bluuebunny/crossref_metadata_2025_split huggingface dataset:
Quantifying agonistic interactions between group-housed animals to derive social hierarchies using computer vision: a case study with commercially group-housed rabbits
Authors: Ipek Nusret , Van Damme Liesbeth G. W. , Tuyttens Frank A. M. , Verwaeren Jan 
Published: August 2023

AbstractIn recent years, computer vision has contributed significantly to the study of farm animal behavior. In complex environments such as commercial farms, however, the automated detection of social behavior and specific interactions between animals can be improved. The present study addresses the automated detection of agonistic interactions between caged animals in a complex environment, relying solely on computer vision. An automated pipeline including group-level temporal action segmentation, object detection, object tracking and rule-based action classification for the detection of agonistic interactions was developed and extensively validated at a level unique in the field. Comparing with observations made by human observers, our pipeline reaches 77% precision and 85% recall using a 5-min tolerance interval for the detection of agonistic interactions. Results obtained using this pipeline allow to construct time-dependent socio-matrices of a group of animals and derive metrics on the dominance hierarchy in a semi-automated manner. Group-housed breeding rabbits (does) with their litters in commercial farms are the main use-case in this work, but the idea is probably also applicable to other social farm animals.
Optimal transfer learning based nutrient deficiency classification model in ridge gourd (Luffa acutangula)
Authors: Shadrach Finney Daniel , Kandasamy Gunavathi , Neelakandan S. , Lingaiah T. Bheema 
Published: August 2023

AbstractThe efficient detection of nutrient deficiency and proper fertilizer for that deficiency becomes the critical challenges various farmers face. The family Cucurbitaceae includes members cultivated globally as a source of indigenous medicines, food, and fiber. Luffa acutangula (L.) Roxb, generally called Ridge gourd, belongs to the Cucurbitaceae family and is an annual herb originating in several areas of India, particularly in the coastal regions. Nutrient deficiency detection in ridge gourd is essential to improve crop productivity. In agricultural practises, the early identification and categorization of nutrient deficiencies in crops is essential for sustaining optimal growth and production. Addressing these nutrient deficiencies, we applied the Ring Toss Game Optimization with a Deep Transfer Learning-based Nutrient Deficiency Classification (RTGODTL-NDC) to Ridge Gourd (Luffa acutangula). This research proposes a new ring toss game optimization with a deep transfer learning-based nutrient deficiency classification (RTGODTL-NDC) method. The RTGODTL-NDC technique uses pre-processing, segmentation, feature extraction, hyperparameter tuning, and classification. The Gabor filter (GF) is mainly used for image pre-processing, and the Adam optimizer with SqueezeNet model is utilized for feature extraction. Finally, the RTGO algorithm with the deep hybrid learning (HDL) model is applied to classify nutrient deficiencies. The suggested framework has the potential to improve crop management practises by allowing for proactive and targeted interventions, which will result in improved agricultural health, production, and resource utilisation. The outcomes represented by the RTGODTL-NDC method have resulted in improved performance. For example, based on accuracy and specificity, the RTGODTL-NDC methodology rendered maximum $$acc{u}_{y}$$

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of 97.16% and specificity of 98.29%. The outcomes show how effective the transfer learning-based model is in identifying nutrient deficits in ridge gourd plants, as seen by its high level of accuracy.
Improving quantitation accuracy in isobaric-labeling mass spectrometry experiments with spectral library searching and feature-based peptide-spectrum match filter
Authors: Kuo Tzu-Yun , Wang Jen-Hung , Huang Yung-Wen , Sung Ting-Yi , Chen Ching-Tai 
Published: August 2023

AbstractIsobaric labeling relative quantitation is one of the dominating proteomic quantitation technologies. Traditional quantitation pipelines for isobaric-labeled mass spectrometry data are based on sequence database searching. In this study, we present a novel quantitation pipeline that integrates sequence database searching, spectral library searching, and a feature-based peptide-spectrum-match (PSM) filter using various spectral features for filtering. The combined database and spectral library searching results in larger quantitation coverage, and the filter removes PSMs with larger quantitation errors, retaining those with higher quantitation accuracy. Quantitation results show that the proposed pipeline can improve the overall quantitation accuracy at the PSM and protein levels. To our knowledge, this is the first study that utilizes spectral library searching to improve isobaric labeling-based quantitation. For users to conveniently perform the proposed pipeline, we have implemented the feature-based filter being executable on both Windows and Linux platforms; its executable files, user manual, and sample data sets are freely available at https://ms.iis.sinica.edu.tw/comics/Software_FPF.html. Furthermore, with the developed filter, the proposed pipeline is fully compatible with the Trans-Proteomic Pipeline.
Effects of emotional content on social inhibition of gaze in live social and non-social situations
Authors: Pasqualette Laura , Kulke Louisa 
Published: August 2023

AbstractIn real-life interactions, it is crucial that humans adequately respond to others’ emotional expressions. Emotion perception so far has mainly been studied in highly controlled laboratory tasks. However, recent research suggests that attention and gaze behaviour significantly differ between watching a person on a controlled laboratory screen compared to in real world interactions. Therefore, the current study aimed to investigate effects of emotional expression on participants’ gaze in social and non-social situations. We compared looking behaviour towards a confederate showing positive, neutral or negative facial expressions between live social and non-social waiting room situations. Participants looked more often and longer to the confederate on the screen, than when physically present in the room. Expressions displayed by the confederate and individual traits (social anxiety and autistic traits) of participants did not reliably relate to gaze behaviour. Indications of covert attention also occurred more often and longer during the non-social, than during the social condition. Findings indicate that social norm is a strong factor modulating gaze behaviour in social contexts.Protocol registrationThe stage 1 protocol for this Registered Report was accepted in principle on September 13, 2021. The protocol, as accepted by the journal, can be found at:https://doi.org/10.6084/m9.figshare.16628290.
Effects of mixed application of avermectin, imidacloprid and carbendazim on soil degradation and toxicity toward earthworms
Authors: Liang Xiaoyu , Li Yufei , Zheng Zhao , Tian Fang , Du Yannan , Yang Ye , Wang Meng , Zhang Yu 
Published: August 2023

AbstractThe application of pesticides in mixtures often exerts multiple pressures on agricultural soils in the short term. Therefore, it is necessary to assess the effects of mixed application on the environmental behavior and ecotoxicity of pesticides in soil. In this study, we assessed the effects of three common pesticides through mixed application on soil degradation and toxicity toward the earthworm Eisenia fetida. Compared with the degradation half-lives (DT50) the single pesticide, the DT50 values of avermectin, imidacloprid and carbendazim in the binary mixtures were similar. However, their DT50 values in the ternary mixtures were approximately 1.5 times longer than those in the individual applications, enhancing their stable in soil after two or three applications. The ternary mixtures of the pesticides showed significantly synergistic toxicity toward E. fetida, while their binary mixtures exhibited a changing interaction throughout the entire effect level range. The ternary mixtures activated higher SOD and CAT activities in E. fetida than the individual treatments, confirming their synergistic effects. By conducting avoidance tests with E. fetida, ternary toxic interactions were effectively assessed within a relatively short testing period. In summary, the three pesticides in ternary mixtures exhibited longer degradation half-lives and synergistic toxicity toward earthworms compared to individual or binary mixtures.
Improving physio-mechanical and biological properties of 3D-printed PLA scaffolds via in-situ argon cold plasma treatment
Authors: Zarei Masoud , Sayedain Sayed Shahab , Askarinya Amirhossein , Sabbaghi Mobina , Alizadeh Reza 
Published: August 2023

AbstractAs a bone tissue engineering material, polylactic acid (PLA) has received significant attention and interest due to its ease of processing and biocompatibility. However, its insufficient mechanical properties and poor wettability are two major drawbacks that limit its extensive use. For this purpose, the present study uses in-situ cold argon plasma treatment coupled with a fused deposition modeling printer to enhance the physio-mechanical and biological behavior of 3D-printed PLA scaffolds. Following plasma treatment, field emission scanning electron microscopy images indicated that the surface of the modified scaffold became rough, and the interlayer bonding was enhanced. This resulted in an improvement in the tensile properties of samples printed in the X, Y, and Z directions, with the enhancement being more significant in the Z direction. Additionally, the root mean square value of PLA scaffolds increased (up to 70-fold) after plasma treatment. X-ray photoelectron spectroscopy analysis demonstrated that the plasma technique increased the intensity of oxygen-containing bonds, thereby reducing the water contact angle from 92.5° to 42.1°. The in-vitro degradation study also demonstrated that argon plasma treatment resulted in a 77% increase in PLA scaffold degradation rate. Furthermore, the modified scaffold improved the viability, attachment, and proliferation of human adipose-derived stem cells. These findings suggest that in-situ argon plasma treatment may be a facile and effective method for improving the properties of 3D-printed parts for bone tissue engineering and other applications.
Investigation of kinetics, isotherms, thermodynamics and photocatalytic regeneration of exfoliated graphitic carbon nitride/zeolite as dye adsorbent
Authors: Farhadi Hajar , Keramati Narjes 
Published: August 2023

AbstractA novel exfoliated graphitic carbon nitride and clinoptilolite nanocomposites (Ex.g-C3N4/CP and g-C3N4/CP with a various ratios of g-C3N4 to CP) were prepared by facile method. This study evaluates the adsorption of methylene blue (MB) on the surface of synthesized adsorbents. The as-prepared composites were characterized by XRD, FT-IR, FESEM, BET and DRS. Batch experiments were carried out under various conditions, such as the amount of adsorbent and solution pH. The optimum batch experimental conditions were found under the response surface methodology. The Ex.g-C3N4/CP presented maximum removal of MB as compared to others. The removal efficiency of the as-prepared nanocomposite was significantly elevated owing to the synergistic effects. The adsorption capacities of MB (10 ppm) on Ex.g-C3N4/CP was 54.3 mg/g. The adsorption process by both composites (g-C3N4/CP and Ex.g-C3N4/CP) showed well-fitting with the Elovich kinetic model, and Langmuir isotherm. The thermodynamic study suggested that the adsorption of MB was a spontaneous and endothermic process. The reusability of g-C3N4/CP1:2 and Ex. g-C3N4/CP in removing of MB (10 ppm, pH = 9) was studied by photocatalytic regeneration under visible irradiation for three consecutive cycles. The results obtained from the experimental analyses showed that the removal of MB was easy treatment, eco-friendly, and high yield.
Prophylactic use amphotericin B use in patients with hematologic disorders complicated by neutropenia: a systematic review and meta-analysis
Authors: Chen Zhaoyan , Feng Qiyi , Wang Xiaoxing , Tian Fangyuan 
Published: August 2023

AbstractThe purpose of this study is to evaluate the efficacy of prophylactic use amphotericin B in patients with hematologic disorders complicated by neutropenia. We searched the PubMed, EMBASE, The Cochrane Library, CBM, CNKI, VIP and WanFang Data database and the China Clinical Trials Registry (www.chictr.org.cn) to collect randomized controlled trials (RCTs) of amphotericin B for patients with hematologic disorders complicated by neutropenia from inception to May 2023. The Cochrane risk-of-bias tool for RCTs was used to assess the bias risk of the included studies. The meta-analysis was performed using RevMan 5.3 software. A total of 6 studies with a total of 1019 patients were included. The results of the meta-analysis showed that the treatment group was superior to the control group in terms of the fungal infection rate, and the differences were statistically significant [RR = 0.47, 95% CI (0.32, 0.69), P < 0.0001]. There was no significant difference between the two groups in terms of the mortality [RR = 0.87, 95% CI (0.61, 1.23), P = 0.43] and the incidence of colonization [OR = 0.51, 95% CI (0.25, 1.03), P = 0.06]. The evidence shows that amphotericin B prophylactic use for patients with hematologic disorders complicated by neutropenia can decrease the fungal infection rate. However, there was no significant difference in reducing mortality or the incidence of colonization. Due to the limited quality and quantity of the included studies, more high-quality studies are needed to verify the above conclusion.
Switching from high-fat diet to normal diet ameliorate BTB integrity and improve fertility potential in obese male mice
Authors: Zhang Wenjing , Tian Zhenhua , Qi Xiangyu , Chen Pengcheng , Yang Qian , Guan Qingbo , Ye Jifeng , Yu Chunxiao 
Published: August 2023

AbstractObesity is a prominent risk factor for male infertility, and a high-fat diet is an important cause of obesity. Therefore, diet control can reduce body weight and regulate blood glucose and lipids, but it remains unclear whether it can improve male fertility and its mechanism. This study explores the effects of switching from a high-fat diet (HFD) to a normal diet (ND) on the fertility potential of obese male mice and its related mechanisms. In our study, male mice were separated into three groups: normal diet group (NN), continuous high-fat diet group (HH), and return to normal diet group (HN). The reproductive potential of mice was tested through cohabitation. Enzymatic methods and ELISA assays were used to measure metabolic indicators, follicle-stimulating hormone (FSH) levels and intratesticular testosterone levels. Transmission electron microscopy and immunofluorescence with biotin tracers assessed the integrity of the blood-testis barrier (BTB). Malondialdehyde (MDA), superoxide dismutase (SOD), and reactive oxygen species (ROS) were inspected for the assessment of oxidative stress. The expression and localization of BTB-related proteins were detected through the immunoblot and immunofluorescence. The mice in the high-fat diet group indicated increased body weight and epididymal fat weight, elevated serum TC, HDL, LDL, and glucose, decreased serum FSH, and dramatic lipid deposition in the testicular interstitium. Analysis of fertility potential revealed that the fertility rate of female mice and the number of pups per litter in the HH group were significantly reduced. After the fat intake was controlled by switching to a normal diet, body weight and epididymal fat weight were significantly reduced, serum glucose and lipid levels were lowered, serum FSH level was elevated and the deposition of interstitial lipids in the testicles was also decreased. Most significantly, the number of offspring of male mice returning to a normal diet was significantly increased. Following further mechanistic analysis, the mice in the sustained high-fat diet group had disrupted testicular BTB integrity, elevated levels of oxidative stress, and abnormal expression of BTB-related proteins, whereas the restoration of the normal diet significantly ameliorated the above indicators in the mice. Our study confirms diet control by switching from a high-fat diet to a normal diet can effectively reduce body weight, ameliorate testicular lipotoxicity and BTB integrity in male mice, and improve fertility potential, providing an effective treatment option for obese male infertility.
Regulation and function of adiponectin in the intestinal epithelial cells in response to Trichinella spiralis infection
Authors: Jeerawattanawart Siranart , Hansakon Adithap , Roytrakul Sittiruk , Angkasekwinai Pornpimon 
Published: August 2023

AbstractBesides metabolic homeostasis regulation, adipokines are recently emerged as important players in regulating immunity and inflammation. Helminth infection has known to modulate circulating adipokine secretion; however, the regulation and function of adipokines in response to helminth infection is still unclear. Here, we investigated the regulation and function of adiponectin during T. spiralis infection. While there was no change in circulating level of adiponectin, we found an increased adiponectin, but not leptin expression in the small intestine. Interestingly, the intestinal adiponectin expression was strongly associated with the expression of epithelial cell-derived cytokines IL-25, IL-33, and TSLP following infection. Indeed, mice deficiency of IL-25 receptor exhibited no intestinal adiponectin induction upon helminth infection. Interestingly, IL-25-induced adiponectin modulated intestinal epithelial cell responses by enhancing occludin and CCL17 expression. Using LPS-induced intestinal epithelial barrier dysfunctions in a Caco-2 cell monolayer model, adiponectin pretreatment enhanced a Transepithelial electrical resistance (TEER) and occludin expression. More importantly, adiponectin pretreatment of Caco2 cells prevented T. spiralis larval invasion in vitro and its administration during infection enhanced intestinal IL-13 secretion and worm expulsion in vivo. Altogether, our data suggest that intestinal adiponectin expression induced by helminth infection through the regulation of IL-25 promotes worm clearance and intestinal barrier function.
A cell-based assay for rapid assessment of ACE2 catalytic function
Authors: Meyers Warren M. , Hong Ryan J. , Sin Wun Chey , Kim Christine S. , Haas Kurt 
Published: August 2023

AbstractAngiotensin-converting enzyme II (ACE2) is a monocarboxypeptidase expressed throughout multiple tissues and its catalysis of bioactive peptides regulates the renin-angiotensin system mediating blood pressure homeostasis. ACE2 is implicated in a variety of diseases, including obesity, diabetes, and cardiovascular diseases, and is the obligate entry receptor for SARS-CoV-2 infection. Disease-associated genetic variants of ACE2 are increasingly being identified but are poorly characterized. To aid this problem, we introduce a fluorometric cell-based assay for evaluating surface-expressed ACE2 catalytic activity that preserves the native glycosylation of the host environment and is amenable to high-throughput analysis of ACE2 variants in multi-well plates. We demonstrate sensitivity to detecting catalysis of the key ACE2 substrates, Angiotensin II, Apelin-13, and des-Arg9-bradykinin, and impact of a catalytically-deficient ACE2 variant. Normalizing catalytic measures to surface ACE2 expression accounts for variability in ACE2 variant transfection, surface delivery or stability. This assay provides a convenient and powerful approach for investigating the catalytic characteristics of ACE2 variants involved in cardiovascular peptide cascades and homeostasis of multiple organs.
Antibody response in elderly vaccinated four times with an mRNA anti-COVID-19 vaccine
Authors: Rouvinski Alexander , Friedman Ahuva , Kirillov Saveliy , Attal Jordan Hannink , Kumari Sujata , Fahoum Jamal , Wiener Reuven , Magen Sophie , Plotkin Yevgeni , Chemtob Daniel , Bercovier Herve 
Published: August 2023

AbstractThe humoral response after the fourth dose of a mRNA vaccine against COVID-19 has not been adequately described in elderly recipients, particularly those not exposed previously to SARS-CoV-2. Serum anti-RBD IgG levels (Abbott SARS-CoV-2 IgG II Quant assay) and neutralizing capacities (spike SARS-CoV-2 pseudovirus Wuhan and Omicron BA.1 variant) were measured after the third and fourth doses of a COVID-19 mRNA vaccine among 46 elderly residents (median age 85 years [IQR 81; 89]) of an assisted living facility. Among participants never infected by SARS-CoV-2, the mean serum IgG levels against RBD (2025 BAU/ml), 99 days after the fourth vaccine, was as high as 76 days after the third vaccine (1987 BAU/ml), and significantly higher (p = 0.030) when the latter were corrected for elapsed time. Neutralizing antibody levels against the historical Wuhan strain were significantly higher (Mean 1046 vs 1573; p = 0.002) and broader (against Omicron) (Mean 170 vs 375; p = 0.018), following the fourth vaccine. The six individuals with an Omicron breakthrough infection mounted strong immune responses for anti-RBD and neutralizing antibodies against the Omicron variant indicating that the fourth vaccine dose did not prevent a specific adaptation of the immune response. These findings point out the value of continued vaccine boosting in the elderly population
Pannexin 1 targets mitophagy to mediate renal ischemia/reperfusion injury
Authors: Su Lianjiu , Zhang Jiahao , Wang Jing , Wang Xiaozhan , Cao Edward , Yang Chen , Sun Qihao , Sivakumar Ramadoss , Peng Zhiyong 
Published: August 2023

AbstractRenal ischemia/reperfusion (I/R) injury contributes to the development of acute kidney injury (AKI). Kidney is the second organ rich in mitochondrial content next to the heart. Mitochondrial damage substantially contributes for AKI development. Mitophagy eliminates damaged mitochondria from the cells to maintain a healthy mitochondrial population, which plays an important role in AKI. Pannexin 1 (PANX1) channel transmembrane proteins are known to drive inflammation and release of adenosine triphosphate (ATP) during I/R injury. However, the specific role of PANX1 on mitophagy regulation in renal I/R injury remains elusive. In this study, we find that serum level of PANX1 is elevated in patients who developed AKI after cardiac surgery, and the level of PANX1 is positively correlated with serum creatinine and urea nitrogen levels. Using the mouse model of renal I/R injury in vivo and cell-based hypoxia/reoxygenation (H/R) model in vitro, we prove that genetic deletion of PANX1 mitigate the kidney tubular cell death, oxidative stress and mitochondrial damage after I/R injury through enhanced mitophagy. Mechanistically, PANX1 disrupts mitophagy by influencing ATP-P2Y-mTOR signal pathway. These observations provide evidence that PANX1 could be a potential biomarker for AKI and a therapeutic target to alleviate AKI caused by I/R injury.