bluuebunny/crossref_metadata_2025_split huggingface dataset:
Predicting condensate formation of protein and RNA under various environmental conditions
Authors: Yin Chin Ka , Ishida Shoichi , Terayama Kei 
Published: June 2023

AbstractMotivationLiquid-liquid phase separation (LLPS) by biomolecules plays a central role in various biological phenomena and has garnered significant attention. The behavior of LLPS is strongly influenced by the characteristics of the RNAs and environmental factors such as pH and temperature, as well as the properties of the proteins. Recently, several databases of biomolecules associated with LLPS have been established, and prediction models of LLPS-related phenomena have been explored, leveraging these databases. However, a prediction model that concurrently considers proteins, RNAs, and experimental conditions has not been developed due to the limited information available from individual experiments in public databases.ResultsTo address this challenge, we have built a new dataset called RNAPSEC, which serves each individual experiment as a data point. This dataset was accomplished by manually collecting data from public literature. Utilizing RNAPSEC, we developed two distinct models that consider a protein, RNA, and experimental conditions. The first model can predict the LLPS behavior of a protein and RNA under specific conditions. The second model can predict the required conditions for a given protein and RNA to undergo LLPS. RNAPSEC and these prediction models are expected to accelerate our understanding of the roles of proteins, RNAs, and environmental factors in LLPS.AvailabilityThe codes for the prediction models and RNAPSEC are available athttps://github.com/ycu-iil/RNAPSEC.Contactterayama@yokohama-cu.ac.jp
5-MeO-DMT induces sleep-like LFP spectral signatures in the hippocampus and prefrontal cortex of awake rats
Authors: Souza Annie da Costa , Souza Bryan da Costa , França Arthur , Moradi Marzieh , Souza Nicholy da Costa , Leão Katarina , Tort Adriano Bretanha Lopes , Leão Richardson , Lopes-dos-Santos Vítor , Ribeiro Sidarta 
Published: June 2023

Abstract5-methoxy-N,N-dimethyltryptamine (5-MeO-DMT) is a potent classical psychedelic known to induce changes in locomotion, behaviour, and sleep in rodents. However, there is limited knowledge regarding its acute neurophysiological effects. Local field potentials (LFPs) are commonly used as a proxy for neural activity, but previous studies investigating psychedelics have been hindered by confounding effects of behavioural changes and anaesthesia, which alter these signals. To address this gap, we investigated acute LFP changes in the hippocampus (HP) and medial prefrontal cortex (mPFC) of freely behaving rats, following 5-MeO-DMT administration. 5-MeO-DMT led to an increase of delta power and a decrease of theta power in the HP LFPs, which could not be accounted for by changes in locomotion. Furthermore, we observed a dose-dependent reduction in slow (20-50 Hz) and mid (50-100Hz) gamma power, as well as in theta phase modulation, even after controlling for the effects of speed and theta power. State map analysis of the spectral profile of awake behaviour induced by 5-MeO-DMT revealed similarities to electrophysiological states observed during slow-wave sleep (SWS) and rapid-eye-movement (REM) sleep. Our findings suggest that the psychoactive effects of classical psychedelics are associated with the integration of waking behaviours with sleep-like spectral patterns in LFPs.
The G protein biased serotonin 5-HT 2A receptor agonist lisuride exerts anti-depressant drug-like activities in mice
Authors: Pogorelov Vladimir M. , Rodriguiz Ramona M. , Roth Bryan L. , Wetsel William C. 
Published: June 2023

ABSTRACTThere is now evidence from multiple Phase II clinical trials that psychedelic drugs can exert long-lasting anxiolytic, anti-depressant, and anti-drug abuse (nicotine and ethanol) effects in patients. Despite these benefits, the hallucinogenic actions of these drugs at the serotonin 2A receptor (5-HT2AR) limit their clinical use in diverse settings. Activation of the 5-HT2AR can stimulate both G protein and β-arrestin (βArr) -mediated signaling. Lisuride is a G protein biased agonist at the 5-HT2AR and, unlike the structurally-related LSD, the drug does not typically produce hallucinations in normal subjects at routine doses. Here, we examined behavioral responses to lisuride, in wild-type (WT), βArr1-KO, and βArr2-KO mice. In the open field, lisuride reduced locomotor and rearing activities, but produced a U-shaped function for stereotypies in both βArr lines of mice. Locomotion was decreased overall in βArr1-KOs and βArr2-KOs, relative to WT controls. Incidences of head twitches and retrograde walking to lisuride were low in all genotypes. Grooming was depressed in βArr1 mice, but was increased then decreased in βArr2 animals with lisuride. Prepulse inhibition (PPI) was unaffected in βArr2 mice, whereas 0.5 mg/kg lisuride disrupted PPI in βArr1 animals. The 5-HT2AR antagonist MDL100907 failed to restore PPI in βArr1 mice, whereas the dopamine D2/D3 antagonist raclopride normalized PPI in WTs but not in βArr1-KOs. Using vesicular monoamine transporter 2 mice, lisuride reduced immobility times in tail suspension and promoted a preference for sucrose that lasted up to 2 days. Together, it appears βArr1 and βArr2 play minor roles in lisuride’s actions on many behaviors, while this drug exerts anti-depressant drug-like responses without hallucinogenic-like activities.
Energetical equivalence between air resistance and gradients in running
Authors: Leclerc M. 
Published: June 2023

AbstractFor a given running speed and for any wind speed, we calculate the slope for which the effort to overcome in the absence of wind is energetically equivalent to running with the original wind speed on a flat track. The influence of headwind and tailwind is thus made numerically comparable to the influence of a positive or negative slope. The same applies to the lack of air resistance on a treadmill and its compensation by adjusting the incline. Moreover, for turning point routes physiological corrections are considered and the impact of speed adjustments is analyzed.
A novel small molecule PKC epsilon inhibitor reduces hyperalgesia induced by paclitaxel or opioid withdrawal
Authors: Gregory-Flores Adriana , Magayewski Bonet Ivan J. , Desaivre Stève , Levine Jon D. , McHardy Stanton F. , Kraker Harmannus de , Russell Nicholas , Fleischer Caleb , Messing Robert O. , Marinelli Michela 
Published: June 2023

AbstractAggressive marketing and increased prescribing of opioids for treating pain have fueled a prominent increase in opioid use disorder. This acute public health problem has led to calls for the development of non-opioid alternatives to treat chronic pain. The enzyme protein kinase C epsilon (PKCε) plays an important role in nociceptor sensitization, in inflammatory and neuropathic pain. Here we investigated the effects of a novel small molecule that inhibits PKCε in a rodent model of chemotherapy-induced neuropathic pain produced by administration of the cancer chemotherapy, paclitaxel. Because transition of opioid-dependent individuals to a non-opioid pain medication can increase pain due to opioid withdrawal, we also investigated if the PKCε inhibitor alters features of opioid withdrawal and opioid self-administration. This novel PKCε inhibitor attenuated paclitaxel-induced hyperalgesia, reversed hyperalgesia produced by opioid withdrawal, and reduced somatic signs of opioid withdrawal. This PKCε inhibitor did not modify opioid self-administration, nor produce self-administration. These findings suggest that PKCε inhibition is an effective, non-addictive strategy to treat chemotherapy-induced neuropathic pain with the added benefit of limiting hyperalgesia due to opioid withdrawal, which could facilitate switching treatment of chronic pain, in opioid-dependent individuals.
Dynamic chromatin remodeling in cycling human endometrium at single cell level
Authors: Vrljicak Pavle , Lucas Emma S , Tryfonos Maria , Muter Joanne , Ott Sascha , Brosens Jan J 
Published: June 2023

SUMMARYEstrogen-dependent proliferation followed by progesterone-dependent differentiation of the endometrium culminates in a short implantation window. We performed single cell ATAC-seq on endometrial samples obtained across the menstrual cycle to investigate the regulation of temporal gene networks that control embryo implantation. We identified uniquely accessible chromatin regions in all major cellular constituents of the endometrium, delineated temporal patterns of coordinated chromatin remodeling in epithelial and stromal cells, and gained mechanistic insights into the emergence of a receptive state through integrated analysis of enriched transcription factor (TF) binding sites in dynamic chromatin regions, ChIP-seq analyses, and gene expression data. We demonstrate that the implantation window coincides with pervasive cooption of transposable elements (TE) into the regulatory chromatin landscape of decidualizing cells and expression of TE-derived transcripts in a spatially defined manner. Our data constitute the first comprehensive map of the chromatin changes that control TF activities in cycling endometrium at cellular resolution.
Study of auxin metabolism using stable isotope labeling and LCMS; evidence forin plantaauxin decarboxylation pathway
Authors: Dobrev Petre I. , Filepová Roberta , Lacek Jozef , Vondráková Zuzana , Müller Karel , Maršík Petr , Drašarová Lenka , Talacko Pavel , Hošek Petr , Petrášek Jan 
Published: June 2023

AbstractThe natural plant hormone auxin indole-3-acetic acid (IAA) influences many physiological processes in plants. Here, the metabolism of IAA was studied in detail using tobacco BY-2 cells as a model and compared with thein plantametabolism in several plant species. A combination of labeled/unlabeled substrate feeding, global untargeted mass spectrometric (MS) scanning, and selective MS filtering allowed the detection of 17 auxin metabolites, 15 of which were identified. Subsequent study of intermediate metabolism and dynamics revealed eight major pathways: three amino acid conjugation pathways with aspartate, glutamate, and glutamine, followed by their 2-oxidation with the help of the DAO enzyme; side-chain glucosyl ester formation; direct 2-oxidation; two decarboxylation pathways; and a pathway producing an unidentified metabolite. Interestingly, the first intermediates of the two decarboxylation pathways, indole-3-carbinol and oxoindole-3-carbinol, were formed outside the cells. We found that the majority of the detected auxin metabolites occur naturally in several plant species and that IAA is their precursor, indicating that the auxin metabolic pathways observed in BY-2 cells also occurin planta. Our finding that the IAA decarboxylation pathway occursin planta, and the previous reports of auxin activity of some metabolites of this pathway, suggest that at least some of the biological effects of IAA may be explained by its conversion to decarboxylative metabolites.
Recording morphogen signals reveals origins of gastruloid symmetry breaking
Authors: McNamara Harold M. , Solley Sabrina C. , Adamson Britt , Chan Michelle M. , Toettcher Jared E. 
Published: June 2023

AbstractWhen cultured in three dimensional spheroids, mammalian stem cells can reproducibly self-organize a single anterior-posterior axis and sequentially differentiate into structures resembling the primitive streak and tailbud. Whereas the embryo’s body axes are instructed by spatially patterned extra-embryonic cues, it is unknown how these stem cell gastruloids break symmetry to reproducibly define a single anterior-posterior (A-P) axis. Here, we use synthetic gene circuits to trace how early intracellular signals predict cells’ future anterior-posterior position in the gastruloid. We show that Wnt signaling evolves from a homogeneous state to a polarized state, and identify a critical 6-hour time period when single-cell Wnt activity predicts future cellular position, prior to the appearance of polarized signaling patterns or morphology. Single-cell RNA sequencing and live-imaging reveal that early Wnt-high and Wnt-low cells contribute to distinct cell types and suggest that axial symmetry breaking is driven by sorting rearrangements involving differential cell adhesion. We further extend our approach to other canonical embryonic signaling pathways, revealing that even earlier heterogeneity in TGFβ signaling predicts A-P position and modulates Wnt signaling during the critical time period. Our study reveals a sequence of dynamic cellular processes that transform a uniform cell aggregate into a polarized structure and demonstrates that a morphological axis can emerge out of signaling heterogeneity and cell movements even in the absence of exogenous patterning cues.HighlightsSymmetry-breaking gastruloid protocol where Wnt signaling evolves from a uniform high state to a single posterior domain.Synthetic gene circuits record Wnt, Nodal and BMP signaling with high time resolution.Heterogeneity in Wnt signaling at 96 h predicts cells’ future positions and types.Wnt activity differences are influenced by earlier heterogeneity in Nodal/BMP activity.
Shifts in cannabis use at the onset of the COVID-19 pandemic among Global Drug Survey respondents from 13 countries
Authors: Puljević Cheneal , Cossart Amelia , Davies Emma L. , Barratt Monica J. , Maier Larissa J. , Jauffret-Roustide Marie , Winstock Adam R. , Ferris Jason A. 
Published: June 2023

Purpose
The COVID-19 pandemic likely impacted cannabis distribution, access and usage worldwide. This study aims to describe self-reported changes in cannabis use and related outcomes following COVID-19-related restrictions among an international sample of people who use drugs.

Design/methodology/approach
Using data from the Global Drug Survey COVID-19 Special Edition, the authors identified 20,417 respondents from 13 countries who reported whether the number of THC-containing cannabis usage days changed compared with February 2020 (before COVID-19 restrictions). Using descriptive statistics and a multinomial multivariable logistic regression, the authors investigated the impact of changes in cannabis use on respondents’ mental health, physical health, relationships, finances, work/study performance and cannabis-related pleasure/enjoyment.

Findings
Similar proportions of respondents reported that their cannabis use had stayed the same (38.2%) or increased (38.3%) compared with February 2020, while 21.9% of respondents reported a decrease. The most common reason for increased use was having more time (68.4%), while decreased use was associated with having less contact with people they use cannabis with (58.4%). The likelihood of reporting worse mental and physical health, finances, and work/study performance following COVID-19 restrictions was highest among those who reported increased cannabis use.

Research limitations/implications
These findings provide a unique understanding of the short-term international impact of initial COVID-19 restrictions on cannabis use, and highlight the need for policy to address the ongoing and improved provision of evidence-based mental health and other support for people who frequently use cannabis.

Originality/value
To the best of the authors’ knowledge, this is the world’s largest international study exploring the impacts of these changes in cannabis use following initial COVID-19 restrictions on individuals’ mental health, physical health, relationships, finances, work/study performance and cannabis-related pleasure. This study is also unique in comparing these changes across multiple continents.
How does collective moral judgment focus on the self-induce deviant behavior of construction workers? A multilevel investigation
Authors: Yuan Ming , Wang Xuetong , Zhang Ziyao , Lin Han , Yu Mingchuan 
Published: June 2023

PurposeThe deviant behavior (DB) of construction workers has always been a troubling event in project management. Although scholars continue to search for the main causes of this behavior to curb it at the source, the authors know less about the role and contribution of the team. This study aims to uncover the mechanisms and conditions under which collective moral judgment focus on self (CMJS) effectively enhances DB.Design/methodology/approachAdopting Chinese construction enterprises as samples, a hierarchical linear model (HLM) is used to test the results of the hypothesis. Moderated mediating effects are used to analyze the potential mechanisms and boundary conditions of DB.FindingsThe results of the HLM analysis show that CMJS could directly and significantly induce DB, and moral disengagement (MD) plays a mediator role in this association. In addition, the positive relationship between MD and DB is stronger when performance-avoidance goal orientation (PaGO) or overqualification (Overq) is higher.Research limitations/implicationsThe conditions and mechanisms that influence DB are not unique. Future study could examine the explanatory and weighting mechanisms of DB from other perspectives or to construct a framework and summarize the factors that may influence DB.Practical implicationsThis study provides a rich theoretical basis for the prevention and correction of construction workers' DB in Chinese construction firms from the perspective of CMJS. In addition, objective moral judgments contribute to guiding employees' moral cognitive processes and positive work.Originality/valueThis study extends existing research on DB and advances the practical outcomes of construction project governance. It not only illustrates that CMJS has a direct impact on DB but also clarifies the mechanisms and conditions that predispose to the generation of DB, filling the research gap on construction workers' DB from cross-level mechanisms and also enriching the theoretical system for preventing this behavior.
Examining governance of post-earthquake reconstruction planning from an evolutionary resilience perspective
Authors: Shao Yiwen , Sun Yao 
Published: June 2023

Purpose
The politically laden nature of postdisaster recovery calls for more research on its governance, especially at the micro-scale. Apart from engineering-oriented frameworks, researchers need new theoretical underpinnings. This paper aims to review the development of the evolutionary resilience theory and use it as an analytical framework to evaluate the governance of post-earthquake reconstruction planning in China.

Design/methodology/approach
This paper examines how reconstruction planning is governed in the epicenter town of the 2008 Great Sichuan Earthquake, highlighting three key qualities of evolutionary resilience. The authors draw on site investigations, semistructured interviews and analysis of official and unpublished documents from various sources.

Findings
This paper finds that despite the absence of specific resilience statements in reconstruction plans of the time, qualities of evolutionary resilience, including social connectedness, flexibility and innovation, were evident in a hybrid and contradictory reconstruction planning system. In this respect, resilience thinking appears in Chinese planning earlier than generally assumed. This paper suggests that this manifestation of resilience was the result of an instrumental utility in addressing socioeconomic uncertainties in the postdisaster environment and, thus, may not be systematic.

Originality/value
This work enriches the understanding of recovery governance from an evolutionary resilience perspective where existing research is insufficient. It also offers ample practical guidance for similar cases in China and elsewhere.
Innovation mentor community of practice: a social network analysis perspective
Authors: Altinisik Gunda Esra , Aydin Mehmet Nafiz 
Published: June 2023

Purpose
To exploit collaboration-driven innovation, in recent years, many government-sponsored innovation programs and mentor services have emerged. These services support an effective exchange of knowledge among innovation actors, including innovation mentors and enable mentor connectedness as an important factor to develop and sustain effective innovation mentors’ community of practice (CoP). The purpose of this paper is to examine the degree of connectedness in an innovation mentor CoP.

Design/methodology/approach
In this study, the innovation mentors CoP as part of a national innovation program is considered a network. The connectedness and assortative mixing of this CoP and the effects of these two on each other were examined by using social network measures, including component analysis, the giant component (GC) and assortativity.

Findings
The authors provide the analytical interconnectedness results for both the GC and the whole network with network analysis and assortativity measurements of three attributes of mentors (institution, title and degrees). The degree of correlation of community for the GC shows preferential attachment between high-ranking and low-ranking mentors, while preferential attachment was not observed for the whole network. The correlation coefficient for the institution attribute has the highest value for GC, while the title has the highest value for the whole network.

Originality/value
The study is one of the early attempts to apply social network analysis for an innovation mentor CoP. This study reveals the criticality of evaluating the GC and the whole network separately and provides a number of research and practical directions that will contribute to the development of the innovation mentor CoP.
Does human capital mediate the relationship between digital competence and service innovation capability? Evidence from the UAE during covid-19 pandemic
Authors: Blaique Lama , Abu Salim Taghreed , Mir Farzana Asad 
Published: June 2023

Purpose
The purpose of this study is to investigate the relationship between digital competence and the capability to innovate in the service sector and examine if this relationship is mediated by human capital in the context of COVID-19 pandemic.

Design/methodology/approach
Using a cross-sectional survey, data were collected from 188 service sector professionals in the United Arab Emirates. Data were analyzed using partial least square-based structural equation modeling.

Findings
The findings of partial least square based structural equation modeling analysis indicate that there is a significant positive relationship between digital competence and the capacity to innovate in the service sector, which is partially mediated by human capital.

Originality/value
This study contributes to knowledge by offering an understanding of the relationship between digital competence and innovation capability, especially in uncertain situations. This study also notes the importance of human capital as a strategic resource for innovation.