bluuebunny/crossref_metadata_2025 huggingface dataset:
Multiomic analysis of HER2-enriched and AR-positive breast carcinoma with apocrine differentiation and an oligometastatic course: a case report
Authors: Poggiali Brando , Ponzetti Agostino , Malerba Marica , Landuzzi Fabio , Furia Federica , Charrance Debora , Trova Sara , Perseghin Vittoria , Falcone Patrizia A. , Alliod Valentina , Malossi Alessandra , Carassai Pierpaolo , Familiari Ubaldo , Vecchi Manuela , Gustincich Stefano , Schena Marina , Cavalli Andrea , Coppe Alessandro
Published: July 2023

Breast carcinoma is the most prevalent cancer among women globally. It has variable clinical courses depending on the stage and clinical-biological features. This case report describes a 56-year-old female with invasive breast cancer without estrogen or progesterone receptor expression, with apocrine differentiation, and with no germline variants in the BRCA1 and BRCA2 genes. Throughout the clinical course, the patient exhibited discordant results for HER2 in immunohistochemistry and in situ hybridization. During the second relapse, the disease displayed apocrine microscopic features. The tumor underwent analysis for the androgen receptor, GCDFP-15, RNA-seq, and whole-genome sequencing (WGS) to identify the breast cancer subtype and to characterize the cancer genome. Our bioinformatic analysis revealed 20,323 somatic SNV/Indels, including five mutations in cancer-related genes that are believed to be responsible for the tumor’s development. Two of these mutations were found in the PIK3CA and TP53 genes. Furthermore, the tumor tissue exhibited large copy number alterations to the chromosomes, which could impact gene expression through complex mechanisms and contribute to the tumor phenotype. Clustering algorithms applied on RNA-sequencing data categorized this cancer as a HER2+ subtype. The second-line capecitabine chemotherapy treatment is ongoing, and the patient is responding well. Bioinformatic results support the current treatment decision and open the way to further treatments.
Case report: Unilateral pulmonary artery agenesis and Kommerell's diverticulum in 1-year old girl
Authors: Miseviciene Valdone , Liakaite Gintare , Zaveckiene Jurgita , Snipaitiene Ausra
Published: July 2023

Background

Unilateral pulmonary artery agenesis (UPAA) and Kommerell's diverticulum (KD) are two rare embryologically unrelated congenital vascular malformations rarely diagnosed in children. This is the first report of our knowledge of the unique combination for a child as patients are at a high risk of pulmonary hypertension and rupture of the diverticulum. Our aim is to present the case of a pediatric patient with UPAA and KD with the short literature review and to highlight the importance of early diagnostics of rare congenital vascular malformations.

Case report

A 1-year-old girl presented to the emergency department with prolonged cough and variable wheezing. A hypoplastic left lung was suspected in the radiographic image of the chest. A transthoracic echocardiogram revealed absence of the left pulmonary artery and right arch of aorta and anomaly of subclavian arteries was suspected. The diagnosis was confirmed by computed tomography scans of the chest that demonstrated elongation of the aorta and an aberrant right subclavian artery with KD, as well as absence of the left pulmonary artery. The patient is being followed up for the development of pulmonary hypertension and compression of vascular structures to the airways as well as any indications for surgical intervention because of the KD.

Conclusions

UPAA and KD are two very rare congenital vascular anomalies usually diagnosed in adults. A high risk of pulmonary hypertension and rupture of diverticulum is noted for adult patients. This case provides us with an exclusive possibility to follow up a patient with an extremely rare combination of the two vascular anomalies with insufficiently known future complications and outcomes.
Calebin A targets the HIF-1α/NF-κB pathway to suppress colorectal cancer cell migration
Authors: Brockmueller Aranka , Girisa Sosmitha , Motallebi Mahzad , Kunnumakkara Ajaikumar B. , Shakibaei Mehdi
Published: July 2023

Background: Hypoxia-inducible factor-1α (HIF-1α) is one of the major tumor-associated transcription factors modulating numerous tumor properties such as tumor cell metabolism, survival, proliferation, angiogenesis, and metastasis. Calebin A (CA), a compound derived from turmeric, is known for its anti-cancer activity through modulation of the NF-κB pathway. However, its impact on HIF-1α in colorectal cancer (CRC) cell migration is unknown.

Methods: Human CRC cells (HCT-116) in 3D alginate and monolayer multicellular TME (fibroblasts/T lymphocytes) were subjected to CA or the HIF-1α inhibitor to explore the efficacy of CA on TME-induced inflammation, migration, and tumor malignancy.

Results: CA significantly inhibited TME-promoted proliferation and migration of HCT-116 cells, similar to the HIF-1α inhibitor. Colony formation, toluidine blue staining, and immunolabeling showed that CA inhibited the migration of HCT-116 cells partly by inhibiting HIF-1α, which is critical for CRC cell viability, and these observations were confirmed by electron microscopy. In addition, Western blot analysis confirmed that CA inhibited TME-initiated expression of HIF-1α and biomarkers of metastatic factors (such as NF-κB, β1-integrin, and VEGF), and promoted apoptosis (caspase-3), in a manner comparable to the HIF-1α inhibitor. Finally, TME induced a purposeful pairing between HIF-1α and NF-κB, suggesting that the synergistic interplay between the two tumor-associated transcription factors is essential for CRC cell malignancy and migration and that CA silences these factors in tandem.

Conclusion: These results shed light on a novel regulatory modulation of CA signaling in CRC cell migration, partially via HIF-1α/NF-κB with potentially relevant implications for cancer therapy.
Dynamic changes occur in the cell wall composition and related enzyme activities during flower development in Rosa damascena
Authors: Önder Sercan , Tonguç Muhammet , Önder Damla , Erbaş Sabri , Mutlucan Murat
Published: July 2023

The flowering period of oil-bearing rose is short and many physiological processes occur during flower development. Changes in the cell wall composition and associated enzyme activities are important as they allow cells to divide, differentiate and grow. In the present study, changes in seven cell wall components and six cell wall-related enzyme activities at five flower development stages were investigated and the relationships between these parameters and flowering were examined. Ash content did not change between stages I to II but decreased at later stages. Neutral detergent fiber (NDF), acid detergent fiber (ADF) and hemicellulose contents increased after stage I but did not change significantly at the other developmental periods. Total pectin content increased throughout flower development. An “increase–decrease” trend was observed in total cellulose content and a “decrease–increase” pattern in uronic acid content. The activities of both glycosidases (β-galactosidase, β-glucosidase and endoglucanase) and pectinases (pectin lyase, pectin methyl esterase and polygalacturonase) increased until stage IV and decreased significantly at stage V of flower development. Correlation analysis revealed 14 positive and one negative correlation with the studied parameters. Cell wall enzymes showed positive correlations with each other. Principal component analysis (PCA) showed that ADF, NDF and cellulose content were significantly altered at stage II of flower development, and significant changes occurred in all cell wall enzyme activities between stages III and V. Overall, blooming is correlated closely with increased pectin and decreased cellulose contents, and changes in cell wall glucosidase and pectin hydrolysis enzyme activities. These results show that cell wall modifying enzymes are part of the flower development process in oil-bearing rose. Therefore, remodeling of cell wall components in petals is a process of flower development.
Comparative sequence analysis of pPATH pathogenicity plasmids in Pantoea agglomerans gall-forming bacteria
Authors: Geraffi Naama , Gupta Priya , Wagner Naama , Barash Isaac , Pupko Tal , Sessa Guido
Published: July 2023

Acquisition of the pathogenicity plasmid pPATH that encodes a type III secretion system (T3SS) and effectors (T3Es) has likely led to the transition of a non-pathogenic bacterium into the tumorigenic pathogenPantoea agglomerans.P. agglomeranspv.gypsophilae(Pag) forms galls on gypsophila (Gypsophila paniculata) and triggers immunity on sugar beet (Beta vulgaris), whileP. agglomeranspv.betae(Pab) causes galls on both gypsophila and sugar beet. Draft sequences of thePagandPabgenomes were previously generated using the MiSeq Illumina technology and used to determine partial T3E inventories ofPabandPag. Here, we fully assembled thePabandPaggenomes following sequencing with PacBio technology and carried out a comparative sequence analysis of thePabandPagpathogenicity plasmids pPATHpagand pPATHpab. Assembly ofPabandPaggenomes revealed a ~4 Mbp chromosome with a 55% GC content, and three and four plasmids inPabandPag, respectively. pPATHpagand pPATHpabshare 97% identity within a 74% coverage, and a similar GC content (51%); they are ~156 kb and ~131 kb in size and consist of 198 and 155 coding sequences (CDSs), respectively. In both plasmids, we confirmed the presence of highly similar gene clusters encoding a T3SS, as well as auxin and cytokinins biosynthetic enzymes. Three putative novel T3Es were identified inPaband one inPag. Among T3SS-associated proteins encoded byPagandPab, we identified two novel chaperons of the ShcV and CesT families that are present in both pathovars with high similarity. We also identified insertion sequences (ISs) and transposons (Tns) that may have contributed to the evolution of the two pathovars. These include seven shared IS elements, and three ISs and two transposons unique toPab. Finally, comparative sequence analysis revealed plasmid regions and CDSs that are present only in pPATHpabor in pPATHpag. The high similarity and common features of the pPATH plasmids support the hypothesis that the two strains recently evolved into host-specific pathogens.
Teachers' approaches to music performance anxiety management: a systematic review
Authors: Mazzarolo Isabella , Burwell Kim , Schubert Emery
Published: July 2023

Performance anxiety is a widespread issue that can affect musicians across their education and career. It can develop in musicians from a young age leading to short-term and long-term impacts on not only their performance, but also their wellbeing. There is potentially a significant role that music educators hold in the development of their students and how they handle performance anxiety, though it is not clear how, or how often, teachers support their students in this way. Through a PRISMA-based systematic review, this paper explores what is known about the strategies used by music educators to help manage their students' performance anxiety. The paper also discusses the role that instrumental/vocal tutors and school classroom teachers might hold in this area. The findings show that music educators are implementing multiple strategies to assist their students with MPA, with the most common being simulated performance, positive outlook, preparation and breathing. It was found that there is a role for teachers to address MPA management with their students. While some students prefer to receive MPA support from experts in the field of psychology, students still expressed a need to have this support come from their teacher. Though many teachers felt a need for additional training for them to help their students cope with MPA, many of the strategies were found to be multifunctional and embedded into the regular teaching practices or teaching styles of the educator. Although these strategies might be implicit rather than explicit, the findings suggest that music educators could represent a valuable source of support for MPA management.
Physical activity maintenance and increase in Chinese children and adolescents: the role of intrinsic motivation and parental support
Authors: Liu Yujie , Ge Xin , Li Huilun , Zhang Erliang , Hu Fan , Cai Yong , Xiang Mi
Published: July 2023

Objective

This longitudinal study aimed to examine the association of intrinsic motivation, parental physical activity, and parental support with physical activity maintenance and increase among children and adolescents.

Methods

A sample of 2,424 children and adolescents in Shanghai, China participated in the two-wave survey before and during the COVID-19 pandemic. The questionnaire measured children and adolescents’ physical activity and intrinsic motivation, as well as their parental physical activity and support (concern for their child and co-activity with their child). Multivariable logistic regressions were performed by groups to examine the associations between these factors and physical activity change.

Results

Most children and adolescents exhibited a decline in physical activity participation during the pandemic, as indicated by a mere 15.0 and 8.0% of individuals maintaining and increasing their pre-pandemic levels, respectively. Among the initially active participants, perceived self-choice [OR = 1.341 (95%CI: 1.173–1.533)] and parental concern [OR = 1.922 (95%CI: 1.204–3.068)] predicted maintained physical activity. Increased physical activity was predicted by perceived enjoyment [OR = 1.193 (95%CI: 1.046–1.362)] and parental co-activity (OR = 1.995 [95%CI: 1.095–3.633]).

Conclusion

This study provides longitudinal evidence that intrinsic motivation and parental support can have a positive impact when physical activity levels change significantly. Effective interventions targeting multilevel factors are needed to maintain or increase children and adolescents’ physical activity.
Discrimination and intimate partner violence among a sample of bisexual and gay men in the United States: a cross-sectional study
Authors: Rustagi Khyati , JadKarim Luzan , Birk Nick , Tran Alvin
Published: July 2023

Purpose

Intimate partner violence (IPV) is becoming more recognized as a public health concern among sexual minority men, including bisexual and gay men. Guided by the Minority Stress Model, we assessed the relationship between perceived discrimination and three forms of IPV among a sample of bisexual and gay men living in the United States.

Methods

We analyzed data as part of the Men’s Body Project, a cross-sectional study launched in 2020 to assess health behaviors of bisexual and gay men.

Results

A total of 549 individuals participated in the survey, of which 52% were gay and 48% were bisexual men. Perceived discrimination was significantly associated with elevated odds ratios ranging from 1.15 to 1.18 across three forms of IPV, with Physical IPV odds ratio being highest.

Conclusion

Given the significant association between perceived discrimination and IPV, interventions aimed at addressing IPV experiences among sexual minority men must consider the role of minority stress.
Diaphragm pacing and independent breathing in individuals with severe Pompe disease
Authors: Liberati Cristina , Byrne Barry J. , Fuller David D. , Croft Chasen , Pitts Teresa , Ehrbar Jessica , Leon-Astudillo Carmen , Smith Barbara K.
Published: July 2023

Introduction

Pompe disease is an inherited disease characterized by a deficit in acid-α-glucosidase (GAA), an enzyme which degrades lysosomal glycogen. The phrenic-diaphragm motor system is affected preferentially, and respiratory failure often occurs despite GAA enzyme replacement therapy. We hypothesized that the continued use of diaphragm pacing (DP) might improve ventilator-dependent subjects' respiratory outcomes and increase ventilator-free time tolerance.

Methods

Six patients (3 pediatric) underwent clinical DP implantation and started diaphragm conditioning, which involved progressively longer periods of daily, low intensity stimulation. Longitudinal respiratory breathing pattern, diaphragm electromyography, and pulmonary function tests were completed when possible, to assess feasibility of use, as well as diaphragm and ventilatory responses to conditioning.

Results

All subjects were eventually able to undergo full-time conditioning via DP and increase their maximal tolerated time off-ventilator, when compared to pre-implant function. Over time, 3 of 6 subjects also demonstrated increased or stable minute ventilation throughout the day, without positive-pressure ventilation assistance.

Discussion

Respiratory insufficiency is one of the main causes of death in patients with Pompe disease. Our results indicate that DP in Pompe disease was feasible, led to few adverse events and stabilized breathing for up to 7 years.
Hand interaction designs in mixed and augmented reality head mounted display: a scoping review and classification
Authors: Nguyen Richard , Gouin-Vallerand Charles , Amiri Maryam
Published: July 2023

Mixed reality has made its first step towards democratization in 2017 with the launch of a first generation of commercial devices. As a new medium, one of the challenges is to develop interactions using its endowed spatial awareness and body tracking. More specifically, at the crossroad between artificial intelligence and human-computer interaction, the goal is to go beyond the Window, Icon, Menu, Pointer (WIMP) paradigm humans are mainly using on desktop computer. Hand interactions either as a standalone modality or as a component of a multimodal modality are one of the most popular and supported techniques across mixed reality prototypes and commercial devices. In this context, this paper presents scoping literature review of hand interactions in mixed reality. The goal of this review is to identify the recent findings on hand interactions about their design and the place of artificial intelligence in their development and behavior. This review resulted in the highlight of the main interaction techniques and their technical requirements between 2017 and 2022 as well as the design of the Metaphor-behavior taxonomy to classify those interactions.
Ribavirin inhibits the replication of infectious bursal disease virus predominantly through depletion of cellular guanosine pool
Authors: Akram Towseef , Gul Irfan , Parveez Zia Mahrukh , Hassan Amreena , Khatun Amina , Shah Riaz Ahmad , Ahmad Syed Mudasir , Ganai Nazir Ahmad , Chikan Naveed Anjum , Kim Won-Il , Shabir Nadeem
Published: July 2023

Introduction

The antiviral activity of different mutagens against single-stranded RNA viruses is well documented; however, their activity on the replication of double-stranded RNA viruses remains unexplored. This study aims to investigate the effect of different antivirals on the replication of a chicken embryo fibroblast-adapted Infectious Bursal Disease virus, FVSKG2. This study further explores the antiviral mechanism utilized by the most effective anti-IBDV agent.

Methods

The cytotoxicity and anti-FVSKG2 activity of different antiviral agents (ribavirin, 5-fluorouracil, 5-azacytidine, and amiloride) were evaluated. The virus was serially passaged in chicken embryo fibroblasts 11 times at sub-cytotoxic concentrations of ribavirin, 5-fluorouracil or amiloride. Further, the possible mutagenic and non-mutagenic mechanisms utilized by the most effective anti-FVSKG2 agent were explored.

Results and Discussion

Ribavirin was the least cytotoxic on chicken embryo fibroblasts, followed by 5-fluorouracil, amiloride and 5-azacytidine. Ribavirin inhibited the replication of FVSKG2 in chicken embryo fibroblasts significantly at concentrations as low as 0.05 mM. The extinction of FVSKG2 was achieved during serial passage of the virus in chicken embryo fibroblasts at ≥0.05 mM ribavirin; however, the emergence of a mutagen-resistant virus was not observed until the eleventh passage. Further, no mutation was observed in 1,898 nucleotides of the FVSKG2 following its five passages in chicken embryo fibroblasts in the presence of 0.025 mM ribavirin. Ribavarin inhibited the FVSKG2 replication in chicken embryo fibroblasts primarily through IMPDH-mediated depletion of the Guanosine Triphosphate pool of cells. However, other mechanisms like ribavirin-mediated cytokine induction or possible inhibition of viral RNA-dependent RNA polymerase through its interaction with the enzyme’s active sites enhance the anti-IBDV effect. Ribavirin inhibits ds- RNA viruses, likely through IMPDH inhibition and not mutagenesis. The inhibitory effect may, however, be augmented by other non-mutagenic mechanisms, like induction of antiviral cytokines in chicken embryo fibroblasts or interaction of ribavirin with the active sites of RNA-dependent RNA polymerase of the virus.
The live pig supply chain as reported by farmers in selected districts affected by African swine fever in Uganda, June and July 2022
Authors: Nawatti Margaret , Ekakoro John E. , Singler David , Ochoa Krista , Kizza Robinah , Ndoboli Dickson , Ndumu Deo B. , Wampande Eddie M. , Havas Karyn A.
Published: July 2023

Introduction

Uganda is a pork-producing country in East Africa. The African swine fever virus (ASFV) has had a devastating impact on the country’s pig industry. The movements of pigs and pork are a major pathway of spreading ASFV. This study was done to describe the live pig supply chain within and through districts that are impacted by African swine fever (ASF) in Uganda.

Methods

A pig farmer survey in districts known to have ASFV was done using a semi-structured questionnaire available in English and two local languages. In total, 99 farmers were interviewed across five districts. Farmers were conveniently and purposively selected by local government veterinary officials. An online key informant survey was also used to validate farmer responses.

Results

Most farmers interviewed in all districts reported to source and sell most of their pigs from within their district the farm was in, although there was variation by district and pig type. In relation to pig type, 89.7% of farmers sourced sows, 80.0% sourced boars, and 96.4% sourced weaned pigs from the district where the farm was located. As for sales, 91.3% of farmers sold sows, 92.7% sold boars, 91.9% sold weaned pigs, and 92.2% sold market pigs in the district where the farm was located. There was also variation to whom pigs were sold and sourced by pig type.

Conclusion

This information is useful when planning the scale and focus of disease control programs based on animal movement. This study revealed that pig disease control programs can be targeted to smaller regions. Furthermore, there is a need for farmers and pig traders to be educated on and adhere to veterinary regulations of animal movement and good biosecurity practices to reduce disease spread when purchasing and selling pigs from known ASFV infected areas.
Variables Associated with Ultra-Processed Foods Consumption among Brazilian Adolescents: A Systematic Review
Authors: Guerra Paulo Henrique , Ribeiro Evelyn Helena Corgosinho , Lopes Rafael Fagundes , Nunes Laura Maria Balestreri , Viali Isis Carolina , da Penha Ferraz Brígida , de Almeida Inaiá Aparecida , Garzella Milena Huber , da Silveira Jonas Augusto Cardoso
Published: July 2023

Background: Considering its deleterious effects on health, as well as the importance of information to support actions, strategies, and public policies, the present study was developed, aiming at identifying and classifying the main variables associated with ultra-processed foods consumption in Brazilian adolescents. Data sources: Targeting observational studies involving samples of Brazilian adolescents (11 to 19 years old), which evaluated possible associations between the consumption of ultra-processed foods and individual, interpersonal, environmental, and public policy variables, in October 2022, a systematic review was conducted, consulting electronic databases (Lilacs, Pubmed, Scielo, Scopus, and Web of Science), Google Scholar, and the reference lists of included articles. Data synthesis: The descriptive synthesis consisted of 11 papers, representing nine original studies. The main variables identified were: sedentary behavior (specially screen time), studying at a private school, having a higher body mass index, and being female. Conclusions: Based on this evidence, it is important to direct actions, strategies, and public policies aimed at confronting the consumption of ultra-processed foods for these groups.
Machine Learning and IoT Trends for Intelligent Prediction of Aircraft Wing Anti-Icing System Temperature
Authors: Abdelghany E. S. , Farghaly Mohamed B. , Almalki Mishari Metab , Sarhan H. H. , Essa Mohamed El-Sayed M.
Published: July 2023

Airplane manufacturers are frequently faced with formidable challenges to improving both aircraft performance and customer safety. Ice accumulation on the wings of aircraft is one of the challenges, which could result in major accidents and a reduction in aerodynamic performance. Anti-icing systems, which use the hot bleed airflow from the engine compressor, are considered one of the most significant solutions utilized in aircraft applications to prevent ice accumulation. In the current study, a novel approach based on machine learning (ML) and the Internet of Things (IoT) is proposed to predict the thermal performance characteristics of a partial span wing anti-icing system constructed using the NACA 23014 airfoil section. To verify the proposed strategy, the obtained results are compared with those obtained using computational ANSYS 2019 software. An artificial neural network (ANN) is used to build a forecasting model of wing temperature based on experimental data and computational fluid dynamics (CFD) data. In addition, the ThingSpeak platform is applied in this article to realize the concept of the IoT, collect the measured data, and publish the data in a private channel. Different performance metrics, namely, mean square error (MSE), maximum relative error (MAE), and absolute variance (R2), are used to evaluate the prediction model. Based on the performance indices, the results prove the efficiency of the proposed approach based on ANN and the IoT in designing a forecasting model to predict the wing temperature compared to the numerical CFD method, which consumes a lot of time and requires high-speed simulation devices. Therefore, it is suggested that the ANN-IoT approach be applied in aviation.
A Universal Feature Extractor Based on Self-Supervised Pre-Training for Fault Diagnosis of Rotating Machinery under Limited Data
Authors: Yan Zitong , Liu Hongmei , Tao Laifa , Ma Jian , Cheng Yujie
Published: July 2023

To address the limited data problem in real-world fault diagnosis, previous studies have primarily focused on semi-supervised learning and transfer learning methods. However, these approaches often struggle to obtain the necessary data, failing to fully leverage the potential of easily obtainable unlabeled data from other devices. In light of this, this paper proposes a novel network architecture, named Signal Bootstrap Your Own Latent (SBYOL), which utilizes unlabeled vibration signals to address the challenging issues of variable working conditions, strong noise, and limited data in rotating machinery fault diagnosis. The architecture consists of a self-supervised pre-training-based fault feature recognition network and a diagnosis network based on knowledge transfer. The fault feature recognition network uses ResNet-18 as the backbone network for self-supervised pre-training and transfers the trained fault feature extractor to the target diagnostic object. Additionally, a unique vibration signal data augmentation technique, time–frequency signal transformation (TFST), is proposed specifically for rotating machinery fault diagnosis, which addresses the key task of contrastive learning and achieves high-precision fault diagnosis with very few labeled samples. Experimental results demonstrate that the proposed diagnostic model outperforms other methods in both extremely limited sample and strong noise scenarios and can transfer unlabeled data utilization between similar and even different device types.
Parameterization of the Response Function of Sesame to Drought and Salinity Stresses
Authors: Ebrahimian Hamed , Fujimaki Haruyuki , Toderich Kristina
Published: July 2023

In drylands, poor rains combined with high evaporation rates increase the risks of soil salinization in addition to drought stress. Here, we determined the values of the parameters in the Feddes root water uptake function for sesame (Sesamum indicum L.) under drought and salinity stresses in a pot experiment using “Lebap-55”, which has been bred for the drylands of the Aral Sea Basin but is moderately sensitive to salinity stress. We measured the hourly values of the transpiration, soil moisture, and salinity in the upper and lower soil layers in pots, solar radiation, and root distribution. The values were quantified by two methods. The bulk method uses only daily pot weight data, and the average soil water content and salt concentration are back-calculated from the mass balance. The inverse method uses the monitored values of the soil water content and salinity as well as daily weight data and solar radiation. Both methods could successfully estimate all the parameter values for both stresses. The bulk method performed better under drought stress, even without the measured soil water content or root distribution. It also had satisfactory accuracy in estimating the values under salinity stress. Both methods performed better under drought stress than under salinity stress. The parameter values determined here could be used for irrigation scheduling and salinity management using numerical models for the studied crop.
Sequencing of the Whole Genome of a Bacterium of the Genus Achromobacter Reveals Its Potential for Xenobiotics Biodegradation
Authors: Marzec-Grządziel Anna , Gałązka Anna
Published: July 2023

The isolation of new bacterial strains from the natural environment can lead to the detection of microorganisms of potential practical importance. The characterization of such microorganisms can be carried out using classical microbiological and molecular biology methods. Currently, studies of newly detected microorganisms are based on sequencing techniques. Sequencing of the full genome can provide information about the origin of the strain, its taxonomic status, and phenotypic characteristics. The studies were conducted using the bacteria Achromobacter sp. 77Bb1 isolated from the maize crop rhizosphere. The bacterial genome was sequenced using Illumina 2 × 150 nt technology. The obtained sequences were analyzed using bioinformatics methods, resulting in 57 contigs and genome containing 6,651,432 nt. Phylogenetic analysis based on 16S rRNA gene sequences enabled the assignment of the analyzed bacteria to the genus Achromobacter. The obtained genome contained genes for 4855 proteins with functional assignment. Some of these genes were connected with xenobiotics biodegradation and metabolisms. All genes for aminobenzoate degradation and almost all for benzoate and styrene degradation were found in the analyzed genome, suggesting that the isolated strain has the potential to be used in natural bioremediation methods.
Apical Dominance and Branching in Plantlets of Colt Cherry Lines Expressing Different Light and Auxin Signalling Sensitivities
Authors: Iacona Calogero , Medori Gabriele , Thomas Brian , Roncasaglia Romano , Dradi Giuliano , Radicetti Emanuele , Mancinelli Roberto , Muleo Rosario , Forgione Ivano
Published: July 2023

The establishment of plant architecture requires coordination of distinct processes including shoot branching and apical dominance (AD). AD involves the bud apical shoot, mainly through indole-3-acetic acid (IAA) synthetized by the cells of the meristem and young leaves. The rootward flow generates an auxin gradient in the stem and buds, regulating lateral bud (LB) outgrowth. Phytochromes and AD are involved in the shade-avoidance syndrome in woody plants. However, the underlying mechanisms remain poorly understood. The aim of this study was to evaluate the sensitivity of cherry rootstocks to light, mediated by the photoreceptor phytochrome, and its effect on the role of auxin in driving branching by AD. Pharmacological treatments using transport inhibitors and a competitor of IAA were applied to transgenic lines of Colt cherry rootstock, which showed different sensitivities to light because of the ectopic expression of a rice phyA gene. Results showed different physiological behaviours among the transgenic lines and between themselves and the Colt-wt line. Exogenous IBA inhibited Colt-wt LB outgrowth, and this inhibition was less intense in transgenic lines. The IAA-inhibitors and IAA-competitor promoted branching. In in vitro phyA-transgenic plantlets, the ectopic gene induced greater branching and a higher number of buds developed in new shoots. This work confirms a positive action of phytochrome on lateral branching in cherry rootstock, playing a role in the regulation of AD. Moreover, we suggest that the confined in vitro system might now be used as a phenotyping screening to test the plasticity of the response, highlighting the behaviour of modified genotypes due to an ectopic insertion event by simple and rapid procedures.
Dense Papaya Target Detection in Natural Environment Based on Improved YOLOv5s
Authors: Wang Lei , Zheng Hongcheng , Yin Chenghai , Wang Yong , Bai Zongxiu , Fu Wei
Published: July 2023

Due to the fact that the green features of papaya skin are the same colour as the leaves, the dense growth of fruits causes serious overlapping occlusion phenomenon between them, which increases the difficulty of target detection by the robot during the picking process. This study proposes an improved YOLOv5s-Papaya deep convolutional neural network for achieving dense multitarget papaya detection in natural orchard environments. The model is based on the YOLOv5s network architecture and incorporates the Ghost module to enhance its lightweight characteristics. The Ghost module employs a strategy of grouped convolutional layers and weighted fusion, allowing for more efficient feature representation and improved model performance. A coordinate attention module is introduced to improve the accuracy of identifying dense multitarget papayas. The fusion of bidirectional weighted feature pyramid networks in the PANet structure of the feature fusion layer enhances the performance of papaya detection at different scales. Moreover, the scaled intersection over union bounding box regression loss function is used rather than the complete intersection over union bounding box regression loss function to enhance the localisation accuracy of dense targets and expedite the convergence of the network model training. Experimental results show that the YOLOv5s-Papaya model achieves detection average precision, precision, and recall rates of 92.3%, 90.4%, and 83.4%, respectively. The model’s size, number of parameters, and floating-point operations are 11.5 MB, 6.2 M, and 12.8 G, respectively. Compared to the original YOLOv5s network model, the model detection average precision is improved by 3.6 percentage points, the precision is improved by 4.3 percentage points, the number of parameters is reduced by 11.4%, and the floating-point operations are decreased by 18.9%. The improved model has a lighter structure and better detection performance. This study provides the theoretical basis and technical support for intelligent picking recognition of overlapping and occluded dense papayas in natural environments.
Promotion Effect of Agricultural Production Trusteeship on High-Quality Production of Grain—Evidence from the Perspective of Farm Households
Authors: Sun Xiaoyan , Wang Youchao , Zhu Fengying , Liu Xiaoyu , Liu Jianxu , Sriboonchitta Songsak
Published: July 2023

Based on the survey data of five large grain-producing provinces in China, we have studied the promotion effect of the agricultural production trusteeship on the high-quality production of grain by using a propensity score matching method. The empirical results show that the high-quality production of the grain level increases by 0.292, with an increase of 87.4% after farm households participate in agricultural production trusteeship. The level of high efficiency, premiumization, greenization, and branding of grain production increased by 0.234, 0.373, 0.208, and 0.158, respectively. However, there are differences in the facilitation effects of different trusteeship services, with the best promotion effect of agricultural material supply services, followed by post-harvest services, and then land management services and cultivating and harvesting services. The average treatment effect on the treated (ATT) is 0.287, 0.230, 0.158, and 0.139, respectively. Meanwhile, there are differences in the promotion effects for farm households with different factor endowments. The promotion effect is better for small farm households with three laborers or less, a land management scale of 10 mus or less, and one type of agricultural machinery or less. Therefore, in order to give full play to the promotion effect of agricultural production trusteeship on high-quality production of grain, the government should vigorously support its development and guide more smallholders to choose agricultural production trusteeship.
Establishing a Soil Health Assessment System for Quaternary Red Soils (Luvisols) under Different Land Use Patterns
Authors: Jiang Yingying , Sun Zhongxiu , Zheng Yubo , Wang Hongling , Wang Jiaqing
Published: July 2023

The health status of Quaternary red soil is a comprehensive reflection of the production and ecological service functions, which directly affects agricultural productivity and ecosystem sustainability. Based on the Cornell Soil Health Assessment (CASH) system frame, a health evaluation system for Quaternary red soils was established including the soil’s physical, chemical, and biological indicators. The soil’s health status under different land use patterns (the buried Quaternary red soil, sparse forest and grassland, grassland, woodland, and arable land) was systematically diagnosed in the low hilly region of western Liaoning Province. The results showed significant differences in the soil health comprehensive index of the Quaternary red soils under different land use patterns (the whole soil), presenting a trend of woodland (0.64) > arable land (0.61) > grassland (0.49) > sparse forest and grassland (0.37) > buried Quaternary red soils (0.33). The woodland and arable land are at a healthy level, the grassland and sparse forest and grassland are at a sub-healthy level, and the buried Quaternary red soil is at an unhealthy level. The health status of the topsoil layer (A) under different land use patterns has a trend of woodland (0.86) > arable land (0.73) > grassland (0.70) > sparse forest and grassland (0.67). This is consistent with the overall health status of the profile, better than that of subsoil layer (B), which presents a trend of arable land (0.41) > grassland (0.40) > woodland (0.38) > sparse forest and grassland (0.34), with relatively poor soil health conditions. Overall, the soil health status of the four land use patterns is better than that of the buried Quaternary red soils, showing an evolution trend towards healthy soil. This indicates that at this stage, human land use activities have to some extent promoted the healthy development of Quaternary red soils. The Quaternary red soils of the woodland have a healthy status, and the land use pattern is suitable and can be scientifically recommended in low mountain and hilly areas.
Temporal Stability of Grazed Grassland Ecosystems Alters Response to Climate Variability, While Resistance Stability Remains Unchanged
Authors: Han Ying , Wu Yantao , Cui Jiahe , Li Hangyu , Li Hao , Zhang Jinghui , Miao Bailing , Wang Lixin , Li Zhiyong , Liang Cunzhu
Published: July 2023

Environmental change is a crucial driver shaping grassland biodiversity and stability. Both environmental change and stability contain multiple dimensions. Nonetheless, few studies examined multiple dimensions of stability in response to environmental change, especially under the combined effects of climatic variability and grazing intensity. Here, we conducted a 7-year field sheep grazing experiment, and we evaluated the impacts of grazing intensity (GI) and climate variability (temperature and precipitation variability) on plant community diversity and productivity and multi-dimensional stability using linear and structural equation models. Our results show that increasing grazing intensity significantly decreased temporal stability but did not affect resistance stability. Compared with the non-grazing (NG) treatment, grazing reduced temporal stability by 35.78%. The decline is primarily attributed to the grazing-induced reduction in evenness and weakening of species asynchrony, which in turn impairs insurance effects. The insignificant change in resistance stability was attributed to a trade-off between reduced interspecific competition and direct negative effects. Furthermore, temperature variability and precipitation variability exacerbate and mitigate the effects of grazing on temporal stability (negative) and resistance stability (positive), respectively. Overall, temporal stability is mainly influenced by temperature variability and GI, while resistance stability is mainly affected by GI. Our findings highlight the importance of considering the dimensions of stability and disturbance. Different dimensions of stability may respond differently to disturbance. Multiple disturbances may also interact synergistically or antagonistically on plant community stability.
Effects of Long-Term Straw Returning and Nitrogen Fertilizer Reduction on Soil Microbial Diversity in Black Soil in Northeast China
Authors: Jiao Feng , Zhang Dongdong , Chen Yang , Wu Jinhua , Zhang Junying
Published: July 2023

Returning straw to the field, coupled with fertilizer application, is an effective means to improve the fertility of black soil in Northeast China. Previous studies have mainly focused on the physical and chemical properties of soil structure and fertility. However, few efforts have been made to study the impact of straw returning on the microbial community of black soil in Northeast China. Here, we studied the typical northeast black soil in Heilongjiang Province to characterize the effects of long-term chemical fertilizer application and straw returning on its bacterial community structure. High-throughput sequencing was conducted to characterize the bacterial community of northeast black soil under different agricultural fertilization treatments, and the main factors affecting the bacterial community of northeast black soil were revealed through bioinformatic analyses. The results of high-throughput sequencing analyses demonstrated that the main bacterial phyla in the black soil in Northeast China were Actinomycetes, Proteobacteria, Acidobacteria, Chloroflexus, and Bacteroidetes. Long-term application of chemical fertilizers significantly increased the fertility and crop yield of black soil in Northeast China but led to significant changes in bacterial community structure and a significant decrease in diversity. Although straw returning improved soil fertility, it did not alleviate the adverse effects of the long-term application of chemical fertilizers on soil bacterial communities. Furthermore, our results demonstrated that changes in soil pH were the main factor leading to variations in soil bacterial communities. Returning straw to the field based on fertilizer application can improve black soil fertility in Northeast China but fails to alleviate the adverse effects of fertilizer-induced soil acidification on the composition and diversity of soil bacterial communities. This suggests that returning straw to the field may not have a significant beneficial impact on the microbial ecology of the black soil of Northeast China. Therefore, further research is needed to establish new straw return strategies to maximize agricultural yields while minimizing ecological impacts.
Modern Plant Biotechnology: An Antidote against Global Food Insecurity
Authors: Animasaun David Adedayo , Adedibu Peter Adeolu , Shkryl Yury , Emmanuel Faith Olatayo , Tekutyeva Liudmila , Balabanova Larissa
Published: July 2023

Food insecurity has become a pressing issue on a worldwide scale as the globe plows through a food crisis. The disastrous impact of this menace has been exacerbated by climate change, frequent conflicts, pandemic outbreaks, and the global economic recession, which have been prevalent in recent years. Although food insecurity prevails globally, it is especially critical in some regions in Africa, East and Southeast Asia, and South America. Several efforts have been made to curb food insecurity; however, none have been able to curtail it sufficiently. Genetic engineering of crops is a fast-growing technology that could be a viable tool for mitigating food insecurity. Crop varieties resistant to pests and diseases, abiotic stress, spoilage, or specific herbicides have been developed using this technology. Crops have been modified for increased yield, nutritional content, essential vitamins, and micro-mineral fortification. More intriguing is the advent of plant-derived edible vaccines, which prove equally effective and significantly affordable. However, in many countries, government policies pose a limiting factor for the acceptance of this technology. This article discusses the genetic modification of crops, highlighting its origins, methods, applications, achievements, impact, acceptance, distribution, and potential as a viable antidote to global food insecurity.
Regional Monitoring of Leaf ChlorophyII Content of Summer Maize by Integrating Multi-Source Remote Sensing Data
Authors: Tian Hongwei , Cheng Lin , Wu Dongli , Wei Qingwei , Zhu Liming
Published: July 2023

This study addresses the problem of restricted ability for large-scale monitoring due to the limited cruising time of unmanned aerial vehicles (UAV) by identifying an optimal leaf ChlorophyII content (LCC) inversion machine learning model at different scales and under different parameterization schemes based on simultaneous observations of ground sampling, UAV flight, and satellite imagery. The following results emerged: (1) The correlation coefficient between most remote sensing features (RSFs) and LCC increased as the remote scale expanded; thus, the scale error caused by the random position difference between GPS and measuring equipment should be considered in field sampling observations. (2) The LCC simulation accuracy of the UAV multi-spectral camera using four machine learning algorithms was ExtraTree > GradientBoost > AdaBoost > RandomForest, and the 20- and 30-pixel scales had better accuracy than the 10-pixel scale, while the accuracy for three feature combination schemes ranked combination of extremely significantly correlated RSFs > combination of significantly correlated and above RSFs > combination of all features. ExtraTree was confirmed as the optimal model with the feature combination of scheme 2 at the 20-pixel scale. (3) Of the Sentinel-2 RSFs, 27 of 28 were extremely significantly correlated with LCC, while original band reflectance was negatively correlated, and VIs were positively correlated. (4) The LCC simulation accuracy of the four machine learning algorithms ranked as ExtraTree > GradientBoost > RandomForest > AdaBoost. In a comparison of two parameterization schemes, scheme 1 had better accuracy, while ExtraTree was the best algorithm, with 11 band reflectance as input RSFs; the RMSE values for the training and testing data sets of 0.7213 and 1.7198, respectively.