)

    Zenteno Claros, M.

    2013-01-01

    A large share of the World’s tropical forests are used and managed by local communities. The wise management and conservation of these forests depends on the success of community forest management (CFM). On the other hand, livelihoods of forest-dependent people directly depend on the successful mana

  19. 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…

  20. A Case Study Analysis of a Constructionist Knowledge Building Community with Activity Theory

    Science.gov (United States)

    Ang, Chee S.; Zaphiris, Panayiotis; Wilson, Stephanie

    2011-01-01

    This article investigates how activity theory can help research a constructionist community. We present a constructionist activity model called CONstructionism Through ACtivity Theory (CONTACT) model and explain how it can be used to analyse the constructionist activity in knowledge building communities. We then illustrate the model through its…

  1. Analysis of the Central Virginia Community College Spring 1999 Survey of Business and Industry.

    Science.gov (United States)

    Hicks, Geoffrey

    Central Virginia Community College (CVCC) conducted a survey of local employers in spring 1999 to obtain feedback on the college's program offerings and graduates. Surveys were sent to 1,200 businesses, governments and schools in the four-county Region 2000 business/industrial community. Respondents returned 312 surveys for a response rate of 26…

  2. The Prevalence of Thyroid Nodules and an Analysis of Related Lifestyle Factors in Beijing Communities

    Directory of Open Access Journals (Sweden)

    Hua Jiang

    2016-04-01

    Full Text Available Thyroid nodules (TNs have annual increasing trends worldwide, and large-scale investigations on the prevalence of TNs in Beijing communities have not been conducted since the introduction of salt iodization in 1995. We performed a cross-sectional study to determine the prevalence of TNs, their epidemiological characteristics, and their correlation with lifestyle factors. A total of 6324 permanent residents aged 18 years or older (mean age, 52.15 ± 11.58 years from seven representative communities in Beijing were included in the analyses. Once informed consent was obtained, the subjects were asked to complete questionnaires, a physical examination, and thyroid ultrasound. A total of 3100 cases had TNs. The overall prevalence rate was 49.0%, and the age-standardized prevalence was 40.1%, which increased significantly as age increased (p < 0.001. The prevalence was significantly higher in females compared to males (p < 0.001, and it was significantly higher among female current smokers and former smokers compared to non-smokers (p = 0.007. There was no correlation between alcohol consumption and TNs, and there were no significant differences in the prevalence among different groups of taste preference. The prevalence decreased with an increased frequency of seafood intake (p = 0.015 and with higher literacy levels (p < 0.001. The Cochran–Armitage trend test showed that the prevalence significantly increased with decreased physical labor and exercise intensity (p < 0.001, p = 0.009. Logistic regression analysis showed that age (Odds ratio (OR = 1.039 (1.034–1.044, p < 0.001, the female sex (OR = 1.789 (1.527–2.097, Body mass index (BMI (OR = 1.019 (1.005–1.034, and current smoking habits (OR = 1.246 (1.046–1.483 were independent risk factors for TNs. Our findings indicate that there is a high prevalence of TNs in Beijing, with a higher prevalence in females than in males. Moreover, the prevalence increases as age increases. Smoking and

  3. 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.

  4. 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.

  5. A comparative analysis of major Chinese and English online question-answering communities

    Institute of Scientific and Technical Information of China (English)

    WU; Dan; LIU; Yuan; HE; Daqing

    2010-01-01

    This paper compares 12 representative Chinese and English online questionanswering communities(Q&A communities)based on their basic functions,interactive modes,and customized services.An empirical experiment from a comparative perspective was also conducted on them by using 12 questions representing for four types of questions,which are assigned evenly to three different subject fields so as to examine the task performance of these 12 selected online Q&A communities.Our goal was to evaluate those online Q&A communities in terms of their quality and efficiency for answering questions posed to them.It was hoped that our empirical research would yield greater understanding and insights to the working intricacy of these online Q&A communities and hence their possible further improvement.

  6. Geo-ethical dimension of community's safety: rural and urban population vulnerability analysis methodology

    Science.gov (United States)

    Kostyuchenko, Yuriy; Movchan, Dmytro; Kopachevsky, Ivan; Yuschenko, Maxim

    2016-04-01

    calculate a distribution of losses connected with decision making in land-use is demonstrated. Rural community's vulnerability determines by water availability, quality of soils, effectiveness of land use (including climate change adaptation), intensity of pollutions, crop productivity variations during the period of crop rotation, annual national distribution of crops output, and distance to city centres. It should noted here that "distance to city centres" is not comprehensive indicator of market accessibility in general case: quality and availability of transport infrastructure should be described more detailed on the next stages of analysis. Urban population vulnerability determines by distribution of urban fractures and quality urban environment: density, quality and availability of infrastructure, balance between industrial, residential and recreational zones, effectiveness of urban land use and landscape management, and social policy, particularly, employment. Population density is closely connected with social density, with communications and decision making. Social learning, as the function of social communications, is the way to increase sustainability. Also it possible to say that social sustainability is a function of intensity and efficiency of communications between interlinked and interacted networks in the heterogeneous environment. Therefore the results of study demonstrated that risk management study should includes issues of risk and threats perception, which should be described in framework of appropriate tools and approaches connected with ethical dimension of vulnerability. For instance, problems of accessibility and availability of safety resources in view of social fairness and socio-economic dynamics should be included into future studies in field of risk analysis.

  7. Community health orientation of Indian Journal of Endocrinology and Metabolism: A bibliometric analysis of Indian Journal of Endocrinology and Metabolism

    Directory of Open Access Journals (Sweden)

    Kanica Kaushal

    2015-01-01

    Full Text Available Background: Endocrine and metabolic diseases especially diabetes have become focus areas for public health professionals. Indian Journal of Endocrinology and Metabolism (IJEM, a publication of Endocrine Society of India, is a peer-reviewed online journal, which covers technical and clinical studies related to health, ethical and social issues in field of diabetes, endocrinology and metabolism. This bibliometric analysis assesses the journal from a community health perspective. Materials and Methods: Every article published in IJEM over a period of 4 years (2011-2014 was accessed to review coverage of community health in the field of endocrinology. Results: Seven editorials, 30 review articles, 41 original articles, 12 brief communications, 20 letter to editors, 4 articles on guidelines and 2 in the section "endocrinology and gender" directly or indirectly dealt with community health aspects of endocrinology. Together these amounted to 17% of all articles published through these 4 years. There were 14 articles on general, 60 pertaining to pancreas and diabetes, 10 on thyroid, 7 on pituitary/adrenal/gonads, 21 on obesity and metabolism and 4 on parathyroid and bone; all community medicine related. Conclusion: Community health is an integral part of the modern endocrinology diabetology and metabolism practice and it received adequate journal space during the last 4 years. The coverage is broad based involving all the major endocrine disorders.

  8. 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.

  9. 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

  10. Social Network and Content Analysis of the North American Carbon Program as a Scientific Community of Practice

    Science.gov (United States)

    Brown, Molly E.; Ihli, Monica; Hendrick, Oscar; Delgado-Arias, Sabrina; Escobar, Vanessa M.; Griffith, Peter

    2015-01-01

    The North American Carbon Program (NACP) was formed to further the scientific understanding of sources, sinks, and stocks of carbon in Earth's environment. Carbon cycle science integrates multidisciplinary research, providing decision-support information for managing climate and carbon-related change across multiple sectors of society. This investigation uses the conceptual framework of com-munities of practice (CoP) to explore the role that the NACP has played in connecting researchers into a carbon cycle knowledge network, and in enabling them to conduct physical science that includes ideas from social science. A CoP describes the communities formed when people consistently engage in shared communication and activities toward a common passion or learning goal. We apply the CoP model by using keyword analysis of abstracts from scientific publications to analyze the research outputs of the NACP in terms of its knowledge domain. We also construct a co-authorship network from the publications of core NACP members, describe the structure and social pathways within the community. Results of the content analysis indicate that the NACP community of practice has substantially expanded its research on human and social impacts on the carbon cycle, contributing to a better understanding of how human and physical processes interact with one another. Results of the co-authorship social network analysis demonstrate that the NACP has formed a tightly connected community with many social pathways through which knowledge may flow, and that it has also expanded its network of institutions involved in carbon cycle research over the past seven years.

  11. Supercritical fluid extraction and ultra performance liquid chromatography of respiratory quinones for microbial community analysis in environmental and biological samples.

    Science.gov (United States)

    Hanif, Muhammad; Atsuta, Yoichi; Fujie, Koichi; Daimon, Hiroyuki

    2012-01-01

    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 (scCO(2)) 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). PMID:22391598

  12. Application of nested PCR-DGGE (denaturing gradient gel electrophoresis) for the analysis of ciliate communities in soils.

    Science.gov (United States)

    Shimano, Satoshi; Sambe, Mitsuo; Kasahara, Yasuhiro

    2012-01-01

    Ciliates play important roles as prey and predators in ecosystems. Changes in the ciliate community can affect the composition and population of microfauna and microflora in ecosystems. To investigate the structure of ciliate communities, we developed a nested PCR-DGGE method, which combines a universal eukaryotic-specific primer set in the first PCR step with a ciliate-specific primer set in the second PCR step, to amplify 18S rRNA genes from ciliates. The 300 bp DGGE fragments generated more bands on the gel than the 600 bp DGGE fragments. Prior to bead beating, DNA extraction of ciliates from soil samples was optimized with a combination of freeze-thaw cycles and ultrasonication. We applied this nested PCR-DGGE method to agricultural soils amended with 0, 120, 300, and 600 t ha⁻¹ year⁻¹ of livestock slurry. The results from the DGGE profiles and principal component analysis (PCA) revealed that the supplement of slurry to soils influenced the ciliate communities. From phylogenetic analysis, 108 DGGE bands were assigned to six classes, which included Spirotrichea and Colpodea, of the subphylum Intramacronucleata, and one class of the subphylum Postciliodesmatophora. These results indicated that a wide variety of taxonomic groups were detected by DGGE profiling. Thus, the nested PCR-DGGE method described here could clearly differentiate between ciliate communities within soil samples and allowed for the phylogenetic identification of these ciliates at the class level.

  13. Supercritical fluid extraction and ultra performance liquid chromatography of respiratory quinones for microbial community analysis in environmental and biological samples.

    Science.gov (United States)

    Hanif, Muhammad; Atsuta, Yoichi; Fujie, Koichi; Daimon, Hiroyuki

    2012-03-05

    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 (scCO(2)) 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).

  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. Diversity in a Polymicrobial Community Revealed by Analysis of Viromes, Endolysins and CRISPR Spacers

    Science.gov (United States)

    Treangen, Todd J.; Koren, Sergey; Pop, Mihai; Bhaya, Devaki

    2016-01-01

    The polymicrobial biofilm communities in Mushroom and Octopus Spring in Yellowstone National Park (YNP) are well characterized, yet little is known about the phage populations. Dominant species, Synechococcus sp. JA-2-3B'a(2–13), Synechococcus sp. JA-3-3Ab, Chloroflexus sp. Y-400-fl, and Roseiflexus sp. RS-1, contain multiple CRISPR-Cas arrays, suggesting complex interactions with phage predators. To analyze phage populations from Octopus Spring biofilms, we sequenced a viral enriched fraction. To assemble and analyze phage metagenomic data, we developed a custom module, VIRITAS, implemented within the MetAMOS framework. This module bins contigs into groups based on tetranucleotide frequencies and CRISPR spacer-protospacer matching and ORF calling. Using this pipeline we were able to assemble phage sequences into contigs and bin them into three clusters that corroborated with their potential host range. The virome contained 52,348 predicted ORFs; some were clearly phage-like; 9319 ORFs had a recognizable Pfam domain while the rest were hypothetical. Of the recognized domains with CRISPR spacer matches, was the phage endolysin used by lytic phage to disrupt cells. Analysis of the endolysins present in the thermophilic cyanophage contigs revealed a subset of characterized endolysins as well as a Glyco_hydro_108 (PF05838) domain not previously associated with sequenced cyanophages. A search for CRISPR spacer matches to all identified phage endolysins demonstrated that a majority of endolysin domains were targets. This strategy provides a general way to link host and phage as endolysins are known to be widely distributed in bacteriophage. Endolysins can also provide information about host cell wall composition and have the additional potential to be used as targets for novel therapeutics. PMID:27611571

  16. Diversity in a Polymicrobial Community Revealed by Analysis of Viromes, Endolysins and CRISPR Spacers.

    Science.gov (United States)

    Davison, Michelle; Treangen, Todd J; Koren, Sergey; Pop, Mihai; Bhaya, Devaki

    2016-01-01

    The polymicrobial biofilm communities in Mushroom and Octopus Spring in Yellowstone National Park (YNP) are well characterized, yet little is known about the phage populations. Dominant species, Synechococcus sp. JA-2-3B'a(2-13), Synechococcus sp. JA-3-3Ab, Chloroflexus sp. Y-400-fl, and Roseiflexus sp. RS-1, contain multiple CRISPR-Cas arrays, suggesting complex interactions with phage predators. To analyze phage populations from Octopus Spring biofilms, we sequenced a viral enriched fraction. To assemble and analyze phage metagenomic data, we developed a custom module, VIRITAS, implemented within the MetAMOS framework. This module bins contigs into groups based on tetranucleotide frequencies and CRISPR spacer-protospacer matching and ORF calling. Using this pipeline we were able to assemble phage sequences into contigs and bin them into three clusters that corroborated with their potential host range. The virome contained 52,348 predicted ORFs; some were clearly phage-like; 9319 ORFs had a recognizable Pfam domain while the rest were hypothetical. Of the recognized domains with CRISPR spacer matches, was the phage endolysin used by lytic phage to disrupt cells. Analysis of the endolysins present in the thermophilic cyanophage contigs revealed a subset of characterized endolysins as well as a Glyco_hydro_108 (PF05838) domain not previously associated with sequenced cyanophages. A search for CRISPR spacer matches to all identified phage endolysins demonstrated that a majority of endolysin domains were targets. This strategy provides a general way to link host and phage as endolysins are known to be widely distributed in bacteriophage. Endolysins can also provide information about host cell wall composition and have the additional potential to be used as targets for novel therapeutics. PMID:27611571

  17. 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 (β = 0.51. The results also show that more depressive symptoms (β = -0.27, low state self-esteem (β = 0.20, female gender (β = 0.13, older age (β = -0.11 and living in a residential care facility (β = -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.

  18. Metagenomic and metatranscriptomic analysis of microbial community structure and gene expression of activated sludge.

    Directory of Open Access Journals (Sweden)

    Ke Yu

    Full Text Available The present study applied both metagenomic and metatranscriptomic approaches to characterize microbial structure and gene expression of an activated sludge community from a municipal wastewater treatment plant in Hong Kong. DNA and cDNA were sequenced by Illumina Hi-seq2000 at a depth of 2.4 Gbp. Taxonomic analysis by MG-RAST showed bacteria were dominant in both DNA and cDNA datasets. The taxonomic profile obtained by BLAST against SILVA SSUref database and annotation by MEGAN showed that activated sludge was dominated by Proteobacteria, Actinobacteria, Bacteroidetes, Firmicutes and Verrucomicrobia phyla in both DNA and cDNA datasets. Global gene expression annotation based on KEGG metabolism pathway displayed slight disagreement between the DNA and cDNA datasets. Further gene expression annotation focusing on nitrogen removal revealed that denitrification-related genes sequences dominated in both DNA and cDNA datasets, while nitrifying genes were also expressed in relative high levels. Specially, ammonia monooxygenase and hydroxylamine oxidase demonstrated the high cDNA/DNA ratios in the present study, indicating strong nitrification activity. Enzyme subunits gene sequences annotation discovered that subunits of ammonia monooxygenase (amoA, amoB, amoC and hydroxylamine oxygenase had higher expression levels compared with subunits of the other enzymes genes. Taxonomic profiles of selected enzymes (ammonia monooxygenase and hydroxylamine oxygenase showed that ammonia-oxidizing bacteria present mainly belonged to Nitrosomonas and Nitrosospira species and no ammonia-oxidizing Archaea sequences were detected in both DNA and cDNA datasets.

  19. Strategies to Prevent MRSA Transmission in Community-Based Nursing Homes: A Cost Analysis.

    Science.gov (United States)

    Roghmann, Mary-Claire; Lydecker, Alison; Mody, Lona; Mullins, C Daniel; Onukwugha, Eberechukwu

    2016-08-01

    OBJECTIVE To estimate the costs of 3 MRSA transmission prevention scenarios compared with standard precautions in community-based nursing homes. DESIGN Cost analysis of data collected from a prospective, observational study. SETTING AND PARTICIPANTS Care activity data from 401 residents from 13 nursing homes in 2 states. METHODS Cost components included the quantities of gowns and gloves, time to don and doff gown and gloves, and unit costs. Unit costs were combined with information regarding the type and frequency of care provided over a 28-day observation period. For each scenario, the estimated costs associated with each type of care were summed across all residents to calculate an average cost and standard deviation for the full sample and for subgroups. RESULTS The average cost for standard precautions was $100 (standard deviation [SD], $77) per resident over a 28-day period. If gown and glove use for high-risk care was restricted to those with MRSA colonization or chronic skin breakdown, average costs increased to $137 (SD, $120) and $125 (SD, $109), respectively. If gowns and gloves were used for high-risk care for all residents in addition to standard precautions, the average cost per resident increased substantially to $223 (SD, $127). CONCLUSIONS The use of gowns and gloves for high-risk activities with all residents increased the estimated cost by 123% compared with standard precautions. This increase was ameliorated if specific subsets (eg, those with MRSA colonization or chronic skin breakdown) were targeted for gown and glove use for high-risk activities. Infect Control Hosp Epidemiol 2016;37:962-966. PMID:27174005

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

    Directory of Open Access Journals (Sweden)

    Gérald Gurtner

    Full Text Available 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 airspace and improve it by guiding the design of new ones. Specifically, we compare the performance of several community detection algorithms, both with fixed and variable resolution, and 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.

  1. 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.

  2. The effectiveness of community engagement in public health interventions for disadvantaged groups: a meta-analysis

    OpenAIRE

    O Mara-Eves, A.; Brunton, G.; Oliver, S; Kavanagh, J; Jamal, F.; Thomas, J.

    2015-01-01

    Background Inequalities in health are acknowledged in many developed countries, whereby disadvantaged groups systematically suffer from worse health outcomes such as lower life expectancy than non-disadvantaged groups. Engaging members of disadvantaged communities in public health initiatives has been suggested as a way to reduce health inequities. This systematic review was conducted to evaluate the effectiveness of public health interventions that engage the community on a range of health o...

  3. What facilitates adaptation? An analysis of community-based adaptation to environmental change in the Andes

    OpenAIRE

    Felipe Murtinho

    2016-01-01

    This study analyses the environmental, socio-economic andinstitutional factors that influence community-based adaptation strategies in 16municipalities in the rural Andes of Colombia. The study focuses specifically onthe factors that influence whether communities decide to take measures to managetheir water and micro-watersheds in response to water scarcity caused by climatevariability and land-use changes. The research uses quantitative and qualitativemethods incorporating data from surveys ...

  4. The Free Rider Problem in Community-Based Rural Water Supply: A Game Theoretic Analysis

    OpenAIRE

    Matthew Breier; Martine Visser

    2006-01-01

    Community-based water supply projects in rural South Africa have frequently proved unsustainable, with many communities unable to raise sufficient funds to meet operation and maintenance costs. A key obstacle to cost recovery (and the focus of this paper) is the free rider problem. As rural water services are frequently supplied as a public good, the link between paying for water and receiving it is not as straightforward as it is for private goods, and beneficiaries may have a material incen...

  5. Simulation Analysis of Community Farming: Is there any room for growth in Japanese rice farming? (Japanese)

    OpenAIRE

    SAITO Keiji; OHASHI Hiroshi; NISHIMURA Kiyohiko

    2010-01-01

    To what extent could productivity of Japanese rice farming be improved, if farmers were to cooperatively manage their rice production at the rural community level? Using the census data of 1990, 1995, and 2000, this paper estimates production function of individual farmers, and uses the estimates to simulate the productivity of counterfactual community rice farming. Simulation results indicate that production costs would decrease by approximately 60 percent, from 5.04 to 1.91 trillion yen in ...

  6. Blended Learning and Sense of Community: A Comparative Analysis with Traditional and Fully Online Graduate Courses

    Directory of Open Access Journals (Sweden)

    Fred Rovai and Hope Jordan

    2004-08-01

    Full Text Available Blended learning is a hybrid of classroom and online learning that includes some of the conveniences of online courses without the complete loss of face-to-face contact. The present study used a causal-comparative design to examine the relationship of sense of community between traditional classroom, blended, and fully online higher education learning environments. Evidence is provided to suggest that blended courses produce a stronger sense of community among students than either traditional or fully online courses.

  7. Blended Learning and Sense of Community: A Comparative Analysis with Traditional and Fully Online Graduate Courses

    OpenAIRE

    Fred Rovai and Hope Jordan

    2004-01-01

    Blended learning is a hybrid of classroom and online learning that includes some of the conveniences of online courses without the complete loss of face-to-face contact. The present study used a causal-comparative design to examine the relationship of sense of community between traditional classroom, blended, and fully online higher education learning environments. Evidence is provided to suggest that blended courses produce a stronger sense of community among students than either traditional...

  8. An Analysis of an Inflammatory Bowel Disease Practise in an Urban Community Hospital

    OpenAIRE

    Adam, David; Adam, Jonathan; Price, Howard

    2000-01-01

    OBJECTIVES: To review an individual community gastroenterologist’s experience with inflammatory bowel disease (IBD). The aspects studied were distribution of disease, need for hospital admission, immunosuppressants, systemic steroids, and surgery and its indications. The incidence of cancer was also reviewed.PATIENTS AND METHODS: The charts of all IBD patients (n=373) seen between 1993 and 1996 by an individual gastroenterologist in an urban community hospital were reviewed for the aforementi...

  9. 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 popular...

  10. 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...

  11. Comparative Molecular Analysis of Community- or Hospital-Acquired Methicillin-Resistant Staphylococcus aureus

    OpenAIRE

    Fey, P. D.; Saïd-Salim, B.; Rupp, M. E.; Hinrichs, S H; Boxrud, D. J.; Davis, C C; Kreiswirth, B N; Schlievert, P M

    2003-01-01

    Community-acquired methicillin-resistant Staphylococcus aureus (CA-MRSA) is a growing public health concern that has been associated with pediatric fatalities. It is hypothesized that the evolution of CA-MRSA is a recent event due to the acquisition of mec DNA by previously methicillin-susceptible strains that circulated in the community. This study investigated the genetic relatedness between CA-MRSA, hospital-associated MRSA (HA-MRSA), and nonmenstrual toxic shock syndrome (nmTSS) isolates....

  12. Learning Community and Nonlearning Community Students in a Midwestern Community College

    Science.gov (United States)

    Laanan, Frankie Santos; Jackson, Dimitra Lynette; Stebleton, Michael J.

    2013-01-01

    The research on learning communities has focused primarily on students at four-year colleges and universities. There is a dearth of studies that examine learning communities in community colleges. The purpose of this comparative study was to conduct an analysis of learning community and nonlearning community students in a community college located…

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

    OpenAIRE

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

    2013-01-01

    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 desc...

  14. 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...

  15. Taxonomic and functional metagenomic analysis of anodic communities in two pilot-scale microbial fuel cells treating different industrial wastewaters

    OpenAIRE

    Kiseleva, Larisa; Garushyants, Sofya K.; Ma, Hongwu; Simpson, David JW; Fedorovich, Viatcheslav; Cohen, Michael F.; Goryanin, Igor

    2015-01-01

    The combined processes of microbial biodegradation accompanied by extracellular electron transfer make microbial fuel cells (MFCs) a promising new technology for cost-effective and sustainable wastewater treatment. Although a number of microbial species that build biofilms on the anode surfaces of operating MFCs have been identified, studies on the metagenomics of entire electrogenic communities are limited. Here we present the results of whole-genome metagenomic analysis of electrochemically...

  16. Determinants of Performance of Drinking-Water Community Organizations: A Comparative Analysis of Case Studies in Rural Costa Rica

    OpenAIRE

    Madrigal, Róger; Alpízar, Francisco; Schlüter, Achim

    2010-01-01

    This paper presents an institutional analysis of the underlying factors affecting the performance of drinking-water community organizations in rural areas of Costa Rica. These organizations provide water to more than 60 percent of the total rural population. There is, however, a great disparity in their performance. This research tries to understand how a complex configuration of geophysical characteristics of watersheds and infrastructure as well as governance and socioeconomic attributes of...

  17. High-Throughput Analysis of Ammonia Oxidiser Community Composition via a Novel, amoA-Based Functional Gene Array

    OpenAIRE

    Guy C J Abell; Stan S Robert; Frampton, Dion M. F.; John K Volkman; Farhan Rizwi; József Csontos; Levente Bodrossy

    2012-01-01

    Advances in microbial ecology research are more often than not limited by the capabilities of available methodologies. Aerobic autotrophic nitrification is one of the most important and well studied microbiological processes in terrestrial and aquatic ecosystems. We have developed and validated a microbial diagnostic microarray based on the ammonia-monooxygenase subunit A (amoA) gene, enabling the in-depth analysis of the community structure of bacterial and archaeal ammonia oxidisers. The am...

  18. 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...

  19. 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

  20. Technical, economic and environmental analysis of a MSW kerbside separate collection system applied to small communities.

    Science.gov (United States)

    De Feo, G; Malvano, C

    2012-10-01

    The main aim of this study was to evaluate the costs and environmental impacts induced by a fixed model of MSW kerbside separate collection system for communities up to 10,000 inhabitants, in order to evaluate the convenience for the smaller municipalities to unite and form more economically and environmentally sound systems. This topic is important not only due to the large number of small municipalities (e.g. in Italy 72% of the municipalities has less than 5000 inhabitants) but also to the fact that separate collection systems are typically designed to take into account only the technical and economic aspects, which is a practice but not acceptable in the light of the sustainable development paradigm. In economic terms, between 1000 and 4000 inhabitants, the annual per capita cost for vehicles and personnel decreased, with a maximum at approximately 180€/inhabitants/year; while, from 5000 up to 10,000 inhabitants, the annual per capita cost was practically constant and equal to about 80€/inhabitants/year. For the municipalities of less than 5000 inhabitants, from an economic point of view the aggregation is always advantageous. The environmental impacts were calculated by means of the Life Cycle Assessment tool SimaPro 7.1, while the economic-environmental convenience was evaluated by combining in a simple multicriteria analysis, the annual total per capita cost (€/inhabitants/year) and the annual total per capita environmental impact (kEco-indicator point/inhabitants/year), giving the same importance to each criteria. The analysis was performed by means of the Paired Comparison Technique using the Simple Additive Weighting method. The economic and environmental convenience of the aggregation diminishes with the size of the municipalities: for less than 4000 inhabitants, the aggregation was almost always advantageous (91.7%); while, for more than or equal to 5000 inhabitants, the aggregation was convenient only in 33.3% of the cases. On the whole, out of

  1. [Analysis of the changes of microbial community structure on bio-carrier of recirculating aquaculture systems (RAS)].

    Science.gov (United States)

    Zhang, Hai-Geng; Ma, Shao-Sai; Li, Qiu-Fen; Fu, Xue-Jun; Zhang, Yan; Qu, Ke-Ming

    2011-01-01

    In order to study the variation of microbial community structure and the mechanism of denitrification on bio-carrier in recirculating aquaculture systems (RAS) during the periods of bio-film formation and operation the systems, traditional microbiological methods were applied to count the quantity of heterotrophic bacteria, ammonia oxidize bacteria and nitrite oxidize bacteria. The amplified products of variable V3 region of bacterial 16S rDNA were separated by using denaturing gradient gel electrophoresis (DGGE). And bacterial community DNA fingerprint was obtained. The sequences retrieved from the DGGE bands were used for homology analysis and construction of phylogenetic tree. It presented a trend that the quantity of the three types of bacteria increased gradually to a top and then fallen slowly to a stable level. The composition of microbial community of bio-carrier was very abundant in all periods, and the Shannon index was 1.53, 1.44, 1.57, 1.08, 1.27 and 1.30, respectively. During different periods, there was a certain shift in the microbial community structure, while the C(s) value (similar index) in two adjacent periods was high, indicating the variation and succession of the microbial community was slow and regular. Several bacteria had an effect on removal of pollutants for farming water and the effluent water quality could meet the requirements of high-density culture. Among them, Proteobacteria and Flavobacteria were main communities. The Nitrosomonas and some other facultative anaerobic bacteria (Flavobacteriaceae bacterium) were identified, which indicated that there may be coexisted pathways of nitrification and denitrification in bio-filter.

  2. Interrelation of Sport Participation, Physical Activity, Social Capital and Mental Health in Disadvantaged Communities: A SEM-Analysis.

    Directory of Open Access Journals (Sweden)

    Mathieu Marlier

    Full Text Available The Health through Sport conceptual model links sport participation with physical, social and psychological outcomes and stresses the need for more understanding between these outcomes. The present study aims to uncover how sport participation, physical activity, social capital and mental health are interrelated by examining these outcomes in one model.A cross-sectional survey was conducted in nine disadvantaged communities in Antwerp (Belgium. Two hundred adults (aged 18-56 per community were randomly selected and visited at home to fill out a questionnaire on socio-demographics, sport participation, physical activity, social capital and mental health. A sample of 414 adults participated in the study.Structural Equation Modeling analysis showed that sport participation (β = .095 and not total physical activity (β = .027 was associated with better mental health. No association was found between sport participation and community social capital (β = .009 or individual social capital (β = .045. Furthermore, only community social capital was linked with physical activity (β = .114, individual social capital was not (β = -.013. In contrast, only individual social capital was directly associated with mental health (β = .152, community social capital was not (β = .070.This study emphasizes the importance of sport participation and individual social capital to improve mental health in disadvantaged communities. It further gives a unique insight into the functionalities of how sport participation, physical activity, social capital and mental health are interrelated. Implications for policy are that cross-sector initiatives between the sport, social and health sector need to be supported as their outcomes are directly linked to one another.

  3. Interrelation of Sport Participation, Physical Activity, Social Capital and Mental Health in Disadvantaged Communities: A SEM-Analysis

    Science.gov (United States)

    Marlier, Mathieu; Van Dyck, Delfien; Cardon, Greet; De Bourdeaudhuij, Ilse; Babiak, Kathy; Willem, Annick

    2015-01-01

    Background The Health through Sport conceptual model links sport participation with physical, social and psychological outcomes and stresses the need for more understanding between these outcomes. The present study aims to uncover how sport participation, physical activity, social capital and mental health are interrelated by examining these outcomes in one model. Methods A cross-sectional survey was conducted in nine disadvantaged communities in Antwerp (Belgium). Two hundred adults (aged 18–56) per community were randomly selected and visited at home to fill out a questionnaire on socio-demographics, sport participation, physical activity, social capital and mental health. A sample of 414 adults participated in the study. Results Structural Equation Modeling analysis showed that sport participation (β = .095) and not total physical activity (β = .027) was associated with better mental health. No association was found between sport participation and community social capital (β = .009) or individual social capital (β = .045). Furthermore, only community social capital was linked with physical activity (β = .114), individual social capital was not (β = -.013). In contrast, only individual social capital was directly associated with mental health (β = .152), community social capital was not (β = .070). Conclusion This study emphasizes the importance of sport participation and individual social capital to improve mental health in disadvantaged communities. It further gives a unique insight into the functionalities of how sport participation, physical activity, social capital and mental health are interrelated. Implications for policy are that cross-sector initiatives between the sport, social and health sector need to be supported as their outcomes are directly linked to one another. PMID:26451731

  4. Analysis of the Saxicolous Lichen Communities in Măcin Mountains National Park

    Directory of Open Access Journals (Sweden)

    Fodor Ecaterina

    2015-11-01

    Full Text Available The assemblage of saxicolous lichenized fungal communities in Măcin Mountains National Park was assessed during a biodiversity study developed between 2006 and 2008. Fifty three species of saxicolous lichenized fungi were identified on Hercynic granites and granitoid outcrops characterized by intense weathering process. Apparently, competition was not the main mechanism in community assemblage as calculated C score showed (non-significant difference between mean calculated and simulated score. Niche overlap assessment showed that lichens avoided competition by spatial niche partition (mean Pianka index of 0.07 for sampling quadrats and 0.20 for locations. The estimation of nestedness index (N=0.63 at local scale and N=0.88 at sampling quadrat scale indicated that local communities were subsets of a larger, regional scale metacommunity. Similarities in community composition across locations were assessed by means of Ward algorithm, results indicating that the most dissimilar communities were encountered at Pietrele Mariei, a residual inselberg and Suluc foothill. Conservation of saxicolous communities containing endangered species such as Umbilicaria grisea, critically endangered Ramalina obtusata and vulnerable Acrocordia gemmata, Pertusaria hemisphaerica, Pertusaria pertusa will be challenged in the future by anthropogenic impact coming from agriculture, sheep grazing and quarries operating in the proximity of the reserve area.

  5. Effect of methamidophos on soil fungi community in microcosms by plate count, DGGE and clone library analysis

    Institute of Scientific and Technical Information of China (English)

    LI Xinyu; ZHANG Huiwen; WU Minna; ZHANG Yan; ZHANG Chenggang

    2008-01-01

    Methamidophos was widely used a pesticide in northern China. The potential influences of methamidophos on soil fungal community in black soil were assessed by plate count, 28S rDNA-PCR-DGGE, and clone library analysis. Three methamidophos levels (50, 150, and 250 mg/kg) were tested in soil microcosms. Results from plate count during a 60-d microcosm experiment showed that high concentrations of methamidophos (250 mg/kg) could significantly stimulate fungal populations. DCGE (denaturing gradient gel electrophoresis) fingerprinting patterns showed a significant difference between the responses of culturable and total fungi communities under the stress of methamidophos. Shannon diversity indices calculated from DGGE profiles indicated that culturable fungi in all microcosms with methamidophos treatment increased after 1 week of incubation. However, the diversity indices of total fungi decreased in the first week, as compared to the stimulation of culturable fungi. At the 8th week, however, all the microcosms treated by methamidophos were similar to the control microcosms in community structure as suggested by the Shannon diversity indices for both culturable and total fungi. In contrast, after 1 week the fungal structure of culturable and unculturable both were disturbed to different extent under the stresses of methamidophos by clustering analysis. Clone sequencing analysis indicated the stimulation of pathogenic and unculturable fungal populations by methamidophos treatment, suggetsing potential risks of plant disease outbreak.

  6. The Topography of Poverty in the United States: A Spatial Analysis Using County-Level Data From the Community Health Status Indicators Project

    OpenAIRE

    James B. Holt, PhD, MPA

    2007-01-01

    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 ...

  7. Microbial community analysis of fouled reverse osmosis membranes used in water recycling

    KAUST Repository

    Ayache, C.

    2013-06-01

    Biofouling on RO membranes has major cost implications in water reclamation. In this study membranes and water samples were collected from a RO pilot-plant operated on two sites to study the differences in microbial communities in order to develop a better understanding of the biofouling. For the two sites studied, the examination of the front membrane of the first stage and the tail membrane of the second stage of the RO train using 16S rRNA gene-based molecular technique showed that bacteria were similar on both stages and no significant effect of the membrane location within the RO train on the biofilm development could be discerned. However, the comparison of the identified bacteria from membrane samples between the two sites showed that each site is specific, leading to a different composition of microbial communities. The different nutrient concentrations in the RO feed water due to the different biological pre-treatments are one potential explanation for the observed differences in the microbial communities. Seasonal variations also play a major role in the development of microbial communities as shown by the significant differences observed between the communities measured in the samples in winter and summer on the second site. The results did not show similarity between the species identified on the RO membranes and in the feed water. Hence, the relationship of microbial community between the water generated during the pre-treatment process and RO membranes is not obvious. From this study, results showed that there is an actual need to investigate the development of microbial communities on membrane surface in real conditions in order to suggest tailored solutions for biofouling control and removal. © 2013 Elsevier Ltd.

  8. Microbial community analysis of fouled reverse osmosis membranes used in water recycling.

    Science.gov (United States)

    Ayache, C; Manes, C; Pidou, M; Croué, J P; Gernjak, W

    2013-06-15

    Biofouling on RO membranes has major cost implications in water reclamation. In this study membranes and water samples were collected from a RO pilot-plant operated on two sites to study the differences in microbial communities in order to develop a better understanding of the biofouling. For the two sites studied, the examination of the front membrane of the first stage and the tail membrane of the second stage of the RO train using 16S rRNA gene-based molecular technique showed that bacteria were similar on both stages and no significant effect of the membrane location within the RO train on the biofilm development could be discerned. However, the comparison of the identified bacteria from membrane samples between the two sites showed that each site is specific, leading to a different composition of microbial communities. The different nutrient concentrations in the RO feed water due to the different biological pre-treatments are one potential explanation for the observed differences in the microbial communities. Seasonal variations also play a major role in the development of microbial communities as shown by the significant differences observed between the communities measured in the samples in winter and summer on the second site. The results did not show similarity between the species identified on the RO membranes and in the feed water. Hence, the relationship of microbial community between the water generated during the pre-treatment process and RO membranes is not obvious. From this study, results showed that there is an actual need to investigate the development of microbial communities on membrane surface in real conditions in order to suggest tailored solutions for biofouling control and removal.

  9. Online Social Support for Patients with Multiple Sclerosis: A Thematic Analysis of Messages Posted to a Virtual Support Community

    Science.gov (United States)

    Shavazi, Masoumeh Abbasi; Morowatisharifabad, Mohammad Ali; Shavazi, Mohammad Taghi Abbasi; Mirzaei, Masoud; Ardekani, Ali Mellat

    2016-01-01

    Background: Currently with the emergence of the Internet, patients have an opportunity to exchange social support online. However, little attention has been devoted to different dimensions of online social support exchanged in virtual support communities for patients with multiple sclerosis (MS). Methods: To provide a rich insight, the aim of this qualitative study was to explore and categorize different dimensions of online social support in messages exchanged in a virtual support community for patients with MS. A total of 548 posted messages created during one year period were selected using purposive sampling to consider the maximum variation sampling. Prior-research-driven thematic analysis was then conducted. In this regard, we used the Cutruna and Suhr’s coding system. The messages that could not be categorized with the used coding system were thematically analyzed to explore new additional social support themes. Results: The results showed that various forms of social support including informational, emotional, network, esteem and tangible support were exchanged. Moreover, new additional social support themes including sharing personal experiences, sharing coping strategies and spiritual support emerged in this virtual support community. Conclusion: The wide range of online social support exchanged in the virtual support community can be regarded as a supplementary source of social support for patients with MS. Future researches can examine online social support more comprehensively considering additional social support themes emerging in the present study. PMID:27382585

  10. Profiles of Community Violence Exposure Among African American Youth: An Examination of Desensitization to Violence Using Latent Class Analysis.

    Science.gov (United States)

    Gaylord-Harden, Noni K; Dickson, Daniel; Pierre, Cynthia

    2016-07-01

    The current study employed latent class analysis (LCA) to identify distinct profiles of community violence exposure and their associations to desensitization outcomes in 241 African American early adolescents (M age = 12.86, SD = 1.28) in the sixth through eighth grade from under-resourced urban communities. Participants self-reported on their exposure to community violence, as well as on depressive and anxiety symptoms. The LCA revealed three distinct classes: a class exposed to low levels of violence (low exposure class), a class exposed to moderately high levels of victimization (victimization class), and a class exposed to high levels of all types of violence (high exposure class). Consistent with predictions, the high exposure class showed the lowest levels of depressive symptoms, suggesting a desensitization outcome. Gender and age were also examined in relation to the classes, and age was significantly associated with an increased risk of being a member of the high exposure class relative to the low exposure class. Using person-based analyses to examine desensitization outcomes provides useful information for prevention and intervention efforts, as it helps to identify a specific subgroup of youth that may be more likely to show desensitization outcomes in the context of community violence. PMID:25716195

  11. Online Social Support for Patients with Multiple Sclerosis: A Thematic Analysis of Messages Posted to a Virtual Support Community

    Directory of Open Access Journals (Sweden)

    Masoumeh Abbasi Shavazi

    2016-07-01

    Full Text Available Background: Currently with the emergence of the Internet, patients have an opportunity to exchange social support online. However, little attention has been devoted to different dimensions of online social support exchanged in virtual support communities for patients with multiple sclerosis (MS. Methods: To provide a rich insight, the aim of this qualitative study was to explore and categorize different dimensions of online social support in messages exchanged in a virtual support community for patients with MS. A total of 548 posted messages created during one year period were selected using purposive sampling to consider the maximum variation sampling. Prior-research-driven thematic analysis was then conducted. In this regard, we used the Cutruna and Suhr’s coding system. The messages that could not be categorized with the used coding system were thematically analyzed to explore new additional social support themes. Results: The results showed that various forms of social support including informational, emotional, network, esteem and tangible support were exchanged. Moreover, new additional social support themes including sharing personal experiences, sharing coping strategies and spiritual support emerged in this virtual support community. Conclusion: The wide range of online social support exchanged in the virtual support community can be regarded as a supplementary source of social support for patients with MS. Future researches can examine online social support more comprehensively considering additional social support themes emerging in the present study.

  12. A three-scale analysis of bacterial communities involved in rocks colonization and soil formation in high mountain environments.

    Science.gov (United States)

    Esposito, Alfonso; Ciccazzo, Sonia; Borruso, Luigimaria; Zerbe, Stefan; Daffonchio, Daniele; Brusetti, Lorenzo

    2013-10-01

    Alpha and beta diversities of the bacterial communities growing on rock surfaces, proto-soils, riparian sediments, lichen thalli, and water springs biofilms in a glacier foreland were studied. We used three molecular based techniques to allow a deeper investigation at different taxonomic resolutions: denaturing gradient gel electrophoresis, length heterogeneity-PCR, and automated ribosomal intergenic spacer analysis. Bacterial communities were mainly composed of Acidobacteria, Proteobacteria, and Cyanobacteria with distinct variations among sites. Proteobacteria were more represented in sediments, biofilms, and lichens; Acidobacteria were mostly found in proto-soils; and Cyanobacteria on rocks. Firmicutes and Bacteroidetes were mainly found in biofilms. UniFrac P values confirmed a significant difference among different matrices. Significant differences (P < 0.001) in beta diversity were observed among the different matrices at the genus-species level, except for lichens and rocks which shared a more similar community structure, while at deep taxonomic resolution two distinct bacterial communities between lichens and rocks were found. PMID:23712376

  13. 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.

  14. The current status of community drug testing via the analysis of drugs and drug metabolites in sewage

    Directory of Open Access Journals (Sweden)

    Malcolm J. Reid

    2011-12-01

    Full Text Available Over the past few years the analysis of drug residues in sewage has been promoted as a means of estimating the level of drug use in communities. Measured drug residue concentrations in the sewage are used to determine the load (total mass of the drug being used by the entire community. Knowledge of the size or population of the community then allows for the calculation of drug-use relative to population (typically drug-mass/day/1000 inhabitants which facilitates comparisons between differing communities or populations. Studies have been performed in many European countries, including Norway, as well as in the US and Australia. The approach has successfully estimated the use of cocaine, amphetamine, methamphetamine, MDMA, cannabis, nicotine and alcohol. The analysis of biomarkers of drug use in sewage has great potential to support and complement existing techniques for estimating levels of drug use, and as such has been identified as a promising development by the European Monitoring Centre for Drugs and Drug Addiction (EMCDDA; www.emcdda.europa.eu/wastewater-analysis. The approach is not without its challenges, and ongoing collaboration across Europe aims at agreeing upon best-practice and harmonising the methods being used. In Norway development is being performed through the NFR RUSMIDDEL funded DrugMon (www.niva.no/drugmon project that has led to the development of many new techniques, significantly improved our understanding of the uncertainties associated with the approach and allowed the coordination of Europe wide collaboration which has included all important intercalibration exercises. Application of the technique can provide evidence-based and real-time estimates of collective drug use with the resulting data used to improve the much needed estimates of drug use and dependency.

  15. An integrated metagenome and -proteome analysis of the microbial community residing in a biogas production plant.

    Science.gov (United States)

    Ortseifen, Vera; Stolze, Yvonne; Maus, Irena; Sczyrba, Alexander; Bremges, Andreas; Albaum, Stefan P; Jaenicke, Sebastian; Fracowiak, Jochen; Pühler, Alfred; Schlüter, Andreas

    2016-08-10

    To study the metaproteome of a biogas-producing microbial community, fermentation samples were taken from an agricultural biogas plant for microbial cell and protein extraction and corresponding metagenome analyses. Based on metagenome sequence data, taxonomic community profiling was performed to elucidate the composition of bacterial and archaeal sub-communities. The community's cytosolic metaproteome was represented in a 2D-PAGE approach. Metaproteome databases for protein identification were compiled based on the assembled metagenome sequence dataset for the biogas plant analyzed and non-corresponding biogas metagenomes. Protein identification results revealed that the corresponding biogas protein database facilitated the highest identification rate followed by other biogas-specific databases, whereas common public databases yielded insufficient identification rates. Proteins of the biogas microbiome identified as highly abundant were assigned to the pathways involved in methanogenesis, transport and carbon metabolism. Moreover, the integrated metagenome/-proteome approach enabled the examination of genetic-context information for genes encoding identified proteins by studying neighboring genes on the corresponding contig. Exemplarily, this approach led to the identification of a Methanoculleus sp. contig encoding 16 methanogenesis-related gene products, three of which were also detected as abundant proteins within the community's metaproteome. Thus, metagenome contigs provide additional information on the genetic environment of identified abundant proteins. PMID:27312700

  16. Molecular analysis of microbial community in arsenic-rich groundwater of Kolsor, West Bengal.

    Science.gov (United States)

    Sarkar, Angana; Paul, Dhiraj; Kazy, Sufia K; Sar, Pinaki

    2016-01-01

    Bacterial community composition within the highly arsenic (As) contaminated groundwater from Kolsur, West Bengal was analyzed over a period of 3 years using 16S rRNA gene clone library and Denaturing Gradient Gel Electrophoresis (DGGE). Molecular phylogenetic study revealed abundance of α-Proteobacteria (56%) and Firmicutes (29%) along with members of β-Proteobacteria, Verrucomicrobia and Sphingobacteria as relatively minor groups. Along with consistent physicochemical environment, a stable microbial community structure comprising of bacterial genera Agrobacterium-Rhizobium, Ochrobactrum, Pseudomonas, Anoxybacillus and Penibacillus was recorded over the three years study period. Presence of cytosolic arsenate reductase (arsC) gene was observed within the microbial community. Phylogenetic analyses revealed that all the arsC sequences were closely related to the same gene from γ-proteobacterial members while the community was consisted of mainly α-proteobacterial groups. Such phylogenetic incongruence between 16S rRNA and arsC genes possibly indicated horizontal gene transfer (HGT) of the ars genes within the groundwater community. Overall, the study reported a nearly stable geomicrobial environment and genetic determinant related to As homeostasis gene, and provided a better insight on biogeochemistry of As contaminated aquifer of West Bengal. PMID:26634393

  17. Perspective for Aquaponic Systems: “Omic” Technologies for Microbial Community Analysis

    Science.gov (United States)

    Munguia-Fragozo, Perla; Alatorre-Jacome, Oscar; Rico-Garcia, Enrique; Torres-Pacheco, Irineo; Cruz-Hernandez, Andres; Ocampo-Velazquez, Rosalia V.; Garcia-Trejo, Juan F.; Guevara-Gonzalez, Ramon G.

    2015-01-01

    Aquaponics is the combined production of aquaculture and hydroponics, connected by a water recirculation system. In this productive system, the microbial community is responsible for carrying out the nutrient dynamics between the components. The nutrimental transformations mainly consist in the transformation of chemical species from toxic compounds into available nutrients. In this particular field, the microbial research, the “Omic” technologies will allow a broader scope of studies about a current microbial profile inside aquaponics community, even in those species that currently are unculturable. This approach can also be useful to understand complex interactions of living components in the system. Until now, the analog studies were made to set up the microbial characterization on recirculation aquaculture systems (RAS). However, microbial community composition of aquaponics is still unknown. “Omic” technologies like metagenomic can help to reveal taxonomic diversity. The perspectives are also to begin the first attempts to sketch the functional diversity inside aquaponic systems and its ecological relationships. The knowledge of the emergent properties inside the microbial community, as well as the understanding of the biosynthesis pathways, can derive in future biotechnological applications. Thus, the aim of this review is to show potential applications of current “Omic” tools to characterize the microbial community in aquaponic systems. PMID:26509157

  18. High-throughput nucleotide sequence analysis of diverse bacterial communities in leachates of decomposing pig carcasses

    Directory of Open Access Journals (Sweden)

    Seung Hak Yang

    2015-09-01

    Full Text Available The leachate generated by the decomposition of animal carcass has been implicated as an environmental contaminant surrounding the burial site. High-throughput nucleotide sequencing was conducted to investigate the bacterial communities in leachates from the decomposition of pig carcasses. We acquired 51,230 reads from six different samples (1, 2, 3, 4, 6 and 14 week-old carcasses and found that sequences representing the phylum Firmicutes predominated. The diversity of bacterial 16S rRNA gene sequences in the leachate was the highest at 6 weeks, in contrast to those at 2 and 14 weeks. The relative abundance of Firmicutes was reduced, while the proportion of Bacteroidetes and Proteobacteria increased from 3–6 weeks. The representation of phyla was restored after 14 weeks. However, the community structures between the samples taken at 1–2 and 14 weeks differed at the bacterial classification level. The trend in pH was similar to the changes seen in bacterial communities, indicating that the pH of the leachate could be related to the shift in the microbial community. The results indicate that the composition of bacterial communities in leachates of decomposing pig carcasses shifted continuously during the study period and might be influenced by the burial site.

  19. 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.

  20. Perspective for Aquaponic Systems: “Omic” Technologies for Microbial Community Analysis

    Directory of Open Access Journals (Sweden)

    Perla Munguia-Fragozo

    2015-01-01

    Full Text Available Aquaponics is the combined production of aquaculture and hydroponics, connected by a water recirculation system. In this productive system, the microbial community is responsible for carrying out the nutrient dynamics between the components. The nutrimental transformations mainly consist in the transformation of chemical species from toxic compounds into available nutrients. In this particular field, the microbial research, the “Omic” technologies will allow a broader scope of studies about a current microbial profile inside aquaponics community, even in those species that currently are unculturable. This approach can also be useful to understand complex interactions of living components in the system. Until now, the analog studies were made to set up the microbial characterization on recirculation aquaculture systems (RAS. However, microbial community composition of aquaponics is still unknown. “Omic” technologies like metagenomic can help to reveal taxonomic diversity. The perspectives are also to begin the first attempts to sketch the functional diversity inside aquaponic systems and its ecological relationships. The knowledge of the emergent properties inside the microbial community, as well as the understanding of the biosynthesis pathways, can derive in future biotechnological applications. Thus, the aim of this review is to show potential applications of current “Omic” tools to characterize the microbial community in aquaponic systems.

  1. What facilitates adaptation? An analysis of community-based adaptation to environmental change in the Andes

    Directory of Open Access Journals (Sweden)

    Felipe Murtinho

    2016-02-01

    Full Text Available This study analyses the environmental, socio-economic andinstitutional factors that influence community-based adaptation strategies in 16municipalities in the rural Andes of Colombia. The study focuses specifically onthe factors that influence whether communities decide to take measures to managetheir water and micro-watersheds in response to water scarcity caused by climatevariability and land-use changes. The research uses quantitative and qualitativemethods incorporating data from surveys to 104 water user associations,precipitation and land-use data, municipal socio-economic information, and semistructured interviews with key informants. The results reveal 1 the links betweenenvironmental change and the type of adaptation that communities implement,and 2 how, in face of water scarcity changes, external funding facilitatesadaptation. The findings of this study contributes to the common-pool resourceand adaptation literatures by highlighting the important role that external actorsmay have in shaping collective action to adapt to environmental change.

  2. 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.

  3. Insect Pollinators in Iowa Cornfields: Community Identification and Trapping Method Analysis

    Science.gov (United States)

    2016-01-01

    Availability of mass flowering plants in landscapes dominated by agriculture can have a strong positive impact on the density of generalist, native pollinators. Row-crop production in Iowa accounts for 75% of the arable acres, with corn, Zea mays, representing the majority of hectares planted. To date, there has been no description of the insect pollinator community found within Iowa cornfields. We report a field study to determine the optimal sampling methodology to characterize the community of insect pollinators within cornfields. During 2012 and 2013, 3,616 insect pollinators representing 51 species were captured using bee bowls, and 945 individuals representing 10 species were captured using sticky cards. We examined the effects of trap type, height, and bowl color on the described community. Bee bowls captured a more abundant and species rich community than sticky cards with all species captured on sticky cards also present in bee bowls. Traps deployed at the height of the tassels describe a more abundant and species rich community of pollinators than traps at ear height (2x as many individuals) or ground height (4x as many individuals). Blue bowls captured more bees than white (2.75x as many individuals) or yellow bowls (3.5x as many individuals); and yellow bowls captured more flies than white (2x as many individuals) or blue (2.3x as many individuals). To provide the most complete description of the community of insect pollinators using cornfields as a resource, we suggest sampling-using bee bowls at the height of the tassels using all three bee bowl colors. PMID:27459648

  4. Metagenomic analysis suggests modern freshwater microbialites harbor a core and distinct microbial community

    Directory of Open Access Journals (Sweden)

    Richard Allen White III

    2016-01-01

    Full Text Available Modern microbialites are complex microbial communities that interface with abiotic factors to form carbonate-rich organosedimentary structures whose ancestors provide the earliest evidence of life. Past studies primarily on marine microbialites have inventoried diverse taxa and metabolic pathways, but it is unclear which of these are members of the microbialite community and which are introduced from adjacent environments. Here we control for these factors by sampling the surrounding water and nearby sediment, in addition to the microbialites and use a metagenomics approach to interrogate the microbial community. Our findings suggest that the Pavilion Lake microbialite community profile, metabolic potential and pathway distributions are distinct from those in the neighboring sediments and water. Based on RefSeq classification, members of the Proteobacteria (e.g alpha and delta classes were the dominant taxa in the microbialites, and possessed novel functional guilds associated with the metabolism of heavy metals, antibiotic resistance, primary alcohol biosynthesis and urea metabolism; the latter may help drive biomineralization. Urea metabolism within Pavilion Lake microbialites is a feature not previously associated in other microbialites. The microbialite communities were also significantly enriched for cyanobacteria and acidobacteria, which likely play an important role in biomineralization. Additional findings suggest that Pavilion Lake microbialites are under viral selection as genes associated with viral infection (e.g CRISPR-Cas, phage shock and phage excision are abundant within the microbialite metagenomes. The morphology of Pavilion Lake microbialites changes dramatically with depth; yet, metagenomic data did not vary significantly by morphology or depth, indicating that microbialite morphology is altered by other factors, perhaps transcriptional differences or abiotic conditions. This work provides a comprehensive metagenomic

  5. Insect Pollinators in Iowa Cornfields: Community Identification and Trapping Method Analysis.

    Science.gov (United States)

    Wheelock, M J; O'Neal, M E

    2016-01-01

    Availability of mass flowering plants in landscapes dominated by agriculture can have a strong positive impact on the density of generalist, native pollinators. Row-crop production in Iowa accounts for 75% of the arable acres, with corn, Zea mays, representing the majority of hectares planted. To date, there has been no description of the insect pollinator community found within Iowa cornfields. We report a field study to determine the optimal sampling methodology to characterize the community of insect pollinators within cornfields. During 2012 and 2013, 3,616 insect pollinators representing 51 species were captured using bee bowls, and 945 individuals representing 10 species were captured using sticky cards. We examined the effects of trap type, height, and bowl color on the described community. Bee bowls captured a more abundant and species rich community than sticky cards with all species captured on sticky cards also present in bee bowls. Traps deployed at the height of the tassels describe a more abundant and species rich community of pollinators than traps at ear height (2x as many individuals) or ground height (4x as many individuals). Blue bowls captured more bees than white (2.75x as many individuals) or yellow bowls (3.5x as many individuals); and yellow bowls captured more flies than white (2x as many individuals) or blue (2.3x as many individuals). To provide the most complete description of the community of insect pollinators using cornfields as a resource, we suggest sampling-using bee bowls at the height of the tassels using all three bee bowl colors. PMID:27459648

  6. Comparison of bacterial community structures in two systems of a sewage treatment plant using PCR-DGGE analysis

    Institute of Scientific and Technical Information of China (English)

    Abd El-Latif Hesham; Rong Qi; MinYang

    2011-01-01

    The combination of PCR amplification of 16S rRNA genes with denaturing gradient gel electrophoresis (DGGE) analysis was used to reveal the compositions and dynamics of bacterial communities in a sewage treatment plant with two systems,i.e.,an anoxicanaerobic-aerobic system (inverted A2O) and an anaerobic-anoxic-aerobic one (conventional A2O) over a period from February to July 2009,during which both systems experienced serious sludge bulking problems.The DGGE patterns showed that there were many common bands in both systems,suggesting the high similarity of bacterial communities of the two systems.Meanwhile,the moving window correlation analysis showed that the two systems experienced different microbial community structure changes during the period,which might be related with the different situations of the occurrence and disappearance of sludge bulking,as being reflected by sludge volume index (SVI) values.Major bands of DGGE patterns of sludge samples were further sequenced.Phylogenetic affiliation indicated that the majority of the sequences obtained were affiliated with Actinobacteria,Firmicutes,Bacteroidetes/Chlorobi group and α- and β-Proteobacteria.Two sequences showed high similarities to typical filamentous bacteria Microthrix parvicella and Nostocoida limicola I,indicating that these bacterial species have been involved in the sludge bulking problems.

  7. 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

  8. RisaAligner software for aligning fluorescence data between Agilent 2100 Bioanalyzer chips: Application to soil microbial community analysis.

    Science.gov (United States)

    Navarro, Elisabeth; Fabrègue, Olivier; Scorretti, Riccardo; Reboulet, Jérémy; Simonet, Pascal; Dawson, Lorna; Demanèche, Sandrine

    2015-12-01

    Ribosomal Intergenic Spacer Analysis (RISA) is a high-resolution and highly reproducible fingerprinting technique for discriminating between microbial communities. The community profiles can be visualized using the Agilent 2100 Bioanalyzer. Comparison between fingerprints relies upon precise estimation of all amplified DNA fragment lengths; however, size standard computation can vary between gel runs. For complex samples such as soil microbial communities, discrimination by fragment size is not always sufficient. In such cases, the comparison of whole fluorescence data as a function of time (electrophoregrams) is more appropriate. When electrophoregrams [fluorescence = f (time)] are used, and more than one chip is involved, electrophoregram comparisons are challenging due to experimental variations between chips and the lack of correction by the Agilent software in such situations. Here we present RisaAligner software for analyzing and comparing electrophoregrams from Agilent chips using a nonlinear ladder-alignment algorithm. We demonstrate the robustness and substantial improvement of data analysis by analyzing soil microbial profiles obtained with Agilent DNA 1000 and High Sensitivity chips.

  9. 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).

  10. An Item Response Theory Analysis of the Community of Inquiry Scale

    OpenAIRE

    Mehmet Barış Horzum; Gülden Kaya Uyanık

    2015-01-01

    The aim of this study is to examine validity and reliability of Community of Inquiry Scale commonly used in online learning by the means of Item Response Theory. For this purpose, Community of Inquiry Scale version 14 is applied on 1,499 students of a distance education center’s online learning programs at a Turkish state university via internet. The collected data is analyzed by using a statistical software package. Research data is analyzed in three aspects, which are checking model assumpt...

  11. Analysis of institutional mechanisms that support community response to impacts of floods in the middle-zambezi river basin, Zimbabwe

    Science.gov (United States)

    Muhonda, P.; Mabiza, C.; Makurira, H.; Kujinga, K.; Nhapi, I.; Goldin, J.; Mashauri, D. A.

    In recent years, the frequency of occurrence of floods has increased in Southern Africa. An increase in the frequency of extreme events is partly attributed to climate change. Floods negatively impact on livelihoods, especially those classified as poor, mainly by reducing livelihood options and also contributing to reduced crop yields. In response to these climatic events, governments within Southern Africa have formulated policies which try to mitigate the impacts of floods. Floods can be deadly, often occurring at short notice, lasting for short periods, and causing widespread damage to infrastructure. This study analysed institutional mechanisms in Mbire District of Zimbabwe which aim at mitigating the impact of floods. The study used both quantitative (i.e. questionnaires) and qualitative (i.e. key informant interviews, focus group discussions and observations) data collection methods. Secondary data such as policy and legislation documents and operational manuals of organisations that support communities affected by disasters were reviewed. Qualitative data was analysed using the thematic approach and social network analysis using UCINET 6. Quantitative data were analysed using SPSS 19.0. The study found out that there exists institutional framework that has been developed at the national and local level to support communities in the study area in response to the impacts of floods. This is supported by various pieces of legislation that are housed in different government departments. However, the existing institutional framework does not effectively strengthen disaster management mechanisms at the local level. Lack of financial resources and appropriate training and skills to undertake flood management activities reduce the capacity of communities and disaster management organisations to effectively mitigate the impacts of floods. The study also found that there are inadequate hydro-meteorological stations to enable accurate forecasts. Even in those cases

  12. MARRIAGE RITUAL TEXT OF BALINESE TRADITIONAL COMMUNITY: AN ANALYSIS OF FUNCTIONAL SYSTEMIC LINGUISTICS

    Directory of Open Access Journals (Sweden)

    Putu Sutama

    2012-11-01

    Full Text Available The Marriage Ritual Text of Balinese Traditional Community (Teks Ritual‘Pewiwahan’ Masyarakat Adat Bali, hereon abbreviated to TRPMAB in this dissertationis analyzed in the perspective of linguistic studies using the functional systemic linguistictheory. TRPMAB is a dialogic text containing a discussion, and is terminologicallytermed as a conversational text. It refers to the use of Balinese language (Bahasa Bali,hereon abbreviated to BB in a marriage ritual. There are two inseparable systems in it;they are BB system and social system, which are widely termed as cultural system.The method employed in this study is field method, meaning that the researcherwent directly to the field or to the location where TRPMAP took place. The researcherdirectly took part as both the active and passive participant. In this way, the researchcould observe TRPMAB directly.The population of the study includes all TPRB in Bali. Considering that thepopulation is too wide, then samples were taken to represent all the population. Thesamples total 10 which were obtained from the biggest marriage processions in Bali. Outof the 10 samples, 6 units of text were selected as the corpus of the study. The selectionwas made based on particular criteria including quality. It is this corpus which wasanalyzed to support and examine the hypothesis related to the text analyzed.The analysis of TRPMAB includes: the structure of the texts, the mood, thetransitivity, the theme-rheme and the logical relationship between the clause and theideology. The findings are as follows:(1 TRPMAB is a text which has a number of structural dimensions such as (acultural structure, (b macro structure, that is, the structure related to the situationalcontext made up of field, tenor and mode, (c micro structure, (d structure of meaning,that is, the structure related to the sequence of meanings between the participants withinthe dialogue, and (e the texture, that is, the intact successive relationship

  13. Performance of biological phosphorus removal and characteristics of microbial community in the oxic-settling-anaerobic process by FISH analysis

    Institute of Scientific and Technical Information of China (English)

    Jian-fang WANG; Qing-liang ZHAO; Wen-biao JIN; Shi-jie YOU; Jin-na ZHANG

    2008-01-01

    Performance of biological phosphorus removal in the oxic-settling-anaerobic (OSA) process was investigated. Cell staining and fluorescent in situ hybridization (FISH) were used to analyze characteristics and microbial community of sludge.Experimental results showed that phosphorus removal efficiency was near 60% and the amount of biological phosphorus accumulation in aerobic sludge of the OSA system was up to 26.9 mg/g. Biological phosphorus removal efficiency was partially inhibited by carbon sources in the continuous OSA system. Contrasted to the OSA system, biological phosphorus removal efficiency was enhanced by 14% and the average total phosphorus (TP) contents of aerobic sludge were increased by 0.36 mg/g when sufficient carbon sources were supplied in batch experiments. Staining methods indicated that about 35% of microorganisms had typical characteristics of phosphorus accumulating organisms (PAOs). FISH analysis demonstrated that PAOMIX-binding bacteria were predominant microbial communities in the OSA system, which accounted for around 28% of total bacteria.

  14. 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.)

  15. Integration Of Spa Tio- Temporal Analysis Of Rainfall And Community Information System To Reduce Landslide Risk In Indonesia

    Directory of Open Access Journals (Sweden)

    Sudibyakto .

    2013-07-01

    Full Text Available Indonesia is vulnerable to many type of disasters including natural and anthropogenic disasters. Indonesian seasonal rainfall also shows inter annual variation. Sediment-related disaster such as landslide is the mostji-equent disaster occurred and significantly was impacted to natural, human. and social environment. Although. many disaster mitigation e.Oorts have been conducted to reduce disaster risk there are still urgently need to improve the early 1varning .\\~ystem by communicating the risk into local community. Integration qf spatialtemporal analysis qf rainfall and disaster management information !o~vstem would be required to improve the better disaster management in Indonesia. Application of Disaster A1anagement Information System in the study area will presented including evacuation map that used by the local community.

  16. The change of microbial community from chlorinated solvent-contaminated groundwater after biostimulation using the metagenome analysis.

    Science.gov (United States)

    Kao, Chih-Ming; Liao, Hung-Yu; Chien, Chih-Ching; Tseng, Yi-Kuan; Tang, Petrus; Lin, Chih-En; Chen, Ssu-Ching

    2016-01-25

    The compositions of bacterial community in one site contaminated with PCE/TCE after the slow polycolloid-releasing substrate (SPRS) (contained vegetable oil, cane molasses, and surfactants) addition were analyzed. Results show that SPRS caused a rapid enhancement of reductive dechlorination of TCE. The transformation of PCE/TCE into ethene was observed after 20 days of operation. To compare the change of bacterial communities before and after SPRS addition, 16S rRNA amplicon sequencing using the metagenome analysis was performed. Results demonstrated the detection of the increased amounts of Dehalogenimonas by 2.2-fold, Pseudomonas by 3.4-fold and Sulfuricurvum by 4-fold with the analysis of the ribosomal database project (RDP). Metagenomic DNA was extracted from PCE/TCE-contaminated groundwater after SPRS addition, and subjected to sequencing. Results obtained from metagenomic sequencing indicate that genes from Dehalococcoides mccartyi was ranked as the second abundant bacteria among all of the detected bacteria via the analysis of the lowest common ancestor (LCA). Abundance of these bacterial groups, as shown above suggests their role in TCE biodegradation. Functional analysis of the metagenome, with the specific reference to chloroalkane and chloroalkene degradation, revealed the presence of some genes responsible for TCE biodegradation. Overall, results of this study provided new insights for a better understanding of the potential of biostimulation on TCE-contaminated sites. PMID:26474376

  17. Understanding Household Connectivity and Resilience in Marginal Rural Communities through Social Network Analysis in the Village of Habu, Botswana

    Directory of Open Access Journals (Sweden)

    Grenville D. Barnes

    2012-12-01

    Full Text Available Adaptability is emerging as a key issue not only in the climate change debate but in the general area of sustainable development. In this context, we examine the link between household resilience and connectivity in a rural community in Botswana. We see resilience and vulnerability as the positive and negative dimensions of adaptability. Poor, marginal rural communities confronted with the vagaries of climate change, will need to become more resilient if they are to survive and thrive. We define resilience as the capacity of a social–ecological system to cope with shocks such as droughts or economic crises without changing its fundamental identity. We make use of three different indices of household resilience: livelihood diversity, wealth, and a comprehensive resilience index based on a combination of human, financial, physical, social, and natural capital. Then, we measure the social connectivity of households through a whole network approach in social network analysis, using two measures of network centrality (degree centrality and betweenness. We hypothesize that households with greater social connectivity have greater resilience, and analyze a community in rural Botswana to uncover how different households make use of social networks to deal with shocks such as human illness and death, crop damage, and livestock disease. We surveyed the entire community of Habu using a structured questionnaire that focused on livelihood strategies and social networks. We found that gender, age of household head, and household size were positively correlated with social connectivity. Our analysis indicates that those households that are more socially networked are likely to have a wider range of livelihood strategies, greater levels of other forms of social capital, and greater overall capital. Therefore, they are more resilient.

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

    Directory of Open Access Journals (Sweden)

    Witoon Purahong

    Full Text Available 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.

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

    Directory of Open Access Journals (Sweden)

    Cai-Yun Li

    2015-04-01

    Full Text Available 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.

  20. mdRNA-Seq analysis of marine microbial communities from the northern Red Sea

    Science.gov (United States)

    Hou, Shengwei; Pfreundt, Ulrike; Miller, Dan; Berman-Frank, Ilana; Hess, Wolfgang R.

    2016-01-01

    Metatranscriptomic differential RNA-Seq (mdRNA-Seq) identifies the suite of active transcriptional start sites at single-nucleotide resolution through enrichment of primary transcript 5′ ends. Here we analyzed the microbial community at 45 m depth at Station A in the northern Gulf of Aqaba, Red Sea, during 500 m deep mixing in February 2012 using mdRNA-Seq and a parallel classical RNA-Seq approach. We identified promoters active in situ for five different pico-planktonic genera (the SAR11 clade of Alphaproteobacteria, Synechococcus of Cyanobacteria, Euryarchaeota, Thaumarchaeota, and Micromonas as an example for picoeukaryotic algae), showing the applicability of this approach to highly diverse microbial communities. 16S rDNA quantification revealed that 24% of the analyzed community were group II marine Euryarchaeota in which we identified a highly abundant non-coding RNA, Tan1, and detected very high expression of genes encoding intrinsically disordered proteins, as well as enzymes for the synthesis of specific B vitamins, extracellular peptidases, carbohydrate-active enzymes, and transport systems. These results highlight previously unknown functions of Euryarchaeota with community-wide relevance. The complementation of metatranscriptomic studies with mdRNA-Seq provides substantial additional information regarding transcriptional start sites, promoter activities, and the identification of non-coding RNAs. PMID:27759035

  1. The Mercantile Business Coalition: A Narrative Analysis of a Learning Organization in an African American Community

    Science.gov (United States)

    Harrell, Alma S.

    2013-01-01

    "A race that is solely dependent upon another for its economic existences sooner or later dies," this quote by Marcus Garvey highlighted the need for African American communities to think about the importance of economic development. This message was also heard by African Americans as early as the 1700s. Not only was the message about…

  2. 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

  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. RESTRICTION FRAGMENT LENGTH POLYMORPHISM ANALYSIS OF PCR-AMPLIFIED NIFH SEQUENCES FROM WETLAND PLANT RHIZOSPHERE COMMUNITIES

    Science.gov (United States)

    We describe a method to assess the community structure of N2-fixing bacteria in the rhizosphere. Total DNA was extracted from Spartina alterniflora and Sesbania macrocarpa root zones by bead-beating and purified by CsCl-EtBr gradient centrifugation. The average DNA yield was 5.5 ...

  5. Economic and Social Factors in Mate Selection: An Ethnographic Analysis of an Agricultural Community.

    Science.gov (United States)

    Davis-Brown, Karen; And Others

    1987-01-01

    Examined the impact of a variety of causal factors--economic, social, familial, and dyadic--on ethnoreligious marriages over 50 years in an Illinois agricultural community. Indicated that economic and social factors were more powerful influences in mate selection than is evident in much of the current research on premarital relationships.…

  6. Analysis of the Cost of Training Residents in a Community Health Center.

    Science.gov (United States)

    Jones, Timothy F.; And Others

    1995-01-01

    The costs of outpatient training for medical residents in a community health center (CHC) are analyzed, based on a family practice residency of one medical school. The model used a computer spreadsheet program to determine the financial impact of the program on the CHC. Sensitivity analyses determined the effects of changing productivity, nursing…

  7. 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…

  8. The formation of community-based organizations : an analysis of a quasi-experiment in Zimbabwe

    NARCIS (Netherlands)

    Barr, A.; Dekker, M.; Fafchamps, M.

    2015-01-01

    Previous analyses of the formation and composition of community-based organizations (CBOs) have used cross section data. So, causal inference has been compromised. We obviate this problem by using data from a quasi-experiment in which villages were formed by government officials selecting and cluste

  9. Continuing Care Retirement Communities: An Analysis of Financial Viability and Health Care Coverage.

    Science.gov (United States)

    Ruchlin, Hirsch S.

    1988-01-01

    Calculated financial ratios for 109 Continuing Care Retirement Communities (CCRCs). Noted problems with regard to asset productivity, profitability, and equity levels. Found that a risk-spreading charge structure for financing health care needs appeared to exist among CCRCs providing a full-care contract. (Author/ABL)

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

    DEFF Research Database (Denmark)

    Illian, Janine; Møller, Jesper; Waagepetersen, Rasmus Plenge

    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...

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

    DEFF Research Database (Denmark)

    Illian, Janine B.; Møller, Jesper; Waagepetersen, Rasmus

    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...

  12. Community analysis of arbuscular mycorrhizal fungi associated with Ammophila arenaria in Dutch coastal sand dunes

    NARCIS (Netherlands)

    Kowalchuk, G.A.; De Souza, F.A.; Van Veen, J.A.

    2002-01-01

    A polymerase chain reaction-denaturing gradient gel electrophoresis (PCR-DGGE) approach for the detection and characterization of arbuscular mycorrhizal fungi (AMF) 18S ribosomal DNA (rDNA) was developed and applied to the study of AMF communities associated with the main sand-stabilizing plant spec

  13. Analysis of factors that contribute to treatment failure in patients with community-acquired pneumonia.

    Science.gov (United States)

    Genné, D; Sommer, R; Kaiser, L; Saaïdia, A; Pasche, A; Unger, P F; Lew, D

    2006-03-01

    To determine the causes of treatment failure and to evaluate the prognostic factors in patients hospitalized for community-acquired pneumonia, a prospective, observational study of 228 adult patients hospitalized for a community-acquired pneumonia in the University Hospital of Geneva and the La Chaux-de-Fonds Community Hospital, Switzerland, was conducted. The percentage of patients who failed to improve (as defined by guidelines of the Infectious Disease Society of America) and the causes of treatment failure were assessed, and patients who failed to improve under antimicrobial therapy were compared with those who did improve. In the 54 (24%) patients who failed to improve, a mean increase in length of hospitalization of 4 days was observed. Most causes of treatment failure could be attributed to host factors (61%) rather than to the pathogen (16%) or to an inappropriate antibiotic regimen (3%). After adjusting for potentially confounding variables, concomitant neoplasia (OR 3.25; 95%CI 1.11-9.56), neurological disease (OR 2.34; 95%CI 1.07-5.13), and aspiration pneumonia (OR 2.97; 95%CI 29-6.86]) were associated with failure to improve, whereas monocytosis improved prognosis (OR 0.40; 95%CI 0.20-0.80). Almost one out of four patients hospitalized for community-acquired pneumonia failed to respond to empirical antibiotic treatment. Aspiration pneumonia, concomitant neoplasia, and neurological disease were factors positively associated with failure to improve, whereas monocytosis was linked to a better prognosis. PMID:16528540

  14. Financial Aid Tipping Points: An Analysis of Aid and Academic Achievement at a California Community College

    Science.gov (United States)

    Coria, Elizabeth; Hoffman, John L.

    2016-01-01

    The purpose of this study was to explore relationships between financial aid awards and measures of student academic achievement. Financial aid and academic records for 11,956 students attending an urban California community college were examined and analyzed using simultaneous linear regression and two-way factorial ANOVAs. Findings revealed a…

  15. Math Readiness of Texas Community College Developmental Education Students: A Multiyear Statewide Analysis

    Science.gov (United States)

    Abraham, Reni A.; Slate, John R.; Saxon, D. Patrick; Barnes, Wally

    2014-01-01

    In this investigation, we examined the college readiness in math of Texas community college students using archival data from the Texas Higher Education Coordinating Board. Data analyzed were the rate of all first-time in college (FTIC) developmental education students who scored below the Texas college readiness standards in math and the rates of…

  16. 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…

  17. Implications of the "My School" Website for Disadvantaged Communities: A Bourdieuian Analysis

    Science.gov (United States)

    Mills, Carmen

    2015-01-01

    Drawing on the theoretical constructs of Pierre Bourdieu, this article explores implications of the Australian "My School" website for schools located in disadvantaged communities. These implications flow from the legitimisation of certain cultural practices through the hidden linkages between scholastic aptitude and cultural heritage…

  18. Internationalization Efforts in United States Community Colleges: A Comparative Analysis of Urban, Suburban, and Rural Institutions

    Science.gov (United States)

    Harder, Natalie J.

    2011-01-01

    With community colleges educating up to one-half of all U.S. undergraduates, more focus on internationalization is warranted in order to ensure student competitiveness in today's global labor pool. This ex post facto study of 2006 survey data from the American Council on Education (ACE) found a low level of internationalization occurring at most…

  19. Teaching Community Survival Skills to Mentally Retarded Adults: A Review and Analysis.

    Science.gov (United States)

    Martin, James E.; And Others

    1982-01-01

    The article reviews research on training mentally retarded adults in the following community survival skills: travel training, money management, meal preparation, clothing and personal care, telephone skill, housekeeping, self-medication, leisure skills, social skills, and conversation. Results are said to indicate the value of behavioral…

  20. Metagenomic analysis of an ecological wastewater treatment plant's microbial communities and their potential to metabolize pharmaceuticals.

    Science.gov (United States)

    Balcom, Ian N; Driscoll, Heather; Vincent, James; Leduc, Meagan

    2016-01-01

    Pharmaceuticals and other micropollutants have been detected in drinking water, groundwater, surface water, and soil around the world. Even in locations where wastewater treatment is required, they can be found in drinking water wells, municipal water supplies, and agricultural soils. It is clear conventional wastewater treatment technologies are not meeting the challenge of the mounting pressures on global freshwater supplies. Cost-effective ecological wastewater treatment technologies have been developed in response. To determine whether the removal of micropollutants in ecological wastewater treatment plants (WWTPs) is promoted by the plant-microbe interactions, as has been reported for other recalcitrant xenobiotics, biofilm microbial communities growing on the surfaces of plant roots were profiled by whole metagenome sequencing and compared to the microbial communities residing in the wastewater. In this study, the concentrations of pharmaceuticals and personal care products (PPCPs) were quantified in each treatment tank of the ecological WWTP treating human wastewater at a highway rest stop and visitor center in Vermont. The concentrations of detected PPCPs were substantially greater than values reported for conventional WWTPs likely due to onsite recirculation of wastewater. The greatest reductions in PPCPs concentrations were observed in the anoxic treatment tank where Bacilli dominated the biofilm community. Benzoate degradation was the most abundant xenobiotic metabolic category identified throughout the system. Collectively, the microbial communities residing in the wastewater were taxonomically and metabolically more diverse than the immersed plant root biofilm. However, greater heterogeneity and higher relative abundances of xenobiotic metabolism genes was observed for the root biofilm. PMID:27610223

  1. Microbial community analysis of a coastal salt marsh affected by the Deepwater Horizon oil spill.

    Directory of Open Access Journals (Sweden)

    Melanie J Beazley

    Full Text Available Coastal salt marshes are highly sensitive wetland ecosystems that can sustain long-term impacts from anthropogenic events such as oil spills. In this study, we examined the microbial communities of a Gulf of Mexico coastal salt marsh during and after the influx of petroleum hydrocarbons following the Deepwater Horizon oil spill. Total hydrocarbon concentrations in salt marsh sediments were highest in June and July 2010 and decreased in September 2010. Coupled PhyloChip and GeoChip microarray analyses demonstrated that the microbial community structure and function of the extant salt marsh hydrocarbon-degrading microbial populations changed significantly during the study. The relative richness and abundance of phyla containing previously described hydrocarbon-degrading bacteria (Proteobacteria, Bacteroidetes, and Actinobacteria increased in hydrocarbon-contaminated sediments and then decreased once hydrocarbons were below detection. Firmicutes, however, continued to increase in relative richness and abundance after hydrocarbon concentrations were below detection. Functional genes involved in hydrocarbon degradation were enriched in hydrocarbon-contaminated sediments then declined significantly (p<0.05 once hydrocarbon concentrations decreased. A greater decrease in hydrocarbon concentrations among marsh grass sediments compared to inlet sediments (lacking marsh grass suggests that the marsh rhizosphere microbial communities could also be contributing to hydrocarbon degradation. The results of this study provide a comprehensive view of microbial community structural and functional dynamics within perturbed salt marsh ecosystems.

  2. Soil-specific limitations for access and analysis of soil microbial communities by metagenomics

    NARCIS (Netherlands)

    Lombard, Nathalie; Prestat, Emmanuel; van Elsas, Jan Dirk; Simonet, Pascal

    2011-01-01

    Metagenomics approaches represent an important way to acquire information on the microbial communities present in complex environments like soil. However, to what extent do these approaches provide us with a true picture of soil microbial diversity? Soil is a challenging environment to work with. It

  3. An Analysis of an Inflammatory Bowel Disease Practise in an Urban Community Hospital

    Directory of Open Access Journals (Sweden)

    David Adam

    2000-01-01

    Full Text Available OBJECTIVES: To review an individual community gastroenterologist’s experience with inflammatory bowel disease (IBD. The aspects studied were distribution of disease, need for hospital admission, immunosuppressants, systemic steroids, and surgery and its indications. The incidence of cancer was also reviewed.

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

    Directory of Open Access Journals (Sweden)

    Sumit Manna

    2012-03-01

    Full Text Available Background: The presence of brick kiln along the Hoogly rever sites of lower Bengal is very usual and this phenomenon is not only restricted to India alone but also to the other south Asian countries. The abandoned brick Kiln are important habitat for the formation of mangrove community due to tidal action, loose silty substratum and less anthropogenic interference. In this context, the aim of the present study is to visualize how the structural and association pattern regulate the community dynamics of a mangrove ecosystem. Materials and Methods: The entire study area was divided into 37 units (Quadrats of 27.31 sq m. Structural parameters like density, relative density, abundance, relative abundance, frequency, relative basal area were measured based on vegetation map, prepared through satellite image and ground truthing. Association indices (Ochiai, Dice and Jaccard were measured based on 2X2 contingency/species association table. Results: Out of 10 species under 10 genera and 9 families found in the present habitat, Sonneratia caseolaris is the only mangrove tree species with 155 individuals along with other mangrove associates like Cryptocoryne ciliata, Crinum viviparum, Acanthus ilicifolius and Derris scandens. The high importance value index of Sonneratia caseolaris, Cryptocoryne ciliata, and Crinum viviparum indicated their significant role in community formation. The strong positive association of these 3 species also suggests to help in developing community in stressed environment. Conclusion: Identification of such potential mangrove habitat and study of their community dynamics would be helpful to find out the nature of mangrove establishment for future afforestation programme of threatened mangrove species.

  5. pmoA-based analysis of methanotrophs in a littoral lake sediment reveals a diverse and stable community in a dynamic environment

    OpenAIRE

    Pester, Michael; Friedrich, Michael W.; Schink, Bernhard; Brune, Andreas

    2004-01-01

    Diversity and community structure of aerobic methane-oxidizing bacteria in the littoral sediment of Lake Constance was investigated by cloning analysis and terminal restriction fragment length polymorphism (T-RFLP) fingerprinting of the pmoA gene. Phylogenetic analysis revealed a high diversity of type I and type II methanotrophs in the oxygenated uppermost centimeter of the sediment. T-RFLP profiles indicated a high similarity between the active methanotrophic community in the oxic layer and...

  6. Using Terminal Restriction Fragment Length Polymorphism (T-RFLP) Analysis to Assess Microbial Community Structure in Compost Systems

    Science.gov (United States)

    Tiquia, Sonia M.

    Terminal restriction fragment length polymorphism (T-RFLP) analysis of PCR-amplified genes is a widely used fingerprinting technique in composting systems. This analysis is based on the restriction endonuclease digestion of fluorescently end-labeled PCR products. The digested product is mixed with a DNA size standard, itself labeled with a distinct fluorescent dye, and the fragments are then separated by capillary or gel electrophoresis using an automated sequencer. Upon analysis, only the terminal end-labeled restriction fragments are detected. An electropherogram is produced, which shows a profile of compost microbial community as a series of peaks of varying height. This technique has also been effectively used in the exploration of complex microbial environments and in the study of bacterial, archaeal, and eukaryal populations in natural habitats.

  7. High-throughput analysis of ammonia oxidiser community composition via a novel, amoA-based functional gene array.

    Directory of Open Access Journals (Sweden)

    Guy C J Abell

    Full Text Available Advances in microbial ecology research are more often than not limited by the capabilities of available methodologies. Aerobic autotrophic nitrification is one of the most important and well studied microbiological processes in terrestrial and aquatic ecosystems. We have developed and validated a microbial diagnostic microarray based on the ammonia-monooxygenase subunit A (amoA gene, enabling the in-depth analysis of the community structure of bacterial and archaeal ammonia oxidisers. The amoA microarray has been successfully applied to analyse nitrifier diversity in marine, estuarine, soil and wastewater treatment plant environments. The microarray has moderate costs for labour and consumables and enables the analysis of hundreds of environmental DNA or RNA samples per week per person. The array has been thoroughly validated with a range of individual and complex targets (amoA clones and environmental samples, respectively, combined with parallel analysis using traditional sequencing methods. The moderate cost and high throughput of the microarray makes it possible to adequately address broader questions of the ecology of microbial ammonia oxidation requiring high sample numbers and high resolution of the community composition.

  8. High-Throughput Analysis of Ammonia Oxidiser Community Composition via a Novel, amoA-Based Functional Gene Array

    Science.gov (United States)

    Abell, Guy C. J.; Robert, Stan S.; Frampton, Dion M. F.; Volkman, John K.; Rizwi, Farhan; Csontos, József; Bodrossy, Levente

    2012-01-01

    Advances in microbial ecology research are more often than not limited by the capabilities of available methodologies. Aerobic autotrophic nitrification is one of the most important and well studied microbiological processes in terrestrial and aquatic ecosystems. We have developed and validated a microbial diagnostic microarray based on the ammonia-monooxygenase subunit A (amoA) gene, enabling the in-depth analysis of the community structure of bacterial and archaeal ammonia oxidisers. The amoA microarray has been successfully applied to analyse nitrifier diversity in marine, estuarine, soil and wastewater treatment plant environments. The microarray has moderate costs for labour and consumables and enables the analysis of hundreds of environmental DNA or RNA samples per week per person. The array has been thoroughly validated with a range of individual and complex targets (amoA clones and environmental samples, respectively), combined with parallel analysis using traditional sequencing methods. The moderate cost and high throughput of the microarray makes it possible to adequately address broader questions of the ecology of microbial ammonia oxidation requiring high sample numbers and high resolution of the community composition. PMID:23284709

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

    Energy Technology Data Exchange (ETDEWEB)

    Dew, M.A.; Bromet, E.J.; Schulberg, H.C.

    1987-04-01

    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.

  10. 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.

  11. 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.

  12. Analysis of lipophilic pigments from a phototrophic microbial mat community by high performance liquid chromatography

    Science.gov (United States)

    Palmisano, A. C.; Cronin, S. E.; Des Marais, D. J.

    1988-01-01

    As assay for lipophilic pigments in phototrophic microbial mat communities using reverse phase-high performance liquid chromatography was developed which allows the separation of 15 carotenoids and chloropigments in a single 30 min program. Lipophilic pigments in a laminated mat from a commercial salina near Laguna Guerrero Negro, Baja California Sur, Mexico reflected their source organisms. Myxoxanthophyll, echinenone, canthaxanthin, and zeaxanthin were derived from cyanobacteria; chlorophyll c, and fucoxanthin from diatoms; chlorophyll a from cyanobacteria and diatoms; bacteriochlorophylls a and c, bacteriophaeophytin a, and gamma-carotene from Chloroflexus spp.; and beta-carotene from a variety of phototrophs. Sensitivity of detection was 0.6-6.1 ng for carotenoids and 1.7-12 ng for most chloropigments. This assay represents a significant improvement over previous analyses of lipophilic pigments in microbial mats and promises to have a wider application to other types of phototrophic communities.

  13. Quantitative classification and analysis on plant communities in the middle reaches of the Tarim River

    Institute of Scientific and Technical Information of China (English)

    ZHANGYuanming; CHENYaning; ZHANGDaoyuan

    2003-01-01

    Plant communities were sampled in the lower reaches of the Tarim River,Xinjiang,The results showed that there are 23 species belonging to 21 genera in 11 families,most of which have low occurrence frequency in quadrats.The most common species is Tamarix ramosissima,which occurred in 17 sites accounting for 89.47% of the total 19 sites,Quantitative classification (TWINSPAN) and ordination(CCA) methods were used to study the distribution Patterns of 23 plant species in 19 sites in this valley.TWINSPAN results showed that the plant communities in the middle reaches of the Tarim River could be divided into 3 groups and the sampling sites could be diveded into 7 types in 3 groups .CCA results were consistent with TWINSPAN results ,and showed species distribution patterns correlated with major environmental variables of groundwater level and soil moisture.

  14. 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

  15. 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

  16. PCR-DGGE analysis of the microbial communities in three different Chinese "Baiyunbian" liquor fermentation starters.

    Science.gov (United States)

    Xiong, Xiaomao; Hu, Yuanliang; Yan, Nanfeng; Huang, Yingna; Peng, Nan; Liang, Yunxiang; Zhao, Shumiao

    2014-08-01

    A systematic investigation was performed on the bacterial, Bacillus, fungal, and yeast communities of the three types of Daqu (mechanically prepared, manually prepared, and mixed prepared) used in Baiyunbian Company by reconditioning PCR-denaturing gradient gel electrophoresis (PCR-DGGE). The DGGE results showed that the microbes in the three types of Daqu were mainly thermotolerant and thermophilic microbes, and the most dominant bacterial species were Bacillus and Virgibacillus, followed by Lactobacillus and Trichococcus. Furthermore, the dominant fungi were found to be molds, such as Rasamsonia, Penicillium, Aspergillus, and Monascus, and the dominant yeasts were Saccharomyces cerevisiae, Saccharomycopsis fibuligera, Pichia anomala, and Debaryomyces hansenii. In general, the three types of Daqu showed slight differences in microbial communities, and the Shannon indexes (H') of the manually prepared and mechanically prepared Daqu were similar. The results suggest that mechanically prepared Daqu can replace manually prepared Daqu in liquor production, and this research provides useful information for liquor production and process improvement. PMID:24809292

  17. An Analysis of the Influential Factors in Community Participation of Settlers from Migrant Communities%移民社区居民社区参与影响因素分析

    Institute of Scientific and Technical Information of China (English)

    于波

    2012-01-01

    移民社区同传统社区在形成动力、社区建设模式等方面都存在着差异,这就导致移民社区居民在社区参与中产生了同传统社区居民不同的行动策略和特点。通过对移民社区居民的参与意愿、参与能力、参与内容和参与的制度平台进行考察,可以看到当前移民社区居民社区参与状况的特点,在此基础上,从社区意识、社会资本、社区产生动力以及社区参与的内容和方式四个维度对影响社区居民社区参与状况的主要因素进行了分析,提出改善移民社区居民参与状况的对策。%Disparities that the migrant communities manifest in formation dynamics and mode of community construction and development usually lead to different action strategies and behavioral characteristics on the part of the resettled population groups as compared with those of traditional community groups.A thorough investigation into the participation willingness,participation ability,participation content and the institutionalized platform for participation demonstrated on the part of migrant community groups will help us gain an insight into the overall situation and characteristics of community participation of settlers from migrant communities.Based on these,an analysis of the main factors that influence the community participation of community members is conducted from four dimensions,namely,community consciousness,social capital,community incentives,as well as the content and mode of community participation.Finally,recommendations are proposed regarding the improvement of community participation in migrant communities.

  18. A strategic analysis of NOKIA diversifying into the provision of community phone services

    OpenAIRE

    Gikunda, Agatha Mutheu

    2007-01-01

    Nokia predicts that by 2008, 80% of mobile phone sales will come from New-Growth Markets. New-Growth Markets consist of high-income consumers capable of purchasing expensive handsets, and low-income consumers that have thus far been unable to afford cellular phones. This paper investigates the feasibility of Nokia creating Community Phone Services. A prospective business model involves rollout of services by Franchisees, following guidelines from the firm. This paper finds that the business p...

  19. THE ANALYSIS OF ENVIRONMENTAL POLICIES AND INVOLVEMENT IN THE LOCAL COMMUNITY AT A PUBLIC ORGANIZATION LEVEL

    OpenAIRE

    ILEANA DANUȚ

    2016-01-01

    Following the changing economic and social context in which public organizations operate it increased expectations for their responsible behavior. Constant expectations appear in the involvement in the local community area and on overall impact on society and environment. Social responsibility is becoming increasingly important as a strategic organizational approach, and not just a peripheral activity linked exclusively to reputation and image of the organization. In this work we ...

  20. Phylogenetic analysis of the hyperthermophilic pink filament community in Octopus Spring, Yellowstone National Park

    Energy Technology Data Exchange (ETDEWEB)

    Reysenbach, A.L.; Wickham, G.S.; Pace, N.R. [Indiana Univ., Bloomington, IN (United States)

    1994-06-01

    This study uses a molecular phylogenetic approach to characterize the pink filament community at the outflow of Octopus Spring in Yellowstone National Park. The temperature range of the spring is from 84 to 88 C. The authors show that the pink filaments are most closely related to the hydrogen-oxidizing bacterium Aquifex pyrophilus and a close relative Hydrogenobacter thermophilus. 38 refs., 4 figs., 1 tab.

  1. A Comparative Analysis of Indigenous Research Guidelines to Inform Genomic Research in Indigenous Communities

    OpenAIRE

    Jay Maddock; Nicole K. Taniguchi

    2012-01-01

    BACKGROUND: Genetic research has potential benefits for improving health, such as identifying molecular characteristics of a disease, understanding disease prevalence and treatment, and developing treatments tailored to patients based on individual genetic characteristics of their disease. Indigenous people are often targeted for genetic research because genes are easier to study in communities that practice endogamy. Therefore, populations perceived to be more homogenous, such as Indigenous ...

  2. Management of severe community-acquired pneumonia in Brazil: a secondary analysis of an international survey

    OpenAIRE

    Rabello, Lígia; Conceição, Catarina; Ebecken, Katia; Lisboa, Thiago; Bozza, Fernando Augusto; Soares, Márcio; Póvoa, Pedro; Salluh, Jorge Ibrain Figueira

    2015-01-01

    Objective This study aimed to evaluate Brazilian physicians’ perceptions regarding the diagnosis, severity assessment, treatment and risk stratification of severe community-acquired pneumonia patients and to compare those perceptions to current guidelines. Methods We conducted a cross-sectional international anonymous survey among a convenience sample of critical care, pulmonary, emergency and internal medicine physicians from Brazil between October and December 2008. The electronic survey ev...

  3. High-throughput nucleotide sequence analysis of diverse bacterial communities in leachates of decomposing pig carcasses

    OpenAIRE

    Seung Hak Yang; Joung Soo Lim; Modabber Ahmed Khan; Bong Soo Kim; Dong Yoon Choi; Eun Young Lee; Hee Kwon Ahn

    2015-01-01

    The leachate generated by the decomposition of animal carcass has been implicated as an environmental contaminant surrounding the burial site. High-throughput nucleotide sequencing was conducted to investigate the bacterial communities in leachates from the decomposition of pig carcasses. We acquired 51,230 reads from six different samples (1, 2, 3, 4, 6 and 14 week-old carcasses) and found that sequences representing the phylum Firmicutes predominated. The diversity of bacterial 16S rRNA gen...

  4. Perspective for Aquaponic Systems: “Omic” Technologies for Microbial Community Analysis

    OpenAIRE

    Perla Munguia-Fragozo; Oscar Alatorre-Jacome; Enrique Rico-Garcia; Irineo Torres-Pacheco; Andres Cruz-Hernandez; Ocampo-Velazquez, Rosalia V.; Garcia-Trejo, Juan F.; Ramon G. Guevara-Gonzalez

    2015-01-01

    Aquaponics is the combined production of aquaculture and hydroponics, connected by a water recirculation system. In this productive system, the microbial community is responsible for carrying out the nutrient dynamics between the components. The nutrimental transformations mainly consist in the transformation of chemical species from toxic compounds into available nutrients. In this particular field, the microbial research, the “Omic” technologies will allow a broader scope of studies about a...

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

    OpenAIRE

    Kapepula, K. M.; Colson, Gérard; 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...

  6. 4chan and /b/: An Analysis of Anonymity and Ephemerality in a Large Online Community

    OpenAIRE

    Bernstein, Michael; Monroy-Hernández, Andrés; Harry, Drew; André, Paul; Panovich, Katrina; Vargas, Greg

    2011-01-01

    We present two studies of online ephemerality and anonymity based on the popular discussion board /b/ at 4chan.org: a website with over 7 million users that plays an influential role in Internet culture. Although researchers and practitioners often assume that user identity and data permanence are central tools in the design of online communities, we explore how /b/ succeeds despite being almost entirely anonymous and extremely ephemeral. We begin by describing /b/ and performing a content an...

  7. Identification of Household Bacterial Community and Analysis of Species Shared with Human Microbiome

    OpenAIRE

    Jeon, Yoon-Seong; Chun, Jongsik; Kim, Bong-Soo

    2013-01-01

    Microbial populations in indoor environments, where we live and eat, are important for public health. Various bacterial species reside in the kitchen, and refrigerators, the major means of food storage within kitchens, can be a direct source of food borne illness. Therefore, the monitoring of microbiota in the refrigerator is important for food safety. We investigated and compared bacterial communities that reside in the vegetable compartment of the refrigerator and on the seat of the toilet,...

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

    OpenAIRE

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

    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 selecte...

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

    OpenAIRE

    Wang Xiaohang; Dib Hassan H; Pan Xilong; Zhang Hong

    2006-01-01

    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 ide...

  10. Coastal Communities Adaptation and Resiliency to Vulnerability: An Analysis of Livelihood Activities in Kenya

    OpenAIRE

    Wanyonyi, Innocent N.; Obura, David; Malleret-King, Delphine

    2008-01-01

    A socio-economic monitoring pilot project was initiated in Eastern Africa in 2002. The goal was to develop a regional socio-economic monitoring process that contributes to improving coastal and fisheries resource management.. Findings for the Diani-Chale area in Kenya are analyzed here, focusing on community livelihood strategies for three villages studied. On average, there were 5 people per household, 1.9 of whom were actively involved in providing food or income....

  11. 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.

  12. 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.

  13. [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.

  14. Ad hoc supervision of general practice registrars as a 'community of practice': analysis, interpretation and re-presentation.

    Science.gov (United States)

    Clement, T; Brown, J; Morrison, J; Nestel, D

    2016-05-01

    General practice registrars in Australia undertake most of their vocational training in accredited general practices. They typically see patients alone from the start of their community-based training and are expected to seek timely ad hoc support from their supervisor. Such ad hoc encounters are a mechanism for ensuring patient safety, but also provide an opportunity for learning and teaching. Wenger's (Communities of practice: learning, meaning, and identity. Cambridge University Press, New York, 1998) social theory of learning ('communities of practice') guided a secondary analysis of audio-recordings of ad hoc encounters. Data from one encounter is re-presented as an extended sequence to maintain congruence with the theoretical perspective and enhance vicariousness. An interpretive commentary communicates key features of Wenger's theory and highlights the researchers' interpretations. We argue that one encounter can reveal universal understandings of clinical supervision and that the process of naturalistic generalisation allows readers to transfer others' experiences to their own contexts. The paper raises significant analytic, interpretive, and representational issues. We highlight that report writing is an important, but infrequently discussed, part of research design. We discuss the challenges of supporting the learning and teaching that arises from adopting a socio-cultural lens and argue that such a perspective importantly captures the complex range of issues that work-based practitioners have to grapple with. This offers a challenge to how we research and seek to influence work-based learning and teaching in health care settings. PMID:26384813

  15. 社区儿童活动场地营建分析%Analysis on Community Children Activity Space Construction

    Institute of Scientific and Technical Information of China (English)

    石晓丽; 王欢; 邱琛; 祖亚会

    2013-01-01

    Outdoor activity is an effective supplement for children to school .Based on the investigation of the ur-ban community parks in Nanjing city ,the importance of community park carrying children's activity space was analyzed .Taking the South Lake Park as an example ,a detailed analysis on children activity field was made . Based on the above ,the design and construction strategy of children activity place in community park was dis-cussed and some proposals were put forward .%  户外活动是儿童校园学习的有效补充,如何营建儿童活动场地以激发儿童心性至关重要。通过对南京市主城区社区公园进行调研,分析了社区公园承载儿童活动场地的重要性。以功能较完善的南京市南湖公园为例,对其儿童活动场所进行具体分析,探讨社区公园儿童活动场所的设计、建设策略,为今后城市公园建设过程中儿童活动空间的设计提出指导性建议。

  16. Bioconductor workflow for microbiome data analysis: from raw reads to community analyses [version 1; referees: 2 approved

    Directory of Open Access Journals (Sweden)

    Ben J. Callahan

    2016-06-01

    Full Text Available High-throughput sequencing of PCR-amplified taxonomic markers (like the 16S rRNA gene has enabled a new level of analysis of complex bacterial communities known as microbiomes. Many tools exist to quantify and compare abundance levels or microbial composition of communities in different conditions. The sequencing reads have to be denoised and assigned to the closest taxa from a reference database. Common approaches use a notion of 97% similarity and normalize the data by subsampling to equalize library sizes. In this paper, we show that statistical models allow more accurate abundance estimates. By providing a complete workflow in R, we enable the user to do sophisticated downstream statistical analyses, including both parameteric and nonparametric methods. We provide examples of using the R packages dada2, phyloseq, DESeq2, ggplot2 and vegan to filter, visualize and test microbiome data. We also provide examples of supervised analyses using random forests, partial least squares and linear models as well as nonparametric testing using community networks and the ggnetwork package.

  17. 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

  18. A for-profit venture marketing research and analysis study conducted for Action for Boston Community Development. [Home repair services

    Energy Technology Data Exchange (ETDEWEB)

    1987-04-27

    This report is a look at our study to find a for-profit venture for Action for Boston Community Development (ABCD) to establish. Essentially, our study had two stages - find a product or service that appeared to be needed in the market place and that ABCD felt comfortable pursuing, then research and analyze the market for this product or service. The venture selected for complete market research and analysis was home repair services. Our research showed that both an advisory and minor home repair service should be established.

  19. Clinical data analysis of 19 cases of community-acquired adenovirus pneumonia in immunocompetent adults.

    Science.gov (United States)

    Yu, Hong-Xia; Zhao, Mao-Mao; Pu, Zeng-Hui; Wang, Yun-Qiang; Liu, Yan

    2015-01-01

    The aim of this study was to investigate the characteristics of clinical manifestations, laboratory tests and imaging changes of community-acquired adenovirus pneumonia in immunocompetent adults. A retrospective study was performed on 19 adult community-acquired adenovirus pneumonia cases in Yantai, whereby the clinical data were collected and analyzed. Of 19 cases, 14 (73.68%) had fever and 17 (89.47%) had cough symptoms. Moreover, 14 cases (73.68%) had normal white blood cell counts, while 11 cases (57.89%) exhibited a reduction in lymphocyte proportion. Among the 19 cases, 17 cases exhibited lesions in a single lung, while 2 cases involved bilateral lungs. The lesions predominantly exhibited ground glass-like changes. The clinical manifestations of adult community-acquired adenovirus pneumonia patients with normal immune functions were mild, with such presenting symptoms as fever, cough, and sputum; most patients did not exhibit high levels of white blood cells or low lymphocyte counts, and the imaging features (ground glass-like effusion) were indicative of single-lung involvement.

  20. Metabarcoding analysis of home composts reveals distinctive fungal communities with a high number of unassigned sequences.

    Science.gov (United States)

    Langarica-Fuentes, Adrian; Fox, Graeme; Robson, Geoffrey D

    2015-10-01

    Home composting has been strongly advocated in the UK, Europe and North America to divert organic waste away from conventional waste processing. Despite this, little attention has been given to microbial communities and their diversity in these systems. In this study, we examined the diversity of fungal species in 10 different domestic composts by 454 tag-encoded pyrosequencing. We report the recovery of 478 different molecular operational taxonomic units (MOTUs) from the 10 composts with a mean of 176.7 ± 19.6 MOTUs per compost and a mean of 12.9 ± 3.8 unique MOTUs per sample. Microascales (17.21 %), Hypocreales (16.76 %), Sordariales (14.89 %), Eurotiales (11.25 %) and Mortierellales (7.38 %) were the dominant orders in the community, with Pseudallescheria (9.52 %), Penicillium (8.43 %), Mortierella (3.60 %) and Fusarium (3.31 %) being the most abundant genera. Fungal communities in home composts were substantially different to large-scale commercial composts, with thermophilic and thermotolerant fungi present in much lower numbers. Significantly, 46.2 % of all sequences were identified as uncultured fungi or could not be assigned above the family level, suggesting there are a high number of new genera and species in these environments still to be described. PMID:26243286

  1. A Metaproteomic Analysis of the Response of a Freshwater Microbial Community under Nutrient Enrichment.

    Science.gov (United States)

    Russo, David A; Couto, Narciso; Beckerman, Andrew P; Pandhal, Jagroop

    2016-01-01

    Eutrophication can lead to an uncontrollable increase in algal biomass, which has repercussions for the entire microbial and pelagic community. Studies have shown how nutrient enrichment affects microbial species succession, however details regarding the impact on community functionality are rare. Here, we applied a metaproteomic approach to investigate the functional changes to algal and bacterial communities, over time, in oligotrophic and eutrophic conditions, in freshwater microcosms. Samples were taken early during algal and cyanobacterial dominance and later under bacterial dominance. 1048 proteins, from the two treatments and two timepoints, were identified and quantified by their exponentially modified protein abundance index. In oligotrophic conditions, Bacteroidetes express extracellular hydrolases and Ton-B dependent receptors to degrade and transport high molecular weight compounds captured while attached to the phycosphere. Alpha- and Beta-proteobacteria were found to capture different substrates from algal exudate (carbohydrates and amino acids, respectively) suggesting resource partitioning to avoid direct competition. In eutrophic conditions, environmental adaptation proteins from cyanobacteria suggested better resilience compared to algae in a low carbon nutrient enriched environment. This study provides insight into differences in functional microbial processes between oligo- and eutrophic conditions at different timepoints and highlights how primary producers control bacterial resources in freshwater environments. The data have been deposited to the ProteomeXchange with identifier PXD004592. PMID:27536273

  2. 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

    2015-01-23

    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.

  3. Characterization of Bacterial Communities in Selected Smokeless Tobacco Products Using 16S rDNA Analysis.

    Directory of Open Access Journals (Sweden)

    Robert E Tyx

    Full Text Available The bacterial communities present in smokeless tobacco (ST products have not previously reported. In this study, we used Next Generation Sequencing to study the bacteria present in U.S.-made dry snuff, moist snuff and Sudanese toombak. Sample diversity and taxonomic abundances were investigated in these products. A total of 33 bacterial families from four phyla, Actinobacteria, Firmicutes, Proteobacteria and Bacteroidetes, were identified. U.S.-produced dry snuff products contained a diverse distribution of all four phyla. Moist snuff products were dominated by Firmicutes. Toombak samples contained mainly Actinobacteria and Firmicutes (Aerococcaceae, Enterococcaceae, and Staphylococcaceae. The program PICRUSt (Phylogenetic Investigation of Communities by Reconstruction of Unobserved States was used to impute the prevalence of genes encoding selected bacterial toxins, antibiotic resistance genes and other pro-inflammatory molecules. PICRUSt also predicted the presence of specific nitrate reductase genes, whose products can contribute to the formation of carcinogenic nitrosamines. Characterization of microbial community abundances and their associated genomes gives us an indication of the presence or absence of pathways of interest and can be used as a foundation for further investigation into the unique microbiological and chemical environments of smokeless tobacco products.

  4. Characterization of Bacterial Communities in Selected Smokeless Tobacco Products Using 16S rDNA Analysis.

    Science.gov (United States)

    Tyx, Robert E; Stanfill, Stephen B; Keong, Lisa M; Rivera, Angel J; Satten, Glen A; Watson, Clifford H

    2016-01-01

    The bacterial communities present in smokeless tobacco (ST) products have not previously reported. In this study, we used Next Generation Sequencing to study the bacteria present in U.S.-made dry snuff, moist snuff and Sudanese toombak. Sample diversity and taxonomic abundances were investigated in these products. A total of 33 bacterial families from four phyla, Actinobacteria, Firmicutes, Proteobacteria and Bacteroidetes, were identified. U.S.-produced dry snuff products contained a diverse distribution of all four phyla. Moist snuff products were dominated by Firmicutes. Toombak samples contained mainly Actinobacteria and Firmicutes (Aerococcaceae, Enterococcaceae, and Staphylococcaceae). The program PICRUSt (Phylogenetic Investigation of Communities by Reconstruction of Unobserved States) was used to impute the prevalence of genes encoding selected bacterial toxins, antibiotic resistance genes and other pro-inflammatory molecules. PICRUSt also predicted the presence of specific nitrate reductase genes, whose products can contribute to the formation of carcinogenic nitrosamines. Characterization of microbial community abundances and their associated genomes gives us an indication of the presence or absence of pathways of interest and can be used as a foundation for further investigation into the unique microbiological and chemical environments of smokeless tobacco products.

  5. Identification of household bacterial community and analysis of species shared with human microbiome.

    Science.gov (United States)

    Jeon, Yoon-Seong; Chun, Jongsik; Kim, Bong-Soo

    2013-11-01

    Microbial populations in indoor environments, where we live and eat, are important for public health. Various bacterial species reside in the kitchen, and refrigerators, the major means of food storage within kitchens, can be a direct source of food borne illness. Therefore, the monitoring of microbiota in the refrigerator is important for food safety. We investigated and compared bacterial communities that reside in the vegetable compartment of the refrigerator and on the seat of the toilet, which is recognized as highly colonized by microorganisms, in ten houses using high-throughput sequencing. Proteobacteria, Firmicutes, Actinobacteria, and Bacteroidetes were predominant in refrigerator and toilet samples. However, Proteobacteria was more abundant in the refrigerator, and Firmicutes was more abundant in the toilet. These household bacterial communities were compared with those of human skin and gut to identify potential sources of household bacteria. Bacterial communities from refrigerators and toilets shared more species in common with human skin than gut. Opportunistic pathogens, including Propionibacterium acnes, Bacteroides vulgatus, and Staphylococcus epidermidis, were identified as species shared with human skin and gut microbiota. This approach can provide a general background of the household microbiota and a potential method of source-tracking for public health purposes. PMID:23743600

  6. Analysis of effect of nicotine on microbial community structure in sediment using PCR-DGGE fingerprinting

    Directory of Open Access Journals (Sweden)

    Ai-dong Ruan

    2015-10-01

    Full Text Available Solid or liquid waste containing a high concentration of nicotine can pollute sediment in rivers and lakes, and may destroy the ecological balance if it is directly discharged into the environment without any treatment. In this study, the polymerase chain reaction (PCR and denaturing gradient gel electrophoresis (DGGE method was used to analyze the variation of the microbial community structure in the control and nicotine-contaminated sediment samples with nicotine concentration and time of exposure. The results demonstrated that the growth of some bacterial species in the nicotine-contaminated sediment samples was inhibited during the exposure. Some bacteria decreased in species diversity and in quantity with the increase of nicotine concentration or time of exposure, while other bacteria were enriched under the effect of nicotine, and their DGGE bands changed from undertones to deep colors. The microbial community structure, however, showed a wide variation in the nicotine-contaminated sediment samples, especially in the sediment samples treated with high-concentration nicotine. The Jaccard index was only 35.1% between the initial sediment sample and the sediment sample with a nicotine concentration of 0.030 μg/g after 28 d of exposure. Diversity indices showed that the contaminated groups had a similar trend over time. The diversity indices of contaminated groups all decreased in the first 7 d after exposure, then increased until day 42. It has been found that nicotine decreased the diversity of the microbial community in the sediment.

  7. A Comparative Analysis of a Community and General Sample of Lesbian, Gay, and Bisexual Individuals.

    Science.gov (United States)

    Kuyper, Lisette; Fernee, Henk; Keuzenkamp, Saskia

    2016-04-01

    Samples recruited at lesbian, gay, and bisexual (LGB) venues have certain benefits, but a major drawback is that these samples are prone to bias as they only contain LGB participants who visit such venues. Empirical data with regard to the potential differences between LGB community samples and LGB general samples may shed some light on the generalizability of research findings from convenience samples recruited through LGB venues. The current study attempted to contribute to existing knowledge by examining differences in social demographics, sexual orientation, minority stress, and mental health between a convenience sample recruited at LGB venues ("community sample," N = 3,403) and an LGB sample recruited from a general research panel in the Netherlands ("panel sample," N = 1,000). Various differences were found. In general, community participants were younger, reported a more exclusive same-sex sexual orientation, were more open about their sexual orientation, had lower levels of internalized homonegativity, and encountered more negative social reactions on their LGB status. They also reported higher levels of psychological distress and suicidality. The Nagelkerke R (2) of the analyses (which were adjusted for sociodemographic differences) ranged from .08 (suicide plans among men) to .27 (sexual attraction among women). However, while the estimates of sociodemographics, sexual orientation, minority stress, and mental well-being differed, the relationships between these constructs were comparable in both samples. Implications and suggestions for future studies are discussed. PMID:25564037

  8. Effectiveness Analysis on the Physical Activity and the Health Benefit of a Community Population Based Program

    Institute of Scientific and Technical Information of China (English)

    JIANG Ying Ying; YANG Zheng Xiong; NI Rong; ZHU You Qun; LI Zhi Yu; YANG Li Chen; ZHAI Yi; ZHAO Wen Hua

    2013-01-01

    Objective To evaluate the community-based health promotion effect of physical activity. Methods The residents aged 18 and above from two communities in Gongshu District of Hangzhou City, Zhejiang province, were randomly selected and recruited for the multi-strategy and comprehensive physical activity intervention. Questionnaire survey, physical check up and blood biochemistry were conducted. Results After this two-year intervention, the time of the participant spent on weekly physical activity of moderate intensity increased from 464 min to 542 min (P<0.05), with an average increase of 78 min. Time spent in walking every week increased from 533 min to 678 min (P<0.05), with an average increase of 145 min. The body weight, waistline, blood pressure and heart rate all reduced significantly (P<0.05);the vital capacity increased significantly (P<0.05); and the related biochemical indicators were also improved. Conclusion Comprehensive and evidence-based physical activity interventions targeting community population can improve the levels of physical activity, related body measurement and biochemical indicators.

  9. 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.

  10. 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

  11. U.S. Community College Professional Staff Seek South African Doctoral Degrees: An Analysis of an International Doctoral Program Partnership

    Science.gov (United States)

    Ryan, Margaret Vail

    2011-01-01

    Prominent challenges facing contemporary community colleges are enhancing leadership capacity and serving their diverse student populations. While doctoral education constitutes a mainstay strategy for developing community college leaders, community college professionals face constraints accessing doctoral programs. The innovation of an…

  12. Performance of a new suspended filler biofilter for removal of nitrogen oxides under thermophilic conditions and microbial community analysis.

    Science.gov (United States)

    Han, Li; Shaobin, Huang; Zhendong, Wei; Pengfei, Chen; Yongqing, Zhang

    2016-08-15

    A suspended biofilter, as a new bioreactor, was constructed for the removal of nitrogen oxides (NOX) from simulated flue gas under thermophilic conditions. The suspended biofilter could be quickly started up by inoculating the thermophilic denitrifying bacterium Chelatococcus daeguensis TAD1. The NO concentration in the inlet stream ranged from 200mg/m(3) to 2000mg/m(3) during the operation, and inlet loading ranged from 8.2-164g/(m(3)·h). The whole operation period was divided into four phases according to the EBRT. The EBRT of phases I, II, III and IV were 88s (9-43d), 44s (44-61d), 66s (62-79d) and 132s (80-97d), respectively. An average NO removal efficiency of 90% was achieved during the whole operation period, and the elimination capacity increased linearly with the increase in NO inlet loading and the maximum elimination capacity reached 146.9g/(m(3)·h). No clogging was observed, although there was a high biomass concentration in the biofilter bed. The remarkable performance in terms of NO removal could be attributed to the rich bacterial communities. The microbial community structure in the biofilm was investigated by high throughput sequencing analysis (16S rRNA MiSeq sequencing). The experimental results showed that the microbial community structure of the biofilm was very rich in diversity, with the most abundant bacterial class of the Alphaproteobacteria, which accounted for 36.5% of the total bacteria, followed by Gammaproteobacteria (30.7%) and Clostridia (27.5%). It was worthwhile to mention that the dominant species in the suspended biofilter biofilm were all common denitrifying bacteria including Rhizobiales (inoculated microbe), Rhodospirillales, Enterobacteriales and Pseudomonadales, which accounted for 19.4%, 17%, 21.6% and 7%, respectively. The inoculated strain TAD1 belonged to Alphaproteobacteria class. Because high-throughput 16S rRNA gene paired-end sequencing has improved resolution of bacterial community analysis, 16S rRNA gene

  13. Community Evolution

    CERN Document Server

    Bródka, Piotr; Kazienko, Przemysław

    2016-01-01

    The continuous interest in the social network area contributes to the fast development of this field. The new possibilities of obtaining and storing data facilitate deeper analysis of the entire social network, extracted social groups and single individuals as well. One of the most interesting research topic is the network dynamics and dynamics of social groups in particular, it means analysis of group evolution over time. It is the natural step forward after social community extraction. Having communities extracted, appropriate knowledge and methods for dynamic analysis may be applied in order to identify changes as well as to predict the future of all or some selected groups. Furthermore, knowing the most probably change of a given group some additional steps may be performed in order to change this predicted future according to specific needs. Such ability would be a powerful tool in the hands of human resource managers, personnel recruitment, marketing, telecommunication companies, etc.

  14. Availability of substance abuse treatment services in Spanish: A GIS analysis of Latino communities in Los Angeles County, California

    Directory of Open Access Journals (Sweden)

    Curtis Andrew

    2011-08-01

    Full Text Available Abstract Background The percentage of Latino clients entering outpatient substance abuse treatment (OSAT in the United States has increased significantly in the past 10 years. Evidence suggests that a lack of services in Spanish is a significant barrier to treatment access among Latinos. Methods Using a geographic information system (GIS approach, data from the U.S. Census Bureau and the National Survey of Substance Abuse Treatment Services (N-SSATS were analyzed to determine the geographic distance between OSAT facilities with services in Spanish and Latino communities throughout Los Angeles County, CA. Data from N-SSATS were also analyzed using logistic regression models to examine organizational characteristics and their association with offering services in Spanish. Our GIS methods are tested in their ability to provide baseline measures to inform future analysis comparing changes in demography and service infrastructure. Results GIS analysis revealed cold spots representing high-density Latino communities with extensive travel distance to facilities offering services in Spanish. The average linear distance between Latino communities and facilities offering Spanish-language services ranged from 2 to 6 miles, while the location of the cold spots pointed to a need for services in Spanish in a particular subregion of the county. Further, secondary data analysis revealed that, on average, being privately owned (OR = .23, 95% CI = 0.06-0.90 was associated with a lower likelihood of providing services in Spanish compared to public facilities. Additionally, a facility with a state license (OR = 2.08, 95% CI = 1.12-3.88 or a higher number of Medicaid recipients (OR = 2.98, 95% CI = 1.76-5.05 was twice as likely to offer services in Spanish. Conclusion Despite the significant presence of Latinos in L.A. County in 2000, low capacity was found in discrete Latino communities in terms of offering OSAT services in Spanish. Funding and regulation play a

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

    DEFF Research Database (Denmark)

    Sin, Gürkan; Ruano, M.V.; Neumann, Marc B.;

    2010-01-01

    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...... 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...

  16. Stakeholder Analysis of Community Distribution of Misoprostol in Lao PDR: A Qualitative Study

    Science.gov (United States)

    Warner, Melissa; Phengsavanh, Alongkone; Sychareun, Vanphanom; Vongxay, Viengnakhone; Rickart, Keith

    2016-01-01

    Background Globally, significant progress has been made in reducing maternal mortality, yet in many low-resource contexts it remains unacceptably high. Many of these deaths are due to postpartum haemorrhage and are preventable with access to essential obstetric care. Where there are barriers to access, maternal deaths could be prevented if community-level misoprostol was available. The purpose of this study was to explore perceptions of stakeholders regarding misoprostol use in the Lao People’s Democratic Republic, a setting with high maternal mortality. Methods Semi-structured interviews were conducted with 35 stakeholders in the capital, Vientiane and in one northern province identified as a site for a possible intervention. The sample included international and national stakeholders involved in policy-making and providing maternal and reproductive health services. Findings Most stakeholders supported a pilot program for community distribution of misoprostol but levels of awareness of the drug’s use in preventing postpartum haemorrhage and level of influence over policy direction varied considerably. Some international organizations, all identified as powerful in influencing policy, were ambivalent about the use of community distribution of misoprostol. Concerns related to the capacity of village health workers or lay people to safely administer misoprostol, whether its distribution would undermine efforts to improve access to safe delivery services and active management of the third stage of labour, the ease with which prescription drugs can be bought over the counter, and technical, logistical, and financial constraints. Conclusion Access to appropriate oxytocic drugs is a matter of health equity. In settings without access to essential obstetrical care, misoprostol represents a viable solution for the prevention of postpartum haemorrhage. Understanding stakeholders’ perspectives and their legitimate concerns on misoprostol can inform interventions in

  17. 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.

  18. 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

  19. Microbial community characterization, activity analysis and purifying efficiency in a biofilter process

    Institute of Scientific and Technical Information of China (English)

    Hong Xiang; Xiwu Lu; Lihong Yin; Fei Yang; Guangcan Zhu; Wuping Liu

    2013-01-01

    The growth and metabolism of microbial communities on biologically activated carbon (BAC) play a crucial role in the purification of drinking water.To gain insight into the growth and metabolic characteristics of microbial communities and the efficiency of drinking water treatment in a BAC filter,we analyzed the heterotrophic plate count (HPC),phospholipid,dehydrogenase,metabolic function and water quality parameters during start-up and steady-state periods.In the start-up process of the filter with natural biofilm colonization,the variation in heterotrophic plate count levels was S-curved.The total phospholipid level was very low during the first 5 days and reached a maximum value after 40 days in the filter.The activity of dehydrogenase gradually increased during the first 30 days and then reached a plateau.The functional diversity of the microbial community in the filter increased,and then reached a relatively stable level by day 40.After an initial decrease,which was followed by an increase,the removal rate of NH4+-N and CODMn became stable and was 80% and 28%,respectively,by day 40.The consumption rate of dissolved oxygen reached a steady level after 29 days,and remained at 18%.At the steady operation state,the levels of HPC,phospholipid,dehydrogenase activity and carbon source utilization had no significant differences after 6 months compared to levels measured on day 40.The filter was shown to be effective in removing NH4+-N,NO2--N,CODMn,UV254,biodegradable dissolved organic carbon and trace organic pollutants from the influent.Our results suggest that understanding changes in the growth and metabolism of microorganisms in BAC filter could help to improve the efficiency of biological treatment of drinking water.

  20. Cannabis use and violence in three remote Aboriginal Australian communities: Analysis of clinic presentations.

    Science.gov (United States)

    Kylie Lee, K S; Sukavatvibul, Krisakorn; Conigrave, Katherine M

    2015-12-01

    Anecdotal reports have linked cannabis use to violence in some remote Australian Aboriginal communities. We examine the relationship between cannabis use and presentations to local clinics for violence-related trauma at a population level. As part of a larger study, estimates of cannabis and alcohol use status were obtained for 264 randomly selected individuals aged 14-42. These estimates were collected from Aboriginal health workers and respected community informants using a previously validated approach. Clinic records for the sample were audited for physical trauma presentations between January 2004 and June 2006. One in 3 individuals (n = 88/264) presented to the clinic with physical trauma. Of these, the majority (65.9%, n = 58/88) had at least one presentation that was violence-related. Nearly 2 in every 3 of the total presentations for trauma following violence (n = 40/63) involved the use of a weapon. Hunting tools were most often used, followed by wooden or rock implements. Individuals who reported any current cannabis use were nearly 4 times more likely than nonusers to present at least once for violent trauma after adjusting for current alcohol use, age, and sex (OR = 3.8, 95% CI [1.5, 9.8]). Aboriginal individuals in these remote communities experience high rates of physical trauma and violence, often involving weapons. A comprehensive study is needed to explore the association between cannabis and violence. At the same time, an investment in local programmes is needed to address cannabis use and underlying risk factors for substance use and for violence.

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

    Directory of Open Access Journals (Sweden)

    Özgül Inceoğlu

    Full Text Available 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

  2. Wisdom Way Solar Village: Design, Construction, and Analysis of a Low Energy Community

    Energy Technology Data Exchange (ETDEWEB)

    Aldrich, R.

    2012-08-01

    This report describes work conducted at the Wisdom Way Solar Village (WWSV), a community of 10 high performance duplexes (20 homes) in Greenfield, MA, constructed by Rural Development, Inc. (RDI). Building America's CARB team monitored temperatures and comfort in several homes during the winter of 2009-2010, and tracked utility bill information from 13 occupied homes. Because of efficient lights, appliances, and conscientious home occupants, the energy generated by the solar electric systems exceeded the electric energy used in most homes.

  3. Development of a cost-effective metabarcoding strategy for analysis of the marine phytoplankton community

    OpenAIRE

    Yoon, Tae-Ho; Kang, Hye-Eun; Kang, Chang-Keun; Lee, Sang Heon; Ahn, Do-Hwan; Park, Hyun; Kim, Hyun-Woo

    2016-01-01

    We developed a cost-effective metabarcoding strategy to analyze phytoplankton community structure using the Illumina MiSeq system. The amplicons (404–411 bp) obtained by end-pairing of two reads were sufficiently long to distinguish algal species and provided barcode data equivalent to those generated with the Roche 454 system, but at less than 1/20th of the cost. The original universal primer sequences targeting the 23S rDNA region and the PCR strategy were both modified, and this resulted i...

  4. 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

  5. Correlation of maple sap composition with bacterial and fungal communities determined by multiplex automated ribosomal intergenic spacer analysis (MARISA).

    Science.gov (United States)

    Filteau, Marie; Lagacé, Luc; LaPointe, Gisèle; Roy, Denis

    2011-08-01

    During collection, maple sap is contaminated by bacteria and fungi that subsequently colonize the tubing system. The bacterial microbiota has been more characterized than the fungal microbiota, but the impact of both components on maple sap quality remains unclear. This study focused on identifying bacterial and fungal members of maple sap and correlating microbiota composition with maple sap properties. A multiplex automated ribosomal intergenic spacer analysis (MARISA) method was developed to presumptively identify bacterial and fungal members of maple sap samples collected from 19 production sites during the tapping period. Results indicate that the fungal community of maple sap is mainly composed of yeast related to Mrakia sp., Mrakiella sp., Guehomyces pullulans, Cryptococcus victoriae and Williopsis saturnus. Mrakia, Mrakiella and Guehomyces peaks were identified in samples of all production sites and can be considered dominant and stable members of the fungal microbiota of maple sap. A multivariate analysis based on MARISA profiles and maple sap chemical composition data showed correlations between Candida sake, Janthinobacterium lividum, Williopsis sp., Leuconostoc mesenteroides, Mrakia sp., Rhodococcus sp., Pseudomonas tolaasii, G. pullulans and maple sap composition at different flow periods. This study provides new insights on the relationship between microbial community and maple sap quality.

  6. Comparative analysis of bacterial community and antibiotic-resistant strains in different developmental stages of the housefly (Musca domestica).

    Science.gov (United States)

    Wei, Ting; Hu, Jun; Miyanaga, Kazuhiko; Tanji, Yasunori

    2013-02-01

    The housefly (Musca domestica) is an important host for a variety of bacteria, including some pathogenic and antibiotic-resistant strains. To further investigate the relationship between the housefly and the bacteria it harbors, it is necessary to understand the fate of microorganisms during the larval metamorphosis. The major bacterial communities in three developmental stages of the housefly (maggot, pupa, and adult fly) were investigated by a culture-independent method, polymerase chain reaction-denaturing gradient gel electrophoresis (PCR-DGGE) analysis of 16S rRNA genes. The bacteria that were identified using DGGE analysis spanned phyla Proteobacteria, Firmicutes, and Bacteroidetes. Changes in the predominant genera were observed during the housefly development. Bacteroides, Koukoulia, and Schineria were detected in maggots, Neisseria in pupae, and Macrococcus, Lactococcus, and Kurthia in adult flies. Antibiotic-resistant bacteria were screened using a selective medium and tested for antibiotic susceptibility. Most resistant isolates from maggots and pupae were classified as Proteus spp., while those from adult flies were much more diverse and spanned 12 genera. Among 20 tested strains across the three stages, 18 were resistant to at least two antibiotics. Overall, we demonstrated that there are changes in the major bacterial communities and antibiotic-resistant strains as the housefly develops. PMID:22526786

  7. Comparative analysis of bacterial community and antibiotic-resistant strains in different developmental stages of the housefly (Musca domestica).

    Science.gov (United States)

    Wei, Ting; Hu, Jun; Miyanaga, Kazuhiko; Tanji, Yasunori

    2013-02-01

    The housefly (Musca domestica) is an important host for a variety of bacteria, including some pathogenic and antibiotic-resistant strains. To further investigate the relationship between the housefly and the bacteria it harbors, it is necessary to understand the fate of microorganisms during the larval metamorphosis. The major bacterial communities in three developmental stages of the housefly (maggot, pupa, and adult fly) were investigated by a culture-independent method, polymerase chain reaction-denaturing gradient gel electrophoresis (PCR-DGGE) analysis of 16S rRNA genes. The bacteria that were identified using DGGE analysis spanned phyla Proteobacteria, Firmicutes, and Bacteroidetes. Changes in the predominant genera were observed during the housefly development. Bacteroides, Koukoulia, and Schineria were detected in maggots, Neisseria in pupae, and Macrococcus, Lactococcus, and Kurthia in adult flies. Antibiotic-resistant bacteria were screened using a selective medium and tested for antibiotic susceptibility. Most resistant isolates from maggots and pupae were classified as Proteus spp., while those from adult flies were much more diverse and spanned 12 genera. Among 20 tested strains across the three stages, 18 were resistant to at least two antibiotics. Overall, we demonstrated that there are changes in the major bacterial communities and antibiotic-resistant strains as the housefly develops.

  8. Analysis of microbial communities in doenjang, a Korean fermented soybean paste, using nested PCR-denaturing gradient gel electrophoresis.

    Science.gov (United States)

    Kim, Tae-Woon; Lee, Jun-Hwa; Kim, Sung-Eon; Park, Min-Hee; Chang, Hae Choon; Kim, Hae-Yeong

    2009-05-31

    Doenjang is a traditional Korean fermented soybean paste that provides a major source of protein. The microbial diversity of 10 samples of doenjang (5 commercially manufactured products and 5 homemade products) was investigated using nested PCR-denaturing gradient gel electrophoresis (DGGE). In the first step, the nearly complete 16S rRNA and 18S rRNA genes were amplified using universal primers. Subsequently, these products were used as a template in a nested PCR to obtain fragments suitable for DGGE. The bacterial DGGE profile targeting the V3 region of the 16S rRNA gene indicated that lactic acid bacteria such as Leuconostoc mesenteroide, Tetragenococcus halophilus, and Enterococcus faecium were the predominant species. However, bands corresponding to Bacillus species, known to be the main organisms in doenjang, were not detected under the conditions described above. When selective PCR was conducted using a primer specific for Bacillus species, Bacillus subtilis and B. licheniformis were detected in several doenjang samples. In analysis of fungi, Mucor plumbeus, Aspergillus oryzae, and Debaryomyces hansenii were the most common species in the doenjang samples. On the basis of DGGE, a few differences in community structure were found for different samples. Also, cluster analysis of the DGGE profile revealed that the microbial diversity did not differ clearly between commercially manufactured and homemade products. The nested PCR-DGGE technique was used for the first time in this study to asses a microbial community in doenjang and proved to be effective in profiling microbial diversity. PMID:19324443

  9. A local scale analysis on influencing factors of NOx emissions: Evidence from the Community of Madrid, Spain

    International Nuclear Information System (INIS)

    This paper deals with an important pollution problem affecting millions of people, especially in urban areas and large cities: NOx. This dangerous pollutant is emitted by high temperature combustion and therefore its main source is transportation, which in turn is a consequence of an increase in population and better economic conditions. To examine the determinants of NOx emissions in the Community of Madrid, which is one of the most densely populated regions in Europe, we use an augmented STIRPAT model and a massive dataset which includes kriging estimates of pollution records and integrates various sources of information. Unlike previous research, we carry out our analysis at local level, where the relationship between socio-economic factors and environment becomes more complex, by considering the 179 municipalities of the Community over the period 2000–2009. Our results suggest a positive and statistically significant relationship between private transport-related variables and NOx. Interestingly, the coefficients of the variables related to public transportation are all significant with different signs. The overall outcome illustrates that policy makers should encourage a significant modal shift towards public transport and invest in attractive alternative means of transport and particularly railways in order to reduce transport energy use and mitigate pollutant emissions. - Highlights: • We analyse the impact of transportation on NOx emissions in Madrid, Spain. • An augment STIRPAT model is used for empirical analysis. • We use a massive database which includes kriging estimates of pollution records. • Public transport-related variables show significant relationships with NOx

  10. 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.

  11. 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

  12. Utilizing findings from a gender-based analysis to address chronic disease prevention and management among African-American women in a Michigan community.

    Science.gov (United States)

    Lombard, Wendy; Burke, Jodi; Waddell, Sandra; Franke, Arthur

    2015-08-01

    This research note underscores the importance of including strategies to address gender-based disparities when planning and implementing community health improvement programs. Working in collaboration with the Inkster Partnership for a Healthier Community (IPHC), the National Kidney Foundation of Michigan conducted a gender-based analysis as part of its broader community health needs assessment efforts in Inkster, MI. The findings from these studies revealed significant challenges impacting women that were not being adequately addressed within the community. In response to these findings, the IPHC created a strategic action plan to respond to the highest priority needs by increasing community awareness of and linkages to resources that provide supportive services for low-income African-American women. PMID:25542367

  13. Utilizing findings from a gender-based analysis to address chronic disease prevention and management among African-American women in a Michigan community.

    Science.gov (United States)

    Lombard, Wendy; Burke, Jodi; Waddell, Sandra; Franke, Arthur

    2015-08-01

    This research note underscores the importance of including strategies to address gender-based disparities when planning and implementing community health improvement programs. Working in collaboration with the Inkster Partnership for a Healthier Community (IPHC), the National Kidney Foundation of Michigan conducted a gender-based analysis as part of its broader community health needs assessment efforts in Inkster, MI. The findings from these studies revealed significant challenges impacting women that were not being adequately addressed within the community. In response to these findings, the IPHC created a strategic action plan to respond to the highest priority needs by increasing community awareness of and linkages to resources that provide supportive services for low-income African-American women.

  14. Analysis of Active Methylotrophic Communities: When DNA-SIP Meets High-Throughput Technologies.

    Science.gov (United States)

    Taubert, Martin; Grob, Carolina; Howat, Alexandra M; Burns, Oliver J; Chen, Yin; Neufeld, Josh D; Murrell, J Colin

    2016-01-01

    Methylotrophs are microorganisms ubiquitous in the environment that can metabolize one-carbon (C1) compounds as carbon and/or energy sources. The activity of these prokaryotes impacts biogeochemical cycles within their respective habitats and can determine whether these habitats act as sources or sinks of C1 compounds. Due to the high importance of C1 compounds, not only in biogeochemical cycles, but also for climatic processes, it is vital to understand the contributions of these microorganisms to carbon cycling in different environments. One of the most challenging questions when investigating methylotrophs, but also in environmental microbiology in general, is which species contribute to the environmental processes of interest, or "who does what, where and when?" Metabolic labeling with C1 compounds substituted with (13)C, a technique called stable isotope probing, is a key method to trace carbon fluxes within methylotrophic communities. The incorporation of (13)C into the biomass of active methylotrophs leads to an increase in the molecular mass of their biomolecules. For DNA-based stable isotope probing (DNA-SIP), labeled and unlabeled DNA is separated by isopycnic ultracentrifugation. The ability to specifically analyze DNA of active methylotrophs from a complex background community by high-throughput sequencing techniques, i.e. targeted metagenomics, is the hallmark strength of DNA-SIP for elucidating ecosystem functioning, and a protocol is detailed in this chapter. PMID:26791507

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

    Science.gov (United States)

    Kapepula, Ka-Mbayu; Colson, Gerard; 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 families that represent three classical viewpoints: the production of wastes, their collection and their treatment. Thanks to the method PROMETHEE and the software ARGOS, we do a pair-wise comparison of the nine areas, which allows their multiple criteria rankings according to each viewpoint and then globally. Finding the worst and best areas in terms of nuisance for a better waste management in the city is our final purpose, fitting as well as possible the needs of the urban community. Based on field knowledge and on the literature, we suggest applying general and area-specific remedies to the household solid waste problems. PMID:17064885

  16. Analysis of Knowledge Level and Perception on Singkawang City Community towards Generic Medicines

    Directory of Open Access Journals (Sweden)

    Forid Morison

    2015-03-01

    Full Text Available Survey data show that the use of generic medicines in Indonesia is relatively very small, which only amounted 7%. This is due to lack of knowledge and poor perceptions towards generic medicines. Knowledge level and perceptions towards generic medicines are inflenced by community characteristics and information resource regarding generic medicines. The aim of this study was to determine the association between community characteristic and information resources with knowledge level and perception towards generic medicines. This study was an analytical survey with cross-sectional descriptive approach on 142 selected respondents who were fulfi inclusion and exclusion criteria. This study was conducted in June 2014 at several randomly selected locations on Singkawang City. The study show that 76 respondents (53.5% had inadequate knowledge and 123 respondents (86.6% had a good perception towards generic medicines. There is signifiant relationship between ethnicity (p=0.000 and information resources (p=0.009 with knowledge level regarding generic medicines at signifiance level of p<0.05. Although good perceptions were noted among the respondents, widespread dissemination of information regarding generic medicines should be continued to increase generic medicines used.

  17. [Capability and microbial community analysis of a membrane bioreactor for acrylic fiber wastewater treatment].

    Science.gov (United States)

    Wei, Jian; Song, Yong-Huil; Zhao, Le

    2014-12-01

    Sequencing batch membrane bioreactor (SBMBR) was used for the treatment of acrylic fiber polymerization wastewater and acrylonitrile wastewater. The operation efficiencies of SBMBR under different wastewater ratios and operation conditions were investigated, and the microbial community structure of the SBMBR system was analyzed by using PCR-DGGE technology. The results showed that SBMBR had a high removal efficiency on pollutants in acrylic fiber wastewater, and the lacking of carbon source and alkalinity were the main limiting factors for nitrogen removal. Under the designed operation conditions of 90 min anoxic/150 min aerobic cyclic operation and HRT of 24 h, the average COD, NH4(+) -N and TN removal efficiencies were 82.5%, 98.7% and 74.6%, respectively. The effluent of the SBMBR could steadily meet the Grade I standards of the Wastewater Comprehensive Discharge Standard of China (GB 8978-1996). The PCR-DGGE analyses showed that the microbial communities in SBMBR had a significant shift with the changes of influent characteristics and operation conditions. By cloning and sequencing analyses of selected dominant bacteria, 22 16S rDNA sequence were successfully identified from 9 sludge samples, from which 7 dominant functional microorganisms for the degradation of organic pollutants in acrylic fiber wastewater were screened out. PMID:25826932

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

    Directory of Open Access Journals (Sweden)

    Naseer Sangwan

    Full Text Available 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.

  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. Hierarchical modeling and inference in ecology: The analysis of data from populations, metapopulations and communities

    Science.gov (United States)

    Royle, J. Andrew; Dorazio, Robert M.

    2008-01-01

    A guide to data collection, modeling and inference strategies for biological survey data using Bayesian and classical statistical methods. This book describes a general and flexible framework for modeling and inference in ecological systems based on hierarchical models, with a strict focus on the use of probability models and parametric inference. Hierarchical models represent a paradigm shift in the application of statistics to ecological inference problems because they combine explicit models of ecological system structure or dynamics with models of how ecological systems are observed. The principles of hierarchical modeling are developed and applied to problems in population, metapopulation, community, and metacommunity systems. The book provides the first synthetic treatment of many recent methodological advances in ecological modeling and unifies disparate methods and procedures. The authors apply principles of hierarchical modeling to ecological problems, including * occurrence or occupancy models for estimating species distribution * abundance models based on many sampling protocols, including distance sampling * capture-recapture models with individual effects * spatial capture-recapture models based on camera trapping and related methods * population and metapopulation dynamic models * models of biodiversity, community structure and dynamics.

  1. Factors associated with use of community mental health services by schizophrenia patients using multilevel analysis

    Directory of Open Access Journals (Sweden)

    Moreno Patricia

    2011-10-01

    Full Text Available Abstract Background Persons with schizophrenia and related disorders may be particularly sensitive to a number of determinants of service use, including those related with illness, socio-demographic characteristics and organizational factors. The objective of this study is to identify factors associated with outpatient contacts at community mental health services of patients with schizophrenia or related disorders. Methods This cross-sectional study analyzed 1097 patients. The main outcome measure was the total number of outpatient consultations during one year. Independent variables were related to socio-demographic, clinical and use of service factors. Data were collected from clinical records. Results The multilevel linear regression model explained 46.35% of the variance. Patients with significantly more contacts with ambulatory services were not working and were receiving welfare benefits (p = 0.02, had no formal education (p = 0.02, had a global level of severity of two or three (four being the most severe (p Conclusions As expected, the variables that explained the use of community service could be viewed as proxies for severity of illness. The most surprising finding, however, was that a group of four psychiatrists was also independently associated with use of ambulatory services by patients with schizophrenia or related disorders. More research is needed to carefully examine how professional support networks interact to affect use of mental health.

  2. 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.

  3. Perchlorate reduction by hydrogen autotrophic bacteria and microbial community analysis using high-throughput sequencing.

    Science.gov (United States)

    Wan, Dongjin; Liu, Yongde; Niu, Zhenhua; Xiao, Shuhu; Li, Daorong

    2016-02-01

    Hydrogen autotrophic reduction of perchlorate have advantages of high removal efficiency and harmless to drinking water. But so far the reported information about the microbial community structure was comparatively limited, changes in the biodiversity and the dominant bacteria during acclimation process required detailed study. In this study, perchlorate-reducing hydrogen autotrophic bacteria were acclimated by hydrogen aeration from activated sludge. For the first time, high-throughput sequencing was applied to analyze changes in biodiversity and the dominant bacteria during acclimation process. The Michaelis-Menten model described the perchlorate reduction kinetics well. Model parameters q(max) and K(s) were 2.521-3.245 (mg ClO4(-)/gVSS h) and 5.44-8.23 (mg/l), respectively. Microbial perchlorate reduction occurred across at pH range 5.0-11.0; removal was highest at pH 9.0. The enriched mixed bacteria could use perchlorate, nitrate and sulfate as electron accepter, and the sequence of preference was: NO3(-) > ClO4(-) > SO4(2-). Compared to the feed culture, biodiversity decreased greatly during acclimation process, the microbial community structure gradually stabilized after 9 acclimation cycles. The Thauera genus related to Rhodocyclales was the dominated perchlorate reducing bacteria (PRB) in the mixed culture.

  4. Analysis of Body Composition Methods in a Community Sample of African American Women

    OpenAIRE

    Lopez, Ygnacio; O’Connor, Daniel P.; Ledoux, Tracey A.; Rebecca E. Lee

    2011-01-01

    The purposes of the authors in this study were: (1) to determine whether published body mass index and bioelectrical impedance analysis equations agreed with dual energy x-ray absorptiometry body fat percentage measures and (2) to estimate new body mass index and bioelectrical impedance analysis equations in a sample of African American women. Linear regression was used to determine how well 10 body mass index and bioelectrical impedance analysis equations reflected dual energy x-ray absorpti...

  5. Large-scale ordination and gradient analysis of salt-marsh communities in the Netherlands in the light of the Dutch National Vegetation Classification

    NARCIS (Netherlands)

    Kley, van J.E.; Schaminée, J.H.J.

    2003-01-01

    In the development of the Dutch National Vegetation Classification, little emphasis was placed on ordination or gradient analysis. The current study provides a national-scale ordination analysis of salt-marsh communities in the Netherlands and presents it in the context of the National Classificatio

  6. 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

  7. Social Network Analysis to Examine Interaction Patterns in Knowledge Building Communities

    Science.gov (United States)

    Philip, Donald N.

    2010-01-01

    This paper describes use of social network analysis to examine student interaction patterns in a Grade 5/6 Knowledge Building class. The analysis included face-to-face interactions and interactions in the Knowledge Forum[R] Knowledge Building environment. It is argued that sociogram data are useful to reveal group processes; in sociological terms,…

  8. Multimorbidity in a Mexican Community: Secondary Analysis of Chronic Illness and Depression Outcomes

    Science.gov (United States)

    O'Connor, Kathleen; Vizcaino, Maricarmen; Ibarra, Jorge M.; Balcazar, Hector; Perez, Eduardo; Flores, Luis; Anders, Robert L.

    2015-01-01

    The aims of this article are: 1) to examine the associations between health provider-diagnosed depression and multimorbidity, the condition of suffering from more than two chronic illnesses; 2) to assess the unique contribution of chronic illness in the prediction of depression; and 3) to suggest practice changes that would address risk of depression among individuals with chronic illnesses. Data collected in a cross-sectional community health study among adult Mexicans (n= 274) living in a low income neighborhood (colonia) in Ciudad Juárez, Chihuahua, Mexico, were examined. We tested the hypotheses that individuals who reported suffering chronic illnesses would also report higher rates of depression than healthy individuals; and having that two or more chronic illnesses further increased the risk of depression. PMID:26640817

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

    DEFF Research Database (Denmark)

    Inceoglu, Özgül; Abu Al-Soud, Waleed; Salles, Joana Falcão;

    2011-01-01

    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......, 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...

  10. 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

  11. Assessing community-based conservation projects: A systematic review and multilevel analysis of attitudinal, behavioral, ecological, and economic outcomes

    Directory of Open Access Journals (Sweden)

    Brooks Jeremy

    2013-01-01

    Full Text Available Abstract Background Community-based conservation (CBC promotes the idea that long-term conservation success requires engaging with, and providing benefits for local communities. Though widespread, CBC projects are not always successful or free of controversy. With criticisms on all sides of the conservation debates, it is critical to have a better understanding of (1 whether CBC is an effective conservation tool, and (2 of the factors associated with the success or failure of CBC projects, and the scale at which these factors operate. Recent CBC reviews have typically examined only a single resource domain, have limited geographic scope, consider only one outcome, or ignore the nested nature of socioecological systems. To remedy these issues, we use a newly coded global comparative database of CBC projects identified by systematic review to evaluate success in four outcome domains (attitudes, behaviors, ecological, economic and explore synergies and tradeoffs among these outcomes. We test hypotheses about how features of the national context (H-NC, project design (H-PD, and local community characteristics (H-CC affect these four measures of success. Methods To add to a sample of 62 projects that we used from previous systematic reviews, we systematically searched the conservation literature using six terms in four online databases. To increase the number of projects for each country in order to conduct a multilevel analysis, we also conducted a secondary search using the Advancing Conservation in a Social Context online library. We coded projects for 65 pieces of information. We conducted bivariate analyses using two-dimensional contingency tables and proportional odds logistic regression and conducted multivariate analyses by fitting reduced form proportional odds logistic regression models that were selected using a forward stepwise AIC approach. Results The primary and secondary searches produced 74 new projects to go along with the 62

  12. [Analysis of Microbial Community in the Membrane Bio-Reactor (MBR) Rural Sewage Treatment System].

    Science.gov (United States)

    Kong, Xiao; Cui, Bing-jian; Jin, De-cai; Wu, Shang-hua; Yang, Bo; Deng, Ye; Zhuang, Guo-qiang; Zhuang, Xu-liang

    2015-09-01

    Uncontrolled release and arbitrary irrigation reuse of rural wastewater may lead to water pollution, and the microbial pathogens could threaten the safety of freshwater resources and public health. To understand the microbial community structure of rural wastewater and provide the theory for microbial risk assessment of wastewater irrigation, microbial community diversities in the Membrane Bio-Reactor (MBR) process for rural wastewater treatment was studied by terminal restriction fragment length polymorphism (T-RFLP) and 16S rDNA gene clone library. Meanwhile, changes of Arcobacter spp. and total bacteria before and after treatment were detected through real-time quantitative PCR. The clone library results showed that there were 73 positive clones included Proteobacteria (91. 80%), Firmicutes (2. 70%), Bacteroidetes (1. 40%), and uncultured bacteria (4. 10%) in the untreated wastewater. The typical pathogenic genus Arcobacter belonging to e-Proteobacteria was the dominant component of the library, accounting for 68. 5% of all clones. The main groups and their abundance in different treatments were significantly distinct. The highest values of species abundance (S), Shannon-Wiener (H) and Evenness (E) were observed in the adjusting tank, which were 43. 0, 3. 56 and 0. 95, respectively. The real-time quantitative PCR results showed that the copy number of Arcobacter spp. was (1. 09 ± 0. 064 0) x 10(11) copies.L-1 in the untreated sewage, which was consistent with the result of 16S rDNA gene clone library. Compared to untreated wastewater, bacterial copy number in the treated effluent decreased 100 to 1 000 times, respectively, suggesting that MBR treatment system could remove the microbial quantity in such scale. In the recycled water, the physicochemical parameters and indicator bacteria met the water quality standard of farmland irrigation. However, further research is needed to estimate the potential health risks caused by residual pathogenic microorganisms in

  13. Community Analysis and Recovery of Phenol-degrading Bacteria from Drinking Water Biofilters.

    Science.gov (United States)

    Gu, Qihui; Wu, Qingping; Zhang, Jumei; Guo, Weipeng; Wu, Huiqing; Sun, Ming

    2016-01-01

    Phenol is a ubiquitous organic contaminant in drinking water. Biodegradation plays an important role in the elimination of phenol pollution in the environment, but the information about phenol removal by drinking water biofilters is still lacking. Herein, we study an acclimated bacterial community that can degrade over 80% of 300 mg/L phenol within 3 days. PCR detection of genotypes involved in bacterial phenol degradation revealed that the degradation pathways contained the initial oxidative attack by phenol hydroxylase, and subsequent ring fission by catechol 1,2-dioxygenase. Based on the PCR denatured gradient gel electrophoresis (PCR-DGGE) profiles of bacteria from biological activated carbon (BAC), the predominant bacteria in drinking water biofilters including Delftia sp., Achromobacter sp., and Agrobacterium sp., which together comprised up to 50% of the total microorganisms. In addition, a shift in bacterial community structure was observed during phenol biodegradation. Furthermore, the most effective phenol-degrading strain DW-1 that correspond to the main band in denaturing gradient gel electrophoresis (DGGE) profile was isolated and identified as Acinetobacter sp., according to phylogenetic analyses of the 16S ribosomal ribonucleic acid (rRNA) gene sequences. The strain DW-1 also produced the most important enzyme, phenol hydroxylase, and it also exhibited a good ability to degrade phenol when immobilized on granular active carbon (GAC). This study indicates that the enrichment culture has great potential application for treatment of phenol-polluted drinking water sources, and the indigenous phenol-degrading microorganism could recover from drinking water biofilters as an efficient resource for phenol removal. Therefore, the aim of this study is to draw attention to recover native phenol-degrading bacteria from drinking water biofilters, and use these native microorganisms as phenolic water remediation in drinking water sources.

  14. Community analysis and recovery of phenol-degrading bacteria from drinking water biofilters

    Directory of Open Access Journals (Sweden)

    Qihui eGu

    2016-04-01

    Full Text Available Phenol is a ubiquitous organic contaminant in drinking water. Biodegradation plays an important role in the elimination of phenol pollution in the environment, but the information about phenol removal by drinking water biofilters is still lacking. Herein, we study an acclimated bacterial community that can degrade over 80% of 300 mg/L phenol within 3 d. PCR detection of genotypes involved in bacterial phenol degradation revealed that the degradation pathways contained the initial oxidative attack by phenol hydroxylase, and subsequent ring fission by catechol 1,2-dioxygenase. Based on the PCR denatured gradient gel electrophoresis (PCR-DGGE profiles of bacteria from biological activated carbon (BAC, the predominant bacteria in drinking water biofilters including Delftia sp., Achromobacter sp., and Agrobacterium sp., which together comprised up to 50% of the total microorganisms. In addition, a shift in bacterial community structure was observed during phenol biodegradation. Furthermore, the most effective phenol-degrading strain DW-1 that correspond to the main band in DGGE profile was isolated and identified as Acinetobacter sp., according to phylogenetic analyses of the 16S ribosomal ribonucleic acid (rRNA gene sequences. The strain DW-1 also produced the most important enzyme, phenol hydroxylase, and it also exhibited a good ability to degrade phenol when immobilized on GAC. This study indicates that the enrichment culture has great potential application for treatment of phenol-polluted drinking water sources, and the indigenous phenol-degrading microorganism could recover from drinking water biofilters as an efficient resource for phenol removal. Therefore, the aim of this study is to draw attention to recover native phenol-degrading bacteria from drinking water biofilters, and use these native microorganisms as phenolic water remediation in drinking water sources.

  15. [Analysis of Microbial Community in the Membrane Bio-Reactor (MBR) Rural Sewage Treatment System].

    Science.gov (United States)

    Kong, Xiao; Cui, Bing-jian; Jin, De-cai; Wu, Shang-hua; Yang, Bo; Deng, Ye; Zhuang, Guo-qiang; Zhuang, Xu-liang

    2015-09-01

    Uncontrolled release and arbitrary irrigation reuse of rural wastewater may lead to water pollution, and the microbial pathogens could threaten the safety of freshwater resources and public health. To understand the microbial community structure of rural wastewater and provide the theory for microbial risk assessment of wastewater irrigation, microbial community diversities in the Membrane Bio-Reactor (MBR) process for rural wastewater treatment was studied by terminal restriction fragment length polymorphism (T-RFLP) and 16S rDNA gene clone library. Meanwhile, changes of Arcobacter spp. and total bacteria before and after treatment were detected through real-time quantitative PCR. The clone library results showed that there were 73 positive clones included Proteobacteria (91. 80%), Firmicutes (2. 70%), Bacteroidetes (1. 40%), and uncultured bacteria (4. 10%) in the untreated wastewater. The typical pathogenic genus Arcobacter belonging to e-Proteobacteria was the dominant component of the library, accounting for 68. 5% of all clones. The main groups and their abundance in different treatments were significantly distinct. The highest values of species abundance (S), Shannon-Wiener (H) and Evenness (E) were observed in the adjusting tank, which were 43. 0, 3. 56 and 0. 95, respectively. The real-time quantitative PCR results showed that the copy number of Arcobacter spp. was (1. 09 ± 0. 064 0) x 10(11) copies.L-1 in the untreated sewage, which was consistent with the result of 16S rDNA gene clone library. Compared to untreated wastewater, bacterial copy number in the treated effluent decreased 100 to 1 000 times, respectively, suggesting that MBR treatment system could remove the microbial quantity in such scale. In the recycled water, the physicochemical parameters and indicator bacteria met the water quality standard of farmland irrigation. However, further research is needed to estimate the potential health risks caused by residual pathogenic microorganisms in

  16. Community Analysis and Recovery of Phenol-degrading Bacteria from Drinking Water Biofilters.

    Science.gov (United States)

    Gu, Qihui; Wu, Qingping; Zhang, Jumei; Guo, Weipeng; Wu, Huiqing; Sun, Ming

    2016-01-01

    Phenol is a ubiquitous organic contaminant in drinking water. Biodegradation plays an important role in the elimination of phenol pollution in the environment, but the information about phenol removal by drinking water biofilters is still lacking. Herein, we study an acclimated bacterial community that can degrade over 80% of 300 mg/L phenol within 3 days. PCR detection of genotypes involved in bacterial phenol degradation revealed that the degradation pathways contained the initial oxidative attack by phenol hydroxylase, and subsequent ring fission by catechol 1,2-dioxygenase. Based on the PCR denatured gradient gel electrophoresis (PCR-DGGE) profiles of bacteria from biological activated carbon (BAC), the predominant bacteria in drinking water biofilters including Delftia sp., Achromobacter sp., and Agrobacterium sp., which together comprised up to 50% of the total microorganisms. In addition, a shift in bacterial community structure was observed during phenol biodegradation. Furthermore, the most effective phenol-degrading strain DW-1 that correspond to the main band in denaturing gradient gel electrophoresis (DGGE) profile was isolated and identified as Acinetobacter sp., according to phylogenetic analyses of the 16S ribosomal ribonucleic acid (rRNA) gene sequences. The strain DW-1 also produced the most important enzyme, phenol hydroxylase, and it also exhibited a good ability to degrade phenol when immobilized on granular active carbon (GAC). This study indicates that the enrichment culture has great potential application for treatment of phenol-polluted drinking water sources, and the indigenous phenol-degrading microorganism could recover from drinking water biofilters as an efficient resource for phenol removal. Therefore, the aim of this study is to draw attention to recover native phenol-degrading bacteria from drinking water biofilters, and use these native microorganisms as phenolic water remediation in drinking water sources. PMID:27148185

  17. Pyrosequencing analysis of microbial communities in hollow fiber-membrane biofilm reactors system for treating high-strength nitrogen wastewater.

    Science.gov (United States)

    Park, Jung-Hun; Choi, Okkyoung; Lee, Tae-Ho; Kim, Hyunook; Sang, Byoung-In

    2016-11-01

    Wastewaters from swine farms, nitrogen-dealing industries or side-stream processes of a wastewater treatment plant (e.g., anaerobic digesters, sludge thickening processes, etc.) are characterized by low C/N ratios and not easily treatable. In this study, a hollow fiber-membrane biofilm reactors (HF-MBfR) system consisting of an O2-based HF-MBfR and an H2-based HF-MBfR was applied for treating high-strength wastewater. The reactors were continuously operated with low supply of O2 and H2 and without any supply of organic carbon for 250 d. Gradual increase of ammonium and nitrate concentration in the influent showed stable and high nitrogen removal efficiency, and the maximum ammonium and nitrate removal rates were 0.48 kg NH4(+)-N m(-3) d(-1) and 0.55 kg NO3(-)-N m(-3) d(-1), respectively. The analysis of the microbial communities using pyrosequencing analysis indicated that Nitrosospira multiformis, ammonium-oxidizing bacteria, and Nitrobacter winogradskyi and Nitrobacter vulgaris, nitrite-oxidizing bacteria were highly enriched in the O2-based HF-MBfR. In the H2-based HF-MBfR, hydrogenotrophic denitrifying bacteria belonging to the family of Thiobacillus and Comamonadaceae were initially dominant, but were replaced to heterotrophic denitrifiers belonging to Rhodocyclaceae and Rhodobacteraceae utilizing by-products induced from autotrophic denitrifying bacteria. The pyrosequencing analysis of microbial communities indicates that the autotrophic HF-MBfRs system well developed autotrophic nitrifying and denitrifying bacteria within a relatively short period to accomplish almost complete nitrogen removal. PMID:27529383

  18. Diel metabolomics analysis of a hot spring chlorophototrophic microbial mat leads to new hypotheses of community member metabolisms

    Directory of Open Access Journals (Sweden)

    Young-Mo eKim

    2015-04-01

    Full Text Available Dynamic environmental factors such as light, nutrients, salt, and temperature continuously affect chlorophototrophic microbial mats, requiring adaptive and acclimative responses to stabilize composition and function. Quantitative metabolomics analysis can provide insights into metabolite dynamics for understanding community response to such changing environmental conditions. In this study, we quantified volatile organic acids, polar metabolites (amino acids, glycolytic and citric acid cycle intermediates, nucleobases, nucleosides, and sugars, wax esters, and polyhydroxyalkanoates, resulting in the identification of 104 metabolites and related molecules in thermal chlorophototrophic microbial mat cores collected over a diel cycle in Mushroom Spring, Yellowstone National Park. A limited number of predominant taxa inhabit this community and their functional potentials have been previously identified through metagenomic and metatranscriptomic analyses and in situ metabolisms, and metabolic interactions among these taxa have been hypothesized. Our metabolomics results confirmed the diel cycling of photorespiration (e.g. glycolate and fermentation (e.g. acetate, propionate, and lactate products, the carbon storage polymers polyhydroxyalkanoates, and dissolved gases (e.g. H2 and CO2 in the waters overlying the mat, which were hypothesized to occur in major mat chlorophototrophic community members. In addition, we have formulated the following new hypotheses: 1 the morning hours are a time of biosynthesis of amino acids, DNA, and RNA; 2 photo-inhibited cells may also produce lactate via fermentation as an alternate metabolism; 3 glycolate and lactate are exchanged among Synechococcus and Roseiflexus spp.; and 4 fluctuations in many metabolite pools (e.g. wax esters at different times of day result from species found at different depths within the mat responding to temporal differences in their niches

  19. Comparative analysis of a nontraditional general chemistry textbook and selected traditional textbooks used in Texas community colleges

    Science.gov (United States)

    Salvato, Steven Walter

    The purpose of this study was to analyze questions within the chapters of a nontraditional general chemistry textbook and the four general chemistry textbooks most widely used by Texas community colleges in order to determine if the questions require higher- or lower-order thinking according to Bloom's taxonomy. The study employed quantitative methods. Bloom's taxonomy (Bloom, Engelhart, Furst, Hill, & Krathwohl, 1956) was utilized as the main instrument in the study. Additional tools were used to help classify the questions into the proper category of the taxonomy (McBeath, 1992; Metfessel, Michael, & Kirsner, 1969). The top four general chemistry textbooks used in Texas community colleges and Chemistry: A Project of the American Chemical Society (Bell et al., 2005) were analyzed during the fall semester of 2010 in order to categorize the questions within the chapters into one of the six levels of Bloom's taxonomy. Two coders were used to assess reliability. The data were analyzed using descriptive and inferential methods. The descriptive method involved calculation of the frequencies and percentages of coded questions from the books as belonging to the six categories of the taxonomy. Questions were dichotomized into higher- and lower-order thinking questions. The inferential methods involved chi-square tests of association to determine if there were statistically significant differences among the four traditional college general chemistry textbooks in the proportions of higher- and lower-order questions and if there were statistically significant differences between the nontraditional chemistry textbook and the four traditional general chemistry textbooks. Findings indicated statistically significant differences among the four textbooks frequently used in Texas community colleges in the number of higher- and lower-level questions. Statistically significant differences were also found among the four textbooks and the nontraditional textbook. After the analysis of

  20. ABC-VED Analysis of a Drug Store in the Department of Community Medicine of a Medical College in Delhi.

    Science.gov (United States)

    Anand, T; Ingle, G K; Kishore, J; Kumar, R

    2013-01-01

    A matrix based on coupling of cost (always, better and control) analysis and criticality (vital, essential and desirable) analysis was employed for drug inventory containing 129 items of drug store in the Department of Community Medicine of a Medical College in Delhi. The annual drug expenditure incurred on 129 drug items for the year 2010-2011 was found to be Rs. 4,35,847.85. On always, better and control analysis, 18.6, 24.0 and 57.4% drugs were found to be always, better and control category items, respectively, amounting for 69.1, 20.8 and 10.1% of annual drug expenditure. About 13.2 (17), 38.8 (50) and 48.0% (62) items were found to be vital, essential and desirable category items, respectively, amounting for 18.7, 49.5 and 31.8% of annual drug expenditure. Based on always, better and control-vital, essential and desirable matrix analysis there were 37 (28.68%) items in category I, 53 (41.09%) items in category II and 39 (30.23%) items in category III, amounting for 73.0, 22.2 and 4.8% of annual drug expenditure, respectively. To conclude, scientific inventory management tools are needed to be applied in routine for efficient management of the pharmacy stores as it contributes to not only in improvement in patient care but also judicious use of resources as well.

  1. ABC-VED Analysis of a Drug Store in the Department of Community Medicine of a Medical College in Delhi

    Directory of Open Access Journals (Sweden)

    T Anand

    2013-01-01

    Full Text Available A matrix based on coupling of cost (always, better and control analysis and criticality (vital, essential and desirable analysis was employed for drug inventory containing 129 items of drug store in the Department of Community Medicine of a Medical College in Delhi. The annual drug expenditure incurred on 129 drug items for the year 2010-2011 was found to be Rs. 4,35,847.85. On always, better and control analysis, 18.6, 24.0 and 57.4% drugs were found to be always, better and control category items, respectively, amounting for 69.1, 20.8 and 10.1% of annual drug expenditure. About 13.2 (17, 38.8 (50 and 48.0% (62 items were found to be vital, essential and desirable category items, respectively, amounting for 18.7, 49.5 and 31.8% of annual drug expenditure. Based on always, better and control-vital, essential and desirable matrix analysis there were 37 (28.68% items in category I, 53 (41.09% items in category II and 39 (30.23% items in category III, amounting for 73.0, 22.2 and 4.8% of annual drug expenditure, respectively. To conclude, scientific inventory management tools are needed to be applied in routine for efficient management of the pharmacy stores as it contributes to not only in improvement in patient care but also judicious use of resources as well.

  2. ABC-VED Analysis of a Drug Store in the Department of Community Medicine of a Medical College in Delhi.

    Science.gov (United States)

    Anand, T; Ingle, G K; Kishore, J; Kumar, R

    2013-01-01

    A matrix based on coupling of cost (always, better and control) analysis and criticality (vital, essential and desirable) analysis was employed for drug inventory containing 129 items of drug store in the Department of Community Medicine of a Medical College in Delhi. The annual drug expenditure incurred on 129 drug items for the year 2010-2011 was found to be Rs. 4,35,847.85. On always, better and control analysis, 18.6, 24.0 and 57.4% drugs were found to be always, better and control category items, respectively, amounting for 69.1, 20.8 and 10.1% of annual drug expenditure. About 13.2 (17), 38.8 (50) and 48.0% (62) items were found to be vital, essential and desirable category items, respectively, amounting for 18.7, 49.5 and 31.8% of annual drug expenditure. Based on always, better and control-vital, essential and desirable matrix analysis there were 37 (28.68%) items in category I, 53 (41.09%) items in category II and 39 (30.23%) items in category III, amounting for 73.0, 22.2 and 4.8% of annual drug expenditure, respectively. To conclude, scientific inventory management tools are needed to be applied in routine for efficient management of the pharmacy stores as it contributes to not only in improvement in patient care but also judicious use of resources as well. PMID:23901172

  3. 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

  4. System Analysis in International Development: From Concept to Application in Flood Prone Communities

    OpenAIRE

    Keating, A.; Mechler, R.; Magnuszewski, P.; W. Liu; Mochizuki, J.

    2015-01-01

    Disasters pose a growing threat to sustainable development. Disaster risk management efforts have largely failed to arrest key drivers of uncontrolled urbanization and proliferation of assets in high risk areas. Systems analysis provides a unique interpretation of this failure, and a new pathway for remedy. Increasing “buzz” around the concept of disaster “resilience” (fundamentally a systems concept) has opened the door for the application of systems analysis in the complex arena of the soci...

  5. Microcomputer-based detachment administrative management system for the LAMPS community: a requirements analysis

    OpenAIRE

    Smith, Gregory F.

    1985-01-01

    This thesis presents a requirements analysis of a micro-computer based system to be used by sea-going Light Airborne Multi-purpose System (LAMPS) detachment for administrative data management and recurring reports generation. Included are the results of user interviews which were conducted to determine possible system functions. These functions, through analysis, are presented in a hierarchical charting with data flow diagrams and accompanying processing narratives. System data is then presen...

  6. Phylogenetic Analysis of Stenotrophomonas spp. Isolates Contributes to the Identification of Nosocomial and Community-Acquired Infections

    Directory of Open Access Journals (Sweden)

    Vinicius Godoy Cerezer

    2014-01-01

    Full Text Available Stenotrophomonas ssp. has a wide environmental distribution and is also found as an opportunistic pathogen, causing nosocomial or community-acquired infections. One species, S. maltophilia, presents multidrug resistance and has been associated with serious infections in pediatric and immunocompromised patients. Therefore, it is relevant to conduct resistance profile and phylogenetic studies in clinical isolates for identifying infection origins and isolates with augmented pathogenic potential. Here, multilocus sequence typing was performed for phylogenetic analysis of nosocomial isolates of Stenotrophomonas spp. and, environmental and clinical strains of S. maltophilia. Biochemical and multidrug resistance profiles of nosocomial and clinical strains were determined. The inferred phylogenetic profile showed high clonal variability, what correlates with the adaptability process of Stenotrophomonas to different habitats. Two clinical isolates subgroups of S. maltophilia sharing high phylogenetic homogeneity presented intergroup recombination, thus indicating the high permittivity to horizontal gene transfer, a mechanism involved in the acquisition of antibiotic resistance and expression of virulence factors. For most of the clinical strains, phylogenetic inference was made using only partial ppsA gene sequence. Therefore, the sequencing of just one specific fragment of this gene would allow, in many cases, determining whether the infection with S. maltophilia was nosocomial or community-acquired.

  7. 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.

  8. Thermophilic hydrogen production from sludge pretreated by thermophilic bacteria: analysis of the advantages of microbial community and metabolism.

    Science.gov (United States)

    Zheng, He-Shan; Guo, Wan-Qian; Yang, Shan-Shan; Feng, Xiao-Chi; Du, Juan-Shan; Zhou, Xian-Jiao; Chang, Jo-Shu; Ren, Nan-Qi

    2014-11-01

    In this study, the effects of thermophilic bacteria pretreatment and elevated fermentation temperature on hydrogen production from sludge were examined. The highest hydrogen yield of 19.9mlH2g(-1) VSS was achieved at 55°C by using pretreated sludge, which was 48.6% higher than raw sludge without pretreatment, and 28.39% higher than when fermented at 35°C. To explore the internal factors of this superior hydrogen production performance, the microbial community and the metabolism analysis were performed by using high-throughput sequencing and excitation-emission matrix. The pretreated sludge showed better utilization of dissolved organic matter and less inhibition of metabolism, especially at thermophilic condition. The 454 sequencing data indicated that microbial abundance was distinctly reduced and extremely high proportion of hydrogen-producing bacteria was found in the thermophilic community (Thermoanaerobacterium accounted for 93.75%). Thus, the pretreated sludge and thermophilic condition showed significant advantages in the hydrogen production using waste sludge as substrate.

  9. Human helminth co-infection: analysis of spatial patterns and risk factors in a Brazilian community.

    Directory of Open Access Journals (Sweden)

    Rachel L Pullan

    Full Text Available BACKGROUND: Individuals living in areas endemic for helminths are commonly infected with multiple species. Despite increasing emphasis given to the potential health impacts of polyparasitism, few studies have investigated the relative importance of household and environmental factors on the risk of helminth co-infection. Here, we present an investigation of exposure-related risk factors as sources of heterogeneity in the distribution of co-infection with Necator americanus and Schistosoma mansoni in a region of southeastern Brazil. METHODOLOGY: Cross-sectional parasitological and socio-economic data from a community-based household survey were combined with remotely sensed environmental data using a geographical information system. Geo-statistical methods were used to explore patterns of mono- and co-infection with N. americanus and S. mansoni in the region. Bayesian hierarchical models were then developed to identify risk factors for mono- and co-infection in relation to community-based survey data to assess their roles in explaining observed heterogeneity in mono and co-infection with these two helminth species. PRINCIPAL FINDINGS: The majority of individuals had N. americanus (71.1% and/or S. mansoni (50.3% infection; 41.0% of individuals were co-infected with both helminths. Prevalence of co-infection with these two species varied substantially across the study area, and there was strong evidence of household clustering. Hierarchical multinomial models demonstrated that relative socio-economic status, household crowding, living in the eastern watershed and high Normalized Difference Vegetation Index (NDVI were significantly associated with N. americanus and S. mansoni co-infection. These risk factors could, however, only account for an estimated 32% of variability between households. CONCLUSIONS: Our results demonstrate that variability in risk of N. americanus and S. mansoni co-infection between households cannot be entirely explained by

  10. Metagenomic analysis of the microbial community associated with the coral Porites astreoides.

    Science.gov (United States)

    Wegley, Linda; Edwards, Robert; Rodriguez-Brito, Beltran; Liu, Hong; Rohwer, Forest

    2007-11-01

    The coral holobiont is a dynamic assemblage of the coral animal, zooxanthellae, endolithic algae and fungi, Bacteria,Archaea and viruses. Zooxanthellae and some Bacteria form relatively stable and species-specific associations with corals. Other associations are less specific; coral-associated Archaea differ from those in the water column, but the same archaeal species may be found on different coral species. It has been hypothesized that the coral animal can adapt to differing ecological niches by 'switching' its microbial associates. In the case of corals and zooxanthellae, this has been termed adaptive bleaching and it has important implications for carbon cycling within the coral holobiont and ultimately the survival of coral reefs. However, the roles of other components of the coral holobiont are essentially unknown. To better understand these other coral associates, a fractionation procedure was used to separate the microbes, mitochondria and viruses from the coral animal cells and zooxanthellae. The resulting metagenomic DNA was sequenced using pyrosequencing. Fungi, Bacteria and phage were the most commonly identified organisms in the metagenome. Three of the four fungal phyla were represented, including a wide diversity of fungal genes involved in carbon and nitrogen metabolism, suggesting that the endolithic community is more important than previously appreciated. In particular, the data suggested that endolithic fungi could be converting nitrate and nitrite to ammonia, which would enable fixed nitrogen to cycle within the coral holobiont. The most prominent bacterial groups were Proteobacteria (68%), Firmicutes (10%), Cyanobacteria (7%) and Actinobacteria (6%). Functionally, the bacterial community was primarily heterotrophic and included a number of pathways for the degradation of aromatic compounds, the most abundant being the homogentisate pathway. The most abundant phage family was the ssDNA Microphage and most of the eukaryotic viruses were most

  11. Time to first antibiotic and mortality in adults hospitalised with community-acquired pneumonia: a matched-propensity analysis.

    Science.gov (United States)

    Daniel, Priya; Rodrigo, Chamira; Mckeever, Tricia M; Woodhead, Mark; Welham, Sally; Lim, Wei Shen

    2016-06-01

    A matched-propensity analysis of national data from the British Thoracic Society community-acquired pneumonia audit was conducted (n=13 725). Overall, time to first antibiotic (TFA) was ≤4 h in 63%. Adjusted 30-day inpatient (IP) mortality was lower for adults with TFA ≤4 h compared with TFA >4 h (adjusted OR 0.84, 95% CI 0.74 to 0.94; p=0.003). Increasing TFA was associated with greater OR of 30-day IP mortality (p value for trend=0.001), but no TFA threshold was evident. Although we found an association between TFA and mortality, we cannot say whether this is causal or whether TFA might just be a quality measure for overall or other processes of care. PMID:26559161

  12. Microbial community analysis in a long-term membrane-less microbial electrolysis cell with hydrogen and methane production.

    Science.gov (United States)

    Rago, Laura; Ruiz, Yolanda; Baeza, Juan A; Guisasola, Albert; Cortés, Pilar

    2015-12-01

    A single-chamber microbial electrolysis cell (MEC) aiming at hydrogen production with acetate as sole carbon source failed due to methanogenesis build-up despite the significant amount of 2-bromoethanesulfonate (BES) dosage, 50 mM. Specific batch experiments and a thorough microbial community analysis, pyrosequencing and qPCR, of cathode, anode and medium were performed to understand these observations. The experimental data rebuts different hypothesis and shows that methanogenesis at high BES concentration was likely due to the capacity of some Archaea (hydrogen-oxidizing genus Methanobrevibacter) to resist high BES concentration up to 200 mM. Methanobrevibacter, of the Methanobacteriales order, represented almost the 98% of the total Archaea in the cathode whereas Geobacter was highly abundant in the anode (72% of bacteria). Moreover, at higher BES concentration (up to 200 mM), methanogenesis activity decreased resulting in an increase of homoacetogenic activity, which challenged the performance of the MEC for H2 production.

  13. 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.

  14. 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.

  15. 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.

  16. ASEAN ECONOMIC COMMUNITY 2015: NEEDS ANALYSIS OF UNIVERSITAS INDONESIA’S ENGINEERING STUDENTS

    Directory of Open Access Journals (Sweden)

    Lavinia DW Araminta

    2015-07-01

    Full Text Available Prior to the ASEAN Economic Community in the end of 2015, one of the keys for Indonesian engineers to outrank engineers from other ASEAN countries is mastering English language skills. This study aims at analyzing the English needs of undergraduate engineering students at Universitas Indonesia. Questionnaires and semi-structured interviews were used as the data collection methods. The questionnaires were spread to 111 alumni and 150 students from the Faculty of Engineering. The interviews were conducted with HRD from a multinational company, HRD from a local company, three heads of departments, and two lecturers from the Faculty of Engineering. The research reveals that students’ needs of English language learning are considered not as high as their needs of English language use. The recommendation given to the Faculty of Engineering is to conduct an optional course on English for Professional Purposes, and the course is to be handled by professional English teachers helped by the lecturers from the Faculty of Engineering.

  17. Microbiological community analysis of vermicompost tea and its influence on the growth of vegetables and cereals.

    Science.gov (United States)

    Fritz, J I; Franke-Whittle, I H; Haindl, S; Insam, H; Braun, R

    2012-07-01

    Vermicompost, the digestion product of organic material by earthworms, has been widely reported to have a more positive effect on plant growth and plant health than conventional compost. A study was conducted to investigate the effects of different vermicompost elutriates (aerated compost teas) on soils and plant growth. The teas were analyzed by chemical, microbiological, and molecular methods accompanied by plant growth tests at laboratory and field scale. The number of microorganisms in the teas increased during the extraction process and was affected by substrate addition. The vermicompost tea found to increase plant growth best under laboratory tests was applied to cereals (wheat and barley) and vegetables (Raphanus sativus, Rucola selvatica, and Pisum sativum) in a field study. The results revealed no effects of tea application on plant yield; however, sensoric tests indicated an improvement in crop quality. The soils from laboratory and field studies were investigated to detect possible microbial or chemical changes. The results indicated that minor changes to the soil microbial community occurred following tea application by foliar spray in both the laboratory-scale and field-scale experiments. PMID:22712623

  18. Metagenomic analysis of soil fungal communities on Ulleungdo and Dokdo Islands.

    Science.gov (United States)

    Nam, Yoon-Jong; Kim, Hyun; Lee, Jin-Hyung; Yoon, Hyeokjun; Kim, Jong-Guk

    2015-01-01

    Ulleungdo and Dokdo are volcanic islands that experience a characteristic marine climate, influenced by warm currents. The richness and diversity of the plant species, particularly vascular plants, are higher on Ulleungdo than on Dokdo. In contrast to the native plant life, little is known about the diversity of soil fungi living in the rhizosphere of these two islands. In this study, we utilized the barcoded pyrosequencing method to analyze rhizosphere soil fungi on Ulleungdo and Dokdo. In total, 768 operational taxonomic units (OTUs) were analyzed from the Ulleungdo samples, while 640 OTUs and 382 OTUs were analyzed from the Dongdo and Seodo (islets of Dokdo) samples, respectively. Species richness was considerably higher in the Ulleungdo samples than in the Dongdo and Seodo samples, while there was little difference in species diversity between the samples. The taxonomic composition analyses demonstrated that members of the phylum Basidiomycota dominated the Ulleungdo samples, whereas members of the phylum Ascomycota were predominant in the Dokdo samples. Ectomycorrhizal fungi belonging to the phylum Basidiomycota, in particular, were more abundant in the Ulleungdo samples. This finding suggests that the difference in the abundance of the ectomycorrhizal fungi in the rhizospheres of Ulleungdo and Dokdo may have been affected by species richness and diversity of the vascular plants. Our study is the first detailed report of the composition of soil fungal communities on the Ulleungdo and Dokdo islands. In addition, our findings provide a basis for understanding the ecological interactions between plants and fungi. PMID:26227909

  19. Microbial Community Analysis of a Methane-Producing Biocathode in a Bioelectrochemical System

    Directory of Open Access Journals (Sweden)

    Mieke C. A. A. Van Eerten-Jansen

    2013-01-01

    Full Text Available A methane-producing biocathode that converts CO2 into methane was studied electrochemically and microbiologically. The biocathode produced methane at a maximum rate of 5.1 L CH4/m2 projected cathode per day (1.6 A/m2 at −0.7 V versus NHE cathode potential and 3.0 L CH4/m2 projected cathode per day (0.9 A/m2 at −0.6 V versus NHE cathode potential. The microbial community at the biocathode was dominated by three phylotypes of Archaea and six phylotypes of bacteria. The Archaeal phylotypes were most closely related to Methanobacterium palustre and Methanobacterium aarhusense. Besides methanogenic Archaea, bacteria seemed to be associated with methane production, producing hydrogen as an intermediate. Biomass density varied greatly with part of the carbon electrode covered with a dense biofilm, while only clusters of cells were found on other parts. Based on our results, we discuss how inoculum enrichment and changing operational conditions may help to increase biomass density and to select for microorganisms that produce methane.

  20. Phylogenetic analysis of a spontaneous cocoa bean fermentation metagenome reveals new insights into its bacterial and fungal community diversity.

    Directory of Open Access Journals (Sweden)

    Koen Illeghems

    Full Text Available 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 γ-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.

  1. Bacterial community analysis in chlorpyrifos enrichment cultures via DGGE and use of bacterial consortium for CP biodegradation.

    Science.gov (United States)

    Akbar, Shamsa; Sultan, Sikander; Kertesz, Michael

    2014-10-01

    The organophosphate pesticide chlorpyrifos (CP) has been used extensively since the 1960s for insect control. However, its toxic effects on mammals and persistence in environment necessitate its removal from contaminated sites, biodegradation studies of CP-degrading microbes are therefore of immense importance. Samples from a Pakistani agricultural soil with an extensive history of CP application were used to prepare enrichment cultures using CP as sole carbon source for bacterial community analysis and isolation of CP metabolizing bacteria. Bacterial community analysis (denaturing gradient gel electrophoresis) revealed that the dominant genera enriched under these conditions were Pseudomonas, Acinetobacter and Stenotrophomonas, along with lower numbers of Sphingomonas, Agrobacterium and Burkholderia. Furthermore, it revealed that members of Bacteroidetes, Firmicutes, α- and γ-Proteobacteria and Actinobacteria were present at initial steps of enrichment whereas β-Proteobacteria appeared in later steps and only Proteobacteria were selected by enrichment culturing. However, when CP-degrading strains were isolated from this enrichment culture, the most active organisms were strains of Acinetobacter calcoaceticus, Pseudomonas mendocina and Pseudomonas aeruginosa. These strains degraded 6-7.4 mg L(-1) day(-1) of CP when cultivated in mineral medium, while the consortium of all four strains degraded 9.2 mg L(-1) day(-1) of CP (100 mg L(-1)). Addition of glucose as an additional C source increased the degradation capacity by 8-14 %. After inoculation of contaminated soil with CP (200 mg kg(-1)) disappearance rates were 3.83-4.30 mg kg(-1) day(-1) for individual strains and 4.76 mg kg(-1) day(-1) for the consortium. These results indicate that these organisms are involved in the degradation of CP in soil and represent valuable candidates for in situ bioremediation of contaminated soils and waters.

  2. Flexible Community Structure Correlates with Stable Community Function in Methanogenic Bioreactor Communities Perturbed by Glucose

    OpenAIRE

    Fernandez, Ana S.; Hashsham, Syed A.; Dollhopf, Sherry L.; Raskin, Lutgarde; Glagoleva, Olga; Dazzo, Frank B.; Hickey, Robert F.; Criddle, Craig S.; Tiedje, James M.

    2000-01-01

    Methanogenic bioreactor communities were used as model ecosystems to evaluate the relationship between functional stability and community structure. Replicated methanogenic bioreactor communities with two different community structures were established. The effect of a substrate loading shock on population dynamics in each microbial community was examined by using morphological analysis, small-subunit (SSU) rRNA oligonucleotide probes, amplified ribosomal DNA (rDNA) restriction analysis (ARDR...

  3. Fusion Energy: Contextual Analysis of the Information Panels Developed by the Scientific Community versus Citizen Discourse

    International Nuclear Information System (INIS)

    The report presents an exploratory study on the impact of scientific dissemination, particularly a comparative analysis of two discourses on fusion energy as an alternative energy future. The report introduces a comparative analysis of the institutional discourse, as portrayed by the scientific jargon used in a European travelling exhibition on nuclear fusion Fusion Expo, and the social discourse, as illustrated by a citizen deliberation on this very same exhibition. Through textual analysis, the scientific discourse as deployed in the informative panels at the Fusion Expo is compared with the citizen discourse as developed in the discussions within the citizen groups. The ConText software was applied for such analysis. The purpose is to analyze how visitors assimilate, capture and understand highly technical information. Results suggest that, in despite of convergence points, the two discourses present certain differences, showing diverse levels of communication. The scientific discourse shows a great profusion of formalisms and technicalities of scientific jargon. The citizen discourse shows abundance of words associated with daily life and the more practical aspects (economy, efficiency), concerning institutional and evaluative references. In sum, the study shows that although there are a few common communicative spaces, there are still very few turning points. These data indicate that although exhibitions can be a good tool to disseminate advances in fusion energy in informal learning contexts, public feedback is a powerful tool for improving the quality of social dialogue. (Author)

  4. Using Social Network Analysis To Map Participation And Non-participation In Health Promotion and Community-building Among Vulnerable Populations

    DEFF Research Database (Denmark)

    Hindhede, Anette Lykke

    and capacities for collective and collaborative problemsolving is seen as key to successful community building (Kretzmann and McKnight, 1993). By using social network analysis and Bourdieu’s definition of capital, this study aimed to identify patterns of participation and non-participation in a community......In empowerment and asset-based approaches to community development, the ability to change local residents’ perception of themselves and their neighbours from that of persons with needs that can only be met with the help of professionals to that of a more self-reliant group with assets......-building project aiming at increasing upward mobility and social capital within the area and increase equity in health. This presentation will outline the tensions and contradictions which accompany policies and interventions that seek to strengthen local communities as a means of promoting health. Emerging...

  5. (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.

  6. (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.

  7. Metagenomic analysis of a permafrost microbial community reveals a rapid response to thaw

    Science.gov (United States)

    MacKelprang, R.; Waldrop, M.P.; Deangelis, K.M.; David, M.M.; Chavarria, K.L.; Blazewicz, S.J.; Rubin, E.M.; Jansson, J.K.

    2011-01-01

    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. ?? 2011 Macmillan Publishers Limited. All rights reserved.

  8. Revising the Community of Inquiry Framework for the Analysis of One-to-One Online Learning Relationships

    Science.gov (United States)

    Stenbom, Stefan; Jansson, Malin; Hulkko, Annelie

    2016-01-01

    In online learning research, the theoretical community of inquiry framework has been used extensively to analyze processes of inquiry among learners and instructors within a community. This paper examines a special case of community of inquiry consisting of only one learner and one instructor. Together they engage in an online coaching discourse…

  9. Climate-induced signatures in the zooplankton communities: a meta-analysis at a European scale.

    OpenAIRE

    Sónia Cotrim Marques; Anda Ikauniece; Catriona Clemmesen; Frederiz Azemar; Ilppo Vuorinen; Myron Peck; Patrick Meire; Ulf Bamstedt; Sami Souissi

    2014-01-01

    Several recent studies have revealed the impacts of the climate variability in the dynamic of zooplankton in different estuarine ecosystems, imposing a need for more and continued global studies. Presently, there is a growing appreciation in international collaborations to compare and contrast estuarine ecosystem response to climate variability across geographical gradients, including long-term changes in zooplankton. We performed a meta-analysis comprising field data from 7 location (Mondego...

  10. The prevalence of child sexual abuse in community and student samples: A meta-analysis

    OpenAIRE

    Pereda Beltran, Noemí; Guilera Ferré, Georgina; Forns, Maria; Gómez 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...

  11. 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

  12. 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

  13. Oligonucleotide Fingerprinting of rRNA Genes for Analysis of Fungal Community Composition

    OpenAIRE

    Valinsky, Lea; Della Vedova, Gianluca; Jiang, Tao; Borneman, James

    2002-01-01

    Thorough assessments of fungal diversity are currently hindered by technological limitations. Here we describe a new method for identifying fungi, oligonucleotide fingerprinting of rRNA genes (OFRG). ORFG sorts arrayed rRNA gene (ribosomal DNA [rDNA]) clones into taxonomic clusters through a series of hybridization experiments, each using a single oligonucleotide probe. A simulated annealing algorithm was used to design an OFRG probe set for fungal rDNA. Analysis of 1,536 fungal rDNA clones d...

  14. Enhanced analysis of the community structure of a subsurface radioactive thermal spring in the Austrian Central Alps

    International Nuclear Information System (INIS)

    Full text: A molecular analysis of the community structure of the radioactive subsurface thermal spring 'Franz-Josef Quelle' (FJQ) in the Austrian Central Alps was performed. Besides the high microbial diversity, ammonia oxidizing Crenarchaeota and several bacterial species, which were involved in the nitrogen cycle, were also detected. Additionally several sequences were obtained that were related to sequences from locations, which were e.g. contaminated with radioactivity, suggesting the probable presence of organisms that can interact with the Ra, Rn or U in the spring. Furthermore, biofilms were recognized, which had some similarities to the ones described by Holmes and coworkers in the Nullarbor caves. Holmes suggested that a large part (about 12 %) of the microorganisms inhabiting these mats were related to a Nitrospira sp. Besides the mats, which were present in the spring FJQ, sequences of Nitrospira and related species were found. Nitrifiers are known to build biofilms under suboptimal growth conditions, e.g. the water temperature in the spring is 45oC, but the optimum growth temperature of nitrifiers lies between 25 to 30oC. Preliminary DGGE fingerprinting results of the spring showed the dominance of Nitrospira related organisms in biofilms and on glass slides which were placed into the spring for several days. Therefore an extended examination of these natural and artificial biofilms is in progress by addition of DGGE analysis and culturing approaches. (author)

  15. Determinants of the lethality of climate-related disasters in the Caribbean Community (CARICOM): a cross-country analysis

    Science.gov (United States)

    Andrewin, Aisha N.; Rodriguez-Llanes, Jose M.; Guha-Sapir, Debarati

    2015-07-01

    Floods and storms are climate-related hazards posing high mortality risk to Caribbean Community (CARICOM) nations. However risk factors for their lethality remain untested. We conducted an ecological study investigating risk factors for flood and storm lethality in CARICOM nations for the period 1980-2012. Lethality - deaths versus no deaths per disaster event- was the outcome. We examined biophysical and social vulnerability proxies and a decadal effect as predictors. We developed our regression model via multivariate analysis using a generalized logistic regression model with quasi-binomial distribution; removal of multi-collinear variables and backward elimination. Robustness was checked through subset analysis. We found significant positive associations between lethality, percentage of total land dedicated to agriculture (odds ratio [OR] 1.032; 95% CI: 1.013-1.053) and percentage urban population (OR 1.029, 95% CI 1.003-1.057). Deaths were more likely in the 2000-2012 period versus 1980-1989 (OR 3.708, 95% CI 1.615-8.737). Robustness checks revealed similar coefficients and directions of association. Population health in CARICOM nations is being increasingly impacted by climate-related disasters connected to increasing urbanization and land use patterns. Our findings support the evidence base for setting sustainable development goals (SDG).

  16. 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.

  17. Characteristics of Phytoplankton Community Structure During and After a Bloom of the Dinoflagellate Scrippsiella trochoidea by HPLC Pigment Analysis

    Institute of Scientific and Technical Information of China (English)

    WONG Chun-kwan; WONG Chong-kim

    2009-01-01

    A bloom of the dinoflagellate Scrippsiella trochoidea was detected for the first time in inner Tolo Harbor, Hong Kong in 2000. Water samples were collected at eight stations along a transect passing through a red tide patch for microscopic analysis of phytoplankton composition and high-performance liquid chromatography (HPLC) analysis of phytoplankton pigments. During the bloom, the density of dinoflagellates was 1.1×106 cells L-1 within the patch and 8.6×105 cells L-1 outside the patch where the phyto-plankton community was dominated by diatoms. After the bloom the S. trochoidea began to decrease in density and was replaced by diatoms as the dominating bloom-causing organisms at all stations, and the density of dinoflagellates at most stations was less than 1.0×106 cells L-1. The status of S. trochoidea as the causative species of the bloom was indicated by the presence of peridinin, the marker pigment for dinoflagellates. The shift from dinoflagellates to diatoms was marked by the decline of peridinin and the preva-lence of fucoxanthin. Phytoplankton pigment markers also revealed the presence of other minor phytoplankton assemblages such as cryptomonads and blue-green algal.

  18. Determinants of the lethality of climate-related disasters in the Caribbean Community (CARICOM): a cross-country analysis.

    Science.gov (United States)

    Andrewin, Aisha N; Rodriguez-Llanes, Jose M; Guha-Sapir, Debarati

    2015-07-08

    Floods and storms are climate-related hazards posing high mortality risk to Caribbean Community (CARICOM) nations. However risk factors for their lethality remain untested. We conducted an ecological study investigating risk factors for flood and storm lethality in CARICOM nations for the period 1980-2012. Lethality--deaths versus no deaths per disaster event- was the outcome. We examined biophysical and social vulnerability proxies and a decadal effect as predictors. We developed our regression model via multivariate analysis using a generalized logistic regression model with quasi-binomial distribution; removal of multi-collinear variables and backward elimination. Robustness was checked through subset analysis. We found significant positive associations between lethality, percentage of total land dedicated to agriculture (odds ratio [OR] 1.032; 95% CI: 1.013-1.053) and percentage urban population (OR 1.029, 95% CI 1.003-1.057). Deaths were more likely in the 2000-2012 period versus 1980-1989 (OR 3.708, 95% CI 1.615-8.737). Robustness checks revealed similar coefficients and directions of association. Population health in CARICOM nations is being increasingly impacted by climate-related disasters connected to increasing urbanization and land use patterns. Our findings support the evidence base for setting sustainable development goals (SDG).

  19. Culture-independent bacterial community analysis of the salty-fermented fish paste products of Thailand and Laos.

    Science.gov (United States)

    Marui, Junichiro; Boulom, Sayvisene; Panthavee, Wanchai; Momma, Mari; Kusumoto, Ken-Ichi; Nakahara, Kazuhiko; Saito, Masayoshi

    2015-01-01

    A bacterial community analysis, using a culture-independent method (polymerase chain reaction-denaturing gradient gel electrophoresis), detected 17 species of bacteria including species of the genera Tetragenococcus, Lactobacillus, Pediococcus, Weissella Halanaerobium, Clostridium, and Sphingomonas in a traditional salty-fermented fish paste known as pla-ra or pa-daek in Thailand and Laos, which is used as a storage-stable multi-purpose seasoning. The representative genus of lactic acid bacteria seemed to vary in the 10 products collected from Thailand and Laos. Tetragenococci were common in products from central Thailand and Vientiane in Laos which had salinities of not less than 11% and pH values ranging from 5.6 to 6.1. However, lactobacilli were common in products from northern Thailand which had the lowest salinities (8.3-8.6%) and pH values (4.5-4.8) of all the samples examined. Two Lactobacillus and one Tetragenococcus species were detected in one product from northeastern Thailand containing 10% salt. These results suggest that salinity in pla-ra/pa-daek is an important determinant of the representative genus of lactic acid bacteria such as, Tetragenococcus or Lactobacillus. Additionally, differences in the acidity between these two groups seemed to be related to the production of d-/l-lactic acid in the lactic acid bacteria in each product. This is the first study to report a correlation between bacterial community structure and taste components in pla-ra/pa-daek products from various regions. This scientific work on a traditional fermented food will be useful in helping local producers meet differing consumer preferences in various regions. PMID:25918672

  20. Metagenome sequence analysis of filamentous microbial communities obtained from geochemically distinct geothermal channels reveals specialization of three aquificales lineages.

    Science.gov (United States)

    Takacs-Vesbach, Cristina; Inskeep, William P; Jay, Zackary J; Herrgard, Markus J; Rusch, Douglas B; Tringe, Susannah G; Kozubal, Mark A; Hamamura, Natsuko; Macur, Richard E; Fouke, Bruce W; Reysenbach, Anna-Louise; McDermott, Timothy R; Jennings, Ryan deM; Hengartner, Nicolas W; Xie, Gary

    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 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.