bluuebunny/crossref_metadata_2025 huggingface dataset:
The relationship between timing of onset of menarche and depressive symptoms from adolescence to adulthood
Authors: Prince C. , Joinson C. , Kwong A. S. F. , Fraser A. , Heron J.
Published: September 2023

Aims

Girls who experience an earlier onset of menarche than their peers are at increased risk of depressive symptoms in mid-adolescence, but it is unclear if this association persists into adulthood. This study examines whether longitudinal patterns of depressive symptoms from adolescence to adulthood vary according to timing of menarche.

Methods

About 4,864 female participants in the UK Avon Longitudinal Study of Parents and Children provided data on age at onset of menarche (assessed in repeated questionnaires from 8 to 17 years) and depressive symptoms across nine time points (13 to 26 years) using the Short Mood and Feelings Questionnaire. We compared patterns of depressive symptoms in girls with ‘early’ (<11.5 years), ‘normative’ (11.5 to 13.5 years) and ‘late’ (≥13.5 years) menarche using a linear spline multilevel growth curve model adjusted for indicators of socioeconomic position, father absence and body mass index.

Results

Early, compared with normative, menarche was associated with higher levels of depressive symptoms at age 14 (imputed adjusted estimated difference = 0.94, 95% confidence interval [CI] = 0.44, 1.45), but the association attenuated at 24 years (0.24 [−0.72, 1.19]). Late menarche, compared with normative, was associated with a lower level of depressive symptoms at age 14 (−0.69 [−1.10, −0.29]), but this association also attenuated at 24 years (−0.15 [−0.92, 0.62]).

Conclusions

This study did not find a persistent effect of early menarche, compared to normative, on depressive symptoms. However, our findings are consistent with the level of depressive symptoms increasing at the onset of menarche irrespective of timing. The late onset girls ‘catch up’ with their peers who experience menarche earlier in terms of depressive symptoms. Future studies should continue to assess the impact of timing of menarche further into adulthood.
Neurocognitive Impairment in Non-Central Nervous System Cancer Survivors
Authors: Schoenberg Poppy L. A. , Mohr Emily M. , Kilpatrick Phyllis E. , Murphy Barbara A.
Published: September 2023

Abstract: Cancer and its treatments entail a profound inflammatory response of the central nervous system (CNS). This intense neurotoxic process can lead to significant neurocognitive impairment even in non-CNS cancers. Few studies have examined this domain, and data available is based on limited designs using neuropsychological assessments comprising self-report or traditional testing batteries that capture basic response data. Here, we leverage cognitive electrophysiology, specifically Event-Related Potentials (ERPs), to examine and delineate neurocognitive impairments in non-CNS cancer survivors. Eleven survivors, who were on average 4.6 years in remission from head and neck cancer and 10 matched healthy controls underwent standardized cognitive and emotional “Go-Nogo” paradigms concomitant to EEG recording. Significant differences in amplitude morphology in the very early ERP components (C1, N1, P1) and middle ERP component (N2), were apparent between non-CNS cancer survivors and controls. Later ERP components (P3, N4) did not show amplitude differences. Non-CNS cancer survivors yielded faster latencies in the early components for pain-related stimuli during the emotional paradigm, albeit tended to yield slower ERP latencies overall across both experiments. These findings suggest that early gating and inhibitory control are dysregulated in non-CNS cancer survivors, which can impact executive functioning and cognitive processing involved in everyday activities for many years post-treatment. The findings do not fully align with ERP morphologies associated with neurocognitive impairment in degenerative conditions (such as dementia and Alzheimer’s disease), affecting later-stage ERP components. Our initial results suggest that (1) cognitive impairments in cancer survivors do not follow a degenerative trajectory, (2) rather are in line with “lesion” related damage (such as stroke, epilepsy), and as such, (3) have the potential for treatments involving neurocognitive plasticity.
Novel High‐Pressure Potassium Chloride Monohydrate and Its Implications for Water‐Rich Planetary Bodies
Authors: Wei Xinmiao , Zhou Qiang , Li Fangfei , Zhang Caizi , Sun Fuxing , Zhang Zihan , Li Ruiyu , Yu Hongyu , Yan Yalan , Li Liang , Liermann Hanns‐Peter , Speziale Sergio , Li Xinyang
Published: September 2023

Saline water is a common fluid on the Earth‘s surface and in ice planets. Potassium chloride (KCl) is a common salt and is expected to be a ubiquitous solute in salt water in the Universe; however, few studies investigated the behavior of KCl‐H2O system at high pressures and temperatures. In this study, powder and single‐crystal X‐ray diffraction (SC‐XRD), Raman and Brillouin scattering combined with diamond anvil cells were used to investigate the phase relation in the KCl‐H2O system for different KCl concentrations at 0–4 GPa and 298–405 K. The results of powder X‐ray diffraction and Raman scattering demonstrate that a novel KCl hydrate is formed when KCl aqueous solutions transform to solid ice‐VI and ice‐VII at high pressure. Simultaneously, the single‐crystal of KCl hydrate is synthesized from a supersaturated KCl solution at 298 K and 1.8 GPa. The structure is solved by SC‐XRD, indicating a KCl monohydrate with the P21/n space group is formed. We have verified the phase stability of KCl monohydrate by using Raman spectroscopy and density functional theory. Our results indicate that KCl monohydrate is a stable phase under pressure and temperature conditions between 1.6 and 2.4 GPa and 298–359 K. By considering the thermal profile and composition of icy moons, we hypothesize that the formation and decomposition of KCl monohydrate might induce mantle convection in these moons.
Uncertain Spatial Pattern of Future Land Use and Land Cover Change and Its Impacts on Terrestrial Carbon Cycle Over the Arctic–Boreal Region of North America
Authors: Luo Meng , Li Fa , Hao Dalei , Zhu Qing , Dashti Hamid , Chen Min
Published: September 2023

Land use and land cover change (LULCC) represents a key process of human‐Earth system interaction and has profound impacts on terrestrial ecosystem carbon cycling. As a key input for ecosystem models, future gridded LULCC data is typically spatially downscaled from regional LULCC projections by integrated assessment models, such as the Global Change Analysis Model (GCAM). The uncertainty associated with the different spatial downscaling methods and its impacts on the subsequent model projections have been historically ignored and rarely examined. This study investigated this problem using two representative spatial downscaling methods and focused on their impacts on the carbon cycle over the Arctic‐Boreal Vulnerability Experiment (ABoVE) domain, where extensive LULCC is expected. Specifically, we used the Future Land Use Simulation model (FLUS) and the Demeter model to generate 0.25° gridded LULCC data (i.e., LULCCFLUS and LULCCDemeter, respectively) with the same input of regional LULCC projections from GCAM, under both the low (i.e., SSP126) and high (i.e., SSP585) greenhouse gas emission scenarios. The two sets of downscaled LULCC were used to drive the Community Land Model version 5 and prognostically simulate the terrestrial carbon cycle dynamics over the 21st century. The results suggest large spatial‐temporal differences between LULCCFLUS and LULCCDemeter, and the spatial distributions of the needleleaf evergreen boreal tree, broadleaf deciduous boreal tree, broadleaf deciduous boreal shrub, and C3 arctic grass are particularly different under both SSP126 and SSP585. Additionally, the spatiotemporal differences are larger under SSP126 than SSP585, due to more intensive LULCC under SSP126 than SSP585 from GCAM projection. The differences in LULCC further lead to large discrepancies in the spatial patterns of projected gross primary productivity, ecosystem respiration, and net ecosystem exchange, which represent more than 79% of the contributions of future LULCC in 2100. Additionally, the difference in carbon flux under SSP126 is generally larger than those under SSP585. This study highlights the importance of considering the uncertainties induced by the spatial downscaling process in future LULCC projections and carbon cycle simulations.
Upper Plate Faults May Contribute to the Paleoseismic Subsidence Record Along the Central Hikurangi Subduction Zone, Aotearoa New Zealand
Authors: Delano J. E. , Howell A. , Clark K. J. , Stahl T. A.
Published: September 2023

Earthquake‐driven subsidence can cause cascading hazards at the coast by exacerbating relative sea level rise, storm surges, tsunami, and tidal flooding. At Ahuriri Lagoon near Napier, Aotearoa New Zealand, paleoseismic uplift and subsidence are typically attributed to upper plate faults and subduction interface earthquakes, respectively. We test this assumption with elastic dislocation models of upper plate and subduction interface earthquakes informed by historical events, seismic surveys, and modern interface coupling data. We compared our surface deformation results to paleoseismic records preserved at Ahuriri Lagoon, which includes eight rapid subsidence (c. 0.5–1.2 m) and two rapid uplift events over the last c. 7 kyr. Our models demonstrate that offshore upper plate faults could cause subsidence of c. 0.5–1 m at Ahuriri Lagoon at recurrence intervals of c. 2 kyr. A range of subduction interface earthquakes can also produce subsidence at Ahuriri Lagoon, and may explain larger (>1 m) subsidence, but must rupture the currently creeping (i.e., aseismic) portions of the interface. We demonstrate that both upper plate fault and subduction interface earthquakes may have contributed to the Ahuriri Lagoon records, and that interface coupling may be more spatially or temporally heterogeneous than modern geodetic data suggest. Models of sea‐level rise and earthquake multi‐hazards that do not include the effects of upper plate faulting may mischaracterize risk at the coast.
Revisiting Oxygen‐18 and Clumped Isotopes in Planktic and Benthic Foraminifera
Authors: Daëron M. , Gray W. R.
Published: September 2023

Foraminiferal isotopes are widely used to study past oceans, with different species recording conditions at different depths. Their δ18O values record both seawater oxygen‐18 and temperature according to species‐specific fractionation factors, while their Δ47 signatures likely depend only on temperature. We describe an open‐source framework to collect/combine data relevant to foraminiferal isotopes, by constraining species‐specific oxygen‐18 fractionation factors (18α) based on culture experiments, stratified plankton tows or core‐top sediments; compiling stratified plankton tow constraints on living depths for planktic species; extracting seawater temperature, δ18O, and chemistry from existing databases for any latitude, longitude, and depth‐range; inferring calcification temperatures based on the above data. We find that although 18α differs between species, its temperature sensitivity remains indistinguishable from inorganic calcite. Based on > 2,600 observations we show that, although most planktic δ18O values are consistent with seawater temperature and δ18O over their expected living depths, a sizable minority (12%–24%) have heavier‐than‐predicted δ18O, best explained by calcification in deeper waters. We use this framework to revisit three recent Δ47 calibration studies of planktic/benthic foraminifera, confirming that planktic Δ47 varies systematically with oxygen‐18‐derived temperature estimates, even for samples whose δ18O disagrees with assumed climatological conditions, and demonstrating excellent agreement between planktic foraminifera and modern, largely inorganic Δ47 calibrations. Benthic foraminifera remain ambiguous: modern benthic Δ47 values appear offset from planktic ones, yet applying equilibrium Δ47 calibration to the Cenozoic benthic foraminifer record of Meckler et al. (2022, https://doi.org/10.1126/science.abk0604) largely reconciles it with δ18O‐derived temperatures, with discrete Δ47/δ18O discrepancies persisting in the Late Paleocene/Eocene/Plio‐Pleistocene.
Multi‐Scale Analysis of Dispersive Scalar Transport Across Porous Media Under Globally Nonlinear Flow Conditions
Authors: Moghimi Hamid , Mousavi Nezhad Mohaddeseh , Guadagnini Alberto
Published: September 2023

We focus on nonlinear flow regime scenarios observed at the global scale of a porous medium and explore the impact of such nonlinearities on key features of dispersive scalar transport observed across three‐dimensional porous systems characterized by various degrees of pore space complexity. Flow and transport processes are analyzed at pore‐scale and larger scales in well‐documented digital Beadpack and Bentheimer sandstone samples. Our simulations comprise linear (Darcy) and nonlinear (Forchheimer) flow regimes and consider a broad interval of values of Péclet number (ranging from 1 × 10−2–5 × 104). Sample probability density functions of pore‐scale velocities and concentrations of the migrating scalar are analyzed and related to flow conditions and degree of complexity of the pore space. Estimated values of dispersion associated with section‐averaged breakthrough curves display a power‐law scaling on the Péclet number. The scaling exponent depends on the relative importance of pore‐scale diffusion and advection. We find that the Forchheimer flow regime is characterized by enhanced mixing of the scalar field. This leads to enhanced dispersion as compared against a Darcy regime.
Thalamocortical control of cell-type specificity drives circuits for processing whisker-related information in mouse barrel cortex
Authors: Young Timothy R. , Yamamoto Mariko , Kikuchi Satomi S. , Yoshida Aya C. , Abe Takaya , Inoue Kenichi , Johansen Joshua P. , Benucci Andrea , Yoshimura Yumiko , Shimogori Tomomi
Published: September 2023

Excitatory spiny stellate neurons are prominently featured in the cortical circuits of sensory modalities that provide high salience and high acuity representations of the environment. These specialized neurons are considered developmentally linked to bottom-up inputs from the thalamus, however, the molecular mechanisms underlying their diversification and function are unknown. Here, we investigated this in mouse somatosensory cortex, where spiny stellate neurons and pyramidal neurons have distinct roles in processing whisker-evoked signals. Utilizing spatial transcriptomics, we identified reciprocal patterns of gene expression which correlated with these cell-types and were linked to innervation by specific thalamic inputs during development. Genetic manipulation that prevents the acquisition of spiny stellate fate highlighted an important role for these neurons in processing distinct whisker signals within functional cortical columns, and as a key driver in the formation of specific whisker-related circuits in the cortex.
Rhs NADase effectors and their immunity proteins are exchangeable mediators of inter-bacterial competition in Serratia
Authors: Hagan Martin , Pankov Genady , Gallegos-Monterrosa Ramses , Williams David J. , Earl Christopher , Buchanan Grant , Hunter William N. , Coulthurst Sarah J.
Published: September 2023

Many bacterial species use Type VI secretion systems (T6SSs) to deliver anti-bacterial effector proteins into neighbouring bacterial cells, representing an important mechanism of inter-bacterial competition. Specific immunity proteins protect bacteria from the toxic action of their own effectors, whilst orphan immunity proteins without a cognate effector may provide protection against incoming effectors from non-self competitors. T6SS-dependent Rhs effectors contain a variable C-terminal toxin domain (CT), with the cognate immunity protein encoded immediately downstream of the effector. Here, we demonstrate that Rhs1 effectors from two strains of Serratia marcescens, the model strain Db10 and clinical isolate SJC1036, possess distinct CTs which both display NAD(P)+ glycohydrolase activity but belong to different subgroups of NADase from each other and other T6SS-associated NADases. Comparative structural analysis identifies conserved functions required for NADase activity and reveals that unrelated NADase immunity proteins utilise a common mechanism of effector inhibition. By replicating a natural recombination event, we show successful functional exchange of CTs and demonstrate that Db10 encodes an orphan immunity protein which provides protection against T6SS-delivered SJC1036 NADase. Our findings highlight the flexible use of Rhs effectors and orphan immunity proteins during inter-strain competition and the repeated adoption of NADase toxins as weapons against bacterial cells.
Promoting multiexciton interactions in singlet fission and triplet fusion upconversion dendrimers
Authors: He Guiying , Churchill Emily M. , Parenti Kaia R. , Zhang Jocelyn , Narayanan Pournima , Namata Faridah , Malkoch Michael , Congreve Daniel N. , Cacciuto Angelo , Sfeir Matthew Y. , Campos Luis M.
Published: September 2023

Singlet fission and triplet-triplet annihilation upconversion are two multiexciton processes intimately related to the dynamic interaction between one high-lying energy singlet and two low-lying energy triplet excitons. Here, we introduce a series of dendritic macromolecules that serve as platform to study the effect of interchromophore interactions on the dynamics of multiexciton generation and decay as a function of dendrimer generation. The dendrimers (generations 1–4) consist of trimethylolpropane core and 2,2-bis(methylol)propionic acid (bis-MPA) dendrons that provide exponential growth of the branches, leading to a corona decorated with pentacenes for SF or anthracenes for TTA-UC. The findings reveal a trend where a few highly ordered sites emerge as the dendrimer generation grows, dominating the multiexciton dynamics, as deduced from optical spectra, and transient absorption spectroscopy. While the dendritic structures enhance TTA-UC at low annihilator concentrations in the largest dendrimers, the paired chromophore interactions induce a broadened and red-shifted excimer emission. In SF dendrimers of higher generations, the triplet dynamics become increasingly dominated by pairwise sites exhibiting strong coupling (Type II), which can be readily distinguished from sites with weaker coupling (Type I) by their spectral dynamics and decay kinetics.
Metabolic crosstalk between skeletal muscle cells and liver through IRF4-FSTL1 in nonalcoholic steatohepatitis
Authors: Guo Shanshan , Feng Yonghao , Zhu Xiaopeng , Zhang Xinyi , Wang Hui , Wang Ruwen , Zhang Qiongyue , Li Yiming , Ren Yan , Gao Xin , Bian Hua , Liu Tiemin , Gao Huanqing , Kong Xingxing
Published: September 2023

Inter-organ crosstalk has gained increasing attention in recent times; however, the underlying mechanisms remain unclear. In this study, we elucidate an endocrine pathway that is regulated by skeletal muscle interferon regulatory factor (IRF) 4, which manipulates liver pathology. Skeletal muscle specific IRF4 knockout (F4MKO) mice exhibited ameliorated hepatic steatosis, inflammation, and fibrosis, without changes in body weight, when put on a nonalcoholic steatohepatitis (NASH) diet. Proteomics analysis results suggested that follistatin-like protein 1 (FSTL1) may constitute a link between muscles and the liver. Dual luciferase assays showed that IRF4 can transcriptionally regulate FSTL1. Further, inducing FSTL1 expression in the muscles of F4MKO mice is sufficient to restore liver pathology. In addition, co-culture experiments confirmed that FSTL1 plays a distinct role in various liver cell types via different receptors. Finally, we observed that the serum FSTL1 level is positively correlated with NASH progression in humans. These data indicate a signaling pathway involving IRF4-FSTL1-DIP2A/CD14, that links skeletal muscle cells to the liver in the pathogenesis of NASH.
Cloning of the wheat leaf rust resistance gene Lr47 introgressed from Aegilops speltoides
Authors: Li Hongna , Hua Lei , Zhao Shuqing , Hao Ming , Song Rui , Pang Shuyong , Liu Yanna , Chen Hong , Zhang Wenjun , Shen Tao , Gou Jin-Ying , Mao Hailiang , Wang Guiping , Hao Xiaohua , Li Jian , Song Baoxing , Lan Caixia , Li Zaifeng , Deng Xing Wang , Dubcovsky Jorge , Wang Xiaodong , Chen Shisheng
Published: September 2023

Leaf rust, caused by Puccinia triticina Eriksson (Pt), is one of the most severe foliar diseases of wheat. Breeding for leaf rust resistance is a practical and sustainable method to control this devastating disease. Here, we report the identification of Lr47, a broadly effective leaf rust resistance gene introgressed into wheat from Aegilops speltoides. Lr47 encodes a coiled-coil nucleotide-binding leucine-rich repeat protein that is both necessary and sufficient to confer Pt resistance, as demonstrated by loss-of-function mutations and transgenic complementation. Lr47 introgression lines with no or reduced linkage drag are generated using the Pairing homoeologous1 mutation, and a diagnostic molecular marker for Lr47 is developed. The coiled-coil domain of the Lr47 protein is unable to induce cell death, nor does it have self-protein interaction. The cloning of Lr47 expands the number of leaf rust resistance genes that can be incorporated into multigene transgenic cassettes to control this devastating disease.
A virus-like particle-based bivalent PCSK9 vaccine lowers LDL-cholesterol levels in non-human primates
Authors: Fowler Alexandra , Van Rompay Koen K. A. , Sampson Maureen , Leo Javier , Watanabe Jennifer K. , Usachenko Jodie L. , Immareddy Ramya , Lovato Debbie M. , Schiller John T. , Remaley Alan T. , Chackerian Bryce
Published: September 2023

Elevated low-density lipoprotein cholesterol (LDL-C) is an important risk factor in the development of atherosclerotic cardiovascular disease (ASCVD). Inhibitors of proprotein convertase subtilisin/kexin type 9 (PCSK9), a negative regulator of LDL-C metabolism, have emerged as promising approaches for reducing elevated LDL-C levels. Here, we evaluated the cholesterol-lowering efficacy of virus-like particle (VLP) based vaccines that target epitopes found within the LDL receptor (LDL-R) binding domain of PCSK9. In both mice and non-human primates, a bivalent VLP vaccine targeting two distinct epitopes on PCSK9 elicited strong and durable antibody responses and lowered cholesterol levels. In macaques, a VLP vaccine targeting a single PCSK9 epitope was only effective at lowering LDL-C levels in combination with statins, whereas immunization with the bivalent vaccine lowered LDL-C without requiring statin co-administration. These data highlight the efficacy of an alternative, vaccine-based approach for lowering LDL-C.
In-ear integrated sensor array for the continuous monitoring of brain activity and of lactate in sweat
Authors: Xu Yuchen , De la Paz Ernesto , Paul Akshay , Mahato Kuldeep , Sempionatto Juliane R. , Tostado Nicholas , Lee Min , Hota Gopabandhu , Lin Muyang , Uppal Abhinav , Chen William , Dua Srishty , Yin Lu , Wuerstle Brian L. , Deiss Stephen , Mercier Patrick , Xu Sheng , Wang Joseph , Cauwenberghs Gert
Published: September 2023

Owing to the proximity of the ear canal to the central nervous system, in-ear electrophysiological systems can be used to unobtrusively monitor brain states. Here, by taking advantage of the ear’s exocrine sweat glands, we describe an in-ear integrated array of electrochemical and electrophysiological sensors placed on a flexible substrate surrounding a user-generic earphone for the simultaneous monitoring of lactate concentration and brain states via electroencephalography, electrooculography and electrodermal activity. In volunteers performing an acute bout of exercise, the device detected elevated lactate levels in sweat concurrently with the modulation of brain activity across all electroencephalography frequency bands. Simultaneous and continuous unobtrusive in-ear monitoring of metabolic biomarkers and brain electrophysiology may allow for the discovery of dynamic and synergetic interactions between brain and body biomarkers in real-world settings for long-term health monitoring or for the detection or monitoring of neurodegenerative diseases.
Systematic analysis of drug combinations against Gram-positive bacteria
Authors: Cacace Elisabetta , Kim Vladislav , Varik Vallo , Knopp Michael , Tietgen Manuela , Brauer-Nikonow Amber , Inecik Kemal , Mateus André , Milanese Alessio , Mårli Marita Torrissen , Mitosch Karin , Selkrig Joel , Brochado Ana Rita , Kuipers Oscar P. , Kjos Morten , Zeller Georg , Savitski Mikhail M. , Göttig Stephan , Huber Wolfgang , Typas Athanasios
Published: September 2023

Drug combinations can expand options for antibacterial therapies but have not been systematically tested in Gram-positive species. We profiled ~8,000 combinations of 65 antibacterial drugs against the model species Bacillus subtilis and two prominent pathogens, Staphylococcus aureus and Streptococcus pneumoniae. Thereby, we recapitulated previously known drug interactions, but also identified ten times more novel interactions in the pathogen S. aureus, including 150 synergies. We showed that two synergies were equally effective against multidrug-resistant S. aureus clinical isolates in vitro and in vivo. Interactions were largely species-specific and synergies were distinct from those of Gram-negative species, owing to cell surface and drug uptake differences. We also tested 2,728 combinations of 44 commonly prescribed non-antibiotic drugs with 62 drugs with antibacterial activity against S. aureus and identified numerous antagonisms that might compromise the efficacy of antimicrobial therapies. We identified even more synergies and showed that the anti-aggregant ticagrelor synergized with cationic antibiotics by modifying the surface charge of S. aureus. All data can be browsed in an interactive interface (https://apps.embl.de/combact/).
The Chinese thermal comfort dataset
Authors: Yang Liu , Zhao Shengkai , Zhai Yongchao , Gao Siru , Wang Feixiang , Lian Zhiwei , Duanmu Lin , Zhang Yufeng , Zhou Xiang , Cao Bin , Wang Zhaojun , Yan Haiyan , Zhang Hui , Arens Edward , de Dear Richard
Published: September 2023

Heating and cooling in buildings accounts for over 20% of total energy consumption in China. Therefore, it is essential to understand the thermal requirements of building occupants when establishing building energy codes that would save energy while maintaining occupants’ thermal comfort. This paper introduces the Chinese thermal comfort dataset, established by seven participating institutions under the leadership of Xi’an University of Architecture and Technology. The dataset comprises 41,977 sets of data collected from 49 cities across five climate zones in China over the past two decades. The raw data underwent careful quality control procedure, including systematic organization, to ensure its reliability. Each dataset contains environmental parameters, occupants’ subjective responses, building information, and personal information. The dataset has been instrumental in the development of indoor thermal environment evaluation standards and energy codes in China. It can also have broader applications, such as contributing to the international thermal comfort dataset, modeling thermal comfort and adaptive behaviors, investigating regional differences in indoor thermal conditions, and examining occupants’ thermal comfort responses.
Green armoured tardigrades (Echiniscidae: Viridiscus), including a new species from the Southern Nearctic, exemplify problems with tardigrade variability research
Authors: Momeni Sogol , Gąsiorek Piotr , Loeffelholz Jacob , Chtarbanova Stanislava , Nelson Diane R. , Fletcher Rebecca Adkins , Michalczyk Łukasz , Pienaar Jason
Published: September 2023

Ranges of tardigrade intraspecific and interspecific variability are not precisely defined, both in terms of morphology and genetics, rendering descriptions of new taxa a cumbersome task. This contribution enhances the morphological and molecular dataset available for the heterotardigrade genus Viridiscus by supplying new information on Southern Nearctic populations of V.perviridis, V.viridianus, and a new species from Tennessee. We demonstrate that, putting aside already well-documented cases of significant variability in chaetotaxy, the dorsal plate sculpturing and other useful diagnostic characters, such as morphology of clavae and pedal platelets, may also be more phenotypically plastic characters at the species level than previously assumed. As a result of our integrative analyses, V.viridianus is redescribed, V.celatus sp. nov. described, and V.clavispinosus designated as nomeninquirendum, and its junior synonymy with regard to V.viridianus suggested. Morphs of three Viridiscus species (V.perviridis, V.viridianus, and V.viridissimus) are depicted, and the implications for general echiniscid taxonomy are drawn. We emphasise that taxonomic conclusions reached solely through morphological or molecular analyses lead to a distorted view on tardigrade α-diversity.
Low-density polyethylene microplastics alter chemical properties and microbial communities in agricultural soil
Authors: Palansooriya Kumuduni Niroshika , Sang Mee Kyung , El-Naggar Ali , Shi Liang , Chang Scott X. , Sung Jwakyung , Zhang Wei , Ok Yong Sik
Published: September 2023

Microplastic (MP) pollution in agricultural soils, resulting from the use of plastic mulch, compost, and sewage sludge, jeopardizes the soil microbial populations. However, the effects of MPs on soil chemical properties and microbial communities remain largely unknown. Here, we investigated the effects of different concentration levels (0, 0.1, 1, 3, 5, and 7%; w:w) of low-density polyethylene (LDPE) MPs on the chemical properties and bacterial communities of agricultural soil in an incubation study. The addition of LDPE MPs did not drastically change soil pH (ranging from 8.22 to 8.42). Electrical conductivity increased significantly when the LDPE MP concentrations were between 1 and 7%, whereas the total exchangeable cations (Na+, K+, Mg2+, and Ca2+) decreased significantly at higher LDPE MP concentrations (3–7%). The highest available phosphorus content (2.13 mg kg−1) was observed in 0.1% LDPE MP. Bacterial richness (Chao1 and Ace indices) was the lowest at 0.1% LDPE MP, and diversity indices (Shannon and Invsimpson) were higher at 0 and 1% LDPE MP than at other concentrations. The effect of LDPE MP concentrations on bacterial phyla remained unchanged, but the bacterial abundance varied. The relative abundance of Proteobacteria (25.8–33.0%) was the highest in all treatments. The abundance of Acidobacteria (15.8–17.2%) was also high, particularly in the 0, 0.1, and 1% LDPE MPs. With the increase in LDPE MP concentration, the abundance of Actinobacteria gradually increased from 7.80 to 31.8%. Our findings suggest that different MP concentration levels considerably alter soil chemical properties and microbial composition, which may potentially change the ecological functions of soil ecosystems.
Computer aided progression detection model based on optimized deep LSTM ensemble model and the fusion of multivariate time series data
Authors: Saleh Hager , Amer Eslam , Abuhmed Tamer , Ali Amjad , Al-Fuqaha Ala , El-Sappagh Shaker
Published: September 2023

Alzheimer’s disease (AD) is the most common form of dementia. Early and accurate detection of AD is crucial to plan for disease modifying therapies that could prevent or delay the conversion to sever stages of the disease. As a chronic disease, patient’s multivariate time series data including neuroimaging, genetics, cognitive scores, and neuropsychological battery provides a complete profile about patient’s status. This data has been used to build machine learning and deep learning (DL) models for the early detection of the disease. However, these models still have limited performance and are not stable enough to be trusted in real medical settings. Literature shows that DL models outperform classical machine learning models, but ensemble learning has proven to achieve better results than standalone models. This study proposes a novel deep stacking framework which combines multiple DL models to accurately predict AD at an early stage. The study uses long short-term memory (LSTM) models as base models over patient’s multivariate time series data to learn the deep longitudinal features. Each base LSTM classifier has been optimized using the Bayesian optimizer using different feature sets. As a result, the final optimized ensembled model employed heterogeneous base models that are trained on heterogeneous data. The performance of the resulting ensemble model has been explored using a cohort of 685 patients from the University of Washington's National Alzheimer’s Coordinating Center dataset. Compared to the classical machine learning models and base LSTM classifiers, the proposed ensemble model achieves the highest testing results (i.e., 82.02, 82.25, 82.02, and 82.12 for accuracy, precision, recall, and F1-score, respectively). The resulting model enhances the performance of the state-of-the-art literature, and it could be used to build an accurate clinical decision support tool that can assist domain experts for AD progression detection.
Superconductivity in high-entropy alloy system containing Th
Authors: Sobota Piotr , Topolnicki Rafał , Ossowski Tomasz , Pikula Tomasz , Gnida Daniel , Idczak Rafał , Pikul Adam
Published: September 2023

Th-containing superconducting high entropy system with the nominal composition (NbTa)$$_{0.67}$$

0.67

(MoWTh)$$_{0.33}$$

0.33

was synthesized. Its structural and physical properties were investigated by X-ray diffraction, scanning electron microscopy, energy dispersive X-ray spectroscopy, specific heat, resistivity and magnetic measurements. Two main phases of alloy were observed: major bcc structure and minor fcc. The experimental results were supported by numerical simulation by the DFT Korringa-Kohn-Rostoker method with the coherent potential approximation (KKR-CPA).
MicroRNAs in Parkinson’s disease: a systematic review and diagnostic accuracy meta-analysis
Authors: Guévremont Diane , Roy Joyeeta , Cutfield Nicholas J. , Williams Joanna M.
Published: September 2023

Current clinical tests for Parkinson’s disease (PD) provide insufficient diagnostic accuracy leading to an urgent need for improved diagnostic biomarkers. As microRNAs (miRNAs) are promising biomarkers of various diseases, including PD, this systematic review and meta-analysis aimed to assess the diagnostic accuracy of biofluid miRNAs in PD. All studies reporting data on miRNAs expression in PD patients compared to controls were included. Gene targets and significant pathways associated with miRNAs expressed in more than 3 biofluid studies with the same direction of change were analyzed using target prediction and enrichment analysis. A bivariate model was used to calculate sensitivity, specificity, likelihood ratios, and diagnostic odds ratio. While miR-24-3p and miR-214-3p were the most reported miRNA (7 each), miR-331-5p was found to be consistently up regulated in 4 different biofluids. Importantly, miR-19b-3p, miR-24-3p, miR-146a-5p, and miR-221-3p were reported in multiple studies without conflicting directions of change in serum and bioinformatic analysis found the targets of these miRNAs to be associated with pathways important in PD pathology. Of the 102 studies from the systematic review, 15 studies reported sensitivity and specificity data on combinations of miRNAs and were pooled for meta-analysis. Studies (17) reporting sensitivity and specificity data on single microRNA were pooled in a separate meta-analysis. Meta-analysis of the combinations of miRNAs (15 studies) showed that biofluid miRNAs can discriminate between PD patients and controls with good diagnostic accuracy (sensitivity = 0.82, 95% CI 0.76–0.87; specificity = 0.80, 95% CI 0.74–0.84; AUC = 0.87, 95% CI 0.83–0.89). However, we found multiple studies included more males with PD than any other group therefore possibly introducing a sex-related selection bias. Overall, our study captures key miRNAs which may represent a point of focus for future studies and the development of diagnostic panels whilst also highlighting the importance of appropriate study design to develop representative biomarker panels for the diagnosis of PD.
Ex vivo study of molecular changes of stained teeth following hydrogen peroxide and peroxymonosulfate treatments
Authors: P. Gomes Paulo Wender , Zuffa Simone , Bauermeister Anelize , Caraballo-Rodríguez Andrés Mauricio , Zhao Haoqi Nina , Mannochio-Russo Helena , Dogo-isonagie Cajetan , Patel Om , Pimenta Paloma , Gronlund Jennifer , Lavender Stacey , Pilch Shira , Maloney Venda , North Michael , Dorrestein Pieter C.
Published: September 2023

White teeth can give confidence and tend to be associated with a healthier lifestyle in modern society. Therefore, tooth-bleaching strategies have been developed, including the use of hydrogen peroxide. Recently, peroxymonosulfate has been introduced as an alternative bleaching method to hydrogen peroxide. Although both chemicals are oxidizing agents, their effects on the molecular composition of the stained teeth are yet unknown. In this study, the molecular profiles of teeth bleached with hydrogen peroxide and peroxymonosulfate were compared using Liquid Chromatography-Tandem Mass Spectrometry. Statistical analyses were used to assess the samples. In addition, reference spectral libraries and in silico tools were used to perform metabolite annotation. Overall, principal component analysis showed a strong separation between control and hydrogen peroxide and peroxymonosulfate samples (p < 0.001). The analysis of molecular changes revealed amino acids and dipeptides in stained teeth samples after hydrogen peroxide and peroxymonosulfate treatments. Noteworthy, the two bleaching methods led to distinct molecular profiles. For example, diterpenoids were more prevalent after peroxymonosulfate treatment, while a greater abundance of alkaloids was detected after hydrogen peroxide treatment. Whereas non-bleached samples (controls) showed mainly lipids. Therefore, this study shows how two different tooth-whitening peroxides could affect the molecular profiles of human teeth.
Reproducibility in pharmacometrics applied in a phase III trial of BCG-vaccination for COVID-19
Authors: van Wijk Rob C. , Mockeliunas Laurynas , van den Hoogen Gerben , Upton Caryn M. , Diacon Andreas H. , Simonsson Ulrika S. H.
Published: September 2023

Large clinical trials often generate complex and large datasets which need to be presented frequently throughout the trial for interim analysis or to inform a data safety monitory board (DSMB). In addition, reliable and traceability are required to ensure reproducibility in pharmacometric data analysis. A reproducible pharmacometric analysis workflow was developed during a large clinical trial involving 1000 participants over one year testing Bacillus Calmette-Guérin (BCG) (re)vaccination in coronavirus disease 2019 (COVID-19) morbidity and mortality in frontline health care workers. The workflow was designed to review data iteratively during the trial, compile frequent reports to the DSMB, and prepare for rapid pharmacometric analysis. Clinical trial datasets (n = 41) were transferred iteratively throughout the trial for review. An RMarkdown based pharmacometric processing script was written to automatically generate reports for evaluation by the DSMB. Reports were compiled, reviewed, and sent to the DSMB on average three days after the data cut-off, reflecting the trial progress in real-time. The script was also utilized to prepare for the trial pharmacometric analyses. The same source data was used to create analysis datasets in NONMEM format and to support model script development. The primary endpoint analysis was completed three days after data lock and unblinding, and the secondary endpoint analyses two weeks later. The constructive collaboration between clinical, data management, and pharmacometric teams enabled this efficient, timely, and reproducible pharmacometrics workflow.
Incidence of deep vein thrombosis and symptomatic pulmonary embolism in Taiwanese patients with pelvic and/or acetabular fractures: a retrospective study
Authors: Hsiao Po-Meng , Liao Shu-Chen , Chen I.-Jung , Chou Ying-Chao , Hsu Yung-Heng , Wang Shu-Mei , Yu Yi-Hsun
Published: September 2023

Venous thromboembolism (VTE) is common in patients with trauma, and thromboprophylaxis has been advocated. However, conflicting results regarding VTE rates in the Asian population following orthopaedic procedures have been presented. We aimed to investigate the VTE incidence in Taiwanese patients with pelvic and/or acetabular fractures and identify the associated risk factors. We included 402 patients who underwent surgery for pelvic and/or acetabular fractures. All patients received mechanical thromboprophylaxis with graduated compression stockings. Duplex scanning was performed postoperatively or during follow-up when signs or symptoms of deep vein thrombosis (DVT) developed. Variables with a significance level of ≤ 0.1 in the univariate analyses were introduced into the multivariate logistic regression analysis to identify DVT risk factors. The overall DVT and symptomatic pulmonary embolism (PE) rate was 3.48% (14/402 patients). Among patients with DVT, 46.1% were asymptomatic. Patients with VTE were significantly older than those without. Multivariate logistic regression analysis revealed that age was a VTE risk factor. The incidence of DVT and symptomatic PE in our cohort was low. Advanced age was a risk factor for VTE. These findings could help clinicians develop appropriate prevention and treatment strategies for VTE in Taiwanese patients with pelvic and/or acetabular fractures.
Exploring the role of miR-200 family in regulating CX3CR1 and CXCR1 in lung adenocarcinoma tumor microenvironment: implications for therapeutic intervention
Authors: Sharma Archana , Singh Prithvi , Jha Rishabh , Almatroodi Saleh A. , Alrumaihi Faris , Rahmani Arshad Husain , Alharbi Hajed Obaid , Dohare Ravins , Syed Mansoor Ali
Published: September 2023

Lung adenocarcinoma (LUAD) is the most common malignant subtype of lung cancer (LC). miR-200 family is one of the prime miR regulators of epithelial-mesenchymal transition (EMT) and worst overall survival (OS) in LC patients. The study aimed to identify and validate the key differentially expressed immune-related genes (DEIRGs) regulated by miR-200 family which may serve for therapeutic aspects in LUAD tumor microenvironment (TME) by affecting cancer progression, invasion, and metastasis. The study identified differentially expressed miRNAs (DEMs) in LUAD, consisting of hsa-miR-200a-3p and hsa-miR-141-5p, respectively. Two highest-degree subnetwork motifs identified from 3-node miRNA FFL were: (i) miR-200a-3p-CX3CR1-SPIB and (ii) miR-141-5p-CXCR1-TBX21. TIMER analysis showed that the expression levels of CX3CR1 and CXCR1 were significantly positively correlated with infiltrating levels of M0-M2 macrophages and natural killer T (NKT) cells. The OS of LUAD patients was significantly affected by lower expression levels of hsa-miR-200a-3p, CX3CR1 and SPIB. These DEIRGs were validated using the human protein atlas (HPA) web server. Further, we validated the regulatory role of hsa-miR-200a-3p in an in-vitro indirect co-culture model using conditioned media from M0, M1 and M2 polarized macrophages (THP-1) and LUAD cell lines (A549 and H1299 cells). The results pointed out the essential role of hsa-miR-200a-3p regulated CX3CL1 and CX3CR1 expression in progression of LC TME. Thus, the study augments a comprehensive understanding and new strategies for LUAD treatment where miR-200 family regulated immune-related genes, especially chemokine receptors, which regulate the metastasis and invasion of LUAD, leading to the worst associated OS.
Calcium wastes as an additive for a low calcium fly ash geopolymer
Authors: Chindaprasirt Prinya , Rattanasak Ubolluk
Published: September 2023

A geopolymer is a low-carbon cement based on the utilization of waste ash in alkali-activated conditions. Coal fly ash is widely used as a source material for geopolymer synthesis since it contains a sufficient amount of reactive alumina and silica for geopolymerization. Geopolymer products are known to have beneficial fire resistance and mechanical properties. Class F or low-calcium fly ash (LCFA) is generally used as a primary aluminosilicate source; however, heat curing is required to complete the reaction and hardening process and achieve a strong composite. Furthermore, calcium additives are often required to improve the strength of LCFA geopolymers. This paper presents the potential of reusing calcium waste for this purpose. Three calcium wastes, namely calcium carbide residue (CCR), limestone waste, and waste cement (WC) slurry in powder form were used as additives and compared with the use of ordinary Portland cement (OPC). LCFA was replaced with the calcium additives at 20%. However, 20% CCR resulted in flash setting, hence 5% CCR was used instead. A durability test using 3% HCl solution was also performed. The results showed that the reactivity of calcium additives played an important role in strength development. In the calcium–aluminosilicate–alkali system, calcium silicate hydrate (CSH) and calcium aluminosilicate hydrate (CASH) were formed. The maximum strength of 21.9 MPa was obtained from the OPC/LCFA geopolymer, and 3% HCl solution had a deleterious effect on the strength. OPC and CCR were favorable reactive sources of calcium compounds to blend with LCFA. From the thermogravimetric results, lower thermal weight changes with higher strength gains were achieved. Low CaCO3decomposition at 750 °C according to the TGA curves indicated the more formation of thermally stable CSH and high compressive strength of Ca/LCFA geopolymers.
Dynamic full-field optical coherence tomography module adapted to commercial microscopes allows longitudinal in vitro cell culture study
Authors: Monfort Tual , Azzollini Salvatore , Brogard Jérémy , Clémençon Marilou , Slembrouck-Brec Amélie , Forster Valerie , Picaud Serge , Goureau Olivier , Reichman Sacha , Thouvenin Olivier , Grieve Kate
Published: September 2023

Dynamic full-field optical coherence tomography (D-FFOCT) has recently emerged as a label-free imaging tool, capable of resolving cell types and organelles within 3D live samples, whilst monitoring their activity at tens of milliseconds resolution. Here, a D-FFOCT module design is presented which can be coupled to a commercial microscope with a stage top incubator, allowing non-invasive label-free longitudinal imaging over periods of minutes to weeks on the same sample. Long term volumetric imaging on human induced pluripotent stem cell-derived retinal organoids is demonstrated, highlighting tissue and cell organization processes such as rosette formation and mitosis as well as cell shape and motility. Imaging on retinal explants highlights single 3D cone and rod structures. An optimal workflow for data acquisition, postprocessing and saving is demonstrated, resulting in a time gain factor of 10 compared to prior state of the art. Finally, a method to increase D-FFOCT signal-to-noise ratio is demonstrated, allowing rapid organoid screening.