julilili42/papers huggingface dataset:
Slow clearance of histidine-rich protein-2 in Gabonese with uncomplicated malaria
2024-08-28

ABSTRACT Malaria rapid diagnostic tests (RDTs), which detect Plasmodium falciparum (Pf)-specific histidine-rich protein-2 (HRP2), have increasing importance for the diagnosis and control of malaria, especially also in regions where routine diagnosis by microscopy is not available. HRP2-based RDTs have a similar sensitivity to expert microscopy, but their reported low specificity can lead to high false positivity rates, particularly in high-endemic areas. Despite the widespread use of RDTs, models investigating the dynamics of HRP2 clearance following Pf treatment focus rather on short-term clearance of the protein. The goal of this observational cohort study was to determine the long-term kinetic of HRP2-levels in peripheral blood after treatment of uncomplicated malaria cases with Pf mono-infection using a 3-day course of artesunate/amodiaquine. HRP2 levels were quantified at enrollment and on days 1, 2, 3, 5, 7, 12, 17, 22, and 28 post-treatment initiation. The findings reveal an unexpectedly prolonged clearance of HRP2 after parasite clearance from capillary blood. Terminal HRP2 half-life was estimated to be 9 days after parasite clearance using a pharmacokinetic two-compartmental elimination model. These results provide evidence that HRP2 clearance has generally been underestimated, as the antigen remains detectable in capillary blood for up to 28 days following successful treatment, influencing RDT-based assessment following a malaria treatment for weeks. A better understanding of the HRP2 clearance dynamics is critical for guiding the diagnosis of malaria when relying on RDTs. IMPORTANCE Detecting Plasmodium falciparum , the parasite responsible for the severest form of malaria, typically involves microscopy, polymerase chain reaction (PCR), or rapid diagnostic tests (RDTs) targeting the histidine-rich protein 2 or 3 (HRP2/3). While microscopy and PCR quickly turn negative after the infection is cleared, HRP2 remains detectable for a prolonged period. The exact duration of HRP2 persistence had not been well defined. Our study in Gabon tracked HRP2 levels over 4 weeks, resulting in a new model for antigen clearance. We discovered that a two-compartment model accurately predicts HRP2 levels, revealing an initial rapid reduction followed by a much slower elimination phase that can take several weeks. These findings are crucial for interpreting RDT results, as lingering HRP2 can lead to false positives, impacting malaria diagnosis and treatment decisions.
Exposure to gestational diabetes mellitus in utero impacts hippocampal functional connectivity in response to food cues in children
2024-08-28

Abstract Objectives Intrauterine exposure to gestational diabetes mellitus (GDM) increases the risk of obesity in the offspring, but little is known about the underlying neural mechanisms. The hippocampus is crucial for food intake regulation and is vulnerable to the effects of obesity. The purpose of the study was to investigate whether GDM exposure affects hippocampal functional connectivity during exposure to food cues using functional magnetic resonance imaging (fMRI). Methods Participants were 90 children age 7–11 years (53 females) who underwent an fMRI-based visual food cue task in the fasted state. Hippocampal functional connectivity (FC) was examined using generalized psychophysiological interaction in response to food versus non-food cues. Hippocampal FC was compared between children with and without GDM exposure, while controlling for possible confounding effects of age, sex and waist-to-hip ratio. In addition, the influence of childhood and maternal obesity were investigated using multiple regression models. Results While viewing high caloric food cues compared to non-food cure, children with GDM exposure exhibited higher hippocampal FC to the insula and striatum (i.e., putamen, pallidum and nucleus accumbens) compared to unexposed children. With increasing BMI, children with GDM exposure had lower hippocampal FC to the somatosensory cortex (i.e., postcentral gyrus). Conclusions Intrauterine exposure to GDM was associated with higher food-cue induced hippocampal FC especially to reward processing regions. Future studies with longitudinal measurements are needed to clarify whether altered hippocampal FC may raise the risk of the development of metabolic diseases later in life.
A remarkable degree of conformance between the visual streak of the Mongolian gerbil and the human central retina
2024-08-28

Abstract The Mongolian gerbil (MG) is a day-active rodent that lives in desert-like environments and thus very much relies on vision. To allow for a particularly exact view of the horizon, the region of highest visual acuity, the visual streak (VS), forms a horizontal band across the retina between the projection areas of the sky and the ground. Here, we assessed the retinal basis of this specialized region and compared the findings to the human central high-acuity region culminating in the macula. We found an increased density of cones, elongated photoreceptor outer segments (OSs) and a minimization of intersecting surface vessels to improve quality of vision, all of which is analogous to the human macula. Stunningly, also the area of retinal pigment epithelium (RPE) cells was significantly smaller in the VS region than in the periphery, again similar to what is found in the human macula. Our data therefore suggest that the remarkable degree of conformance between the VS of the MG and the human macula renders the MG a promising rodent, non-primate model of the central human retina.
Making “strategic autonomy” rhyme with “fiscal austerity?” Unresolved conflicts of (geo)economic ideas in EU infrastructure policy
2024-08-28

As a reaction to intensifying global competition, measures related to strategic autonomy are gaining traction on the EU level. Yet they coincide with a general return to fiscal consolidation. With current developments more inconclusive than previously suggested, this article asks how the central actors in EU economic policy, both public and private, position themselves in the autonomy-austerity conflict. It introduces a political-economic approach to the role of (geo)economic ideas and state-business relations in EU policy formation. The article focuses on infrastructure policy as a main field within which the conflict unfolds. A content analysis of official documents systematically maps the positions of relevant actors. While an influential group of southern finance ministries, Directorates-General, center-left parties, and trade unions is promoting strategic autonomy, a shrinking constellation around fiscal austerity contains relevant veto players. The deadlock results in the attempt to reconcile both ideas via “targeted flexibility”: consolidation via the expenditure side and a delegitimization of non-investment spending, coupled with a public de-risking of private investments. The approach is supported by European capital, yet highly inconsistent and runs up against pro-austerity forces. The findings have strong implications for the EU’s future geoeconomic strategy and its ability to compete globally.
Ontogeny of the malleus in Mesocricetus auratus (Mammalia, Rodentia): Systematic and functional implications for the muroid middle ear
2024-08-28

Abstract The three mammalian auditory ossicles enhance sound transmission from the tympanic membrane to the inner ear. The anterior anchoring of the malleus is one of the key characters for functional classification of the auditory ossicles. Previous studies revealed a medial outgrowth of the mallear anterior process, the processus internus praearticularis, which serves as an anchor for the auditory ossicle chain but has been often missed due to its delicate nature. Here we describe the development and morphology of the malleus and its processus internus praearticularis in the cricetine rodent Mesocricetus auratus , compared to selected muroid species ( Cricetus cricetus , Peromyscus maniculatus , and Mus musculus ). Early postnatal stages of Mesocricetus show the formation of the malleus by fusion of the prearticular and mallear main body. The processus internus praearticularis forms an increasing broad lamina fused anteriorly to the ectotympanic in adult stages of all studied species. Peromyscus and Mus show a distinct orbicular apophysis that increases inertia of the malleus and therefore these species represent the microtype of auditory ossicles. In contrast, the center of mass of the malleus in the studied Cricetinae is close to the anatomical axis of rotation and their auditory ossicles represent the transitional type. The microtype belongs to the grundplan of Muroidea and is plesiomorphic for Cricetidae, whereas the transitional type evolved several times within Muroidea and represents an apomorphic feature of Cricetinae.
Intramolecular feedback regulation of the LRRK2 Roc G domain by a LRRK2 kinase dependent mechanism
2024-08-28

Abstract The Parkinson’s Disease (PD)-linked protein Leucine Rich Repeat Kinase 2 (LRRK2) consists of seven domains, including a kinase and a Roc G domain. Despite the availability of several high-resolution structures, the dynamic regulation of its unique intramolecular domain stack is nevertheless still not well understood. By in-depth biochemical analysis, assessing the Michaelis-Menten kinetics of the Roc G domain, we have confirmed that LRRK2 has, similar to other Roco protein family members, a KM value of LRRK2 that lays within the range of the physiological GTP concentrations within the cell. Furthermore, the R1441G PD variant located within a mutational hotspot in the Roc domain showed an increased catalytic efficiency. In contrast, the most common PD variant G2019S, located in the kinase domain, showed an increased KM and reduced catalytic efficiency, suggesting a negative feedback mechanism from the kinase domain to the G domain. Autophosphorylation of the G1+2 residue (T1343) in the Roc P-loop motif is critical for this phosphoregulation of both the KM as well as the kcat values of the Roc-catalyzed GTP hydrolysis, most likely by changing the monomer-dimer equilibrium. The LRRK2 T1343A variant has a similar increased kinase activity in cells compared to G2019S and the double mutant T1343A/G2019S has no further increased activity suggesting that T1343 is crucial for the negative feedback in the LRRK2 signaling cascade. Together our data reveal a novel intramolecular feedback regulation of the LRRK2 Roc G domain by a LRRK2 kinase dependent mechanism. Interestingly, PD mutants differently change the kinetics of the GTPase cycle, which might in part explain the difference in penetrance of these mutations in PD patients.
Plant diversity enhances ecosystem multifunctionality via multitrophic diversity
2024-08-29

Ecosystem functioning depends on biodiversity at multiple trophic levels, yet relationships between multitrophic diversity and ecosystem multifunctionality have been poorly explored, with studies often focusing on individual trophic levels and functions and on specific ecosystem types. Here, we show that plant diversity can affect ecosystem functioning both directly and by affecting other trophic levels. Using data on 13 trophic groups and 13 ecosystem functions from two large biodiversity experiments-one representing temperate grasslands and the other subtropical forests-we found that plant diversity increases multifunctionality through elevated multitrophic diversity. Across both experiments, the association between multitrophic diversity and multifunctionality was stronger than the relationship between the diversity of individual trophic groups and multifunctionality. Our results also suggest that the role of multitrophic diversity is greater in forests than in grasslands. These findings imply that, to promote sustained ecosystem multifunctionality, conservation planning must consider the diversity of both plants and higher trophic levels.
A new Peirosauridae (Crocodyliformes, Notosuchia) from the Adamantina Formation (Bauru Group, Late Cretaceous), with a revised phylogenetic analysis of Sebecia
2024-08-29

Abstract Peirosauridae (Crocodyliformes, Notosuchia) is one of the fossil lineages of crocodyliforms ubiquitous in the Cretaceous deposits of the Bauru Basin. Here, we describe a new species of a longirostrine Peirosauridae from the Adamantina Formation (Bauru Basin, Late Cretaceous). The specimen consists of a partially preserved skull with a cranial roof, interorbital region, and fragments of the posterior portion of the rostrum, including the prefrontal and lacrimal; left hemimandible, with 14 alveoli and 12 teeth; and a single cervical rib fragment. The specimen is associated with Peirosauridae by three cranial synapomorphies, and it can be assigned to a new genus and species by presenting seven cranial and one tooth apomorphies. To clarify the position of the new taxon, an updated phylogenetic analysis was performed with increased sampling of taxa of Notosuchia, especially Peirosauridae, and phylogenetically relevant characters. Our results indicated the monophyly of Peirosauridae, formed by two main lineages, the oreinirostral and presumably terrestrial Peirosaurinae and the longirostrine and presumably semi‐aquatic Pepesuchinae. The recovering of both lineages as distinct entities was also reinforced through a morphospace analysis. Pepesuchinae were notable by exploring a position of the morphospace not explored by any other Notosuchia. Their longer rostra and the assumption of them being gradually specialized to aquatic habits reflects the unique diversity of these crocodyliforms through the Cretaceous deposits of South America and Africa.
Chemical crosslinking extends and complements UV crosslinking in analysis of RNA/DNA nucleic acid–protein interaction sites by mass spectrometry
2024-08-29

ABSTRACT UV (ultra-violet) crosslinking with mass spectrometry (XL-MS) has been established for identifying RNA- and DNA-binding proteins along with their domains and amino acids involved. Here, we explore chemical XL-MS for RNA-protein, DNA-protein, and nucleotide-protein complexes in vitro and in vivo . We introduce a specialized nucleotide-protein-crosslink search engine, NuXL, for robust and fast identification of such crosslinks at amino acid resolution. Chemical XL-MS complements UV XL-MS by generating different crosslink species, increasing crosslinked protein yields in vivo almost four-fold, and thus it expands the structural information accessible via XL-MS. Our workflow facilitates integrative structural modelling of nucleic acid–protein complexes and adds spatial information to the described RNA-binding properties of enzymes, for which crosslinking sites are often observed close to their cofactor-binding domains. In vivo UV and chemical XL-MS data from E. coli cells analysed by NuXL establish a comprehensive nucleic acid–protein crosslink inventory with crosslink sites at amino acid level for more than 1500 proteins. Our new workflow combined with the dedicated NuXL search engine identified RNA crosslinks that cover most RNA-binding proteins, with DNA and RNA crosslinks detected in transcriptional repressors and activators.
B7-1 and PlGF-1 are two possible new biomarkers to identify fracture-associated trauma patients at higher risk of developing complications: a cohort study
2024-08-29

Abstract Background Around 10% of fractures lead to complications. With increasing fracture incidences in recent years, this poses a serious burden on the healthcare system, with increasing costs for treatment. In the present study, we aimed to identify potential ‘new’ blood markers to predict the development of post-surgical complications in trauma patients following a fracture. Methods A total of 292 trauma patients with a complete three-month follow-up were included in this cohort study. Blood samples were obtained from 244 of these patients. Two complication groups were distinguished based on the Clavien-Dindo (CD) classification: CD grade I and CD grade III groups were compared to the controls (CD 0). The Mann-Whitney U test was used to compare the complication groups to the control group. Results Analysis of the patients’ data revealed that risk factors are dependent on sex. Both, males and females who developed a CD III complication showed elevated blood levels of B7-1 ( p = 0.015 and p = 0.018, respectively) and PlGF-1 ( p = 0.009 and p = 0.031, respectively), with B7-1 demonstrating greater sensitivity (B7-1: 0.706 (male) and 0.692 (female), PlGF-1: 0.647 (male) and 0.615 (female)). Further analysis of the questionnaires and medical data revealed the importance of additional risk factors. For males (CD 0: 133; CD I: 12; CD III: 18 patients) alcohol consumption was significantly increased for CD I and CD III compared to control with p = 0.009 and p = 0.007, respectively. For females (CD 0: 107; CD I: 10; CD III: 12 patients) a significantly increased average BMI [kg/m 2 ] from 25.5 to 29.7 with CD III was observed, as well as an elevation from one to three comorbidities ( p = 0.003). Conclusions These two potential new blood markers hold promise for predicting complication development in trauma patients. Nevertheless, further studies are necessary to evaluate the diagnostic utility of B7-1 and PlGF-1 in predicting complications in trauma patients and consider sex differences before their possible use as routine clinical screening tools.
‘The mirror of the soul?’ Inferring sadness in the eyes
2024-08-29

Abstract The eyes are widely regarded as the mirror of the soul, providing reliable nonverbal information about drives, feelings, and intentions of others. However, it is unclear how accurate emotion recognition is when only the eyes are visible and whether inferring of emotions is altered across healthy adulthood. To fill this gap, the present piece of research was directed at comparing the ability to infer basic emotions in two groups of typically developing females that differed in age. We set a focus on females seeking group homogeneity. In a face-to-face study, in a two-alternative forced choice paradigm (2AFC), participants had to indicate emotions for faces covered by masks. The outcome reveals that although the recognition pattern is similar in both groups, inferring sadness in the eyes substantially improves with age. Inference of sadness is not only more accurate and less variable in older participants, but also positively correlates with age from early through mid-adulthood. Moreover, reading sadness (and anger) is more challenging in the eyes of male posers. A possible impact of poser gender and cultural background, both in expressing and inferring sadness in the eyes, is highlighted.
Investigating palaeodune orientations and contemporary wind regimes in Southeast Kazakhstan using a semi‐automated mapping framework
2024-08-29

Abstract The Ili‐Balkhash region in southeastern Kazakhstan hosts morphologically diverse dormant desert dune fields and presents an interesting opportunity for geomorphological and palaeoenvironmental studies. Because the morphology of aeolian dunes is primarily driven by wind dynamics, the dormant dunes in the study area may reflect past wind conditions. We assess their concurrence with modern ERA5 wind data to test whether there has been a change in wind regime since the dunes' last phase of activity. Our approach includes dune mapping, the quantification of dune orientations, the modelling of modern bedform orientations, and optically stimulated luminescence (OSL) dating for temporal context. The centrepiece of our methodological contribution is a novel semi‐automated mapping workflow using geographic object‐based image analysis (GEOBIA) and machine learning (ML) on Sentinel‐2 satellite imagery. Within the scope of a case study, we map dune fields in the Ili‐Balkhash region and quantify dune orientations. We further apply the maximum gross bedform‐normal transport (MGBNT) concept to model bedform orientations matching modern wind regimes for each of the sites. We find that strong winds show better alignment with observed dune orientations than wind regimes comprising all wind speeds. Furthermore, bedform orientations in some of our study sites, namely those that are located in the open plain southeast of Lake Balkhash, do not reflect modern winds. The divergence between dune orientations and wind regime suggests changes in local wind dynamics since the dune fields' last phase of activity.
Mapping the Research on Periocular Basal Cell Carcinoma in the Past 20 Years: A Bibliometric Network Analysis
2024-08-29

Purpose: This study aims to analyze the literature on periocular basal cell carcinoma, identify research trends, and offer insights into future research areas in this field to assist clinicians and researchers. Methods: 903 publications on periocular basal cell carcinoma were collected from the Web of Science Core Collection database. We assessed the contributions from various countries, institutions, journals, and authors, and performed network analysis using Excel, VOSviewer, and R Studio to represent the prominent areas of research visually. Results: The country with the highest number of publications and citations in this study was the United States of America, with 250 publications, 5917 citations, and the highest H-index of 44. Ophthalmic Plastic and Reconstructive Surgery is the leading journal. The UTMD Anderson Cancer Center had the highest number of publications, accounting for 43, or 4.76% of the total. Selva D from the University of Adelaide, Australia, is the top author with 26 publications, and 751 citations. Targeted therapy for PBCC-related pathways has been a hot topic in recent years. Conclusions: This study using bibliometrics seeks to explore the patterns and focal points of research and analyzes publication patterns, key research areas, influential authors, and prominent journals in periocular basal cell carcinoma during the last 2 decades.
Maps and the Burdens of Belonging: Identity and Resistance in Gurnah’s <em>By the Sea</em> and Owuor’s <em>The Dragonfly Sea</em>
2024-08-29

This article examines the relationship between maps, identity, and belonging in two post-colonial novels set in the Western Indian Ocean region: Abdulrazak Gurnah’s By the Sea (2001) and Yvonne Adhiambo Owuor’s The Dragonfly Sea (2019). Through close textual analysis, I argue that these novels portray maps not merely as static remnants of colonialism but as dynamic artefacts that both reflect and shape post-colonial identities in nuanced ways. I highlight how these novels depict maps as having a degree of agency, capable of both oppressing and offering pathways to self-discovery for post-colonial subjects. By highlighting the themes of naming, representation, and identity concerning maps across both texts, I argue for a coherent cross-reading of the plurality and contestation inherent in the post-colonial reading of maps.
Continuity bounds for quantum entropies arising from a fundamental entropic inequality
2024-08-29

We establish a tight upper bound for the difference in von Neumann entropies between two quantum states, and . This bound is expressed in terms of the von Neumann entropies of the mutually orthogonal states derived from the Jordan-Hahn decomposition of the difference operator . This yields a novel entropic inequality that implies the well-known Audenaert-Fannes (AF) inequality. In fact, it also leads to a refinement of the AF inequality. We employ this inequality to obtain a uniform continuity bound for the quantum conditional entropy of two states whose marginals on the conditioning system coincide. We additionally use it to derive a continuity bound for the quantum relative entropy in both variables. Interestingly, the fundamental entropic inequality is also valid in infinite dimensions.