bluuebunny/crossref_metadata_2025_split huggingface dataset:
Cryptosporidium spp. in large-scale sheep farms in China: prevalence and genetic diversity
Authors: Zhao Qianming , Qi Meng , Jing Bo , Jian Fuchun , Gong Pihong , Lu Chenyang , Yan Yaqun , Pei Zhiyang , Ning Changshen 
Published: May 2024

AbstractCryptosporidium spp. are significant zoonotic intestinal parasites that induce diarrhea and even death across most vertebrates, including humans. Previous studies showed that sheep are important hosts for Cryptosporidium and that its distribution in sheep is influenced by geography, feeding patterns, age, and season. Environmental factors also influence the transmission of Cryptosporidium. Molecular studies of Cryptosporidium in sheep have been conducted in only a few regions of China, and studies into the effect of sheep-housing environments on Cryptosporidium transmission are even rarer. To detect the prevalence of Cryptosporidium in large-scale sheep-housing farms, a total of 1241 fecal samples were collected from sheep, 727 environmental samples were taken from sheep housing, and 30 water samples were collected in six regions of China. To ascertain the existence of the parasite and identify the species of Cryptosporidium spp., we conducted nested PCR amplification of DNA extracted from all samples using the small-subunit (SSU) rRNA gene as a target. For a more in-depth analysis of Cryptosporidium spp. subtypes, C. xiaoi-and C. ubiquitum-positive samples underwent separate nested PCR amplification targeting the 60 kDa glycoprotein (gp60) gene. The amplification of the Cryptosporidium spp. SSU rRNA gene locus from the whole genomic DNA of all samples yielded a positive rate of 1.2% (20/1241) in fecal samples, 0.1% (1/727) in environmental samples, and no positive samples were found in water samples. The prevalence of Cryptosporidium spp. infection in large-scale housed sheep was 1.7%, which was higher than that in free-ranging sheep (0.0%). The highest prevalence of infection was found in weaning lambs (6.8%). Among the different seasons, the peaks were found in the fall and winter. The most prevalent species were C. xiaoi and C. ubiquitum, with the former accounting for the majority of infections. The distribution of C. xiaoi subtypes was diverse, with XXIIIc (n = 1), XXIIId (n = 2), XXIIIe (n = 2), and XXIIIl (n = 4) identified. In contrast, only one subtype, XIIa (n = 9), was found in C. ubiquitum. In this study, C. xiaoi and C. ubiquitum were found to be the predominant species, and Cryptosporidium was found to be present in the environment. These findings provide an important foundation for the comprehensive prevention and management of Cryptosporidium in intensively reared sheep. Furthermore, by elucidating the prevalence of Cryptosporidium in sheep and its potential role in environmental transmission, this study deepens our understanding of the intricate interactions between animal health, environmental contamination, and public health dynamics.
Unsupervised detection of large-scale weather patterns in the northern hemisphere via Markov State Modelling: from blockings to teleconnections
Authors: Springer Sebastian , Laio Alessandro , Galfi Vera Melinda , Lucarini Valerio 
Published: May 2024

AbstractDetecting recurrent weather patterns and understanding the transitions between such regimes are key to advancing our knowledge of the low-frequency variability of the atmosphere and have important implications in terms of weather and climate-related risks. We adopt an analysis pipeline inspired by Markov State Modelling and detect in an unsupervised manner the dominant winter mid-latitude Northern Hemisphere weather patterns in the Atlantic and Pacific sectors. The daily 500 hPa geopotential height fields are first classified in about 200 microstates. The weather dynamics are then represented on the basis of these microstates and the slowest decaying modes are identified from the spectral properties of the transition probability matrix. These modes are defined on the basis of the nonlinear dynamical processes of the system and not as tentative metastable states, as often done in Markov state analysis. When focusing on a shifting longitudinal window of 60∘, we find that the longitude-dependent estimate of the longest relaxation time is smaller where stronger baroclinic activity is found. In the Atlantic and Pacific sectors slow relaxation processes are mainly related to transitions between blocked regimes and zonal flow. We also find strong evidence of a dynamical regime associated with the simultaneous Atlantic-Pacific blocking. When the analysis is performed on a broader geographical region of the Atlantic sector, we discover that the slowest relaxation modes of the system are associated with transitions between dynamical regimes that resemble teleconnection patterns like the North Atlantic Oscillation and weather regimes like the Scandinavian and Greenland blocking, yet have a much stronger dynamical foundation than classical methods based e.g. on EOF analysis. Our method clarifies that, as a result of the lack of a time-scale separation in the atmospheric variability of the mid-latitudes, there is no clear-cut way to represent the atmospheric dynamics in terms of few, well-defined modes of variability. The approach proposed here can be seamlessly applied across different regions of the globe for detecting regional modes of variability, and has a great potential for intercomparing climate models and for assessing the impact of climate change on the low-frequency variability of the atmosphere.
Competing impacts of tropical Pacific and Atlantic on Southern Ocean inter-decadal variability
Authors: Yao Shuai-Lei , Wu Renguang , Luo Jing-Jia , Zhou Wen 
Published: May 2024

AbstractThe observed Southern Ocean sea surface temperature (SST) has experienced prominent inter-decadal variability nearly in phase with the Inter-decadal Pacific Oscillation (IPO), but less associated with the Atlantic Multidecadal Variability (AMV), challenging the prevailing view of Pacific-Atlantic synergistic effects. Yet, the mechanisms of distinct trans-hemispheric connections to the Southern Ocean remain indecisive. Here, by individually constraining the observed cold-polarity and warm-polarity IPO and AMV SSTs in a climate model, we show that the IPO is influential in initiating a basin-wide Southern Ocean response, with the AMV secondary. A tropical Pacific-wide cooling triggers a basin-scale Southern Ocean cold episode through a strong Rossby wave response to the north-to-south cross-equatorial weakened Hadley circulation. By contrast, due to the competing role of tropical Pacific cooling, an Atlantic warming partly cools the Southern Ocean via a weak Rossby wave response to the south-to-north cross-equatorial enhanced Hadley circulation. Conversely, tropical Pacific warming leads to a warm Southern Ocean episode. Our findings highlight that properly accounting for the tropical Pacific SST variability may provide a potential for skillful prediction of Southern Ocean climate change and more reliable estimates of climate sensitivity, currently overestimated by the misrepresented Southern Ocean warming.
Immunotherapy for recurrent or metastatic nasopharyngeal carcinoma
Authors: Liu Xin , Shen Hui , Zhang Lu , Huang Wenhui , Zhang Shuixing , Zhang Bin 
Published: May 2024

AbstractImmunotherapy, particularly immune checkpoint inhibitors (ICIs), such as anti-programmed death 1/programmed death-ligand 1 (PD-1/PD-L1) therapy, has emerged as a pivotal treatment modality for solid tumors, including recurrent or metastatic nasopharyngeal carcinoma (R/M-NPC). Despite the advancements in the utilization of ICIs, there is still room for further improving patient outcomes. Another promising approach to immunotherapy for R/M-NPC involves adoptive cell therapy (ACT), which aims to stimulate systemic anti-tumor immunity. However, individual agent therapies targeting dendritic cells (DCs) appear to still be in the clinical trial phase. This current review underscores the potential of immunotherapy as a valuable adjunct to the treatment paradigm for R/M-NPC patients. Further research is warranted to enhance the efficacy of immunotherapy through the implementation of strategies such as combination therapies and overcoming immune suppression. Additionally, the development of a biomarker-based scoring system is essential for identifying suitable candidates for precision immunotherapy.
M2 macrophage-derived exosomal circTMCO3 acts through miR-515-5p and ITGA8 to enhance malignancy in ovarian cancer
Authors: Ran Xiao-Min , Yang Juan , Wang Zi-Yi , Xiao Ling-Zhi , Deng Yu-Ping , Zhang Ke-Qiang 
Published: May 2024

AbstractTumor-associated macrophages of the M2 phenotype promote cancer initiation and progression. Importantly, M2 macrophage-derived exosomes play key roles in the malignancy of cancer cells. Here, we report that circTMCO3 is upregulated in ovarian cancer patients, and its high expression indicates poor survival. M2-derived exosomes promote proliferation, migration, and invasion in ovarian cancer, but these effects are abolished by knockdown of circTMCO3. Furthermore, circTMCO3 functions as a competing endogenous RNA for miR-515-5p to reduce its abundance, thus upregulating ITGA8 in ovarian cancer. miR-515-5p inhibits ovarian cancer malignancy via directly downregulating ITGA8. The decreased oncogenic activity of circTMCO3-silencing exosomes is reversed by miR-515-5p knockdown or ITGA8 overexpression. Exosomal circTMCO3 promotes ovarian cancer progression in nude mice. Thus, M2 macrophage-derived exosomes promote malignancy by delivering circTMCO3 and targeting the miR-515-5p/ITGA8 axis in ovarian cancer. Our findings not only provide mechanistic insights into ovarian cancer progression, but also suggest potential therapeutic targets.
Taking a shortcut: what mechanisms do fish use?
Authors: Sibeaux Adelaide , Newport Cait , Green Jonathan P. , Karlsson Cecilia , Engelmann Jacob , Burt de Perera Theresa 
Published: May 2024

AbstractPath integration is a powerful navigational mechanism whereby individuals continuously update their distance and angular vector of movement to calculate their position in relation to their departure location, allowing them to return along the most direct route even across unfamiliar terrain. While path integration has been investigated in several terrestrial animals, it has never been demonstrated in aquatic vertebrates, where movement occurs through volumetric space and sensory cues available for navigation are likely to differ substantially from those in terrestrial environments. By performing displacement experiments with Lamprologus ocellatus, we show evidence consistent with fish using path integration to navigate alongside other mechanisms (allothetic place cues and route recapitulation). These results indicate that the use of path integration is likely to be deeply rooted within the vertebrate phylogeny irrespective of the environment, and suggests that fish may possess a spatial encoding system that parallels that of mammals.
Mercury contamination is an invisible threat to declining migratory shorebirds along the East Asian-Australasian Flyway
Authors: Ma Yanju , Choi Chi-Yeung , Shang Lihai , Klaassen Marcel , Ma Zhijun , Chang Qing , Jaspers Veerle L. B. , Bai Qingquan , He Tao , Leung Katherine K-S. , Hassell Chris J. , Jessop Roz , Gibson Luke 
Published: May 2024

AbstractExposure to pollutants is a potentially crucial but overlooked driver of population declines in shorebirds along the East Asian-Australasian Flyway. We combined knowledge of moult strategy and life history with a standardised sampling protocol to assess mercury (Hg) contamination in 984 individuals across 33 migratory shorebird species on an intercontinental scale. Over one-third of the samples exceeded toxicity benchmarks. Feather Hg was best explained by moulting region, while habitat preference (coastal obligate vs. non-coastal obligate), the proportion of invertebrates in the diet and foraging stratum (foraging mostly on the surface vs. at depth) also contributed, but were less pronounced. Feather Hg was substantially higher in South China (Mai Po and Leizhou), Australia and the Yellow Sea than in temperate and Arctic breeding ranges. Non-coastal obligate species (Tringa genus) frequently encountered in freshwater habitats were at the highest risk. It is important to continue and expand biomonitoring research to assess how other pollutants might impact shorebirds.
The neurocomputational link between defensive cardiac states and approach-avoidance arbitration under threat
Authors: Klaassen Felix H. , de Voogd Lycia D. , Hulsman Anneloes M. , O’Reilly Jill X. , Klumpers Floris , Figner Bernd , Roelofs Karin 
Published: May 2024

AbstractAvoidance, a hallmark of anxiety-related psychopathology, often comes at a cost; avoiding threat may forgo the possibility of a reward. Theories predict that optimal approach-avoidance arbitration depends on threat-induced psychophysiological states, like freezing-related bradycardia. Here we used model-based fMRI analyses to investigate whether and how bradycardia states are linked to the neurocomputational underpinnings of approach-avoidance arbitration under varying reward and threat magnitudes. We show that bradycardia states are associated with increased threat-induced avoidance and more pronounced reward-threat value comparison (i.e., a stronger tendency to approach vs. avoid when expected reward outweighs threat). An amygdala-striatal-prefrontal circuit supports approach-avoidance arbitration under threat, with specific involvement of the amygdala and dorsal anterior cingulate (dACC) in integrating reward-threat value and bradycardia states. These findings highlight the role of human freezing states in value-based decision making, relevant for optimal threat coping. They point to a specific role for amygdala/dACC in state-value integration under threat.
Circadian and photoperiodic regulation of the vegetative to reproductive transition in plants
Authors: Wang Fang , Han Tongwen , Jeffrey Chen Z. 
Published: May 2024

AbstractAs sessile organisms, plants must respond constantly to ever-changing environments to complete their life cycle; this includes the transition from vegetative growth to reproductive development. This process is mediated by photoperiodic response to sensing the length of night or day through circadian regulation of light-signaling molecules, such as phytochromes, to measure the length of night to initiate flowering. Flowering time is the most important trait to optimize crop performance in adaptive regions. In this review, we focus on interplays between circadian and light signaling pathways that allow plants to optimize timing for flowering and seed production in Arabidopsis, rice, soybean, and cotton. Many crops are polyploids and domesticated under natural selection and breeding. In response to adaptation and polyploidization, circadian and flowering pathway genes are epigenetically reprogrammed. Understanding the genetic and epigenetic bases for photoperiodic flowering will help improve crop yield and resilience in response to climate change.
Amino acid insertion in Bat MHC-I enhances complex stability and augments peptide presentation
Authors: Wang Suqiu , Zheng Liangzhen , Wei Xiaohui , Qu Zehui , Du Liubao , Wang Sheng , Zhang Nianzhi 
Published: May 2024

AbstractBats serve as reservoirs for numerous zoonotic viruses, yet they typically remain asymptomatic owing to their unique immune system. Of particular significance is the MHC-I in bats, which plays crucial role in anti-viral response and exhibits polymorphic amino acid (AA) insertions. This study demonstrated that both 5AA and 3AA insertions enhance the thermal stability of the bat MHC-I complex and enrich the diversity of bound peptides in terms of quantity and length distribution, by stabilizing the 310 helix, a region prone to conformational changes during peptide loading. However, the mismatched insertion could diminish the stability of bat pMHC-I. We proposed that a suitable insertion may help bat MHC-I adapt to high body temperatures during flight while enhancing antiviral responses. Moreover, this site-specific insertions may represent a strategy of evolutionary adaptation of MHC-I molecules to fluctuations in body temperature, as similar insertions have been found in other lower vertebrates.
Improved detection of magnetic interactions in proteins based on long-lived coherences
Authors: Ianc Octavian , Teleanu Florin , Ciumeică Andrei , Lupulescu Adonis , Sadet Aude , Vasos Paul R. 
Published: May 2024

AbstractLiving systems rely on molecular building blocks with low structural symmetry. Therefore, constituent amino acids and nucleotides yield short-lived nuclear magnetic responses to electromagnetic radiation. Magnetic signals are at the basis of molecular imaging, structure determination and interaction studies. In solution state, as the molecular weight of analytes increases, coherences with long lifetimes are needed to yield advantageous through-space magnetisation transfers. Interactions between magnetic nuclei can only be detected provided the lifetimes of spin order are sufficient. In J-coupled pairs of nuclei, long-lived coherences (LLC’s) connect states with different spin-permutation symmetry. Here in, we show sustained LLC’s in protein Lysozyme, weighing 14.3 kDa, with lifetimes twice as long as those of classical magnetisation for the aliphatic protons of glycine residues. We found for the first time that, in a protein of significant molecular weight, LLC’s yield substantial through-space magnetisation transfers: spin-order transfer stemming from LLC’s overcame transfers from classical coherences by factors > 2. Furthermore, in agreement with theory, the permutation symmetry of LLC-based transfers allows mapping interacting atoms in the protein structure with respect to the molecular plane of glycine residues in a stereospecific manner. These findings can extend the scope of liquid-state high-resolution biomolecular spectroscopy.
A machine learning estimator trained on synthetic data for real-time earthquake ground-shaking predictions in Southern California
Authors: Monterrubio-Velasco Marisol , Callaghan Scott , Modesto David , Carrasco Jose Carlos , Badia Rosa M. , Pallares Pablo , Vázquez-Novoa Fernando , Quintana-Ortí Enrique S. , Pienkowska Marta , de la Puente Josep 
Published: May 2024

AbstractAfter large-magnitude earthquakes, a crucial task for impact assessment is to rapidly and accurately estimate the ground shaking in the affected region. To satisfy real-time constraints, intensity measures are traditionally evaluated with empirical Ground Motion Models that can drastically limit the accuracy of the estimated values. As an alternative, here we present Machine Learning strategies trained on physics-based simulations that require similar evaluation times. We trained and validated the proposed Machine Learning-based Estimator for ground shaking maps with one of the largest existing datasets (<100M simulated seismograms) from CyberShake developed by the Southern California Earthquake Center covering the Los Angeles basin. For a well-tailored synthetic database, our predictions outperform empirical Ground Motion Models provided that the events considered are compatible with the training data. Using the proposed strategy we show significant error reductions not only for synthetic, but also for five real historical earthquakes, relative to empirical Ground Motion Models.
Molecular analysis for ovarian cancer detection in patient-friendly samples
Authors: Wever Birgit M. M. , Schaafsma Mirte , Bleeker Maaike C. G. , van den Burgt Yara , van den Helder Rianne , Lok Christianne A. R. , Dijk Frederike , van der Pol Ymke , Mouliere Florent , Moldovan Norbert , van Trommel Nienke E. , Steenbergen Renske D. M. 
Published: May 2024

Abstract
Background
High ovarian cancer mortality rates motivate the development of effective and patient-friendly diagnostics. Here, we explored the potential of molecular testing in patient-friendly samples for ovarian cancer detection.

Methods
Home-collected urine, cervicovaginal self-samples, and clinician-taken cervical scrapes were prospectively collected from 54 patients diagnosed with a highly suspicious ovarian mass (benign n = 25, malignant n = 29). All samples were tested for nine methylation markers, using quantitative methylation-specific PCRs that were verified on ovarian tissue samples, and compared to non-paired patient-friendly samples of 110 age-matched healthy controls. Copy number analysis was performed on a subset of urine samples of ovarian cancer patients by shallow whole-genome sequencing.

Results
Three methylation markers are significantly elevated in full void urine of ovarian cancer patients as compared to healthy controls (C2CD4D, P = 0.008; CDO1, P = 0.022; MAL, P = 0.008), of which two are also discriminatory in cervical scrapes (C2CD4D, P = 0.001; CDO1, P = 0.004). When comparing benign and malignant ovarian masses, GHSR shows significantly elevated methylation levels in the urine sediment of ovarian cancer patients (P = 0.024). Other methylation markers demonstrate comparably high methylation levels in benign and malignant ovarian masses. Cervicovaginal self-samples show no elevated methylation levels in patients with ovarian masses as compared to healthy controls. Copy number changes are identified in 4 out of 23 urine samples of ovarian cancer patients.

Conclusions
Our study reveals increased methylation levels of ovarian cancer-associated genes and copy number aberrations in the urine of ovarian cancer patients. Our findings support continued research into urine biomarkers for ovarian cancer detection and highlight the importance of including benign ovarian masses in future studies to develop a clinically useful test.
Zero-sum beliefs and the avoidance of political conversations
Authors: Boland F. Katelynn , Davidai Shai 
Published: May 2024

AbstractAlthough researchers have argued that exposure to diverse views may help reduce political divisions in society, people often avoid discussing politics with ideologically opposed others. We investigate the avoidance of political conversations surrounding highly contested elections in Israel and the U.S. Specifically, we examine the relationship between people’s belief that politics is a zero-sum game and their tendency to avoid talking about politics with ideologically opposed others. In two studies conducted in the days leading up to their countries’ elections, we found that Israeli and American voters who view politics as zero-sum avoided political discussions with ideologically opposed others. Furthermore, zero-sum beliefs about politics statistically predicted the avoidance of political conversations through two distinct mechanisms: perceived conflict and a lack of receptiveness to opposing views. Finally, in a longitudinal design, we found that zero-sum beliefs about politics statistically and robustly predicted the avoidance of political conversation one week later.