Novel Analysis of Oceanic Surface Water Metagenomes Suggests Importance of Polyphosphate Metabolism in Oligotrophic Environments

Polyphosphate is a ubiquitous linear homopolymer of phosphate residues linked by high-energy bonds similar to those found in ATP. It has been associated with many processes including pathogenicity, DNA uptake and multiple stress responses across all domains. Bacteria have also been shown to use polyphosphate as a way to store phosphate when transferred from phosphate-limited to phosphate-rich media - a process exploited in wastewater treatment and other environmental contaminant remediation. Despite this, there has, to date, been little research into the role of polyphosphate in the survival of marine bacterioplankton in oligotrophic environments. The three main proteins involved in polyphosphate metabolism, Ppk1, Ppk2 and Ppx are multi-domain and have differential inter-domain and inter-gene conservation, making unbiased analysis of relative abundance in metagenomic datasets difficult. This paper describes the development of a novel Isofunctional Homolog Annotation Tool (IHAT) to detect homologs of genes with a broad range of conservation without bias of traditional expect-value cutoffs. IHAT analysis of the Global Ocean Sampling (GOS) dataset revealed that genes associated with polyphosphate metabolism are more abundant in environments where available phosphate is limited, suggesting an important role for polyphosphate metabolism in marine oligotrophs.

Analysing partial ranks by using smoothed paired comparison methods:An investigation of value orientation in Europe

This paper introduces the paired comparison model as a suitable approach for the analysis of partially ranked data. For example, the Inglehart index, collected in international social surveys to examine shifts in post-materialistic values, generates such data on a set of attitude items. However, current analysis methods have failed to account for the complex shifts in individual item values, or to incorporate subject covariates. The paired comparison model is thus developed to allow for covariate subject effects at the individual level, and a reparameterization allows the inclusion of smooth non-linear effects of continuous covariates. The Inglehart index collected in the 1993 International Social Science Programme survey is analysed, and complex non-linear changes of item values with age, level of education and religion are identified. The model proposed provides a powerful tool for social scientists.

The statistical significance of randomized controlled trial results is frequently fragile: A case for a Fragility Index

Objectives

A P-value <0.05 is one metric used to evaluate the results of a randomized controlled trial (RCT). We wondered how often statistically significant results in RCTs may be lost with small changes in the numbers of outcomes.

Study Design and Setting

A review of RCTs in high-impact medical journals that reported a statistically significant result for at least one dichotomous or time-to-event outcome in the abstract. In the group with the smallest number of events, we changed the status of patients without an event to an event until the P-value exceeded 0.05. We labeled this number the Fragility Index; smaller numbers indicated a more fragile result.

Results

The 399 eligible trials had a median sample size of 682 patients (range: 15-112,604) and a median of 112 events (range: 8-5,142); 53% reported a P-value <0.01. The median Fragility Index was 8 (range: 0-109); 25% had a Fragility Index of 3 or less. In 53% of trials, the Fragility Index was less than the number of patients lost to follow-up.

Conclusion

The statistically significant results of many RCTs hinge on small numbers of events. The Fragility Index complements the P-value and helps identify less robust results. 

The reliability of R50 as a measure of vulnerability of food webs to sequential species deletions

Recent studies predict elevated and accelerating rates of species extinctions over the 21st century, due to climate change and habitat loss. Considering that such primary species loss may initiate cascades of secondary extinctions and push systems towards critical tipping points, we urgently need to increase our understanding of if certain sequences of species extinctions can be expected to be more devastating than others Most theoretical studies addressing this question have used a topological (non-dynamical) approach to analyse the probability that food webs will collapse, below a fixed threshold value in species richness, when subjected to different sequences of species loss. Typically, these studies have neither considered the possibility of dynamical responses of species, nor that conclusions may depend on the value of the collapse threshold. Here we analyse how sensitive conclusions on the importance of different species are to the threshold value of food web collapse. Using dynamical simulations, where we expose model food webs to a range of extinction sequences, we evaluate the reliability of the most frequently used index, R<inf>50</inf>, as a measure of food web robustness. In general, we find that R<inf>50</inf> is a reliable measure and that identification of destructive deletion sequences is fairly robust, within a moderate range of collapse thresholds. At the same time, however, focusing on R<inf>50</inf> only hides a lot of interesting information on the disassembly process and can, in some cases, lead to incorrect conclusions on the relative importance of species in food webs.

Seasonal variations in gross biochemical composition, percent edibility, and condition index of the clam Ruditapes Decussatus cultivated in the Ria Formosa (South Portugal)

The grooved carpet shell clam, Ruditapes decussatus (L. 1758), is one of the most popular and profitable molluscs exploited in rearing plots in the Mediterranean. However, annual catch has been declining steadily since the early nineties. In order to understand the seasonality of its nutritional value, thus providing an improved basis for economical valuation of the resource, gross biochemical composition, percentage edibility and condition index were investigated during a year with monthly periodicity in a commercially exploited population of the clam Ruditapes decussatus in the Ria Formosa, a temperate mesotidal coastal lagoon located in the south of Portugal. Our results show that total and non-protein nitrogen co-varied during the year, resulting in a protein content that peaked in the warmest months. Although complementary in summer, carbohydrate and lipid contents showed irregular annual trends. The observed seasonality was comparable to that shown by studies elsewhere at similar latitudes, and are underpinned by the reproductive cycle of the species. Our results show the clams to be at their prime nutritional value at the beginning of summer, when protein content peaks.

Walter Heissig, Rüdiger, Schott, Die Heutige Bedeutung Oraler traditionen. IHRE Archivierung, Publikation und index-Erschießung

The book under review is the publication of 28 contributions to a workshop which has tak en place in St. Augustin, near Bonn, in November 1995. This was attended by a large number of proeminent scholars, gathered around the commonly felt concern for the need to preserve “the oral traditions of all kinds” (p. 26). The papers, written in German (11), in English (16) and in French (1), are introduced by the organisers Walter Hessig and Rüdiger Schott in both German and English.

Korruption und Gewissenhaftigkeit

Die nachfolgend berichteten Ergebnisse basieren auf einem vignettenbasierten 2x2-Szenario-Experiment, in das die Situationsfaktoren Entdeckungswahrscheinlichkeit und Vorteilswert sowie die Personenfaktoren Organisationaler Zynismus, das Fünf-Faktoren-Modell der Persönlichkeit und Intelligenz einbezogen wurden. In diesem Bericht werden vorrangig die Ergebnisse zur Persönlichkeitsdimension Gewissenhaftigkeit vorgestellt, einem der Faktoren des Fünf-Faktoren-Modells der Persönlichkeit. Diese Ergebnisse werden ausführlich berichtet, weil sie von besonderer Bedeutung für das vom TÜV Hannover/Sachsen-Anhalt e.V. finanzierte Forschungsprojekt Korruption – Risikofaktoren der Person und der Situation (Laufzeit 2011 bis 2015) sind. Die nachfolgend berichtete Untersuchung zeigt, dass ein akteurszentrierter Ansatz in der Korruptionsursachenforschung grundsätzlich sinnvoll ist. Es wurden 113 Auszubildende in den Bereichen Banken- und Versicherungen sowie Sozialversicherung befragt. Die Ergebnisse zeigen, dass Korruption als verbreitete Verhaltensweise angesehen wird, die jedoch als verwerflich gilt. Während die einbezogenen Situationsfaktoren keine nennenswerten Effekte auf die Korruptionsbereitschaft hatten, führten einige der Personenfaktoren zu signifikanten Ergebnissen. Gewissenhaftigkeit kommt hierbei als Schutzfaktor vor korrupten Handlungen besondere Bedeutung zu.

Theorising and analysing digital labour: from global value chains to modes of production

This paper considers the following question—where do computers, laptops and mobile phones come from and who produced them? Specific cases of digital labour are examined—the extraction of minerals in African mines under slave-like conditions; ICT manufacturing and assemblage in China (Foxconn); software engineering in India; call centre service work; software engineering at Google within Silicon Valley; and the digital labour of internet prosumers/users. Empirical data and empirical studies concerning these cases are systematically analysed and theoretically interpreted. The theoretical interpretations are grounded in Marxist political economy. The term ‘global value chain’ is criticised in favour of a complex and multidimensional understanding of Marx’s ‘mode of production’ for the purposes of conceptualizing digital labour. This kind of labour is transnational and involves various modes of production, relations of production and organisational forms (in the context of the productive forces). There is a complex global division of digital labour that connects and articulates various forms of productive forces, exploitation, modes of production, and variations within the dominant capitalist mode of production.

Introduction to the Special Section Value Development from Middle Childhood to Early Adulthood: New Insights from Longitudinal and Genetically Informed Research

Research into values at an early age has only started recently, although it has expanded quickly and dynamically in the past years. The purpose of this article is twofold: First, it provides an introduction to a special section that aims to help fill the gap in value development research. The special section brings together four new longitudinal and genetically informed studies of value development from the beginning of middle childhood through early adulthood. Second, this article reviews recent research from this special section and beyond, aiming to provide new directions to the field. With new methods for assessing children's values and an increased awareness of the role of values in children's and adolescents' development, the field now seems ripe for an in-depth investigation. Our review of empirical evidence shows that, as is the case with adults, children's values are organized based on compatibilities and conflicts in their underlying motivations. Values show some consistency across situations, as well as stability across time. This longitudinal stability tends to increase with age, although mean changes are also observed. These patterns of change seem to be compatible with Schwartz's (1992) theory of values (e.g., if the importance of openness to change values increases, the importance of conservation values decreases). The contributions of culture, family, peers, significant life events, and individual characteristics to values are discussed, as well as the development of values as guides for behavior.

The importance of qualitative methodology in management empirical research

Purpose: The aim of this paper is to highlight the importance of qualitative research within the scope of management scientific studies, referring to its philosophy, nature and instruments. It also confronts it with quantitative methodology, approaching its differences as well as its complementariness and synergies, with the purpose of explaining, from a more analytic point of view, the relevance of qualitative methodology in the course of an authentic and real research despite its complexity. Design/methodology/approach: Regardless of its broad application, one may attest the scarcity literature that focuses on qualitative research applied to the management scientific area, as opposed to the large amount that refers to quantitative research. Findings: The paper shows the influence that qualitative research has on management scientific research. Originality/value:. Qualitative research assumes an important role within qualitative research by allowing for the study and analysis of certain types of phenomena that occur inside organisations, and in respect of which quantitative studies cannot provide an answer.

Geotecnia dos túneis do maciço de Paranhos: avaliação hidrogeomecânica exploratória

As classificações geomecânicas são uma das abordagens mais reconhecidas para estimar a qualidade do maciço rochoso, face à sua simplicidade e competência para gerir incertezas. As incertezas geológicas e geotécnicas podem ser avaliadas de forma eficaz usando classificações adequadas. Este estudo pretende enfatizar a importância das classificações geomecânicas e índices geomecânicos, tais como a Rock Mass Rating (RMR), a Rock Tunnelling Quality Index (Qsystem), o Geological Strength Index (GSI) e o Hydro‐Potential (HP) Value, para ajuizar a qualidade do maciço rochoso granítico das galerias subterrâneas de Paranhos (setor de Carvalhido ‐ Burgães; área urbana do Porto). Em particular, o valor hidro‐potencial (HP‐value) é uma classificação semi‐quantitativa aplicada a maciços rochosos que permite estimar as infiltrações de água subterrânea em escavações de terrenos rochosos. Para esta avaliação foi compilada e integrada uma extensa base de dados geológico‐geotécnica e geomecânica, apoiada na técnica de amostragem linear de superfícies expostas descontinuidades. Para refinar o zonamento geotécnico do maciço rochoso granítico, previamente realizado em 2010, foram coletadas amostras de rocha em pontos‐chave, com o objetivo de avaliar a sua resistência através do Ensaio de Carga Pontual (PLT). A aplicação das classificações geomecânicas foi realizada de uma forma equilibrada, estabelecendo diferentes cenários e tendo sempre em conta o conhecimento das características do maciço in situ. Apresenta‐se uma proposta de zonamento hidrogeomecânico com o objetivo de compreender melhor a circulação geo‐hidráulica do maciço rochoso granítico. Pretende‐se com esta metodologia contribuir para aprofundar o conhecimento do substrato rochoso do Porto, nomeadamente no que diz respeito ao seu comportamento geomecânico.

A responsabilidade pela gestão dos riscos de negócio

Dissertação de Mestrado Apresentada ao Instituto de Contabilidade e Administração do Porto para a obtenção do grau de Mestre em Auditoria, sob orientação do Dr. Carlos Mendes

Classificações geomecânicas mineiras para o dimensionamento de maciços rochosos: o aplicativo MGC-RocDesign|Calc

Este trabalho tem como objetivo destacar a importância da utilização de software de geoengenharia no estudo das classificações de maciços rochosos nas engenharias de minas e geotécnica. Esta investigação pretendeu demonstrar a importância das classificações geomecânicas e índices geológico‐geomecânicos, tais como a Rock Mass Rating (RMR), Rock Tunnelling Quality Index (Q‐system), Surface Rock Classification (SRC), Rock Quality Designation (RQD), Geological Strength Index (GSI) and Hydro‐Potential Value (HP). Para esse efeito foi criada e desenvolvida uma calculadora geomecânica – MGC‐RocDesign|CALC: ‘Mining Geomechanics Classification systems for rock engineering design (version beta)’ – para de certa forma tornar mais simples, rápido e preciso o estudo das classificações geomecânicas sem que seja necessário recorrer manualmente às fastidiosas tabelas das classificações. A MGC‐RocDesign|CALC foi criada e desenvolvida no programa de folha de cálculo Microsoft Excel™ em linguagem Visual Basic for Applications© proporcionando o ambiente de carregamento de dados mais apelativos para o utilizador. Foi ainda integrada neste aplicativo a Calculadora Geotech|CalcTools que resulta da fusão das bases de dados ScanGeoData|BGD e SchmidtData|UCS criadas por Fonseca et al. (2010). Toda a informação foi integrada numa base de dados dinâmica associada a uma plataforma cartográfica em Sistemas de Informação Geográfica. Apresenta‐se como caso de estudo um dos trechos subterrâneos do maciço rochoso da antiga mina de volfrâmio das Aveleiras/Tibães (Mosteiro de Tibães, Braga, NW de Portugal). Além disso, apresenta‐se uma proposta de zonamento geomecânico do maciço rochoso da antiga mina das Aveleiras/Tibães com o objetivo de apoiar o dimensionamento de maciços rochosos. Por fim, apresenta‐se uma reflexão em termos de aplicabilidade, das potencialidades e das limitações da Calculadora Geomecânica MGC‐RocDesign|CALC.

Proposta de modelo para obtenção do Work Index das rochas

Este trabalho pretende estabelecer uma relação entre o Work Index e algumas propriedades das rochas. Através da pesquisa bibliográfica foram identificadas varias propriedades com possível influência no valor do Work Index, das quais foram seleccionadas a massa volúmica aparente, a resistência à carga pontual, a composição química, a composição mineralógica e a abrasividade. Adicionalmente a porosidade aberta e resistência à compressão também foram analisadas. Assim foram analisadas 10 amostras de rocha, quatro de granitos, uma de quartzodiorito, uma de ardósia, uma de serpentinito, uma de calcário, uma de mármore e uma de sienito nefelínico, sobre as quais já eram conhecidos os valores de cinco das propriedades referidas previamente, tendo sido determinados os valores das ainda desconhecidas, resistência à carga pontual e a abrasividade que está representada através do resultado do ensaio capon. Devido à dificuldade de execução do ensaio de determinação do Work Index de Bond foram recolhidos dados bibliográficos de valores do Work Index para as amostras de rocha seleccionadas e adoptado o valor médio para cada uma. Os dados obtidos foram tratados estatisticamente através do método de análise de componentes principais assim como através de regressões lineares simples e múltiplas. A análise de componentes principais permitiu identificar várias propriedades da rocha com possível influência sobre o Work Index de entre as analisadas. Foi possível estabelecer uma relação entre o Work Index e quatro das propriedades seleccionadas, designadamente a porosidade aberta, a resistência à compressão, a resistência à carga pontual e a abrasividade.

A technology diffusion perspective of Enterprise Resource Planning across European Small and Medium Enterprises: from determinants to Use to Value

Tese apresentada como requisito parcial para obtenção do grau de Doutor em Gestão de Informação