bluuebunny/crossref_metadata_2025 huggingface dataset:
A Transcriptome Analysis Revealing the New Insight of Green Light on Tomato Plant Growth and Drought Stress Tolerance
Authors: Bian Zhonghua , Wang Yu , Zhang Xiaoyan , Grundy Steven , Hardy Katherine , Yang Qichang , Lu Chungui
Published: October 2021

Light plays a pivotal role in plant growth, development, and stress responses. Green light has been reported to enhance plant drought tolerance via stomatal regulation. However, the mechanisms of green light-induced drought tolerance in plants remain elusive. To uncover those mechanisms, we investigated the molecular responses of tomato plants under monochromatic red, blue, and green light spectrum with drought and well-water conditions using a comparative transcriptomic approach. The results showed that compared with monochromatic red and blue light treated plants, green light alleviated the drought-induced inhibition of plant growth and photosynthetic capacity, and induced lower stomatal aperture and higher ABA accumulation in tomato leaves after 9 days of drought stress. A total of 3,850 differentially expressed genes (DEGs) was identified in tomato leaves through pairwise comparisons. Functional annotations revealed that those DEGs responses to green light under drought stress were enriched in plant hormone signal transduction, phototransduction, and calcium signaling pathway. The DEGs involved in ABA synthesis and ABA signal transduction both participated in the green light-induced drought tolerance of tomato plants. Compared with ABA signal transduction, more DEGs related to ABA synthesis were detected under different light spectral treatments. The bZIP transcription factor- HY5 was found to play a vital role in green light-induced drought responses. Furthermore, other transcription factors, including WRKY46 and WRKY81 might participate in the regulation of stomatal aperture and ABA accumulation under green light. Taken together, the results of this study might expand our understanding of green light-modulated tomato drought tolerance via regulating ABA accumulation and stomatal aperture.
Transcription Factor TaWRKY51 Is a Positive Regulator in Root Architecture and Grain Yield Contributing Traits
Authors: Li Yuying , Zhang Yanfei , Li Chaonan , Chen Xin , Yang Lili , Zhang Jie , Wang Jingyi , Li Long , Reynolds Matthew P. , Jing Ruilian , Mao Xinguo , Wang Chenyang
Published: October 2021

Wheat is one of the staple food crops. The utilization of elite genetic resources to develop resource-efficient wheat varieties is an effective approach to deal with the challenges of climate change and population growth. WRKY transcription factors (TFs) are multifaceted regulators of plant growth and development and response to environmental stress. The previous studies have shown that TaWRKY51 positively regulates the development of lateral roots, while its roles in agronomic trait development are not clear, and there is no functional marker for molecular breeding. To bridge the gap, we cloned the three members of TaWRKY51 and found they were highly expressed in the roots and flag leaves at the flowering stage and were induced by the multiple abiotic stresses and phytohormones. The highest expression level was observed in TaWRKY51-2D, followed by TaWRKY51-2A and -2B. The two haplotypes/alleles for each member were identified in the natural populations, and functional markers were developed accordingly. The association assays revealed that Hap-2A-I was an elite haplotype for the large spike, Hap-2B-II and allele-G were favorable haplotypes/alleles for long root. However, only Hap-2A-I was selected for wheat breeding in China. The results of transgenic experiments showed that the rice lines overexpressing TaWRKY51 had large panicle, high thousand-grain-weight, and more crown and lateral roots, which further confirmed the results of association analysis. In short, TaWRKY51 is a positive regulator of the root architecture and grain yield (GY) contributing traits. The elite gene resources and functional markers may be utilized in the marker-assisted selection for high-yield breeding in wheat.
Nutrient Alteration Drives the Impacts of Seawater Acidification on the Bloom-Forming Dinoflagellate Karenia mikimotoi
Authors: Liu Qian , Wang Yanqun , Li Yuanyuan , Li Yijun , Wang You , Zhou Bin , Zhou Zhongyuan
Published: October 2021

Seawater acidification and nutrient alteration are two dominant environmental factors in coastal environments that influence the dynamics and succession of marine microalgae. However, the impacts of their combination have seldom been recorded. A simulated experimental system was set up to mimic the effects of elevated acidification on a bloom-forming dinoflagellate, Karenia mikimotoi, exposed to different nutrient conditions, and the possible mechanism was discussed. The results showed that acidification at different pH levels of 7.6 or 7.4 significantly influenced microalgal growth (p<0.05) compared with the control at pH 8.0. Mitochondria, the key sites of aerobic respiration and energy production, were impaired in a pH-dependent manner, and a simultaneous alteration of reactive oxygen species (ROS) production occurred. Cytochrome c oxidase (COX) and citrate synthase (CS), two mitochondrial metabolism-related enzymes, were actively induced with acidification exposure, suggesting the involvement of the mitochondrial pathway in coping with acidification. Moreover, different nutrient statuses indicated by various N:P ratios of 7:1 (N limitation) and 52:1 (P limitation) dramatically altered the impacts of acidification compared with those exposed to an N:P ratio of 17:1 (control), microalgal growth at pH 7.4 was obviously accelerated with the elevation of the nutrient ratio compared to that at pH 8.1 (p<0.05), and nutrient limitations seemed beneficial for growth in acidifying conditions. The production of alkaline phosphatase (AP) and acid phosphatase (AcP), an effective index indicating the microalgal growth status, significantly increased at the same time (p<0.05), which further supported this speculation. However, nitrate reductase (NR) was slightly inhibited. Hemolytic toxin production showed an obvious increase as the N:P ratio increased when exposed to acidification. Taken together, mitochondrial metabolism was suspected to be involved in the process of coping with acidification, and nutrient alterations, especially P limitation, could effectively alleviate the negative impacts induced by acidification. The obtained results might be a possible explanation for the competitive fitness of K. mikimotoi during bloom development.
Rapid Detection and Quantification of Plant Innate Immunity Response Using Raman Spectroscopy
Authors: Chung Pil Joong , Singh Gajendra P. , Huang Chung-Hao , Koyyappurath Sayuj , Seo Jun Sung , Mao Hui-Zhu , Diloknawarit Piyarut , Ram Rajeev J. , Sarojam Rajani , Chua Nam-Hai
Published: October 2021

We have developed a rapid Raman spectroscopy-based method for the detection and quantification of early innate immunity responses in Arabidopsis and Choy Sum plants. Arabidopsis plants challenged with flg22 and elf18 elicitors could be differentiated from mock-treated plants by their Raman spectral fingerprints. From the difference Raman spectrum and the value of p at each Raman shift, we derived the Elicitor Response Index (ERI) as a quantitative measure of the response whereby a higher ERI value indicates a more significant elicitor-induced immune response. Among various Raman spectral bands contributing toward the ERI value, the most significant changes were observed in those associated with carotenoids and proteins. To validate these results, we investigated several characterized Arabidopsis pattern-triggered immunity (PTI) mutants. Compared to wild type (WT), positive regulatory mutants had ERI values close to zero, whereas negative regulatory mutants at early time points had higher ERI values. Similar to elicitor treatments, we derived an analogous Infection Response Index (IRI) as a quantitative measure to detect the early PTI response in Arabidopsis and Choy Sum plants infected with bacterial pathogens. The Raman spectral bands contributing toward a high IRI value were largely identical to the ERI Raman spectral bands. Raman spectroscopy is a convenient tool for rapid screening for Arabidopsis PTI mutants and may be suitable for the noninvasive and early diagnosis of pathogen-infected crop plants.
The Strengths and Difficulties Questionnaire Predicts Concurrent Mental Health Difficulties in a Transdiagnostic Sample of Struggling Learners
Authors: Bryant Annie , Guy Jacalyn ,   The CALM Team, Holmes Joni
Published: October 2021

Children and adolescents with developmental problems are at increased risk of experiencing mental health problems. The Strengths and Difficulties Questionnaire (SDQ) is widely used as a screener for detecting mental health difficulties in these populations, but its use thus far has been restricted to groups of children with diagnosed disorders (e.g., ADHD). Transdiagnostic approaches, which focus on symptoms and soften or remove the boundaries between traditional categorical disorders, are increasingly adopted in research and practice. The aim of this study was to assess the potential of the SDQ to detect concurrent mental health problems in a transdiagnostic sample of children. The sample were referred by health and educational professionals for difficulties related to learning (N = 389). Some had one diagnosis, others had multiple, but many had no diagnoses. Parent-rated SDQ scores were significantly positively correlated with parent ratings of mental health difficulties on the Revised Child Anxiety and Depression Scale (RCADS). Ratings on the SDQ Emotion subscale significantly predicted the likelihood of having concurrent clinical anxiety and depression scores. Ratings on the Hyperactivity subscale predicted concurrent anxiety levels. These findings suggest the SDQ could be a valuable screening tool for identifying existing mental health difficulties in children recognized as struggling, as it can be in typically developing children and those with specific diagnoses.
Shedding Light on the Extended Mind: HoloLens, Holograms, and Internet-Extended Knowledge
Authors: Smart Paul R.
Published: October 2021

The application of extended mind theory to the Internet and Web yields the possibility ofInternet-extended knowledge—a form of extended knowledge that arises as a result of an individual's interactions with the online environment. The present paper seeks to advance our understanding of Internet-extended knowledge by describing the functionality of a real-world application, called the HoloArt app. In part, the goal of the paper is illustrative: it is intended to show how recent advances in mixed reality, cloud-computing, and machine intelligence might be combined so as to yield a putative case of Internet-extended knowledge. Beyond this, however, the paper is intended to support the philosophical effort to understand the notions of extended knowledge and the extended mind. In particular, the HoloArt app raises questions about the universality of some of the criteria that have been used to evaluate putative cases of cognitive extension. The upshot is a better appreciation of the way in which claims about extended knowledge and the extended mind might be affected by a consideration of technologically-advanced resources.
The Effectiveness of a Centering Meditation Intervention on College Stress and Mindfulness: A Randomized Controlled Trial
Authors: Dorais Stephanie , Gutierrez Daniel
Published: October 2021

Background: Mental health concerns are climbing steadily on college campuses, and universities do not have the staffing and financial resources to address the overwhelming needs of students seeking counseling services. College counselors generally must place students on waitlists or refer them to external resources. Further, during the COVID-19 pandemic, university counselors have been working tirelessly to treat students through online formats. Alternative, online, evidence-based interventions offer college counselors a significant advantage in effectively treating their students. We seek to expand the empirical evidence for mindfulness interventions through online formats for the college population. We registered the study (ISRCTN13587045) at www.isrctn.com.

Objective: We examined the effectiveness of a unique online centering meditation and its impact on stress and trait mindfulness in the college population.

Methods: Through a randomized controlled trial, the treatment group participated in a 4-week intervention of centering for 10 min each morning and night. We measured stress and mindfulness in both groups through the Perceived Stress Scale and Cognitive and Affective Mindfulness Scale-Revised at baseline, 2 weeks, and 4 weeks.

Results: The centering meditation treatment had a statistically significant positive impact on stress and mindfulness compared to a waitlist control group. The meditation group had an average of 64% adherence rate.

Conclusion: The study findings indicate that individuals who participate in a 4-week online centering intervention showed improved levels of stress and trait mindfulness over time.

Clinical Trial Registration: WHO International Clinical Registry Platform, identifier: ISRCTN13587045.
The Study of Security Priming on Avoidant Attentional Biases: Combining Microsaccadic Eye-Movement Measurement With a Dot-Probe Task
Authors: Mellor Rebecca Louise , Psouni Elia
Published: October 2021

Microsaccades are small fixational eye movements that have shown to index covert attentional shifts. The present experiment combined microsaccades with performance measures from a dot-probe task to study influences of attachment security priming on the attentional biases of individuals high in attachment avoidance. Security priming is an experimental manipulation aimed at boosting felt security. Using a randomized, mixed design, we measured differences in attentional vigilance toward angry and neutral faces as a function of priming (neutral vs. secure) and attachment avoidance. Individuals high in avoidance habitually tend to withdraw from, or otherwise dismiss, emotionally salient stimuli. Here, we operationalized attentional withdrawal based on both task performance in the dot-probe task and microsaccadic movements. In addition, unlike previous studies where priming salience for the individual participant has been unclear, we used a standardized narrative method for attachment script assessment, securing an indication of how strongly each participant was primed. Dot-probe data significantly captured the link between avoidance and attentional disengagement, though from all facial stimuli (angry and neutral). Although microsaccadic movements did not capture avoidant attentional disengagement, they positively correlated to dot-probe data suggesting measurement convergence. Avoidance was associated with weaker security priming and no overall effect of priming on attention was found, indicating a need for further exploration of suitable priming methods to bypass avoidant deactivation. Our results provide a first indication that, as an implicit looking measure, microsaccadic movements can potentially reveal where early attention is directed at the exact moment of stimulus presentation.
Speech Perception in Noise Predicts Oral Narrative Comprehension in Children With Developmental Language Disorder
Authors: Magimairaj Beula M. , Nagaraj Naveen K. , Champlin Craig A. , Thibodeau Linda K. , Loeb Diane F. , Gillam Ronald B.
Published: October 2021

We examined the relative contribution of auditory processing abilities (tone perception and speech perception in noise) after controlling for short-term memory capacity and vocabulary, to narrative language comprehension in children with developmental language disorder. Two hundred and sixteen children with developmental language disorder, ages 6 to 9 years (Mean = 7; 6), were administered multiple measures. The dependent variable was children's score on the narrative comprehension scale of the Test of Narrative Language. Predictors were auditory processing abilities, phonological short-term memory capacity, and language (vocabulary) factors, with age, speech perception in quiet, and non-verbal IQ as covariates. Results showed that narrative comprehension was positively correlated with the majority of the predictors. Regression analysis suggested that speech perception in noise contributed uniquely to narrative comprehension in children with developmental language disorder, over and above all other predictors; however, tone perception tasks failed to explain unique variance. The relative importance of speech perception in noise over tone-perception measures for language comprehension reinforces the need for the assessment and management of listening in noise deficits and makes a compelling case for the functional implications of complex listening situations for children with developmental language disorder.
The Generation of Involuntary Mental Imagery in an Ecologically-Valid Task
Authors: Velasquez Anthony G. , Gazzaley Adam , Toyoda Heishiro , Ziegler David A. , Morsella Ezequiel
Published: October 2021

Laboratory tasks (e.g., the flanker task) reveal that incidental stimuli (e.g., distractors) can reliably trigger involuntary conscious imagery. Can such involuntary effects, involving competing representations, arise during dual-task conditions? Another concern about these laboratory tasks is whether such effects arise in highly ecologically-valid conditions. For example, do these effects arise from tasks involving dynamic stimuli (e.g., simulations of semi-automated driving experiences)? The data from our experiment suggest that the answer to our two questions is yes. Subjects were presented with video footage of the kinds of events that one would observe if one were seated in the driver's seat of a semi-automated vehicle. Before being presented with this video footage, subjects had been trained to respond to street signs according to laboratory techniques that cause stimulus-elicited involuntary imagery. After training, in the Respond condition, subjects responded to the signs; in the Suppress condition, subjects were instructed to not respond to the signs in the video footage. Subjects in the Suppress condition reported involuntary imagery on a substantive proportion of the trials. Such involuntary effects arose even under dual-task conditions (while performing the n-back task or psychomotor vigilance task). The present laboratory task has implications for semi-automated driving, because the safe interaction between driver and vehicle requires that the communicative signals from vehicle to driver be effective at activating the appropriate cognitions and behavioral inclinations. In addition, our data from the dual-task conditions provide constraints for theoretical models of cognitive resources.
Prevalence of Behavioral and Psychological Symptoms of Dementia in Community-Dwelling Dementia Patients: A Systematic Review
Authors: Kwon Chan-Young , Lee Boram
Published: October 2021

Background: Identifying the characteristics of behavioral and psychological symptoms of dementia (BPSD) associated with different dementia types may be a promising strategy to effectively deal with BPSD. We aimed to synthesize the prevalence rates of BPSD characteristics in community-dwelling dementia patients.

Methods: We searched Medline, EMBASE, and PsycARTICLES databases for original clinical studies published until December 2020 that enrolled at least 300 community-dwelling dementia patients. The methodological qualities of prevalence studies were assessed using the Joanna Briggs Institute's critical appraisal checklist.

Results: Thirty studies were included. The prevalence of the BPSD characteristic ranged from 4 (elation and mania) to 32% (apathy) in the pooled samples. The prevalence of delusions, anxiety, apathy, irritability, elation and mania, and aberrant motor behavior in Alzheimer's disease patients was 1.72–2.88 times greater than that in vascular dementia (VD) patients, while the prevalence of disinhibition in VD patients was 1.38 times greater. The prevalence of anxiety, irritability, and agitation and aggression, delusion, hallucinations, apathy, disinhibition, and aberrant motor behavior tended to increase as the severity of dementia increased, while that of depression, eating disorder, sleep disorders, and elation and mania tended to stable. In community-dwelling patients with dementia, the pooled prevalence of apathy, depression, anxiety, irritability, agitation and aggression, sleep disorders, and eating disorder was higher than 20%, while that of disinhibition and elation and mania was lower than 10%.

Conclusion: Overall, the pooled prevalence of apathy, depression, anxiety, irritability, agitation and aggression, sleep disorders, and eating disorder was generally high in patients with dementia. Also, the prevalence of some BPSD characteristics differed according to the type and the severity of dementia. The methodological quality of the included studies is not the best, and high heterogeneity may affect the certainty of the findings. However, the results of this review can deepen our understanding of the prevalence of BPSD.

Systematic Review Registration:https://osf.io/dmj7k, identifier: 10.17605/OSF.IO/DMJ7K.
Detecting Symptom Errors in Neural Machine Translation of Patient Health Information on Depressive Disorders: Developing Interpretable Bayesian Machine Learning Classifiers
Authors: Xie Wenxiu , Ji Meng , Zhao Mengdan , Zhou Tianqi , Yang Fan , Qian Xiaobo , Chow Chi-Yin , Lam Kam-Yiu , Hao Tianyong
Published: October 2021

Background: Due to its convenience, wide availability, low usage cost, neural machine translation (NMT) has increasing applications in diverse clinical settings and web-based self-diagnosis of diseases. Given the developing nature of NMT tools, this can pose safety risks to multicultural communities with limited bilingual skills, low education, and low health literacy. Research is needed to scrutinise the reliability, credibility, usability of automatically translated patient health information.

Objective: We aimed to develop high-performing Bayesian machine learning classifiers to assist clinical professionals and healthcare workers in assessing the quality and usability of NMT on depressive disorders. The tool did not require any prior knowledge from frontline health and medical professionals of the target language used by patients.

Methods: We used Relevance Vector Machine (RVM) to increase generalisability and clinical interpretability of classifiers. It is a typical sparse Bayesian classifier less prone to overfitting with small training datasets. We optimised RVM by leveraging automatic recursive feature elimination and expert feature refinement from the perspective of health linguistics. We evaluated the diagnostic utility of the Bayesian classifier under different probability cut-offs in terms of sensitivity, specificity, positive and negative likelihood ratios against clinical thresholds for diagnostic tests. Finally, we illustrated interpretation of RVM tool in clinic using Bayes' nomogram.

Results: After automatic and expert-based feature optimisation, the best-performing RVM classifier (RVM_DUFS12) gained the highest AUC (0.8872) among 52 competing models with distinct optimised, normalised features sets. It also had statistically higher sensitivity and specificity compared to other models. We evaluated the diagnostic utility of the best-performing model using Bayes' nomogram: it had a positive likelihood ratio (LR+) of 4.62 (95% C.I.: 2.53, 8.43), and the associated posterior probability (odds) was 83% (5.0) (95% C.I.: 73%, 90%), meaning that approximately 10 in 12 English texts with positive test are likely to contain information that would cause clinically significant conceptual errors if translated by Google; it had a negative likelihood ratio (LR-) of 0.18 (95% C.I.: 0.10,0.35) and associated posterior probability (odds) was 16% (0.2) (95% C.I: 10%, 27%), meaning that about 10 in 12 English texts with negative test can be safely translated using Google.
Severe Pneumonia Caused by Infection With Tropheryma whipplei Complicated With Acinetobacter baumannii Infection: A Case Report Involving a Young Woman
Authors: Wang Sheng , Xia Demeng , Wu Jianghong , Jia Dandan , Li Lei , Xu Shuogui
Published: October 2021

Whipple's disease is a very rare systemic infectious disease, and very few cases have been reported. However, it can be fatal if not diagnosed and treated appropriately. The major clinical manifestations of this disease are usually digestive and nervous system symptoms. The majority of patients are male and between 40 and 50 years old. Although respiratory symptoms of this disease have rarely been reported, they pose a serious threat to the lives of the patients, especially when they progress to severe pneumonia. During admission to the hospital, Acinetobacter baumannii infection makes treatment more difficult. While most patients are middle-aged men, more attention should be given to the diagnosis and treatment of affected young women. To our knowledge, the case presented in the study is the first case of Tropheryma whipplei infection that resulted in severe pneumonia and was complicated by A. baumannii infection during treatment. We hope that our study can serve as a reference for the diagnosis and treatment of related cases in the future.
Resilience and Higher Education Support as Protective Factors for Student Academic Stress and Depression During Covid-19 in the Netherlands
Authors: Versteeg Melissa , Kappe Rutger
Published: October 2021

Background: The corona pandemic has forced higher education (HE) institutes to transition to online learning, with subsequent implications for student wellbeing.

Aims: This study explored influences on student wellbeing throughout the first wave of the corona crisis in the Netherlands by testing serial mediation models of the relationships between perceived academic stress, depression, resilience, and HE support.

Methods: The Covid-19 International Student Wellbeing Study (C19 ISWS) was used, with a total sample of 2,480 higher education students studying at InHolland Universities of Applied Sciences in the Netherlands. Student subgroups were created, so that students with low and high perceived academic stress could be assessed, in addition to depressed and non-depressed students. Predictive model fit was tested using Macro PROCESS.

Results: A significant serial mediation model for the total student sample was revealed, including protective mediating effects of resilience and HE support on the positive direct effect of perceived academic stress on depression. At subgroup level, significant (partial) predictive effects of resilience on depression scores were noted. A partial serial effect between resilience and HE support was found for students with low perceived stress levels, whereas a parallel partial mediation model was present among highly academically stressed students. Regarding non-depressed students, a full parallel mediation model was found, whereas the model for depressed students inadequately explained the data.

Conclusions: Overall, resilience and HE support mediate the predictive effect of academic stress on depressive symptoms among students. In addition, substantial differences in model fit arise when inspecting the students on a subgroup level. These findings contribute to the gap in knowledge regarding student wellbeing during the Covid-19 pandemic in the Netherlands, in addition to providing novel insights on student subgroup dynamics. While Covid-19 restrictions continue to demand online learning, student wellbeing may be enhanced overall by targeting resilience and increasing awareness and availability of HE support services. The current study also highlights the need for differential approaches when examining wellbeing for specific student groups.
Genetic Algorithm for Feature Selection in Lower Limb Pattern Recognition
Authors: Schulte Robert V. , Prinsen Erik C. , Hermens Hermie J. , Buurke Jaap H.
Published: October 2021

Choosing the right features is important to optimize lower limb pattern recognition, such as in prosthetic control. EMG signals are noisy in nature, which makes it more challenging to extract useful information. Many features are used in the literature, which raises the question which features are most suited for use in lower limb myoelectric control. Therefore, it is important to find combinations of best performing features. One way to achieve this is by using a genetic algorithm, a meta-heuristic capable of searching vast feature spaces. The goal of this research is to demonstrate the capabilities of a genetic algorithm and come up with a feature set that has a better performance than the state-of-the-art feature set. In this study, we collected a dataset containing ten able-bodied subjects who performed various gait-related activities while measuring EMG and kinematics. The genetic algorithm selected features based on the performance on the training partition of this dataset. The selected feature sets were evaluated on the remaining test set and on the online benchmark dataset ENABL3S, against a state-of-the-art feature set. The results show that a feature set based on the selected features of a genetic algorithm outperforms the state-of-the-art set. The overall error decreased up to 0.54% and the transitional error by 2.44%, which represent a relative decrease in overall errors up to 11.6% and transitional errors up to 14.1%, although these results were not significant. This study showed that a genetic algorithm is capable of searching a large feature space and that systematic feature selection shows promising results for lower limb myoelectric control.
Post-exercise Cold Water Immersion Does Not Improve Subsequent 4-km Cycling Time-Trial Compared With Passive and Active Recovery in Normothermia
Authors: Egaña Mikel , Allen Lynn , Gleeson Kate , Gildea Norita , Warmington Stuart
Published: October 2021

Background: We investigated whether a brief cold water immersion between two cycling time trials (TT) improves the performance of the latter compared with passive and active recovery in normothermic conditions (~20°C).

Methods: In Experiment 1 10 active participants (4 women) completed two 4-km TT (Ex1 and Ex2, each preceded by a 12 min moderate-intensity warm-up) separated by a 15 min recovery period consisting of: (a) passive rest (PAS) or (b) 5 min cold water immersion at 8°C (CWI-5). In Experiment 2, 13 different active males completed the same Ex1 and Ex2 bouts separated by a 15 min recovery consisting of: (a) PAS, (b) 10 min cold water immersion at 8°C (CWI-10) or (c) 15 min of moderate-intensity active recovery (ACT).

Results: In both experiments, the time to complete the 4-km TT-s was not different (P > 0.05, ES = 0.1) among the trials neither in Ex1 (Experiment 1: PAS: 414 ± 39 s; CWI-5: 410 ± 39 s; Experiment 2: PAS: 402 ± 41 s; CWI-10: 404 ± 43 s; ACT: 407 ± 41 s) nor Ex2 (Experiment 1: PAS: 432 ± 43 s; CWI-5: 428 ± 47 s; Experiment 2: PAS: 418 ± 52 s; CWI-10: 416 ± 57 s; ACT: 421 ± 50 s). In addition, in all conditions, the time to complete the time trials was longer (P < 0.05, ES = 0.4) in Ex2 than Ex1. Core temperature was lower (P < 0.05) during the majority of Ex2 after CW-5 compared with passive rest (Experiment 1) and after CWI-10 compared with PAS and ACT (Experiment 2). Perceived exertion was also lower (P < 0.05) at mid-point of Ex2 after CWI-5 compared with PAS (Experiment 1) as well as overall lower during the CWI-10 compared with PAS and ACT conditions (Experiment 2).

Conclusion: A post-exercise 5–10 min cold water immersion does not influence subsequent 4-km TT performance in normothermia, despite evoking reductions in thermal strain.
Northern Food Systems in Transition: The Role of the Emerging Agri-Food Industry in the Northwest Territories (Canada) Food System
Authors: Lemay Margaret A. , Radcliffe Josalyn , Bysouth David , Spring Andrew
Published: October 2021

This paper reports the findings of an ethnographic study that involved working with local organizations, food advocates, and communities to develop strategies for expanding the nascent Northwest Territories (NWT), Canada agri-food industry. The NWT represents a unique case study in that the fledging agri-food industry has been recognized for its promise in contributing to the core goals of the transitioning NWT food system. The study is guided by two research questions: (1) How is the promise of the emerging NWT agri-food industry framed within the context of the broader food system? (2) Given this framing of the NWT agri-food industry, how can it contribute to the sustainability of the NWT food system and to the goals of food security, poverty reduction, nutrition, and economic development? Grounded in a food systems approach, we used a correlative, evolutionary SWOT analysis to profile the nascent NWT agri-food industry within the context of the existing NWT food system. Through further thematic analysis, we identify and describe two dominant narratives (agri-food industry business case narrative and agri-food industry implications narrative) and key themes within the narratives based on an adapted food systems framework. The agri-food business case narrative highlights discourse articulating the business or commercial viability for a local agri-food value chain to function, evolve, and expand. The agri-food industry implications narrative envisions the ways in which the emerging NWT agri-food industry may interact within the existing NWT food system, highlighting potential environmental, social, cultural, and political implications of an expanding commercial-based agri-food value chain. Within the two narratives, certain subcomponents of the NWT agri-food system appear to be more prevalent, including climate, soil, and ecosystems, policy/regulations/governance, socio-cultural norms, knowledge, inputs, finance, production, and consumption. We make policy and practice recommendations for co-designing an agri-food industry that serves the multiple goals of the NWT food system. As an exploratory, descriptive-structural analysis the study provides a critical empirical basis for future in-depth, fully integrated synthesis of the complex social, cultural, economic, political, and ecological dynamics shaping Northern food systems in transition.
Intercropping With Peppermint Increases Ground Dwelling Insect and Pollinator Abundance and Decreases Drosophila suzukii in Fruit
Authors: Gowton Chelsea Megan , Cabra-Arias César , Carrillo Juli
Published: October 2021

Intercropping can be used to reduce pest insects within agricultural systems, e.g., through deterring pests directly or by increasing habitat for their natural enemies. For example, plant produced volatile organic compounds (VOCs) can deter or confuse host-finding by insects through olfactory disruption. Drosophila suzukii is an invasive fruit fly of agricultural concern as it can lay its eggs in both ripening and fresh fruits and, uses olfactory cues to identify its wide range of host plants. Peppermint plants (Mentha × piperita) produce high levels of VOCs while growing and may, therefore, be suitable as an intercrop to reduce D. suzukii infestations in the field, as peppermint essential oil VOCs have previously been shown to deter D. suzukii in olfactory trials. We conducted a field intercropping experiment to evaluate the effectiveness of peppermint plants compared to traditional ryegrass/clover mixes in reducing D. suzukii oviposition in the field, and the effect of peppermint intercrops on other invertebrates. In the field, we monitored sentinel fruit baits weekly for D. suzukii infestation. Additionally, we monitored intercropping effects on the invertebrate community through weekly pitfall trap collection and through a pollinator point survey. We monitored for local, farm level presence of D. suzukii through apple cider vinegar traps within crop fields and along hedgerows and found high abundance of D. suzukii (>3,000 individuals trapped). Peppermint intercrops had fewer D. suzukii emerge from fruit baits and supported greater beneficial insect abundance (predators and pollinators) compared to ryegrass/clover. However, levels of D. suzukii were low across both intercrop types. Overall, we found that peppermint intercrops could be a potential aromatic intercrop used to reduce D. suzukii adult emergence from fruit compared to conventional ryegrass/clover mixes, however this trial should be replicated over multiple growing seasons, geographic locations, and host fruits. Furthermore, further study should determine the effects of the intercrop on the focal crop of interest.
Feasibility and Reliability of the AWIN Welfare Assessment Protocol for Dairy Goats in Semi-extensive Farming Conditions
Authors: Battini Monica , Renna Manuela , Giammarino Mauro , Battaglini Luca , Mattiello Silvana
Published: October 2021

The aim of this study was to test the feasibility and reliability of the Animal Welfare Indicators (AWIN) protocol for welfare assessment of dairy goats when applied to semi-extensive farming conditions. We recruited 13 farms located in the NW Italian Alps where three assessors individually and independently applied a modified version of the AWIN welfare assessment protocol for goats integrated with some indicators derived from the AWIN welfare assessment protocol for sheep. The applied protocol consisted of nine individual-level (body condition score, hair coat condition, abscesses, overgrown claws, udder asymmetry, fecal soiling, nasal discharge, ocular discharge, and improper disbudding) and seven group-level (severe lameness, Qualitative Behavior Assessment-QBA, thermal stress, oblivion, Familiar Human Approach Test-FHAT, synchrony at grazing, synchrony at resting) animal-based indicators. On most farms, the level of welfare was good. Many of the considered welfare problems (overgrown claws, fecal soiling, discharges, and thermal stress) were never recorded. However, oblivion, severe lameness, hair coat condition and abscesses were detected on some farms, with percentages ranging from 5 to 35%. The mean percentage of animals with normal body condition was 67.9 ± 5.7. The level of synchronization during resting was on average low (14.3 ± 7.2%). The application of the whole protocol required more than 4 h/farm and 3 min/goat. The inter-observer reliability varied from excellent (udder asymmetry, overgrown claws, discharges, synchrony at resting, use of shelter) to acceptable (abscesses, fecal soiling, and oblivion), but insufficient for hair coat condition, improper disbudding, synchrony at grazing, QBA. Differences in background of the assessors and feasibility constraints (i.e., use of binoculars in unfenced pastures, individual-level assessment conducted during the morning milking in narrow and dark pens, difficulties when using the scan and instantaneous sampling method due to the high number of animals that moved at the same time) can affect the reliability of data collection. Extensive training seems necessary for properly scoring animals when applying the QBA, whereas the FHAT to evaluate the Human-Animal Relationship of goats at pasture seems promising but needs to be validated. Indicators that evaluate the synchrony of activities require to be validated to identify the best moment to perform the observations during the day.
Hallmarks of Retroelement Expression in T-Cells Treated With HDAC Inhibitors
Authors: Curty Gislaine , Iñiguez Luis P. , Nixon Douglas F. , Soares Marcelo A. , de Mulder Rougvie Miguel
Published: October 2021

A wide spectrum of drugs have been assessed as latency reversal agents (LRA) to reactivate HIV-1 from cellular reservoirs and aid in viral eradication strategies. Histone deacetylase inhibitors (HDACi) have been studied in vitro and in vivo as potential candidates for HIV-1 latency reversion. Suberoylanilide hydroxamic acid (SAHA) and romidepsin (RMD) are two HDACi able to reverse HIV latency, however studies of potential off-target effects on retroelement expression have been limited. Retroelements constitute a large portion of the human genome, and some are considered “fossil viruses” as they constitute remnants of ancient exogenous retroviruses infections. Retroelements are reactivated during certain disease conditions like cancer or during HIV-1 infection. In this study, we analyzed differential expression of retroelements using publicly available RNA-seq datasets (GSE102187 and GSE114883) obtained from uninfected CD4+, and HIV-1 latently infected CD4+ T-cells treated with HDACi (SAHA and RMD). We found a total of 712 and 1,380 differentially expressed retroelements in HIV-1 latently infected cells following a 24-h SAHA and RMD treatment, respectively. Furthermore, we found that 531 retroelement sequences (HERVs and L1) were differentially expressed under both HDACi treatments, while 1,030 HERV/L1 were exclusively regulated by each drug. Despite differences in specific HERV loci expression, the overall pattern at the HERV family level was similar for both treatments. We detected differential expression of full-length HERV families including HERV-K, HERV-W and HERV-H. Furthermore, we analyzed the link between differentially expressed retroelements and nearby immune genes. TRAF2 (TNF receptor) and GBP5 (inflammasome activator) were upregulated in HDACi treated samples and their expression was correlated with nearby HERV (MERV101_9q34.3) and L1 (L1FLnI_1p22.2k, L1FLnI_1p22.2j, L1FLnI_1p22.2i). Our findings suggest that HDACi have an off-target effect on the expression of retroelements and on the expression of immune associated genes in treated CD4+ T-cells. Furthermore, our data highlights the importance of exploring the interaction between HIV-1 and retroelement expression in LRA treated samples to understand their role and impact on “shock and kill” strategies and their potential use as reservoir biomarkers.
A High-Performance Database Management System for Managing and Analyzing Large-Scale SNP Data in Plant Genotyping and Breeding Applications
Authors: Zhao Yikun , Jiang Bin , Huo Yongxue , Yi Hongmei , Tian Hongli , Wu Haotian , Wang Rui , Zhao Jiuran , Wang Fengge
Published: October 2021

A DNA fingerprint database is an efficient, stable, and automated tool for plant molecular research that can provide comprehensive technical support for multiple fields of study, such as pan-genome analysis and crop breeding. However, constructing a DNA fingerprint database for plants requires significant resources for data output, storage, analysis, and quality control. Large amounts of heterogeneous data must be processed efficiently and accurately. Thus, we developed plant SNP database management system (PSNPdms) using an open-source web server and free software that is compatible with single nucleotide polymorphism (SNP), insertion–deletion (InDel) markers, Kompetitive Allele Specific PCR (KASP), SNP array platforms, and 23 species. It fully integrates with the KASP platform and allows for graphical presentation and modification of KASP data. The system has a simple, efficient, and versatile laboratory personnel management structure that adapts to complex and changing experimental needs with a simple workflow process. PSNPdms internally provides effective support for data quality control through multiple dimensions, such as the standardized experimental design, standard reference samples, fingerprint statistical selection algorithm, and raw data correlation queries. In addition, we developed a fingerprint-merging algorithm to solve the problem of merging fingerprints of mixed samples and single samples in plant detection, providing unique standard fingerprints of each plant species for construction of a standard DNA fingerprint database. Different laboratories can use the system to generate fingerprint packages for data interaction and sharing. In addition, we integrated genetic analysis into the system to enable drawing and downloading of dendrograms. PSNPdms has been widely used by 23 institutions and has proven to be a stable and effective system for sharing data and performing genetic analysis. Interested researchers are required to adapt and further develop the system.
Development, Fabrication and Performance Evaluation of Mango Pulp Extractor for Cottage Industry
Authors: Akram Muhammad Ehtasham , Khan Muhammad Azam , Khan Muhammad Usman , Amin Usman , Haris Muhammad , Mahmud Md Sultan , Zahid Azlan , Pateiro Mirian , Lorenzo José M.
Published: October 2021

The loss of fresh fruits after harvesting is not new since it has constantly been a challenge for humankind. The growing population in developing countries, where food shortages exist, require serious food security measures to address hunger and malnutrition. Present research focused on the development, fabrication and testing of mango pulp extractor to assist small-scale fruit farmers in the countryside with a view to minimizing fruit spoilage. The unit, whose major material was food grade stainless steel (SS-304), consists of major components such as teflon brushes mounted shaft, motor, main frame, hopper, extraction compartment, pulp outlet, fruit residue outlet, perforated sieve and bearings. After construction, the machine was tested at three feed rate (2.0, 2.5, 3.0 kg/min) and extraction speed levels (500, 900 and 1400 rpm). Each of these factors was replicated three times, which resulted into 3 × 3 × 3 factorial experimental design. The optimum operating parameters for maximum pulp yield, maximum extraction efficiency and minimum extraction losses were determined. The physicochemical analysis of the extracted pulp was also carried out. Results revealed a maximum pulp yield of 77.9%, highest extraction efficiency of 96.03% and highest extraction loss of 9.3%. The mango pulp extraction machine was found to be affordable, easy to operate and maintain. The breakeven point of the machine was found to be 40 h if the machine is operated at its peak capacity. Therefore, it is recommended for small-scale farmers and for cottage industry.
Measurement and Evaluation of the Efficiency and Total Productivity of Dairy Farms in Poland
Authors: Świtłyk Michał , Sompolska-Rzechuła Agnieszka , Kurdyś-Kujawska Agnieszka
Published: October 2021

The aim of the article is to measure and evaluate the economic and technical efficiency as well as the total productivity of dairy farms in Poland. The research used data from the Polish FADN. The analysis covered the years 2008–2017. The study group consisted of 730 farms. An iteration-optimization method, k-means clustering, non-parametric DEA method, and aggregated Färe–Primont indexes were used to achieve the goal. The conducted research allowed for the distinction of four types of dairy farms with different levels of economic efficiency. We prove that the costs of labor, energy, maintenance of machines and buildings, fodder, depreciation, and overheads, as well as agricultural land, affect the technical efficiency and total productivity of dairy farms. We also prove that over the analyzed years, technical efficiency decreased in all groups of dairy farms, while the Färe–Primont index of total productivity changes slightly increased. The validity of these studies and their practical significance result from the need to improve the competitiveness of dairy farms and increase their profitability. Our research fills a gap in research on measuring and evaluating the efficiency and productivity of dairy farms, and at the same time represents an original approach to the studied phenomenon. Moreover, it allows for the explanation of differences in the effectiveness of different types of dairy farms, providing useful information for the design of effective targeted policy interventions to improve the competitiveness of the Polish dairy sector. There are opportunities to improve both the technical efficiency and productivity of dairy farms in Poland. This increase will be possible thanks to the improvement of agricultural advisory services and ensuring that farmers participate in training in proper nutrition, reproduction, milk marketing and other management skills.