bluuebunny/crossref_metadata_2025_split huggingface dataset:
A Riemannian approach to predicting brain function from the structural connectome
Authors: Benkarim Oualid , Paquola Casey , Park Bo-yong , Royer Jessica , Rodríguez-Cruces Raúl , de Wael Reinder Vos , Misic Bratislav , Piella Gemma , Bernhardt Boris C. 
Published: October 2021

AbstractOngoing brain function is largely determined by the underlying wiring of the brain, but the specific rules governing this relationship remain unknown. Emerging literature has suggested that functional interactions between brain regions emerge from the structural connections through mono-as well as polysynaptic mechanisms. Here, we propose a novel approach based on diffusion maps and Riemannian optimization to emulate this dynamic mechanism in the form of random walks on the structural connectome and predict functional interactions as a weighted combination of these random walks. Our proposed approach was evaluated in two different cohorts of healthy adults (Human Connectome Project, HCP; Microstructure-Informed Connectomics, MICs). Our approach outperformed existing approaches and showed that performance plateaus approximately around the third random walk. At macroscale, we found that the largest number of walks was required in nodes of the default mode and frontoparietal networks, underscoring an increasing relevance of polysynaptic communication mechanisms in transmodal cortical networks compared to primary and unimodal systems.
TRF1 poly(ADP-ribosyl)ation by PARP1 allows proper telomere replication through helicase recruitment in non-ALT cells
Authors: Maresca C. , Stritto A. Dello , D’Angelo C. , Petti E. , Vertecchi E. , Pompili L. , Berardinelli F. , Sgura A. , Antoccia A. , Graziani G. , Biroccio A. , Salvati E. 
Published: October 2021

AbstractTelomeres are nucleoprotein structures at eukaryotic chromosome termini. Their stability is preserved by a six-protein complex named shelterin. Among these, TRF1 binds telomere duplex and assists DNA replication with mechanisms only partly clarified. Poly (ADP-ribose) polymerase 1 (PARP1) is a chromatin associated enzyme which adds poly (ADP-ribose) polymers (PARs) to acceptor proteins by covalent hetero-modification. Here we found that TRF1 is covalently PARylated by PARP1 during DNA synthesis. PARP1 downregulation perturbs bromodeoxyuridine incorporation at telomeres in S-phase, triggering replication-dependent DNA damage and telomere fragility. PARylated TRF1 recruits WRN and BLM helicases in S-phase in a PARP1-dependent manner, probably through non-covalent PAR binding to solve secondary structures during telomere replication. ALT telomeres are less affected by PARP1 downregulation and are less sensitive to PARP inhibitors. This work unveils an unprecedented role for PARP1 as a “surveillant” of telomere replication, in absence of exogenous DNA insults, which orchestrates protein dynamics at proceeding replication fork.
Formation and recycling of an active epigenetic mark mediated by cell cycle-specific RNAs
Authors: Ebralidze Alexander K. , Ummarino Simone , Bassal Mahmoud A. , Zhang Haoran , Budnik Bogdan , Monteleone Emanuele , Kappei Dennis , Liu Yanjing V. , Tenen Danielle E. , Coffey Rory , Sheen Mee Rie , Zhang Yanzhou , Wanet Anaïs , Trinh Bon Q. , Poli Valeria , Angarica Vladimir Espinosa , Magallanes Roberto Tirado , Benoukraf Touati , Crane-Robinson Colyn , Di Ruscio Annalisa , Tenen Daniel G. 
Published: October 2021

AbstractThe mechanisms by which epigenetic modifications are established in gene regulatory regions of active genes remain poorly understood. The data presented show that the establishment and recycling of a major epigenetic mark, the acetylated form of the replacement histone H2A.Z, is regulated by cell cycle-specific long noncoding RNAs encoded in regions adjacent to the promoters of active genes. These transcripts, termed SPEARs (S Phase EArly RNAs), are induced in early S phase: their expression precedes that of the downstream genes on which they exert their regulatory action. SPEARs drive the modification and deposition of the acetylated form of histone H2A.Z by bringing together the replacement histone and the histone acetyl transferase TIP60. This widespread bimodal pathway constitutes a novel RNA-mediated mechanism for the establishment of epigenetic marks and cell-specific epigenetic profiles, thereby providing a unifying explanation for the accuracy and persistence of epigenetic marks on chromatin.
Early embryonic heat shock induces long-term epigenetic memory by affecting the transition to zygotic independence
Authors: Örkenby Lovisa , Skog Signe , Ekman Helen , Kugelberg Unn , Ramesh Rashmi , Roth Marie , Nätt Daniel , Öst Anita 
Published: October 2021

SUMMARYEarly-life stress can generate persistent life-long effects that impact adult health and disease risk, but little is known of how such programming is established and maintained. Previous use of the Drosophila strain wm4h show that an early embryonic heat shock result in stable epigenetic alteration in the adult fly. To investigate the potential role of small non-coding RNA (sncRNA) in the initiation of such long-term epigenetic effects, we here generated a fine timeline of sncRNA expression during the first 5 stages of Drosophila embryogenesis in this strain. Building on this, we show that (1) miRNA is increased following early embryonic heat shock, and (2) the increased miRNA is coming from two separate sources, maternal and zygotic. By performing long RNA sequencing on the same single embryo, we found that a subgroup of miRNA with maternal origin, had a strong negative correlation with a group of early zygotic transcripts. Critically, we found evidence that one such early zygotic transcript, the insulator binding factor Elba1, is a Su(var) for wm4h. The findings provide insights of the dynamics and stress-sensitivity of sncRNA during the first embryonic stages in Drosophila and suggest an interplay between miRNA, Elba1 and long-term epigenetic alteration.HIGHLIGHTSWe provide a high-resolution timeline for sncRNA for Drosophila stage 1-5 embryosHeat shock before midblastula transition (MBT) results in a massive upregulation of miRNA at cellularizationHeat shock-induced miRNAs negatively associate with downregulation of a specific subset of pre-MBT genesElba1 is a position-effect-variegation (PEV) modifier for wm4hHeat shock-induces an “leaky” expression of genes that overlap with Elba 1-3 binding sites
Molecular, circuit, and stress response characterization of Ventral Pallidum Npas1-neurons
Authors: Morais-Silva Gessynger , Nam Hyungwoo , Campbell Rianne R. , Basu Mahashweta , Pagliusi Marco , Fox Megan E , Chan Savio , Iñiguez Sergio D , Ament Seth , Marin Marcelo Tadeu , Lobo Mary Kay 
Published: October 2021

AbstractAltered activity of the ventral pallidum (VP) underlies disrupted motivation in stress and drug exposure. The VP is a very heterogeneous structure comprised of many neuron types with distinct physiological properties and projections. Neuronal PAS 1-positive (Npas1+) VP neurons are thought to send projections to brain regions critical for motivational behavior. While Npas1+ neurons have been characterized in the globus pallidus external, there is limited information on these neurons in the VP. To address this limitation, we evaluated the projection targets of the VP Npas1+ neurons and performed RNA-seq on ribosome-associated mRNA from VP Npas1+ neurons to determine their molecular identity. Finally, we used a chemogenetic approach to manipulate VP Npas1+ neurons during social defeat stress (SDS) and behavioral tasks related to anxiety and motivation in Npas1-Cre mice. We employed a similar approach in females using the chronic witness defeat stress (CWDS). We identified VP Npas1+ projections to the nucleus accumbens, ventral tegmental area, medial and lateral habenula, lateral hypothalamus, thalamus, medial and lateral septum, and periaqueductal gray area. VP Npas1+ neurons displayed distinct transcriptomes representing distinct biological processes. Chemogenetic activation of VP Npas1+ neurons increased susceptibility to a subthreshold (S)SDS and anxiety-like behavior in the elevated plus maze and open field while the inhibition of VP Npas1+ neurons enhanced resilience to chronic (C)SDS and CWDS. Thus, the activity of VP Npas1+ neurons modulates susceptibility to social stressors and anxiety-like behavior. Our studies provide new information into VP Npas1+ neuron circuitry, molecular identity, and their role in stress response.
PHB3 Regulates Lateral Root Primordia Formation via NO-mediated Degradation of AUX/IAAs
Authors: Li Shuna , Li Qingqing , Tian Xiao , Mu Lijun , Ji Meiling , Wang Xiaoping , Li Na , Liu Fei , Shu Jing , Crawford Nigel M. , Wang Yong 
Published: October 2021

AbstractWe previously showed that PHB3 regulates auxin-stimulated lateral root (LR) formation; however, the underlying molecular mechanism is unknown. Here, we demonstrate that PHB3 regulates LR development mainly through influencing lateral root primordia (LRP) initiation via affecting nitric oxide (NO) accumulation. The reduced LRP in phb3 was largely rescued by exogenous NO donor SNAP treatment. The decreased NO accumulation in phb3 caused a lower expression of GATA23 and LBD16 through inhibiting the degradation of IAA14/28. Overexpression of either GATA23 or LBD16 in phb3 mutant background recovered the reduced LRP number phenotype. These results indicate that PHB3 regulates LRP initiation via NO-mediated auxin signaling through regulating the degradation of IAA14/28.HighlightPHB3 regulates IAA28 and IAA14 degradation by controlling NO accumulation, and thereby regulating LR founder cell identification and the transition to asymmetric division.
Observation of non-dormant persister cells reveals diverse modes of survival in antibiotic persistence
Authors: Umetani Miki , Fujisawa Miho , Okura Reiko , Nozoe Takashi , Suenaga Shoichi , Nakaoka Hidenori , Kussell Edo , Wakamoto Yuichi 
Published: October 2021

AbstractBacterial persistence is a phenomenon in which a small fraction of isogenic bacterial cells survives a lethal dose of antibiotics. It is generally assumed that persistence is caused by cells with inactive growth generated prior to drug exposure. However, evidence from direct observation is scarce due to the extremely low frequencies of persisters. Here, we visualize the responses of more than 106 individual cells of wildtype Escherichia coli to lethal doses of antibiotics, sampling cells from different growth phases and culture media. We show that preexisting growth-arrested dormant persisters constitute only minor fractions of persistent cell lineages in populations sampled from exponential phase. Non-dormant persisters survive with radical morphological changes in response to drug exposure, including L-form-like morphologies or filamentation. Incubating cells under stationary phase conditions increases both the frequency and the probability of survival of dormant cells. While dormant cells in late stationary phase express a general stress response regulator, RpoS, at high levels, persistent cell lineages show lower levels of RpoS among the dormant cells. These results demonstrate that diverse survival pathways coexist within bacterial populations to achieve persistence and that persistence does not necessarily require dormant cells.
When inefficient speech-motor control affects speech comprehension: atypical electrophysiological correlates of language prediction in stuttering
Authors: Gastaldon Simone , Busan Pierpaolo , Arcara Giorgio , Peressotti Francesca 
Published: October 2021

AbstractIt is well attested that people predict forthcoming information during language comprehension. The literature presents different proposals on how this ability could be implemented. Here, we tested the hypothesis according to which language production mechanisms have a role in such predictive processing. To this aim, we studied two electroencephalographic correlates of predictability during speech comprehension ‒ pretarget alpha‒beta (8-30 Hz) power decrease and the post-target N400 event-related potential (ERP) effect, ‒ in a population with impaired speech-motor control, i.e., adults who stutter (AWS), compared to typically fluent adults (TFA). Participants listened to sentences that could either constrain towards a target word or not, allowing or not to make predictions. We analyzed time-frequency modulations in a silent interval preceding the target and ERPs at the presentation of the target. Results showed that, compared to TFA, AWS display: i) a widespread and bilateral reduced power decrease in posterior temporal and parietal regions, and a power increase in anterior regions, especially in the left hemisphere (high vs. low constraining) and ii) a reduced N400 effect (non-predictable vs. predictable). The results suggest a reduced efficiency in generating predictions in AWS with respect to TFA. Additionally, the magnitude of the N400 effect in AWS is correlated with alpha power change in the right pre-motor and supplementary motor cortex, a key node in the dysfunctional network in stuttering. Overall, the results support the idea that processes and neural structures prominently devoted to speech planning and execution support prediction during language comprehension.Significance StatementThe study contributes to the developing enterprise of investigating language production and comprehension not as separate systems, but as sets of processes which may be partly shared. We showed that a population with impaired speech-motor control, i.e., adults who stutter, are characterized by atypical electrophysiological patterns associated with prediction in speech comprehension. The results highlight that an underlying atypical function of neural structures supporting speech production also affects processes deployed during auditory comprehension. The implications are twofold: on the theoretical side, the study supports the need for a more integrated view of language comprehension and production as human capabilities, while on the applied and clinical side, these results might open new venues for efficient treatments of developmental stuttering.
Sustainability reporting in food industry: an innovative tool for enhancing financial performance
Authors: Buallay Amina 
Published: October 2021

PurposeThis study investigates the relationship between the level of sustainability reporting and Food Industry Performance (operational, financial and market).Design/methodology/approachUsing data culled from 1426 observations from 31 different countries for ten years (2008–2017), an independent variable derived from environmental, social, and corporate governance (ESG) score is regressed against dependent manufacture performance indicator variables [return on assets (ROA), Return on Equity (ROE) and Tobin’s Q (TQ)]. Two types of control variables complete the regression analysis in this study: firm-specific and macroeconomic.FindingsThe findings elicited from the empirical results demonstrate that there is a significant relationship between ESG and financial performance (ROE). However, there is no significant relationship between ESG and operational performance (ROA) and market performance (TQ).Originality/valueThis paper presents a new framework that considers sustainability reporting as an innovation tool, examining innovation in terms of its positive or negative impact on financial performance. It contributes to research on the innovation paradigm and knowledge management by highlighting the significance of sustainability reporting as a tool of innovation in enhancing the financial performance.
Not just food: Exploring the influence of food blog engagement on intention to taste and to visit
Authors: Mainolfi Giada , Marino Vittoria , Resciniti Riccardo 
Published: October 2021

PurposeThe present study investigates the impact of perceived enjoyment, blogger credibility and homophily on readers' engagement. Moreover, the study investigates the role exerted by blog engagement on intentions to follow blogger's recommendations. Despite the growing relevance of these issues, past studies have neglected the relevance of a joint analysis of such dimensions within the context of food blogs.Design/methodology/approachThe empirical research builds on an online survey with a sample of 821 blog readers (353 Italian and 468 American). The proposed model was tested through structural equation modelling.FindingsResults from a survey on Italian and American consumers show that perceived enjoyment and homophily have a significant effect on blog engagement, which, in turn, positively influences both intention to taste and visit. Moreover, blogger credibility does not show a significant influence on blog engagement for Italian and American followers.Originality/valueThe study contributes to a better understanding of the influence exerted by blog engagement on intention to follow blogger's recommendations. The study also examines perceived enjoyment, credibility and homophily as antecedents of engagement, which have not been extensively researched in the past with respect to food blogs.
Addressing food loss and waste prevention
Authors: Kör Burcu , Krawczyk Adriana , Wakkee Ingrid 
Published: October 2021

PurposeFood waste is one of the most challenging issues humanity is currently facing. Therefore, there has been a growing interest in the prevention of food waste because of world hunger, environmental impacts, resource scarcity and economic costs. The purpose of the study is to investigate the factors that influence food waste and the role of technology in tackling food waste in India and the Netherlands.Design/methodology/approachIn order to explore differences in food loss and waste further this study will examine a number of practices on both the production and the consumer side, in a developing country and a developed country with different culture/economic backgrounds: India and the Netherlands. The factors that influence food waste were examined with a preliminary qualitative study, which consists of semi-structured interviews, and quantitative research that comprises a survey. Semi-structured interviews were conducted in both India and the Netherlands, which consists of five interviews. The survey data was collected from 78 individuals from India and 115 individuals from the Netherlands.FindingsOne of the main findings of the research is food waste is divided into waste within agricultural production (i.e. food loss) and final household consumption (i.e. food waste). Different factors influence food loss in different stages in the supply chain. Some of these factors include wastage during processing, storage, transportation and at the market-place. New technologies can utilize food loss for new purposes, so food loss is reduced to the minimum. Food waste is mainly influenced by food passing expiry date, food that is left too long in the fridge and consumers buying too much food. In final household consumption, technologies such as digital platforms enable individuals or organizations to share and donate their food, thereby creating awareness on food waste prevention and the environmental and ethical benefits.Originality/valueThe authors examine to what extent and in which ways supporting consumers to minimize food waste can be achieved via three stages: (1) understanding and evaluating food loss and waste, (2) identifying the factors that influence food loss and waste, (3) understanding consumer behaviors to encourage food waste reduction and (4) identifying the technological impact that would reduce food waste. As such, this paper contributes to ongoing debates about food waste by looking at the role of context and culture and by exploring differences between developed and developing countries. Also, the authors advance the debate by exploring both the role of advanced technology such as blockchain and drones in both preventing loss and waste as well as non-technological mechanisms.
Factors influencing millennials' online healthy food information-sharing behaviour during the Covid-19 pandemic
Authors: Sumaedi Sik , Sumardjo  , Saleh Amiruddin , Syukri Agus Fanar 
Published: October 2021

PurposeDuring Covid-19 pandemic, Millennials, which are familiar with the Internet, may contribute in facing the pandemic by consistently sharing healthy food information. Thus, it is important to improve Millennials online healthy food information-sharing behaviour during the Covid-19 pandemic. This research aims to examine the simultaneous effects of e-health literacy, knowledge of the digital health communication media (DHCM) use, facilitating conditions, information quality and source credibility on Millennials' online healthy food information-sharing behaviour during the Covid-19 pandemic.Design/methodology/approachA survey was performed to collect the data. The respondents of the survey are 205 DHCM millennial users who lived in Tangerang Regency and Tangerang City, Indonesia. This research performed a multiple regression analysis to test the conceptual model and proposed hypotheses.FindingsMillennials' online healthy food information-sharing behaviour during the Covid-19 pandemic was significantly affected by perceived threat of Covid-19, knowledge of the DHCM use and the facilitating conditions. However, it was not significantly affected by e-health literacy, information quality and source credibility.Research limitations/implicationsThis research employed a purposive sampling technique. This research also was conducted only in Tangerang Regency and Tangerang City, Indonesia. In order to test the stability of the research findings, future research should be conducted in other contexts.Practical implicationsIn order to improve Millennials' online healthy food information-sharing behaviour during the Covid-19 pandemic, it was essential to educate Millennials on the importance of healthy food consumption during the Covid-19 pandemic and their relationships. It is also important to enrich Millennials' knowledge of reliable and trustworthy online health information sources, such as the DHCM, and the search method. Furthermore, the facilitating conditions of online healthy food information-sharing behaviour should be improved.Originality/valueIt is well known that online healthy food information-sharing behaviour is important during Covid-19 pandemic. However, there is lack of study that specifically focused on Millennials' online healthy food information-sharing behaviour during the Covid-19 pandemic. This paper is the first that develops and tests a model of Millennials' online healthy food information-sharing behaviour during the Covid-19 pandemic. The model can be used to understand the behaviour and develop intervention strategy.