bluuebunny/crossref_metadata_2025 huggingface dataset:
Single-cell RNA sequencing reveals different chondrocyte states in femoral cartilage between osteoarthritis and healthy individuals
Authors: Sun Zewen , Yan Mingyue , Wang Junjie , Zhang Haoyun , Ji Xiaobin , Xiao Yujing , Wang Tianrui , Yu Tengbo
Published: May 2024

Background

Cartilage injury is the main pathological manifestation of osteoarthritis (OA). Healthy chondrocyte is a prerequisite for cartilage regeneration and repair. Differences between healthy and OA chondrocyte types and the role these types play in cartilage regeneration and OA progression are unclear.

Method

This study conducted single-cell RNA sequencing (scRNA-seq) on the cartilage from normal distal femur of the knee (NC group) and OA femur (OA group) cartilage, the chondrocyte atlas was constructed, and the differences of cell subtypes between the two groups were compared. Pseudo-time and RNA velocity analysis were both performed to verify the possible differentiation sequence of cell subtypes. GO and KEGG pathway enrichment analysis were used to explore the potential functional characteristics of each cell subtype, and to predict the functional changes during cell differentiation. Differences in transcriptional regulation in subtypes were explored by single-cell regulatory network inference and clustering (SCENIC). The distribution of each cell subtype in cartilage tissue was identified by immunohistochemical staining (IHC).

Result

A total of 75,104 cells were included, they were divided into 19 clusters and annotated as 11 chondrocyte subtypes, including two new chondrocyte subtypes: METRNL+ and PRG4+ subtype. METRNL+ is in an early stage during chondrocyte differentiation, and RegC-B is in an intermediate state before chondrocyte dedifferentiation. With cell differentiation, cell subtypes shift from genetic expression to extracellular matrix adhesion and collagen remodeling, and signal pathways shift from HIF-1 to Hippo. The 11 subtypes were finally classified as intrinsic chondrocytes, effector chondrocytes, abnormally differentiated chondrocytes and dedifferentiated chondrocytes. IHC was used to verify the presence and distribution of each chondrocyte subtype.

Conclusion

This study screened two new chondrocyte subtypes, and a novel classification of each subtype was proposed. METRNL+ subtype is in an early stage during chondrocyte differentiation, and its transcriptomic characteristics and specific pathways provide a foundation for cartilage regeneration. EC-B, PRG4+ RegC-B, and FC are typical subtypes in the OA group, and the HippO-Taz pathway enriched by these cell subtypes may play a role in cartilage repair and OA progression. RegC-B is in the intermediate state before chondrocyte dedifferentiation, and its transcriptomic characteristics may provide a theoretical basis for intervening chondrocyte dedifferentiation.
Polyclonal but not monoclonal circulating memory CD4+ T cells attenuate the severity of Staphylococcus aureus bacteremia
Authors: Braverman Jessica , Monk Ian R. , Zhang Heran , Stinear Timothy P. , Wakim Linda M.
Published: May 2024

Staphylococcus aureus bacteremia causes significant morbidity and mortality. Treatment of staphylococcal infections is hindered by widespread antibiotic resistance, and attempts to develop an S. aureus vaccine have failed. Improved S. aureus treatment and infection prevention options require a deeper understanding of the correlates of protective immunity. CD4+ T cells have been identified as key orchestrators in the defense against S. aureus, but uncertainties persist regarding the subset, polarity, and breadth of the memory CD4+ T-cell pool required for protection. Here, using a mouse model of systemic S. aureus infection, we discovered that the breadth of bacterium-specific memory CD4+ T-cell pool is a critical factor for protective immunity against invasive S. aureus infections. Seeding mice with a monoclonal bacterium-specific circulating memory CD4+ T-cell population failed to protect against systemic S. aureus infection; however, the introduction of a polyclonal and polyfunctional memory CD4+ T-cell pool significantly reduced the bacterial burden. Our findings support the development of a multi-epitope T-cell-based S. aureus vaccine, as a strategy to mitigate the severity of S. aureus bacteremia.
IRX5’s influence on macrophage polarization and outcome in papillary thyroid cancer
Authors: Qin Lu , Chen Cheng , Gui Zhengwei , Jiang Yun
Published: May 2024

Background

With a rise in recent years, thyroid cancer (TC) is the most prevalent hormonal cancer worldwide. It is essential to investigate the inherent variability at the molecular level and the immune environment within tumors of various thyroid cancer subtypes in order to identify potential targets for therapy and provide precise treatment for patients with thyroid adenocarcinoma.

Methods

First, we analyzed the expression of IRX5 in pan-cancer and papillary thyroid carcinoma by bioinformatics methods and collected paired samples from our center for validation. Subsequently, we analyzed the significance of IRX5 on the prognosis and diagnosis of PTC. Next, we explored the possible mechanisms by which IRX5 affects the prognosis of thyroid cancer patients by GO/KEGG enrichment analysis, and further investigated the effect of IRX5 on immune infiltration of thyroid cancer. Ultimately, by conducting experiments on cells and animals, we were able to show how IRX5 impacts the aggressive characteristics of thyroid cancer cells and its influence on macrophages within the immune system of thyroid cancer.

Results

In 11 malignant tumors, including PTC, IRX5 is overexpressed and associated with a poor prognosis. IRX5 may affect the prognosis of PTC through embryonic organ development, ossification, mesenchyme development, etc. Increased IRX5 expression decreases the presence of cytotoxic and Th17 cells in papillary thyroid cancer. IRX5 was highly expressed in different PTC cell lines, such as K-1 and TPC-1. Silencing IRX5 effectively halted the growth and movement of PTC cells while also decreasing M2 polarization and enhancing M1 polarization in tumor-associated macrophages.

Conclusion

IRX5 could impact the outlook of individuals with PTC by stimulating the shift of macrophages to M2 in the immune surroundings of thyroid cancer growths, suggesting a potential new focus for treating thyroid cancer, particularly through immunotherapy.
Integrating GC-MS and comparative transcriptome analysis reveals that TsERF66 promotes the biosynthesis of caryophyllene in Toona sinensis tender leaves
Authors: Dai Jianhua , Wang Minyan , Yin Hengfu , Han Xiaojiao , Fan Yanru , Wei Yi , Lin Jie , Liu Jun
Published: May 2024

Introduction

The strong aromatic characteristics of the tender leaves of Toona sinensis determine their quality and economic value.

Methods and results

Here, GC-MS analysis revealed that caryophyllene is a key volatile compound in the tender leaves of two different T. sinensis varieties, however, the transcriptional mechanisms controlling its gene expression are unknown. Comparative transcriptome analysis revealed significant enrichment of terpenoid synthesis pathway genes, suggesting that the regulation of terpenoid synthesis-related gene expression is an important factor leading to differences in aroma between the two varieties. Further analysis of expression levels and genetic evolution revealed that TsTPS18 is a caryophyllene synthase, which was confirmed by transient overexpression in T. sinensis and Nicotiana benthamiana leaves. Furthermore, we screened an AP2/ERF transcriptional factor ERF-IX member, TsERF66, for the potential regulation of caryophyllene synthesis. The TsERF66 had a similar expression trend to that of TsTPS18 and was highly expressed in high-aroma varieties and tender leaves. Exogenous spraying of MeJA also induced the expression of TsERF66 and TsTPS18 and promoted the biosynthesis of caryophyllene. Transient overexpression of TsERF66 in T. sinensis significantly promoted TsTPS18 expression and caryophyllene biosynthesis.

Discussion

Our results showed that TsERF66 promoted the expression of TsTPS18 and the biosynthesis of caryophyllene in T. sinensis leaves, providing a strategy for improving the aroma of tender leaves.
Flexible wearable sensors for crop monitoring: a review
Authors: Yan Baoping , Zhang Fu , Wang Mengyao , Zhang Yakun , Fu Sanling
Published: May 2024

Crops were the main source of human food, which have met the increasingly diversified demand of consumers. Sensors were used to monitor crop phenotypes and environmental information in real time, which will provide a theoretical reference for optimizing crop growth environment, resisting biotic and abiotic stresses, and improve crop yield. Compared with non-contact monitoring methods such as optical imaging and remote sensing, wearable sensing technology had higher time and spatial resolution. However, the existing crop sensors were mainly rigid mechanical structures, which were easy to cause damage to crop organs, and there were still challenges in terms of accuracy and biosafety. Emerging flexible sensors had attracted wide attention in the field of crop phenotype monitoring due to their excellent mechanical properties and biocompatibility. The article introduced the key technologies involved in the preparation of flexible wearable sensors from the aspects of flexible preparation materials and advanced preparation processes. The monitoring function of flexible sensors in crop growth was highlighted, including the monitoring of crop nutrient, physiological, ecological and growth environment information. The monitoring principle, performance together with pros and cons of each sensor were analyzed. Furthermore, the future opportunities and challenges of flexible wearable devices in crop monitoring were discussed in detail from the aspects of new sensing theory, sensing materials, sensing structures, wireless power supply technology and agricultural sensor network, which will provide reference for smart agricultural management system based on crop flexible sensors, and realize efficient management of agricultural production and resources.
Whole transcriptome analysis revealed the regulatory network and related pathways of non-coding RNA regulating ovarian atrophy in broody hens
Authors: Xiong Hanlin , Li Wendong , Wang Lecong , Wang Xuchen , Tang Bincheng , Cui Zhifu , Liu Lingbin
Published: May 2024

Poultry broodiness can cause ovarian atresia, which has a detrimental impact on egg production. Non-coding RNAs (ncRNAs) have become one of the most talked-about topics in life sciences because of the increasing evidence of their novel biological roles in regulatory systems. However, the molecular mechanisms of ncRNAs functions and processes in chicken ovarian development remain largely unknown. Whole-transcriptome RNA sequencing of the ovaries of broodiness and laying chickens was thus performed to identify the ncRNA regulatory mechanisms associated with ovarian atresia in chickens. Subsequent analysis revealed that the ovaries of laying chickens and those with broodiness had 40 differentially expressed MicroRNA (miRNAs) (15 up-regulated and 25 down-regulated), 379 differentially expressed Long Noncoding RNA (lncRNAs) (213 up-regulated and 166 down-regulated), and 129 differentially expressed circular RNA (circRNAs) (63 up-regulated and 66 down-regulated). The competing endogenous RNAs (ceRNA) network analysis further revealed the involvement of ECM-receptor interaction, AGE-RAGE signaling pathway, focal adhesion, cytokine-cytokine receptor interaction, inflammatory mediator regulation of TRP channels, renin secretion, gap junction, insulin secretion, serotonergic synapse, and IL-17 signaling pathways in broodiness. Upon further analysis, it became evident that THBS1 and MYLK are significant candidate genes implicated in the regulation of broodiness. The expression of these genes is linked to miR-155-x, miR-211-z, miR-1682-z, gga-miR-155, and gga-miR-1682, as well as to the competitive binding of novel_circ_014674 and MSTRG.3306.4. The findings of this study reveal the existence of a regulatory link between non-coding RNAs and their competing mRNAs, which provide a better comprehension of the ncRNA function and processes in chicken ovarian development.
The Presence of Arbuscular Mycorrhizal Fungi in the Rhizosphere of Transgenic Rapeseed Overexpressing a Trichoderma Thkel1 Gene Improves Plant Development and Yield
Authors: Nicolás Carlos , Calvo-Polanco Mónica , Poveda Jorge , Alonso-Ramírez Ana , Ascaso Julio , Arbona Vicent , Hermosa Rosa
Published: May 2024

Most of the plants belonging to the family of Brassicaceae are non-hosts for arbuscular mycorrhizal fungi (AMF). These plants are known to produce glucosinolates (GSL), a group of allelopathic compounds, with a role in plant defense. The overexpression of the Thkel1 from Trichoderma harzianum in rapeseed (BnKel) plants, this gene encoding a protein that shares similarities with Brassicaceae plant’s nitrile-specifier and epithiospecifier proteins, modified GSL metabolism, reducing the accumulation of toxic isothiocyanates due to hydrolysis of these secondary metabolites. Here, we have analyzed the effect of AMF application on the GSL profiles and the development and yield of BnKel plants. Our results showed that the reduction of GSL compounds on transgenic plants was not enough to allow the formation of arbuscules and vesicles characteristics of an AMF mycorrhizal association. However, the inoculation of transgenic rapeseed plants expressing Thkel1 with AMF improved seed yield and fatty acid composition of the oilseed, showing a beneficial effect of AMF in these plants. The achievement of this effective beneficial association among mycorrhizas and rapeseed plants opens new opportunities in agribiotechnology for the use of AMF as biofertilizers in Brassicaceae crops with potential application in medical, animal and industrial biotechnology.
Recognition and Diagnosis of Underlying Disease Processes in Bacterial Pneumonia
Authors: Dear Jonathan D. , Hulsebosch Sean E. , Johnson Lynelle R.
Published: May 2024

Bacterial pneumonia can present in both dogs and cats as either acute or chronic disease, and clinical signs may suggest respiratory or systemic impairment. Aspiration pneumonia, a common form of disease, can be caused by esophageal or laryngeal disease, vomiting, or altered mentation, such as with CNS disease or general anesthesia. Bacterial pneumonia can also develop due to inhaled airway foreign bodies, reduced local immune function, or impaired clearance of respiratory secretions. Rapid identification of the etiology and associated risk factors for pneumonia can help veterinarians develop a targeted therapeutic plan and prevent recurrence of disease.
Factors Affecting Poultry Producers’ Attitudes towards Biosecurity
Authors: Amalraj Arthi , Van Meirhaeghe Hilde , Lefort Anne-Christine , Rousset Nathalie , Grillet Justine , Spaans Annick , Devesa Aitor , Sevilla-Navarro Sandra , Tilli Giuditta , Piccirillo Alessandra , Żbikowski Artur , Kovács László , Kovács-Weber Mária , Chantziaras Ilias , Dewulf Jeroen
Published: May 2024

Poultry producers’ attitudes towards biosecurity practices were assessed by using the ADKAR® (Awareness, Desire, Knowledge, Ability, and Reinforcement) behavioral change model. Conventional poultry producers (n = 155) from different production types including broilers (n = 35), layers (n = 22), breeders (n = 24), turkeys (n = 19), ducks (n = 23), free-range broilers (n = 11), free-range layers (n = 11), and hatcheries (n = 10) from seven European countries were scored for each ADKAR element (1 = total absence to 5 = perfect fulfilment). Each country performed selected interventions (e.g., coaching, participatory meetings, etc.) to improve biosecurity compliance. After the interventions, significant change was observed in three of the four attitude elements. The overall mean scores (x¯ ± SD) obtained during the initial assessment (n = 130) were 4.2 ± 0.6 for Awareness, 4.1 ± 0.7 for Desire, 3.8 ± 0.8 for Knowledge, and 4.0 ± 0.7 for Ability, whereas after intervention, the scores were A = 4.3 ± 0.6, D = 4.2 ± 0.7, K = 4.1 ± 0.7, and Ab = 4.1 ± 0.7. The Reinforcement component was only evaluated after the change and obtained a score of 3.7 ± 0.7 on average. Identifying the elements influencing poultry producers and their behavior related to farm management decisions was useful in guiding our educational interventions to effectively change their behavior.
Fatigue Damage Assessment of Turbine Runner Blades Considering Sediment Wear
Authors: Chen Haifeng , Pan Jun , Wang Shuo , Ma Jianfeng , Zhang Weiliang
Published: May 2024

The wear phenomenon that occurs on the blades during operation has a significant impact on the fatigue life of the blades. To address the issue of fatigue life assessment for turbine runner blades subjected to increased dynamic stress due to sediment wear, taking a specific high-head hydropower unit’s mixed-flow turbine as the research subject, a hydraulic model of the turbine was established. The wear zones of the runner blades are determined based on the distribution of the flow field’s velocity and the sediment volume fraction. According to the wear rate formula for runner blade material, the amount of wear on the blades is determined, and the dynamic stress data for the dangerous areas of the blades under different degrees of wear are calculated using a unidirectional fluid–structure coupling method. The load spectrum of the time–stress history data for the dangerous area at different levels of wear was compiled using the rain-flow counting statistical method. The operating time ratios for the flood season and the non-flood season are combined. Based on the fatigue cumulative damage theory, the total fatigue damage at the maximum stress part of the runner blade was calculated for different stages of wear, providing a reference for the life calculation of mixed-flow hydraulic turbines.
Finding Set Extreme 3-Uniform Hypergraphs Cardinality through Second-Order Signatures
Authors: Egorova Evgeniya , Leonov Vladislav , Mokryakov Aleksey , Tsurkov Vladimir
Published: May 2024

This paper continues the study of second-order signature properties—the characterization of the extreme 3-uniform hypergraph. Previously, bases were used to count extreme 3-uniform hypergraphs. However, the algorithm using this mechanism is extremely labor-intensive. The structure of the signature allows us to use it as a more efficient basis for the same problem. Here, we establish the nature of the mutual correspondence between the kind of second-order signature and extreme hypergraphs, and we present a new algorithm to find the power of the set of extreme 3-uniform hypergraphs through the set of their characteristic-signatures. New results obtained with the proposed tool are also presented.
Neuromorphic Sensor Based on Force-Sensing Resistors
Authors: Barleanu Alexandru , Hulea Mircea
Published: May 2024

This work introduces a neuromorphic sensor (NS) based on force-sensing resistors (FSR) and spiking neurons for robotic systems. The proposed sensor integrates the FSR in the schematic of the spiking neuron in order to make the sensor generate spikes with a frequency that depends on the applied force. The performance of the proposed sensor is evaluated in the control of a SMA-actuated robotic finger by monitoring the force during a steady state when the finger pushes on a tweezer. For comparison purposes, we performed a similar evaluation when the SNN received input from a widely used compression load cell (CLC). The results show that the proposed FSR-based neuromorphic sensor has very good sensitivity to low forces and the function between the spiking rate and the applied force is continuous, with good variation range. However, when compared to the CLC, the response of the NS follows a logarithmic-like function with improved sensitivity for small forces. In addition, the power consumption of NS is 128 µW that is 270 times lower than that of the CLC which needs 3.5 mW to operate. These characteristics make the neuromorphic sensor with FSR suitable for bioinspired control of humanoid robotics, representing a low-power and low-cost alternative to the widely used sensors.
Development of a New Method for Assessing Project Risks in Sustainable Building Construction Projects in Developing Countries: The Case of Jordan
Authors: Alawneh Rami , Jannoud Ismael , Rabayah Hesham , Asaad Samaher , Almasaeid Hatem , Imam Rana , Ghazali Farid Ezanee Mohamed
Published: May 2024

Sustainable buildings contribute significantly to achieving sustainable development and provide many benefits. However, sustainable building construction projects are riskier than traditional construction projects. Thus, this research aimed to identify and assess the risks in sustainable construction projects in Jordan based on their probabilities of occurrence and impacts on time and cost. For this purpose, a literature review and structured interviews were performed to identify the risks. Additionally, questionnaire surveys were conducted, and the relative relevance index and analytic hierarchy process were utilized to assess the probabilities and impacts of these risks on time and cost. After that, a focus group discussion was conducted. According to the the risks’ probability and impacts on time and cost, the top-scoring risks include changes to the original design, budgeting inaccuracies owing to a lack of experience with sustainable building projects, additional costs incurred as a result of the use of sustainable building construction materials and equipment, inadequate or inaccurate sustainable design information, insufficient funds from clients, inadequate project planning for a sustainable building project, a tight project schedule for a sustainable building project, and insufficient identification of sustainable construction’s scope. This research contributes to the body of knowledge and practice by providing a novel integrated method for assessing risks in sustainable building construction projects in Jordan.
A Single-Atom Au Catalyst Boosts High-Efficiency Electrochemical Seawater Oxidation
Authors: Sha Qihao , Shen Jian , Yang Guotao , Li Tianshui , Liu Wei , Kuang Yun , Sun Xiaoming
Published: May 2024

Alkaline seawater electrolysis has garnered significant attention as an efficient, green, and sustainable method for producing green hydrogen in recent years. However, the lack of highly active anodes in seawater electrolysis to prevent chloride oxidation reactions has limited its commercial application. In this study, Au single atoms were deposited on NiCoFeS through the electrochemical deposition method. The optimized catalyst exhibited significantly enhanced activity in seawater electrolyte; the Au@NiCoFeS catalyst achieved a current density of 10 mA/cm2 with only 183 mV and maintained its performance without degradation for 250 h at a current density of 200 mA/cm2, with no corrosion observed on either the catalyst or the substrate.
Adjusted Tumor Enhancement on Dual-Phase Cone-Beam CT: Predictor of Response and Overall Survival in Patients with Liver Malignancies Treated with Hepatic Artery Embolization
Authors: Yarmohammadi Hooman , Ridouani Fourat , Zhao Ken , Sotirchos Vlasios S. , Son Sam Y. , Geevarghese Ruben , Marinelli Brett , Ghosn Mario , Erinjeri Joseph P. , Boas Franz E. , Solomon Stephen B.
Published: May 2024

The aim of this study was to examine the value of tumor enhancement parameters on dual-phase cone-beam CT (CBCT) in predicting initial response, local progression-free survival (L-PFS) and overall survival (OS) following hepatic artery embolization (HAE). Between Feb 2016 and Feb 2023, 13 patients with 29 hepatic tumors treated with HAE were analyzed. Pre- and post-embolization, subtracted CBCTs were performed, and tumor enhancement parameters were measured, resulting in three parameters: pre-embolization Adjusted Tumor Enhancement (pre-ATE), post-embolization ATE and the difference between pre- and post-ATE (∆ATE). Treatment response was evaluated using the mRECIST criteria at 1 month. Tumors were grouped into complete response (CR) and non-complete response (non-CR) groups. To account for the effect of multiple lesions per patient, a cluster data analytic method was employed. The Kaplan–Meier method was utilized for survival analysis using the lesion with the lowest ∆ATE value in each patient. Seventeen (59%) tumors showed CR and twelve (41%) showed non-CR. Pre-ATE was 38.5 ± 10.6% in the CR group and 30.4 ± 11.0% in the non-CR group (p = 0.023). ∆ATE in the CR group was 39 ± 12 percentage points following embolization, compared with 29 ± 11 in the non-CR group (p = 0.009). Patients with ∆ATE > 33 had a median L-PFS of 13.1 months compared to 5.7 in patients with ∆ATE ≤ 33 (95% CI = 0.038–0.21) (HR, 95% CI = 0.45, 0.20–0.9, p = 0.04). Patients with ∆ATE ≤ 33 had a median OS of 19.7 months (95% CI = 3.77–19.8), while in the ∆ATE > 33 group, median OS was not reached (95% CI = 20.3-NA) (HR, 95% CI = 0.15, 0.018–1.38, p = 0.04). CBCT-derived ATE parameters can predict treatment response, L-PFS and OS following HAE.
Ultrasound-Assisted and Ultrasound-Guided Thoracentesis: An Educational Review
Authors: Boccatonda Andrea , Baldini Chiara , Rampoldi Davide , Romani Giacomo , Corvino Antonio , Cocco Giulio , D’Ardes Damiano , Catalano Orlando , Vetrugno Luigi , Schiavone Cosima , Piscaglia Fabio , Serra Carla
Published: May 2024

Thoracentesis is one of the most important invasive procedures in the clinical setting. Particularly, thoracentesis can be relevant in the evaluation of a new diagnosed pleural effusion, thus allowing for the collection of pleural fluid so that laboratory tests essential to establish a diagnosis can be performed. Furthermore, thoracentesis is a maneuver that can have therapeutic and palliative purposes. Historically, the procedure was performed based on a physical examination. In recent years, the role of ultrasound has been established as a valuable tool for assistance and guidance in the thoracentesis procedure. The use of ultrasound increases success rates and significantly reduces complications. The aim of this educational review is to provide a detailed and sequential examination of the procedure, focusing on the two main modalities, the ultrasound-assisted and ultrasound-guided form.
Tomato Sorting System Based on Machine Vision
Authors: Hou Lixin , Liu Zeye , You Jixuan , Liu Yandong , Xiang Jingxuan , Zhou Jing , Pan Yu
Published: May 2024

In the fresh tomato market, it is crucial to sort and sell tomatoes based on their quality. This is important to enhance the competitiveness and profitability of the market. However, the manual sorting process is subjective and inefficient. To address this issue, we have developed an automatic tomato sorting system that uses the Raspberry PI 4B as the control platform for the robot arm. This system has been integrated with a human–computer interaction interface sorting system. Our experimental results indicate that this sorting method has an accuracy rate of 99.1% and an efficiency of 1350 tomatoes per hour. This development is in line with modern agricultural mechanization and intelligence needs.
Multitask Learning for Concurrent Grading Diagnosis and Semi-Supervised Segmentation of Honeycomb Lung in CT Images
Authors: Dong Yunyun , Yang Bingqian , Feng Xiufang
Published: May 2024

Honeycomb lung is a radiological manifestation of various lung diseases, seriously threatening patients’ lives worldwide. In clinical practice, the precise localization of lesions and assessment of their severity are crucial. However, accurate segmentation and grading are challenging for physicians due to the heavy annotation burden and diversity of honeycomb lungs. In this paper, we propose a multitask learning architecture for semi-supervised segmentation and grading diagnosis to achieve automatic localization and assessment of lesions. To the best of our knowledge, this is the first method that integrates a grading diagnosis task into honeycomb lung semi-supervised segmentation. Firstly, we adapt cross-learning to capture local features and long-range dependencies from the CNN and transformer. Secondly, considering the diversity of honeycomb lung lesions, the shape-edge aware constraint is designed to assist the model in locating lesions. Then, in order to better understand the different levels of information in the images, we develop global contrast and local contrast learning to enhance the model’s learning of semantic-level and pixel-level features. Lastly, aiming to improve the diagnostic accuracy, we propose a gradient thresholding algorithm to integrate the segmentation predictions into the grading diagnosis network. The experiment’s results based on the in-house honeycomb lung dataset demonstrate the superiority of our method. Compared to other methods, our approach achieves a state-of-the-art performance. In particular, in external data testing, our predictions are consistent with physicians in the majority of cases. In addition, the segmentation results based on the public Kvasir-SEG dataset also indicate that our method has good generalization ability.
Mapping Hydrogen Initiatives in Italy: An Overview of Funding and Projects
Authors: Gandiglio Marta , Marocco Paolo
Published: May 2024

The global momentum towards hydrogen has led to various initiatives aimed at harnessing hydrogen’s potential. In particular, low-carbon hydrogen is recognized for its crucial role in reducing greenhouse gas emissions across hard-to-abate sectors such as steel, cement and heavy-duty transport. This study focuses on the presentation of all hydrogen-related financing initiatives in Italy, providing a comprehensive overview of the various activities and their geographical locations. The examined funding comes from the National Recovery and Resilience Plan (PNRR), from projects directly funded through the Important Projects of Common European Interest (IPCEI) and from several initiatives supported by private companies or other funding sources (hydrogen valleys). Specific calls for proposals within the PNRR initiative outline the allocation of funds, focusing on hydrogen production in brownfield areas (52 expected hydrogen production plants by 2026), hydrogen use in hard-to-abate sectors and the establishment of hydrogen refuelling stations for both road (48 refuelling stations by 2026) and railway transport (10 hydrogen-based railway lines). A detailed description of the funded initiatives (150 in total) is presented, encompassing their geographical location, typology and size (when available), as well as the funding they have received. This overview sheds light on regions prioritising decarbonisation efforts in heavy-duty transport, especially along cross-border commercial routes, as evident in northern Italy. Conversely, some regions concentrate more on local transport, typically buses, or on the industrial sector, primarily steel and chemical industries. Additionally, the study presents initiatives aimed at strengthening the national manufacturing capacity for hydrogen-related technologies, alongside new regulatory and incentive schemes for hydrogen. The ultimate goal of this analysis is to foster connections among existing and planned projects, stimulate new initiatives along the entire hydrogen value chain, raise an awareness of hydrogen among stakeholders and promote cooperation and international competitiveness.
Research on Sliding Mode Variable Structure Model Reference Adaptive System Speed Identification of Bearingless Induction Motor
Authors: Bu Wenshao , Tao Wenqing , Chen Youpeng
Published: May 2024

To improve the speed observation accuracy of the bearingless induction motor (BL-IM) and achieve its high-performance speed sensorless control, an improved sliding mode variable structure model reference adaptive system speed identification method based on sigmoid function (sigmoid-VS-MRAS) is proposed. Firstly, to overcome the problem of initial values and cumulative errors in the pure integration link of the reference flux-linkage voltage model, the rotor flux-linkage reference voltage model has been improved by using an equivalent integrator instead of the pure integration link. Then, in order to improve the rapidity and robustness of speed identification, the sliding mode variable structure adaptive law is adopted instead of the PI adaptive law. In addition, in order to optimize the sliding mode variable structure adaptive law and overcome the sliding mode chattering problem, a sigmoid function with smooth continuity characteristics is used instead of the sign function. Finally, on the basis of the inverse system decoupling control of a BL-IM, simulation experiments were conducted to verify the sigmoid-VS-MRAS speed identification method. The research results indicate that when the proposed speed identification method is adopted, not only higher identification accuracy and rapidity can be achieved than traditional PI-MRAS methods, but it can also eliminate the problem of high-frequency vibration (with an amplitude of about 3.0 r/min) when using the sign-VS-MRAS method; meanwhile, the steady-state tracking speed with zero deviation can still be maintained after loading.
Novel Fuzzy Logic Controls to Enhance Dynamic Frequency Control and Pitch Angle Regulation in Variable-Speed Wind Turbines
Authors: Phung Baolong Nguyen , Wu Yuan-Kang , Pham Manh-Hai
Published: May 2024

This study introduced a novel control approach based on fuzzy logic control (FLC) to enhance the frequency regulation capacity of variable-speed wind turbines (VSWTs). The proposed method integrates FLC within droop and inertia control loops. Real-time measurements of the system frequency and the rate of change of frequency (ROCOF) serve as inputs to the FLC, enabling the method to improve the frequency response by VSWTs. In addition, the method employs FLC for pitch angle frequency control, optimizing reserve power for frequency regulation under varying wind speed levels. The innovative aspect of this study lies in the simultaneous application of FLC to pitch angle frequency control and droop/inertia control, leading to the enhanced frequency regulation capability of VSWTs and smoother operation across a range of wind speeds. Compared with traditional methods, the proposed approach provides a comprehensive and effective solution to the challenges associated with frequency regulation in VSWTs. Through simulations across different wind speed scenarios, the proposed control method demonstrated the best performance among various mature methods, highlighting the efficacy of the proposed method on the frequency regulation of VSWTs under different wind speeds. This study’s findings highlight the potential of the proposed FLC-based method to optimize frequency regulation and contribute to more reliable and efficient wind energy systems.
Changes in the Composition of Olive Pomace after Fermentation: A Preliminary Study
Authors: Ferreira Diana Melo , Machado Susana , Espírito Santo Liliana , Costa Anabela S. G. , Ranga Floricuța , Chiș Maria Simona , Palmeira Josman D. , Oliveira Maria Beatriz P. P. , Alves Rita C. , Ferreira Helena
Published: May 2024

Because olive pomace (the main by-product of olive oil production) is phytotoxic, new applications must be investigated to minimize its negative environmental impact. In this work, olive pomace was fermented for 4 and 32 days at room temperature, having in view its valorization as a novel food, thereby creating opportunities for the food industry and addressing a challenge of the olive oil sector. The chemical and microbiological modifications that occurred along the fermentation were followed. The results showed no significant differences (p > 0.05) in total protein between the control and the fermented samples; however, the latter exhibited higher levels of essential amino acids. The major nonessential and essential amino acids were glutamic acid and leucine in all samples. There was a significant increase in the total fat of the 32-day sample and the main fatty acid was oleic acid in all samples. There were considerable reductions in total vitamin E, phenolics, and antioxidant activity values post-fermentation. Hydroxytyrosol replaced oleacein as the main phenolic in the 32-day sample. A sharp increase in total microorganisms occurred (2.20 × 102 to 3.00 × 104–2.01 × 107 colony forming units/mL) but no pathogenic microorganisms were detected. Overall, olive pomace fermentation creates novel products for the food industry with a balanced nutritional composition.
Sensory Attributes Driving Preference for Wild Rocket (Diplotaxis tenuifolia) Leaves Tasted as a Single Ingredient and as a Part of a Recipe
Authors: Raffo Antonio , Baiamonte Irene , De Nicola Gina Rosalinda , Melini Valentina , Moneta Elisabetta , Nardo Nicoletta , Peparaio Marina , Saggia Civitelli Eleonora , Sinesio Fiorella
Published: May 2024

Two cultivars of wild rocket (Diplotaxis tenuifolia), cv. Denver and Marte, were subjected to chemical determination of flavour-related constituents, sensory descriptive analysis, and measurement of liking by consumer test. Consumers evaluated rocket leaves both as a single ingredient and in a recipe formed by a roll of bresaola with also Grana Padano cheese. Sensory analyses showed that Marte was characterized by a more intense bitterness, hotness, and pungency, which corresponded to a higher total GSL content, mainly due to a higher level of dimeric 4-mercaptobutyl GSL. Five clusters of consumers were identified based on their liking scores. When tasting rocket leaves as a single ingredient, three clusters showed a higher liking for the milder cultivar, one cluster showed an opposite preference, while flavour attributes, such as bitterness and hotness, appeared as the main drivers of liking. Differences in liking were no longer found between the two cultivars when rocket leaves were evaluated in the recipe. Therefore, as rocket leaves are generally consumed as a part of a recipe with other ingredients instead of as a single ingredient, in the assessment of consumer preferences, it should not be neglected the influence of the way in which the product is consumed.
Development and Evaluation of Nutritional and Quality Standard of Beef Burger Supplemented with Pumpkin (Cucurbita moschata) Seed Flour
Authors: de Melo Flávia Alexsandra B. Rolim , Galvão Maria Brígida Fonseca , da Costa Antônio Félix , da Silva Carla Fabiana , Guerra Jenyffer Medeiros Campos , Stamford Thayza Christina Montenegro
Published: May 2024

The composition of pumpkin seeds includes bioactive compounds, proteins, polyunsaturated fatty acids, and dietary fibers. Thus, the objective of this research was to develop and evaluate the nutritional and quality standard of beef burgers supplemented with pumpkin seeds (Cucurbita moschata) added in different proportions. To process the pumpkin seed flour (PSF), the seeds were sanitized, dried in an oven, crushed, and sieved. Through such means, three formulations of beef burgers were prepared, named S (without the addition of PSF), F5 (with the addition of 5% (w/w) of PSF), and F10 (with the addition of 10% (w/w) of PSF). The respective results for burgers P, F5, and F10 were as follows (w/w): proteins 17.61%, 18.04%, 19.86%; lipids 12.19%, 12.42%, 14.55%; ash 1.77%, 1.86%, 1.94%; fibers 0%, 0.88%, 1.76%; phenolic compounds 39.55, 82.93, 90.30 (mg/g); and total antioxidant capacity 11.09%, 18.48%, 24.45%. Regarding the sensory analysis attributes, tasters gave sample F10 scores lower than 7. However, the standard and F5 samples showed results higher than 7 for all parameters. For the determination of shelf life, an expiration date of 30 days was established. It was observed that adding PSF to industrialized products adds nutritional value with the inclusion of polyunsaturated fats, phenolic compounds, and dietary fibers.
Viability and Diversity of the Microbial Cultures Available in Retail Kombucha Beverages in the USA
Authors: O’Sullivan Erin N. , O’Sullivan Daniel J.
Published: May 2024

Kombucha is a two-stage fermented sweetened tea beverage that uses yeast and lactic acid bacteria (LAB) to convert sugars into ethanol and lactate and acetic acid bacteria (AAB) to oxidize ethanol to acetate. Its popularity as a beverage grew from claims of health benefits derived from this vibrant microbial bioconversion. While recent studies have shed light on the diversity of cultures in Kombucha fermentation, there is limited information on the diversity, and especially viability, of cultures in retail beverages that advertise the presence of Kombucha and probiotic cultures. In this study, 12 Kombucha beverages produced by different manufacturers throughout the US were purchased and microbially characterized. Eight of the beverages contained viable Kombucha cultures, while 3 of the remaining 4 had viable Bacillus cultures as added probiotics. Amplicon profiling revealed that all contained Kombucha yeast and bacteria cells. The dominant yeasts detected were Lachancea cidri (10/12), Brettanomyces (9/12), Malassezia (6/12), and Saccharomyces (5/12). Dominant LAB included Liquorilactobacillus and Oenococcus oeni, and AAB were Komagataeibacter, Gluconobacter, and Acetobacter. One beverage had a significant amount of Zymomonas mobilis, an ethanol-producing bacterium from Agave cactus. While Kombucha beverages differ in the types and viability of cultures, all except one beverage contained detectable viable cells.
Genome-Wide Identification of the ARF Gene Family in Three Dendrobium Species and Its Expression Pattern Analysis in D. nobile Flower
Authors: Zhang Cuili , Lin Wenjun , Ke Shijie , Chen Deqiang , Wang Linying , Zheng Qinyao , Huang Ye , Liu Zhong-Jian , Yin Weilun , Lan Siren
Published: May 2024

The ARF gene family is a representative transcription factor that plays a crucial role in the regulation of various growth and development processes in plants. Although the ARF gene family has been identified in five Orchidaceae species, limited research has been conducted on the ARF gene within Dendrobium. To explore ARF family genes in different Dendrobium species, we selected chromosome-level genomic data from D. nobile, D. chrysotoxum, and D. huoshanense for genome-wide identification, and to analyze expression patterns in the D. nobile flower. In this study, 13, 18, and 23 ARF genes were identified in the genomes of D. chrysotoxum, D. huoshanense, and D. nobile, respectively. These genes were then subsequently classified into four classes (Classes I, II, III, and IV) based on our phylogenetic analysis. Additional protein sequence analysis found that 30 ARF proteins with three classically conserved structural domains (BDB, MR, and RD) were present in the three Dendrobium species. Our gene structure comparative analysis also found the same evolutionary branch with similar intron-exon structural features. Specifically, Class I and Class III display longer introns that potentially constitute a distinctive characteristic of Dendrobium. Gene expression patterns analysis showed the potential involvement of DnoARF 5, 7, 10, 11, 12, 13, 16, 17, and 23 in initial differentiation and flower bud formation. Likewise, transcriptomic analysis and RT-qPCR expression profiles indicated flower-specific expression patterns for four ARF genes (DnoARF5, DnoARF6, DnoARF16, and DnoARF22), which suggest an important impact on flower development and regulation. Ultimately, this study provides comprehensive data to elucidate the potential functions of ARF genes in three Dendrobium species and suggests new insights for further exploration concerning the function and regulatory mechanisms in Dendrobium during flower development.
Synthesis and Antioxidant Activity of N-Benzyl-2-[4-(aryl)-1H-1,2,3-triazol-1-yl]ethan-1-imine Oxides
Authors: Hadjipavlou-Litina Dimitra , Głowacka Iwona E. , Marco-Contelles José , Piotrowska Dorota G.
Published: May 2024

The synthesis, antioxidant capacity, and anti-inflammatory activity of four novel N-benzyl-2-[4-(aryl)-1H-1,2,3-triazol-1-yl]ethan-1-imine oxides 10a–d are reported herein. The nitrones 10a–d were tested for their antioxidant properties and their ability to inhibit soybean lipoxygenase (LOX). Four diverse antioxidant tests were used for in vitro antioxidant assays, namely, interaction with the stable free radical DPPH (1,1-diphenyl-2-picrylhydrazyl radical) as well as with the water-soluble azo compound AAPH (2,2′-azobis(2-amidinopropane) dihydrochloride), competition with DMSO for hydroxyl radicals, and the scavenging of cationic radical ABTS•+ (2,2′-azino-bis(3-ethylbenzothiazoline-6-sulfonate) radical cation). Nitrones 10b, 10c, and 10d, having the 4-fluorophenyl, 2,4-difluorophenyl, and 4-fluoro-3-methylphenyl motif, respectively, exhibited high interaction with DPPH (64.5–81% after 20 min; 79–96% after 60 min), whereas nitrone 10a with unfunctionalized phenyl group showed the lowest inhibitory potency (57% after 20 min, 78% after 60 min). Nitrones 10a and 10d, decorated with phenyl and 4-fluoro-3-methylphenyl motif, respectively, appeared the most potent inhibitors of lipid peroxidation. The results obtained from radical cation ABTS•+ were not significant, since all tested compounds 10a–d showed negligible activity (8–46%), much lower than Trolox (91%). Nitrone 10c, bearing the 2,4-difluorophenyl motif, was found to be the most potent LOX inhibitor (IC50 = 10 μM).
GNN Codon Adjacency Tunes Protein Translation
Authors: Sun Joyce , Hwang Pete , Sakkas Eric D. , Zhou Yancheng , Perez Luis , Dave Ishani , Kwon Jack B. , McMahon Audrey E. , Wichman Mia , Raval Mitsu , Scopino Kristen , Krizanc Daniel , Thayer Kelly M. , Weir Michael P.
Published: May 2024

The central dogma treats the ribosome as a molecular machine that reads one mRNA codon at a time as it adds each amino acid to its growing peptide chain. However, this and previous studies suggest that ribosomes actually perceive pairs of adjacent codons as they take three-nucleotide steps along the mRNA. We examined GNN codons, which we find are surprisingly overrepresented in eukaryote protein-coding open reading frames (ORFs), especially immediately after NNU codons. Ribosome profiling experiments in yeast revealed that ribosomes with NNU at their aminoacyl (A) site have particularly elevated densities when NNU is immediately followed (3′) by a GNN codon, indicating slower mRNA threading of the NNU codon from the ribosome’s A to peptidyl (P) sites. Moreover, if the assessment was limited to ribosomes that have only recently arrived at the next codon, by examining 21-nucleotide ribosome footprints (21-nt RFPs), elevated densities were observed for multiple codon classes when followed by GNN. This striking translation slowdown at adjacent 5′-NNN GNN codon pairs is likely mediated, in part, by the ribosome’s CAR surface, which acts as an extension of the A-site tRNA anticodon during ribosome translocation and interacts through hydrogen bonding and pi stacking with the GNN codon. The functional consequences of 5′-NNN GNN codon adjacency are expected to influence the evolution of protein coding sequences.