bluuebunny/crossref_metadata_2025_split huggingface dataset:
Global biogeographic regions for ants have complex relationships with those for plants and tetrapods
Authors: Wang Runxi , Kass Jamie M. , Chaudhary Chhaya , Economo Evan P. , Guénard Benoit 
Published: July 2024

AbstractOn a global scale, biodiversity is geographically structured into regions of biotic similarity. Delineating these regions has been mostly targeted for tetrapods and plants, but those for hyperdiverse groups such as insects are relatively unknown. Insects may have higher biogeographic congruence with plants than tetrapods due to their tight ecological and evolutionary links with the former, but it remains untested. Here, we develop a global regionalization for a major and widespread insect group, ants, based on the most comprehensive distributional and phylogenetic information to date, and examine its similarity to regionalizations for tetrapods and vascular plants. Our ant regionalization supports the newly proposed Madagascan and Sino-Japanese realms based on tetrapod delineations, and it recovers clusters observed in plants but not in tetrapods, such as the Holarctic and Indo-Pacific realms. Quantitative comparison suggests strong associations among different groups—plants showed a higher congruence with ants than with tetrapods. These results underscore the wide congruence of diverse distribution patterns across the tree of life and the similarities shared by insects and plants that are not captured by tetrapod groups. Our analysis highlights the importance of developing global biogeographic maps for insect groups to obtain a more comprehensive geographic picture of life on Earth.
Genetic diversity of 1,845 rhesus macaques improves genetic variation interpretation and identifies disease models
Authors: Wang Jun , Wang Meng , Moshiri Ala , Harris R. Alan , Raveendran Muthuswamy , Nguyen Tracy , Kim Soohyun , Young Laura , Wang Keqing , Wiseman Roger , O’Connor David H. , Johnson Zach , Martinez Melween , Montague Michael J. , Sayers Ken , Lyke Martha , Vallender Eric , Stout Tim , Li Yumei , Thomasy Sara M. , Rogers Jeffrey , Chen Rui 
Published: July 2024

AbstractUnderstanding and treating human diseases require valid animal models. Leveraging the genetic diversity in rhesus macaque populations across eight primate centers in the United States, we conduct targeted-sequencing on 1845 individuals for 374 genes linked to inherited human retinal and neurodevelopmental diseases. We identify over 47,000 single nucleotide variants, a substantial proportion of which are shared with human populations. By combining rhesus and human allele frequencies with established variant prediction methods, we develop a machine learning-based score that outperforms established methods in predicting missense variant pathogenicity. Remarkably, we find a marked number of loss-of-function variants and putative deleterious variants, which may lead to the development of rhesus disease models. Through phenotyping of macaques carrying a pathogenic OPA1:p.A8S variant, we identify a genetic model of autosomal dominant optic atrophy. Finally, we present a public website housing variant and genotype data from over two thousand rhesus macaques.
TWEAK/Fn14 signalling driven super-enhancer reprogramming promotes pro-metastatic metabolic rewiring in triple-negative breast cancer
Authors: Sim Nicholas , Carter Jean-Michel , Deka Kamalakshi , Tan Benita Kiat Tee , Sim Yirong , Tan Suet-Mien , Li Yinghui 
Published: July 2024

AbstractTriple Negative Breast Cancer (TNBC) is the most aggressive breast cancer subtype suffering from limited targeted treatment options. Following recent reports correlating Fibroblast growth factor-inducible 14 (Fn14) receptor overexpression in Estrogen Receptor (ER)-negative breast cancers with metastatic events, we show that Fn14 is specifically overexpressed in TNBC patients and associated with poor survival. We demonstrate that constitutive Fn14 signalling rewires the transcriptomic and epigenomic landscape of TNBC, leading to enhanced tumour growth and metastasis. We further illustrate that such mechanisms activate TNBC-specific super enhancers (SE) to drive the transcriptional activation of cancer dependency genes via chromatin looping. In particular, we uncover the SE-driven upregulation of Nicotinamide phosphoribosyltransferase (NAMPT), which promotes NAD+ and ATP metabolic reprogramming critical for filopodia formation and metastasis. Collectively, our study details the complex mechanistic link between TWEAK/Fn14 signalling and TNBC metastasis, which reveals several vulnerabilities which could be pursued for the targeted treatment of TNBC patients.
Unveiling the mechanism of triphos-Ru catalysed C–O bond disconnections in polymers
Authors: Ahrens Alexander , Batista Gabriel Martins Ferreira , Hammershøj Hans Christian D. , Schwibinger Emil Vincent , Nova Ainara , Skrydstrup Troels 
Published: July 2024

AbstractRuthenium complexes with facially coordinating tripodal phosphine ligands are privileged catalysts for a broad range of (de-)hydrogenation-based transformations. Among these, C–O bond hydrogenolysis holds potential for the depolymerisation of both the biopolymer lignin and epoxy resins applied in wind turbine blades, aircrafts and more. However, this methodology is poorly understood in mechanistic terms. Here, we present a detailed investigation on the triphos-Ru catalysed C–O bond scission on a molecular level. A combination of experimental, spectroscopical and theoretical studies elucidates the reactivity of the ruthenium trimethylenemethane precatalyst, revealing the key roles of ruthenium phenolates in both catalyst activation as well as the catalytic cycle itself. Furthermore, a Ru(0)/Ru(II) oxidative addition into the C–O bond is disclosed, with a triphos-Ru(0) dihydrogen complex as entry point. With the molecular nature of the operating triphos-Ru species and the thermodynamics and kinetics of the catalysis unravelled, improvements of established methods as well as design of related transformations may become possible.
Reformulating lipid nanoparticles for organ-targeted mRNA accumulation and translation
Authors: Su Kexin , Shi Lu , Sheng Tao , Yan Xinxin , Lin Lixin , Meng Chaoyang , Wu Shiqi , Chen Yuxuan , Zhang Yao , Wang Chaorong , Wang Zichuan , Qiu Junjie , Zhao Jiahui , Xu Tengfei , Ping Yuan , Gu Zhen , Liu Shuai 
Published: July 2024

AbstractFully targeted mRNA therapeutics necessitate simultaneous organ-specific accumulation and effective translation. Despite some progress, delivery systems are still unable to fully achieve this. Here, we reformulate lipid nanoparticles (LNPs) through adjustments in lipid material structures and compositions to systematically achieve the pulmonary and hepatic (respectively) targeted mRNA distribution and expression. A combinatorial library of degradable-core based ionizable cationic lipids is designed, following by optimisation of LNP compositions. Contrary to current LNP paradigms, our findings demonstrate that cholesterol and phospholipid are dispensable for LNP functionality. Specifically, cholesterol-removal addresses the persistent challenge of preventing nanoparticle accumulation in hepatic tissues. By modulating and simplifying intrinsic LNP components, concurrent mRNA accumulation and translation is achieved in the lung and liver, respectively. This targeting strategy is applicable to existing LNP systems with potential to expand the progress of precise mRNA therapy for diverse diseases.
Stable peptide-assembled nanozyme mimicking dual antifungal actions
Authors: Yuan Ye , Chen Lei , Song Kexu , Cheng Miaomiao , Fang Ling , Kong Lingfei , Yu Lanlan , Wang Ruonan , Fu Zhendong , Sun Minmin , Wang Qian , Cui Chengjun , Wang Haojue , He Jiuyang , Wang Xiaonan , Liu Yuan , Jiang Bing , Jiang Jing , Wang Chenxuan , Yan Xiyun , Zhang Xinzheng , Gao Lizeng 
Published: July 2024

AbstractNatural antimicrobial peptides (AMPs) and enzymes (AMEs) are promising non-antibiotic candidates against antimicrobial resistance but suffer from low efficiency and poor stability. Here, we develop peptide nanozymes which mimic the mode of action of AMPs and AMEs through de novo design and peptide assembly. Through modelling a minimal building block of IHIHICI is proposed by combining critical amino acids in AMPs and AMEs and hydrophobic isoleucine to conduct assembly. Experimental validations reveal that IHIHICI assemble into helical β-sheet nanotubes with acetate modulation and perform phospholipase C-like and peroxidase-like activities with Ni coordination, demonstrating high thermostability and resistance to enzymatic degradation. The assembled nanotubes demonstrate cascade antifungal actions including outer mannan docking, wall disruption, lipid peroxidation and subsequent ferroptotic death, synergistically killing >90% Candida albicans within 10 min on disinfection pad. These findings demonstrate an effective de novo design strategy for developing materials with multi-antimicrobial mode of actions.
Quantifying mechanical forces during vertebrate morphogenesis
Authors: Maniou Eirini , Todros Silvia , Urciuolo Anna , Moulding Dale A. , Magnussen Michael , Ampartzidis Ioakeim , Brandolino Luca , Bellet Pietro , Giomo Monica , Pavan Piero G. , Galea Gabriel L. , Elvassore Nicola 
Published: July 2024

AbstractMorphogenesis requires embryonic cells to generate forces and perform mechanical work to shape their tissues. Incorrect functioning of these force fields can lead to congenital malformations. Understanding these dynamic processes requires the quantification and profiling of three-dimensional mechanics during evolving vertebrate morphogenesis. Here we describe elastic spring-like force sensors with micrometre-level resolution, fabricated by intravital three-dimensional bioprinting directly in the closing neural tubes of growing chicken embryos. Integration of calibrated sensor read-outs with computational mechanical modelling allows direct quantification of the forces and work performed by the embryonic tissues. As they displace towards the embryonic midline, the two halves of the closing neural tube reach a compression of over a hundred nano-newtons during neural fold apposition. Pharmacological inhibition of Rho-associated kinase to decrease the pro-closure force shows the existence of active anti-closure forces, which progressively widen the neural tube and must be overcome to achieve neural tube closure. Overall, our approach and findings highlight the intricate interplay between mechanical forces and tissue morphogenesis.
The way we look at an image or a webpage can reveal personality traits
Authors: Le Bras Thomas , Allibe Benoit , Doré-Mazars Karine 
Published: July 2024

AbstractPersonality is a central concept and a cross-domain explanatory factor in psychology to characterize and differentiate individuals. Surprisingly, among the many studies on oculomotor behavior, only a few have investigated how personality influences the exploration of a visual stimulus. Due to the limited number of existing studies, it is still uncertain if markers of personality in eye movements are always observable in eye movements across various exploration contexts. Here, introducing a novel concept of gaze-based signatures of personality, we used visual exploration metrics to detect personality signatures across various exploration contexts (visual search and free-viewing on images and webpages) in 91 participants. Personality data were collected as in the reference paper that validated the French version of the Big Five Inventory. Linear regression analyses demonstrated that while Extraversion and Openness to Experience did not correlate with any particular exploration metric, the other three traits–Conscientiousness, Agreeableness, and Neuroticism–correlated robustly with all exploration metrics in different visual exploration contexts. Our study provides evidence for the capture of the gaze-based signature of personality from very brief eye movement recordings.
Biomechanical factors associated with patellofemoral pain in children and adolescents
Authors: Sanchis Gerônimo J. B. , Nascimento Jeisyane A. S. do , Santana Rebeca de C. , Santos Vagner M. dos , Cunha Vitor L. da , Assis Sanderson J. C. de , Cavalcanti Rafael L. , Guedes Thaís S. R. , Oliveira Angelo G. R. da C. , Guedes Marcello B. O. G. 
Published: July 2024

AbstractTo investigate the biomechanical factors associated with patellofemoral pain in children and adolescents. A cross-sectional, population-based study conducted in Brazil from 2019 to 2023, involving students from public schools. Adjusted prevalence ratios and their respective 95% confidence intervals for the outcome in relation to independent variables were calculated for association analysis, adopting a significance level of 5%. Out of the total of 283 students, 152 were female and 182 were aged between 16 and 18 years old. A positive association was observed between the presence of patellofemoral pain and a poor movement quality in both lower limbs (right side: p = 0.04 and left side: p = 0.04) as well as with dynamic valgus of the left lower limb (p < 0.01). Patellofemoral pain in children and adolescents is associated with poor movement quality in the lower limbs and dynamic valgus of the left lower limb. Actions targeting these biomechanical factors may be crucial for early diagnosis and clinical treatment of this disfunction.
Enhancing aromatic rice production through agronomic and nutritional management for improved yield and quality
Authors: Patra Partha Sarathi , Saha Rajesh , Ahmed Arju Sahid , Kanjilal Bratati , Debnath Manoj Kanti , Paramanik Bappa , Hoque Akramul , Kundu Arindam , Adhikary Pabitra , Biswas Amiya , Dey Prithwiraj , Biswas Asim 
Published: July 2024

AbstractTo meet the growing international demand for aromatic rice, this study, conducted at Uttar Banga Krishi Viswavidyalaya in Cooch Behar, West Bengal, aimed to enhance the yield and quality of the ‘Tulaipanji’ rice cultivar through advanced establishment methods and the use of organic nutrients over two years. The research tested three planting techniques: mechanical transplanting, wet direct seeding (using a drum seeder), and traditional methods, alongside four nutrient management strategies: vermicompost, farmyard manure, a mix of both, and conventional fertilizers. Findings revealed that mechanical transplanting significantly increased yield by over 31.98% and 71.05% compared to traditional methods and wet direct seeding, respectively. Using vermicompost alone as a nutrient source not only boosted yields by 21.31% over conventional fertilizers but also enhanced the rice's nutritional value and cooking quality. Moreover, soils treated with vermicompost showed higher dehydrogenase activity, indicating better soil health. Economically, mechanical transplanting with vermicompost was the most beneficial, yielding the highest net returns and benefit–cost ratios in both years studied. This approach presents a viable model for improving the sustainability of aromatic rice production globally, emphasizing the economic and environmental advantages of adopting mechanical planting techniques and organic fertilization methods.
Multicentric short term and safety study of ineffective esophageal motility patients treated with RefluxStop device
Authors: Feka J. , Saad M. , Boyle N. , Paireder M. , Kristo I. , Rieder E. , Asari R. , Schoppmann S. F. 
Published: July 2024

AbstractGastroesophageal reflux disease (GERD) presents a general health problem with a variety of symptoms and an impairment of life quality. Conservative therapies do not offer sufficient symptom relief in up to 30% of patients. Patients who suffer from ineffective esophageal motility (IEM) and also GERD may exhibit symptoms ranging from mild to severe. In cases where surgical intervention becomes necessary for this diverse group of patients, it is important to consider the potential occurrence of postoperative dysphagia. RefluxStop is a new alternative anti-reflux surgery potentially reducing postoperative dysphagia rates. In this bicentric tertiary hospital observational study consecutive patients diagnosed with PPI refractory GERD and IEM that received RefluxStop implantation were included. A first safety and efficacy evaluation including clinical examination and GERD-HRQL questionnaire was conducted. 40 patients (25 male and 15 female) were included. 31 patients (77.5%) were on PPI at time of surgery, with mean acid exposure time of 8.14% ± 2.53. The median hospital stay was 3 days. Postoperative QoL improved significantly measured by GERD HRQL total score from 32.83 ± 5.08 to 6.6 ± 3.71 (p < 0.001). A 84% reduction of PPI usage (p < 0.001) was noted. 36 patients (90%) showed gone or improved symptoms and were satisfied at first follow-up. Two severe adverse events need mentioning: one postoperative slipping of the RefluxStop with need of immediate revisional operation on the first postoperative day (Clavien–Dindo Score 3b) and one device migration with no necessary further intervention. RefluxStop device implantation is safe and efficient in the short term follow up in patients with GERD and IEM. Further studies and longer follow-up are necessary to prove long-lasting positive effects.
Metabolomics-based search for lung cancer markers among patients with different smoking status
Authors: Klupczynska-Gabryszak Agnieszka , Daskalaki Evangelia , Wheelock Craig E. , Kasprzyk Mariusz , Dyszkiewicz Wojciech , Grabicki Marcin , Brajer-Luftmann Beata , Pawlak Magdalena , Kokot Zenon J. , Matysiak Jan 
Published: July 2024

AbstractTobacco smoking is the main etiological factor of lung cancer (LC), which can also cause metabolome disruption. This study aimed to investigate whether the observed metabolic shift in LC patients was also associated with their smoking status. Untargeted metabolomics profiling was applied for the initial screening of changes in serum metabolic profile between LC and chronic obstructive pulmonary disease (COPD) patients, selected as a non-cancer group. Differences in metabolite profiles between current and former smokers were also tested. Then, targeted metabolomics methods were applied to verify and validate the proposed LC biomarkers. For untargeted metabolomics, a single extraction-dual separation workflow was applied. The samples were analyzed using a liquid chromatograph-high resolution quadrupole time-of-flight mass spectrometer. Next, the selected metabolites were quantified using liquid chromatography-triple-quadrupole mass spectrometry. The acquired data confirmed that patients’ stratification based on smoking status impacted the discriminating ability of the identified LC marker candidates. Analyzing a validation set of samples enabled us to determine if the putative LC markers were truly robust. It demonstrated significant differences in the case of four metabolites: allantoin, glutamic acid, succinic acid, and sphingosine-1-phosphate. Our research showed that studying the influence of strong environmental factors, such as tobacco smoking, should be considered in cancer marker research since it reduces the risk of false positives and improves understanding of the metabolite shifts in cancer patients.
Loop-mediated isothermal amplification (LAMP) assay coupled with gold nanoparticles for colorimetric detection of Trichoderma spp. in Agaricus bisporus cultivation substrates
Authors: Djisalov Mila , Janjušević Ljiljana , Léguillier Vincent , Šašić Zorić Ljiljana , Farre Carole , Anba-Mondoloni Jamila , Vidic Jasmina , Gadjanski Ivana 
Published: July 2024

AbstractOne of the significant challenges in organic cultivation of edible mushrooms is the control of invasive Trichoderma species that can hinder the mushroom production and lead to economic losses. Here, we present a novel loop-mediated isothermal amplification (LAMP) assay coupled with gold nanoparticles (AuNPs) for rapid colorimetric detection of Trichoderma spp. The specificity of LAMP primers designed on the tef1 gene was validated in silico and through gel-electrophoresis on Trichoderma harzianum and non-target soil-borne fungal and bacterial strains. LAMP amplification of genomic DNA templates was performed at 65 °C for only 30 min. The results were rapidly visualized in a microplate format within less than 5 min. The assay is based on salt-induced aggregation of AuNPs that is being prevented by the amplicons produced in case of positive LAMP reaction. As the solution color changes from red to violet upon nanoparticle aggregation can be observed with the naked eye, the developed LAMP-AuNPs assay can be easily operated to provide a simple initial screening for the rapid detection of Trichoderma in button mushroom cultivation substrate.
Concomitant decrease of E- and A-FABP expression predicts worse survival in urothelial bladder cancer patients
Authors: Saizonou Inès , Lascombe Isabelle , Monnien Franck , Bedgedjian Isabelle , Kleinclauss François , Algros Marie-Paule , Fauconnet Sylvie 
Published: July 2024

AbstractNon-muscle invasive bladder cancers (NMIBC) pTa-pT1 are depicted by a high risk of recurrence and/or progression with an unpredictable clinical evolution. Our aim was to identify, from the original resection specimen, tumors that will progress to better manage patients. We previously showed that A-FABP (Adipocyte- Fatty Acid Binding Protein) loss predicted NMIBC progression. Here we determined by immunohistochemistry the prognostic value of E-FABP (Epidermal-Fatty Acid Binding Protein) expression in 210 tumors (80 pTa, 75 pT1, 55 pT2-T4). Thus, E-FABP low expression was correlated with a high grade/stage, the presence of metastatic lymph nodes, and visceral metastases (p < 0.001). Unlike A-FABP in NMIBC, E-FABP low expression was not associated with RFS or PFS in Kaplan–Meier analysis. But patients of the overall cohort with a high E-FABP expression had a longer mOS (53.8 months vs. 29.3 months, p = 0.029). The immunohistochemical analysis on the same NMIBC tissue sections revealed that when A-FABP is absent, a high E-FABP expression is detected. E-FABP could compensate A-FABP loss. Interestingly, patients, whose original tumor presents both low E-FABP and negative A-FABP, had the worse survival, those maintaining the expression of both markers had better survival. To conclude, the combined evaluation of A- and E-FABP expression allowed to stratify patients with urothelial carcinoma for optimizing treatment and follow-up.