bluuebunny/crossref_metadata_2025_split huggingface dataset:
Label-Free Composition Analysis of Supramolecular Polymer – Nanoparticle Hydrogels by Reversed-Phase Liquid Chromatography Coupled with a Charged Aerosol Detector
Authors: Tang Shijia , Pederson Zachary , Meany Emily L. , Yen Chun-Wan , Swansiger Andrew K. , Prell James S. , Chen Bifan , Grosskopf Abigail K. , Eckman Noah , Jiang Grace , Baillet Julie , Pellett Jackson D. , Appel Eric A. 
Published: August 2023

AbstractSupramolecular hydrogels formed through polymer-nanoparticle interactions are promising biocompatible materials for translational medicines. This class of hydrogels exhibits shear-thinning behavior and rapid recovery of mechanical properties following applied stresses, providing desirable attributes for formulating sprayable and injectable therapeutics. Characterization of hydrogel composition and loading of encapsulated drugs is critical to achieving desired rheological behavior as well as tunable in vitro and in vivo payload release kinetics. However, quantitation of hydrogel compositions is challenging due to material complexity, heterogeneity, high molecular weight, and the lack of chromophores. Here, we present a label-free approach to simultaneously determine hydrogel polymeric components and encapsulated payloads by coupling a reversed phase liquid chromatographic method with a charged aerosol detector (RPLC-CAD). The hydrogel studied consists of modified hydroxypropylmethylcellulose, self-assembled PEG-b-PLA nanoparticles, and a therapeutic compound, Bimatoprost. The three components were resolved and quantitated using the RPLC-CAD method with a C4 stationary phase. The method demonstrated robust performance, applicability to alternative cargos (i.e. proteins), and was suitable for composition analysis as well as for evaluating in vitro release of cargos from the hydrogel. Moreover, this method can be used to monitor polymer degradation and material stability, which can be further elucidated by coupling the RPLC method with high resolution mass spectrometry and a Fourier-transform based deconvolution algorithm. To our knowledge, this is the first RPLC-CAD method for characterizing the critical quality attributes of supramolecular hydrogels. We envision this analytical strategy could be generalized to characterize other classes of supramolecular hydrogels, establish structure-property relationships, and provide rational design guidance in hydrogel drug product development.
Aminomutation catalyzed by CO2self-sufficient cascade amino acid decarboxylases
Authors: Song Zhan , Li Yuan , Li Yunjie , Cui Xiangwei , Zhong Jian-Jiang , Zhang Yi-Heng P. J. 
Published: August 2023

AbstractMolecular editing of an amino group from α-position of amino acids to its β-position is of scientific interest and could be economically appealing. Here we reconstructed anin vitrobiotransformation pathway composed of two cascade decarboxylases, i.e., aspartate β-decarboxylase and aspartate α-decarboxylase, and implemented molecular editing to change α-alanine into β-alanine. In it, we discovered a new reaction of aspartate β-decarboxylase that can fix CO2directly. This cascade enzymatic pathway enabled an aminomutation reaction with 100% carbon atom economy. This work presented the first CO2-fixing biological reaction catalyzed by the amino acid decarboxylases and demonstrated a new means for the molecular editing of α-amino acids.
The defensome of complex bacterial communities
Authors: Beavogui Angelina , Lacroix Auriane , Wiart Nicolas , Poulain Julie , Delmont Tom O. , Paoli Lucas , Wincker Patrick , Oliveira Pedro H. 
Published: August 2023

AbstractBacteria have developed various defense mechanisms to avoid infection and killing in response to the fast evolution and turnover of viruses and other genetic parasites. Such pan-immune system (ordefensome) encompasses a growing number of defense lines that include well-studied innate and adaptive systems such as restriction-modification, CRISPR-Cas and abortive infection, but also newly found ones whose mechanisms are still poorly understood. While the abundance and distribution of defense systems is well-known in complete and culturable genomes, there is a void in our understanding of their diversity and richness in complex microbial communities. Here we performed a large-scale in-depth analysis of the defensomes of 7,759 high-quality bacterial population genomes reconstructed from soil, marine, and human gut environments. We observed a wide variation in the frequency and nature of the defensome among large phyla, which correlated with lifestyle, genome size, habitat, and geographic background. The defensome’s genetic mobility, its clustering in defense islands, and genetic variability was found to be system-specific and shaped by the bacterial environment. Hence, our results provide a detailed picture of the multiple immune barriers present in environmentally distinct bacterial communities and set the stage for subsequent identification of novel and ingenious strategies of diversification among uncultivated microbes.
PRDM16 co-operates with LHX2 to shape the human brain
Authors: Suresh Varun , Bhattacharya Bidisha , Tshuva Rami Yair , Danan Gotthold Miri , Olender Tsviya , Bose Mahima , Pradhan Saurabh J. , Ben Zeev Bruria , Smith Richard Scott , Tole Shubha , Galande Sanjeev , Harwell Corey , Baizabal José-Manuel , Reiner Orly 
Published: August 2023

AbstractPRDM16 is a dynamic transcriptional regulator of various stem cell niches, including adipocytic, hematopoietic, cardiac progenitors, and neural stem cells. PRDM16 has been suggested to contribute to 1p36 deletion syndrome, one of the most prevalent subtelomeric microdeletion syndromes. We report a patient with a de novo nonsense mutation in the PRDM16 coding sequence, accompanied by lissencephaly and microcephaly features. Human stem cells were genetically modified to mimic this mutation, generating cortical organoids that exhibited altered cell cycle dynamics. RNA sequencing of cortical organoids at day 32 unveiled changes in cell adhesion and WNT-signaling pathways. ChIP-seq of PRDM16 identified binding sites in postmortem human fetal cortex, indicating the conservation of PRDM16 binding to developmental genes in mice and humans, potentially at enhancer sites. A shared motif between PRDM16 and LHX2 was identified and further examined through comparison with LHX2 ChIP-seq data from mice. These results suggested a collaborative partnership between PRDM16 and LHX2 in regulating a common set of genes and pathways in cortical radial glia cells, possibly via their synergistic involvement in cortical development.
Overexpression of tomatoSlBBX16andSlBBX17impacts fruit development and gibberellin metabolism
Authors: Dusi Valentina , Pennisi Federica , Fortini Daniela , Atarés Alejandro , Wenkel Stephan , Molesini Barbara , Pandolfini Tiziana 
Published: August 2023

AbstractBBXs are B-Box zinc finger proteins that can act as transcription factors and regulators of protein complexes. Several BBX proteins play important roles in plant development. TwoArabidopsis thalianamicroProteins belonging to the BBX family, named miP1a and miP1b, homotypically interact with and modulate the activity of other BBX proteins, including CONSTANS, which transcriptionally activates the florigen,FLOWERING LOCUS T. In tomato, the closest homologs of miP1a and miP1b are the microProteinsSlBBX16 andSlBBX17. To deepen our understanding of the role of tomato microProteins in flowering, we constitutively expressedSlBBX16/17 inArabidopsisand tomato and examined possible interacting partners. Overexpression of the two tomato microProteins inArabidopsiscaused a delay in the flowering transition; however, the effect was weaker than that observed inArabidopsisplants overexpressing the native miP1a/b. In tomato, overexpression ofSlBBX17prolonged the flowering period; this effect was accompanied by downregulation of the flowering inhibitorsSelf Pruning(SP) andSP5G.SlBBX16 andSlBBX17 are able to hetero-oligomerize with TCMP-2, a cystine-knot peptide involved in flowering pattern and fruit development in tomato. Increasing the expression of both tomato microProteins also caused alterations in fruit development: overexpression ofSlBBX17resulted in a diminished number and size of ripe fruits as compared to WT plants, while overexpression ofSlBBX16caused delayed fruit production up to the breaker stage. These effects were associated with changes in the expression of genes regulating gibberellin content.
Worms on the Cape: an integrative survey of polydorid infestation in wild and cultivated oysters (Crassostrea virginica) from Massachusetts, USA
Authors: Davinack Andrew A. , Strong Margaret , Brennessel Barbara 
Published: August 2023

AbstractPolydorid infestations pose a significant challenge to shellfish aquaculture by impacting marketability and profitability of farms. In this study, we investigated the prevalence, intensity, identity and biogeography of shell-boring worms infecting both farmed and wild oysters (Crassostrea virginica) from three sites in Wellfleet Harbor, Massachusetts – an economically important shellfishing region in the northeastern United States. DNA barcoding revealed thatPolydora websteriwas the sole culprit responsible for infecting oysters from all three sites, reaching maximum prevalence (100% infection) and intensity (mean intensity: 38.63) in the Herring River. The oysters in the Herring River are subjected to restricted tidal flow due to the presence of a physical barrier (dike), and this could be responsible for the high infestation levels ofP. websteriobserved in this population. In addition, a population genetic analysis incorporating COI sequence data from WellfleetP. websteriin addition to newly published sequences from the Black Sea and the Sea of Azov found very low levels of genetic differentiation across several intercontinental populations (0.000 – 0.399), which is likely being driven by multiple introductory events such as oyster importations. These findings are discussed in relation to the future of shellfish aquaculture in the United States.
Age-associated failure of efficient cardiac proteostatic adaptations to chronic cAMP-stress is associated with accelerated heart aging
Authors: Perino Maria Grazia , Barrera Miguel Calvo-Rubio , Riordon Daniel R. , Agnetti Giulio , Parveen Admira , Morrell Christopher H. , Ahmet Ismayil , Chakir Khalid , Tarasova Yelena S. , Qu Jia-Hua , Tarasov Kirill V , Lyashkov Alexey E. , Lukyanenko Yevgeniya O. , Kadioglu Hikmet , Ranek Mark , deCabo Rafael , Lakatta Edward G. 
Published: August 2023

ABSTRACTDysregulated proteostasis, leading to accumulation of misfolded proteins, electron-dense aggregates (lipofuscin, LF), preamyloid oligomers (PAOs), and proteotoxic stress is a hallmark of aging. We investigated how efficiently proteostatic adaptations to chronic cardiac cyclic adenosine monophosphate (cAMP)-dependent stress change with aging in mice harboring marked, cardiac-specific over-expression of adenylyl cyclase VIII (TGAC8). We assessed protein quality control (PQC) mechanisms: ubiquitin proteasome system (UPS), autophagic flux via macroautophagy, and mitophagy in left ventricles (LVs) of TGAC8and wild type littermates (WT) at 3-4 months and at 17-21 months of age. At 3-4 months of age TGAC8mice exhibited markers of increased autophagic flux, measured by levels of microtubule-associated protein 1 light chain 3 (LC3), p62, and their phospho-forms in TGAC8LV; cathepsin L1 activity was also significantly increased. In addition, canonical mitophagy signaling was enhanced, as receptors PARKIN, p62S405and p62S351were all upregulated, confirming a more efficient proteostasis in TGAC8at 3-4 months vs WT. In advanced age, however, the PQC mechanisms were overwhelmed by proteotoxic stress, manifested in insufficient proteasome activity and an unbalanced autophagic flux (accelerated for markers such as LC3A in the context of a sloweroverallflux), leading to an increase in the accumulation of protein aggregates (increased ratio of insoluble/soluble protein fractions). Although both canonical (PARKIN, p62S405and p62S351receptors) and non-canonical (FKBP8 receptor) mitophagy signaling were upregulated in advanced age in TGAC8, mitophagy was markedly impaired and mitochondrial dysfunction increased. Accumulation of LF bodies, of brownish-to-black pigments, and of LC3+and p62+-inclusions of aberrant sizes, of desmin cardiac preamyloid oligomers (PAOs) and of cleaved desmin, tagged for ubiquitination, were all increased in TGAC8compared to young TGAC8. In contrast, the rate of protein synthesis and levels of soluble aggregates were reduced in aged vs young TGAC8, a sign of “normal” aging. Thus, increased proteostatic mechanisms maintain cardiac health in TGAC8in youth (3-4 months), but long-term exposure to chronic cardiac stress, imposed by sustained activation of the AC/cAMP/PKA/Ca2+signaling axis, results in severely dysregulated proteostasis in TGAC8vs WT mice, associated with proteostatic insufficiency and increased cardiomyopathy that leads to accelerated cardiac aging.GRAPHICAL ABSTRACT
Does pickup service quality explain BOPIS users' store relationship performance? The moderating role of users' service experience consciousness
Authors: Natarajan Thamaraiselvan , Veera Raghavan Deepak Ramanan 
Published: August 2023

PurposeBuilding on Stimulus-Organism-Response theory, the current study examines the influence of pickup service quality in buy-online pickup in-store service (BOPIS) on users' perceived relationship investment with the mediating role of users' perceived experience quality and relationship proneness. This research also demonstrates the subsequent impact of BOPIS users' perceived relationship investment on their relationship performance indicators, like their cross-buying behaviors (breadth), frequency of their purchase (depth) and longevity of their relationship (length) with the store. The moderating role of BOPIS users' service experience consciousness in a few proposed relationships was tested.Design/methodology/approachThe research is descriptive, quantitative and cross-sectional investigation. The study employed a purposive sampling technique. It was conducted using data collected using a validated self-administered questionnaire from 786 Indian omnichannel shoppers who have used BOPIS services in the past. The proposed conceptual model was tested using Partial Least Squares-Structural Equation Modeling.FindingsThe results indicate that BOPIS users' perceived experience quality and relationship proneness positively mediate pickup service quality and perceived relationship investment. The users' perceived relationship investment subsequently significantly positively impacts different dimensions of their relationship performance with the store (breadth, depth and length). Additionally, BOPIS users' service experience consciousness has a significant negative moderating effect on the direct relationship between pickup service quality and different dimensions of relationship performance.Research limitations/implicationsThe study is conducted in the Indian population, where omnichannel retailing is still nascent.Originality/valueThis study addresses the need to investigate the relationship performance indicators of BOPIS users, like their cross-buying behaviors(breadth), frequency of their purchase(depth) and longevity of their relationship(length) with the store. This study is the first to show that pickup service quality might explain the relationship performance of BOPIS users through their perceived experience quality, relationship proneness and relationship investments. The moderating role of BOPIS users' service experience consciousness in a few proposed relationships was also tested for the first time.
Three‐axis borehole gravity monitoring for CO2 storage using machine learning coupled to fluid flow simulator
Authors: Alyousuf Taqi , Li Yaoguo , Krahenbuhl Richard , Grana Dario 
Published: August 2023

AbstractThe field of geophysics faces the daunting task of monitoring complex reservoir dynamics and imaging carbon dioxide storage up to several decades into the future. This presents numerous challenges, including sensitivity to parameter changes, resolution of obtained results and the cost of long‐term deployment. To effectively store CO2 subsurface, it is necessary to monitor and account for the injected CO2. The gravity method provides several advantages for CO2 monitoring, as changes in fluid saturation correspond directly and uniquely to observed density changes. Three‐axis borehole gravity has demonstrated significant promise as a next‐generation tool for reliably monitoring reservoir dynamics across a range of depths and sizes. However, the gravity inverse problem is highly ill‐posed, necessitating regularization that incorporates prior knowledge. To address this issue, we propose using a feed‐forward neural network, a machine learning method, to invert time‐lapse three‐axis borehole gravity data and monitor CO2 movement within a reservoir. By training the neural network on models that analyse changes in density and corresponding gravity responses resulting from perturbations made to the reservoir model, we can create scenarios that train the algorithm to identify unexpected CO2 migration in addition to the normal movement of CO2. Our method is demonstrated using reservoir models for the Johansen formation in offshore Norway. We convert reservoir saturation models into density changes and generate their corresponding three‐axis gravity data in a set of boreholes. Our results show that the developed machine learning inversion algorithm has high reliability and resolution for imaging density change associated with CO2 plumes, as demonstrated in the Johansen reservoir models utilized by the simulator. We also investigate machine learning inversion using regularization parameters and show that it is robust, with a strong tolerance for higher levels of noise. Our study demonstrates that the developed machine learning algorithm is a powerful tool for inverting three‐axis borehole gravity data and monitoring the migration and long‐term storage of injected CO2.
How artificial intelligence is reshaping the autonomy and boundary work of radiologists. A qualitative study
Authors: Lombi Linda , Rossero Eleonora 
Published: August 2023

AbstractThe application of artificial intelligence (AI) in medical practice is spreading, especially in technologically dense fields such as radiology, which could consequently undergo profound transformations in the near future. This article aims to qualitatively explore the potential influence of AI technologies on the professional identity of radiologists. Drawing on 12 in‐depth interviews with a subgroup of radiologists who participated in a larger study, this article investigated (1) whether radiologists perceived AI as a threat to their decision‐making autonomy; and (2) how radiologists perceived the future of their profession compared to other health‐care professions. The findings revealed that while AI did not generally affect radiologists’ decision‐making autonomy, it threatened their professional and epistemic authority. Two discursive strategies were identified to explain these findings. The first strategy emphasised radiologists’ specific expertise and knowledge that extends beyond interpreting images, a task performed with high accuracy by AI machines. The second strategy underscored the fostering of radiologists’ professional prestige through developing expertise in using AI technologies, a skill that would distinguish them from other clinicians who did not pose this knowledge. This study identifies AI machines as status objects and useful tools in performing boundary work in and around the radiological profession.
Identification of an odorant receptor responding to sex pheromones in Spodoptera frugiperda extends the novel type‐I PR lineage in moths
Authors: Zhang Sai , Jacquin‐Joly Emmanuelle , Montagné Nicolas , Liu Fang , Liu Yang , Wang Guirong 
Published: August 2023

AbstractIn moths, pheromone receptors (PRs) are crucial for intraspecific sexual communication between males and females. Moth PRs are considered as an ideal model for studying the evolution of insect PRs, and a large number of PRs have been identified and functionally characterized in different moth species. Moth PRs were initially thought to fall into a single monophyletic clade in the odorant receptor (OR) family, but recent studies have shown that ORs in another lineage also bind type‐I sex pheromones, which indicates that type‐I PRs have multiple independent origins in the Lepidoptera. In this study, we investigated whether ORs of the pest moth Spodoptera frugiperda belonging to clades closely related to this novel PR lineage may also have the capacity to bind type‐I pheromones and serve as male PRs. Among the 7 ORs tested, only 1 (SfruOR23) exhibited a male‐biased expression pattern. Importantly, in vitro functional characterization showed that SfruOR23 could bind several type‐I sex pheromone compounds with Z‐9‐tetradecenal (Z9‐14:Ald), a minor component found in female sex pheromone glands, as the optimal ligand. In addition, SfruOR23 also showed weak responses to plant volatile organic compounds. Altogether, we characterized an S. frugiperda PR positioned in a lineage closely related to the novel PR clade, indicating that the type‐I PR lineage can be extended in moths.
Pre‐ and post‐treatment FDG PET‐CT as a predictor of patient outcomes in anal squamous cell carcinoma: A systematic review and meta‐analysis
Authors: Mac Curtain Benjamin M , Qian Wanyang , Bell Jack , O'Mahony Aaron , Temperly Hugo C , Ng Zi Qin 
Published: August 2023

AbstractAnal squamous cell carcinoma (ASCC) has a generally acceptable outlook in terms of survival. 18‐fluorodeoxyglucose‐positron emission tomography/computer tomography (FDG PET‐CT) is not recommended for routine monitoring post‐ASCC treatment. We examine herein if FDG PET‐CT has a use in the prognostic evaluation of patients with ASCC, what FDG PET‐CT metrics are of value and if a pre‐ or post‐chemo/radiotherapy scan is more prognostic of outcomes. PubMed, EMBASE and Cochrane Central Registry of Controlled Trials were comprehensively searched until 3 May, 2023. A modified Newcastle Ottawa scale was used to assess for study bias. We present our systematic review alongside pooled hazard ratios (HR) for maximum standardised uptake values (SUV) as a predictor of overall survival (OS) and progression‐free survival (PFS). Seven studies including 523 patients were included in our systematic review. Current evidence suggests that SUV maximum and median, metabolic tumour volume, total lesion glycolysis and complete and partial metabolic response may be prognostic when considering overall or progression‐free survival (OS)/(PFS) along with local recurrence (LR). Pooled HR from two included studies indicate SUV max is prognostic of OS, HR 1.179, CI (1.039–1.338), P = 0.011 and PFS 1.176, CI (1.076–1.285), P < 0.01. FDG PET‐CT may have a role to play in the prognostic evaluation of ASCC patients. Current evidence suggests post‐treatment scanning may hold superior prognostic value at this time.