bluuebunny/crossref_metadata_2025_split huggingface dataset:
High-Voltage Biomolecular Sensing Using a Bacteriophage Portal Protein Covalently Immobilized Within a Solid-State Nanopore
Authors: Mojtabavi Mehrnaz , Greive Sandra J. , Antson Alfred A. , Wanunu Meni 
Published: August 2022

AbstractThe application of nanopores as label-free, single-molecule biosensors for electrical or optical probing of structural features in biomolecules has been widely explored. While biological nanopores (membrane proteins and bacteriophage portal proteins) and solid-state nanopores (thin films and two-dimensional materials) have been extensively employed, the third class of nanopores known as hybrid nanopores, where an artificial membrane substitutes the organic support membrane of proteins, has been only sparsely studied, due to challenges in implementation. G20c portal protein contains a natural DNA pore that is used by viruses for filling their capsid with viral genomic DNA. We have previously developed a lipid-free hybrid nanopore by “corking” the G20c portal protein into a SiNx nanopore. Herein, we demonstrate that through chemical functionalization of the synthetic nanopore, covalent linkage between the solid-state pore and the G20c portal protein considerably improves the hybrid pore stability, lifetime, and voltage resilience. Moreover, we demonstrate electric-field-driven and motor protein-mediated transport of DNA molecules through this hybrid pore. Our integrated protein/solid-state hybrid nanopore can serve as a robust and durable framework for sensing and sequencing at high voltages, potentially providing higher resolution, higher signal-to-noise ratio, and higher throughput compared to the more conventional membrane-embedded protein platforms.
Multiplexed and millimeter-scale fluorescence nanoscopy of cells and tissue sections via prism-illumination and microfluidics-enhanced DNA-PAINT
Authors: Rames Matthew J , Kenison John , Heineck Daniel , Civitci Fehmi , Szczepaniak Malwina , Zheng Ting , Shangguan Julia , Zhang Yujia , Esener Sadik , Nan Xiaolin 
Published: August 2022

AbstractFluorescence nanoscopy has become increasingly powerful for biomedical research, but it has historically afforded a small field-of-view (FOV) around 50 µm x 50 µm at once and more recently up to ~200 µm x 200 µm. Efforts to further increase the FOV in fluorescence nanoscopy have thus far relied on the use of fabricated waveguide substrates, adding cost and sample constraints on the applications. Here we report PRism-Illumination and Microfluidics-Enhanced DNA-PAINT (PRIME-PAINT) for multiplexed fluorescence nanoscopy across millimeter-scale FOVs. Built upon the well-established prism-type total internal reflection microscopy, PRIME-PAINT achieves robust single-molecule localization with up to ~520 µm x 520 µm single FOVs and 25-40 nm lateral resolutions. Through stitching, nanoscopic imaging over mm2sample areas can be completed in as little as 40 minutes per target. An on-stage microfluidics chamber facilitates probe exchange for multiplexing and enhances image quality particularly for formalin-fixed paraffin-embedded (FFPE) tissue sections. We demonstrate the utility of PRIME-PAINT by analyzing ~106caveolae structures in ~1,000 cells and imaging entire pancreatic cancer lesions from patient tissue biopsies. By imaging from nanometers to millimeters with multiplexity and broad sample compatibility, PRIME-PAINT will be useful for building multiscale, Google-Earth-like views of biological systems.
Use of Ganoderma lucidum grown on agricultural waste to remove antibiotics from water
Authors: Salandez Vanessa , Emami Shiva , Taha Ameer Y. , Saponara Valeria La 
Published: August 2022

AbstractAntibiotic effluents from farming and medical applications into waterways pose serious risks for antibiotic drug resistance, promoting a need for effective strategies of removal from the environment. This experiment uses a novel mycoremediation approach to remove antibiotic contamination in synthetic wastewater. A white rot fungus, Ganoderma lucidum, was grown on biomass formed by agricultural waste from California (almond shells, fava bean stalks). Water containing or lacking Ganoderma lucidum was inoculated with twenty antibiotics from six different classes. The extent of antibiotic removal was measured at baseline and after 3 days with ultra-high pressure liquid chromatography coupled to tandem mass-spectrometry. In water containing Ganoderma lucidum mycelial biomass, we found a significant reduction compared to the baseline of the concentration in six (three quinolones and three sulfonamides) out of twenty tested antibiotics by Day 3, with normalized changes ranging from −24.4% to −82.4%. The mycelial biomass was particularly effective in reducing the presence of three quinolone antibiotics, a class of highly used antibiotics recalcitrant to processes in wastewater treatment plants. Our findings provide a novel approach to degrade certain antibiotics from water. This strategy could become a key component of removing antibiotic pollution using agricultural waste as part of the solution.
Structure of the Monkeypox profilin-like protein A42R reveals potential function differences from cellular profilins
Authors: Minasov George , Inniss Nicole L. , Shuvalova Ludmilla , Anderson Wayne F. , Satchell Karla J. F. 
Published: August 2022

ABSTRACTThe infectious disease human monkeypox is spreading rapidly in 2022 causing a global health crisis. The genomics of the monkeypox virus (MPXV) have been extensively analyzed and reported, although little is known about the virus-encoded proteome. In particular, there is almost no structure information about MPXV proteins, other than computational models. Here we report a 1.52 Å x-ray structure of the MPXV protein A42R, the only MPXV-encoded protein with a known structure. This protein shows sequence similarity to profilins, which are cellular proteins known to function in regulation of actin cytoskeletal assembly. However, structural comparison of the A42R with known members of the profilin family reveals critical differences that support prior biochemical findings that this protein only weakly binds actin and does not bind poly(L-proline). In addition, the analysis suggests that this protein may have distinct interactions with phosphatidylinositol lipids. Overall, our data suggest that the role of A42R in replication of orthopoxviruses may not be easily determined by comparison to cellular profilins. Further, our findings support a need for increased efforts to determine high-resolution structures of other MPXV proteins to inform physiological studies of the poxvirus infection cycle and to reveal potential new strategies to combat human monkeypox should the infection become more common in the future.
Pacsin 2-dependent N-cadherin internalization regulates the migration behaviour of malignant cancer cells
Authors: Wint Haymar , Li Jianzhen , Abe Tadashi , Yamada Hiroshi , Nasu Yasutomo , Watanabe Masami , Takei Kohji , Takeda Tetsuya 
Published: August 2022

AbstractCell migration is essential for both physiological and pathological processes such as embryonic morphogenesis, wound repair and metastasis of cancer cells. Collective cell migration is the coordinated movement of multiple cells connected with cadherin-based adherence junctions. Cadherins undergo dynamic intracellular trafficking and their surface level is determined by a balance between endocytosis, recycling and degradation. However, regulatory mechanisms of cadherin turnover in the collective cell migration remain to be elucidated.In this study, we show that a BAR domain protein pacsin 2 plays an essential role in collective cell migration by regulating the internalization of N-cadherin in human bladder cancer cells T24. Pacsin 2 and its associating GTPase dynamin 2 colocalized with N-cadherin at the cell periphery in T24 cells. Depletion of either pacsin 2 or dynamin 2 induced interdigitating cell-cell contacts enriched with N-cadherin. Imaging analyses of the wound healing assay showed that pacsin 2-depleted T24 cells migrated in a collective and directed manner in contrast with randomly migrating control cells. Furthermore, cell-surface biotinylation assay showed that internalization of N-cadherin is attenuated in pacsin 2-depleted cells. Interestingly, the GST-pulldown assay demonstrated that the SH3 domain of pacsin 2 binds to the cytoplasmic domain of N-cadherin, suggesting that surface levels of N-cadherin are regulated by pacsin 2-mediated endocytosis. These data support new insights into a novel endocytic route of N-cadherin in collective cell migration providing pacsin 2 as a possible therapeutic target for cancer metastasis.
Human immune and gut microbial parameters associated with inter-individual variations in COVID-19 mRNA vaccine-induced immunity
Authors: Hirota Masato , Tamai Miho , Yukawa Sachie , Taira Naoyuki , Matthews Melissa M. , Toma Takeshi , Seto Yu , Yoshida Makiko , Toguchi Sakura , Miyagi Mio , Mori Tomoari , Tomori Hiroaki , Tamai Osamu , Kina Mitsuo , Sakihara Eishin , Yamashiro Chiaki , Miyagi Masatake , Tamaki Kentaro , Wolf Matthias , Collins Mary K. , Kitano Hiroaki , Ishikawa Hiroki 
Published: August 2022

AbstractCOVID-19 mRNA vaccines induce protective adaptive immunity against SARS-CoV-2 in most individuals, but there is wide variation in levels of vaccine-induced antibody and T-cell responses. However, factors associated with this inter-individual variation remain unclear. Here, using a systems biology approach based on multi-omics analyses of human blood and stool samples, we find that baseline expression of AP-1 transcription factors, FOS and ATF3, is inversely correlated with BNT162b2 mRNA vaccine-induced T-cell responses. FOS expression is associated with transcription modules related to baseline immunity, but it is negatively associated with those related to T-cell activation upon BNT162b2 mRNA stimulation. Interestingly, the gut microbial fucose/rhamnose degradation pathway is positively correlated with FOS and ATF3 expression and inversely correlated with BNT162b2-induced T-cell responses. Taken together, these results demonstrate that baseline expression of AP-1 genes, which is associated with the gut microbial fucose/rhamnose degradation pathway, is a key negative correlate of BNT162b2-induced T-cell responses.
Constitutive activation of TORC1 signaling attenuates virulence in the cross-kingdom fungal pathogen Fusarium oxysporum
Authors: Navarro-Velasco Gesabel Yaneth , Di Pietro Antonio , López-Berges Manuel Sánchez 
Published: August 2022

ABSTRACTThe filamentous fungus Fusarium oxysporum causes vascular wilt disease in a wide range of plant species and opportunistic infections in humans. Previous work suggested that invasive growth in this pathogen is controlled by environmental cues such as pH and nutrient status. Here we investigated the role of Target Of Rapamycin Complex 1 (TORC1), a global regulator of eukaryotic cell growth and development. Inactivation of the negative regulator Tuberous Sclerosis Complex 2 (Tsc2), but not constitutive activation of the positive regulator Gtr1, in F. oxysporum resulted in inappropriate activation of TORC1 signaling under nutrient limiting conditions. The tsc2Δ mutants showed reduced colony growth on minimal medium with different nitrogen sources and increased sensitivity to cell wall or high temperature stress. Furthermore, these mutants were impaired in invasive hyphal growth across cellophane membranes and exhibited a marked decrease in virulence, both on tomato plants and on the invertebrate animal host Galleria mellonella. Importantly, invasive hyphal growth in tsc2Δ strains was rescued by rapamycin-mediated inhibition of TORC1. Collectively, these results reveal a key role of TORC1 signaling in development and pathogenicity of F. oxysporum and suggest new potential targets for controlling fungal infections.AUTHOR SUMMARYFilamentous fungal pathogens cause devastating losses in agriculture and lethal infections in humans. A prerequisite of fungal infection is invasive hyphal growth, a process that is exquisitely controlled by environmental cues including nutrients and host signals. Here we examined the role of TOR complex 1 (TORC1), a conserved pathway that regulates cell growth in response to nutrient status. We show that deregulation of TORC1 signaling impairs pathogenicity in Fusarium oxysporum, a cross-kingdom fungal pathogen that attacks more than 150 different crops as well as immunocompromised humans. Inactivation of Tsc2, a negative regulator of TORC1, led to constitutive TORC1 activation, reduced growth under nutrient-limiting conditions and increased sensitivity to cell wall stress. Importantly, tsc2Δ mutants were impaired in invasive hyphal growth and in virulence on plant and animal hosts. Our results support a conserved role of TORC1 as a negative regulator of pathogenicity-related functions and reveal new leads for antifungal drug discovery.
Protein Geometry, Function and Mutation
Authors: Penner Robert 
Published: August 2022

AbstractThis survey for mathematicians summarizes several works by the author on protein geometry and protein function with applications to viral glycoproteins in general and the spike glycoprotein of the SARS-CoV-2 virus in particular. Background biology and biophysics are sketched. This body of work culminates in a postulate that protein secondary structure regulates mutation, with backbone hydrogen bonds materializing in critical regions to avoid mutation, and disappearing from other regions to enable it.
Differential axonal trafficking of Neuropeptide Y-, LAMP1- and RAB7-tagged organelles in vivo
Authors: Nassal Joris P. , Murphy Fiona H. , Toonen Ruud F. , Verhage Matthijs 
Published: August 2022

AbstractDifferent organelles traveling through neurons exhibit distinct properties in vitro, but this has not been investigated in the intact brain. We established simultaneous dual color 2- photon microscopy to visualize the trafficking of Neuropeptide Y-, LAMP1- and RAB7- tagged organelles in thalamocortical axons imaged in mouse cortex in vivo. This revealed that LAMP1- and RAB7-tagged organelles move significantly faster than NPY tagged organelles in both anterograde and retrograde direction. NPY travelled more selectively in anterograde direction than LAMP1 and RAB7. By using a synapse marker and a calcium sensor we further investigated the transport dynamics of NPY-tagged organelles. We found that these organelles slow down and pause at synapses. In contrast to previous in vitro studies, a significant increase of transport speed was observed after spontaneous activity and elevated calcium levels in vivo as well as electrically stimulated activity in acute brain slices. Together, we show a remarkable diversity in speeds and properties of three axonal organelle marker in vivo that differ from properties previously observed in vitro.
Optimization analysis of grain self-production and import structure based on carbon footprint
Authors: Zhang Hua , Zhao Fang , Han Kexuan 
Published: August 2022

PurposeThe purpose of this paper is to reduce the carbon footprint of food by adjusting the international trade and planting structure and to provide possible ideas for the improvement of the world's food green production and green trade.Design/methodology/approachUsing the literature analysis method to collect carbon footprint data calculated based on the life cycle assessment (LCA) method, and establishing an optimization model and an ARIMA prediction model for empirical analysis, this paper explores the possibility to reduce carbon emissions by adjusting import structure and self-production structure.FindingsThe results show that only through the adjustment of the import structure, carbon emissions can be reduced by 3.29 million tons at the source of imports. When domestic self-production is included, a total of 4.51 million tons of carbon emissions can be reduced, this provides ideas for low-carbon emission reduction in agriculture and animal husbandry.Originality/valueThis article is the first to use the carbon footprint data obtained by other scholars using LCA to optimize and analyze the grain trade structure and planting structure from a low-carbon perspective, and obtain specific emission reductions.
Myths and ceremonies among the corporate governance institutions: introducing the concept of corporate governance culture
Authors: Klepczarek Emilia 
Published: August 2022

Purpose
The purpose of this study is to provide the conditions for governance effectiveness and explain why the same rules often result in not the same norms.

Design/methodology/approach
The author proposes a “corporate governance culture” concept explaining the differences within corporate governance institutions and making it possible to measure their effectiveness. Based on a literature review that included 186 research studies published in the corporate governance field, the author found that most (160) concern structural numerical variables. Only 26 refer to behavioural and cultural issues, and they support the idea of an interdisciplinary approach to governance problems.

Findings
A significant contribution of this paper is that it proposes an integrative framework that operationalises psychological, sociological and philosophical issues that influence corporate governance mechanisms. The proposed concept can reanimate the debate about the need for tight governance regulations or leaving room for a loose governance regime.

Originality/value
The idea of “corporate governance culture” explains the divergences identified in studies on corporate governance mechanisms, pointing out behavioural and cultural issues as crucial aspects of governance bodies.
A sentiment analysis of Michelin-starred restaurants
Authors: Rita Paulo , Vong Celeste , Pinheiro Flávio , Mimoso João 
Published: August 2022

PurposeWith the growing popularity of social media, it has become common practice for consumers to write online reviews to share their opinion and experience as well as consider others' reviews to inform purchase decision-making. This study investigated how online review sentiments towards four key aspects (food, service, ambience and price) change after a restaurant is awarded a Michelin Star to shed light on how the award of a Michelin Star affects online reviews as well as what factors contribute to positive online restaurant reviews.Design/methodology/approachThe authors conducted a sentiment analysis of online restaurant reviews on TripAdvisor. A total of 8,871 English-written reviews from 87 restaurants located in Europe were extracted using a web crawler developed by Beautiful Soup, and data were then processed using Semantria.FindingsThe study findings revealed that overall sentiments decreased after restaurants were awarded a Michelin Star, in which service sentiment was the most affected aspect, followed by food and ambience. Yet, price sentiment showed a prominent increase. This provides valuable insights for Michelin-starred restaurant operators and owners to create a unique and compelling gastronomic experience that triggers positive online reviews.Practical implicationsThe results of this study argue that consumers tend to hold higher expectations for this type of upscale restaurants given its recognition and quality assurance, so they are more likely to have negative feelings when their expectations are disconfirmed. Therefore, restaurants should continuously improve their food and service while paying attention to small details such as ambience, through creativity and innovation. Also, high-end restaurants, especially Michelin-starred restaurants, usually have the edge in premium pricing, yet competitive pricing may backfire considering its perceived luxurious values.Originality/valueThis study analyzed changes in customer sentiments when a restaurant is awarded a Michelin Star through text analytics. Through the lens of online restaurant reviews, the study findings contribute to identifying aspects that are most or least affected by the award of a Michelin Star as well as highlight the role of ambience in customer satisfaction which might have been overlooked in previous studies.
Cultural intelligence and innovative work behavior: examining multiple mediation paths in the healthcare sector in India
Authors: Jain Priyanka 
Published: August 2022

PurposeThe purpose of this study is to look at numerous mediating factors that influence innovative work behavior through cultural intelligence (CQ). The author specifically examines affective commitment, interpersonal trust and psychological well-being as three mediating pathways through which CQ predicts innovative work behavior (IWB).Design/methodology/approachData was collected from 355 employees working in the health-care sector of India through convenience sampling.FindingsAffective commitment, interpersonal trust and psychological well-being mediated the relationship between CQ and innovative work behavior. In addition, CQ positively relates to affective commitment (AC), interpersonal trust and psychological well-being and IWB.Practical implicationsManagers and human resource (HR) professionals can potentially stimulate employee innovation by developing cultural awareness programs for their employees. An organization must seek to provide a sense of attachment, a trustworthy environment and a favorable perception of psychological well-being to its employees. This could stimulate innovation in the health-care sector.Originality/valueAlthough understanding the mechanism or processes by which CQ supports IWB is critical, research in this area is limited. This study theorizes and empirically examines affective commitment, interpersonal trust and psychological well-being as novel mechanisms through which CQ promotes innovative behavior in health-care organizations. Furthermore, the author presume that the intervening mediators guide the direction of social exchange.
Factors affecting Chinese people’s intention to adopt the individual dining style
Authors: Huang Jue , Chu Jing , Zhao Xialing 
Published: August 2022

Purpose
In light of the threat posed by the COVID-19 pandemic, Chinese authorities have called for the adoption of the individual dining style (IDS) as a preventive measure for the pandemic and a new norm for civilized code of conduct. Accordingly, this study aims to investigate the factors influencing the Chinese people’s intention to adopt the IDS.

Design/methodology/approach
The authors applied the capability, opportunity and motivation model of behavior (COM-B) and identified potential predictors influencing the intention to adopt the IDS through a review of the literature. Data were collected through an online survey, and structural equation modeling was applied to test the hypotheses.

Findings
The results indicated that the most influential predictors were subjective norm, social norm, perceived benefit and past behavior, while the other predictors (including breaking habits, communal dining culture, perceived behavioral control, perceived health risk and social risk) had insignificant effects on the intention to adopt IDS.

Practical implications
First, educational public health messages should communicate the benefits of IDS. Second, persuasive public communication should focus on how people are implementing the target behavior rather than drawing attention to a minority who are disregarding it. Moreover, given the highly significant effects of subjective norm, public health campaigns should emphasize that adoption of the desired behavior expresses care for significant others.

Originality/value
The findings advance understanding of an underexplored topic, namely, how deeply ingrained ways of dining may be transformed in the current context. Applying the COM-B, the authors tested multiple variables to explain the intention to adopt IDS. The results suggest that some social influences (subjective norm and social norm) and reflective cognitive processes (perceived benefit) had the greatest impacts on behavior intentions. Moreover, the results indicate that threat of COVID-19 may not prompt people to change their dining styles. However, the benefits of IDS to prevent the spread of infectious diseases could lead to its wider adoption.