bluuebunny/crossref_metadata_2025_split huggingface dataset:
Prisons on the Edge: Perspectives on the Late Medieval and Early Modern History of Confinement in the Francosphere
Authors: Abdela Sophie 
Published: July 2024

Abstract
It is high time we took stock of the field of carceral history—something particularly true for the French-speaking world. In the last twenty years, the Francosphere has seen a frenzy of research activity centred on the prison, and more broadly around multiple forms of confinement. The field is being radically transformed under the watchful eye of a whole new generation of researchers who have produced numerous monographs, articles and colloquia on the subject. The research and thinking about the prison model that the current generation is developing diverges so completely from the classical revisionist historiography as to be unrecognisable, transfigured from previous iterations. The purpose of this article is to explore those recent transformations of the field following three parameters. The first is linguistic (reviewing only the work emerging from the Francosphere); the second is one of academic discipline (History); and the third is temporal (the emphasis is on research touching on the long pre-Revolution period). These three parameters provide a focused view, while remaining sufficiently widely relevant to identify the dominant trends in French-language research. This is set in the context of past research, of work that has been done elsewhere, and of what sets Francophone research apart from corresponding English-language scholarship.
Network formation and efficiency in linear-quadratic games: An experimental study
Authors: Horváth Gergely 
Published: July 2024

Abstract
We experimentally study effort provision and network formation in the linear-quadratic game characterised by positive externality and complementarity of effort choices among network neighbours. We compare experimental outcomes to the equilibrium and efficient allocations and study the impact of group size and linking costs. We find that individuals overprovide effort relative to the equilibrium level on the network they form. However, their payoffs are lower than the equilibrium payoffs because they create fewer links than is optimal, which limits the beneficial spillover effects of effort provision. Reducing the linking costs does not significantly increase the connectedness of the network and the welfare loss is higher in larger groups. Individuals connect to the highest-effort providers in the group and ignore links to relative low-effort providers, even if those links would be beneficial to form. This effect explains the lack of links in the network.
Unpacking Social Capital
Authors: Durante Ruben , Mastrorocco Nicola , Minale Luigi , Snyder James M 
Published: July 2024

Abstract
We use novel survey data from Italy to shed light on key questions regarding the measurement of social capital and the use of social capital indicators for empirical work. Our data cover a sample of over 600,000 respondents interviewed between 2000 and 2015. We identify four distinct components of social capital—(i) social participation, (ii) political participation, (iii) general trust and (iv) trust in institutions—and examine how they relate to each other. We then study how each dimension of social capital relates to various socio-economic factors, both at the individual and aggregate levels, and to various proxies of social capital commonly used in the literature. Finally, building on previous work, we investigate to what extent different dimensions of social capital predict differences in key economic, political and health outcomes. Our findings support the view that social capital is a multi-faceted object with multiple dimensions that, while related, are distinct from each other. Future work should take such multi-dimensionality into account and carefully consider what measure of social capital to use.
Do positive psychosocial factors contribute to the prediction of coronary artery disease? A UK Biobank–based machine learning approach
Authors: Hefti René , Guemghar Souad , Battegay Edouard , Mueller Christian , Koenig Harold G , Schaefert Rainer , Meinlschmidt Gunther 
Published: July 2024

Abstract

Aims
Most prediction models for coronary artery disease (CAD) compile biomedical and behavioural risk factors using linear multivariate models. This study explores the potential of integrating positive psychosocial factors (PPFs), including happiness, satisfaction with life, and social support, into conventional and machine learning–based CAD-prediction models.

Methods and results
We included UK Biobank (UKB) participants without CAD at baseline. First, we estimated associations of individual PPFs with subsequent acute myocardial infarction (AMI) and chronic ischaemic heart disease (CIHD) using logistic regression. Then, we compared the performances of logistic regression and eXtreme Gradient Boosting (XGBoost) prediction models when adding PPFs as predictors to the Framingham Risk Score (FRS). Based on a sample size between 160 226 and 441 419 of UKB participants, happiness, satisfaction with health and life, and participation in social activities were linked to lower AMI and CIHD risk (all P-for-trend ≤ 0.04), while social support was not. In a validation sample, adding PPFs to the FRS using logistic regression and XGBoost prediction models improved neither AMI [area under the receiver operating characteristic curve (AUC) change: 0.02 and 0.90%, respectively] nor CIHD (AUC change: −1.10 and −0.88%, respectively) prediction.

Conclusion
Positive psychosocial factors were individually linked to CAD risk, in line with previous studies, and as reflected by the new European Society of Cardiology guidelines on cardiovascular disease prevention. However, including available PPFs in CAD-prediction models did not improve prediction compared with the FRS alone. Future studies should explore whether PPFs may act as CAD-risk modifiers, especially if the individual’s risk is close to a decision threshold.
Investigating Thresholds for Drought Resistance in Floodplain Forest Tree Species
Authors: Tracy John E , Sharma Ajay , Deitch Matthew , Colee James , Johnson Daniel J 
Published: July 2024

Abstract
Anthropogenic and climatic variables combine to alter river flow regimes worldwide, which can influence shifts in species composition. Exacerbation of drought events in southeastern United States floodplains may have varying impacts on survival and regeneration of high bottomland, low bottomland, and swamp forest species, causing distribution shifts between these forest types. We tested 7-month-old seedlings of the swamp species water tupelo (Nyssa aquatica), Ogeechee tupelo (Nyssa ogeche), and pop ash (Fraxinus caroliniana), and the low bottomland species overcup oak (Quercus lyrata) and water hickory (Carya aquatica) in a controlled experiment with increasing drought treatment. We compared timing to 95% mortality and determined lethal soil moisture thresholds for species. Swamp species were no more vulnerable to mortality under increasing drought than low bottomland hardwood species found in neighboring wet floodplain habitats, suggesting that duration of drought may not be a main driver of compositional shifts between these forests.
Study Implications: Natural flows of river systems around the world have been altered by humans and a changing climate. Increased intensity of drought events can affect tree species growing adjacent to rivers and influence their ability to reproduce, thus changing the composition of floodplain forests. We tested the drought tolerance of three swamp species accustomed to frequent flooding and two low bottomland hardwood species accustomed to less frequent flooding to see which species might be more affected by drought. We observed no differences between these two groups, suggesting that greater flood tolerance may not imply greater drought intolerance.
A case study on the endeavour to identify the “unidentifiable” fallen soldiers of WWI on the Italian front
Authors: Gaudio Daniel , Betto Andrea 
Published: July 2024

Abstract
If there is a category of war victims for whom the identification process has been and still remains an extremely challenging issue, it is the soldiers of World War One. There are various reasons for this, including unreliable identity tags, the unprecedented number of casualties, and the level of destruction caused by the massive use of “new” weapons. In Italy, this phenomenon was so severe and well-known that a monument was erected in Rome specifically in memory of those unknown soldiers (“Tomba del Milite Ignoto”). However, modern techniques in forensic archaeology and anthropology can facilitate identification even in this extreme context. In the casework described here, the presence of human remains was reported to the judicial authorities, which were subsequently located and excavated in a remote region of the Italian Alps using a range of techniques, including drone imagery, GPR, and micromorphological surveying. During the archaeological excavation of the human remains, a World War One zinc identification tag in very poor condition was found adjacent to the body. The biological profile was estimated (male, 20–30 years old, 166 cm±3.27 cm), and a trauma survey was performed. Thanks to the restoration of the ID tag, parts of the name and enrolment number were found and cross-referenced with the anthropological data of the subject, matching the information in the available military records. The victim had no siblings or offspring, making it impossible to identify descendants. However, the operation led to a contextual/presumptive identification of the soldier and the discovery of his story. He was a native of Tuscany, who died during the “Punitive Expedition” (1916) and was buried, probably by his comrades, in a small flat area hidden from enemy lines. In investigations like this, the involvement of local communities, whether groups or individuals, is crucial. In this case report, it will be shown how multidisciplinary approaches and collective actions can play a pivotal role in resolving highly intricate scenarios, such as those pertaining to armed conflicts.
Pseudomolecule-scale genome assemblies of Drepanocaryum sewerzowii and Marmoritis complanata
Authors: Smit Samuel J , Whitehead Caragh , James Sally R , Jeffares Daniel C , Godden Grant , Peng Deli , Sun Hang , Lichman Benjamin R 
Published: July 2024

Abstract
The Nepetoideae, a subfamily of Lamiaceae (mint family), is rich in aromatic plants, many of which are sought after for their use as flavors and fragrances or for their medicinal properties. Here, we present genome assemblies for two species in Nepetiodeae: Drepanocaruym sewerzowii and Marmoritis complanata. Both assemblies were generated using Oxford Nanopore Q20 + reads with contigs anchored to nine pseudomolecules that resulted in 335 Mb and 305 Mb assemblies, respectively, and BUSCO scores above 95% for both the assembly and annotation. We furthermore provide a species tree for the Lamiaceae using only genome-derived gene models, complementing existing transcriptome and marker-based phylogenies.
Towards a new standard for seismic moment tensor inversion containing 3-D earth structure uncertainty
Authors: Phạm T -S , Tkalčić H , Hu J , Kim S 
Published: July 2024

SUMMARY
Moment tensor (MT) inversion is a classical geophysical inverse problem that infers a force-equivalent model of a seismic source from seismological observations. Like other inverse problems, the accuracy of the inversion depends on the reliability of the forward problem simulating waveforms from the source location through an Earth structural model. Apart from errors in data, the error in forward waveform simulation, also known as theory error, is a significant source of error contributing to the misfit function between the predicted and observed waveforms. Here, we set up numerical experiments to comprehensively probe the sensitivity of the linearized MT inversion to 3-D regional earth model errors, a known predominant factor of the theory error. Using the Monte Carlo method, we estimate the empirical structural covariance matrices to characterize the waveform mismatch due to the imperfect knowledge of Earth's structure. First, although the inversion accuracy deteriorates with increasing model errors, incorporating the structural covariance matrices into the misfit function improves the accuracy of inversion results for all theorized error distributions. Secondly, we propose a slightly modified form of the structural covariance matrix, which further enhances the inversion outcome. Lastly, as the true structural errors are likely spatially correlated, we highlight the importance of adequately treating the correlation into the MT inversion because of its significant impact on inversion. Overall, as a preliminary effort in quantifying 3-D structural errors on MT inversion, this study proves the computational feasibility by means of numerical experiments and will hopefully provide a way forward for future work on this topic.
Spiritual Cyborg: Virtual Embodiment From Secular Ambiguities to Ontological Opportunities
Authors: Farman Abou , Eke Volkan , Scarlett William 
Published: July 2024

Abstract
AI and robotic technologies are reshaping embodied experience, specifically experiences of the relation of mind to body as well as experiences of “reality,” which necessitate the qualifiers augmented or virtual. Such technologies have allowed people to infuse the expanding assortment of technological experiences with spiritual meaning, thus expanding the ambit of spirituality and religiosity; at the same time, the technology has provided many researchers with occasion to argue that all spiritual and virtual experience—including of soul and deities—may only just ever be in the brain, putting the virtual back into the body but not without changing each. We are comparing three sites—VR, gaming, and transhuman mind uploading in Europe, the US, and Japan—not as sites of confusion but of “ontological opportunity,” that is, occasions for remaking experiences of embodiment and disembodiment, and changing the relation between reality and virtuality.
Drug resistance profiles of Mycobacterium tuberculosis clinical isolates by genotype MTBDRplus line probe assay in Zambia: findings and implications
Authors: Kangongwe Mundia Hendrix , Mwanza Winnie , Mwamba Mutende , Mwenya Jonathan , Muzyamba John , Mzyece Judith , Hamukale Amos , Tembo Emmanuel , Nsama Davy , Chimzizi Rehab , Mubanga Angel , Tambatamba Bushimbwa , Mudenda Steward , Lishimpi Kennedy 
Published: July 2024

Abstract

Background
The emergence of drug resistance is a threat to global tuberculosis (TB) elimination goals. This study investigated the drug resistance profiles of Mycobacterium tuberculosis (M. tuberculosis) using the Genotype MTBDRplus Line Probe Assay at the National Tuberculosis Reference Laboratory (NTRL) in Zambia.

Methods
A cross-sectional study was conducted between January 2019 and December 2020. GenoType MTBDRplus line probe assay records for patients at the NTRL were reviewed to investigate drug susceptibility profiles of M. tuberculosis isolates to rifampicin and isoniazid. Data analysis was done using Stata version 16.1.

Results
Of the 241 patient records reviewed, 77% were for females. Overall, 44% of patients were newly diagnosed with TB, 29% had TB relapse, 10% treatment after failure and 8.3% treatment after loss to follow-up. This study found that 65% of M. tuberculosis isolates were susceptible to rifampicin and isoniazid. Consequently, 35% of the isolates were resistant to rifampicin and/or isoniazid and 21.2% were multidrug-resistant (MDR). Treatment after failure [relative risk ratios (RRR) = 6.1, 95% CI: 1.691–22.011] and treatment after loss to follow-up (RRR = 7.115, 95% CI: 1.995–25.378) were significantly associated with MDR-TB. Unknown HIV status was significantly associated with isoniazid mono-resistance (RRR = 5.449, 95% CI: 1.054–28.184).

Conclusions
This study found that 65% of M. tuberculosis isolates were susceptible to rifampicin and isoniazid while 35% were resistant. Consequently, a high prevalence of MDR-TB is of public health concern. There is a need to heighten laboratory surveillance and early detection of drug-resistant TB to prevent the associated morbidity and mortality.
Controlling Staphylococcus aureus biofilm on food contact surfaces: the efficacy of Oliveria decumbens essential oil and its implications on biofilm-related genes
Authors: Javid Moghadam Mahshad , Maktabi Siavash , Zarei Mehdi , Mahmoodi Pezhman 
Published: July 2024

Abstract

Aims
This study aimed to investigate the effect of Oliveria decumbens essential oil (Od-EO) on the phenotypic properties and gene expression of Staphylococcus aureus biofilm on commonly used food contact surfaces.

Methods and results
The minimum inhibitory concentration and minimum bactericidal concentration of Od-EO on S. aureus ATCC25923 were determined to be 0.5 and 1 µl/ml, respectively. Crystal violet staining, scanning electron microscopy (SEM), biofilm metabolic activity evaluation, and real-time PCR analysis were used to assess the anti-biofilm properties of Od-EO. The results demonstrated that Od-EO exhibited significant anti-biofilm properties against S. aureus and effectively reduced the metabolic activity of biofilm cells. Furthermore, the inhibitory effects of Od-EO on biofilm formation were more pronounced on stainless steel (SS) compared to high-density polyethylene (HDPE) surfaces. Real-time PCR analysis revealed that Od-EO downregulated the expression of biofilm-related genes (icaA, icaD, clfA, clfB, FnbA, FnbB, and hld) in S. aureus grown on SS, while the expression levels of all studied genes except hld in the biofilm formed on HDPE remained unchanged or increased.

Conclusions
One of the main anti-biofilm mechanisms of the Od-EO on the HDPE is related to the disturbance in the QS of the cells. These findings highlight the potential of Od-EO as an effective agent for controlling and inhibiting S. aureus biofilm in the food industry and its potential use in disinfectant compounds.
Overview of Hepatitis C in Pregnancy: Screening, Management, and Treatment
Authors: Rios Jeanette , Alpert Lauren , Mehra Sonia , Schmidt Natalia , Kushner Tatyana 
Published: July 2024

Abstract

Objective
The rising prevalence of hepatitis C infections among individuals of reproductive age further emphasizes the importance of evidence-based management of hepatitis C virus (HCV) during pregnancy to minimize perinatal transmission and to optimize maternal and fetal outcomes. In this review, we discuss the most recent recommendations on the management of HCV in pregnancy, including recommendations for screening and treatment during pregnancy and the postpartum period, as well as infant management to reduce perinatal transmission of HCV.

Recent findings
Current guidelines recommend universal HCV screening during each pregnancy. With varying guidance regarding the use of direct-acting antivirals (DAAs) during pregnancy, recent studies have focused on the safety and efficacy of DAA initiation during pregnancy. Additionally, there has been an increased focus on improving treatment rates in the postpartum period through innovative linkage to care efforts, telemedicine, and additional efforts reducing barriers to care for patients.
Co-existence of malignant phylloid tumor and metaplastic malignant spindle cell carcinoma: case report
Authors: Jamjoum Ghader , Alrefaei Mariya , Alhamed Wasan , Alsefri Joud , Abuzinadah Ahmed 
Published: July 2024

Abstract
Phyllodes tumors (PTs) and Metaplastic Malignant Spindle Cell Carcinoma (MMSCC) are rare and challenging breast malignancies. MMSCC is even rarer and highly aggressive. Surgical excision is the mainstay of treatment for both, but MMSCC generally carries a poorer prognosis. A 46-year-old woman with a history of breast augmentation 4 years ago presented with a rapidly progressing right breast mass. Imaging and core biopsy suggested a malignant PT. A right mastectomy with latissimus dorsi flap reconstruction was done. Initially diagnosed as a malignant PT, the post-operative pathology revealed a co-existence of malignant PT and MMSCC, an extremely rare finding. This case reports the unique challenge of a patient harboring both malignant PT and MMSCC within the same breast tissue. This exceedingly rare co-existence emphasizes the diagnostic complexities associated with uncommon breast malignancies. Our case highlights the challenges of diagnosing and managing uncommon and aggressive breast malignancies.
Sporothrix brasiliensis-specific polymerase chain reaction for the diagnosis of cat and human sporotrichosis through non-invasive samples
Authors: Trápaga Mariana Rodrigues , Poester Vanice Rodrigues , Sanchotene Karine Ortiz , Basso Rossana Patrícia , Bernardon Fabiana Fedatto , Luvielmo Rejane , Severo Cecília Bittencourt , Almeida-Paes Rodrigo , Zancopé Oliveira Rosely Maria , von Groll Andrea , Xavier Melissa Orzechowski 
Published: July 2024

Abstract
Zoonotic sporotrichosis caused by Sporothrix brasiliensis is an emerging mycosis in Latin America. One of the problems to quickly treat infected animals and break the transmission chain is associated with the time-consuming gold-standard diagnosis method (culture). We aimed to evaluate a species-specific polymerase chain reaction (PCR) for the diagnosis of sporotrichosis caused by S. brasiliensis using non-invasive samples. We performed a retrospective cross-sectional study using samples collected with swabs from humans and cats with clinical suspicion of sporotrichosis. Deoxyribonucleic acid (DNA) was extracted using a commercial kit, and a species-specific PCR for S. brasiliensis detection was performed. One hundred ten samples were included. PCR showed a good concordance with culture (86% of agreement) for human and cat samples (Kappa coefficient = 0.722, and 0.727, respectively). In conclusion, our data shows that this adapted PCR using non-invasive samples can be applied to sporotrichosis diagnosis, being a good alternative mainly in regions with a lack of mycologists to identify the fungus in culture, contributing to the control of this emergent zoonosis.
Constraining modified gravity scenarios with the 6dFGS and SDSS galaxy peculiar velocity data sets
Authors: Lyall Stuart , Blake Chris , Turner Ryan J 
Published: July 2024

ABSTRACT
The detailed nature of dark energy remains a mystery, leaving the possibility that its effects might be explained by changes to the laws of gravity on large scales. The peculiar velocities of galaxies directly trace the strength of gravity on cosmic scales and provide a means to further constrain such models. We generate constraints on different scenarios of gravitational physics by measuring peculiar velocity (PV) and galaxy clustering two-point correlations, using redshifts and distances from the 6-degree Field Galaxy Survey and the Sloan Digital Sky Survey PV samples, and fitting them against models characteristic of different cosmologies. Our best-fitting results are all found to be in statistical agreement with general relativity, in which context we measure the low-redshift growth of structure to be $f\sigma _8 = 0.329^{+0.081}_{-0.083}$, consistent with the prediction of the standard Lambda cold dark matter model. We also fit the modified gravity scenarios of Dvali–Gabadadze–Porrati and a Hu–Sawicki model of $f(R)$ gravity, finding the $2\sigma$ limit of their characteristic parameters to be $r_{\rm c}H_0/c\gt 6.987$ and $-\log _{10}(|f_{R0}|)\gt 4.703$, respectively. These constraints are comparable to other literature values, though it should be noted that they are significantly affected by the prior adopted for their characteristic parameters. When applied to much larger upcoming PV surveys such as DESI, this method will place rapidly improving constraints on modified gravity models of cosmic expansion and growth.