bluuebunny/crossref_metadata_2025_split huggingface dataset:
GCN sensitive protein translation in yeast
Authors: Barr William A. , Sheth Ruchi B. , Kwon Jack , Cho Jungwoo , Glickman Jacob W. , Hart Felix , Chatterji Om K. , Scopino Kristen , Voelkel-Meiman Karen , Krizanc Daniel , Thayer Kelly M. , Weir Michael P. 
Published: May 2020

AbstractLevels of protein translation by ribosomes are governed both by features of the translation machinery as well as sequence properties of the mRNAs themselves. We focus here on a striking three-nucleotide periodicity, characterized by overrepresentation of GCN codons and underrepresentation of G at the second position of codons, that is observed in Open Reading Frames (ORFs) of mRNAs. Our examination of mRNA sequences inSaccharomyces cerevisiaerevealed that this periodicity is particularly pronounced in the initial codons--the ramp region--of ORFs of genes with high protein expression. It is also found in mRNA sequences immediately following non-standard AUG start sites, located upstream or downstream of the standard annotated start sites of genes. To explore the possible influences of the ramp GCN periodicity on translation efficiency, we tested edited ramps with accentuated or depressed periodicity in two test genes,SKN7andHMT1. Greater conformance to (GCN)nwas found to significantly depress translation, whereas disrupting conformance had neutral or positive effects on translation. Our recent Molecular Dynamics analysis of a subsystem of translocating ribosomes in yeast revealed an interaction surface that H-bonds to the +1 codon that is about to enter the ribosome decoding center A site. The surface, comprised of 16S/18S rRNA C1054 and A1196 (E. colinumbering) and R146 of ribosomal protein Rps3, preferentially interacts with GCN codons, and we hypothesize that modulation of this mRNA-ribosome interaction may underlie GCN-mediated regulation of protein translation. Integration of our expression studies with large-scale reporter studies of ramp sequence variants suggests a model in which theC1054-A1196-R146 (CAR) interaction surface can act as both an accelerator and braking system for ribosome translation.
The histone deacetylaseclr3regulates secondary metabolite production and growth under oxidative stress conditions inPenicillium brasilianum
Authors: Akiyama Daniel Yuri , Rocha Marina Campos , Costa Jonas Henrique , Malavazi Iran , Fill Taícia Pacheco 
Published: May 2020

ABSTRACTMost of the biosynthetic gene clusters (BGCs) found in filamentous fungi are silent under standard laboratory cultivation conditions due to the lack of expression triggering stimuli, representing a considerable drawback in drug discovery. To access the full biosynthetic potential of these microbes, studies towards the activation of cryptic BGCs are essential. Histone acetylation status is an important regulator of chromatin structure which impacts in cell physiology and, therefore, expression of biosynthetic gene clusters in filamentous fungi. Histone deacetylases (HDACs) and histone acetyl-transferases (HATs) are responsible for maintaining and controlling this process under different cell conditions. In this study,clr3, a gene encoding a histone deacetylase inPenicillium brasilianumwas deleted and associated phenotypic and metabolic changes evaluated. Results indicate reduced growth under oxidative stress conditions in the Δclr3knockout strain. Also, the production of several secondary metabolites including austin-related meroterpenoids, brasiliamides, mycotoxins such as verruculogen and penicillic acid, as well as cyclodepsipeptides was reduced in the Δclr3strain when compared to wild-type strain. Accordingly, addition of epigenetic modulators responsible for HDAC inhibition such as suberoylanilide hydroxamic acid (SAHA) and nicotinamide (NAA) toP. brasilianumgrowth media also culminated in reduction of secondary metabolite production. Mass Spectrometry Imaging (MSI) was applied to compare metabolite production and spatial distribution on the colony. Results suggest that Clr3 plays an important role in secondary metabolite biosynthesis inP. brasilianum, thus offering new strategies for regulation of natural product synthesis by assessing chromatin modification inP. brasilianum.
Neurodevelopmental deficits and cell-type-specific transcriptomic perturbations in a mouse model ofHNRNPUhaploinsufficiency
Authors: Dugger Sarah A. , Dhindsa Ryan S. , De Almeida Sampaio Gabriela , Ressler Andrew K. , Rafikian Elizabeth E. , Petri Sabrina , Letts Verity A. , Teoh JiaJie , Ye Junqiang , Colombo Sophie , Yang Mu , Boland Michael J. , Frankel Wayne N. , Goldstein David B. 
Published: May 2020

AbstractHeterozygousde novoloss-of-function mutations in the gene expression regulatorHNRNPUcause an early-onset developmental and epileptic encephalopathy. To gain insight into pathological mechanisms and lay the potential groundwork for developing targeted therapies, we characterized the neurophysiologic and cell-type-specific transcriptomic consequences of a mouse model ofHNRNPUhaploinsufficiency. Heterozygous mutants demonstrated neuroanatomical abnormalities, global developmental delay, impaired ultrasonic vocalizations and increased seizure susceptibility, thus modeling aspects of the human disease. Single-cell RNA-sequencing of hippocampal and neocortical cells revealed widespread, yet modest, dysregulation of gene expression across mutant neuronal subtypes. We observed an increased burden of differentially-expressed genes in mutant excitatory neurons of the subiculum—a region of the hippocampus implicated in temporal lobe epilepsy. Evaluation of transcriptomic signature reversal as a therapeutic strategy highlights the potential importance of generating cell-type-specific signatures. Overall, this work provides insight intoHNRNPU-mediated disease mechanisms, and provides a framework for using single-cell RNA-sequencing to study transcriptional regulators implicated in disease.
Molecular Architecture of Early Dissemination and Evolution of the SARS-CoV-2 Virus in Metropolitan Houston, Texas
Authors: Long S. Wesley , Olsen Randall J. , Christensen Paul A. , Bernard David W. , Davis James R. , Shukla Maulik , Nguyen Marcus , Ojeda Saavedra Matthew , Cantu Concepcion C. , Yerramilli Prasanti , Pruitt Layne , Subedi Sishir , Hendrickson Heather , Eskandari Ghazaleh , Kumaraswami Muthiah , McLellan Jason S. , Musser James M. 
Published: May 2020

AbstractWe sequenced the genomes of 320 SARS-CoV-2 strains from COVID-19 patients in metropolitan Houston, Texas, an ethnically diverse region with seven million residents. These genomes were from the viruses causing infections in the earliest recognized phase of the pandemic affecting Houston. Substantial viral genomic diversity was identified, which we interpret to mean that the virus was introduced into Houston many times independently by individuals who had traveled from different parts of the country and the world. The majority of viruses are apparent progeny of strains derived from Europe and Asia. We found no significant evidence of more virulent viral types, stressing the linkage between severe disease, underlying medical conditions, and perhaps host genetics. We discovered a signal of selection acting on the spike protein, the primary target of massive vaccine efforts worldwide. The data provide a critical resource for assessing virus evolution, the origin of new outbreaks, and the effect of host immune response.SignificanceCOVID-19, the disease caused by the SARS-CoV-2 virus, is a global pandemic. To better understand the first phase of virus spread in metropolitan Houston, Texas, we sequenced the genomes of 320 SARS-CoV-2 strains recovered from COVID-19 patients early in the Houston viral arc. We identified no evidence that a particular strain or its progeny causes more severe disease, underscoring the connection between severe disease, underlying health conditions, and host genetics. Some amino acid replacements in the spike protein suggest positive immune selection is at work in shaping variation in this protein. Our analysis traces the early molecular architecture of SARS-CoV-2 in Houston, and will help us to understand the origin and trajectory of future infection spikes.
Contract complexity and trust in construction project subcontracting
Authors: Zhang Shui Bo , Chen Junying , Fu Yafan 
Published: May 2020

PurposeThe purpose of this paper is to unpack the “black box” of the relationship between contract and inter-organizational trust, both theoretically and empirically. Two mediators, namely perceived safeguard and restriction, are identified to build up two seemingly contrary possible paths between contract and trust from current literature. Both paths are tested in the context of Chinese construction industry due to our access to sample.Design/methodology/approachA survey of 295 contractor-subcontractor relationships from Chinese construction industry was conducted. A three-step multiple regression model was employed to test the mediating effect of perceived safeguard and restriction. Then, a hierarchical regression model was used to test the possible moderating effect of bilateral transaction-specific investment.FindingsThe empirical results support the mediating effect of perceived safeguard between contract and trust in the construction subcontracting industry. Bilateral transaction-specific investments enhance the positive effect of contract on safeguard perception.Originality/valueTheoretically, this study contributes to governance literature by opening up the “black box” of the relationship between contract and trust. It provides a better understanding of how and when contract complexity impacts trust, instead of simply focusing on whether contract and trust act as complements or substitutes. Practically, this study provides guidelines for construction firms to decide the degree of contract complexity under various degrees of bilateral transaction-specific investments to enhance the other party’s trust, so as to improve performance outcomes.
Musculoskeletal disorders within the carpentry trade: analysis of timber flooring subtasks
Authors: Akanmu Abiola , Olayiwola Johnson , Olatunji Oluwole Alfred 
Published: May 2020

PurposeCarpenters are constantly vulnerable to musculoskeletal disorders. Their work consists of subtasks that promote nonfatal injuries and pains that affect different body segments. The purpose of this study is to examine ergonomic exposures of carpentry subtasks involved in floor framing, how they lead to musculoskeletal injuries, and how preventive and protective interventions around them can be effective.Design/methodology/approachUsing wearable sensors, this study characterizes ergonomic exposures of carpenters by measuring and analyzing body movement data relating to major subtasks in carpentry flooring work. The exposures are assessed using Postural Ergonomic Risk Assessment classification, which is based on tasks involving repetitive subtasks and nonstatic postures.FindingsThe findings of this paper suggest severe risk impositions on the trunk, shoulder and elbow as a result of the measuring and marking and cutting out vent locations, as well as in placing and nailing boards into place.Research limitations/implicationsBecause of the type and size of wearable sensor used, only results of risk exposures of four body-parts are presented.Practical implicationsThis study draws insights on how to benchmark trade-specific measurement of work-related musculoskeletal disorders. Safety efforts can be targeted toward these risk areas and subtasks. Specifically, results from these will assist designers and innovators in designing effective and adaptable protective interventions and safety trainings.Originality/valueExtant studies have failed to provide adequate evidence regarding the relationships between subtasks and musculoskeletal disorders; they have only mimicked construction tasks through laboratory experimental scenarios. This study adds value to the existing literature, in particular by providing insights into hazards associated with floor carpentry subtasks.
Assessment of the effect of external risk factors on the success of an oil and gas construction project
Authors: A Kassem Mukhtar , Khoiry Muhamad Azry , Hamzah Noraini 
Published: May 2020

PurposeConstruction projects in the oil and gas sector are greatly affected by external risk factors, especially those related to the economy, politics, security and stability factors. Hence, this research aimed to investigate the fundamental relationship between the external risk factors and their effects on the construction project success using Structural Equation Modeling method and PLS-SEM approach.Design/methodology/approachData collected through a structured survey distributed to projects teams in the oil and gas sectors in Yemeni companies involved in mega construction projects. A hierarchical model for assessing causative external risk factors and their effects on project success was developed and analyzed using Smart PLS 3 software of SEM.FindingsThe findings showed that economic, political, force majeure and security-related risk factors had a strong effect on project success. Besides, the Coefficient of Determination (R-squared value) equals 0.743, represented the proportion of variation in the dependent variable(s), which can be explained by one or more predictor variable. Moreover, the predictive relevance value Q2 is 0.375 above zero, which indicates that the conceptual model can predict the endogenous latent constructs. The calculated Goodness of Fit (GoF) Index of the model was 0.699, which shows that the developed model had substantial explanatory power to represent the relationship between the cause of external risk factors to and the effect on construction project success.Research limitations/implicationsThis research was limited to the oil and gas construction projects in Yemen as case study.Practical implicationsPractically, this study highlights the external risk factors that cause a negative effect on the success of oil and gas construction projects in Yemen. The research model of these factors is the first step in the risk management process to develop strategic responses for risks and explain the relationship between cause and effect on project success.Social implicationsThe model of external risks factors that cause the failure of construction projects helps develop response strategies for these risks, thereby increasing the chances of project success reflected in the oil and gas sector, which is a main tributary of the national economy in developing countries.Originality/valueThere is a need to improve the planning of economic and security performance as well as to mitigate political risk factors effects on project success and other risk factors discussed in this study, which effect on construction project success according to their priorities.
Ferrari five: How to recover control of the traditional channel in Colombia?
Authors: Borda Armando , Guerra García Gonzalo , Cordova Carlos , Cordova Miguel 
Published: May 2020

Learning outcomes
The learning outcomes are as follows: to analyze host market characteristics and consumer behavior to develop sound value propositions; to distinguish the characteristics of traditional retail as opposed to the ones of modern retail; to identify the potential benefits and challenges of working with traditional retail; to discuss how informality may affect business relations; and to identify potential avenues to align divergent interests between the focal firm and traditional retailers.

Case overview/synopsis
The case described the situation faced by French International Company (FICO), a leading manufacturer of cigarettes, after the acquisition of Fosforera Colombiana (FOCOSA) in Colombia. FICO aimed to leverage the leadership position of FOCOSA and of its flagship brand Ferrari Lights that possess a 60% market share. However, after just a few months, it was clear that the acquired subsidiary was not performing adequately. The financial results obtained were disastrous. To face this situation, FICO appointed as the new marketing director to Waldo Tarantini who has experienced dealing with informal markets. To be aligned to the Colombian consumption pattern of five cigarettes daily, Waldo decided to launch a new presentation of the leading brand denominated Ferrari five, a package of 5 cigarettes at COP 1000. Considering that more than 60% of the sale can be explained by traditional retail, it was mandatory to secure its participation. Nevertheless, traditional retailers obtained up to 56% margin by selling single sticks. Waldo and his team rapidly needed to craft a commercial strategy to secure the participation of traditional retailers in a market plagued by informality, smuggling products and lack of control from national authorities.

Complexity academic level
The case is intended to be used at the early stages of post-graduate studies and in executive education programs addressing issues such as emerging markets, informality, the base of the pyramid, trade marketing and product launches. In particular, the case can be used in MSc in Marketing’s students, first-year MBA students or executives following short courses. The field of studies in which the case should be taught is marketing or trade marketing in particular when analyzing emerging economies.

Supplementary materials
Teaching notes are available for educators only.

Subject code
CSS 8: Marketing.
Optimization of hierarchical reinforcement learning relationship extraction model
Authors: Wu Qihang , Li Daifeng , Huang Lu , Ye Biyun 
Published: May 2020

Purpose
Entity relation extraction is an important research direction to obtain structured information. However, most of the current methods are to determine the relations between entities in a given sentence based on a stepwise method, seldom considering entities and relations into a unified framework. The joint learning method is an optimal solution that combines relations and entities. This paper aims to optimize hierarchical reinforcement learning framework and provide an efficient model to extract entity relation.

Design/methodology/approach
This paper is based on the hierarchical reinforcement learning framework of joint learning and combines the model with BERT, the best language representation model, to optimize the word embedding and encoding process. Besides, this paper adjusts some punctuation marks to make the data set more standardized, and introduces positional information to improve the performance of the model.

Findings
Experiments show that the model proposed in this paper outperforms the baseline model with a 13% improvement, and achieve 0.742 in F1 score in NYT10 data set. This model can effectively extract entities and relations in large-scale unstructured text and can be applied to the fields of multi-domain information retrieval, intelligent understanding and intelligent interaction.

Originality/value
The research provides an efficient solution for researchers in a different domain to make use of artificial intelligence (AI) technologies to process their unstructured text more accurately.
Silicone use among Nepali transgender women: the hazards of beauty
Authors: Regmi Pramod Raj , van Teijlingen Edwin , Neupane Sanjeev Raj 
Published: May 2020

PurposeIt is widely believed that transgender individuals in Nepal inject silicone for face and body manipulation, a phenomenon thought to be common among transgender individuals globally. Therefore, this qualitative study conducted in Nepal explored: (1) awareness of silicone use and sources of information; (2) reasons for using silicone; (3) notion of cost and quality of these procedures; (4) reported negative aspects, including side effects and (5) health seeking behaviors of Nepali transgender women.Design/methodology/approachThe authors carried out eight focus group discussions (FGDs) with transgender women at four different districts of Nepal, five in the capital Kathmandu and three in different rural areas. We also interviewed three transgender women who preferred not to participate in the FGD but were happy to be interviewed separately. Similarly, six interviews with stakeholders working for sexual and gender minority populations were also conducted.FindingsMost FGD participants were young (mean age 23.06 ± 3.9 years) and the majority (55%; n = 34) completed grade six to high school level. Peer networks of transgender people and the Internet were the more popular sources of information about silicone. The decision to use silicone was largely influenced by the desire to look beautiful and more feminine. Often they appear not to follow the recommended procedures for silicone use. Their health seeking behavior regarding side effects or complications of these procedures was very poor.Originality/valueFindings reflect that targeted interventions aimed at transgender individuals should educate them on the use of silicone, as well as explore safe and affordable approaches to meet gender-related appearance needs of Nepali transgender people.
Mental health crisis training for non-mental health professionals
Authors: Maindonald Rebecca , Attoe Chris , Gasston-Hales Melanie , Memon Perah , Barley Elizabeth 
Published: May 2020

Purpose
This study aims to evaluate a training in mental health crisis support for non-mental health professionals who work in urgent care settings. The training consists of an e-learning module, a one-day face-to-face (F2F) interactive study day and simulation training.

Design/methodology/approach
This multi-methods study collected data pre and post training and at three to six months post training. Validated questionnaires, rating scales and open-ended questions were used to measure self-efficacy in health-care skills, attitudes towards mental illness and knowledge and confidence in working in mental health. A subsample of participants was interviewed post training about how they had used the knowledge and skills learned.

Findings
A total of 706 staff completed the e-learning, 88 attended the F2F training and 203 attended simulation training. Overall satisfaction with the training was high, with F2F and simulation training preferred. Statistically significant improvements in self-efficacy for health-care skills, positive attitudes towards mental illness, and mental health-related knowledge and confidence were found post training. Qualitative analyses of interview and survey data indicated that participants had translated learning to practice through improved attitudes and behavioural changes when working with patients experiencing a mental health crisis.

Originality/value
This training improved mental health-related knowledge, confidence and self-efficacy and reduced mental health-related stigma in professionals who provide urgent care to people in mental health crisis. Participants reported changes to their practice following training; this is important as care has been inadequate for this group. Workforce planners and leaders should consider implementing this or similar training widely.