bluuebunny/crossref_metadata_2025 huggingface dataset:
Dynamical and Microphysical Aspects of Two Distinct Precipitation Systems in the Himalayas With 206.5 MHz Radar and WRF Model
Authors: Rajput Akanksha , Singh Narendra , Singh Jaydeep , Kumar Ashish , Rastogi Shantanu
Published: May 2024

The dynamical and microphysical aspects of two different precipitating systems have been investigated using the ARIES Stratosphere‐Troposphere Radar (ASTRad) facility and further substantiated by Weather Research Forecasting (WRF) model over Manora Peak. The first event (Case‐I) is associated with the southwest Indian summer monsoon that occurred on 4 August 2020, with a vertical extension of 10–12 km and leads to liquid phase precipitation. The second event (Case‐II) linked to the winter western disturbance occurred on 5 February 2021. This precipitating system was developed with a vertical extension of 6–7 km, resulting in both liquid and solid phase precipitation. Such distinct vertical extension of the systems is found to be associated with the thermodynamical conditions and prevailed large‐scale circulations. By analyzing the vertical structure of these systems using three Doppler moments estimated from the ASTRad (equivalent Reflectivity dBZe, Doppler velocity, and Spectral width), maximum dBZe (∼60 dB) is observed in Case‐II, while higher spectral width (>2 m s−1) is associated to Case‐I. The microphysical processes assessed by the WRF model pointed out that Case‐I involved snow accretion on supercooled droplets, leading to graupel and raindrop formation, while in Case–II, solid and liquid precipitation resulted from ice processes, including accretion or autoconversion. These findings highlight the significance of integrating radar and modeling data to understand the dynamical and microphysical evolution of precipitation under the influence of orography in the Himalayan region.
Life Cycle Evolution of Mixing in Shallow Cumulus Clouds
Authors: Lim Jung‐Sub , Hoffmann Fabian
Published: May 2024

Understanding how entrainment and mixing shape the cloud droplet size distribution (DSD) is crucial for understanding the optical properties and precipitation efficiency of clouds. Different mixing scenarios, mainly homogeneous and inhomogeneous, shape the DSD in a distinct way and alter the cloud's impact on climate. However, the prevalence of these mixing scenarios and how they vary in space and time is still uncertain, as underlying processes are commonly unresolved by conventional numerical models. To overcome this challenge, we employ the L3 model, which considers supersaturation fluctuations and turbulent mixing down to the finest relevant lengthscales, making it possible to represent different mixing scenarios realistically. We investigate the spatial and temporal evolution of mixing scenarios over the life cycle of shallow cumulus clouds for varying boundary layer humidities and aerosol concentrations. Our findings suggest homogeneous mixing is generally predominant in cumulus clouds, while different mixing scenarios occur concurrently in the same cloud. Notably, inhomogeneous mixing increases over the cloud life cycle across all analyzed cases. The mean and standard deviation of supersaturation are found to be the most capable indicators of this evolution, providing a comprehensive insight into the characteristics of mixing scenarios. Finally, we show inhomogeneous mixing is more prevalent in drier boundary layers and for higher aerosol concentrations, underscoring the need for a more comprehensive investigation of how these mixing dynamics evolve in a changing climate.
Targeting the mitochondrial protein YME1L to inhibit osteosarcoma cell growth in vitro and in vivo
Authors: Sun Xu , Shi Ce , Dai Jin , Zhang Mei-Qing , Pei Dong-Sheng , Yang Lei
Published: May 2024

Exploring novel diagnostic and therapeutic biomarkers is extremely important for osteosarcoma. YME1 Like 1 ATPase (YME1L), locating in the mitochondrial inner membrane, is key in regulating mitochondrial plasticity and metabolic activity. Its expression and potential functions in osteosarcoma are studied in the present study. We show that YME1L mRNA and protein expression is significantly elevated in osteosarcoma tissues derived from different human patients. Moreover, its expression is upregulated in various primary and immortalized osteosarcoma cells. The Cancer Genome Atlas database results revealed that YME1L overexpression was correlated with poor overall survival and poor disease-specific survival in sarcoma patients. In primary and immortalized osteosarcoma cells, silencing of YME1L through lentiviral shRNA robustly inhibited cell viability, proliferation, and migration. Moreover, cell cycle arrest and apoptosis were detected in YME1L-silenced osteosarcoma cells. YME1L silencing impaired mitochondrial functions in osteosarcoma cells, causing mitochondrial depolarization, oxidative injury, lipid peroxidation and DNA damage as well as mitochondrial respiratory chain complex I activity inhibition and ATP depletion. Contrarily, forced YME1L overexpression exerted pro-cancerous activity and strengthened primary osteosarcoma cell proliferation and migration. YME1L is important for Akt-S6K activation in osteosarcoma cells. Phosphorylation of Akt and S6K was inhibited after YME1L silencing in primary osteosarcoma cells, but was strengthened with YME1L overexpression. Restoring Akt-mTOR activation by S473D constitutively active Akt1 mitigated YME1L shRNA-induced anti-osteosarcoma cell activity. Lastly, intratumoral injection of YME1L shRNA adeno-associated virus inhibited subcutaneous osteosarcoma xenograft growth in nude mice. YME1L depletion, mitochondrial dysfunction, oxidative injury, Akt-S6K inactivation, and apoptosis were detected in YME1L shRNA-treated osteosarcoma xenografts. Together, overexpressed YME1L promotes osteosarcoma cell growth, possibly by maintaining mitochondrial function and Akt-mTOR activation.
Deprivation of methionine inhibits osteosarcoma growth and metastasis via C1orf112-mediated regulation of mitochondrial functions
Authors: Zhang Xindan , Zhao Zhenggang , Wang Xuepeng , Zhang Shiwei , Zhao Zilong , Feng Wenbin , Xu Lijun , Nie Junhua , Li Hong , Liu Jia , Xiao Gengmiao , Zhang Yu , Li Haomiao , Lu Ming , Mai Jialuo , Zhou Sujin , Zhao Allan Z. , Li Fanghong
Published: May 2024

Osteosarcoma is a malignant bone tumor that primarily inflicts the youth. It often metastasizes to the lungs after chemotherapy failure, which eventually shortens patients’ lives. Thus, there is a dire clinical need to develop a novel therapy to tackle osteosarcoma metastasis. Methionine dependence is a special metabolic characteristic of most malignant tumor cells that may offer a target pathway for such therapy. Herein, we demonstrated that methionine deficiency restricted the growth and metastasis of cultured human osteosarcoma cells. A genetically engineered Salmonella, SGN1, capable of overexpressing an L-methioninase and hydrolyzing methionine led to significant reduction of methionine and S-adenosyl-methionine (SAM) specifically in tumor tissues, drastically restricted the growth and metastasis in subcutaneous xenograft, orthotopic, and tail vein-injected metastatic models, and prolonged the survival of the model animals. SGN1 also sharply suppressed the growth of patient-derived organoid and xenograft. Methionine restriction in the osteosarcoma cells initiated severe mitochondrial dysfunction, as evident in the dysregulated gene expression of respiratory chains, increased mitochondrial ROS generation, reduced ATP production, decreased basal and maximum respiration, and damaged mitochondrial membrane potential. Transcriptomic and molecular analysis revealed the reduction of C1orf112 expression as a primary mechanism underlies methionine deprivation-initiated suppression on the growth and metastasis as well as mitochondrial functions. Collectively, our findings unraveled a molecular linkage between methionine restriction, mitochondrial function, and osteosarcoma growth and metastasis. A pharmacological agent, such as SGN1, that can achieve tumor specific deprivation of methionine may represent a promising modality against the metastasis of osteosarcoma and potentially other types of sarcomas as well.
Tryptophan fuels MYC-dependent liver tumorigenesis through indole 3-pyruvate synthesis
Authors: Venkateswaran Niranjan , Garcia Roy , Lafita-Navarro M. Carmen , Hao Yi-Heng , Perez-Castro Lizbeth , Nogueira Pedro A. S. , Solmonson Ashley , Mender Ilgen , Kilgore Jessica A. , Fang Shun , Brown Isabella N. , Li Li , Parks Emily , Lopes dos Santos Igor , Bhaskar Mahima , Kim Jiwoong , Jia Yuemeng , Lemoff Andrew , Grishin Nick V. , Kinch Lisa , Xu Lin , Williams Noelle S. , Shay Jerry W. , DeBerardinis Ralph J. , Zhu Hao , Conacci-Sorrell Maralice
Published: May 2024

Cancer cells exhibit distinct metabolic activities and nutritional dependencies compared to normal cells. Thus, characterization of nutrient demands by individual tumor types may identify specific vulnerabilities that can be manipulated to target the destruction of cancer cells. We find that MYC-driven liver tumors rely on augmented tryptophan (Trp) uptake, yet Trp utilization to generate metabolites in the kynurenine (Kyn) pathway is reduced. Depriving MYC-driven tumors of Trp through a No-Trp diet not only prevents tumor growth but also restores the transcriptional profile of normal liver cells. Despite Trp starvation, protein synthesis remains unhindered in liver cancer cells. We define a crucial role for the Trp-derived metabolite indole 3-pyruvate (I3P) in liver tumor growth. I3P supplementation effectively restores the growth of liver cancer cells starved of Trp. These findings suggest that I3P is a potential therapeutic target in MYC-driven cancers. Developing methods to target this metabolite represents a potential avenue for liver cancer treatment.
The actin cytoskeleton plays multiple roles in structural colour formation in butterfly wing scales
Authors: Lloyd Victoria J. , Burg Stephanie L. , Harizanova Jana , Garcia Esther , Hill Olivia , Enciso-Romero Juan , Cooper Rory L. , Flenner Silja , Longo Elena , Greving Imke , Nadeau Nicola J. , Parnell Andrew J.
Published: May 2024

Vivid structural colours in butterflies are caused by photonic nanostructures scattering light. Structural colours evolved for numerous biological signalling functions and have important technological applications. Optically, such structures are well understood, however insight into their development in vivo remains scarce. We show that actin is intimately involved in structural colour formation in butterfly wing scales. Using comparisons between iridescent (structurally coloured) and non-iridescent scales in adult and developing H. sara, we show that iridescent scales have more densely packed actin bundles leading to an increased density of reflective ridges. Super-resolution microscopy across three distantly related butterfly species reveals that actin is repeatedly re-arranged during scale development and crucially when the optical nanostructures are forming. Furthermore, actin perturbation experiments at these later developmental stages resulted in near total loss of structural colour in H. sara. Overall, this shows that actin plays a vital and direct templating role during structural colour formation in butterfly scales, providing ridge patterning mechanisms that are likely universal across lepidoptera.
Preserving ester-linked modifications reveals glutamate and aspartate mono-ADP-ribosylation by PARP1 and its reversal by PARG
Authors: Longarini Edoardo José , Matić Ivan
Published: May 2024

Ester-linked post-translational modifications, including serine and threonine ubiquitination, have gained recognition as important cellular signals. However, their detection remains a significant challenge due to the chemical lability of the ester bond. This is the case even for long-known modifications, such as ADP-ribosylation on aspartate and glutamate, whose role in PARP1 signaling has recently been questioned. Here, we present easily implementable methods for preserving ester-linked modifications. When combined with a specific and sensitive modular antibody and mass spectrometry, these approaches reveal DNA damage-induced aspartate/glutamate mono-ADP-ribosylation. This previously elusive signal represents an initial wave of PARP1 signaling, contrasting with the more enduring nature of serine mono-ADP-ribosylation. Unexpectedly, we show that the poly-ADP-ribose hydrolase PARG is capable of reversing ester-linked mono-ADP-ribosylation in cells. Our methodology enables broad investigations of various ADP-ribosylation writers and, as illustrated here for noncanonical ubiquitination, it paves the way for exploring other emerging ester-linked modifications.
Droplet-based mechanical transducers modulated by the symmetry of wettability patterns
Authors: Xue Luanluan , Li An , Li Huizeng , Yu Xinye , Li Kaixuan , Yuan Renxuan , Deng Xiao , Li Rujun , Liu Quan , Song Yanlin
Published: May 2024

Asymmetric mechanical transducers have important applications in energy harvesting, signal transmission, and micro-mechanics. To achieve asymmetric transformation of mechanical motion or energy, active robotic metamaterials, as well as materials with asymmetric microstructures or internal orientation, are usually employed. However, these strategies usually require continuous energy supplement and laborious fabrication, and limited transformation modes are achieved. Herein, utilizing wettability patterned surfaces for precise control of the droplet contact line and inner flow, we demonstrate a droplet-based mechanical transducer system, and achieve multimodal responses to specific vibrations. By virtue of the synergistic effect of surface tension and solid-liquid adhesion on the liquid dynamics, the droplet on the patterned substrate can exhibit symmetric/asymmetric vibration transformation when the substrate vibrates horizontally. Based on this, we construct arrayed patterns with distinct arrangements on the substrate, and employ the swarm effect of the arrayed droplets to achieve three-dimensional and multimodal actuation of the target plate under a fixed input vibration. Further, we demonstrate the utilization of the mechanical transducers for vibration management, object transport, and laser modulation. These findings provide a simple yet efficient strategy to realize a multimodal mechanical transducer, which shows significant potential for aseismic design, optical molding, as well as micro-electromechanical systems (MEMS).
Production of deoxycholic acid by low-abundant microbial species is associated with impaired glucose metabolism
Authors: Wahlström Annika , Brumbaugh Ariel , Sjöland Wilhelm , Olsson Lisa , Wu Hao , Henricsson Marcus , Lundqvist Annika , Makki Kassem , Hazen Stanley L. , Bergström Göran , Marschall Hanns-Ulrich , Fischbach Michael A. , Bäckhed Fredrik
Published: May 2024

Alterations in gut microbiota composition are suggested to contribute to cardiometabolic diseases, in part by producing bioactive molecules. Some of the metabolites are produced by very low abundant bacterial taxa, which largely have been neglected due to limits of detection. However, the concentration of microbially produced metabolites from these taxa can still reach high levels and have substantial impact on host physiology. To explore this concept, we focused on the generation of secondary bile acids by 7α-dehydroxylating bacteria and demonstrated that addition of a very low abundant bacteria to a community can change the metabolic output dramatically. We show that Clostridium scindens converts cholic acid into the secondary bile acid deoxycholic acid (DCA) very efficiently even though the abundance of C. scindens is low, but still detectable by digital droplet PCR. We also show that colonization of germ-free female mice with a community containing C. scindens induces DCA production and affects host metabolism. Finally, we show that DCA correlates with impaired glucose metabolism and a worsened lipid profile in individuals with type 2 diabetes, which implies that this metabolic pathway may contribute to the development of cardiometabolic disease.
Establishing flood thresholds for sea level rise impact communication
Authors: Mahmoudi Sadaf , Moftakhari Hamed , Muñoz David F. , Sweet William , Moradkhani Hamid
Published: May 2024

Sea level rise (SLR) affects coastal flood regimes and poses serious challenges to flood risk management, particularly on ungauged coasts. To address the challenge of monitoring SLR at local scales, we propose a high tide flood (HTF) thresholding system that leverages machine learning (ML) techniques to estimate SLR and HTF thresholds at a relatively fine spatial resolution (10 km) along the United States’ coastlines. The proposed system, complementing conventional linear- and point-based estimations of HTF thresholds and SLR rates, can estimate these values at ungauged stretches of the coast. Trained and validated against National Oceanic and Atmospheric Administration (NOAA) gauge data, our system demonstrates promising skills with an average Kling-Gupta Efficiency (KGE) of 0.77. The results can raise community awareness about SLR impacts by documenting the chronic signal of HTF and providing useful information for adaptation planning. The findings encourage further application of ML in achieving spatially distributed thresholds.
Thermoelectric active cooling for transient hot spots in microprocessors
Authors: Liu Yihan , Cheng Hao-Yuan , Malen Jonathan A. , Xiong Feng
Published: May 2024

Modern microprocessor performance is limited by local hot spots induced at high frequency by busy integrated circuit elements such as the clock generator. Locally embedded thermoelectric devices (TEDs) are proposed to perform active cooling whereby thermoelectric effects enhance passive cooling by the Fourier law in removing heat from the hot spot to colder regions. To mitigate transient heating events and improve temperature stability, we propose a novel analytical solution that describes the temperature response of a periodically heated hot spot that is actively cooled by a TED driven electrically at the same frequency. The analytical solution that we present is validated by experimental data from frequency domain thermal reflectance (FDTR) measurements made directly on an actively cooled Si thermoelectric device where the pump laser replicates the transient hot spot. We herein demonstrate a practical method to actively cancel the transient temperature variations on circuit elements with TEDs. This result opens a new path to optimize the design of cooling systems for transient localized hot spots in integrated circuits.
Vascular endothelial-derived SPARCL1 exacerbates viral pneumonia through pro-inflammatory macrophage activation
Authors: Zhao Gan , Gentile Maria E. , Xue Lulu , Cosgriff Christopher V. , Weiner Aaron I. , Adams-Tzivelekidis Stephanie , Wong Joanna , Li Xinyuan , Kass-Gergi Sara , Holcomb Nicolas P. , Basal Maria C. , Stewart Kathleen M. , Planer Joseph D. , Cantu Edward , Christie Jason D. , Crespo Maria M. , Mitchell Michael J. , Meyer Nuala J. , Vaughan Andrew E.
Published: May 2024

Inflammation induced by lung infection is a double-edged sword, moderating both anti-viral and immune pathogenesis effects; the mechanism of the latter is not fully understood. Previous studies suggest the vasculature is involved in tissue injury. Here, we report that expression of Sparcl1, a secreted matricellular protein, is upregulated in pulmonary capillary endothelial cells (EC) during influenza-induced lung injury. Endothelial overexpression of SPARCL1 promotes detrimental lung inflammation, with SPARCL1 inducing ‘M1-like’ macrophages and related pro-inflammatory cytokines, while SPARCL1 deletion alleviates these effects. Mechanistically, SPARCL1 functions through TLR4 on macrophages in vitro, while TLR4 inhibition in vivo ameliorates excessive inflammation caused by endothelial Sparcl1 overexpression. Finally, SPARCL1 expression is increased in lung ECs from COVID-19 patients when compared with healthy donors, while fatal COVID-19 correlates with higher circulating SPARCL1 protein levels in the plasma. Our results thus implicate SPARCL1 as a potential prognosis biomarker for deadly COVID-19 pneumonia and as a therapeutic target for taming hyperinflammation in pneumonia.
Two telomere-to-telomere gapless genomes reveal insights into Capsicum evolution and capsaicinoid biosynthesis
Authors: Chen Weikai , Wang Xiangfeng , Sun Jie , Wang Xinrui , Zhu Zhangsheng , Ayhan Dilay Hazal , Yi Shu , Yan Ming , Zhang Lili , Meng Tan , Mu Yu , Li Jun , Meng Dian , Bian Jianxin , Wang Ke , Wang Lu , Chen Shaoying , Chen Ruidong , Jin Jingyun , Li Bosheng , Zhang Xingping , Deng Xing Wang , He Hang , Guo Li
Published: May 2024

Chili pepper (Capsicum) is known for its unique fruit pungency due to the presence of capsaicinoids. The evolutionary history of capsaicinoid biosynthesis and the mechanism of their tissue specificity remain obscure due to the lack of high-quality Capsicum genomes. Here, we report two telomere-to-telomere (T2T) gap-free genomes of C. annuum and its wild nonpungent relative C. rhomboideum to investigate the evolution of fruit pungency in chili peppers. We precisely delineate Capsicum centromeres, which lack high-copy tandem repeats but are extensively invaded by CRM retrotransposons. Through phylogenomic analyses, we estimate the evolutionary timing of capsaicinoid biosynthesis. We reveal disrupted coding and regulatory regions of key biosynthesis genes in nonpungent species. We also find conserved placenta-specific accessible chromatin regions, which likely allow for tissue-specific biosynthetic gene coregulation and capsaicinoid accumulation. These T2T genomic resources will accelerate chili pepper genetic improvement and help to understand Capsicum genome evolution.
A delayed 400 GeV photon from GRB 221009A and implication on the intergalactic magnetic field
Authors: Xia Zi-Qing , Wang Yun , Yuan Qiang , Fan Yi-Zhong
Published: May 2024

Large High Altitude Air Shower Observatory has detected 0.2 − 13 TeV emission of GRB 221009A within 2000 s since the trigger. Here we report the detection of a 400 GeV photon, without accompanying prominent low-energy emission, by Fermi Large Area Telescope in this direction with a 0.4 days’ delay. Given an intergalactic magnetic field strength of about 4 × 10−17 G, which is comparable to limits from TeV blazars, the delayed 400 GeV photon can be explained as the cascade emission of about 10 TeV gamma rays. We estimate the probabilities of the cascade emission that can result in one detectable photon beyond 100 GeV by Fermi Large Area Telescope within 0.3 − 1 days is about 2% whereas it is about 20.5% within 0.3 − 250 days. Our results show that Synchrotron Self-Compton explanation is less favored with probabilities lower by a factor of about 3 − 30 than the cascade scenario.
Atomically dispersed Iridium on Mo2C as an efficient and stable alkaline hydrogen oxidation reaction catalyst
Authors: Fang Jinjie , Wang Haiyong , Dang Qian , Wang Hao , Wang Xingdong , Pei Jiajing , Xu Zhiyuan , Chen Chengjin , Zhu Wei , Li Hui , Yan Yushan , Zhuang Zhongbin
Published: May 2024

Hydroxide exchange membrane fuel cells (HEMFCs) have the advantages of using cost-effective materials, but hindered by the sluggish anodic hydrogen oxidation reaction (HOR) kinetics. Here, we report an atomically dispersed Ir on Mo2C nanoparticles supported on carbon (IrSA-Mo2C/C) as highly active and stable HOR catalysts. The specific exchange current density of IrSA-Mo2C/C is 4.1 mA cm−2ECSA, which is 10 times that of Ir/C. Negligible decay is observed after 30,000-cycle accelerated stability test. Theoretical calculations suggest the high HOR activity is attributed to the unique Mo2C substrate, which makes the Ir sites with optimized H binding and also provides enhanced OH binding sites. By using a low loading (0.05 mgIr cm−2) of IrSA-Mo2C/C as anode, the fabricated HEMFC can deliver a high peak power density of 1.64 W cm−2. This work illustrates that atomically dispersed precious metal on carbides may be a promising strategy for high performance HEMFCs.
Enhanced CD95 and interleukin 18 signalling accompany T cell receptor Vβ21.3+ activation in multi-inflammatory syndrome in children
Authors: Zhang Zhenguang , Kean Iain R. L. , Dratva Lisa M. , Clark John A. , Syrimi Eleni , Khan Naeem , Daubney Esther , White Deborah , O’Neill Lauran , Chisholm Catherine , Payne Caroline , Benkenstein Sarah , Kupiec Klaudia , Galassini Rachel , Wright Victoria , Winmill Helen , Robbins Ceri , Brown Katherine , Ramnarayan Padmanabhan , Scholefield Barnaby , Peters Mark , Klein Nigel , Montgomery Hugh , Meyer Kerstin B. , Teichmann Sarah A. , Bryant Clare , Taylor Graham , Pathan Nazima
Published: May 2024

Multisystem inflammatory syndrome in children is a post-infectious presentation SARS-CoV-2 associated with expansion of the T cell receptor Vβ21.3+ T-cell subgroup. Here we apply muti-single cell omics to compare the inflammatory process in children with acute respiratory COVID-19 and those presenting with non SARS-CoV-2 infections in children. Here we show that in Multi-Inflammatory Syndrome in Children (MIS-C), the natural killer cell and monocyte population demonstrate heightened CD95 (Fas) and Interleuking 18 receptor expression. Additionally, TCR Vβ21.3+ CD4+ T-cells exhibit skewed differentiation towards T helper 1, 17 and regulatory T cells, with increased expression of the co-stimulation receptors ICOS, CD28 and interleukin 18 receptor. We observe no functional evidence for NLRP3 inflammasome pathway overactivation, though MIS-C monocytes show elevated active caspase 8. This, coupled with raised IL18 mRNA expression in CD16- NK cells on single cell RNA sequencing analysis, suggests interleukin 18 and CD95 signalling may trigger activation of TCR Vβ21.3+ T-cells in MIS-C, driven by increased IL-18 production from activated monocytes and CD16- Natural Killer cells.
A systematic review and meta-analysis of unimodal and multimodal predation risk assessment in birds
Authors: Mathot Kimberley J. , Arteaga-Torres Josue David , Besson Anne , Hawkshaw Deborah M. , Klappstein Natasha , McKinnon Rebekah A. , Sridharan Sheeraja , Nakagawa Shinichi
Published: May 2024

Despite a wealth of studies documenting prey responses to perceived predation risk, researchers have only recently begun to consider how prey integrate information from multiple cues in their assessment of risk. We conduct a systematic review and meta-analysis of studies that experimentally manipulated perceived predation risk in birds and evaluate support for three alternative models of cue integration: redundancy/equivalence, enhancement, and antagonism. One key insight from our analysis is that the current theory, generally applied to study cue integration in animals, is incomplete. These theories specify the effects of increasing information level on mean, but not variance, in responses. In contrast, we show that providing multiple complementary cues of predation risk simultaneously does not affect mean response. Instead, as information richness increases, populations appear to assess risk more accurately, resulting in lower among-population variance in response to manipulations of perceived predation risk. We show that this may arise via a statistical process called maximum-likelihood estimation (MLE) integration. Our meta-analysis illustrates how explicit consideration of variance in responses can yield important biological insights.
Upregulated ECM genes and increased synaptic activity in Parkinson’s human DA neurons with PINK1/ PRKN mutations
Authors: Tripathi Utkarsh , Rosh Idan , Ben Ezer Ran , Nayak Ritu , Hussein Yara , Choudhary Ashwani , Djamus Jose , Manole Andreea , Houlden Henry , Gage Fred H. , Stern Shani
Published: May 2024

Parkinson’s disease (PD) is the second most prevalent neurodegenerative disease. Primary symptoms of PD arise with the loss of dopaminergic (DA) neurons in the Substantia Nigra Pars Compacta, but PD also affects the hippocampus and cortex, usually in its later stage. Approximately 15% of PD cases are familial with a genetic mutation. Two of the most associated genes with autosomal recessive (AR) early-onset familial PD are PINK1 and PRKN. In vitro studies of these genetic mutations are needed to understand the neurophysiological changes in patients’ neurons that may contribute to neurodegeneration. In this work, we generated and differentiated DA and hippocampal neurons from human induced pluripotent stem cells (hiPSCs) derived from two patients with a double mutation in their PINK1 and PRKN (one homozygous and one heterozygous) genes and assessed their neurophysiology compared to two healthy controls. We showed that the synaptic activity of PD neurons generated from patients with the PINK1 and PRKN mutations is impaired in the hippocampus and dopaminergic neurons. Mutant dopaminergic neurons had enhanced excitatory post-synaptic activity. In addition, DA neurons with the homozygous mutation of PINK1 exhibited more pronounced electrophysiological differences compared to the control neurons. Signaling network analysis of RNA sequencing results revealed that Focal adhesion and ECM receptor pathway were the top two upregulated pathways in the mutant PD neurons. Our findings reveal that the phenotypes linked to PINK1 and PRKN mutations differ from those from other PD mutations, suggesting a unique interplay between these two mutations that drives different PD mechanisms.
In vitro selection of DNA aptamers against staphylococcal enterotoxin A
Authors: Oliveira Ricardo , Pinho Eva , Barros Maria Margarida , Azevedo Nuno Filipe , Almeida Carina
Published: May 2024

Staphylococcal enterotoxin A (SEA) is the most frequently reported in staphylococcal food poisoning (SFP) outbreaks. Aptamers are single-stranded nucleic acids that are seen as promising alternatives to antibodies in several areas, including diagnostics. In this work, systematic evolution of ligands by exponential enrichment (SELEX) was used to select DNA aptamers against SEA. The SELEX protocol employed magnetic beads as an immobilization matrix for the target molecule and real-time quantitative PCR (qPCR) for monitoring and optimizing sequence enrichment. After 10 selection cycles, the ssDNA pool with the highest affinity was sequenced by next generation sequencing (NGS). Approximately 3 million aptamer candidates were identified, and the most representative cluster sequences were selected for further characterization. The aptamer with the highest affinity showed an experimental dissociation constant (KD) of 13.36 ± 18.62 nM. Increased temperature negatively affected the affinity of the aptamer for the target. Application of the selected aptamers in a lateral flow assay demonstrated their functionality in detecting samples containing 100 ng SEA, the minimum amount capable of causing food poisoning. Overall, the applicability of DNA aptamers in SEA recognition was demonstrated and characterized under different conditions, paving the way for the development of diagnostic tools.
Experimental and computational studies of novel cyclic ammonium based ionic liquids as corrosion inhibitors for carbon steel in acid medium
Authors: El-Nagar Raghda A. , Nessim Maher I. , Khalil N. A. , Elewa Safaa I.
Published: May 2024

The challenge of corrosion posed as a result of acidic sittings is considered as a major industrial concern, wherein ionic liquids serve as crucial in addressing the corrosive impacts on metals. In this study, five selected cyclic ammonium based ionic liquids were synthesized; IL-1MPyrBr, IL-1MPipBr, IL-2PyBr, IL-3MPyBr and IL-4MPyBr and their chemical structures were characterized using a variety of spectroscopic techniques (FT-IR, IH-NMR, 13C-NMR, Elemental analysis and thermal gravimetric analysis (TGA). Their corrosion inhibition efficiency was studied on carbon steel in 1 M HCl via different concentrations at 298 K using chemical and electrochemical parameters (PDP and EIS). DFT quantum parameters were computed, and the noted results were in complete compatible with the experimental. The synthesized ILs recorded excellent inhibition on the carbon steel corrosion in acidic media with increasing efficiency by increasing the inhibitor concentrations from 20 to 100 ppm. Different cations in the synthesized ILs affect the anti-corrosion effect and IL-3MPyBr showed the highest inhibition (ηR); 96.12% using the lowest concentration. Kinetic and thermodynamic considerations were studied and illustrated.
Prevalence and determinants of moderate-to-severe anaemia in the third trimester of pregnancy: a multicenter cross-sectional study in Lagos, Nigeria
Authors: Okunade Kehinde S. , Olowoselu Festus O. , Oyedeji Olufemi A. , Oshodi Yusuf A. , Ugwu Aloy O. , Olumodeji Ayokunle M. , Adejimi Adebola A. , Adenekan Muisi A. , Ojo Temitope , Ademuyiwa Iyabo Y. , Adaramoye Victoria , Okoro Austin C. , Olowe Atinuke , Adelabu Hameed , Akinmola Olukayode O. , Yusuf-Awesu Salimat , Oluwole Ayodeji A.
Published: May 2024

The high burden of anaemia during pregnancy underscores the urgent need to gain a comprehensive understanding of the factors contributing to its widespread occurrence. Our study assessed the prevalence and the trends of moderate-to-severe anaemia (MSA) in late pregnancy (28 to 36 weeks) and then investigated the key determinants driving this prevalence among women in Lagos, Nigeria. We conducted a secondary data analysis involving 1216 women enrolled in the Predict-PPH study between January and March 2023. We employed a multivariate binary logistic regression model with a backward stepwise selection approach to identify significant predictors of MSA. The study revealed a 14.5% prevalence of MSA during pregnancy. Independent predictors of MSA included having given birth to two or more children (adjusted odds ratio = 1.46, 95% confidence interval: 1.03–2.07), having a maternal body mass index (BMI) of 28 kg/m2 or higher (adjusted odds ratio = 1.84, 95% confidence interval: 1.29–2.61), having less than tertiary education (adjusted odds ratio = 1.51, 95% confidence interval: 1.08–2.11), and being unemployed (adjusted odds ratio = 1.97, 95% confidence interval: 1.19–3.26). It is crucial for pregnant women, particularly those with higher parities and elevated BMI, to be monitored regularly for anaemia and its consequences during their antenatal care. Additionally, addressing the link between low education, unemployment, and anaemia necessitates comprehensive strategies that empower women in terms of education and economic status to enhance the overall well-being of individuals and communities, ultimately reducing the prevalence of anaemia and associated health issues in pregnancy.
Activation of Einstein–Podolsky–Rosen steering sharing with unsharp nonlocal measurements
Authors: Han Xin-Hong , Qian Tian , Dong Shan-Chuan , Wang Shuo , Xiao Ya , Gu Yong-Jian
Published: May 2024

Einstein–Podolsky–Rosen (EPR) steering is commonly shared among multiple observers by utilizing unsharp measurements. Nevertheless, their usage is restricted to local measurements and does not encompass all nonlocal measurement-based cases. In this work, a method for finding beneficial local measurement settings has been expanded to include nonlocal measurement cases. This method is applicable for any bipartite state and offers benefits even in scenarios with a high number of measurement settings. Using the Greenberger–Horne–Zeilinger state as an illustration, we show that employing unsharp nonlocal measurements can activate the phenomenon of steering sharing in contrast to using local measurements. Furthermore, our findings demonstrate that nonlocal measurements with unequal strength possess a greater activation capability compared to those with equal strength. Our activation method generates fresh concepts for conservation and recycling quantum resources.
Medical calculators derived synthetic cohorts: a novel method for generating synthetic patient data
Authors: Jeanson Francis , Farkouh Michael E. , Godoy Lucas C. , Minha Sa’ar , Tzuman Oran , Marcus Gil
Published: May 2024

This study shows that we can use synthetic cohorts created from medical risk calculators to gain insights into how risk estimations, clinical reasoning, data-driven subgrouping, and the confidence in risk calculator scores are connected. When prediction variables aren't evenly distributed in these synthetic cohorts, they can be used to group similar cases together, revealing new insights about how cohorts behave. We also found that the confidence in predictions made by these calculators can vary depending on patient characteristics. This suggests that it might be beneficial to include a "normalized confidence" score in future versions of these calculators for healthcare professionals. We plan to explore this idea further in our upcoming research.
Drivers of dune formation control ecosystem function and response to disturbance in a barrier island system
Authors: Sabo Alexander B. , Cornish Michael R. , Castorani Max C. N. , Zinnert Julie C.
Published: May 2024

Barrier islands are landscape features that protect coastlines by reducing wave energy and erosion. Quantifying vegetation-topographic interactions between adjacent habitats are essential for predicting long-term island response and resilience to sea-level rise and disturbance. To understand the effects of dune dynamics on adjacent interior island ecosystem processes, we quantified how sediment availability and previous disturbance regime interact with vegetation to influence dune building and ease of seawater and sediment movement into the island interior on two US mid-Atlantic coast barrier islands. We conducted field surveys of sediment accretion, vegetative cover, and soil characteristics in dune and swale habitats. Digital elevation models provided assessment of water flow resistance from the mean high water mark into the island interior. We found that geographic location impacted sediment accretion rates and Panicum amarum (a species increasing in abundance over time in the Virginia barrier islands) accreted sediment at a significantly lower rate compared to other dune grasses. Dune elevation impacted the ease of seawater flow into the island interior, altering soil chlorides, annual net primary productivity, and soil carbon and nitrogen. Our work demonstrates the importance of incorporating biological processes and cross-island connectivity into future scenario modeling and predictions of rising sea-levels and increased disturbance.
Using an epidemiological model to explore the interplay between sharing and advertising in viral videos
Authors: Li Yifei , Shao Li
Published: May 2024

How to exploit social networks to make internet content spread rapidly and consistently is an interesting question in marketing management. Although epidemic models have been employed to comprehend the spread dynamics of internet content, such as viral videos, the effects of advertising and individual sharing on information dissemination are difficult to distinguish. This gap forbids us to evaluate the efficiency of marketing strategies. In this paper, we modify a classic mean-field SIR (susceptible–infected–recovered) model, incorporating the influences of sharing and advertising in viral videos. We mathematically analyze the global stability of the system and propose an agent-based modeling approach to evaluate the efficiency of sharing and advertising. We further provide a case study of music videos on YouTube to show the validity of our model.
Assessing the influence of landscape conservation and protected areas on social wellbeing using random forest machine learning
Authors: Fisher Joshua , Allen Summer , Yetman Greg , Pistolesi Linda
Published: May 2024

The urgency of interconnected social-ecological dilemmas such as rapid biodiversity loss, habitat loss and fragmentation, and the escalating climate crisis have led to increased calls for the protection of ecologically important areas of the planet. Protected areas (PA) are considered critical to address these dilemmas although growing divides in wellbeing can exacerbate conflict around PAs and undermine effectiveness. We investigate the influence of proximity to PAs on wellbeing outcomes. We develop a novel multi-dimensional index of wellbeing for households and across Africa and use Random Forest Machine Learning techniques to assess the importance score of households’ proximity to protected areas on their wellbeing outcomes compared with the importance scores of an array of other social, environmental, and local and national governance factors. This study makes important contributions to the conservation literature, first by expanding the ways in which wellbeing is measured and operationalized, and second, by providing additional empirical support for recent evidence that proximity to PAs is an influential factor affecting observed wellbeing outcomes, albeit likely through different pathways than the current literature suggests.
Phylogenetic insights into the genetic legacies of Hungarian-speaking communities in the Carpathian Basin
Authors: Borbély Noémi , Dudás Dániel , Tapasztó Attila , Dudás-Boda Eszter , Csáky Veronika , Szeifert Bea , Mende Balázs Gusztáv , Egyed Balázs , Szécsényi-Nagy Anna , Pamjav Horolma
Published: May 2024

This study focuses on exploring the uniparental genetic lineages of Hungarian-speaking minorities residing in rural villages of Baranja (Croatia) and the Zobor region (Slovakia). We aimed to identify ancestral lineages by examining genetic markers distributed across the entire mitogenome and on the Y-chromosome. This allowed us to discern disparities in regional genetic structures within these communities. By integrating our newly acquired genetic data from a total of 168 participants with pre-existing Eurasian and ancient DNA datasets, our goal was to enrich the understanding of the genetic history trajectories of Carpathian Basin populations. Our findings suggest that while population-based analyses may not be sufficiently robust to detect fine-scale uniparental genetic patterns with the sample sizes at hand, phylogenetic analysis of well-characterized Y-chromosomal Short Tandem Repeat (STR) data and entire mitogenome sequences did uncover multiple lineage ties to far-flung regions and eras. While the predominant portions of both paternal and maternal DNA align with the East-Central European spectrum, rarer subhaplogroups and lineages have unveiled ancient ties to both prehistoric and historic populations spanning Europe and Eastern Eurasia. This research augments the expansive field of phylogenetics, offering critical perspectives on the genetic constitution and heritage of the communities in East-Central Europe.
Biomass recovery of coastal young mangrove plantations in Central Thailand
Authors: Ohtsuka Toshiyuki , Umnouysin Suthathip , Suchewaboripont Vilanee , Yimatsa Nada , Rodtassana Chadtip , Kida Morimaru , Iimura Yasuo , Yoshitake Shinpei , Fujitake Nobuhide , Poungparn Sasitorn
Published: May 2024

Around one-third of the world’s most carbon-rich ecosystems, mangrove forests, have already been destroyed in Thailand owing to coastal development and aquaculture. Improving these degraded areas through mangrove plantations can restore various coastal ecosystem services, including CO2 absorption and protection against wave action. This study examines the biomass of three coastal mangrove plantations (Avicennia alba) of different ages in Samut Prakarn province, Central Thailand. Our aim was to understand the forest biomass recovery during the early stages of development, particularly fine root biomass expansion. In the chronosequence of the mangrove plantations, woody biomass increased by 40% over four years from 79.7 ± 11.2 Mg C ha-1 to 111.7 ± 12.3 Mg C ha−1. Fine root biomass up to a depth of 100 cm was 4.47 ± 0.33 Mg C ha−1, 4.24 ± 0.63 Mg C ha−1, and 6.92 ± 0.32 Mg C ha−1 at 10, 12, and 14 year-old sites, respectively. Remarkably, the fine root biomass of 14-year-old site was significantly higher than those of the younger sites due to increase of the biomass at 15–30 cm and 30–50 cm depths. Our findings reveal that the biomass recovery in developing mangrove plantations exhibit rapid expansion of fine roots in deeper soil layers.
Current evidence on the relationships among five polymorphisms in the matrix metalloproteinases genes and prostate cancer risk
Authors: Gui Jiandong , Zhou Hangsheng , Li Sixin , Chen Anjie , Liu Qing , Zhu Lijie , Mi Yuanyuan
Published: May 2024

Matrix metalloproteinases (MMPs) had a variety of subtypes, which may be related to tumor invasion and angiogenesis, and the polymorphisms from MMPs have been also associated with the susceptibility to a variety of tumors, including prostate cancer (PCa). However, previous studies have not systematically analyzed the association between MMP and prostate cancer, so we conducted systematic data collection and analyzed to evaluate the relationship among polymorphisms in MMPs and PCa susceptibility. We searched PubMed, Web of Science, Embase and Google Scholar for all papers published up to Apr 3rd, 2023, and systematically analyzed the relationship among MMP1-1607 2G/1G, MMP2-1306 T/C, MMP2-735 T/C, MMP7-181 G/A, MMP9-1562 T/C and PCa susceptibility using multiple comparative models and subgroup analyses. We found that MMP2-1306 T/C polymorphism showed associations with PCa susceptibility, with the Ethnicity subgroup (Asian) being more pronounced. Similarly, MMP9-1562 T/C has also had associations with PCa susceptibility. Our current study found that the polymorphisms of, MMP2-1306 T/C, and MMP9-1562 T/C had strong associations with PCa risk.
Sum or mean in calculation of qualitative scoring methods using the Dragonfly Biotic Index, and an alternative approach facilitating conservation prioritization
Authors: Šigutová Hana , Pyszko Petr , Bílková Eva , Prieložná Veronika , Dolný Aleš
Published: May 2024

Qualitative scoring methods are tools for rapid freshwater health assessments. Total score is often calculated as the sum or mean of the values of the species involved, with minor nuances in interpretation, but with significant implications. We used the Dragonfly Biotic Index (DBI) calculated on Central European odonate species to demonstrate these implications. Each species within a community has a score ranging from 0 (widespread generalists) to 9 (sensitive specialists). A total score is calculated as the sum of the scores of all species (DBIsum) or is calculated by dividing by species richness (DBImean). Despite this duality, there has been little debate on either approach. Using simulated scenarios (high vs low richness, presence or absence of high- or low-scoring species), we tested the implications of DBIsum and DBImean and suggested a total score calculation for conservation prioritization based on permutation. This algorithm shows the percentile of a community compared to a set of randomly assembled communities of the same species richness. We also present the ‘dragDBI’ package for the statistical software R, a tool for more automated DBI-based environmental health assessments. Our permutational calculation is applicable to other macroinvertebrate-based scoring methods, such as the Biological Monitoring Working Party and the Average Score Per Taxon.