scholarly journals Homoploid hybridization signals due to ancestral subdivision: a case study on the D lineage in wheat

2019 ◽  
Author(s):  
Yunfeng Jiang ◽  
Zhongwei Yuan ◽  
Haiyan Hu ◽  
Xueling Ye ◽  
Zhi Zheng ◽  
...  
Keyword(s):  
Hybrid Speciation ◽  
Genome Sequences ◽  
False Detection ◽  
Statistical Framework ◽  
Homoploid Hybridization ◽  
Wide Range ◽  
Evolutionary Studies ◽  
Homoploid Hybrid

AbstractHomoploid hybrid speciation has been reported in a wide range of species since the exploitation of genome sequences in evolutionary studies. However, the interference of ancestral subdivision has not been adequately considered in many such investigations. Using the D lineage in wheat as an example, we showed clearly that ancestral subdivision has led to false detection of homoploid hybridization signals. We develop a novel statistical framework by examining the changes in shared ancestral variations and infer on the likelihood of speciation due to genuine homoploid hybridization or ancestral subdivisions. Applying this to wheat data, we found that homoploid hybridization was not involved in the origin of the D lineage contrary to the now widely held belief. This example indicates that the significance of homoploid hybrid speciation is likely exaggerated. The underlying methodology developed in this study should be valuable for clarifying whether homoploid hybridization has contributed to the speciation of many other species.

scholarly journals A note on analysis of extreme minimum temperatures with the GAMLSS framework

2019 ◽  
Vol 67 (6) ◽  
pp. 1599-1604 ◽  
Author(s):  
Jesper Rydén
Keyword(s):  
Information Criteria ◽  
Additive Models ◽  
Large Set ◽  
Model Choice ◽  
Extreme Value Distributions ◽  
Statistical Framework ◽  
Return Levels ◽  
The Earth ◽  
Wide Range

Abstract Estimation of return levels, based on extreme value distributions, is of importance in the earth and environmental sciences. To incorporate non-stationarity in the modelling, the statistical framework of generalised additive models for location, scale and shape is an option, providing flexibility and with a wide range of distributions implemented. With a large set of selections possible, model choice is an issue. As a case study, we investigate annual minimum temperatures from measurements at a location in northern Sweden. For practical work, it turns out that care must be taken in examining the obtained distributions, not solely relying on information criteria. A simulation study illustrates the findings.

scholarly journals Visualization of Genome Signatures of Eukaryote Genomes by Batch-Learning Self-Organizing Map with a Special Emphasis onDrosophilaGenomes

2014 ◽  
Vol 2014 ◽  
pp. 1-8 ◽  
Author(s):  
Takashi Abe ◽  
Yuta Hamano ◽  
Toshimichi Ikemura
Keyword(s):  
Detailed Examination ◽  
Self Organizing Map ◽  
Genome Sequences ◽  
Alignment Free ◽  
Wide Range ◽  
Evolutionary Studies ◽  
High Throughput Dna Sequencing ◽  
Species Specific ◽  
Sequence Characteristics ◽  
Remarkable Progress

A strategy of evolutionary studies that can compare vast numbers of genome sequences is becoming increasingly important with the remarkable progress of high-throughput DNA sequencing methods. We previously established a sequence alignment-free clustering method “BLSOM” for di-, tri-, and tetranucleotide compositions in genome sequences, which can characterize sequence characteristics (genome signatures) of a wide range of species. In the present study, we generated BLSOMs for tetra- and pentanucleotide compositions in approximately one million sequence fragments derived from 101 eukaryotes, for which almost complete genome sequences were available. BLSOM recognized phylotype-specific characteristics (e.g., key combinations of oligonucleotide frequencies) in the genome sequences, permitting phylotype-specific clustering of the sequences without any information regarding the species. In our detailed examination of 12Drosophilaspecies, the correlation between their phylogenetic classification and the classification on the BLSOMs was observed to visualize oligonucleotides diagnostic for species-specific clustering.

Site specific agricultural soil management with the use of new technologies

2013 ◽  
Vol 16 (1) ◽  
pp. 59-67
Keyword(s):  
New Technologies ◽  
Digital Interface ◽  
Appropriate Treatment ◽  
Wide Range ◽  
Soil Variation ◽  
Soil Information ◽  
Remote Sensing Techniques ◽  
Agricultural Areas

<p>The Soil Science Institute of Thessaloniki produces new digitized Soil Maps that provide a useful electronic database for the spatial representation of the soil variation within a region, based on in situ soil sampling, laboratory analyses, GIS techniques and plant nutrition mathematical models, coupled with the local land cadastre. The novelty of these studies is that local agronomists have immediate access to a wide range of soil information by clicking on a field parcel shown in this digital interface and, therefore, can suggest an appropriate treatment (e.g. liming, manure incorporation, desalination, application of proper type and quantity of fertilizer) depending on the field conditions and cultivated crops. A specific case study is presented in the current work with regards to the construction of the digitized Soil Map of the regional unit of Kastoria. The potential of this map can easily be realized by the fact that the mapping of the physicochemical properties of the soils in this region provided delineation zones for differential fertilization management. An experiment was also conducted using remote sensing techniques for the enhancement of the fertilization advisory software database, which is a component of the digitized map, and the optimization of nitrogen management in agricultural areas.</p>

Oxford Studies in Ancient Philosophy, Volume 55

2018 ◽  
Keyword(s):  
Middle Ages ◽  
Ancient Philosophy ◽  
Recent Book ◽  
Loss Of Control ◽  
Ancient Greek ◽  
Original Essays ◽  
Constant Change ◽  
Wide Range ◽  
Metaphysical Principle

Oxford Studies in Ancient Philosophy provides, twice each year, a collection of the best current work in the field of ancient philosophy. Each volume features original essays that contribute to an understanding of a wide range of themes and problems in all periods of ancient Greek and Roman philosophy, from the beginnings to the threshold of the Middle Ages. From its first volume in 1983, OSAP has been a highly influential venue for work in the field, and has often featured essays of substantial length as well as critical essays on books of distinctive importance. Volume LV contains: a methodological examination on how the evidence for Presocratic thought is shaped through its reception by later thinkers, using discussions of a world soul as a case study; an article on Plato’s conception of flux and the way in which sensible particulars maintain a kind of continuity while undergoing constant change; a discussion of J. L. Austin’s unpublished lecture notes on Aristotle’s Nicomachean Ethics and his treatment of loss of control (akrasia); an article on the Stoics’ theory of time and in particular Chrysippus’ conception of the present and of events; and two articles on Plotinus, one that identifies a distinct argument to show that there is a single, ultimate metaphysical principle; and a review essay discussing E. K. Emilsson’s recent book, Plotinus.

scholarly journals Assessing the Relation between Mud Components and Rheology for Loss Circulation Prevention Using Polymeric Gels: A Machine Learning Approach

Energies ◽  
2021 ◽  
Vol 14 (5) ◽  
pp. 1377
Author(s):  
Musaab I. Magzoub ◽  
Raj Kiran ◽  
Saeed Salehi ◽  
Ibnelwaleed A. Hussein ◽  
Mustafa S. Nasser
Keyword(s):  
Machine Learning ◽  
Rheological Properties ◽  
Nearest Neighbor ◽  
Drilling Fluid ◽  
Gradient Boosting ◽  
K Nearest Neighbor ◽  
Wide Range ◽  
Machine Learning Approach ◽  
Drilling Operations

The traditional way to mitigate loss circulation in drilling operations is to use preventative and curative materials. However, it is difficult to quantify the amount of materials from every possible combination to produce customized rheological properties. In this study, machine learning (ML) is used to develop a framework to identify material composition for loss circulation applications based on the desired rheological characteristics. The relation between the rheological properties and the mud components for polyacrylamide/polyethyleneimine (PAM/PEI)-based mud is assessed experimentally. Four different ML algorithms were implemented to model the rheological data for various mud components at different concentrations and testing conditions. These four algorithms include (a) k-Nearest Neighbor, (b) Random Forest, (c) Gradient Boosting, and (d) AdaBoosting. The Gradient Boosting model showed the highest accuracy (91 and 74% for plastic and apparent viscosity, respectively), which can be further used for hydraulic calculations. Overall, the experimental study presented in this paper, together with the proposed ML-based framework, adds valuable information to the design of PAM/PEI-based mud. The ML models allowed a wide range of rheology assessments for various drilling fluid formulations with a mean accuracy of up to 91%. The case study has shown that with the appropriate combination of materials, reasonable rheological properties could be achieved to prevent loss circulation by managing the equivalent circulating density (ECD).

scholarly journals Using citizen science data to monitor the Sustainable Development Goals: a bottom-up analysis

2021 ◽  
Author(s):  
Laura Ballerini ◽  
Sylvia I. Bergh
Keyword(s):  
Sustainable Development ◽  
Citizen Science ◽  
Sustainable Development Goals ◽  
Comparative Case Study ◽  
Science Data ◽  
The Sustainable Development ◽  
Case Study Analysis ◽  
Wide Range ◽  
Development Goals

AbstractOfficial data are not sufficient for monitoring the United Nations Sustainable Development Goals (SDGs): they do not reach remote locations or marginalized populations and can be manipulated by governments. Citizen science data (CSD), defined as data that citizens voluntarily gather by employing a wide range of technologies and methodologies, could help to tackle these problems and ultimately improve SDG monitoring. However, the link between CSD and the SDGs is still understudied. This article aims to develop an empirical understanding of the CSD-SDG link by focusing on the perspective of projects which employ CSD. Specifically, the article presents primary and secondary qualitative data collected on 30 of these projects and an explorative comparative case study analysis. It finds that projects which use CSD recognize that the SDGs can provide a valuable framework and legitimacy, as well as attract funding, visibility, and partnerships. But, at the same time, the article reveals that these projects also encounter several barriers with respect to the SDGs: a widespread lack of knowledge of the goals, combined with frustration and political resistance towards the UN, may deter these projects from contributing their data to the SDG monitoring apparatus.

scholarly journals Evaluating the efficacy of technical measures: a case study of selection device legislation in the UK Crangon crangon (brown shrimp) fishery

2008 ◽  
Vol 65 (2) ◽  
pp. 267-275 ◽  
Author(s):  
Tom L. Catchpole ◽  
Andrew S. Revill ◽  
James Innes ◽  
Sean Pascoe
Keyword(s):  
Brown Shrimp ◽  
Crangon Crangon ◽  
Shrimp Fishery ◽  
The North ◽  
Ex Post ◽  
Wide Range ◽  
The Uk ◽  
The Impact ◽  
Technical Measures

Abstract Catchpole, T. L., Revill, A. S., Innes, J., and Pascoe, S. 2008. Evaluating the efficacy of technical measures: a case study of selection device legislation in the UK Crangon crangon (brown shrimp) fishery. – ICES Journal of Marine Science, 65: 267–275. Bycatch reduction devices are being introduced into a wide range of fisheries, with shrimp and prawn fisheries particularly targeted owing to the heavy discarding common in these fisheries. Although studies are often undertaken to estimate the impact of a technical measure on the fishery before implementation, rarely have the impacts been assessed ex post. Here, the efficacy of the UK legislation pertaining to the use of sievenets in the North Sea Crangon crangon fishery is assessed. Three impacts were evaluated: on fisher behaviour (social), on the level of bycatch (biological), and on vessel profitability (economic). An apparent high level of compliance by skippers was identified despite a low level of enforcement. The estimated reduction in fleet productivity following the introduction of the legislation was 14%, equalling the mean loss of Crangon landings when using sievenets calculated from catch comparison trawls. Sievenets did reduce the unnecessary capture of unwanted marine organisms, but were least effective at reducing 0-group plaice, which make up the largest component of the bycatch. Clearly the legislation has had an effect in the desired direction, but it does not address sufficiently the bycatch issue in the Crangon fishery.

scholarly journals Developmental perspectives on personality: implications for ecological and evolutionary studies of individual differences

2010 ◽  
Vol 365 (1560) ◽  
pp. 4029-4041 ◽  
Author(s):  
Judy A. Stamps ◽  
Ton G. G. Groothuis
Keyword(s):  
Developmental Plasticity ◽  
Niche Construction ◽  
Prior Experience ◽  
Life Stage ◽  
Animal Personality ◽  
Temporal Consistency ◽  
Developmental Processes ◽  
Wide Range ◽  
Evolutionary Studies ◽  
Research Programmes

Developmental processes can have major impacts on the correlations in behaviour across contexts (contextual generality) and across time (temporal consistency) that are the hallmarks of animal personality. Personality can and does change: at any given age or life stage it is contingent upon a wide range of experiential factors that occurred earlier in life, from prior to conception through adulthood. We show how developmental reaction norms that describe the effects of prior experience on a given behaviour can be used to determine whether the effects of a given experience at a given age will affect contextual generality at a later age, and to illustrate how variation within individuals in developmental plasticity leads to variation in contextual generality across individuals as a function of experience. We also show why niche-picking and niche-construction, behavioural processes which allow individuals to affect their own developmental environment, can affect the contextual generality and the temporal consistency of personality. We conclude by discussing how an appreciation of developmental processes can alert behavioural ecologists studying animal personality to critical, untested assumptions that underlie their own research programmes, and outline situations in which a developmental perspective can improve studies of the functional significance and evolution of animal personality.

Socio-Semantic Processes in Social Actors Representation: A Case Study of “Ya-Sin”

2017 ◽  
Vol 15 (2) ◽  
pp. 145-169
Author(s):  
Roghayeh Farsi
Keyword(s):  
Case Study Approach ◽  
Academic Field ◽  
Social Actors ◽  
Study Approach ◽  
Wide Range ◽  
New Perspective ◽  
Linear Nature ◽  
Do So ◽  
Semantic Processes

AbstractThe academic field of Qurʾānic Studies employs a wide range of approaches, each one of which helps to open up a new perspective on the Qurʾānic text. The Holy Book was revealed to guide people; it is thus of relevance to all aspects of people’s lives. This article focuses on the way social actors are represented in one Meccansūra, entitled “Ya-Sin”, and employs a case-study approach to do so. The analysis carried out includes the socio-semantic processes that thesūrauses in order to represent social actors either by behavior (action) or meaning (reflection), and it also analyzes the actors as they are represented in processes such as activation and passivation. The methodology adopted is eclectic and analytic. It is a hybrid of Swales’ move analysis, El-Awa’s identification of shift-markers, and Halliday’s and Van Leeuwen’s theories of social actor representation. This study shows how such an analysis can contribute to understanding the apparently fragmented and non-linear nature of “Ya-Sin”.

Managing integration in infrastructure alliance projects

2017 ◽  
Vol 10 (1) ◽  
pp. 5-31 ◽  
Author(s):  
Anna-Maija Hietajärvi ◽  
Kirsi Aaltonen ◽  
Harri Haapasalo
Keyword(s):  
Construction Projects ◽  
Research Approach ◽  
Content Type ◽  
Complex Projects ◽  
Wide Range ◽  
Project Organizations ◽  
Integration Mechanisms ◽  
Organizational Integration ◽  
Time Critical

Purpose The effective management of inter-organizational integration is central to complex projects. Such projects pose significant challenges for integration, as organizations struggle with constantly changing inter-organizational interdependencies and must develop and adapt integration mechanisms to meet new demands. The purpose of this paper is to understand what kinds of integration mechanisms are used and how they are developed and adjusted during the infrastructure alliance projects. Design/methodology/approach This study provides empirical evidence of integration dynamics in project alliancing by analyzing two infrastructure alliance projects – a complex tunnel construction project and a railway renovation project. The research approach is an inductive case study. Findings This paper identifies integration mechanisms adopted in two case projects and three central triggers that led to changes in the integration mechanisms: project lifecycle phase, unexpected events and project team’s learning during the project. Practical implications Integration capability should be a precondition for alliance project organizations and requires the adoption of a wide range of integration mechanisms, as well as an ability to adjust those mechanisms in response to everyday dynamics and emergent situations. Originality/value Although unplanned contingencies and the responses to them represent important influences in organizations, there is limited amount of research on the dynamics of integration. The findings will be of value in supporting the management of inter-organizational integration in complex, uncertain and time-critical construction projects.

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