bluuebunny/crossref_metadata_2025_split huggingface dataset:
Olivar: automated variant aware primer design for multiplex tiled amplicon sequencing of pathogens
Authors: Wang Michael X. , Lou Esther G. , Sapoval Nicolae , Kim Eddie , Kalvapalle Prashant , Kille Bryce , Leo Elworth R. A. , Liu Yunxi , Fu Yilei , Stadler Lauren B. , Treangen Todd J. 
Published: February 2023

ABSTRACTTiled amplicon sequencing has served as an essential tool for tracking the spread and evolution of pathogens. Over 2 million complete SARS-CoV-2 genomes are now publicly available, most sequenced and assembled via tiled amplicon sequencing. While computational tools for tiled amplicon design exist, they require downstream manual optimization both computationally and experimentally, which is slow and costly. Here we present Olivar, a first step towards a fully automated, variant-aware design of tiled amplicons for pathogen genomes. Olivar converts each nucleotide of the target genome into a numeric risk score, capturing undesired sequence features that should be avoided. In a direct comparison with PrimalScheme, we show that Olivar has fewer SNPs overlapping with primers and predicted PCR byproducts. We also compared Olivar head-to-head with ARTIC v4.1, the most widely used primer set for SARS-CoV-2 sequencing, and show Olivar yields similar read mapping rates (∼90%) and better coverage to the manually designed ARTIC v4.1 amplicons. We also evaluated Olivar on real wastewater samples and found that Olivar had up to 3-fold higher mapping rates while retaining similar coverage. In summary, Olivar automates and accelerates the generation of tiled amplicons, even in situations of high mutation frequency and/or density. Olivar is available as a web application athttps://olivar.rice.edu. Olivar can also be installed locally as a command line tool with Bioconda. Source code, installation guide and usage are available athttps://github.com/treangenlab/Olivar.
Eco-evolutionary dynamics in two-species mutualistic systems: One-sided population decline triggers joint interaction disinvestment
Authors: Weyerer Franz , Weinbach Avril , Zarfl Christiane , Allhoff Korinna T. 
Published: February 2023

AbstractThe interplay between ecological and evolutionary dynamics can create feedback that reinforces external disturbances and potentially threatens species’ coexistence. For example, plants might invest less into attracting insect pollinators (decreased flower or nectar production) and more into independence (increased selfing or vegetative reproduction) when faced with pollinator decline. This adaptive response saves plant resources at the cost of further threatening the pollinator population. We ask under which conditions such self-reinforcing feedback occurs in two-species mutualistic systems when considering one-sided population decline and whether it can be counteracted by self-dampening feedback if co-evolution of both interaction partners is considered. Based on a mathematical model and in line with previous studies, we find that the described pattern of accelerated population decline occurs for a wide range of parameter values if a concave allocation trade-off between independent growth and interaction investment is assumed. The undisturbed population typically disinvests first, which then forces the declining population to also disinvest, in favour of other energy sources. However, a decelerated population decline can occur if the adaptation of the undisturbed partner is relatively slow compared to environmental decay, reducing the speed of its disinvestment, or if the initial investment into the interaction was very high. Our results suggest that if actions are taken to save endangered populations, not only the evolution of the target species but also of their interaction partner, as well as the interaction between them should be considered.
Protease-Activated Receptor 2 (PAR2) expressed in sensory neurons contributes to signs of pain and neuropathy in paclitaxel treated mice
Authors: Kume Moeno , Ahmad Ayesha , DeFea Kathryn A. , Vagner Josef , Dussor Gregory , Boitano Scott , Price Theodore J. 
Published: February 2023

ABSTRACTBackground and PurposeChemotherapy-Induced Peripheral Neuropathy (CIPN) is a common, dose-limiting side effect of cancer therapy. Protease-activated receptor 2 (PAR2) is implicated in a variety of pathologies, including CIPN. In this study, we demonstrate the role of PAR2 expressed in sensory neurons in a paclitaxel (PTX)-induced model of CIPN in mice.Experimental ApproachCIPN was induced in both PAR2 knockout/WT mice and mice with PAR2 ablated in sensory neurons via the intraperitoneal injection of paclitaxel.In vivobehavioral studies were done in mice using von Frey filaments and the Mouse Grimace Scale. We then examined immunohistochemical staining of dorsal root ganglion (DRG) and hind paw skin samples from CIPN mice to measure satellite cell gliosis and intra-epidermal nerve fiber (IENF) density. Pharmacological reversal of CIPN pain was tested with the PAR2 antagonist C781Key ResultsMechanical allodynia caused by paclitaxel treatment was alleviated in PAR2 knockout mice of both sexes. In the PAR2 sensory neuronal conditional knockout (cKO) mice, both mechanical allodynia and facial grimacing were attenuated in mice of both sexes. In the dorsal root ganglion of the paclitaxel-treated PAR2 cKO mice, satellite glial cell activation was reduced compared to control mice. IENF density analysis of the skin showed that the paclitaxel-treated control mice have a reduction in nerve fiber density while the PAR2 cKO mice had a comparable skin innervation as the vehicle-treated animals. Similar results were seen with satellite cell gliosis in the DRG where gliosis induced by PTX was absent in PAR cKO mice. Finally, C781 was able to transiently reverse established PTX-evoked mechanical allodynia.Conclusions and ImplicationsOur work demonstrates that PAR2 expressed in sensory neurons plays a key role in paclitaxel-induced mechanical allodynia, spontaneous pain and signs of neuropathy, suggesting PAR2 as a possible therapeutic target in multiple aspects of paclitaxel CIPN.
Efficient generation of transgene-free canker-resistantCitrus sinensisusing Cas12a/crRNA ribonucleoprotein
Authors: Su Hang , Wang Yuanchun , Xu Jin , Omar Ahmad A. , Grosser Jude W. , Calovic Milica , Zhang Liyang , Vakulskas Christopher A. , Wang Nian 
Published: February 2023

AbstractCitrus is one of the top three tree crops in the world and its production faces many devastating disease challenges such as citrus canker caused byXanthomonas citrisubsp. citri (Xcc). Genetic improvement of citrus via traditional approaches is a lengthy (approximately 20 years) and laborious process. Biotechnological approaches including CRISPR genome editing technologies have shown promise. However, none of the citrus plants generated by biotechnological approaches have been commercialized, which primarily resulted from the transgenic nature of the genetically modified plants. Here, we successfully developed transgene-free canker-resistantCitrus sinensislines in the T0 generation within 10 months through transformation of embryogenic citrus protoplasts with Cas12a/crRNA ribonucleoprotein (RNP) to edit the canker susceptibility geneCsLOB1. Among the 39 regenerated lines, 38 are biallelic/homozygous mutants based on Sanger sequencing analysis of targeting sites and whole genome sequencing, demonstrating a 97.4% biallelic/homozygous mutation rate. The edited lines do not contain off-target mutations. TheCsLOB1editedC. sinensislines demonstrate no differences from wild type plants except canker resistance. Importantly, the transgene-free canker-resistantC. sinensislines have received regulatory approval by USDA APHIS. This study presents an efficient genome editing approach for citrus using Cas12a/crRNA RNP, which has a broad impact on genetic improvement of elite citrus varieties and potentially other tree crops and their genetic study. This study represents a breakthrough by generating the first transgene-free canker-resistantC. sinensislines that provide a sustainable and efficient solution to control citrus canker.
Predicting the evolution of adaptation and plasticity from temporal environmental change
Authors: Gallegos Cristóbal , Hodgins Kathryn A. , Monro Keyne 
Published: February 2023

AbstractEnvironmental change drives evolutionary adaptation, which determines geographic patterns of biodiversity. At a time of rapid environmental change, however, our ability to predict its evolutionary impacts is far from complete. Temporal environmental change, in particular, often involves joint changes in major components such as mean, trend, cyclic change, and noise. While theoretical predictions exist for adaptation to temporal change in isolated components, knowledge gaps remain. To identify those gaps, we review the relevant theoretical literature, finding that studies rarely assess the relative effects of components changing simultaneously, or attempt to translate theoretical predictions to field conditions. To address those gaps, we draw on classic evolutionary theory to develop a model for the evolution of environmental tolerance, determined by an evolving phenotypically plastic trait, in response to major components of temporal environmental change. We assess the effects of different components on the evolution of tolerance, including rates of adaptation towards new environmental optima, and the evolution of plasticity. We retrieve and synthesize earlier predictions of responses to components changing in isolation, while also generating new predictions of responses to components changing simultaneously. Notably, we show how different forms of environmental predictability emerging from the interplay of cyclic change, stochastic change (noise), and generation time shape predicted outcomes. We then parameterise our model using temperature time series from global marine hotspot in southern Australia, illustrating its utility for predicting testable geographic patterns in evolved thermal tolerance. Our framework provides new insights into the evolution of adaptation and plasticity under temporal environmental change, while offering a path to improving predictions of biological responses to climate change.
The effects of campaign-based logo changes on consumers’ attitude and behavior: a case of social distancing messages during the COVID-19 pandemic
Authors: Madadi Rozbeh , Torres Ivonne M. , Fazli-Salehi Reza , Zúñiga Miguel Ángel 
Published: February 2023

PurposeThis research study examines how changing the logo to one that depicts social distancing impacts consumers’ attitude toward the brand, attitude toward social distancing guidelines, intention to follow social distancing guidelines, purchase intention, logo evaluation and word of mouth (WOM).Design/methodology/approachA 2 (logo type: conventional vs. novel) X 2 (product involvement: high vs. low) between-subjects experimental design was employed. A multivariate analysis of covariance (MANCOVA) was run on the dependent variables (i.e. attitude toward the brand, attitude toward social distancing guidelines, intention to follow social distancing guidelines, purchase intention, logo evaluation and WOM).FindingsThe results indicate a significant moderating effect of product involvement. Individuals who were exposed to a novel logo for a low-involvement product demonstrated improved purchase intentions, attitudes towards the brand, WOM and intentions to follow social distancing guidelines.Practical implicationsFrom a practical perspective, the results suggest that managers at global brands should consider their brand’s response to the COVID-19 crisis. For example, Nike chose to frame its consumers’ athletic habits as a lifesaving call to action with a new advertising copy that proposed, “If you ever dreamed of playing for millions around the world, now is your chance: play inside, play for the world,” to stress the necessity for people to stay at home.Social implicationsFrom a theoretical perspective, the results of this study add to the emerging literature on CSR and logo changing, and particularly on following social distancing guidelines introduced in response to COVID-19, by exploring the link between COVID-19 advertising in promotional materials (logo changing) and outcomes such as attitude toward the brand, attitude toward social distancing guidelines, intention to follow social distancing guidelines, purchase intention, logo evaluation and WOM.Originality/valueThis research study adds to the literature on CSR and logo changing, primarily the contribution is based on the understanding of the impact of social distancing guidelines introduced in response to COVID-19. More specifically, this research study contributes toward the understanding of the link between COVID-19 advertising in promotional materials (e.g. logo changing) and outcomes such as attitude toward the brand, attitude toward social distancing guidelines, intention to follow social distancing guidelines, purchase intention, logo evaluation and WOM.
Surface acting and work–family conflict: the roles of exhaustion, anxiety and education
Authors: Nauman Shazia , Imam Hassan , Basit Ameer A. 
Published: February 2023

PurposeThis study examines how and under what conditions jobs involving surface acting as key employee performance requirements induce work–family conflict (WFC) and thus negatively impact employees' family lives. Drawing from stress theories, the authors modeled emotional exhaustion as a mediator and trait anxiety and education level as moderators in the surface acting–WFC relation.Design/methodology/approachApplying the time-lagged design, the authors collected data from 203 service sector employees whose jobs involved frequent interactions with customers. The authors assessed surface acting, trait anxiety and level of education at time 1, emotional exhaustion at time 2 and WFC at time 3 with a three-week time lag between each wave.FindingsThe study results confirmed that surface acting drained the emotional energies of the employees who on reaching homes were not able to attend to their family needs, thus experiencing WFC. The authors also found that employees who were high in trait anxiety and education level suffered most from emotional exhaustion and WFC.Practical implicationsTo mitigate the harmful effects of surface acting, organizations should ensure that their employees who must perform surface acting have sufficient time off from their roles, such as regular breaks, free evenings and vacations to prevent emotional exhaustion. The authors further recommend hiring only those customer care candidates who have low tendencies to be anxious while interacting with customers.Originality/valueThis study integrates and extends both the emotional labor and WFC literature. This research answers the earlier calls for research on the effects of personality on WFC. Contrary to the expectation, the study reveals that a higher level of education does not buffer the impact of emotional exhaustion on WFC; it rather intensifies the harmful effect of emotional exhaustion on WFC.
The effect of E-commerce virtual live streamer socialness on consumers' experiential value: an empirical study based on Chinese E-commerce live streaming studios
Authors: Wu Ruijuan , Liu Jingjing , Chen Shuai , Tong Xing 
Published: February 2023

PurposeThe objective of this study was to examine how high-social and low-social virtual live streamers affect consumers' experiential value (utilitarian value and hedonic value) and the mechanism and boundary conditions behind the effect.Design/methodology/approachThe research consisted of four laboratory experiments.FindingsThe results showed that socialness has a positive significant effect on experiential value. Social presence mediated the effect of socialness on utilitarian value and hedonic value. In the relationship between socialness and experiential value, the moderating effects of communication style and situation were significant.Practical implicationsThis study provides managerial implications for online stores about the use of virtual live streamers.Originality/valueThe finding of this paper extends the literature on virtual humans or avatars, enriches the literature on the characteristics of virtual humans and tests the explanatory power of social response theory.
A transformative and social marketing ecosystem investigation into drug use among young adults
Authors: Riedel Aimee , Beatson Amanda , Mulcahy Rory , Keating Byron 
Published: February 2023

Purpose
The purpose of this study is to examine the underresearched transformative service research (TSR) and social marketing segment of young adults who use drugs and identify motivators that have been studied in previous literature, using a service ecosystem lens and provide direction for future research into this area. This research provides the evidence-based knowledge for transformative service and social marketing practitioners to design transformative services that target these motivators.

Design/methodology/approach
This systematic review, guided by the preferred reporting items for systematic reviews and meta-analysis framework, examines and analyses 207 articles published between 2015 and 2020.

Findings
This study identified that young adults are motivated to take drugs to enhance one’s experience, to cope, for social reasons, because of individual characteristics and for other reasons. Research has largely focused on microsystem and mesosystem motivators with data collected mainly using a microsystem approach.

Originality/value
This paper contributes to the TSR and social marketing literature by providing a holistic investigation into all motivators relevant to young adult drug use. An ecosystem classification and theoretical framework of the motivators is curated to help guide future TSR and social marketing research and interventions.
Chatting about ChatGPT: how may AI and GPT impact academia and libraries?
Authors: Lund Brady D. , Wang Ting 
Published: February 2023

Purpose
This paper aims to provide an overview of key definitions related to ChatGPT, a public tool developed by OpenAI, and its underlying technology, Generative Pretrained Transformer (GPT).

Design/methodology/approach
This paper includes an interview with ChatGPT on its potential impact on academia and libraries. The interview discusses the benefits of ChatGPT such as improving search and discovery, reference and information services; cataloging and metadata generation; and content creation, as well as the ethical considerations that need to be taken into account, such as privacy and bias.

Findings
ChatGPT has considerable power to advance academia and librarianship in both anxiety-provoking and exciting new ways. However, it is important to consider how to use this technology responsibly and ethically, and to uncover how we, as professionals, can work alongside this technology to improve our work, rather than to abuse it or allow it to abuse us in the race to create new scholarly knowledge and educate future professionals.

Originality/value
This paper discusses the history and technology of GPT, including its generative pretrained transformer model, its ability to perform a wide range of language-based tasks and how ChatGPT uses this technology to function as a sophisticated chatbot.
Intraguild predation is increased in areas of low prey diversity in a generalist predator community
Authors: Uiterwaal Stella F. , Squires Amber J. , Grappone Bennett A. , Dillard Brian , Castaneda Ariadne , Kim Sora L. , DeLong John P. 
Published: February 2023

Abstract

Niche differentiation and intraguild predation (IGP) can allow ecologically similar species to coexist, although it is unclear which coexistence mechanism predominates in consumer communities. Until now, a limited ability to quantify diets from metabarcoding data has precluded the use of sequencing data to determine the relative importance of these mechanisms.

Here, we pair a recent metabarcoding quantification approach with stable isotope analysis to examine diet composition in a wolf spider community.

We compare the prevalence of resource partitioning and IGP in these spiders and test whether factors that influence foraging performance, including individual identity, morphology, prey community and environmental conditions, can explain variation in diet composition and IGP.

Extensive IGP is likely the primary coexistence mechanism in this community, and other factors to which foraging variation is often attributed do not explain diet composition and IGP here. Rather, IGP increases as prey diversity decreases.

Foragers are driven to IGP where resource niches are limited. We highlight the need to examine how drivers of predator–prey interaction strengths translate into foraging in natural systems.
Prevalence and risk factors of belching disorders: A cross‐sectional study among freshman college students
Authors: Shang Hai Tao , Ouyang Zhen , Chen Can , Duan Chao Fan , Bai Tao , Hou Xiao Hua 
Published: February 2023

ObjectivesBelching disorders seriously affect quality of life; however, their prevalences and risk factors remain unknown. The aim of our study was to determine the prevalence and risk factors, particularly lifestyle factors, of belching disorders among freshman college students in central China.MethodsA cross‐sectional study was conducted in September 2019 in Huazhong University of Science and Technology (Wuhan, Hubei Province, China). The subjects were asked to complete a self‐administered questionnaire for data collection, including sociodemographic information, lifestyle factors, and gastrointestinal symptoms. Belching disorder was diagnosed based on the Rome IV criteria. Univariate and multivariate logistic regression analyses were performed to determine the risk factors for belching disorders.ResultsA total of 3335 subjects were enrolled, and 78.26% were men. Among them, 1.95% (65/3335) reported belching disorders. Significant differences in the Pittsburgh Sleep Quality Index (PSQI), Student‐Life Stress Inventory (SLSI) scores, and consumption of whole grains, black tea, coffee were found between the belching and non‐belching groups. Multivariate logistic regression analysis showed that coffee consumption at least once weekly and a high total SLSI score (over mean + standard deviation) were independent risk factors for belching disorders, while intake of whole grains at least once weekly was a protective factor.ConclusionsExcessive belching is a common disorder among freshman college students in central China. Lifestyle factors, including consumption of whole grains and coffee, and stress, were associated with belching disorders. Therefore, dietary intervention may be a potential management for belching disorders.