bluuebunny/crossref_metadata_2025 huggingface dataset:
H3.3-G34W in giant cell tumor of bone functionally aligns with the exon choice repressor hnRNPA1L2
Authors: Lee Eunbi , Park Yoon Jung , Lindroth Anders M.
Published: May 2024

RNA processing is an essential post-transcriptional phenomenon that provides the necessary complexity of transcript diversity prior to translation. Aberrations in this process could contribute to tumourigenesis, and we have previously reported increased splicing alterations in giant cell tumor of bone (GCTB), which carries mutations in the histone variant H3.3 encoding glycine 34 substituted for tryptophan (H3.3-G34W). G34W interacts with several splicing factors, most notably the trans-acting splicing factor hnRNPA1L2. To gain a deeper understanding of RNA processing in GCTB and isogenic HeLa cells with H3.3-G34W, we generated RNA-immunoprecipitation sequencing data from hnRNPA1L2 and H3.3-G34W associated RNAs, which showed that 80% overlapped across genic regions and were frequently annotated as E2F transcription factor binding sites. Splicing aberrations in both GCTB and HeLa cells with H3.3-G34W were significantly enriched for known hnRNPA1L2 binding motifs (p value < 0.01). This splicing aberration differed from hnRNPA1L2 knockouts, which showed alterations independent of H3.3-G34W. Of functional significance, hnRNPA1L2 was redistributed to closely match the H3.3 pattern, likely driven by G34W, and to loci not occupied in normal parental cells. Taken together, our data reveal a functional overlap between hnRNPA1L2 and H3.3-G34W with likely significant consequences for RNA processing during GCTB pathogenesis. This provides novel opportunities for therapeutic intervention in future modus operandi.
Beyond severity: utility as a criterion for setting the scope of RGCS
Authors: Dive Lisa , Laberge Anne-Marie , Freeman Lucinda , Bunnik Eline M.
Published: May 2024

Reproductive genetic carrier screening (RGCS) allows prospective parents to identify and act upon their chances of having a child with a genetic condition. In deciding which genetic conditions to include in RGCS, severity is often used as a criterion. However, the concept is inherently complex, subjective and multidimensional, and determinations of severity will remain intractably contested. We propose the concept of utility as a criterion for setting the scope of RGCS, and put forward two central arguments for doing so. First, utility is a more appropriate and effective concept as it responds to context and makes an explicit connection between the purpose of RGCS and the value of information obtained for that purpose: namely, to facilitate reproductive decision-making. Utility comprises both clinical and personal utility, and varies according to the availability and accessibility of reproductive options, including pre-implantation genetic testing, prenatal genetic diagnosis, and termination of pregnancy. Second, there are ethical reasons for preferring utility over severity. Utility is a property of the information gleaned from RGCS, while severity is a property of a genetic condition or of an instance of this condition in a person. While consideration of the severity of genetic conditions is not lost when focusing on utility, the need to rely on value judgements regarding the quality of life of people who live with genetic conditions is circumvented. Therefore, utility should replace severity as justification for the inclusion of genetic conditions in RGCS programmes.
An efficient molecular genetic testing strategy for incontinentia pigmenti based on single-tube long fragment read sequencing
Authors: Chen Min , Tan Mei-Hua , Liu Jiao , Yang Yan-Mei , Yu Jia-Ling , He Li-Juan , Huang Ying-Zhi , Sun Yi-Xi , Qian Ye-Qing , Yan Kai , Dong Min-Yue
Published: May 2024

Incontinentia pigmenti (IP) is a rare X-linked dominant neuroectodermal dysplasia that primarily affects females. The only known causative gene is IKBKG, and the most common genetic cause is the recurrent IKBKG△4–10 deletion resulting from recombination between two MER67B repeats. Detection of variants in IKBKG is challenging due to the presence of a highly homologous non-pathogenic pseudogene IKBKGP1. In this study, we successfully identified four pathogenic variants in four IP patients using a strategy based on single-tube long fragment read (stLFR) sequencing with a specialized analysis pipeline. Three frameshift variants (c.519-3_519dupCAGG, c.1167dupC, and c.700dupT) were identified and subsequently validated by Sanger sequencing. Notably, c.519-3_519dupCAGG was found in both IKBKG and IKBKGP1, whereas the other two variants were only detected in the functional gene. The IKBKG△4–10 deletion was identified and confirmed in one patient. These results demonstrate that the proposed strategy can identify potential pathogenic variants and distinguish whether they are derived from IKBKG or its pseudogene. Thus, this strategy can be an efficient genetic testing method for IKBKG. By providing a comprehensive understanding of the whole genome, it may also enable the exploration of other genes potentially associated with IP. Furthermore, the strategy may also provide insights into other diseases with detection challenges due to pseudogenes.
Static corrosion of stainless steel 316H in chemically purified molten NaF-KF-UF4 salt
Authors: Park Jaewoo , Leong Amanda , Zhang Jinsuo
Published: May 2024

The purification of salt is indispensable for mitigating the corrosion of structural materials for molten salt reactors or other molten salt applications. This study develops a salt-purification system to synthesize and purify NaF-KF-UF4 salt (FUNaK) using Ar purging and hydrofluorination of impurities. Chronoamperometry is also used to remove metallic impurities in the hydrofluorinated FUNaK. This purified FUNaK is then used for a static corrosion test of stainless steel 316H (SS316H) to study the effectiveness of salt purification in mitigating its corrosion. For comparison, results from a previous study about the corrosion of SS316H by thermally purified FUNaK are used. FUNaK with UF3 is also synthesized for a static corrosion test with the same condition to investigate the impact of UF3 on corrosion. The results show that the corrosion of SS316H is significantly reduced by using the chemically purified FUNaK compared to thermally purified FUNaK.
Digital outcome measures from smartwatch data relate to non-motor features of Parkinson’s disease
Authors: Schalkamp Ann-Kathrin , Harrison Neil A. , Peall Kathryn J. , Sandor Cynthia
Published: May 2024

Monitoring of Parkinson’s disease (PD) has seen substantial improvement over recent years as digital sensors enable a passive and continuous collection of information in the home environment. However, the primary focus of this work has been motor symptoms, with little focus on the non-motor aspects of the disease. To address this, we combined longitudinal clinical non-motor assessment data and digital multi-sensor data from the Verily Study Watch for 149 participants from the Parkinson’s Progression Monitoring Initiative (PPMI) cohort with a diagnosis of PD. We show that digitally collected physical activity and sleep measures significantly relate to clinical non-motor assessments of cognitive, autonomic, and daily living impairment. However, the poor predictive performance we observed, highlights the need for better targeted digital outcome measures to enable monitoring of non-motor symptoms.
Canted spin order as a platform for ultrafast conversion of magnons
Authors: Leenders R. A. , Afanasiev D. , Kimel A. V. , Mikhaylovskiy R. V.
Published: May 2024

Traditionally, magnetic solids are divided into two main classes—ferromagnets and antiferromagnets with parallel and antiparallel spin orders, respectively. Although normally the antiferromagnets have zero magnetization, in some of them an additional antisymmetric spin–spin interaction arises owing to a strong spin–orbit coupling and results in canting of the spins, thereby producing net magnetization. The canted antiferromagnets combine antiferromagnetic order with phenomena typical of ferromagnets and hold great potential for spintronics and magnonics1–5. In this way, they can be identified as closely related to the recently proposed new class of magnetic materials called altermagnets6–9. Altermagnets are predicted to have strong magneto-optical effects, terahertz-frequency spin dynamics and degeneracy lifting for chiral spin waves10 (that is, all of the effects present in the canted antiferromagnets11,12). Here, by utilizing these unique phenomena, we demonstrate a new functionality of canted spin order for magnonics and show that it facilitates mechanisms converting a magnon at the centre of the Brillouin zone into propagating magnons using nonlinear magnon–magnon interactions activated by an ultrafast laser pulse. Our experimental findings supported by theoretical analysis show that the mechanism is enabled by the spin canting.
Unlocking bacterial potential to reduce farmland N2O emissions
Authors: Hiis Elisabeth G. , Vick Silas H. W. , Molstad Lars , Røsdal Kristine , Jonassen Kjell Rune , Winiwarter Wilfried , Bakken Lars R.
Published: May 2024

Farmed soils contribute substantially to global warming by emitting N2O (ref. 1), and mitigation has proved difficult2. Several microbial nitrogen transformations produce N2O, but the only biological sink for N2O is the enzyme NosZ, catalysing the reduction of N2O to N2 (ref. 3). Although strengthening the NosZ activity in soils would reduce N2O emissions, such bioengineering of the soil microbiota is considered challenging4,5. However, we have developed a technology to achieve this, using organic waste as a substrate and vector for N2O-respiring bacteria selected for their capacity to thrive in soil6–8. Here we have analysed the biokinetics of N2O reduction by our most promising N2O-respiring bacterium, Cloacibacterium sp. CB-01, its survival in soil and its effect on N2O emissions in field experiments. Fertilization with waste from biogas production, in which CB-01 had grown aerobically to about 6 × 109 cells per millilitre, reduced N2O emissions by 50–95%, depending on soil type. The strong and long-lasting effect of CB-01 is ascribed to its tenacity in soil, rather than its biokinetic parameters, which were inferior to those of other strains of N2O-respiring bacteria. Scaling our data up to the European level, we find that national anthropogenic N2O emissions could be reduced by 5–20%, and more if including other organic wastes. This opens an avenue for cost-effective reduction of N2O emissions for which other mitigation options are lacking at present.
Molecular basis for differential Igk versus Igh V(D)J joining mechanisms
Authors: Zhang Yiwen , Li Xiang , Ba Zhaoqing , Lou Jiangman , Gaertner K. Elyse , Zhu Tammie , Lin Xin , Ye Adam Yongxin , Alt Frederick W. , Hu Hongli
Published: May 2024

In developing B cells, V(D)J recombination assembles exons encoding IgH and Igκ variable regions from hundreds of gene segments clustered acrossIghandIgkloci. V, D and J gene segments are flanked by conserved recombination signal sequences (RSSs) that target RAG endonuclease1. RAG orchestratesIghV(D)J recombination upon capturing a JH-RSS within the JH-RSS-based recombination centre1–3(RC). JH-RSS orientation programmes RAG to scan upstream D- and VH-containing chromatin that is presented in a linear manner by cohesin-mediated loop extrusion4–7. DuringIghscanning, RAG robustly utilizes only D-RSSs or VH-RSSs in convergent (deletional) orientation with JH-RSSs4–7. However, for Vκ-to-Jκ joining, RAG utilizes Vκ-RSSs from deletional- and inversional-oriented clusters8, inconsistent with linear scanning2. Here we characterize the Vκ-to-Jκ joining mechanism.Igkundergoes robust primary and secondary rearrangements9,10, which confounds scanning assays. We therefore engineered cells to undergo only primary Vκ-to-Jκ rearrangements and found that RAG scanning from the primary Jκ-RC terminates just 8 kb upstream within the CTCF-site-basedSiselement11. WhereasSisand the Jκ-RC barely interacted with the Vκ locus, the CTCF-site-basedCerelement124 kb upstream ofSisinteracted with various loop extrusion impediments across the locus. Similar to VH locus inversion7, DJHinversion abrogated VH-to-DJHjoining; yet Vκ locus or Jκ inversion allowed robust Vκ-to-Jκ joining. Together, these experiments implicated loop extrusion in bringing Vκ segments nearCerfor short-range diffusion-mediated capture by RC-based RAG. To identify key mechanistic elements for diffusional V(D)J recombination inIgkversusIgh, we assayed Vκ-to-JHand D-to-Jκ rearrangements in hybridIgh–Igkloci generated by targeted chromosomal translocations, and pinpointed remarkably strong Vκ and Jκ RSSs. Indeed, RSS replacements in hybrid or normalIgkandIghloci confirmed the ability ofIgk-RSSs to promote robust diffusional joining compared withIgh-RSSs. We propose thatIgkevolved strong RSSs to mediate diffusional Vκ-to-Jκ joining, whereasIghevolved weaker RSSs requisite for modulating VHjoining by RAG-scanning impediments.
Systematic decoding of cis gene regulation defines context-dependent control of the multi-gene costimulatory receptor locus in human T cells
Authors: Mowery Cody T. , Freimer Jacob W. , Chen Zeyu , Casaní-Galdón Salvador , Umhoefer Jennifer M. , Arce Maya M. , Gjoni Ketrin , Daniel Bence , Sandor Katalin , Gowen Benjamin G. , Nguyen Vinh , Simeonov Dimitre R. , Garrido Christian M. , Curie Gemma L. , Schmidt Ralf , Steinhart Zachary , Satpathy Ansuman T. , Pollard Katherine S. , Corn Jacob E. , Bernstein Bradley E. , Ye Chun Jimmie , Marson Alexander
Published: May 2024

Cis-regulatory elements (CREs) interact with trans regulators to orchestrate gene expression, but how transcriptional regulation is coordinated in multi-gene loci has not been experimentally defined. We sought to characterize the CREs controlling dynamic expression of the adjacent costimulatory genes CD28, CTLA4 and ICOS, encoding regulators of T cell-mediated immunity. Tiling CRISPR interference (CRISPRi) screens in primary human T cells, both conventional and regulatory subsets, uncovered gene-, cell subset- and stimulation-specific CREs. Integration with CRISPR knockout screens and assay for transposase-accessible chromatin with sequencing (ATAC-seq) profiling identified trans regulators influencing chromatin states at specific CRISPRi-responsive elements to control costimulatory gene expression. We then discovered a critical CCCTC-binding factor (CTCF) boundary that reinforces CRE interaction with CTLA4 while also preventing promiscuous activation of CD28. By systematically mapping CREs and associated trans regulators directly in primary human T cell subsets, this work overcomes longstanding experimental limitations to decode context-dependent gene regulatory programs in a complex, multi-gene locus critical to immune homeostasis.
Characterization of two novel Salmonella phages having biocontrol potential against Salmonella spp. in gastrointestinal conditions
Authors: Zhang Yujie , Chu Mackenna , Liao Yen-Te , Salvador Alexandra , Wu Vivian C. H.
Published: May 2024

Salmonella is a primary enteric pathogen related to the contamination of poultry and other food products in numerous foodborne outbreaks. The continuous emergence of multidrug-resistant bacteria has become a serious issue due to the overuse of antibiotics. Hence, lytic phages are considered alternative biocontrol agents against these bacterial superbugs. Here, two Salmonella phages—S4lw and D5lw—were subjected to genomic and biological characterization and further encapsulated to improve the stability under acidic conditions mimicking gastrointestinal conditions. The two lytic phages, S4lw and D5lw, taxonomically belong to new species under the Guernseyvirinae and Ackermannviridae families, respectively. Each phage showed antimicrobial activities against diverse Salmonella spp., such as S. Enteritidis and S. Typhimurium, achieving 1.7–3.4 log reduction after 2–6 h of treatment. The phage cocktail at a multiplicity of infection (MOI) of 100 or 1000 completely inhibited these Salmonella strains for at least 14 h at 25 °C. Additionally, the bead-encapsulated phage cocktail could withstand low pH and different simulated gut environments for at least 1 h. Overall, the newly isolated phages can potentially mitigate Salmonella spp. under the gastrointestinal environments through encapsulation and may be further applied via oral administration to resolve common antimicrobial resistance issues in the poultry production chain.
Aripiprazole as protector against COVID-19 mortality
Authors: Loucera-Muñecas C. , Canal-Rivero M. , Ruiz-Veguilla M. , Carmona R. , Bostelmann G. , Garrido-Torres N. , Dopazo J. , Crespo-Facorro B.
Published: May 2024

The relation of antipsychotics with severe Coronavirus Disease 19 (COVID-19) outcomes is a matter of debate since the beginning of the pandemic. To date, controversial results have been published on this issue. We aimed to prove whether antipsychotics might exert adverse or protective effects against fatal outcomes derived from COVID-19. A population-based retrospective cohort study (January 2020 to November 2020) comprising inpatients (15,968 patients) who were at least 18 years old and had a laboratory-confirmed COVID-19 infection. Two sub-cohorts were delineated, comprising a total of 2536 inpatients: individuals who either had no prescription medication or were prescribed an antipsychotic within the 15 days preceding hospitalization. We conducted survival and odds ratio analyses to assess the association between antipsychotic use and mortality, reporting both unadjusted and covariate-adjusted results. We computed the average treatment effects, using the untreated group as the reference, and the average treatment effect on the treated, focusing solely on the antipsychotic-treated population. Among the eight antipsychotics found to be in use, only aripiprazole showed a significant decrease in the risk of death from COVID-19 [adjusted odds ratio (OR) = 0.86; 95% CI, 0.79–0.93, multiple-testing adjusted p-value < 0.05]. Importantly, these findings were consistent for both covariate-adjusted and unadjusted analyses. Aripiprazole has been shown to have a differentiated beneficial effect in protecting against fatal clinical outcome in COVID-19 infected individuals. We speculate that the differential effect of aripiprazole on controlling immunological pathways and inducible inflammatory enzymes, that are critical in COVID19 illness, may be associated with our findings herein.
The impact of presentation modes on mental rotation processing: a comparative analysis of eye movements and performance
Authors: Stark Philipp , Bozkir Efe , Sójka Weronika , Huff Markus , Kasneci Enkelejda , Göllner Richard
Published: May 2024

Mental rotation is the ability to rotate mental representations of objects in space. Shepard and Metzler’s shape-matching tasks, frequently used to test mental rotation, involve presenting pictorial representations of 3D objects. This stimulus material has raised questions regarding the ecological validity of the test for mental rotation with actual visual 3D objects. To systematically investigate differences in mental rotation with pictorial and visual stimuli, we compared data of $$N=54$$

N
=
54

university students from a virtual reality experiment. Comparing both conditions within subjects, we found higher accuracy and faster reaction times for 3D visual figures. We expected eye tracking to reveal differences in participants’ stimulus processing and mental rotation strategies induced by the visual differences. We statistically compared fixations (locations), saccades (directions), pupil changes, and head movements. Supplementary Shapley values of a Gradient Boosting Decision Tree algorithm were analyzed, which correctly classified the two conditions using eye and head movements. The results indicated that with visual 3D figures, the encoding of spatial information was less demanding, and participants may have used egocentric transformations and perspective changes. Moreover, participants showed eye movements associated with more holistic processing for visual 3D figures and more piecemeal processing for pictorial 2D figures.
Electrospun nanofiber mats caged the mammalian macrophages on their surfaces and prevented their inflammatory responses independent of the fiber diameter
Authors: Ayaz Furkan , Demir Didem , Bölgen Nimet
Published: May 2024

Poly-ε-caprolactone (PCL) has been widely used as biocompatible materials in tissue engineering. They have been used in mammalian cell proliferation to polarization and differentiation. Their modified versions had regulatory activities on mammalian macrophages in vitro. There are also studies suggesting different nanofiber diameters might alter the biological activities of these materials. Based on these cues, we examined the inflammatory activities and adherence properties of mammalian macrophages on electrospun PCL nanofibrous scaffolds formed with PCL having different nanofiber diameters. Our results suggest that macrophages could easily attach and get dispersed on the scaffolds. Macrophages lost their inflammatory cytokine TNF and IL6 production capacity in the presence of LPS when they were incubated on nanofibers. These effects were independent of the mean fiber diameters. Overall, the scaffolds have potential to be used as biocompatible materials to suppress excessive inflammatory reactions during tissue and organ transplantation by caging and suppressing the inflammatory cells.
Investigating surface proteins and antibody combinations for detecting circulating tumor cells of various sarcomas
Authors: Le Minh-Chau N. , Smith Kierstin A. , Dopico Pablo J. , Greer Beate , Alipanah Morteza , Zhang Yang , Siemann Dietmar W. , Lagmay Joanne P. , Fan Z. Hugh
Published: May 2024

Circulating tumor cells (CTCs) have gathered attention as a biomarker for carcinomas. However, CTCs in sarcomas have received little attention. In this work, we investigated cell surface proteins and antibody combinations for immunofluorescence detection of sarcoma CTCs. A microfluidic device that combines filtration and immunoaffinity using gangliosides 2 and cell surface vimentin (CSV) antibodies was employed to capture CTCs. For CTC detection, antibodies against cytokeratins 7 and 8 (CK), pan-cytokeratin (panCK), or a combination of panCK and CSV were used. Thirty-nine blood samples were collected from 21 patients of various sarcoma subtypes. In the independent samples study, samples were subjected to one of three antibody combination choices. Significant difference in CTC enumeration was found between CK and panCK + CSV, and between panCK and panCK + CSV. Upon stratification of CK+ samples, those of metastatic disease had a higher CTC number than those of localized disease. In the paired samples study involving cytokeratin-positive sarcoma subtypes, using panCK antibody detected more CTCs than CK. Similarly, for osteosarcoma, using panCK + CSV combination resulted in a higher CTC count than panCK. This study emphasized deliberate selection of cell surface proteins for sarcoma CTC detection and subtype stratification for studying cancers as heterogeneous as sarcomas.
3D imaging of SARS-CoV-2 infected hamster lungs by X-ray phase contrast tomography enables drug testing
Authors: Reichmann Jakob , Sarrazin Clement , Schmale Sebastian , Blaurock Claudia , Balkema-Buschmann Anne , Schmitzer Bernhard , Salditt Tim
Published: May 2024

X-ray Phase Contrast Tomography (XPCT) based on wavefield propagation has been established as a high resolution three-dimensional (3D) imaging modality, suitable to reconstruct the intricate structure of soft tissues, and the corresponding pathological alterations. However, for biomedical research, more is needed than 3D visualisation and rendering of the cytoarchitecture in a few selected cases. First, the throughput needs to be increased to cover a statistically relevant number of samples. Second, the cytoarchitecture has to be quantified in terms of morphometric parameters, independent of visual impression. Third, dimensionality reduction and classification are required for identification of effects and interpretation of results. To address these challenges, we here design and implement a novel integrated and high throughput XPCT imaging and analysis workflow for 3D histology, pathohistology and drug testing. Our approach uses semi-automated data acquisition, reconstruction and statistical quantification. We demonstrate its capability for the example of lung pathohistology in Covid-19. Using a small animal model, different Covid-19 drug candidates are administered after infection and tested in view of restoration of the physiological cytoarchitecture, specifically the alveolar morphology. To this end, we then use morphometric parameter determination followed by a dimensionality reduction and classification based on optimal transport. This approach allows efficient discrimination between physiological and pathological lung structure, thereby providing quantitative insights into the pathological progression and partial recovery due to drug treatment. Finally, we stress that the XPCT image chain implemented here only used synchrotron radiation for validation, while the data used for analysis was recorded with laboratory $$\mu$$
μ
CT radiation, more easily accessible for pre-clinical research.
Valorization of Eichhornia crassipes for the production of cellulose nanocrystals further investigation of plethoric biobased resource
Authors: Hemida Mohamed H. , Moustafa Hesham , Mehanny Sherif , Morsy Mohamed , Abd EL Rahman Eid N. , Ibrahim Mohamed M.
Published: May 2024

Chemical processing is among the significant keys to tackle agro-residues utilization field, aiming to obtain value-added materials. Extraction of cellulose nanocrystals (CNCs) is an emerging route to valorize lignocellulosic wastes into high value particles. In this investigation, effect of acidic hydrolysis duration was monitored on size and morphology of obtained crystals; namely: CNCs from Nile roses fibers (NRFs) (Eichhornia crassipes). Different acidic hydrolysis duration range or different characterization techniques set this article apart from relevant literature, including our group research articles. The grinded NRFs were firstly subjected to alkaline and bleaching pretreatments, then acid hydrolysis process was carried out with varied durations ranging from 5 to 30 min. Microcrystalline cellulose (MCC) was used as reference for comparison with NRFs based samples. The extracted CNCs samples were investigated using various techniques such as scanning electron microscopy (SEM), Atomic force microscopy (AFM), Raman spectroscopy, and thermogravimetric (TGA) analysis. The figures gotten from SEM and AFM depicted that NRFs based CNCs appeared as fibril-like shapes, with reduced average size when the NRFs underwent pulping and bleaching processes. This was indicated that the elimination of hemicellulose and lignin components got achieved successfully. This outcome was proven by chemical composition measurements and TGA/DTG curves. On the other hand, AFM-3D images indicated that CNCs topology and surface roughness were mostly affected by increasing hydrolysis durations, besides smooth and homogeneous surfaces were noticed. Moreover, Raman spectra demonstrated that the particle size and crystallinity degree of NRFs based CNCs can be affected by acidic hydrolysis durations and optimum extraction time was found to be 10 min. Thermal stability of extracted CNCs-NRFs and CNCs-MCC was measured by TGA/DTG and the kinetic models were suggested to identify the kinetic parameters of the thermal decomposition of CNCs for each acid hydrolysis duration. Increasing hydrolysis duration promoted thermal stability, particularly for NRFs based CNCs. Results showcased in this article add new perspective to Nile rose nanocellulose and pave down the way to fabricate NRFs based humidity nano-sensors.
DFT study on CO2 capture using boron, nitrogen, and phosphorus-doped C20 in the presence of an electric field
Authors: Rezaee Parham , Asl Shervin Alikhah , Javadi Mohammad Hasan , Rezaee Shahab , Morad Razieh , Akbari Mahmood , Arab Seyed Shahriar , Maaza Malik
Published: May 2024

Burning fossil fuels emits a significant amount of $$\hbox {CO}_{2}$$

CO
2

, causing climate change concerns. $$\hbox {CO}_{2}$$

CO
2

Capture and Storage (CCS) aims to reduce emissions, with fullerenes showing promise as $$\hbox {CO}_{2}$$

CO
2

adsorbents. Recent research focuses on modifying fullerenes using an electric field. In light of this, we carried out DFT studies on some B, N, and P doped $$\hbox {C}_{20}$$

C
20

($$C_{20-n}X_n$$

C

20
-
n

X
n

, n = 0, 1, 2, and 3; X = B, N, and P) in the absence and presence of an electric field in the range of 0-0.02 a.u.. The cohesive energy was calculated to ensure their thermodynamic stability showing, that despite having lesser cohesive energies than $$\hbox {C}_{20}$$

C
20

, they appear in a favorable range. Moreover, the charge distribution for all structures was depicted using the ESP map. Most importantly, we evaluated the adsorption energy, height, and $$\hbox {CO}_{2}$$

CO
2

angle, demonstrating the B and N-doped fullerenes had the stronger interaction with $$\hbox {CO}_{2}$$

CO
2

, which by far exceeded $$\hbox {C}_{20}$$

C
20

’s, improving its physisorption to physicochemical adsorption. Although the adsorption energy of P-doped fullerenes was not as satisfactory, in most cases, increasing the electric field led to enhancing $$\hbox {CO}_{2}$$

CO
2

adsorption and incorporating chemical attributes to $$\hbox {CO}_{2}$$

CO
2

-fullerene interaction. The HOMO–LUMO plots were obtained by which we discovered that unlike the P-doped $$\hbox {C}_{20}$$

C
20

, the surprising activity of B and N-doped $$\hbox {C}_{20}$$

C
20

s against $$\hbox {CO}_{2}$$

CO
2

originates from a high concentration of the HOMO-LUMO orbitals on B, N and neighboring atoms. In the present article, we attempt to introduce more effective fullerene-based materials for $$\hbox {CO}_{2}$$

CO
2

adsorption as well as strategies to enhance their efficiency and revealing adsorption nature over B, N, and P-doped fullerenes and in the end, hope to encourage more experimental research on these materials within growing electric field for $$\hbox {CO}_{2}$$

CO
2

capture in the future.
Transmural collaborative care model for the review of antipsychotics: a feasibility study of a complex intervention
Authors: Jakobs Kirsti M. , van den Brule-Barnhoorn Karlijn J. , van Lieshout Jan , Janzing Joost G. E. , Cahn Wiepke , van den Muijsenbergh Maria , Biermans Marion C. J. , Bischoff Erik W. M. A.
Published: May 2024

General practitioners (GPs) are often unaware of antipsychotic (AP)-induced cardiovascular risk (CVR) and therefore patients using atypical APs are not systematically monitored. We evaluated the feasibility of a complex intervention designed to review the use of APs and advise on CVR-lowering strategies in a transmural collaboration. A mixed methods prospective cohort study in three general practices in the Netherlands was conducted in 2021. The intervention comprised three steps: a digital information meeting, a multidisciplinary meeting, and a shared decision-making visit to the GP. We assessed patient recruitment and retention rates, advice given and adopted, and CVR with QRISK3 score and mental state with MHI-5 at baseline and three months post-intervention. GPs invited 57 of 146 eligible patients (39%), of whom 28 (19%) participated. The intervention was completed by 23 (82%) and follow-up by 18 participants (64%). At the multidisciplinary meeting, 22 (78%) patients were advised to change AP use. Other advice concerned medication (other than APs), lifestyle, monitoring, and psychotherapy. At 3-months post-intervention, 41% (28/68) of this advice was adopted. Our findings suggest that this complex intervention is feasible for evaluating health improvement in patients using AP in a trial.
Beneficial effect of heat-killed Lactiplantibacillus plantarum L-137 on intestinal barrier function of rat small intestinal epithelial cells
Authors: Watanabe Mototsugu , Nakai Hiroko , Ohara Tatsuya , Kawasaki Kengo , Murosaki Shinji , Hirose Yoshitaka
Published: May 2024

Heat-killed Lactiplantibacillus plantarum L-137 (HK L-137) has been suggested to enhance the intestinal barrier in obese mice, leading to improvement of metabolic abnormalities and adipose tissue inflammation, and in healthy humans with overweight, leading to improvement of systemic inflammation. However, its detailed mechanism of action has not been clarified. Therefore, this study investigated the effects of HK L-137 on the permeability of rat small intestinal epithelial IEC-6 cells, tight junction-related gene and protein expression and localization, and intracellular signaling pathways involved in barrier function. Treatment of IEC-6 cells with HK L-137 for 26 h significantly reduced the permeability to fluorescein isothiocyanate-dextran (FD-4). HK L-137 also increased gene and protein expression of zonula occludens-1 (ZO-1), an important tight junction protein, without affecting the localization. Furthermore, inhibition of the extracellular signal-regulated kinase (ERK)1/2 pathway in IEC-6 cells canceled the HK L-137-related reduction in permeability to FD-4. Phosphorylation of ERK in IEC-6 cells was induced 15 min after the addition of HK L-137. These results suggest that HK L-137 reduces intestinal permeability partly through activating the ERK pathway and increasing expression of the ZO-1 gene and protein. Enhancement of intestinal barrier function with HK L-137 might be effective in preventing and treating leaky gut, for which no specific therapeutic tool has been established.
Locating carbon neutral mobility hubs using artificial intelligence techniques
Authors: Bencekri Madiha , Kim Sion , Fan Yee Van , Lee Seungjae
Published: May 2024

This research proposes a novel, three-tier AI-based scheme for the allocation of carbon–neutral mobility hubs. Initially, it identified optimal sites using a genetic algorithm, which optimized travel times and achieved a high fitness value of 77,000,000. Second, it involved an Ensemble-based suitability analysis of the pinpointed locations, using factors such as land use mix, densities of population and employment, and proximities of parking, biking, and transit. Each factor is weighted by its carbon emissions contribution, then incorporated into a suitability analysis model, generating scores that guide the final selection of the most suitable mobility hub sites. The final step employs a traffic assignment model to evaluate these sites’ environmental and economic impacts. This includes measuring reductions in vehicle kilometers traveled and calculating other cost savings. Focusing on addressing sustainable development goals 11 and 9, this study leverages advanced techniques to enhance transportation planning policies. The Ensemble model demonstrated strong predictive accuracy, achieving an R-squared of 95% in training and 53% in testing. The identified hubs’ sites reduced daily vehicle travel by 771,074 km, leading to annual savings of 225.5 million USD. This comprehensive approach integrates carbon-focused analyses and post-assessment evaluations, thereby offering a comprehensive framework for sustainable mobility hub planning.
Genetic relationships and introgression events between wild and cultivated grapevines (Vitis vinifera L.): focus on Italian Lambruscos
Authors: Schneider A. , Ruffa P. , Tumino G. , Fontana M. , Boccacci P. , Raimondi S.
Published: May 2024

Research efforts on genomic structure and ecology of wild populations of Vitis vinifera L. offer insights on grape domestication processes and on the assortment evolution of the cultivated forms. Attention is also paid to the origin of traditional, long-cultivated varieties, often producing renowned and valuable wines. The genetic relationships between 283 Vitis vinifera cultivated varieties (subsp. sativa) and 65 individuals from 9 populations of the sylvestris subspecies mainly from northern Italy were explored by means of molecular markers (27 nuclear and 4 chloroplastic microsatellites). Several episodes of contamination of the wild germplasm by the pollen of specific grape cultivars were detected, implying concern for maintaining the purity of the wild form. At the same time, events of introgression from the wild subspecies resulted playing a crucial role in the emergence of several cultivated varieties with a clear admixed genome ancestry sativa-sylvestris. These included Lambruscos originated from the flat areas crossed by the Po and Adige rivers in northern Italy, while other cultivars still called Lambrusco but typical of hilly areas did not show the same admixed genome. Historical and ecological evidences suggesting an adaptative recent post-domestication process in the origin of several Italian Lambruscos are discussed.
CHOP-mediated IL-23 overexpression does not drive colitis in experimental spondyloarthritis
Authors: Navid Fatemeh , Gill Tejpal , Fones Lilah , Allbritton-King Jules D. , Zhou Kelly , Shen Isabel , Van Doorn Jinny , LiCausi Francesca , Cougnoux Antony , Randazzo Davide , Brooks Stephen R. , Colbert Robert A.
Published: May 2024

HLA-B27 is a major risk factor for spondyloarthritis (SpA), yet the underlying mechanisms remain unclear. HLA-B27 misfolding-induced IL-23, which is mediated by endoplasmic reticulum (ER) stress has been hypothesized to drive SpA pathogenesis. Expression of HLA-B27 and human β2m (hβ2m) in rats (HLA-B27-Tg) recapitulates key SpA features including gut inflammation. Here we determined whether deleting the transcription factor CHOP (Ddit3−/−), which mediates ER-stress induced IL-23, affects gut inflammation in HLA-B27-Tg animals. ER stress-mediated Il23a overexpression was abolished in CHOP-deficient macrophages. Although CHOP-deficiency also reduced Il23a expression in immune cells isolated from the colon of B27+ rats, Il17a levels were not affected, and gut inflammation was not reduced. Rather, transcriptome analysis revealed increased expression of pro-inflammatory genes, including Il1a, Ifng and Tnf in HLA-B27-Tg colon tissue in the absence of CHOP, which was accompanied by higher histological Z-scores. RNAScope localized Il17a mRNA to the lamina propria of the HLA-B27-Tg rats and revealed similar co-localization with Cd3e (CD3) in the presence and absence of CHOP. This demonstrates that CHOP-deficiency does not improve, but rather exacerbates gut inflammation in HLA-B27-Tg rats, indicating that HLA-B27 is not promoting gut disease through ER stress-induced IL-23. Hence, CHOP may protect rats from more severe HLA-B27-induced gut inflammation.
Tuning pore size and density of rigid polylactic acid foams through thermally induced phase separation and optimization using response surface methodology
Authors: Ghorbandoust Morteza , Fasihi Mohammad , Norouzbeigi Reza
Published: May 2024

Rigid polylactic acid (PLA) foams fabricated via thermally induced phase separation (TIPS) utilizing a ternary solution of PLA, Tetrahydrofuran (THF), and water. The PLA gels were stabilized mechanically by the substituting of the THF/water solvent mixture with ethanol as non-solvent and subsequently vacuum dried. A comprehensive characterization of PLA foams was achieved by Scanning Electron Microscopy (SEM), X-ray Diffractometry (XRD) and Brunauer–Emmett–Teller (BET) analyses. The BET area obtained in the PLA foam is up to 18.76 m2/g. The Response Surface Methodology (RSM) was utilized to assess the impacts of four independent variables (polymer concentration, solvent composition, quench temperature, and aging time) on the pore size and density of PLA foam. The experimental findings demonstrated that the fabrication parameters could be fine-tuned to govern the morphology of the pores, comprising their size and density. The optimal values of parameters for cell size were identified by RSM to be 8.96 (wt%), 91.60 (w/w), 5.50 °C, and 3.86 h for the optimum cell size of 37.96 µm (37.78 by Genetic Algorithm). Optimum density by RSM 88.88 mgr/cm3 (88.38 mgr/cm3 by Genetic Algorithm) was obtained at 5.00 (wt%), 89.33 (w/w), 14.40 °C and 2.65 h.
The antipsychotic agent sulpiride microinjected into the ventral pallidum restores positive symptom-like habituation disturbance in MAM-E17 schizophrenia model rats
Authors: Péczely László , Dusa Daniella , Lénárd László , Ollmann Tamás , Kertes Erika , Gálosi Rita , Berta Beáta , Szabó Ádám , László Kristóf , Zagoracz Olga , Karádi Zoltán , Kállai Veronika
Published: May 2024

Dysfunction of subcortical D2-like dopamine receptors (D2Rs) can lead to positive symptoms of schizophrenia, and their analog, the increased locomotor activity in schizophrenia model MAM-E17 rats. The ventral pallidum (VP) is a limbic structure containing D2Rs. The D2R antagonist sulpiride is a widespread antipsychotic drug, which can alleviate positive symptoms in human patients. However, it is still not known how sulpiride can influence positive symptoms via VP D2Rs. We hypothesize that the microinjection of sulpiride into the VP can normalize hyperactivity in MAM-E17 rats. In addition, recently, we showed that the microinjection of sulpirid into the VP induces place preference in neurotypical rats. Thus, we aimed to test whether intra-VP sulpiride can also have a rewarding effect in MAM-E17 rats. Therefore, open field-based conditioned place preference (CPP) test was applied in neurotypical (SAL-E17) and MAM-E17 schizophrenia model rats to test locomotor activity and the potential locomotor-reducing and rewarding effects of sulpiride. Sulpiride was microinjected bilaterally in three different doses into the VP, and the controls received only vehicle. The results of the present study demonstrated that the increased locomotor activity of the MAM-E17 rats was caused by habituation disturbance. Accordingly, larger doses of sulpiride in the VP reduce the positive symptom-analog habituation disturbance of the MAM-E17 animals. Furthermore, we showed that the largest dose of sulpiride administered into the VP induced CPP in the SAL-E17 animals but not in the MAM-E17 animals. These findings revealed that VP D2Rs play an important role in the formation of positive symptom-like habituation disturbances in MAM-E17 rats.
Improved ACOM pattern matching in 4D-STEM through adaptive sub-pixel peak detection and image reconstruction
Authors: Folastre Nicolas , Cao Junhao , Oney Gozde , Park Sunkyu , Jamali Arash , Masquelier Christian , Croguennec Laurence , Veron Muriel , Rauch Edgar F. , Demortière Arnaud
Published: May 2024

The technique known as 4D-STEM has recently emerged as a powerful tool for the local characterization of crystalline structures in materials, such as cathode materials for Li-ion batteries or perovskite materials for photovoltaics. However, the use of new detectors optimized for electron diffraction patterns and other advanced techniques requires constant adaptation of methodologies to address the challenges associated with crystalline materials. In this study, we present a novel image-processing method to improve pattern matching in the determination of crystalline orientations and phases. Our approach uses sub-pixel adaptive image processing to register and reconstruct electron diffraction signals in large 4D-STEM datasets. By using adaptive prominence and linear filters, we can improve the quality of the diffraction pattern registration. The resulting data compression rate of 103 is well-suited for the era of big data and provides a significant enhancement in the performance of the entire ACOM data processing method. Our approach is evaluated using dedicated metrics, which demonstrate a high improvement in phase recognition. Several features are extracted from the registered data to map properties such as the spot count, and various virtual dark fields, which are used to enhance the handling of the results maps. Our results demonstrate that this data preparation method not only enhances the quality of the resulting image but also boosts the confidence level in the analysis of the outcomes related to determining crystal orientation and phase. Additionally, it mitigates the impact of user bias that may occur during the application of the method through the manipulation of parameters.
Influences of muscle mass loss and exercise habits and personality traits on lower limb motor function among university students
Authors: Sano Nobuyuki , Enoki Haruto , Syutou Reita , Furukawa Ayumu
Published: May 2024

Secondary sarcopenia, a risk factor even for young people, has attracted attention because of the deterioration of physical activity and nutritional status due to lifestyle change among university students. However, studies on the factors affecting motor function and their involvement are lacking. This cross-sectional study aimed to examine the influences of muscle mass loss and exercise and sleep habits on lower limb motor function, as well as the involvement of personality traits, in 101 university students. Approximately 6% of the participants had low skeletal muscle mass index, similar to previous reports, and that only exercise habits in high school were responsible for muscle mass loss (direct effect =  − 0.493; p < 0.05), wherease low skeletal muscle mass (direct effect =  − 0.539; p < 0.01) and current exercise habits (direct effect = 0.410; p < 0.01) were responsible for lower limb motor function. Additionaly, only the personality trait of high intellectual curiosity was involved in the establishment of exercise habits in high school, but no other personality traits showed a significant effect. In the prevention of secondary sarcopenia, encouraging sustained exercise habits while considering the influence of different personality traits is expected to prevent the decline in muscle mass and motor function.
A novel strategy to facilitate uniform epithelial cell maturation using liquid–liquid interfaces
Authors: Sonoi Rie , Kamihira Masamichi
Published: May 2024

Epithelial tissue forms and maintains a critical barrier function in the body. A novel culture design aimed at promoting uniform maturation of epithelial cells using liquid materials is described. Culturing Madin–Darby canine kidney (MDCK) cells at the liquid–liquid interface yielded reduced migration and stimulated active cell growth. Similar to solid–liquid interfaces, cells cultured on a fibronectin-coated liquid–liquid interface exhibited active migration and growth, ultimately reaching a confluent state. These cells exhibited reduced stress fiber formation and adopted a cobblestone-like shape, which led to their even distribution in the culture vessel. To inhibit stress fiber formation and apoptosis, the exposure of cells on liquid–liquid interfaces to Y27632, a specific inhibitor of the Rho-associated protein kinase (ROCK), facilitated tight junction formation (frequency of ZO-2-positive cells, FZ = 0.73). In Y27632-exposed cells on the liquid–liquid interface, the value obtained by subtracting the standard deviation of the ratio of nucleus densities in each region that compartmentalized a culture vessel from 1, denoted as HLN, was 0.93 ± 0.01, indicated even cell distribution in the culture vessel at t = 72 h. The behavior of epithelial cells on liquid–liquid interfaces contributes to the promotion of their uniform maturation.