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Review: "Provenance tracking in the LHCb software"
Patrick O'Leary

Patrick O'Leary

January 27, 2020
This document is a review of manuscript CiSESI-2019-01-0012 submitted to Computing in Science & Engineering:Provenance tracking in the LHCb software (Ana Trisovic, Chris R. Jones, Ben Couturier, and Marco Clemencic).Keywords: cisemag, reproducible research, provenance, review Content SummaryThe authors argue that the best way to foster reproducibility is to integrate it within existing scientific software that is already in use. This technique makes using reproducibility tools seamless and straightforward. They have demonstrated their solution by integrating provenance tracking in the official analysis software used at LCHb high-energy experiment at CERN.Keywords -  reproducible research, provenance.ContributionA proposed reproducibility, provenance tracking solution built into the LCHb analysis software. The stored provenance allows understanding how a file was produced and provides sufficient information to entirely reproduce the dataset, eliminating the need for the original input code or even documentation.The paper is readable but requires some effort to digest. It covers some background material, skips over more fundamental content, and uses imprecise/inappropriate language at times.References - References are sufficient and appropriateOverviewEmbedding provenance in a software system is a prevalent practice, but doing it for existing and widely used scientific software is uncommon. Thus, the contribution and differentiation, via related work, with previous publications, need to be highlighted.Detailed ReviewIntroduction/Abstract/Related Work - I think the reader would benefit from a concise abstract highlighting the thesis statement and the contributions of the work. I like the one from https://arxiv.org/abs/1910.02863. Why am I not reviewing this document? The introduction starts with a list like review of the related work and ends with a thesis statement and the authors' proposed solution.Section "The LHCb software" -  This section provides an overview of the LCHb GAUDI software framework.Notes:Rewrite "high-energy physics experiments like for example ATLAS [15]." Change "like for example" to "such as."What is meant by "in a working condition" and later as "in running condition"?Rewrite "There is a number of different services within the framework that can used by the Algorithms but some of the main ones are:" "There is"/are, "that can used by", ...."python" should be Python.Section "Implementation of the service" - Describes the organization and methods of the metadata service.Notes:The section title is vague. How about "The provenance tracking service or The metadata service?"Redundant, it just restates what was previously stated or at least rewrite "Therefore, the metadata is only be captured once the components and configurations are assigned to the job, at the moment when the output ROOT file is written to the disk." Change "is only be captured."Section "Using the Provenance tracking service" - The section presents four use-cases, a code snippet for using MetaDataSvc in the Python configuration file, and two ways of examining the info file.Notes:The authors haven't tied Davinci to GAUDI to MetaDataSvc in this section. You have introduced an analysis application but failed to state that it is based on the GAUDI framework.Use-Caseslatest version. How does MetaDataSvc help in reproducibility?minor tweaks to configuration. How does MetaDataSvc help in reproducibility?multiple analysist in one filesystem. How does MetaDataSvc help in reproducibility? version bug. This use-case seems tied to use-case 1. How does MetaDataSvc help in reproducibility?MetaDataSvc solves this, how? State how/when the version is captured, written out, where. A similar description for the configuration and whatever else.The code snippet "ApplicationMgr().ExtSvc += [ ’Gaudi::MetaDataSvc’ ]" lacks the necessary context to make it valuable."simply reading and printing the dictionary" do the authors feel that the reader will equate a dictionary used here to the key-value pairs used in a later sentence? If what was written and how was presented more precisely, then key-value pairs and dictionary could be appropriately introduced.Here exists the first introduction of the ROOT framework, not a collection of formats or a filesystem-like format.Section "Conclusion" - Reiterate contributions.Notes:"neat" idea? I think this needs to be presented using more appropriate language.Did you demonstrate a number of scenarios or just introduce some uses?"that seamlessly mash into researchers’ work" I think this needs to be presented using more appropriate language.QuestionsHow easy was this to implement in a service-based architecture/framework?Do you think this technique could be employed in other architectures as easily?The work was done in 2015 and incorporated into the GAUDI repository in 2017. Are there any end-user results? Is it widely used? Do reesearchers commonly user the info files to address concerns presented in your four use-cases?
Monitoring of water surface temperature of Eurasian large lakes using MODIS LST produ...
Jia Du
Pierre Jacinthe

Jia Du

and 6 more

December 30, 2019
In this study, data from MODIS land surface temperature product level 3 (MOD11A2) were used to investigate the spatiotemporal variation of Eurasian lakes water surface temperature (LWST) from 2001 to 2015, and to examine the most influencing factors of that variation. The temperature of most lakes in the dry climate zone and in the equatorial climatic zone varied from 17 to 31°C and from 23 to 27 °C, respectively. LWSTs in the warm temperate and cold climatic zones were in the range of 20 to 27 °C and -0.6 and 17 °C, respectively. The average daytime LWST in the polar climate zone was -0.71°C in the summer. Lakes in high latitude and in the Tibetan Plateau displayed low LWST, ranging from –11°C to 26°C during the nighttime. Large spatial variations of diurnal temperature difference (DTD) was observed in lakes across Eurasia. However, variations in DTDs were small in lakes located in high latitude and in tropical rainforest regions. The shallow lakes showed a rapid response of LWST to solar and atmospheric forcing, while in the large and deep lakes, that response was sluggish. Results of this study demonstrated the applicability of remote sensing and MODIS LST products to capture the spatial-temporal variability of LWST across continental scales, in particular for the vast wilderness areas and protected environment in high latitude regions of the world. The approach can be used in future studies examining processes and factors controlling large scale variability of LWST.
Metodi innovativi per il trattamento dei contaminanti emergenti: adsorbimento su carb...
Roberta Cuomo

Roberta Cuomo

December 30, 2019
La rimozione dei contaminanti emergenti (ECs) rappresenta, da circa una ventina d’anni, una sfida per la comunità scientifica e per gli organi di pianificazione e controllo. Rientrano nella classe degli ECs farmaci, pesticidi, cosmetici e altri. Tali sostanze possono causare effetti avversi sull'ambiente e sulla salute umana, ma non sono ancora disciplinate dalla legislazione. Gli impianti di trattamento delle acque reflue urbane convenzionali non sono in grado di rimuovere tali contaminanti tramite processi standard, per questo motivo si stanno studiando nuovi metodi per il loro trattamento. Tra le soluzioni più accreditate in letteratura, vi è l’adsorbimento su carboni attivi, accoppiato all’esposizione di ultrasuoni. La presenza di questi ultimi comporta un miglioramento delle rese di rimozione rispetto al solo utilizzo del materiale adsorbente. Non sono stati effettuati test su campioni di refluo reale, ma i risultati potrebbero essere migliori rispetto a quelli ottenuti dal refluo sintetico creato in laboratorio poichè la sostanza organica presente, potrebbe ridurre l'adsorbimento degli ECs e dunque incrementare l'azione ossidante degli ultrasuoni.
Amlodipine as Adjuvant Therapy to Current Chelating Agents in Reducing Iron Overload...
Sherief Ghozy
Amr  Ebied

Sherief Ghozy

and 9 more

December 30, 2019
Iron overload in thalassemia is a substantial prognostic factor and has been a leading cause of death due to heart failure or fatal arrhythmia. Recent studies have recommended administering amlodipine as an adjuvant remedy to current chelating agents for reducing iron overload. A systematic search was carried out through 12 databases. Randomized clinical trials (RCTs) reporting the use of amlodipine in thalassemia patients were included for meta-analysis. Our study included three RCTs including 130 patients. Insignificant difference was found between amlodipine and control groups in reducing liver iron concentration (LIC) [mean differences (MD) (95% confidence interval (CI)) = -0.20 (-0.55 – 0.15), p = 0.26]. As regards serum ferritin, our analysis showed no significant difference between amlodipine and control groups [MD (95% CI) = -0.16 (-0.51 – 0.19), p = 0.36]. There was insignificant change in heart T2* between amlodipine and control groups [MD (95% CI) = 0.34 (-0.01 – 0.69), p = 0.06]. Despite the growing evidence from animal and human studies, the role of amlodipine in reducing iron overload in thalassemia patients is unpretentious. The results of simulation imply that when more data are available, a new meta-analysis could provide a more conclusive answer.
Caratterizzazione delle emissioni di odori emesse dagli impatti di  trattamento dei r...
Vincenzo Evangelista

Vincenzo Evangelista

December 30, 2019
L’utilizzo di Fattori di Emissione dell’Odore (OEFs) è suggerito da studi scientifici allo scopo di caratterizzare le emissioni di odori e prevederne gli impatti. Si focalizza così l’attenzione sulla problematica del trattamento di Rifiuti Solidi Urbani (RSU) identificandone le principali fonti odorose e caratterizzandole. Si confrontano poi gli OEFs stimati da un set di dati sperimentali con quelli teorici proposti in letteratura. 
Analysis of Unsaturated Seepage in the Loess Vadose Zone Based on Column Tests
Jialiang Liu
Qiang Xu

Jialiang Liu

and 7 more

December 30, 2019
Previous studies have shown that the rise of the groundwater table has induced a large number of landslides on the Heifangtai terrace, but it is not clear how the irrigation water flows into the loess and whether it affects the groundwater directly when infiltrating the ground below. In order to understand and analyze the unsaturated seepage in the loess vadose zone, water infiltration was investigated in this paper using a 6 m high remold loess column and artificial tracers. According to the analysis of the different infiltration stages, the existence of unsaturated seepage was indirectly proven. In addition, by comparing the tracer effects of the chloride and bromide ions, it was concluded that though the apparent moisture content was unchanged in the deep vadose zone, the regular downward enrichment of chloride ions demonstrated the existence of unsaturated seepage. We recommend that chloride ions be used as the soil tracer, and bromide ions be used as the water tracer during the in-situ monitoring of unsaturated seepage in Heifangtai. A numerical simulation was also constructed using COMSOL Multiphysics to analyze the solute transport. The results show that unsaturated seepage is not affected by the second irrigation, and the effect of the rising groundwater table is small and is limited to the transition zone between the saturated and unsaturated zones. Therefore, this study provides new insight into landslide mechanisms in Heifangtai based on the analysis of unsaturated seepage.
Measuring and modelling the impacts of soil and water conservation measures on soil e...
Walle Lakew
Jantiene Baartman

Walle Lakew

and 4 more

December 30, 2019
Although large-scale implementation of SWC measures has been used to reduce soil loss and sedimentation in Ethiopian highlands, no method exists to evaluate how implementation of such measures affect erosion and sedimentary processes. In this study we measured and simulated the impacts of various SWC measures on soil loss and sediment yield using spatially distributed WATEM/SEDEM model calibrated at three sub-watersheds. The methods used comprised of field sampling and monitoring to characterize erosion and sediment yields and GIS analysis to calculate various model input parameters. The measurement and model simulation result showed all SWC scenarios reduced soil erosion and sediment yield and bund structures have reduced erosion by more than 57 to 65%. The integrated use of bund structures, contour cultivation, strip cropping and grass strips (scenario IV), sediment yield was reduced from 44.5 to 8.6 t ha-1 y-1, 30.7 to 5.3 t ha-1 y-1 and 36.6 to 6.3 t ha-1 y-1 in the upper, middle and lower part of Koga catchment respectively. Bund structures and grass strips had the highest specific contribution in controlling soil erosion and sediment yield in both study sub-watersheds. The measured and simulated erosion and sediment yield values were relatively lower at the middle of Koga for scenario I (present-day situation). This might be due to the lower transport capacity and lower sediment connectivity as a result of larger coverage of bunds and subordinate conservation measures such as: traditional diches and diversion channels in Debreyakob. This emphasises the importance of integrated use of conservation strategy to reduce soil erosion and sediment delivery. The calibration of WATEM/SEDEM at sub-watershed level has provided good model performance for measured and simulated erosion and sediment yields. Therefore, WATEM/SEDEM representing the underlying erosion and sedimentary processes can further be used to evaluate the impacts of land use and existing or new SWC scenarios.
CRITERIA FOR DETERMINING WATER LEVELS CORRESPONDING TO FLOOD WARNING IN VIETNAM
Huynh Thi Lan Huong
Dzung Luong

Huynh Thi Lan Huong

and 1 more

December 30, 2019
Determining alarm levels of river floods is considered as an effective non-structural measure to prevent and mitigate the damages of flood and inundation. Studying scientific and practical base for identifying and adjusting flood alarm level is the process of understanding flood characteristics and assessing impacts of floods on social and economic activities. In this paper, proposed criteria to delineate water levels corresponding to flood alarm levels include: (1) flood magnitude; (2) flood derivation and flood duration; (3) flood risks and damage; (4) correlation with neighboring stations; (5) flood characteristics and local characteristics and (6) other criteria (rounded, traditional). The result of water level corresponding to flood warning for each hydrological station is helpful for warning and prevention of natural disasters and floods.
Enhanced Production of Dopa-Incorporated Mussel Adhesive Protein Using Engineered Tra...
Ye Seul Jeong
Byeongseon Yang

Ye Seul Jeong

and 6 more

December 30, 2019
Mussel adhesive proteins (MAPs) have great potential as bioglues, in particular in wet conditions. Although in vivo residue-specific incorporation of 3,4-dihydroxyphenylalanine (Dopa) in tyrosine-auxotrophic Escherichia coli cells allows production of bioengineered MAPs (bMAPs), the low production yield hinders the practical application of bMAPs. Such low production yield of Dopa-incorporated bMAPs (Dopa-bMAPs) was known to be caused by low translational activity of a noncanonical amino acid, Dopa, in E. coli cells. Herein, in order to enhance the production yield of Dopa-bMAPs, we investigated the coexpression of Dopa-recognizing tyrosyl-tRNA synthetases (TyrRSs). In order to use the Dopa-specific Methanococcus jannascii TyrRS (MjTyrRS-Dopa), we altered the anti-codon of tyrosyl-tRNA amber suppressor into AUA (MjtRNATyrAUA) to recgonize a tyrosine codon (MjtRNATyrAUA). Co-overexpression of MjTyrRS-Dopa and MjtRNATyrAUA increased the production yield of Dopa-MAP by 57%. Similarly, overexpression of E. coli TyrRS (EcTyrRS) led to a 72% higher production yield of Dopa-incorporated bMAP. Even with coexpression of Dopa-recognizing TyrRSs, Dopa-bMAPs have a high Dopa incorporation yield (over 90%) compared to Dopa-bMAPs prepared without any coexpression of TyrRS.
Potential Applications of Peptide Nucleic Acid (PNA) in biomedical domain
Kshitij RB Singh
Parikipandla sridevi

Kshitij RB Singh

and 2 more

December 30, 2019
Peptide Nucleic Acid (PNA) are DNA/RNA synthetic analogs with 2-((2-Aminoethyl) amino) acetic acid backbone. PNA has replaced DNA as a probe in various pre-existing techniques and currently is a prominent biomolecular tool for genetic diagnosis, cytogenetics, and pharmaceutical applications. PNAs physicobiochemical properties make them resistant to enzymatic cleavage and do not degrade in biological conditions. PNA partakes unique antisense and antigene properties, just due to its inhibitory effect on transcription and translation, and undergo complementary binding to RNA/DNA with high affinity and specificity. Hence, to date, many methods utilizing PNA for the detection and treatment of various diseases such as cancer, AIDS, etc. have been designed and developed. PNA is used for PCR reaction modulation/mutation, in fluorescent in-situ hybridization (FISH) and microarray as a probe, also in many in-vitro and in-vivo assays, and in the development of micro and nano-sized biosensor/chip/array technologies. Earlier reviews focused only on PNA properties, structure and modifications related to diagnostics and therapeutics; our review emphasizes not only on PNA properties but also on its potential applications in diagnosis and therapeutics, along with its prospects in biomedical applications.
Biotechnological approaches to the production of promising plant-derived anticancer a...

Li Changxing

and 11 more

December 30, 2019
The plant kingdom is a rich source of bioactive compounds, many of which have used since pre-history for their therapeutic properties to treat a range of illnesses. More recently, some of these metabolites have attracted attention to their antineoplastic activities to treat various cancers relying on different mechanisms to kill. Some of these molecules are glycosides, which have proven useful as anti-cancer agents, namely podophyllotoxin (PPT) anaryltetralin lignan or alkaloids. There are three primary forms of alkaloids, such as indole alkaloids (vincristine and vinblastine from Catharanthus roseus) quinoline alkaloid (camptothecin from Camptotheca acuminata) and diterpenoid alkaloid (taxol and it’s analogous from Taxus and Corylus species). This review considers a variety of plant biotechnology approaches used to enhance the production of these anticancer molecules in different species. In this regard, many in vitro culture techniques such as stimulation of suspension culture and hairy roots are being used to investigate the effects of plant growth regulators and elicitors on various explants.
Efficient production of isomalto-oligosaccharides by cell associated transglucosidase...
Saravanan Rengarajan
Rameshthangam Palanivel

Saravanan Rengarajan

and 1 more

December 30, 2019
An efficient recycling method of microfiltration membrane was used to develop the continuous production of isomalto-oligosacharides (IMOs) by cell associated transglucosidase(TG) of a novel strain, D.hansenii from maltose. Transglucosidase synthesized seventy types of microbial strains were screened,isolated and investigated the efficiency of IMOs production. The most potent transglucosidase producer was identified as Debaryomyces hansenii using 18s rRNA sequencing. Media optimization preliminary studies were performed to maximize the synthesize of transglucosidase and biomass yield (54 g L-1). Parameters optimization studies were investigated using whole cells of D.hansenii (~4023 units L-1 α-glucosidase activity) from 10 L fermenter to increase the transglucosidase activity through biotransformation. IMOs was continuously synthesised by reusing the cell biomass (6%, w/v) in a 3L bioreactor using microfiltration membrane system with 30% (w/v) maltose concentration under controlled temperature of 34°C in9 to 18h for 5 cycles. The isolated yeast strain, D.hansenii was found to utilize more than 98% maltose with higher conversion efficiency for production of IMOs with 65% purity, 85% yield and productivity of 48.8 g L-1.h which confirmed by HPLC.
Characterization and cytocompatibility assessment of caprine esophagus scaffolds deve...
Ravi Goyal
Anil Gangwar

Ravi Goyal

and 7 more

December 30, 2019
Decellularized scaffolds are used for reconstruction of damaged tissues and organs because they continue to have their natural three-dimensional ECM framework and composition which is responsible for adhesion and proliferation of cells. The main focus of this study was to explore the decellularization property of soap nut pericarp extract (SPE), an herbal detergent, for development of decellularized tubular esophageal scaffold of caprine origin for clinical use and esophageal tissue engineering research. For this 2.5, 5.0 and 10% concentrations of SPE were used for decellularization of caprine esophageal tissues. Histological and scanning electron microscopic (SEM) analysis of tissue samples processed in 5% SPE confirmed complete decellularization with preservation of ECM’s microarchitecture and thus used for further characterization via DNA quantification, SDS-PAGE, mechanical tensile testing, Fourier Transform Infrared (FTIR) spectroscopy and, cytocompatibility assay. DAPI stained decellularized tissues revealed complete removal of nuclear components, verified by measurement of DNA content and SDS-PAGE. Tensile strength of the decellularized scaffolds decreased non-significantly (P > 0.05) as compared to native tissues. Seeded scaffolds showed growth and attachment of primary chicken embryo fibroblasts (P-CEFs) over and within the decellularized scaffolds. It was concluded that 5% SPE may replace the toxic biological detergents and other chemicals used for preparation of biocompatible decellularized caprine esophagus scaffolds.
A Distributed Architecture Proposal for Regressional Generative Adversarial Networks...
Andrew M. K. Nassief

Andrew M. K. Nassief

December 28, 2019
Abstract Distributed computing and parallel processing are often used for offloading large amounts of data in instances such as BOINC. Projects, such as the Decentralized-Internet SDK also allow for people to build instances of cluster computing projects for the offloading of data or decentralized architecture. Generative Adversarial Networks are currently used by AI experts in order to generate data that would have otherwise been non-existent. Given that certain biomedical datasets only have a small amount of donors or case studies available, means that more data would allow for a higher degree of accuracy. Since, certain diseases may not have enough donors or resources to collect that data, one method may be mathematically creating viable artificial data. This however, requires large amounts of processing. The utilization of a regressional model that would allow for a generative adversarial network (GAN) to recursively build medical data sets based off of pre-existing data in order to increase the statistical pool of accuracy should be feasible with distributed computing. This approach should also be worth trying in the case of absolute unknowns and false positives.1.0 Problem StatementFor findings in statistics, one wants to have a high degree of significance.[1] The more data you have, the higher the degree of accuracy. For example, the cancer known as Diffuse Intrinsic Pontine Glioma (DIPG)[2] with a high degree of rarity relies many statistical unknowns. Given this, and the rarity of survival, likely not much data is readily available to get a full sense of knowledge on DIPG. Other abnormalities could include medical diseases that have genetic variants, cardiac diseases, and such that could utilize a better sense of higher degree of accuracy in data. Grid Computing architecture such as the introduction of BOINC[3] i.e “Berkley’s Open Infrastructure for Network Computing” allow for offloading of large amounts of data through parallel processing. Other projects such as the Decentralized Internet SDK[4] allow for people to build distributed computing clusters and instances in support of decentralization. A proposal is to create a distributed processing program for the allowance of a regressional GAN that would increase the amount of biomedical data being analyzed in order to receive a higher degree of accuracy for the researcher to viably conclude results upon.
On Halogen Bond Nature in OC∙∙∙XY Systems from the Energy Decomposition Analysis Pers...
Łukasz Fojcik
Zdzislaw Latajka

Łukasz Fojcik

and 1 more

December 30, 2019
In this work have been presented the theoretical studies of the halogen bond nature based on six model complexes of O≡C∙∙∙X–Y type, where X and Y are halogen atoms. In these investigations, Local Molecular Orbital Energy Decomposition Analysis (LMOEDA) and Quantum Theory Atom in Molecules have been used as well as geometrical parameters and energy of intermolecular interaction and Molecular Electrostatic Potential (MESP). LMOEDA studies reveal a strong dependency on results on calculation methods. Some techniques have been given very consistence results with expectations; however, Grimme’s dispersion corrections and some long-range separated functions in DFT do not work with used decomposition energy procedure. Electron density and Laplacian values confirm linear dependencies in connection to halogen bond energy than in the case of ΔEint=f(RC∙∙∙X). MEP calculations clearly indicate that for studied complexes the σ-hole theory is very useful to halogen bond description.
Long-term variation of observed streamflow at the headwaters of the Urumqi River, eas...
Shuangshuang Liu
Zhongqin Li

Shuangshuang Liu

and 6 more

December 23, 2019
Climate warming accelerates the melting of glaciers in the Tien Shan, which not only causes the increase of annual runoff of rivers, but also changes the law of variation of inner-annual runoff. In this paper, the source of Urumqi River in the Tien Shan is taken as a typical glacier region. Based on the observed hydrological and meteorological data for the period 1980-2016, the results of multi-time scale of runoff showed that the runoff of Urumqi Glacier No.1 and Zongkong catchment all exhibited upward trends and experienced a significant amplification after 1996 and 2008, respectively. The monthly mean discharge was observed to be highest in July followed by August. The daily flow of Glacier No.1 catchment increased before 2010 while the high flow had almost no growth and the low flow declined about 12% after 2010. For Zongkong catchment, the daily discharge showed an increment for both high-flow and low-flow (Except the reduction in high-flow in 2000s compared with the 1990s). The maximum discharge from the Glacier No.1 occurred in the afternoon, and the minimum discharge occurred in the morning. For the Zongkong catchment, the maximum discharge occurred in the evening or early morning of the next day, and the minimum discharge occurred in the afternoon. In the Glacier No.1 catchment, runoff variability was mainly due to the effect of temperature, while in the Zongkong catchment, the relation between annual runoff, temperature and precipitation variations was found to be complicated. Excluding the effect of the precipitation, the time delay between the daily discharge peaks from Glacier No.1 and the maximum temperature was 0-5 h.
The variation in processes of river connectivity in the Jingjiang River and its influ...
Yin Chen
Yangui Wang

Yin Chen

and 2 more

December 23, 2019
Rivers with good connectivity are conducive to the development of various functions of rivers, such as hydrological regulation and storage, water and sediment transport, and ecological environment. Human activities have greatly reduced the sediment load in the Yangtze River Basin and have changed the channel connectivity of the Jingjiang River. In this paper, the analytic hierarchy process (AHP) is used to establish the assessment model of channel connectivity based on the river function. Then, combined with the flow, sediment and boundary data of the main hydrological stations, we analyze the variation in processes of the channel connectivity of the Jingjiang River from 1955 to 2015. The results show that the change in process of channel connectivity of the Jingjiang River is basically the same in different reaches. The value of the comprehensive function of connectivity increases gradually with time and is greater than 1.0 after 1990, indicating that the channel connectivity has improved. Spatially, the Shashi-Jianli reach has the best connectivity, while the Zhicheng-Shashi reach has the worst connectivity. In addition, reservoir construction and river straightening are the main factors affecting the channel connectivity of the Jingjiang River system. Soil and water conservation changes the channel connectivity by changing the water and sediment yield, which is the secondary factor. The study means, method and achievement are universally applicable to the evaluation of other channel connectivity.
Specialist by preference, generalist by need: availability of quality hosts drives pa...
Darío Manzoli
María Saravia-Pietropaolo

Darío Manzoli

and 5 more

December 23, 2019
Encountering suitable hosts is key for parasite success. In a natural system involving a parasitic fly and its multiple bird hosts there are profound differences in host quality. The Great Kiskadee tolerates and does not invest in resisting the infection, which makes it an optimal host. Alternative hosts are frequently used, but whilst some of them may be good options, others are bad alternatives (they resist efficiently or die). Here we examined the host selection processes that drive parasite dynamics in this system with a thorough longitudinal study under natural conditions. We found that host selection is strongly driven by availability of quality hosts: the parasite chooses suboptimal hosts only when better alternatives are not sufficiently available. This adds evidence from a natural system that hosts are chosen as a function of their profitability, and shows that host selection by a parasite may be plastic and context-dependent.
PREreview  for   Reflexão de  práticas e  vivências entre a Universidade e Escola a p...
Michel Kobelinski
Ana Carolina de D. Bueno Krawczyk

Michel Kobelinski

and 1 more

February 03, 2020
Resumo: este é um Grupo de Revisores de pré-impressão da Revista Ensino & Pesquisa, o qual avaliou  o artigo Reflexão de  práticas e  vivências entre a Universidade e Escola a partir do Programa de  Residência Pedagógica, de  Josiane Ap. Gomes Figueiredo ,  Roberta Ravaglio Gagno . A Pré-impressão foi originalmente publicada no referido repositório em 17 de dezembro de 2019. (DOI: https://doi.org/10.22541/au.157660100.07880567 ). Estimadas autoras, agradecemos o envio do seu artigo para o nosso repositório Preprint.  Depois de analisarmos a submissáo, elaboramos o parecer que segue logo abaixo.   O artigo de Josiane Aparecida Gomes Figueiredo e Roberta Ravaglio Gagno, que tem como objetivo refletir as ações de implementação de projeto no Programa de Residência Pedagógica \citep{brasil2017}, é uma contribuição significativa sobre a formação/práticas docentes desenvolvidas a partir do curso de Ciências Biológicas da Universidade Estadual do Paraná (campus de Paranaguá),  assim como sobre as demandas do ensino em algumas escolas do litoral paranaense.  As discussões sobre a educação de qualidade na educação superior e no ensino básico são fundamentais para refletirmos problemas estruturais de décadas, especialmente quando relacionadas ao “ensino e vida, conhecimento e ética, reflexão e ação”. Para isto, as autoras consideram que uma visão ampla e relacional deve priorizar através de ações colaborativas, as injunções sociais, conteúdos, práticas pedagógicas inovadoras, projetos e ações que contemplem uma formação humanizada, engajada e inclusiva. Porém, no tocante às retóricas da eficiência e da qualidade da educação pode-se  levar em conta tanto os resultados quanto o próprio processo de ensino-aprendizagem, almejando o (polêmico) conceito de  “capital social”.  Este, por sua vez, pode ter dois enfoques, cuja aplicação abrange o desempenho escolar e o contexto social.  Um com orientação política em Bourdieu, que valoriza os vínculos entre cultura, redes sociais e poder  \citep{1979}. Outro, de orientação econômica, elaborado por Coleman, que versa sobre a intangibilidade em espaços relacionais estabelecidos por e entre pessoas \citep{1988}. No entanto, ambos comungam a ideia de que as relações sociais são vitais a todos ao se basear no princípio da reciprocidade, da confiança e da cooperação, abrangendo tanto a ação social quanto o ator social.  Para Gomes Figueiredo & Gagno  a universidade e a escola são espaços híbridos de formação teórica e prática, que beneficiam universitários e comunidade com um ensino de qualidade e uma formação profissional adequada. Daí resulta a importância diretiva da universidade, a troca de aprendizagens, a problematização de conteúdos e do cotidiano escolar, bem como a   legitimidade de ações teórico-práticas nestes diferentes níveis, apesar dos problemas estruturais, formativos e de valorização dos professores. Sem dúvida o ensino de qualidade diz respeito a atuação da universidade como “comunidades eficazes de aprendizagem”, apesar de algumas práticas pedagógicas serem estigmatizadas, sobretudo nas redes sociais, onde extremismos político-partidários compõem retóricas de ocasião. É conveniente frisar aqui alguns temas tocados pelas autoras em relação ao ensino-aprendizagem, os quais podem, de alguma maneira, amenizar ou mesmo reverter certos aspectos da interação entre universidade e escola no tocante à desvalorização do professor e a autoridade em sala de aula. Em primeiro lugar,  Brasil ocupou incomodamente o primeiro lugar no ranking de desrespeito aos professores por parte dos alunos.\citep[see][]{2018}.  Parece-nos que tais elementos foram objeto de reflexão/ação no caso da comunidade escolar em tela, o que demonstra que o projeto de Residência Pedagógica foi bem conduzido/delegado pelos  coordenadores, acadêmicos, dirigentes escolares, alunos, professores e comunidades são positivas \citep{carnoy2009}.  Portanto, caberia às autoras, em outra oportunidade, avaliar o impato deste capital socio-familiar sobre os resultados do rendimento de professores e alunos atendidos pleo Programa Residência Pedagógica no município de Paranaguá.    Com  se porde constataro o “Residência Pedagógica” na UNESPAR (Paranaguá) é um sucesso, pois avalia-se o próprio fazer docente, o papel da escola, o processo de ensino aprendizagem, a motivação e a participação social dos alunos, projetos integradores, os benefícios ao corpo docente  e discente de biologia, a comunidade escolar abrangida pelo programa. Deste modo, pelo teor, qualidade e consistência da argumentação, recomendamos sua imediata publicação do presente artigo. 
Planning the implementation of change based on collaborative care model evidence for...
Ariane Girard
Édith Ellefsen

Ariane Girard

and 4 more

December 23, 2019
Rationale, aims and objectives: There are many challenges to implementing the collaborative care model (CCM) for people with common mental disorders and physical long-term conditions in primary care settings. There is also a knowledge gap on how to implement change based on CCM evidence. This article aim to present a case example of a process to plan the implementation of change based on CCM evidence in primary care settings. Context of the case example: The process of planning the implementation of change was conducted during a multiple case study in three family medicine groups in Quebec, Canada. The pre-implementation steps of the Grol & Wensing implementation of change model were used to design the planning process. Process to plan the implementation of change: 1) review of the literature on the CCM, engaging stakeholders, development of data collection tools; 2) familiarization with actual collaborative care process and professional activities, assessment of the quality of activities with analysis tables; 3) identification of barriers and enablers to implement change, visualization of the results, prioritization of potential strategies with an advisory committee; 4) validation of results and assessment of practices, selection and development of strategies tailored to local needs. Various data sources have been used: feedback from managers, advisory committee and local working groups, interviews (n=32), observations (n=7), documents, and schemas. Conclusion: Planning the implementation of change based on CCM evidence helped select strategies tailored to local needs that might overcome determinants of change impacting the quality of activities and the team’s capacity to efficiently implement change.
Periconnection: Neighborhood and directional eco-effects newly realized between ecosy...
Yi Lin
Geoff West

Yi Lin

and 1 more

December 23, 2019
How snow phenology (SP) regulates ecosystem productivity (EP), especially for those lower- and higher-EP ecosystems, is a point of interest for understanding of climate-biosphere interactions but has been an open macroecological question. We were further curious about its premise – must this eco-effect be caused by the SP in the same site exclusively? To handle these puzzles, we creatively proposed a new concept of “periconnection”, following the way of defining “teleconnection” but also expandingly probing the possible connections to neighborhoods, for reflecting the ecological links between EP and the SP of the same and neighboring sites. Analyzing two piled-up datasets of vegetation dynamics (1999–2013) and SP (2001–2014) in the Northern Hemisphere (>45°N), we found that the lower- and higher-EP ecosystems showed weaker tendencies of EP increasing than the average one for all of the ecosystems; the Arctic circumpolar EP was more sensitive to the snow-onset than -end SP; the EP variations of the ecosystems, including those of the lower- and higher-EP ones, were driven more by the SP around – termed as neighborhood eco-effect; further, such drivings occurred more to north in North America while more to south in North Eurasia – as directional eco-effect. Overall, the novel “periconnection” concept is of fundamental implications for advancing the progress of many fields ranging from ecology to Earth interactions.
Bioelectrical evaluation of microbial fuel cell fed with outlet wastewater of the sug...
Mostafa Abdelshafy Ramadan
Mohamed  Hemida Abd-Alla

Mostafa Abdelshafy Ramadan

and 2 more

December 23, 2019
Background: Evaluation of the electricity generated by the single-chamber mediator–less microbial fuel cell (MFC) fed with sugar industry wastewater (SIW), besides the characterization of bacterial diversity of anodic biofilm. Results: The maximum MFC voltage in open circuit (OCV) mode was 911 mV after 24 operational days, while the closed-circuit voltage (CCV) was 360 mV when 550 Ω as the external load applied. From the polarization curve, the maximum power density of 189.16 mW/m2 as power output was observed at a current density of 370.9 mA/m2. The efficiency of the MFC was measured based on coulombic efficiency and chemical oxygen demand (COD) removal rate. While the CE was 51%, the COD removal efficiency reached 90.4%. The anodic biofilm bacterial diversity was observed through several identifying morphologically, microscopy, and molecularly. The anodic biofilm phylogenetic bacterial consortia based on the molecular analysis of 16S rRNA sequences was indicated seven dominant strains: Pseudomonas aeruginosa, Lactobacillus sp., Enterococcus sp., Aeromonas hydrophila, Bacillus methanolicus, Geothrix fermentans, and Bacillus thermocloacae with similarity value 100% for each strain. Conclusion: These results proposed that SIW bacterial communities in the anodic biofilm have balanced symbiotic behavior, which has been translated into the bioelectricity production in parallel with the SIW substrate treatment.
Influenza delle condizioni meteorologiche sullo stato dei corsi d'acqua         
Anna Longobardi

Anna Longobardi

December 23, 2019
La correlazione tra i parametri meteorologici e la qualità ecologica dei fiumi è sempre più affine e sta mostrando come i capricci del clima stanno continuamente alterando la biodiversità dei fiumi, ovvero la loro vita faunistica. A evidenziare questo aspetto è stato analizzato uno studio nel quale vengono utilizzati 2 metodi per valutare il deflusso minimo vitale e lo stato ecologico dei fiumi: modellazione dell’idoneità degli habitat (HSMs = Habitat Suitability Models) e metodo dell’area disponibile ponderata (WUA = Weighted Usable Area).Attraverso la caratterizzazione della qualità delle acque fluviali emerge che il cambiamento climatico rappresenta una criticità, in quanto incide sull’habitat naturale portando alla variazione di specie naturali e vegetali e causando un impatto sulle acque. Di conseguenza la salvaguardia dell’ecosistema fluviale svolge un ruolo chiave nel preservare il valore naturalistico dei fiumi.
A useful result about the Zeros of Riemann's Hypothesis
Akram Louiz

Akram Louiz

February 01, 2023
A useful result about the Zeros of Riemann's Hypothesis and Landau Siegel zeros 
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