bluuebunny/crossref_metadata_2025 huggingface dataset:
Transcriptomic Landscape of Herbivore Oviposition in Arabidopsis: A Systematic Review
Authors: Ojeda-Martinez Dairon , Diaz Isabel , Santamaria M. Estrella
Published: January 2022

Herbivore oviposition produces all sorts of responses in plants, involving wide and complex genetic rearrangements. Many transcriptomic studies have been performed to understand this interaction, producing a bulk of transcriptomic data. However, the use of many transcriptomic techniques across the years, the lack of comparable transcriptomic context at the time of publication, and the use of outdated databases are limitations to understand this biological process. The current analysis intends to retrieve oviposition studies and process them with up-to-date techniques and updated databases. To reduce heterogeneities, the same processing techniques were applied, and Arabidopsis was selected to avoid divergencies on plant taxa stress response strategies. By doing so, we intended to understand the major mechanisms and regulatory processes linked to oviposition response. Differentially expressed gene (DEG) identification and co-expression network-based analyses were the main tools to achieve this goal. Two microarray studies and three RNA-seq analyses passed the screening criteria. The collected data pertained to the lepidopteran Pieris brassicae and the mite Tetranychus urticae, and covered a timeline from 3 to 144 h. Among the 18, 221 DEGs found, 15, 406 were exclusive of P. brassicae (72 h) and 801 were exclusive for the rest of the experiments. Excluding P. brassicae (72 h), shared genes on the rest of the experiments were twice the unique genes, indicating common response mechanisms were predominant. Enrichment analyses indicated that shared processes were circumscribed to earlier time points, and after 24 h, the divergences escalated. The response was characterized by patterns of time-dependent waves of unique processes. P. brassicae oviposition induced a rich response that shared functions across time points, while T. urticae eggs triggered less but more diverse time-dependent functions. The main processes altered were associated with hormonal cascades [e.g., salicilic acid (SA) and jasmonic acid (JA)], defense [reactive oxygen species (ROS) and glucosinolates], cell wall rearrangements, abiotic stress responses, and energy metabolism. Key gene drivers of the identified processes were also identified and presented. The current results enrich and clarify the information regarding the molecular behavior of the plant in response to oviposition by herbivores. This information is valuable for multiple stress response engineering tools, among other applications.
Histone Acetyltransferase SlGCN5 Regulates Shoot Meristem and Flower Development in Solanum lycopersicum
Authors: Hawar Amangul , Xiong Shiqi , Yang Zhen , Sun Bo
Published: January 2022

The histone acetyltransferase (HAT) general control non-repressed protein 5 (GCN5) plays important roles in plant development via epigenetic regulation of its target genes. However, the role of GCN5 in tomato, especially in the regulation of tomato shoot meristem and flower development, has not been well-understood. In this study, we found that silencing of Solanum lycopersicum GCN5 (SlGCN5, Solyc10g045400.1.1) by virus-induced gene silencing (VIGS) and RNA interference (RNAi) resulted in the loss of shoot apical dominance, reduced shoot apical meristem (SAM) size, and dwarf and bushy plant phenotype. Besides, we occasionally observed extra carpelloid stamens and carpels fused with stamens at the late stages of flower development. Through gene expression analysis, we noticed that SlGCN5 could enhance SlWUS transcript levels in both SAM and floral meristem (FM). Similar to the known function of GCN5 in Arabidopsis, we demonstrated that SIGCN5 may form a HAT unit with S. lycopersicum alteration/deficiency in activation 2a (SlADA2a) and SlADA2b proteins in tomato. Therefore, our results provide insights in the SlGCN5-mediated regulation of SAM maintenance and floral development in tomato.
Efficient Generation of RNA Secondary Structure Prediction Algorithm Under PAR Framework
Authors: Shi Haihe , Jing Xiaoqian
Published: January 2022

Prediction of RNA secondary structure is an important part of bioinformatics genomics research. Mastering RNA secondary structure can help us to better analyze protein synthesis, cell differentiation, metabolism, and genetic processes and thus reveal the genetic laws of organisms. Comparative sequence analysis, support vector machine, centroid method, and other algorithms in RNA secondary structure prediction algorithms often use dynamic programming algorithm to predict RNA secondary structure because of their huge time and space consumption and complex data structure. In this article, the domain of RNA secondary structure prediction algorithm based on dynamic programming (DP-SSP) is analyzed in depth, and the domain features are modeled. According to the generative programming method, the DP-SSP algorithm components are interactively designed. With the support of PAR platform, the DP-SSP algorithm component library is formally realized. Finally, the concrete algorithm is generated through component assembly, which improves the efficiency and reliability of algorithm development.
GRAND: An Integrated Genome, Transcriptome Resources, and Gene Network Database for Gossypium
Authors: Zhang Zhibin , Chai Mao , Yang Zhaoen , Yang Zuoren , Fan Liqiang
Published: January 2022

With the increasing amount of cotton omics data, breeding scientists are confronted with the question of how to use massive cotton data to mine effective breeding information. Here, we construct a Gossypium Resource And Network Database (GRAND), which integrates 18 cotton genome sequences, genome annotations, two cotton genome variations information, and also four transcriptomes for Gossypium species. GRAND allows to explore and mine this data with the help of a toolbox that comprises a flexible search system, BLAST and BLAT suite, orthologous gene ID, networks of co-expressed genes, primer design, Gbrowse and Jbrowse, and drawing instruments. GRAND provides important information regarding Gossypium resources and hopefully can accelerate the progress of cultivating cotton varieties.
Implementing an Eye Movement and Desensitization Reprocessing Treatment-Program for Women With Posttraumatic Stress Disorder After Childbirth
Authors: Kranenburg Leonieke W. , Bijma Hilmar H. , Eggink Alex J. , Knijff Esther M. , Lambregtse-van den Berg Mijke P.
Published: January 2022

Purpose

The purpose of this study is to describe the implementation and outcomes of an Eye Movement and Desensitization Reprocessing (EMDR) treatment-program for women with posttraumatic stress disorder (PTSD) after childbirth.

Methods

A prospective cohort-study with pre- and post-measurements was carried out in the setting of an academic hospital in the Netherland. Included were women who gave birth to a living child at least 4 weeks ago, with a diagnosis of PTSD, or severe symptoms of PTSD combined with another psychiatric diagnosis. All received up to 8 sessions of EMDR-therapy. The posttraumatic stress disorder Checklist for DSM-5 was administered before and after treatment. Trauma history was assessed before treatment with the Life Events Checklist for the DSM-5, the Childhood Trauma Questionnaire and the Childbirth Perception Scale. Descriptive statistics were used.

Results

Forty-four women were referred, 26 met the inclusion criteria. After treatment, none of the women met the criteria for diagnosis of PTSD after on average 5 weekly sessions of EMDR- therapy. These outcomes are promising, as they were achieved in women with relatively high levels of psychiatric comorbidity (64%) and high rates of previous mental health treatment (80%).

Conclusion

Implementing an EMDR-treatment program for women with PTSD after childbirth in the setting of an academic hospital is feasible and effective. Key factors for success include a close collaboration between the relevant hospital departments and a thorough case conceptualization addressing the etiology of the PTSD.
Effect of Enterprise Social Media on Employee Creativity: Social Exchange Theory Perspective
Authors: Wang Zhiwei , Hangeldiyeva Mahri , Ali Asad , Guo Mengmeng
Published: January 2022

This study applied an artifact-centric view to investigate the consequences of enterprise social media usage. It investigates how enterprise social media usage influences employee creativity. A moderated mediation model is developed based on social exchange theory. The empirical sample of 238 employees is used to test the proposed model. Results of the empirical analysis performed using PROCESS macro of SPSS indicate that enterprise social media usage positively impacts employee creativity via the mediating mechanisms (i.e., leader-member exchange and support for innovation). Furthermore, social media usage frequency negatively moderates this impact of enterprise social media usage on employee creativity via leader-member exchange. Interestingly, the empirical analysis reveals that the impact of enterprise social media usage frequency strengthens the indirect effect that enterprise social media usage has on employee creativity via perceived support for innovation.
Impact of Gender Difference on Anxiety in COVID-19 Patients in Quarantine Wards
Authors: Sun Peng , He Tao , Fan Duo-jiao , Xu Chao , Wang Ying , Song Shuang-wei , Jin Feng , Chen Xiao-xue , Yang Mei
Published: January 2022

Objective

This study aimed to investigate the gender difference in anxiety in novel coronavirus pneumonia (COVID-19) patients in the quarantine ward during the outbreak.

Methods

The self-rating anxiety scale (SAS) was used on the seventh day of isolation to analyze the anxiety levels of a total of 242 suspected or confirmed COVID-19 patients in the quarantine wards of two hospitals; 232 of these patients (112 males and 120 females) completed the anxiety scoring. The anxiety scores were compared between male and female patients using the t-test, and a scatter diagram was used for analysis.

Results

The SAS scores of females in quarantine wards were higher than those of males at seven days of isolation.

Conclusion

Women with COVID-19 are more prone to anxiety than men while in isolation. It is necessary to give more attention to female patients in quarantine wards in the future, and psychological counseling may be necessary.
Relative Deprivation, Income Inequality, and Cardiovascular Health: Observational and Mendelian Randomization Studies in Hong Kong Chinese
Authors: Kwok Man Ki , Kawachi Ichiro , Rehkopf David , Ni Michael Y. , Leung Gabriel M. , Schooling C. Mary
Published: January 2022

The associations between absolute vs. relative income at the household or neighborhood level and cardiovascular disease (CVD) risk remain understudied in the Chinese context. Further, it is unclear whether stress biomarkers, such as cortisol, are on the pathway from income to CVD risk. We examined the associations of absolute and relative income with CVD risk observationally, as well as the mediating role of cortisol, and validated the role of cortisol using Mendelian Randomization (MR) in Hong Kong Chinese. Within Hong Kong's FAMILY Cohort, associations of absolute and relative income at both the individual and neighborhood levels with CVD risk [body mass index (BMI), body fat percentage, systolic blood pressure, diastolic blood pressure, self-reported CVD and self-reported diabetes] were examined using multilevel logistic or linear models (n = 17,607), the mediating role of cortisol using the mediation analysis (n = 1,562), and associations of genetically predicted cortisol with CVD risk using the multiplicative generalized method of moments (MGMMs) or two-stage least squares regression (n = 1,562). In our cross-sectional observational analysis, relative household income deprivation (per 1 SD, equivalent to USD 128 difference in Yitzhaki index) was associated with higher systolic blood pressure (0.47 mmHg, 95% CI 0.30–0.64), but lower BMI (−0.07 kg/m2, 95% CI −0.11 to −0.04), independent of absolute income. Neighborhood income inequality was generally unrelated to CVD and its risk factors, nor was absolute income at the household or neighborhood level. Cortisol did not clearly mediate the association of relative household income deprivation with systolic blood pressure. Using MR, cortisol was unrelated to CVD risk. Based on our findings, relative household income deprivation was not consistently associated with cardiovascular health in Hong Kong Chinese, nor were neighborhood income inequality and absolute income, highlighting the context-specific ways in which relative and absolute income are linked to CVD risk.
“Wherever I Go, I Have It Inside of Me”: Indigenous Cultural Dance Narratives as Substance Abuse and HIV Prevention in an Urban Danza Mexica Community
Authors: Fernandez Angela R. , Beltrán Ramona E.
Published: January 2022

Introduction

“Mexican American Indian” (MAI) is a large and diverse population for which little empirical research on alcohol and other drug (AOD) use and HIV is available, yet for which there is a disproportionate risk. Indigenous health narratives and participation in place- and settings-based cultural practices can be protective in chronic and co-occurring disease prevention and health promotion for Indigenous people. This study explores the role of participation in cultural dance in generating narratives of prevention and health promotion among a sample of MAIs from an Urban Danza Mexica Community (UDMC), framed within a decolonizing narratives of health (DNOH) model.

Methods

This secondary data analysis (n = 9) is drawn from a qualitative AOD and HIV health needs assessment of UDMC living in the Pacific Northwest and the Rocky Mountain West (n = 21). This study uses a community-based participatory research approach and employs narrative, Indigenized methods to analyze in-depth interviews from adult cisgender females (n = 5) and males (n = 4). The DNOH model is developed as a relational, analytic framework that contextualizes Indigenous stories in relationship to three distinct yet interconnected levels—the personal, the communal, and Indigeneity in the larger world. These levels of narrative analysis function as culturally grounded, relational pathways through which to articulate health education and promotion approaches.

Results

Narratives delve into the complex and nuanced relationships within participants' internal worlds (personal), between themselves and their Danza community (communal), and between themselves and their complex, intersectional Indigenous identities within society (Indigeneity). Stories of ancestral teachings about health and prevention shared within the Danza circle create spaces wherein participants navigate complex conversations that resist oppressive colonial narratives, reconnect with and strengthen their Indigenous identities, and strive toward ancestral visions of health and well-being.

Discussion

This study contributes to Indigenized theoretical and methodological expansion and the development of place/settings-based, narrative, cultural health interventions aimed at preventing chronic and co-occurring disease and promoting wellness among populations similar to the UDMC. Identifying cultural practices as Native Hubs (relational, socially constructed places) that foster decolonizing narratives helps increase understanding of their role in public health education and promotion through recognition of Indigenous knowledge systems and frameworks.
How Does Smart Healthcare Service Affect Resident Health in the Digital Age? Empirical Evidence From 105 Cities of China
Authors: Chen Yan , Zhang Liyezi , Wei Mengyang
Published: January 2022

With the emergence of the digital age, smart healthcare services based on the new generation of information technologies play an increasingly important role in improving the quality of resident health. This study empirically examined the impact of regional smart healthcare services on resident health as well as the underlying mechanism by employing a two-way fixed effects model. We constructed a Regional Smart Healthcare Service Development Index and matched it with survey data from the China Health and Retirement Longitudinal Study to validate the model. The results showed that (1) smart healthcare services have a significant positive impact on resident health. (2) The availability of outpatient services and inpatient services plays a mediating role in the relationship between regional smart healthcare services and resident health. (3) The influence of regional smart healthcare services on resident health is heterogeneous among different regions. Specifically, the effect of smart healthcare services on resident health is significant in the eastern regions, while it is not significant in the central, western, and northeastern regions. The effect of smart healthcare services on resident health is significant in rural regions but not in urban regions. This study enriches the nascent research stream of smart healthcare services. This study offers useful insights for practitioners and the government to guide them in formulating smart healthcare strategies.
Does Integrating Cognitive and Psychological Interventions Enhance Wellbeing After Acquired Brain Injury? Study Protocol for a Phase II Randomized Controlled Trial of the VaLiANT (Valued Living After Neurological Trauma) Group Program
Authors: Sathananthan Nick , Morris Eric M. J. , Gillanders David , Knox Lucy , Dimech-Betancourt Bleydy , Wright Bradley J. , das Nair Roshan , Wong Dana
Published: January 2022

Background and Objectives

Cognitive and emotional changes affect the majority of individuals with acquired brain injury (ABI) and are associated with poorer outcomes. The evidence for “siloed” rehabilitation approaches targeting cognition and mood separately remains mixed. Valued living (i.e., acting consistently with personal values) is associated with better psychological functioning and participation in work and other productive activities. Rehabilitation interventions that concurrently address cognitive and emotional barriers to valued living may therefore result in improved outcomes. VaLiANT (Valued Living After Neurological Trauma) is an 8-week group intervention developed by our team, which uniquely combines cognitive rehabilitation and psychological therapy to improve wellbeing and meaningful participation (i.e., valued living) following ABI.

Method

This protocol describes the design and implementation of a Phase II parallel-group randomized controlled trial with blinded outcome assessors, to evaluate the potential efficacy of VaLiANT and the feasibility of a Phase III trial. Participants are adults with a history of ABI at least 3 months prior to study entry, who experience cognitive and/or emotional difficulties and associated reduced participation in valued activities. Random allocation to the treatment condition (8-week VaLiANT group program) or a usual care waitlist control condition occurs at a 2:1 treatment: control ratio. The primary outcome is wellbeing, measured by the Warwick-Edinburgh Mental Wellbeing Scale. Secondary outcomes include measures of valued living, mood, cognitive complaints, quality of life, community participation, post-traumatic growth, and self-efficacy. All measures are collected across three time points by blinded assessors (baseline, 8-week follow-up, 16-week follow-up). Trial feasibility will be evaluated against recruitment rates, drop-out rates, intervention acceptability, and treatment fidelity (manual adherence and therapist competence).

Discussion

This trial will extend current knowledge on how to improve long-term outcomes following ABI by evaluating an innovative integrated, multi-domain approach to rehabilitation concurrently addressing cognitive and emotional barriers to participation in meaningful life roles.
The Effectiveness of Surgical Methods for Trismus Release at Least 6 Months After Head and Neck Cancer Treatment: Systematic Review
Authors: Smeets Maximiliaan , Croonenborghs Tomas-Marijn , Van Dessel Jeroen , Politis Constantinus , Jacobs Reinhilde , Bila Michel
Published: January 2022

Background

The objective of this systematic review was to identify the different surgical treatment modalities of severe trismus after head and neck squamous cell cancer treatment.

Methods

An electronic literature database search was conducted in Medline, Embase, Cochrane, Web of Science, and OpenGrey to determine articles published up to September 2021. Two observers independently assessed the identified papers for eligibility according to PRISMA guidelines. The inclusion criteria were trismus after head and neck squamous cell cancer with consecutive treatment, detailed description of the surgical procedure for trismus release, description of the initial treatment, at least 6 months between initial cancer treatment and trismus release surgery, a minimal follow-up (FU) of 6 months, and availability of full text. The quality was evaluated using the Newcastle-Ottawa scale. A subanalysis of the maximal mouth opening (MMO) was performed using a mixed-effect model.

Results

A total of 8,607 unique articles were screened for eligibility, 69 full texts were reviewed, and 3 studies, with a total of 46 cases, were selected based on the predetermined inclusion and exclusion criteria. Three treatment strategies were identified for trismus release (1) free flap reconstruction (FFR), (2) coronoidectomy (CN), and (3) myotomy (MT). There was a clear improvement for all treatment modalities. A quantitative analysis showed a beneficial effect of CN (mean 24.02 ± 15.02 mm) in comparison with FFR (mean 19.88 ± 13.97 mm) and MT (mean 18.38 ± 13.22 mm) (P < 0.01*). An increased gain in MMO after trismus release was found if no primary resection was performed (P = 0.014*). Two studies included in the analysis had an intermediate risk of bias and one had a low risk of bias.

Conclusion

Currently available reports suggest a low threshold for performing a CN compared with FFR and MT. There is a need for high-quality randomized controlled trials with carefully selected and standardized outcome measures.
Analysis of a 2D Representation for CPS Anomaly Detection in a Context-Based Security Framework
Authors: Baldoni Sara , Carli Marco , Battisti Federica
Published: January 2022

In this contribution, a flexible context-based security framework is proposed by exploring two types of context: distributed and local. While the former consists in processing information from a set of spatially distributed sources, the second accounts for the local environment surrounding the monitored system. The joint processing of these two types of information allows the identification of the anomaly cause, differentiating between natural and attack-related events, and the suggestion of the best mitigation strategy. In this work, the proposed framework is applied the Cyber Physical Systems scenario. More in detail, we focus on the distributed context analysis investigating the definition of a 2D representation of network traffic data. The suitability of four representation variables has been evaluated, and the variable selection has been performed.
Early Warning Models to Predict the 90-Day Urinary Tract Infection Risk After Radical Cystectomy and Urinary Diversion for Patients With Bladder Cancer
Authors: Lu Xun , Jiang Hua , Wang Dong , Wang Yiduo , Chen Qi , Chen Shuqiu , Chen Ming
Published: January 2022

Purpose

To develop and validate a nomogram of the 90-day urinary tract infection (UTI) risk for patients with bladder cancer undergoing radical cystectomy (RC) and urinary diversion.

Patients and Methods

The predictive nomogram was based on a retrospective study on the consecutive patients who underwent RC and urinary diversion for bladder cancer between January 2014 and March 2021. The incidence and microbiology of UTI were reported. The univariate and multivariate logistic analyses were conducted to determine independent risk factors associated with UTI. The predictive accuracy and discriminatory ability of the established nomogram were evaluated by the concordance index (C-index) and decision curve analysis (DCA). The performance of the model was validated internally.

Results

A total of 220 patients were included and the incidence of UTI within 90 days was 27.3%. The most commonly identified pathogens were Enterococcus (42.0%), Escherichia coli (21.70%), and Candida (13.0%). Urinary diversion type, Charlson comorbidities index (CCI), stricture, and prognostic nutritional index (PNI) were included in the nomogram. The C-index of the nomogram for predicting UTI was 0.858 (95% CI: 0.593–0.953). In the validation cohort, the nomogram also showed high-predictive accuracy. Net reclassification improvement (NRI) and integrated discrimination improvement (IDI) index indicated that PNI led to improvement in predictive ability.

Conclusion

The proposed early warning model shows great accuracy in predicting the incidence of 90-day UTI after RC and urinary diversion in patients with bladder cancer.
Simultaneous Endoscopic Endonasal Decompression of the Optic Canal, Superior Orbital Fissure, and Proper Orbital Apex for Traumatic Orbital Apex Syndrome: Surgical Anatomy and Technical Note
Authors: Liu Jianfeng , Zhao Jianhui , Wang Yibei , Wang Zhijun , Li Rui , Chen Zhongyan , Zhao Yu , Han Jun , Yang Dazhang
Published: January 2022

Objectives

Traumatic orbital apex syndrome (TOAS) is an uncommon but severe ocular complication of craniomaxillofacial fracture. The optimal surgical strategy for TOAS has not been determined. To investigate the endoscopic anatomy of the orbital apex region, propose a protocol for simultaneous endoscopic endonasal decompression of the optic canal, superior orbital fissure, and proper orbital apex (EEDCFA) for TOAS and report its use in two patients.

Methods

An endoscopic endonasal approach was utilized to dissect the orbital apex region in two silicon-injected adult cadaveric heads. The details of the procedure used for decompression of the orbital apex were determined. The effects of this procedure were determined in two patients with TOAS who underwent simultaneous decompression of the optic canal, superior orbital fissure, and proper orbital apex.

Results

The orbital apex consisted of three portions, the contents of the optic canal superomedially; the contents of the superior orbital fissure inferolaterally; and the converging portion, or proper orbital apex, anteriorly. From an endoscopic endonasal approach, the optic nerve, superior orbital fissure, and orbital apex convergence prominences were found to form a π-shaped configuration. This π-shaped configuration was indicative of the orbital apex and was an important landmark for decompression of the orbital apex. Endonasal decompression of the orbital apex in the two patients resulted in the satisfactory recovery of extraocular mobility, with no surgical complications.

Conclusions

EEDCFA is feasible, effective, and safe for patients with TOAS caused by direct compression of displaced fracture segments. The π-shaped configuration is a valuable landmark for EEDCFA.
139D in NS1 Contributes to the Virulence of H5N6 Influenza Virus in Mice
Authors: Huang Kun , Mao Haiying , Ren Peilei , Zhang Yufei , Sun Xiaomei , Zou Zhong , Jin Meilin
Published: January 2022

H5N6, the highly pathogenic avian influenza A virus (IAV) of clade 2.3.4.4, causes global outbreaks in poultry. H5N6 has become the dominant IAV subtype in waterfowls and causes human infections with high mortality rates. Here, we isolated two strains of H5N6, XGD and JX, from chickens and ducks, respectively. Growth kinetics were evaluated in duck embryo fibroblasts, chicken embryo fibroblasts, Madin-Darby canine kidney cells, and A549 lung carcinoma cells. Receptor binding specificity was analyzed via sialic acid–binding activity assay. The virulence of each strain was tested in BALB/c mice, and recombinant viruses were constructed via reverse genetics to further analyze the pathogenicity. The two strains showed no significant differences in growth kinetics in vitro; however, JX was more virulent in mice than XGD. We also identified 13 mutations in six viral proteins of the two strains through genetic analysis. Our study showed that the NS1 protein played a crucial role in enhancing the virulence of JX. Specifically, the amino acid 139D in NS1 contributed to the high pathogenicity. Therefore, 139D in NS1 might provide insight into the underlying mechanism of IAV adaptation in mammals.
Reconnecting Farmers with Nature through Agroecological Transitions: Interacting Niches and Experimentation and the Role of Agricultural Knowledge and Innovation Systems
Authors: Giagnocavo Cynthia , de Cara-García Miguel , González Mónica , Juan Melchor , Marín-Guirao José Ignacio , Mehrabi Sepide , Rodríguez Estefanía , van der Blom Jan , Crisol-Martínez Eduardo
Published: January 2022

Sustainability transitions in agriculture are explored through an analysis of niche initiatives within a common production system, relying on sustainable transitions, multi-level perspectives, and agroecological frameworks, and involving multi-actor, agricultural knowledge, and innovation systems (AKIS). The article focuses on how experimental niches and sustainable activities affect farmers’ relationships with nature, and the reconceptualisation of the production system in which they operate, particularly where this system is embedded in less sustainable conventional or dominant regimes and landscapes. The need for fundamental changes, in the way that humans interact with nature, is widely argued for in order to achieve sustainable development, and farmers occupy a central role through participation in complex networks of agri-food systems. They have also found themselves disconnected from nature through conventional agri-industrial production practices. Four niches (biological control, ecological restoration, soil health, and ecological pond management) within the greenhouse sector of Almeria (SE Spain) are explored in a case study. Our results indicate that a farmer’s interaction with nature is functional, but through agroecological practices, a deeper understanding of the ecosystems in which greenhouse landscapes are embedded may be gained. As they become more connected to nature and benefit from ecosystem services, they can transition to more sustainable agricultural systems.
Effects of Carrier Materials and Storage Temperatures on the Viability and Stability of Three Biofertilizer Inoculants Obtained from Potato (Solanum tuberosum L.) Rhizosphere
Authors: Aloo Becky Nancy , Mbega Ernest Rashid , Makumba Billy Amendi , Tumuhairwe John Baptist
Published: January 2022

Biofertilizer technology continues to be derailed by the short shelf life of inoculants. The present study investigated the suitability of wheat-bran (WB), rice-husks (RH), farmyard-manure (FYM), bagasse (BG), and sawdust (SD) in the formulation of potato-derived Klebsiella grimontii (MPUS7), Serratia marcescens (NGAS9), and Citrobacter freundii (LUTT5) under refrigerated (8 °C) and room (25 ± 2 °C) storage. The physicochemical properties of the materials were assessed before sterilization and introduction of the inoculants and assessment of their viability for 8 months. Most of the physicochemical properties of the materials varied significantly (p < 0.05). Bagasse supported the maximum growth of MPUS7 (5.331 log CFU g−1) under refrigeration and LUTT5 (4.094 log CFU g−1) under both conditions. Under room storage, the maximum growth of MPUS7 (3.721 log CFU g−1) occurred in WB. Formulations that remained viable under room storage can easily be integrated into existing agricultural distribution systems that lack refrigeration.
Effect of Foliar Application of Micronutrients and Fungicides on the Nitrogen Use Efficiency in Winter Wheat
Authors: Szczepaniak Witold , Nowicki Bartłomiej , Bełka Dagmara , Kazimierowicz Adrian , Kulwicki Michał , Grzebisz Witold
Published: January 2022

The increase in the grain density (GD) is the key factor for effectively controlling Nitrogen-Use Efficiency (NUE) in winter wheat. Winter-wheat protection with fungicides and/or foliar fertilization with micronutrients during the critical stages of yield formation affects the grain yield by increasing GD. This hypothesis was verified in a two-factor field experiment, carried out in the 2013/2014, 2014/2015, 2015/2016 growing seasons. A field experiment in a two-factor split-plot design, included three systems of wheat foliar protection (FP): (i) N + Mi (N + macronutrients), (ii) N + P (N + fungicides), (iii) N + Mi + P, and 0, 40, 80, 120, 160, 200, 240 kg N ha−1. The grain yield, despite the significant effect of years, depended on the interaction of FP and N doses. The maximum yield of 8.1, 10.7, 11.1 t ha−1 for the optimal N dose of 79.8, 227.4, and 245.2 kg ha−1, was achieved, respectively, for N + Mi, N + N, N + Mi + P. The wheat-grain yield depended significantly on GD (R2 = 0.98, p ≤ 0.001). Wheat protected with fungicides increased GD gradually with the N dose, reaching over 3000 grains per m2 when fertilized with 200 kg N ha−1. The lack of fungicide protection, reducing GD, consequently resulted in a greater accumulation of N in straw at the expense of grain. Fungicide protection of wheat through the positive effect on N management by wheat should be considered as an agronomic measure that supports N-Use Efficiency.
Decomposition Rate of Organic Residues and Soil Organisms’ Abundance in a Subtropical Pyrus pyrifolia Field
Authors: Rodrigues da Silva Lucas Jónatan , Feitosa de Souza Tancredo Augusto , Klestadt Laurindo Lídia , Freitas Helena , Costa Campos Milton César
Published: January 2022

The use of mulching, compost, and their interaction on organic residue (OR) decomposition rate (k), time of residue decay, primming effect, and soil organisms’ community composition was tested in a 16-year P. pyrifolia field experiment conducted from January 2020 to June 2021. A 2 × 2 factorial design was used with compost and mulching as the two factors within four blocks. OR decomposition was characterized by using litter bags with different mesh, and soil organisms were identified at family level. The half-decay rate (hd), total-decay rate (td), and remaining residue mass (Rm) varied among the organic residue management and mesh-type. The highest values of k and primming effect were found in litter bags with 15 mm2 size containing compost in the plots that received compost. For soil organisms’ abundance and richness, the highest values were found on plot that received both mulching and compost. The observed results suggested that the OR management determined organic matter decomposition, soil organisms’ abundance and richness in an Acrisols of the Southern Brazil. Soil organisms were the main factors contributing to the data variance (e.g., Acaridae, Blattidae, Chrysopidae, Halictophagidae, and Forficulidae).
ROS Accumulation as a Hallmark of Dehydration Stress in Primed and Overprimed Medicago truncatula Seeds
Authors: Pagano Andrea , Folini Giulia , Pagano Paola , Sincinelli Federico , Rossetto Andrea , Macovei Anca , Balestrazzi Alma
Published: January 2022

Seed priming protocols implement incomplete imbibition phases, as well as physical, chemical or biological treatments, to activate pre-germinative metabolism and stress response, thus improving germination performances, seedling establishment and stress tolerance according to agricultural productivity requirements. The dehydration phase following priming treatments represents a critical variable, since an excessively prolonged imbibition (overpriming) impairs desiccation tolerance, compromising seed viability and seedling establishment. Priming protocols generally optimize imbibition-dehydration timing empirically to avoid overpriming. Hence, a better understanding of the dynamics underlying the loss of desiccation tolerance represents a promising route to test and develop efficient and cost-effective priming techniques. In the present work, priming and overpriming conditions were defined to explore the role of desiccation tolerance in seed priming efficiency in the model legume Medicago truncatula. The positive effects of hydropriming and kinetin-mediated hormopriming on germination parameters were screened in combination with conditions of short/prolonged priming and mild/severe overpriming. Biometric analyses highlighted contrasting responses in terms of germination performances and seedling development, while ROS (reactive oxygen species) levels measured during dehydration positively correlate with the loss of desiccation tolerance in early seedlings, suggesting possible applications to monitor priming progression and predict overpriming occurrence.
Role of Glycine Betaine in the Thermotolerance of Plants
Authors: Zulfiqar Faisal , Ashraf Muhammad , Siddique Kadambot H. M.
Published: January 2022

As global warming progresses, agriculture will likely be impacted enormously by the increasing heat stress (HS). Hence, future crops, especially in the southern Mediterranean regions, need thermotolerance to maintain global food security. In this regard, plant scientists are searching for solutions to tackle the yield-declining impacts of HS on crop plants. Glycine betaine (GB) has received considerable attention due to its multiple roles in imparting plant abiotic stress resistance, including to high temperature. Several studies have reported GB as a key osmoprotectant in mediating several plant responses to HS, including growth, protein modifications, photosynthesis, gene expression, and oxidative defense. GB accumulation in plants under HS differs; therefore, engineering genes for GB accumulation in non-accumulating plants is a key strategy for improving HS tolerance. Exogenous application of GB has shown promise for managing HS in plants, suggesting its involvement in protecting plant cells. Even though overexpressing GB in transgenics or exogenously applying it to plants induces tolerance to HS, this phenomenon needs to be unraveled under natural field conditions to design breeding programs and generate highly thermotolerant crops. This review summarizes the current knowledge on GB involvement in plant thermotolerance and discusses knowledge gaps and future research directions for enhancing thermotolerance in economically important crop plants.
Tansy (Tanacetum vulgare L.)—A Wild-Growing Aromatic Medicinal Plant with a Variable Essential Oil Composition
Authors: Nurzyńska-Wierdak Renata , Sałata Andrzej , Kniaziewicz Magdalena
Published: January 2022

Tansy (Tanacetum vulgare L.) is an aromatic medicinal plant whose use is limited by the presence of toxic thujone. This research aimed to evaluate the morphological and chemical properties of tansy plants growing in various natural habitats. The research determined the content and chemical composition of the essential oil, the contents of flavonoids and phenolic acids, and the antioxidant activity levels of methanol extracts from tansy inflorescences. The highest amount of essential oil (1.05 mL·kg−1) was found in the raw material collected from the reclaimed area (R). Forty-seven compounds were identified in tansy oil, among which camphor (31.21–1.27%) and trans-chrysanthenyl acetate (76.09–0.09%) dominated, while the concentration of trans-thujone was low (2.67% on average). The highest amounts of flavonoids (0.52%) were found in the raw material collected from the ruderal (W) and reclaimed (R) sites, while the highest amount of phenolic acids (2.42%) was found in the raw material from the ruderal site (W). Tansy inflorescence extracts showed high antioxidant potential (88.41%). The reasons for the variability of the chemical composition of tansy were environmental and genetic variability factors.
Prevalence and Antimicrobial Resistance of Escherichia coli, Salmonella and Vibrio Derived from Farm-Raised Red Hybrid Tilapia (Oreochromis spp.) and Asian Sea Bass (Lates calcarifer, Bloch 1970) on the West Coast of Peninsular Malaysia
Authors: Dewi Rita Rosmala , Hassan Latiffah , Daud Hassan Mohammad , Matori Mohd. Fuad , Nordin Fauziah , Ahmad Nur Indah , Zakaria Zunita
Published: January 2022

Antibiotics are widely used in intensive fish farming, which in turn increases the emergence of antimicrobial-resistant (AMR) bacteria in the aquatic environment. The current study investigates the prevalence and determines the antimicrobial susceptibility of E. coli, Salmonella, and Vibrio in farmed fishes on the west coast of Peninsular Malaysia. Over a period of 12 months, 32 aquaculture farms from the Malaysian states of Selangor, Negeri Sembilan, Melaka, and Perak were sampled. Both E. coli and Salmonella were highly resistant to erythromycin, ampicillin, tetracycline, and trimethoprim, while Vibrio was highly resistant to ampicillin and streptomycin. Resistance to the antibiotics listed as the highest priority and critically important for human therapy, such as colistin in E. coli (18.1%) and Salmonella (20%) in fish, is a growing public health concern. The multi-drug resistance (MDR) levels of E. coli and Salmonella in tilapia were 46.5% and 77.8%, respectively. Meanwhile, the MDR levels of E. coli, Salmonella, V. parahaemolyticus, V. vulnificus and V. cholerae in Asian seabass were 34%, 100%, 21.6%, 8.3% and 16.7%, respectively. Our findings provide much-needed information on AMR in aquaculture settings that can be used to tailor better strategies for the use of antibiotics in aquaculture production at the local and regional levels.
The Evaluation of Eazyplex® SuperBug CRE Assay Usefulness for the Detection of ESBLs and Carbapenemases Genes Directly from Urine Samples and Positive Blood Cultures
Authors: Sękowska Alicja , Bogiel Tomasz
Published: January 2022

Increasing antimicrobial resistance of Gram-negative rods is an important diagnostic, clinical and epidemiological problem of modern medicine. Therefore, it is important to detect multi-drug resistant strains as early on as possible. This study aimed to evaluate Eazyplex® SuperBug CRE assay usefulness for beta-lactamase gene detection among Gram-negative rods, directly from urine samples and positive blood cultures. The Eazyplex® SuperBug CRE assay is based on a loop-mediated isothermal amplification of genetic material and allows for the detection of a selection of genes encoding carbapenemases, KPC, NDM, VIM, OXA-48, OXA-181 and extended-spectrum beta-lactamases from the CTX-M-1 and CTX-M-9 groups. A total of 120 clinical specimens were included in the study. The test gave valid results for 58 (96.7%) urine samples and 57 (95.0%) positive blood cultures. ESBL and/or carbapenemase enzymes genes were detected in 56 (93.3%) urine and 55 (91.7%) blood samples, respectively. The Eazyplex® SuperBug CRE assay can be used for a rapid detection of the genes encoding the most important resistance mechanisms to beta-lactams in Gram-negative rods also without the necessity of bacterial culture.
Resident-Related Factors Influencing Antibiotic Treatment Decisions for Urinary Tract Infections in Dutch Nursing Homes
Authors: Kolodziej Lisa Marie , Kuil Sacha Daniëlle , de Jong Menno Douwe , Schneeberger Caroline
Published: January 2022

The aim of this cohort study was to identify resident-related factors that influence antibiotic treatment decisions for urinary tract infections (UTIs) in nursing home residents and to provide an overview of the appropriateness of antibiotic treatment decisions according to the updated Dutch guideline for UTIs in frail older adults. The PROGRESS study dataset, consisting of 298 suspected UTI episodes in Dutch nursing home residents, was used. The presence of dysuria was associated with the highest frequency of antibiotic prescription (87.8%). Positive leukocyte esterase dipstick results showed the greatest increase in the risk of antibiotic prescription (RR 2.1, 95% CI 1.44 to 3.06). Treatment decisions were considered adequate in 64.1% of the suspected UTI episodes. Overtreatment occurred more often than undertreatment. Of the inadequate treatment decisions, 29.3% was due to treatment of UTI episodes in which solely non-specific symptoms were present. A high proportion of nitrofurantoin prescriptions were incorrect in UTIs with signs of tissue invasion (54.8%), indwelling catheter-associated UTIs (37.5%), and UTIs in men (29.2%). Although this is considered inadequate, non-specific symptoms were associated with antibiotic prescription for suspected UTIs in Dutch nursing home residents and nitrofurantoin was inadequately prescribed in particular groups, such as men.
Antioxidant Properties of Ester Derivatives of Cinnamic and Hydroxycinnamic Acids in Nigella sativa and Extra-Virgin Olive Oils-Based Emulsions
Authors: Perinelli Diego Romano , Torregiani Elisabetta , Bonacucina Giulia , Cespi Marco , Palmieri Giovanni Filippo , Gabbianelli Rosita
Published: January 2022

New hydrophobic derivatives of cinnamic and hydroxycinnamic (ferulic and cumaric) acids obtained by chemical esterification of the carboxylic group with C10 linear alcohol were studied to evaluate their antioxidant capacity toward the superoxide anion and hydrogen peroxide in physiological buffer and in extra-virgin olive oil (EVO) or Nigella sativa oils. Results showed that cumaric and ferulic acids have higher antioxidants activity against superoxide anion and hydrogen peroxide than the other compounds. Cumaric acid and its C10-ester derivative were selected to be incorporated into EVO or Nigella sativa oil-based emulsions. The prepared emulsions had a comparable particle size distribution (in the range of 3–4 µm) and physical stability at least up to three months. Nigella sativa oil-based emulsions loaded with cumaric acid or its C10-ester showed a higher capacity to scavenger superoxide anion and hydrogen peroxide than EVO oil-based emulsions. In conclusion, cumaric acid or its C10-ester could promote the antioxidant properties of Nigella sativa oil when formulated as emulsions.
Antioxidant and Anti-Inflammatory Activity of Combined Phycocyanin and Palmitoylethanolamide in Human Lung and Prostate Epithelial Cells
Authors: Bergandi Loredana , Apprato Giulia , Silvagno Francesca
Published: January 2022

Inflammation involving the innate and adaptive immune systems is a normal response to infection; however, when allowed to continue unchecked, inflammation may result in several pathologies. Natural molecules with antioxidant properties can target the key players of inflammation and exert beneficial health effects. In this study, human normal bronchial (Beas-2B) and prostate (HPrEpiC) epithelial cell lines were exposed to infectious stimulation and treated with phycocyanin (PC) and palmitoylethanolamide (PEA), with the aim of demonstrating the enhanced antioxidant and anti-inflammatory properties of the combination. The cotreatment protected from cytotoxicity and greatly abated both the production of radical oxygen species (ROS) and the transcription of several inflammatory cytokines. Oxidative stress and inflammation were curtailed by affecting three main pathways: (1) inhibition of cyclooxygenase-2 enzyme and consequent decrease of signaling generating ROS; (2) increased synthesis of glutathione and therefore strengthening of the natural antioxidant defenses of the cells; (3) decreased infection-driven mitochondrial respiratory burst which generates oxidative stress. Based on the mounting interest in using nutraceuticals as adjuvants in the clinical practice, the present study unveils new mechanisms of action and enhanced efficacy of PC and PEA, supporting the possible exploitation of this combination in human disorders.