bluuebunny/crossref_metadata_2025_split huggingface dataset:
Veterinary perspectives on the urbanization of leishmaniosis in Morocco
Authors: Lima Clara M. , Bourquia Maria , Zahri Abderrahmane , Haissen Nada , Santarém Nuno , Cardoso Luís , Cordeiro da Silva Anabela 
Published: August 2024

Abstract
Background
Leishmaniosis caused by Leishmania infantum, L. major and L. tropica is endemic in Morocco. Growing evidence of both human and canine Leishmania infections in urban centres has been reported. Since many forms of the disease are zoonotic, veterinarians play an important role in leishmaniosis control by intervening at the parasite host level. This study aimed to bring together One Health principles to connect canine and feline leishmaniosis epidemiology within urban centres of Morocco (Rabat and Fez) and assess the level of awareness of Moroccan veterinarians about facing this threat.

Methods
A molecular survey was conducted for Leishmania DNA detection in canine (n = 155) and feline (n = 32) whole-blood samples. Three conventional polymerase chain reaction (PCR) protocols were implemented. The first PCR aimed at identifying infected animals by targeting Leishmania spp. kinetoplast minicircle DNA (kDNA). The second and third PCR targeted the Leishmania internal transcribed spacer region (ITS-1) and the Leishmania small subunit ribosomal RNA (SSUrRNA) gene, respectively, aiming at identification of the infecting species after Sanger sequencing-positive amplicons. Total immunoglobulin G (IgG) against Leishmania spp. was evaluated in 125 dogs by enzyme-linked immunosorbent assays (ELISA) using an in-house protocol, including three Leishmania-specific antigens (SPLA, rKDDR and LicTXNPx). Sera from 25 cats were screened for total IgG to Leishmania spp. by an indirect immunofluorescence antibody test (IFAT). An online questionnaire was presented to Moroccan veterinarians addressing their knowledge and practices towards animal leishmaniosis.

Results
Overall, 19.4% of the dogs tested positive for Leishmania kDNA and ITS-1 and sequencing revealed infection with L. infantum among PCR-positive dogs. These animals presented a wide range of ELISA seropositivity results (16.7%, 34.9% and 51.6%) according to the tested antigens (rKDDR, SPLA and LicTXNPx, respectively). Use of kDNA-PCR revealed 12.5% cats positive to Leishmania spp. otherwise found to be seronegative by IFAT.

Conclusions
A considerable prevalence of infection was identified in dogs from urban centres of Morocco. Additionally, this is the first report of feline infection with Leishmania spp. in this country and in urban settings. Moroccan veterinarians are aware that animal leishmaniosis is endemic in Morocco, representing a public health threat, and are knowledgeable about canine leishmaniosis diagnosis and treatment.

Graphical Abstract
Transorbital B-mode ultrasound for the assessment of posterior globe flattening in idiopathic intracranial hypertension: a pilot study
Authors: Knoche Theresia , Pietrock Charlotte , Neumann Konrad , Rossel-Zemkouo Mirjam , Danyel Leon Alexander 
Published: August 2024

Abstract
Background
Posterior globe flattening (PGF) is a specific neuroimaging sign in patients with idiopathic intracranial hypertension (IIH), but its detection is based on subjective qualitative neuroradiological assessment. This study sought to evaluate the utility of transorbital ultrasound to detect and quantify PGF in IIH patients using the Posterior Globe Angle (PGA).

Methods
Consecutive IIH patients and healthy controls were enrolled in a prospective case-control study. Transorbital ultrasound was performed to assess the presence of PGF. For quantification of PGF, an angular measurement (PGA) was performed with the vertex centering the optic nerve at a predefined distance from the lamina cribrosa and angle legs tangentially aligned to the borders of the vitreous body. PGA measurements were compared between IIH patients and healthy controls. Additionally, the diagnostic accuracy of PGA measurements in detecting PGF was evaluated using ROC analysis.

Results
Thirty-one IIH patients (37.3 ± 12.3 years, 29 female) and 28 controls (33.3 ± 11.8 years, 21 female) were compared. PGF was present in 39% of IIH patients and absent in the control group. PGA3mm measurements significantly differed between IIH and controls (116.5° ± 5.5 vs. 111.7° ± 2.9; p < 0.001). A PGA3mm cutoff of ≥ 118.5° distinguished IIH patients from controls with 100% specificity, while retaining a sensitivity of 37.5%.

Conclusions
Transorbital ultrasound may be applied to detect and quantify PGF in IIH patients. Prospective, multicenter studies with extended cohorts and blinded design are needed to validate these preliminary findings and confirm the diagnostic utility of transorbital ultrasound for the assessment of PGF in IIH.
New generic name for a small Triassic ray-finned fish from Perledo (Italy)
Authors: López-Arbarello Adriana , Brocke Rainer 
Published: August 2024

AbstractOur new study of the species originally included in the genus Allolepidotus led to the taxonomic revision of the halecomorph species from the Triassic of Perledo, Italy. The morphological variation revealed by the analysis of the type material is sufficient to confirm four different taxa represented in the Perledo Formation. We correct the misunderstanding about the type species of Allolepidotus, which is A. ruppelii and not “A.” bellottii as considered in the literature over the past two decades. The latter species was originally placed in the genus Semionotus. Fossils from the Kalkschieferzone of Besnasca/Ca' del Frate (Viggiù-Varese, Italy) and Meride (Ticino, Switzerland) which were referred to Allolepidotus, rather represent a species of Eoeugnathus. Therefore, we transfer the species Semionotus bellottii to that genus and propose the new combination E. bellottii. The second and only other species originally included in the genus Allolepidotus is transferred here to the new genus Perledovatus. The holotype of P. nothosomoides new comb. has been mechanically prepared, revealing additional anatomical information that allows to place this taxon in the halecomorph family Subortichthyidae. The other halecomorph species named from the Perledo Formation, Pholidophorus oblongus and Pholidophorus curionii, have been treated as junior synonyms of E. bellottii, but our analysis indicates that they represent distinct separate taxa. However, due to the loss of the type specimens, it is not possible to decide whether they might have been conspecific with other ray-finned fishes from the Middle Triassic of the Alps.
PRRSV hijacks DDX3X protein and induces ferroptosis to facilitate viral replication
Authors: Mao Qian , Ma Shengming , Li Shuangyu , Zhang Yuhua , Li Shanshan , Wang Wenhui , Wang Fang , Guo Zekun , Wang Chengbao 
Published: August 2024

AbstractPorcine reproductive and respiratory syndrome virus (PRRSV) is a severe disease with substantial economic consequences for the swine industry. The DEAD-box helicase 3 (DDX3X) is an RNA helicase that plays a crucial role in regulating RNA metabolism, immunological response, and even RNA virus infection. However, it is unclear whether it contributes to PRRSV infection. Recent studies have found that the expression of DDX3X considerably increases in Marc-145 cells when infected with live PRRSV strains Ch-1R and SD16; however, it was observed that inactivated viruses did not lead to any changes. By using the RK-33 inhibitor or DDX3X-specific siRNAs to reduce DDX3X expression, there was a significant decrease in the production of PRRSV progenies. In contrast, the overexpression of DDX3X in host cells substantially increased the proliferation of PRRSV. A combination of transcriptomics and metabolomics investigations revealed that in PRRSV-infected cells, DDX3X gene silencing severely affected biological processes such as ferroptosis, the FoxO signalling pathway, and glutathione metabolism. The subsequent transmission electron microscopy (TEM) imaging displayed the typical ferroptosis features in PRRSV-infected cells, such as mitochondrial shrinkage, reduction or disappearance of mitochondrial cristae, and cytoplasmic membrane rupture. Conversely, the mitochondrial morphology was unchanged in DDX3X-inhibited cells. Furthermore, silencing of the DDX3X gene changed the expression of ferroptosis-related genes and inhibited the virus proliferation, while the drug-induced ferroptosis inversely promoted PRRSV replication. In summary, these results present an updated perspective of how PRRSV infection uses DDX3X for self-replication, potentially leading to ferroptosis via various mechanisms that promote PRRSV replication.
Comprehensive analysis of a peripheral blood transcriptome signature in piglets infected with Salmonella Typhimurium: insight into immune responses
Authors: Bok Eun-Yeong , Yi Seung-Won , Lee Han Gyu , Kim Jae Kyeom , Lee Kangwook , Ha Seungmin , Kim Bumseok , Jung Young-Hun , Oh Sang-Ik 
Published: August 2024

AbstractSalmonella Typhimurium (ST) infection in pigs poses a significant threat to animal health and food safety; the intricate mechanisms underlying host–immune responses and pathogen persistence remain poorly understood. To address this knowledge gap, we comprehensively analyzed the peripheral blood transcriptome in piglets infected with ST. We performed histopathological evaluation, blood parameter analysis, advanced RNA-sequencing techniques, and quantitative reverse transcription PCR (RT-qPCR)-based validation. The increasement in the monocyte counts at 2 days post-infection suggested its potential to serve as a hematological marker for ST infection in piglets. Functional and pathway enrichment analyses of the differentially expressed genes highlighted the pivotal roles of innate and adaptive immune responses, notably in pathways associated with Toll-like receptors, NIK/NF-κB signaling, cytokine signaling, and T cell proliferation. RT-qPCR-based validation using peripheral blood mononuclear cells provided additional insights into the immune system dynamics in response to ST infection, revealing the marked elevation of the interleukin (IL)-15, IL-27, and CXCL10 levels being significantly elevated in ST-infected piglets. Our comprehensive analysis underscores the multifaceted impact of ST infection on piglets and offers valuable insights into the host–pathogen interactions and the role of host immune system during ST infection.
Defining Vaginal Community Dynamics: daily microbiome transitions, the role of menstruation, bacteriophages, and bacterial genes
Authors: Hugerth Luisa W. , Krog Maria Christine , Vomstein Kilian , Du Juan , Bashir Zahra , Kaldhusdal Vilde , Fransson Emma , Engstrand Lars , Nielsen Henriette Svarre , Schuppe-Koistinen Ina 
Published: August 2024

Abstract
Background
The composition of the vaginal microbiota during the menstrual cycle is dynamic, with some women remaining eu- or dysbiotic and others transitioning between these states. What defines these dynamics, and whether these differences are microbiome-intrinsic or mostly driven by the host is unknown. To address this, we characterized 49 healthy, young women by metagenomic sequencing of daily vaginal swabs during a menstrual cycle. We classified the dynamics of the vaginal microbiome and assessed the impact of host behavior as well as microbiome differences at the species, strain, gene, and phage levels.

Results
Based on the daily shifts in community state types (CSTs) during a menstrual cycle, the vaginal microbiome was classified into four Vaginal Community Dynamics (VCDs) and reported in a classification tool, named VALODY: constant eubiotic, constant dysbiotic, menses-related, and unstable dysbiotic. The abundance of bacteria, phages, and bacterial gene content was compared between the four VCDs. Women with different VCDs showed significant differences in relative phage abundance and bacterial composition even when assigned to the same CST. Women with unstable VCDs had higher phage counts and were more likely dominated by L. iners. Their Gardnerella spp. strains were also more likely to harbor bacteriocin-coding genes.

Conclusions
The VCDs present a novel time series classification that highlights the complexity of varying degrees of vaginal dysbiosis. Knowing the differences in phage gene abundances and the genomic strains present allows a deeper understanding of the initiation and maintenance of permanent dysbiosis. Applying the VCDs to further characterize the different types of microbiome dynamics qualifies the investigation of disease and enables comparisons at individual and population levels. Based on our data, to be able to classify a dysbiotic sample into the accurate VCD, clinicians would need two to three mid-cycle samples and two samples during menses. In the future, it will be important to address whether transient VCDs pose a similar risk profile to persistent dysbiosis with similar clinical outcomes. This framework may aid interdisciplinary translational teams in deciphering the role of the vaginal microbiome in women’s health and reproduction.
A high-precision automatic extraction method for shedding diseases of painted cultural relics based on three-dimensional fine color model
Authors: Hu Chunmei , Huang Xiangpei , Xia Guofang , Liu Xi , Ma Xinjian 
Published: August 2024

Abstract
In recent years, with the development of 3D digitization of cultural relics, most cultural sites contain a large number of fine 3D data of cultural relics, especially complex geometric objects such as painted cultural relics. At present, how to automatically extract surface damage information from the fine 3D color model of painted cultural relics and avoid the loss of accuracy caused by reducing the dimension using conventional methods is an urgentproblem. In view of the above issues, this paper proposes an automatic and high-precision extraction method for cultural relics surface shedding diseases based on 3D fine data. First, this paper designs a 2D and 3D integrated data conversion model based on OpenSceneGraph, a 3D engine, which performs mutual conversion between 3D color model textures and 2D images. Second, this paper proposes a simple linear iterative clustering segmentation algorithm with an adaptive k value, which solves the problem of setting the superpixel k value and improves the accuracy of image segmentation. Finally, through the 2D and 3D integrated models, the disease is statistically analyzed and labeled on the 3D model. Experiments show that for painted plastic objects with complex surfaces, the disease extraction method based on the 3D fine model proposed in this paper has improved geometric accuracy compared with the current popular orthophoto extraction method, and the disease investigation is more comprehensive. Compared with the current 3D manual extraction method in commercial software, this method greatly improves the efficiency of disease extraction while ensuring extraction accuracy. The research method of this paper activates many existing 3D fine data of cultural protection units and converts conventional 2D data mining and analysis into 3D, which is more in line with the scientific utilization of data in terms of accuracy and efficiency and has certain scientific research value, leading value and practical significance.
Association mapping of important agronomic traits in Mucuna pruriens (L.) DC.
Authors: Lepcha Patrush , Shekhar Mahesh , Murugesan Leelambika , Jaheer Mahammad , Chopra Ratan , Belamkar Vikas , Sathyanarayana Narayana 
Published: August 2024

Abstract
Background
The tropical legume Mucuna pruriens (L.) DC. can meet three agricultural needs: low-cost protein, high-value medicines, and green manure or cover crops. But like other underutilized crops, it needs more modern breeding resources. Identifying marker-trait associations (MTAs) can facilitate marker-assisted breeding and crop improvement. Recent studies have demonstrated the feasibility of identifying MTAs using a small number of accessions (< 100). We have characterized a panel of 70 M. pruriens accessions across two consecutive years and performed association analysis for 16 phenotypic traits related to seed (seed length, seed width, seed thickness, seed yield per plant, hundred seed weight); pod (pod length, pod width, number of pods per cluster, number of pods per plant); inflorescence (inflorescence length, flower buds per inflorescence, flower length, pedicel length), and biochemical attributes (L-DOPA, total protein, total carbohydrate), using 66 genic-microsatellite markers following mixed linear model.

Results
The results showed significant phenotypic (P < 0.05) and genetic diversity (Shannon’s information index, I = 0.62) in our germplasm collection. Many tested traits were highly heritable (broad-sense heritability ranging from 42.86 to 99.93%). A total of 15 MTAs was detected at an adjusted significance level of P < 5.55 × 10− 3 for nine traits (seed length, seed thickness, seed width, hundred seed weight, seed yield per plant, inflorescence length, flower buds per inflorescence, flower length, and petiole length), contributed by 10 SSR markers (MPU_19, MPU_42, MPU_54, MPU_57, MPU_58, MPU_83, MPU_89, MPU_108, MPU_111, and MPU_122.) with phenotypic variance explained (PVE) ranging from 14.7 to 31.1%. Out of the ten trait-associated markers, the BLAST analysis revealed putative functions of seven markers, except MPU_57, MPU_58, and MPU_83.

Conclusion
Fifteen MTAs identified for important traits with phenotypic variance explained > 10% from mixed linear model offer a solid resource base for improving this crop. This is the first report on association mapping in M. pruriens and our results are expected to assist with marker-assisted breeding and identifying candidate genes in this promising legume.
The relationship between gadolinium enhancement and [18 F]fluorothymidine uptake in brain lesions with the use of hybrid PET/MRI
Authors: Rohan Tomáš , Hložanka Petr , Dostál Marek , Kopřivová Tereza , Macek Tomáš , Vybíhal Václav , Martin Hiroko Jeannette , Šprláková-Puková Andrea , Keřkovský Miloš 
Published: August 2024

Abstract
Background
To evaluate and compare the diagnostic power of [18F]FLT-PET with ceMRI in patients with brain tumours or other focal lesions.

Methods
121 patients with suspected brain tumour or those after brain tumour surgery were enroled in this retrospective study (61 females, 60 males, mean age 37.3 years, range 1–80 years). All patients underwent [18F]FLT-PET/MRI with gadolinium contrast agent application. In 118 of these patients, a final diagnosis was made, verified by histopathology or by follow-up. Agreement between ceMRI and [18F]FLT-PET of the whole study group was established. Further, sensitivity and specificity of ceMRI and [18F]FLT-PET were calculated for differentiation of high-grade vs. low-grade tumours, high-grade vs. low-grade tumours together with non-tumour lesions and for differentiation of high-grade tumours from all other verified lesions.

Results
[18F]FLT-PET and ceMRI findings were concordant in 119 cases (98%). On closer analysis of a subset of 64 patients with verified gliomas, the sensitivity and specificity of both PET and ceMRI were identical (90% and 84%, respectively) for differentiating low-grade from high-grade tumours, if the contrast enhancement and [18F]FLT uptake were considered as hallmarks of high-grade tumour. For differentiation of high-grade tumours from low-grade tumours and lesions of nontumorous aetiology (e.g., inflammatory lesions or post-therapeutic changes) in a subgroup of 93 patients by visual evaluation, the sensitivity of both PET and ceMRI was 90%, whereas the specificity of PET was slightly higher (61%) compared to ceMRI (57%). By receiver operating characteristic analysis, the sensitivity and specificity were 82% and 74%, respectively, when the threshold of SUVmax in the tumour was set to 0.9 g/ml.

Conclusion
We demonstrated a generally very high correlation of [18F]FLT accumulation with contrast enhancement visible on ceMRI and a comparable diagnostic yield in both modalities for differentiating high-grade tumours from low-grade tumours and lesions of other aetiology.
Practical and analytical considerations when performing interim analyses in diagnostic test accuracy studies
Authors: Fleming Susannah , Mwandigha Lazaro , Fanshawe Thomas R. 
Published: August 2024

AbstractInterim analysis is a common methodology in randomised clinical trials but has received less attention in studies of diagnostic test accuracy. In such studies, early termination for futility may be beneficial if early evidence indicates that a diagnostic test is unlikely to achieve a clinically useful level of diagnostic performance, as measured by the sensitivity and specificity. In this paper, we describe relevant practical and analytical considerations when planning and performing interim analysis in diagnostic accuracy studies, focusing on stopping rules for futility. We present an adaptation of the exact group sequential method for diagnostic testing, with R code provided for implementing this method in practice. The method is illustrated using two simulated data sets and data from a published diagnostic accuracy study for point-of-care testing for SARS-CoV-2. The considerations described in this paper can be used to guide decisions as to when an interim analysis in a diagnostic accuracy study is suitable and highlight areas for further methodological development.
Biomarkers of prostate bladder and testicular cancers: current use in anatomic pathology and future directions
Authors: Morini Mariana Andozia , Athanazio Daniel Abensur , Gallas Luiza Fadul , Mota José Maurício , Bezerra Stephania Martins , Lobo João , Froján María Belén Molina , Acosta Andres 
Published: August 2024

AbstractUrologic pathology is rapidly evolving to adopt growing knowledge of molecular pathways involved in genitourinary neoplasm. Many prognostic and predictive biomarkers are under active research and some of them have been incorporated in clinical practice. In this review, we will discuss recent developments of Molecular Pathology of prostate, bladder and testicular tumors with special emphasis on prognostic and predictive biomarkers.
A dual-base station constraint method to improve deformation monitoring precision consistency in strip regions
Authors: Hou Cheng , Shi Junbo , Ouyang Chenhao , Guo Jiming , Zou Jingui 
Published: August 2024

AbstractThe precision of deformation monitoring with Global Navigation Satellite System (GNSS) relative positioning is significantly influenced by the distance between the monitoring and base stations. In long strip regions, the considerable differences in station spacing lead to inconsistent monitoring precision among multiple stations. This presents a challenge to accurately model and predict the deformation pattern. To tackle this issue, this paper introduces a novel dual-base station constraint method. This method integrates the baseline length constraint between two base stations into the conventional relative positioning model. The formulae of the proposed method are first derived in detail. Then the data collected at eight monitoring stations in two strip regions of 6 km and 8 km over a 28-day period are used to validate the effectiveness of the proposed method. The quantitative analysis of monitoring precision consistency indicators and hypothesis testing on the correlation between monitoring precision and station spacing are conducted. The results show that: (1) median values of the East, North, and Up consistency indicators are reduced from 2.14, 1.41, and 1.83 to 0.91, 0.67, and 0.55 and from 1.85, 1.85, and 2.32 to 0.69, 1.00, and 0.87, respectively, indicating monitoring precision consistency improvement for two case studies; (2) the absolute values of the correlation coefficients between monitoring precision and station spacing decrease from 0.99, 0.94, and 0.98 to 0.09, 0.36, and 0.32. Using the t-test with a significant level of 0.01, it is demonstrated that there is no significant correlation between monitoring precision and station spacing when employing the proposed method.