bluuebunny/crossref_metadata_2025_split huggingface dataset:
End‐to‐end generation of structural topology for complex architectural layouts with graph neural networks
Authors: Zhang Chong , Tao Mu‐Xuan , Wang Chen , Fan Jian‐Sheng 
Published: September 2023

AbstractCurrent automated structural topology design methods can only deal with limited design spaces or simplified architectural layouts for lack of data or a proper representation of structure topology. To address this, the abundant information of manually designed architectural and structural layouts should be exploited to guide the topology design. To achieve automatic generation of structural topologies according to real‐world architectural layouts, this research introduces StrucTopo‐generative adversarial network (GAN), an end‐to‐end generative model with node and edge generation stages based on proper graph representation. Nodes are generated using an image‐to‐image translation model, and edges are generated with a GAN‐based approach. The model is trained and tested on a dataset of 300 complex architectural and structural layouts. Measured against the manually designed topologies, the results indicate that the proposed model can generate reasonable structural topologies, with a recall of 97% and an intersection‐over‐union of 80% in node generation, with a precision of 92% and a recall of 91% in edge generation. Additionally, the joint generation shows a graph similarity of 72%. The proposed model is the first of its kind to consider complex architectural layout constraints in the generation of structural topology, marking a step forward in applying artificial intelligence to practical structural design.
Pelagianism Redivivus: The Free Will Theodicy for Hell, Divine Transcendence, and the End of Classical Theism
Authors: De La Noval Roberto J. 
Published: September 2023

AbstractThis article argues against the “free will theodicy” for hell. It demonstrates how St. Augustine and St. Thomas Aquinas considered this theodicy to be Pelagian and opposed to divine transcendence. It is shown that by claiming that God cannot cause the conversion of sinners without violating their freedom, the free will theodicy denies divine omnipotence, empties divine predestination of meaning, undermines the doctrine of creatio ex nihilo, and implicitly abandons key tenets of classical theism.
Pleuroperitoneal communication in a patient on automated peritoneal dialysis: A rare but important complication
Authors: Motta Guimarães Maria Gabriela , Tapioca Fernanda Pinheiro Martin , Peixoto Leonardo Matos , Teixeira Sheila Nunes Freitas , Passos Luiz Carlos Santana 
Published: September 2023

AbstractDespite its rare frequency, a pleuroperitoneal communication is a well‐documented complication for patients on peritoneal dialysis. It occurs in ~2% of continuous ambulatory peritoneal dialysis, with uncertain incidence for those on automated peritoneal dialysis. We report a case of a 30‐year‐old female patient with end‐stage kidney disease with sudden dyspnea 2 days after starting automated peritoneal dialysis. Her chest x‐ray revealed a significant pleural effusion on the right side. A thoracocentesis was performed, with a pleural glucose/plasma glucose of 1.08. Additionally, a computed tomography scan revealed a pleuroperitoneal communication upon dialysate infusion added with media contrast. A pleural‐to‐serum glucose gradient of greater than 50 mg/dL may indicate the diagnosis of a pleuroperitoneal communication in patients on peritoneal dialysis. Current literature also indicates that a pleural‐to‐serum glucose ratio above 1.0 may provide a more sensitive analysis. This case highlights the diagnosis process for this complication, with both laboratory and image findings corroborating the clinical hypotheses of a pleuroperitoneal communication in a patient on automated peritoneal dialysis.
Can children measure their own vision? A comparison of three new contrast sensitivity tests
Authors: Crossland Michael D. , Dekker Tessa M. , Dahlmann‐Noor Annegret , Jones Pete R. 
Published: September 2023

AbstractPurposeTo investigate the feasibility of children measuring their own contrast sensitivity using a range of tablet‐ and paper‐based tests.MethodsForty children aged 5–15 years with amblyopia (N = 10), bilateral vision impairment (N = 10) or good vision (N = 20) measured their own vision on a screen‐based optotype test (Manifold), a gamified vision test (PopCSF) and a paper‐based test (Spotchecks) in a laboratory with minimal supervision. Completion rate, test–retest repeatability, test duration and participants' preferences were recorded for each test.ResultsMost participants (36/40) were able to perform all three tests. All tests were correlated with clinically measured visual acuity and contrast sensitivity (p < 0.001). The 95% coefficient of repeatability was 0.30 dB for Manifold, 0.29 dB for PopCSF and 0.13 dB for Spotchecks. All tests differentiated between children with reduced contrast sensitivity and control participants. PopCSF and Spotchecks were also able to differentiate between children with amblyopia and those with good vision. Median test time was 152, 130 and 202 s for Manifold, PopCSF and Spotchecks, respectively. Twenty‐two participants preferred the PopCSF test, 10 preferred Spotchecks and 6 preferred Manifold. Thirty‐nine out of the 40 children (98%) said they would measure their own vision at home using at least one of these tests every month.ConclusionsChildren and young people can test their own contrast sensitivity with repeatable results. Of these three tests, the most repeatable was Spotchecks, the quickest was PopCSF and participants' favourite was PopCSF. Nearly all of the participants said they would be willing to use at least one of the three tests at home.
Deciphering the β‐carotene hyperaccumulation in Dunaliella by the comprehensive analysis of Dunaliella salina and Dunaliella tertiolecta under high light conditions
Authors: Kim Minjae , Kim Jongrae , Lee Sangmuk , Khanh Nguyen , Li Zhun , Polle Juergen E. W. , Jin EonSeon 
Published: September 2023

AbstractThe green microalga Dunaliella salina hyperaccumulates β‐carotene in the chloroplast, which turns its cells orange. This does not occur in the sister species Dunaliella tertiolecta. However, the molecular mechanisms of β‐carotene hyperaccumulation were still unclear. Here, we discovered the reasons for β‐carotene hyperaccumulation by comparing the morphology, physiology, genome, and transcriptome between the carotenogenic D. salina and the noncarotenogenic D. tertiolecta after transfer to high light. The differences in photosynthetic capacity, cell growth, and the concentration of stored carbon suggest that these species regulate the supply and utilization of carbon differently. The number of β‐carotene‐containing plastid lipid globules increased in both species, but much faster and to a greater extent in D. salina than in D. tertiolecta. Consistent with the accumulation of plastid lipid globules, the expression of the methyl‐erythritol‐phosphate and carotenoid biosynthetic pathways increased only in D. salina, which explains the de novo synthesis of β‐carotene. In D. salina, the concomitantly upregulated expression of the carotene globule proteins suggests that hyperaccumulation of β‐carotene also requires a simultaneous increase in its sink capacity. Based on genomic analysis, we propose that D. salina has genetic advantages for routing carbon from growth to carotenoid metabolism.
AT Hook‐Like 10 phosphorylation determines ribosomal RNA processing 6‐like 1 (RRP6L1) chromatin association and growth suppression during water stress
Authors: Wong Min May , Huang Xin‐Jie , Bau Yu‐Chiuan , Verslues Paul E. 
Published: September 2023

AbstractPhosphorylation of AT Hook‐Like 10 (AHL10), one of the AT‐hook family of plant‐specific DNA binding proteins, is critical for growth suppression during moderate severity drought (low water potential, ψw) stress. To understand how AHL10 phosphorylation determines drought response, we identified putative AHL10 interacting proteins and further characterized interaction with RRP6L1, a protein involved in epigenetic regulation. RRP6L1 and AHL10 mutants, as well as ahl10‐1rrp6l1‐2, had similar phenotypes of increased growth maintenance during low ψw. Chromatin precipitation demonstrated that RRP6L1 chromatin association increased during low ψw stress and was dependent upon AHL10 phosphorylation. Transcriptome analyses showed that AHL10 and RRP6L1 have concordant effects on expression of stress‐ and development‐related genes. Together these results indicate that stress signalling can act via AHL10 phosphorylation to control the chromatin association of the key regulatory protein RRP6L1. AHL10 and RRP6L1 interaction in meristem cells is part of a mechanism to downregulate growth during low ψw stress. Interestingly, the loss of AHL13, which is homologous to AHL10 and phosphorylated at a similar C‐terminal site, blocked the enhanced growth maintenance of ahl10‐1. Thus, AHL10 and AHL13, despite their close homology, are not redundant but rather have distinct roles, likely related to the formation of AHL hetero‐complexes.
Secretory leucocyte protease inhibitor (SLPI) as an adjunct prognostic biomarker for canine pyometra
Authors: Sasidharan Jisna Kuttiyeri , Patra Manas Kumar , Khan Javid Ahmad , Shah Irfan , Sharma Renu , De Ujjwal Kumar , Saxena Abhishek Chandra , Singh Sanjay Kumar , Kumar Harendra , Krishnaswamy Narayanan 
Published: September 2023

AbstractPyometra is a potentially life‐threatening condition that affects intact female dogs in their middle to advance age. Timely diagnosis and appropriate treatment are critical for the survival of patients, especially when pyometra advances to sepsis. This study aimed to investigate the prognostic potential of certain haematology, serum biochemical and inflammatory biomarker, secretory leucocyte protease inhibitor (SLPI) for pyometra in bitches (n = 41). Blood samples were collected after clinical diagnosis of pyometra for haematology and serum biochemistry. Based on the prognosis following medical/surgical treatment, animals were retrospectively categorized into survivor (n = 29) and dead (n = 12). Endometrial tissue sections were obtained from the bitches undergoing ovariohysterectomy (n = 21). Serum concentration of SLPI was quantified using sandwich ELISA and its expression in the endometrium was investigated using RT‐qPCR. A marked increase in the total leucocyte count (TLC), neutrophils, blood urea nitrogen (BUN) and serum creatinine was observed in the female dogs that did not survive. Significant elevation in the serum SLPI concentration (3.49 ± 0.44 vs. 2.38 ± 0.13 ng/mL) was observed in the bitches those died after the treatment, in comparison to those survived (p < .01). Additionally, there was a notable upregulation of SLPI in the endometrium in the bitches those died due to pyometra. Based on the ROC analysis results, it was observed that a cut‐off concentration of 2.93 ng/mL for SLPI, 27.77 mg/dL for BUN and 16.3 × 103/μL for TLC could effectively distinguish the prognosis of pyometra‐affected dogs. From this study, it can be concluded that upregulation of SLPI in the endometrium and its elevated concentration in peripheral circulation along with TLC and BUN concentration could serve as valuable indicators for predicting the prognosis of pyometra in bitches.
Method for high‐plex analysis of immune cells in human skin using the GeoMx system
Authors: Ignatov Borislav , Sortebech Daniel , Emmanuel Thomas , Zhuravleva Ekaterina , Eidsmo Liv 
Published: September 2023

AbstractSpecific T cell populations in the skin have been demonstrated as important disease drivers in several dermatoses. Due to the unique skin architecture, these cells are not grouped together in structures but dispersedly spread out throughout the epidermis. Following tissue disruption and isolation, only about 10% of skin T cells are recovered and any in vitro expansion may alter their bona fide phenotype. The Nanostring GeoMx system was developed to address cellular phenotype and protein expression in a tissue spatial context. To do so, regions of interest (ROI) must exceed a certain area threshold (usually 100 μm in diameter) to generate a sufficient signal‐to‐noise ratio. Here, we present an approach that allows for the pooling of numerous smaller ROIs within the skin, enabling T cell and melanocyte phenotyping. Skin samples from healthy individuals and vitiligo patients were analysed using the GeoMx system and several immune profiling panels. A sufficient signal‐to‐noise ratio was achieved by pooling smaller ROIs and analysing them as a single group. While this prevents spatial analysis, this method allows for detailed analysis of cells as a population in the context of their physiological environment, making it possible to investigate in situ phenotype of rare cells in different tissue compartments.
The development of an informative leaflet for children and adolescents suffering from Osgood‐Schlatter disease
Authors: Hansen Rudi , Rathleff Michael Skovdal , Lundgaard‐Nielsen Mathilde , Holden Sinead 
Published: September 2023

AbstractThe mainstay in the treatment of Osgood‐Schlatter Disease (OSD) is guidance on activity modification alongside exercises. The purpose of this study was to create an informative leaflet for patients with OSD, based on evidence and stakeholders perspectives. A synthesis of the literature, including national reference work, clinical research, and systematic reviews informed the initial leaflet. Twelve children with OSD and four clinical experts provided feedback through semi‐structured interviews. After incorporating stakeholder input, the leaflet ‘Osgood‐Schlatter—Information and guidance’ was developed. This provides a resource to assist the provision of information and translation of the current evidence.
Ideological foundations of capitalism and its organizational models: A study using popular management content on LinkedIn
Authors: Duarte Ricardo Mello , Candido Silvio Eduardo Alvarez 
Published: September 2023

AbstractThe paper investigates the ideological foundations of contemporary capitalism and its organizational models in Brazil. Our analysis considers three positions present in the literature: the thesis of the new spirit of capitalism; the literature about financialization and the shareholder value model; and the configuration of a managerial mode of domination. A content analysis was conducted to investigate normative business content from Brazilian “top voices” on the LinkedIn network. A total of 180 influential texts from 32 authors composed our corpus and were assessed based on an abductive approach that had as references the economies of worth model and a related framework for assessing the dynamic configuration of capitalism justifications. Results support the idea that contemporary capitalism is characterized in ideological terms by the fluidity of normative references restricting the market logic, configuring a complex or managerial mode of domination.
The impact of partisanship and religiosity on conspiracy‐theory beliefs in Turkey
Authors: Nefes Türkay Salim , Aksoy Ozan 
Published: September 2023

AbstractWhy do people believe in conspiracy theories? This paper responds to this ever‐significant question by scrutinizing people's belief in conspiracy theories in Turkey. Building on Max Weber's theory of rationalization, it proposes that value‐laden and instrumentally rational predispositions, namely religiosity and partisanship, predict people's beliefs in conspiracy theories. This current study tests this hypothesis by analyzing two nationwide surveys conducted during a period of significant changes in modern Turkish politics: January and July 2013. The findings confirm the hypothesis that people interpret conspiracy theories in line with their instrumental, rational interests and values.
COVID‐19‐related threat perceptions, political identity, and voting in the 2020 presidential election
Authors: Casteigne Maria , O’Mara Kunz Erin M. , Losee Joy , Kerner Liz 
Published: September 2023

AbstractPerceptions of the COVID‐19 virus varied drastically in the United States, with many people highly concerned by health‐related consequences (realistic threats) and many others concerned by sociocultural implications (symbolic threats). Across three studies, we tested whether differing realistic and symbolic COVID‐19 related threat perceptions varied along gender and political identity near the 2020 US Presidential Election. In all three studies, we found that realistic COVID‐19 related threat perceptions were positively associated with a liberal political identity; this pattern did not vary by gender. In Studies 1 and 3, symbolic COVID‐19 related threat perceptions were positively associated with a conservative political identity and also did not vary by gender. In Study 2, however, the association between symbolic threat and political identity did vary by gender. Symbolic COVID‐19 related threat perceptions were positively associated with a conservative identity for men but not women; for women, threat and political identity were unrelated.
Surgical and oncologic outcomes in dogs with malignant peripheral nerve sheath tumours arising from the brachial or lumbosacral plexus
Authors: Stokes Rebecca , Wustefeld‐Janssens Brandan G. , Hinson Whitney , Wiener Dominique J. , Hollenbeck Danielle , Bertran Judith , Mickelson Megan , Chen Carolyn L. , Selmic Laura , Aly Ali , Hayes Galina 
Published: September 2023

AbstractMalignant peripheral nerve sheath tumours (MPNST) of a plexus nerve or nerve root cause significant morbidity and present a treatment challenge. The surgical approach can be complex and information is lacking on outcomes. The objective of this study was to describe surgical complication rates and oncologic outcomes for canine MPNST of the brachial or lumbosacral plexus. Dogs treated for a naïve MPNST with amputation/hemipelvectomy with or without a laminectomy were retrospectively analysed. Oncologic outcomes were disease free interval (DFI), overall survival (OS), and 1‐ and 2‐year survival rates. Thirty dogs were included. The surgery performed was amputation alone in 17 cases (57%), and amputation/hemipelvectomy with laminectomy in 13 cases (43%). Four dogs (13%) had an intraoperative complication, while 11 dogs (37%) had postoperative complications. Histologic margins were reported as R0 in 12 dogs (40%), R1 in 12 dogs (40%), and R2 in five dogs (17%). No association was found between histologic grade and margin nor extent of surgical approach and margin. Thirteen dogs (46%) had recurrence. The median DFI was 511 days (95% CI: 140–882 days). The median disease specific OST was 570 days (95% CI: 467–673 days) with 1‐ and 2‐year survival rates of 82% and 22% respectively. No variables were significantly associated with recurrence, DFI, or disease specific OST. These data show surgical treatment of plexus MPNST was associated with a high intra‐ and postoperative complication rate but relatively good disease outcomes. This information can guide clinicians in surgical risk management and owner communication regarding realistic outcomes and complications.
Targeted C-to-T and A-to-G dual mutagenesis system for RhtA transporter
in vivo
evolution
Authors: Wei Zhandong , Zhao Dongdong , Wang Jie , Li Ju , Xu Ning , Ding Chao , Liu Jun , Li Siwei , Zhang Chunzhi , Bi Changhao , Zhang Xueli 
Published: September 2023

ABSTRACT

T7 RNA polymerase (T7RNAP) has been fused with cytosine or adenine deaminase individually, enabling
in vivo
C-to-T or A-to-G transitions on DNA sequence downstream of T7 promoter, and greatly accelerated directed protein evolution. However, its base conversion type is limited. In this study, we created a dual-functional system for simultaneous C-to-T and A-to-G
in vivo
mutagenesis, called T7-DualMuta, by fusing T7RNAP with both cytidine deaminase (PmCDA1) and a highly active adenine deaminase (TadA-8e). The C-to-T and A-to-G mutagenesis frequencies of T7-DualMuta were 4.02 × 10
−3
and 1.20 × 10
−2
, respectively, with 24 h culturing and distributed mutations evenly across the target gene. The T7-DualMuta system was used to
in vivo
directed evolution of L-homoserine transporter RhtA, resulting in efficient variants that carried the four types of base conversions by T7-DualMuta. The evolved variants greatly increased the host growth rates at L-homoserine concentrations of 8 g/L, which was not previously achieved, and demonstrated the great
in vivo
evolution capacity. The novel molecular device T7-DualMuta efficiently provides both C/G-to-T/A and A/T-to-G/C mutagenesis on target regions, making it useful for various applications and research in Enzymology and Synthetic Biology studies. It also represents an important expansion of the base editing toolbox.

Importance

A T7-DualMuta system for simultaneous C-to-T and A-to-G
in vivo
mutagenesis was created. The mutagenesis frequency was 4.02 × 10
7
fold higher than the spontaneous mutation, which was reported to be approximately 10
−10
bases per nucleotide per generation. This mutant system can be utilized for various applications and research in Enzymology and Synthetic Biology studies.
Comparative genomic analysis of
Periweissella
and the characterization of novel motile species
Authors: Qiao Nanzhen , Bechtner Julia , Cnockaert Margo , Depoorter Eliza , Díaz-Muñoz Christian , Vandamme Peter , De Vuyst Luc , Gänzle Michael G. 
Published: September 2023

ABSTRACT

The genus
Periweissella
was proposed as a novel genus in the
Lactobacillaceae
in 2022. However, the phylogenetic relationship between
Periweissella
and other heterofermentative lactobacilli, and the genetic and physiological properties of this genus remain unclear. This study aimed to determine the phylogenetic relationship between
Periweissella
and the two closest genera,
Weissella
and
Furfurilactobacillus
, by the phylogenetic analysis and calculation of (core gene) pairwise average amino acid identity. Targeted genomic analysis showed that fructose bisphosphate aldolase was only present in the genome of
Pw. cryptocerci
. Mannitol dehydrogenase was found in genomes of
Pw. beninensis
,
Pw. fabaria
, and
Pw. fabalis
. Untargeted genomic analysis identified the presence of flagellar genes in
Periweissella
but not in other closely related genera. Phenotypes related to carbohydrate fermentation and motility matched the genotypes. Motility genes were organized in a single operon and the proteins shared a high amino acid similarity in the genus
Periweissella
. The relatively low similarity of motility operons between
Periweissella
and other motile lactobacilli indicated the acquisition of motility by the ancestral species. Our findings facilitate the phylogenetic, genetic, and phenotypic understanding of the genus
Periweissella
.

Importance

The genus
Periweissella
is a heterofermentative genus in the
Lactobacillaceae
which includes predominantly isolates from cocoa fermentations in tropical climates. Despite the relevance of the genus in food fermentations, genetic and physiological properties of the genus are poorly characterized and genome sequences became available only after 2020. This study characterized strains of the genus by functional genomic analysis, and by determination of metabolic and physiological traits. Phylogenetic analysis revealed that
Periweissella
is the evolutionary link between rod-shaped heterofermentative lactobacilli and the coccoid
Leuconostoc
clade with the genera
Weissella
and
Furfurilactobacillus
as closest relatives.
Periweissella
is the only heterofermentative genus in the
Lactobacillaceae
which comprises predominantly motile strains. The genomic, physiological, and metabolic characterization of
Periweissella
may facilitate the potential use of strains of the genus as starter culture in traditional or novel food fermentations.