bluuebunny/crossref_metadata_2025 huggingface dataset:
Insights into Proteomics Reveal Mechanisms of Ethanol-Enhanced Bacterial Cellulose Biosynthesis by Komagataeibacter nataicola
Authors: Fei Shuangwen , Yang Xuan , Xu Wentao , Zhang Jiachao , Li Jun , Chen Huamei , Lin Xue , Liu Sixin , Li Congfa
Published: June 2023

Nata de coco, known as bacterial cellulose (BC), has been given much attention in the food industry and biomaterial areas due to its specific properties such as low calorie content, high content of fiber, high purity and high biocompatibility. Komagataeibacter spp. are indispensable microorganisms for BC production due to their highly efficient production. Here, proteomics was applied to investigate the metabolism regulation mechanisms of BC yield improvements in K. nataicola Y19 by 48 ± 3% after ethanol supplementation. The results evidenced that differentially expressed proteins involved in the BC biosynthesis system, glycolytic pathway, TCA cycle and oxidative phosphorylation process were up-regulated. The proteins accelerated the BC biosynthesis by providing more energy and via intermediate metabolites. Furthermore, the elongation factor Tu, chaperone DnaK and translocase subunit SecB may be involved in the BC synthesis procedure by regulating electron transfer, hydrolysis of ATP and protein transformation. Moreover, the ethanol-enhanced BC biosynthesis may be associated with the decreased expression of endoglucanase. This research elucidates the proteomics mechanism of higher BC production based on ethanol addition, providing references for nata de coco production efficiency and the synthetic regulation of bacterial cellulose in the future.
The Case for RFID-Enabled Traceability in Cash Movements
Authors: Decker Lance , Zoghi Ben
Published: June 2023

Cash movements between banks and customers are often conducted through armored courier services. These armored couriers are hesitant to adopt new technologies because the business’s nature requires well-documented custody transfers of cash bags. Often, these transfers are still based on paper receipts. The researchers believe that using radio frequency identification (RFID) and an application programming interface (API) between all parties in the cash management ecosystem reduces cost, improves efficiency, and increases capacity. To alleviate the hesitancy of armored couriers, a simulation model is made that operates much like an existing 45-vehicle branch. Once the model was validated, changes were made to the model to adopt the API interfaces and RFID systems required. In addition, an RFID-based sorting robot was implemented. A comparison focused on the workforce utilization of armored vehicle crews and branch tellers. As expected, the resulting model significantly reduces staffing requirements, improves efficiency, and increases capacity. The operational behaviors of tellers were reduced by 79%, and truck route durations were reduced by 43%. The expectation is that this research will help armored couriers see the advantages of adopting such a system and spur additional investigation of the solution. Finally, the cost of the system and operational savings were put into a return on investment/payback period calculation, revealing an annual savings of approximately USD 2.2 million after a one-year payback period.
Firefighter Stress, Anxiety, and Diminished Compliance-Oriented Safety Behaviors: Consequences of Passive Safety Leadership in the Fire Service?
Authors: Smith Todd D. , Dyal Mari-Amanda , DeJoy David M.
Published: June 2023

Safety-specific passive leadership has been negatively linked to diminished safety outcomes, including safety behaviors. However, this relationship is not fully understood. Research has not fully examined mediating factors that may be influenced by passive leadership, which then influence safety behaviors. Research among firefighters in this context is particularly absent. As such, this study aimed to examine relationships between safety-specific passive leadership, stress, anxiety, and compliance-oriented safety behavior outcomes among 708 professional firefighters. A path analysis was completed. The hypothesized model fit was very good and hypothesized relationships were confirmed. Safety-specific passive leadership was positively, significantly associated with increased firefighter stress perceptions and stress was positively, significantly associated with anxiety. Anxiety was negatively, significantly associated with both safety compliance and personal protective equipment behavior. This study has implications for researchers and practitioners. The findings emphasize the importance of active leaders in the fire service as passive leadership in the context of safety is distressing, which results in anxiety and ultimately diminished safety behavior outcomes, which could place firefighters at risk for injuries, illness, or death.
Potential Influence of Shading in Freshwater Ponds on the Water Quality Parameters and the Hematological and Biochemical Profiles of Nile tilapia (Oreochromis niloticus Linnaeus, 1758)
Authors: Dayrit Geraldine B. , Vera Cruz Emmanuel M. , Rodkhum Channarong , Mabrok Mahmoud , Ponza Pattareeya , Santos Mudjekeewis D.
Published: June 2023

Nile tilapia is a high-demand commodity in most developing countries including the Philippines, but its production is hampered by fluctuating water temperature (WT) and dissolved oxygen (DO) concentrations, which are mostly influenced by temperature warming. Net shading has been demonstrated to reduce pond temperature and increase the rate of spawning in cultured tilapia. The current study aimed to investigate the potential effects of shading on the water quality parameters, blood indices, and serum biochemical profiles of cultured Nile tilapia. Fish were collected from unshaded (control) and shaded (experimental) ponds in three breeding cycles. WT and DO concentrations were measured, while hematological and biochemical analyses were performed. The results showed that the average WT was considerably decreased in the shaded pond with no significant difference in the DO concentrations. Red blood cells, hemoglobin, and lymphocyte counts were significantly lower in fish raised in shaded ponds, although mean corpuscular volume and neutrophil counts were significantly higher. Likewise, Chole, TP, and Alb values were significantly affected by the interaction of cycle and shading setup. Cortisol, Glb, K+, Cl−, Mg2+, and TCa values showed significant differences and were only affected by the cycle. Similarly, AST and ALT values showed significant differences and were affected by both cycle and shading setup. Water quality parameters (WT and DO), hematological blood indices, and serum biochemical variables were correlated positively with each other. In brief, prior data imply that net shading can reduce WT in aquaculture ponds, reduce stress in Nile tilapia, and lessen the consequences of temperature warming on species production.
Identification of SNPs Related to Salmonella Resistance in Chickens Using RNA-Seq and Integrated Bioinformatics Approach
Authors: Dar Mashooq Ahmad , Bhat Basharat , Nazir Junaid , Saleem Afnan , Manzoor Tasaduq , Khan Mahak , Haq Zulfqarul , Bhat Sahar Saleem , Ahmad Syed Mudasir
Published: June 2023

Potential single nucleotide polymorphisms (SNPs) were detected between two chicken breeds (Kashmir favorella and broiler) using deep RNA sequencing. This was carried out to comprehend the coding area alterations, which cause variances in the immunological response to Salmonella infection. In the present study, we identified high impact SNPs from both chicken breeds in order to delineate different pathways that mediate disease resistant/susceptibility traits. Samples (liver and spleen) were collected from Salmonella resistant (K. favorella) and susceptible (broiler) chicken breeds. Salmonella resistance and susceptibility were checked by different pathological parameters post infection. To explore possible polymorphisms in genes linked with disease resistance, SNP identification analysis was performed utilizing RNA seq data from nine K. favorella and ten broiler chickens. A total of 1778 (1070 SNPs and 708 INDELs) and 1459 (859 SNPs and 600 INDELs) were found to be specific to K. favorella and broiler, respectively. Based on our results, we conclude that in broiler chickens the enriched pathways mostly included metabolic pathways like fatty acid metabolism, carbon metabolism and amino acid metabolism (Arginine and proline metabolism), while as in K. favorella genes with high impact SNPs were enriched in most of the immune-related pathways like MAPK signaling pathway, Wnt signaling pathway, NOD-like receptor signaling pathway, etc., which could be a possible resistance mechanism against salmonella infection. In K. favorella, protein–protein interaction analysis also shows some important hub nodes, which are important in providing defense against different infectious diseases. Phylogenomic analysis revealed that indigenous poultry breeds (resistant) are clearly separated from commercial breeds (susceptible). These findings will offer fresh perspectives on the genetic diversity in chicken breeds and will aid in the genomic selection of poultry birds.
Genome-Wide Analysis of the BAHD Family in Welsh Onion and CER2-LIKEs Involved in Wax Metabolism
Authors: Liu Lecheng , Xu Huanhuan , Zhang Wanyue , Xing Jiayi , Zhu Mingzhao , Zhang Yuchen , Wang Yongqin
Published: June 2023

BAHD acyltransferases (BAHDs), especially those present in plant epidermal wax metabolism, are crucial for environmental adaptation. Epidermal waxes primarily comprise very-long-chain fatty acids (VLCFAs) and their derivatives, serving as significant components of aboveground plant organs. These waxes play an essential role in resisting biotic and abiotic stresses. In this study, we identified the BAHD family in Welsh onion (Allium fistulosum). Our analysis revealed the presence of AfBAHDs in all chromosomes, with a distinct concentration in Chr3. Furthermore, the cis-acting elements of AfBAHDs were associated with abiotic/biotic stress, hormones, and light. The motif of Welsh onion BAHDs indicated the presence of a specific BAHDs motif. We also established the phylogenetic relationships of AfBAHDs, identifying three homologous genes of CER2. Subsequently, we characterized the expression of AfCER2-LIKEs in a Welsh onion mutant deficient in wax and found that AfCER2-LIKE1 plays a critical role in leaf wax metabolism, while all AfCER2-LIKEs respond to abiotic stress. Our findings provide new insights into the BAHD family and lay a foundation for future studies on the regulation of wax metabolism in Welsh onion.
A Preliminary Survey of Transfer RNA Modifications and Modifying Enzymes of the Tropical Plant Cocos nucifera L.
Authors: Chu Meng , Qin Yichao , Lin Xiuying , Ma Li , Deng Dehai , Lv Daizhu , Fu Pengcheng , Lin Huan
Published: June 2023

The coconut (Cocos nucifera L.) is a commercial crop widely distributed among coastal tropical regions. It provides millions of farmers with food, fuel, cosmetics, folk medicine, and building materials. Among these, oil and palm sugar are representative extracts. However, this unique living species of Cocos has only been preliminarily studied at molecular levels. Benefiting from the genomic sequence data published in 2017 and 2021, we investigated the transfer RNA (tRNA) modifications and modifying enzymes of the coconut in this survey. An extraction method for the tRNA pool from coconut flesh was built. In total, 33 species of modified nucleosides and 66 homologous genes of modifying enzymes were confirmed using a nucleoside analysis using high-performance liquid chromatography combined with high-resolution mass spectrometry (HPLC-HRMS) and homologous protein sequence alignment. The positions of tRNA modifications, including pseudouridines, were preliminarily mapped using a oligonucleotide analysis, and the features of their modifying enzymes were summarized. Interestingly, we found that the gene encoding the modifying enzyme of 2′-O-ribosyladenosine at the 64th position of tRNA (Ar(p)64) was uniquely overexpressed under high-salinity stress. In contrast, most other tRNA-modifying enzymes were downregulated with mining transcriptomic sequencing data. According to previous physiological studies of Ar(p)64, the coconut appears to enhance the quality control of the translation process when subjected to high-salinity stress. We hope this survey can help advance research on tRNA modification and scientific studies of the coconut, as well as thinking of the safety and nutritional value of naturally modified nucleosides.
Influence of Stress and Emotions in the Learning Process: The Example of COVID-19 on University Students: A Narrative Review
Authors: Córdova Alfredo , Caballero-García Alberto , Drobnic Franchek , Roche Enrique , Noriega David C.
Published: June 2023

Emotional instability and stress are the main disturbances that condition the learning process, affecting both teachers and students. The main objective of this review is to analyze the influence of stress and emotions (as part of stress) on the learning environment. Stress is a physiological mechanism that the organism develops to adapt and survive external and internal challenges. In this context, stress tends to be seen as a negative condition in the learning process when it is chronic. Extreme stress situations, such as the COVID-19 pandemic, can generate anxiety and frustration in students. However, other studies indicate that controlled stress can positively enhance the learning process. On the other hand, the quality and intensity of emotions resulting from stress can influence as well the learning process. Positive emotions are healthy and can promote optimal learning. Emotions lead to sentimental, cognitive, behavioral, and physiological changes, which will have a strong influence on intellectual performance. The activation of coping strategies constitutes a key mechanism for dealing positively with problems and challenges, generating positive emotions essential for the self-regulation of learning. In conclusion, correct management of emotions in stressful situations could promote effective learning through enhanced attention and capacity to solve problems.
Configuration Path Study of Influencing Factors on Health Information-Sharing Behavior among Users of Online Health Communities: Based on SEM and fsQCA Methods
Authors: Xiang Minhao , Guan Tianning , Lin Mengqi , Xie Yujie , Luo Xingyu , Han Minghua , Lv Kun
Published: June 2023

This study examines the determinants that drive the behavior of sharing health information within online health communities. Leveraging the Theory of Planned Behavior, the Technology Acceptance Model, and the “Knowledge-Attitude-Practice” theory, a comprehensive model elucidating the key elements that sway the health information-sharing behavior among users of online health communities is designed. This model is validated through Structural Equation Modeling (SEM) and Fuzzy Set Qualitative Comparative Analysis (fsQCA). Findings derived from the SEM suggest that perceived ease of use, perceived usefulness, perceived trust, and perceived behavioral control exert a significant positive impact on attitudes towards health information sharing, the intention to share health information, and the actual health information-sharing behavior. The fsQCA unfolds two unique configuration path models that lead to the emergence of health information-sharing behavior: one predicated on perceived trust and sharing intention, and the other on perceived usefulness, behavioral control, and sharing attitude. This research provides invaluable insights, fostering a deeper comprehension of the dynamics involved in health information sharing within online communities, thereby directing the design of more effective health platforms to augment user engagement and enable informed health decisions.
What Do We Know about Nociplastic Pain?
Authors: Bułdyś Kacper , Górnicki Tomasz , Kałka Dariusz , Szuster Ewa , Biernikiewicz Małgorzata , Markuszewski Leszek , Sobieszczańska Małgorzata
Published: June 2023

Nociplastic pain is a recently distinguished type of pain, distinct from neuropathic and nociceptive pain, and is well described in the literature. It is often mistaken for central sensitization. Pathophysiology has not been clearly established with regard to alteration of the concentration of spinal fluid elements, the structure of the white and gray matter of the brain, and psychological aspects. Many different diagnostic tools, i.e., the painDETECT and Douleur Neuropathique 4 questionnaires, have been developed to diagnose neuropathic pain, but they can also be applied for nociplastic pain; however, more standardized instruments are still needed in order to assess its occurrence and clinical presentation. Numerous studies have shown that nociplastic pain is present in many different diseases such as fibromyalgia, complex regional pain syndrome type 1, and irritable bowel syndrome. Current pharmacological and nonpharmacological treatments for nociceptive and neuropathic pain are not entirely suitable for treating nociplastic pain. There is an ongoing effort to establish the most efficient way to manage it. The significance of this field has led to several clinical trials being carried out in a short time. The aim of this narrative review was to discuss the currently available evidence on pathophysiology, associated diseases, treatment possibilities, and clinical trials. It is important that physicians widely discuss and acknowledge this relatively new concept in order to provide optimized pain control for patients.
Trichoderma viride Isolate Tvd44 Enhances Potato Growth and Stimulates the Defense System against Potato Virus Y
Authors: Aseel Dalia G. , Soliman Seham A. , Al-Askar Abdulaziz A. , Elkelish Amr , Elbeaino Toufic , Abdelkhalek Ahmed
Published: June 2023

Biological treatments may be employed to combat viral plant infections. In this study, Trichoderma viride was applied as a biocontrol agent to enhance the systemic resistance of potato plants against potato virus Y (PVY). T. viride isolate Tvd44 (OQ991378) was isolated and molecularly characterized before being used as an agent against PVY. The foliar application of Tvd44 on PVY-inoculated potatoes significantly promoted plant growth, height, roots, and number of leaves. Results also showed that the levels of peroxidase (POX), polyphenol oxidase (PPO), total proteins, and chlorophyll increased in potato leaves 21 days post-inoculation compared to untreated plants. Results of qPCR assays conducted on Tvd44-treated plants exhibited a reduction in PVY-CP accumulation levels up to 18.76-fold compared to untreated plants (101.82-fold). qPCR results also showed that defense-related genes (PR-1, POD, PAL, CHS, and HQT) were highly expressed in all Tvd44-treated plants. Three compounds: thiocarbamic acid, N,N-dimethyl, S-1,3-diphenyl-2-butenyl ester; 1,1-dicyano-2-methyl-4-(p-cyanophenyl) propane; and trans-[(2,3-diphenylcyclopropyl)methyl] phenyl sulfide were the most abundant compounds detected in the ethyl acetate extract of Tvd44-culture filtrate using GC–MS analysis. Our finding supports the efficacy of T. viride isolate Tvd44 as a potential agent that can successfully control PVY infections in potatoes and increase the productivity of the crop.
Field Performance of ‘Valencia’ Sweet Orange Trees Grafted onto Pummelo Interstocks and Swingle Citrumelo Rootstocks under Huanglongbing (HLB) Endemic Conditions
Authors: Dutt Manjul , Mahmoud Lamiaa M. , Grosser Jude W.
Published: June 2023

Interstocks have been used in fruit tree cultivation to regulate tree size and improve fruit production and quality. In this study, several Huanglongbing (HLB)-tolerant open-pollinated pummelo interstock candidates were evaluated as interstocks between the Swingle rootstock and the ‘Valencia’ scion, with Swingle serving as the control interstock. After 5 years in the field, most trees did not exhibit visual HLB symptoms, although the trees were infected with HLB, and the CaLas Ct values in the ‘Valencia’ leaves of the different interstock treatments ranged between 25.88 and 27.82. Although the foliar chlorophyll content among the interstock treatments was not highly significant (p-value = 0.0313), the foliar starch content was significantly different (p-value = 0.0018). ‘Valencia’ grafted onto 5-1-99-3 and HBJL-4 interstocks (both open pollinated seedlings of the Hirado Buntan pummelo) exhibited the highest total phenolic compound (TPC) levels (46.44 and 46.36 mg gallic acid g−1 FW). Transcripts of CsPR1 and CsPR2, two pathogenesis-related (PR) genes, were upregulated in ‘Valencia’ grafted onto open pollinated seedling selections of the red shaddock pummelo, Liang Ping Yau pummelo, and Hirado Buntan pummelo compared with ‘Valencia’ grafted onto Swingle. All interstocks influenced the tree growth rate and improved canopy volume in the field compared to the control trees without any interstocks (p-value = 0.0085). The 5-4-99-7 (red shaddock pummelo) and 8-1-99-1B (Liang Ping Yau pummelo) interstock trees had the highest canopy volume among all the treatments. We propose, based on our current results, that HLB-tolerant citrus accessions, when judiciously used as interstocks, may enhance plant defense and provide increased HLB tolerance to susceptible scions.
Dysfunctional Attitudes, Sociotropy–Autonomy, and Intimate Partner Violence Victimization in Emerging Adulthood
Authors: Cherrier Chloé , Courtois Robert , Rusch Emmanuel , Potard Catherine
Published: June 2023

Understanding the dynamics and vulnerability factors involved in intimate partner violence (IPV) victimization among emerging adults is important in order to better prevent it from happening. The current study aimed to investigate the relationships among dysfunctional attitudes, sociotropy–autonomy, and types of IPV victimization (i.e., psychological, physical, and sexual) and severity (i.e., minor or severe) in emerging adulthood. Through an online survey, 929 emerging adults (84.6% women, mean age = 23.61) completed self-report questionnaires related to variables explored. When checking for childhood abuse, dysfunctional attitudes, sociotropy, and autonomy were related to IPV victimization for at least one type of violence and one scale of severity. The regression models show that independence from others and importance given to others are related to greater severe and minor physical violence, respectively. Attraction to loneliness seemed related to lesser minor psychological violence, whilst valorization of freedom of movement and action were related to greater minor sexual violence. The capacity to oppose others seemed related to greater severe sexual violence. These different cognitive and social characteristics may be associated with poorer social skills, thus making emerging adults more vulnerable to IPV victimization. The preventive and clinical implications are discussed.
Gauging Heat Vulnerability in Southeast Florida: A Multimodal Approach Integrating Physical Exposure, Sensitivity, and Adaptive Capacity
Authors: Cresswell Kevin , Mitsova Diana , Liu Weibo , Fadiman Maria , Hindle Tobin
Published: June 2023

Urbanization and warming climate suggest that health impacts from extreme heat will increase in cities, thus locating vulnerable populations is pivotal. However, heat vulnerability indices (HVI) overwhelmingly interpret one model that may be inaccurate or methodologically flawed without considering how results compare with other HVI. Accordingly, this analysis applied a multimodal approach incorporating underrepresented health and adaptability measures to analyze heat vulnerability more comprehensively and better identify vulnerable populations. The Southeast Florida HVI (SFHVI) blends twenty-four physical exposure, sensitivity, and adaptive capacity indicators using uncommon statistical weights removing overlap, then SFHVI scores were compared statistically and qualitatively with ten models utilizing alternative methods. Urban areas with degraded physical settings, socioeconomic conditions, health, and household resources were particularly vulnerable. Rural and agricultural areas were also vulnerable reflecting socioeconomic conditions, health, and community resources. Three alternative models produced vulnerability scores not statistically different than SFHVI. The other seven differed significantly despite geospatial consistency regarding the most at-risk areas. Since inaccurate HVI can mislead decisionmakers inhibiting mitigation, future studies should increasingly adopt multimodal approaches that enhance analysis comprehensiveness, illuminate methodological strengths and flaws, as well as reinforce conviction about susceptible populations.
Quantifying the Spatial Ratio of Streets in Beijing Based on Street-View Images
Authors: Gao Wei , Hou Jiachen , Gao Yong , Zhao Mei , Jia Menghan
Published: June 2023

The physical presence of a street, called the “street view”, is a medium through which people perceive the urban form. A street’s spatial ratio is the main feature of the street view, and its measurement and quality are the core issues in the field of urban design. The traditional method of studying urban aspect ratios is manual on-site observation, which is inefficient, incomplete and inaccurate, making it difficult to reveal overall patterns and influencing factors. Street view images (SVI) provide large-scale urban data that, combined with deep learning algorithms, allow for studying street spatial ratios from a broader space-time perspective. This approach can reveal an urban forms’ aesthetics, spatial quality, and evolution process. However, current streetscape research mainly focuses on the creation and maintenance of spatial data infrastructure, street greening, street safety, urban vitality, etc. In this study, quantitative research of the Beijing street spatial ratio was carried out using street view images, a convolution neural network algorithm, and the classical street spatial ratio theory of urban morphology. Using the DenseNet model, the quantitative measurement of Beijing’s urban street location, street aspect ratio, and the street symmetry was realized. According to the model identification results, the law of the gradual transition of the street spatial ratio was depicted (from the open and balanced type to the canyon type and from the historical to the modern). Changes in the streets’ spatiotemporal characteristics in the central area of Beijing were revealed. Based on this, the clustering and distribution phenomena of four street aspect ratio types in Beijing are discussed and the relationship between the street aspect ratio type and symmetry is summarized, selecting a typical lot for empirical research. The classical theory of street spatial proportion has limitations under the conditions of high-density development in modern cities, and the traditional urban morphology theory, combined with new technical methods such as streetscape images and deep learning algorithms, can provide new ideas for the study of urban space morphology.
Multi-Supervised Feature Fusion Attention Network for Clouds and Shadows Detection
Authors: Ji Huiwen , Xia Min , Zhang Dongsheng , Lin Haifeng
Published: June 2023

Cloud and cloud shadow detection are essential in remote sensing imagery applications. Few semantic segmentation models were designed specifically for clouds and their shadows. Based on the visual and distribution characteristics of clouds and their shadows in remote sensing imagery, this paper provides a multi-supervised feature fusion attention network. We design a multi-scale feature fusion block (FFB) for the problems caused by the complex distribution and irregular boundaries of clouds and shadows. The block consists of a fusion convolution block (FCB), a channel attention block (CAB), and a spatial attention block (SPA). By multi-scale convolution, FCB reduces excessive semantic differences between shallow and deep feature maps. CAB focuses on global and local features through multi-scale channel attention. Meanwhile, it fuses deep and shallow feature maps with non-linear weighting to optimize fusion performance. SPA focuses on task-relevant areas through spatial attention. With the three blocks above, FCB alleviates the difficulties of fusing multi-scale features. Additionally, it makes the network resistant to background interference while optimizing boundary detection. Our proposed model designs a class feature attention block (CFAB) to increase the robustness of cloud detection. The network achieves good performance on the self-made cloud and shadow dataset. This dataset is taken from Google Earth and contains remote sensing imagery from several satellites. The proposed model achieved a mean intersection over union (MIoU) of 94.10% on our dataset, which is 0.44% higher than the other models. Moreover, it shows high generalization capability due to its superior prediction results on HRC_WHU and SPARCS datasets.
A Protocol for Low-Input RNA-Sequencing of Patients with Febrile Neutropenia Captures Relevant Immunological Information
Authors: Probst Victoria , Smedegaard Lotte Møller , Simonyan Arman , Guo Yuliu , Østrup Olga , Dungu Kia Hee Schultz , Vissing Nadja Hawwa , Nygaard Ulrikka , Bagger Frederik Otzen
Published: June 2023

Improved methods are needed for diagnosing infectious diseases in children with cancer. Most children have fever for other reasons than bacterial infection and are exposed to unnecessary antibiotics and hospital admission. Recent research has shown that host whole blood RNA transcriptomic signatures can distinguish bacterial infection from other causes of fever. Implementation of this method in clinics could change the diagnostic approach for children with cancer and suspected infection. However, extracting sufficient mRNA to perform transcriptome profiling by standard methods is challenging due to the patient’s low white blood cell (WBC) counts. In this prospective cohort study, we succeeded in sequencing 95% of samples from children with leukaemia and suspected infection by using a low-input protocol. This could be a solution to the issue of obtaining sufficient RNA for sequencing from patients with low white blood cell counts. Further studies are required to determine whether the captured immune gene signatures are clinically valid and thus useful to clinicians as a diagnostic tool for patients with cancer and suspected infection.
Plasma Lipidomics Analysis Reveals the Potential Role of Lysophosphatidylcholines in Abdominal Aortic Aneurysm Progression and Formation
Authors: Xie Ting , Lei Chuxiang , Song Wei , Wu Xunyao , Wu Jianqiang , Li Fangyuan , Lv Yanze , Chen Yuexin , Liu Bao , Zheng Yuehong
Published: June 2023

Abdominal aortic aneurysm (AAA) is hallmarked by irreversible dilation of the infrarenal aorta. Lipid deposition in the aortic wall and the potential importance of a lipid disorder in AAA etiology highlight the need to explore lipid variation during AAA development. This study aimed to systematically characterize the lipidomics associated with AAA size and progression. Plasma lipids from 106 subjects (36 non-AAA controls and 70 AAA patients) were comprehensively analyzed using untargeted lipidomics. An AAA animal model was established by embedding angiotensin-II pump in ApoE-/- mice for four weeks and blood was collected at 0, 2 and 4 weeks for lipidomic analysis. Using a false-discovery rate (FDR) < 0.05, a group of lysophosphatidylcholines (lysoPCs) were specifically decreased in AAA patients and mice. LysoPCs were principally lower in the AAA patients with larger diameter (diameter > 50 mm) than those with a smaller size (30 mm < diameter < 50 mm), and levels of lysoPCs were also found to be decreased with modelling time and aneurysm formation in AAA mice. Correlation matrices between lipids and clinical characteristics identified that the positive correlation between lysoPCs and HDL-c was reduced and negative correlations between lysoPCs and CAD rate, lysoPCs and hsCRP were converted to positive correlations in AAA compared to control. Weakened positive correlations between plasma lysoPCs and circulating HDL-c in AAA suggested that HDL-lysoPCs may elicit instinctive physiological effects in AAA. This study provides evidence that reduced lysoPCs essentially underlie the pathogenesis of AAA and that lysoPCs are promising biomarkers for AAA development.
Assessment of Tissue Expression of the Oxytocin–Vasopressin Pathway in the Placenta of Women with a First-Episode Psychosis during Pregnancy
Authors: Ortega Miguel A. , García-Montero Cielo , Fraile-Martinez Óscar , De Leon-Oliva Diego , Boaru Diego Liviu , Bravo Coral , De Leon-Luis Juan A. , Saez Miguel A. , Asúnsolo Angel , Romero-Gerechter Ignacio , Sanz-Giancola Alejandro , Diaz-Pedrero Raul , Lopez-Gonzalez Laura , Guijarro Luis G. , Barrena-Blázquez Silvestra , Bujan Julia , García-Honduvilla Natalio , Alvarez-Mon Melchor , Alvarez-Mon Miguel Ángel , Lahera Guillermo
Published: June 2023

Psychosis refers to a mental health condition characterized by a loss of touch with reality, comprising delusions, hallucinations, disorganized thought, disorganized behavior, catatonia, and negative symptoms. A first-episode psychosis (FEP) is a rare condition that can trigger adverse outcomes both for the mother and newborn. Previously, we demonstrated the existence of histopathological changes in the placenta of pregnant women who suffer an FEP in pregnancy. Altered levels of oxytocin (OXT) and vasopressin (AVP) have been detected in patients who manifested an FEP, whereas abnormal placental expression of these hormones and their receptors (OXTR and AVPR1A) has been proven in different obstetric complications. However, the precise role and expression of these components in the placenta of women after an FEP have not been studied yet. Thus, the purpose of the present study was to analyze the gene and protein expression, using RT-qPCR and immunohistochemistry (IHC), of OXT, OXTR, AVP, and AVPR1a in the placental tissue of pregnant women after an FEP in comparison to pregnant women without any health complication (HC-PW). Our results showed increased gene and protein expression of OXT, AVP, OXTR, and AVPR1A in the placental tissue of pregnant women who suffer an FEP. Therefore, our study suggests that an FEP during pregnancy may be associated with an abnormal paracrine/endocrine activity of the placenta, which can negatively affect the maternofetal wellbeing. Nevertheless, additional research is required to validate our findings and ascertain any potential implications of the observed alterations.
Sex-Dependent Transcriptional Changes in Response to Stress in Patients with Myalgic Encephalomyelitis/Chronic Fatigue Syndrome: A Pilot Project
Authors: Gamer Jackson , Van Booven Derek J. , Zarnowski Oskar , Arango Sebastian , Elias Mark , Kurian Asha , Joseph Andrew , Perez Melanie , Collado Fanny , Klimas Nancy , Oltra Elisa , Nathanson Lubov
Published: June 2023

Myalgic encephalomyelitis/chronic fatigue syndrome (ME/CFS) is a complex, multi-symptom illness characterized by debilitating fatigue and post-exertional malaise (PEM). Numerous studies have reported sex differences at the epidemiological, cellular, and molecular levels between male and female ME/CFS patients. To gain further insight into these sex-dependent changes, we evaluated differential gene expression by RNA-sequencing (RNA-Seq) in 33 ME/CFS patients (20 female, 13 male) and 34 matched healthy controls (20 female and 14 male) before, during, and after an exercise challenge intended to provoke PEM. Our findings revealed that pathways related to immune-cell signaling (including IL-12) and natural killer cell cytotoxicity were activated as a result of exertion in the male ME/CFS cohort, while female ME/CFS patients did not show significant enough changes in gene expression to meet the criteria for the differential expression. Functional analysis during recovery from an exercise challenge showed that male ME/CFS patients had distinct changes in the regulation of specific cytokine signals (including IL-1β). Meanwhile, female ME/CFS patients had significant alterations in gene networks related to cell stress, response to herpes viruses, and NF-κβ signaling. The functional pathways and differentially expressed genes highlighted in this pilot project provide insight into the sex-specific pathophysiology of ME/CFS.
Influence of Cupric (Cu2+) Ions on the Iron Oxidation Mechanism by DNA-Binding Protein from Starved Cells (Dps) from Marinobacter nauticus
Authors: Guerra João P. L. , Penas Daniela , Tavares Pedro , Pereira Alice S.
Published: June 2023

Dps proteins (DNA-binding proteins from starved cells) are multifunctional stress defense proteins from the Ferritin family expressed in Prokarya during starvation and/or acute oxidative stress. Besides shielding bacterial DNA through binding and condensation, Dps proteins protect the cell from reactive oxygen species by oxidizing and storing ferrous ions within their cavity, using either hydrogen peroxide or molecular oxygen as the co-substrate, thus reducing the toxic effects of Fenton reactions. Interestingly, the interaction between Dps and transition metals (other than iron) is a known but relatively uncharacterized phenomenon. The impact of non-iron metals on the structure and function of Dps proteins is a current topic of research. This work focuses on the interaction between the Dps from Marinobacter nauticus (a marine facultative anaerobe bacterium capable of degrading petroleum hydrocarbons) and the cupric ion (Cu2+), one of the transition metals of greater biological relevance. Results obtained using electron paramagnetic resonance (EPR), Mössbauer and UV/Visible spectroscopies revealed that Cu2+ ions bind to specific binding sites in Dps, exerting a rate-enhancing effect on the ferroxidation reaction in the presence of molecular oxygen and directly oxidizing ferrous ions when no other co-substrate is present, in a yet uncharacterized redox reaction. This prompts additional research on the catalytic properties of Dps proteins.
Genome-Wide Identification and Characterization of the TLP Gene Family in Phyllostachys edulis and Association with Witches’ Broom Disease Resistance in Bamboo
Authors: Gu Yu , Yu Haoyue , He Sainan , Zhang Pan , Ma Xiaoping
Published: June 2023

Thaumatin-like proteins (TLPs) are pathogenesis-related proteins with pivotal roles in plant defense mechanisms. In this study, various bioinformatics and RNA-seq methods were used to analyze the biotic and abiotic stress responses of the TLP family in Phyllostachys edulis. Overall, 81 TLP genes were identified in P. edulis; 166 TLPs from four plant species were divided into three groups and ten subclasses, with genetic covariance observed between these species. Subcellular localization in silico studies indicated that TLPs were primarily distributed in the extracellular. Analysis of the upstream sequences of TLPs demonstrated the presence of cis-acting elements related to disease defense, environmental stress, and hormonal responses. Multiple sequence alignment demonstrated that most TLPs possessed five conserved REDDD amino acid sequences with only a few amino acid residue differences. RNA-seq analysis of P. edulis responses to Aciculosporium take, the pathogenic fungus that causes witches’ broom disease, showed that P. edulis TLPs (PeTLPs) were expressed in different organs, with the highest expression in buds. PeTLPs responded to both abscisic acid and salicylic acid stress. These PeTLP expression patterns were consistent with their gene and protein structures. Collectively, our findings provide a basis for further comprehensive analyses of the genes related to witches’ broom in P. edulis.
Evidence-Based Guide to Using Artificial Introns for Tissue-Specific Knockout in Mice
Authors: McBeath Elena , Fujiwara Keigi , Hofmann Marie-Claude
Published: June 2023

Up until recently, methods for generating floxed mice either conventionally or by CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats)-Cas9 (CRISPR-associated protein 9) editing have been technically challenging, expensive and error-prone, or time-consuming. To circumvent these issues, several labs have started successfully using a small artificial intron to conditionally knockout (KO) a gene of interest in mice. However, many other labs are having difficulty getting the technique to work. The key problem appears to be either a failure in achieving correct splicing after the introduction of the artificial intron into the gene or, just as crucial, insufficient functional KO of the gene’s protein after Cre-induced removal of the intron’s branchpoint. Presented here is a guide on how to choose an appropriate exon and where to place the recombinase-regulated artificial intron (rAI) in that exon to prevent disrupting normal gene splicing while maximizing mRNA degradation after recombinase treatment. The reasoning behind each step in the guide is also discussed. Following these recommendations should increase the success rate of this easy, new, and alternative technique for producing tissue-specific KO mice.
Anatomy and Comparative Transcriptome Reveal the Mechanism of Male Sterility in Salvia miltiorrhiza
Authors: Liao Jinqiu , Zhang Zhizhou , Shang Yukun , Jiang Yuanyuan , Su Zixuan , Deng Xuexue , Pu Xiang , Yang Ruiwu , Zhang Li
Published: June 2023

Salvia miltiorrhiza Bunge is an important traditional herb. Salvia miltiorrhiza is distributed in the Sichuan province of China (here called SC). Under natural conditions, it does not bear seeds and its sterility mechanism is still unclear. Through artificial cross, there was defective pistil and partial pollen abortion in these plants. Electron microscopy results showed that the defective pollen wall was caused by delayed degradation of the tapetum. Due to the lack of starch and organelle, the abortive pollen grains showed shrinkage. RNA-seq was performed to explore the molecular mechanisms of pollen abortion. KEGG enrichment analysis suggested that the pathways of phytohormone, starch, lipid, pectin, and phenylpropanoid affected the fertility of S. miltiorrhiza. Moreover, some differentially expressed genes involved in starch synthesis and plant hormone signaling were identified. These results contribute to the molecular mechanism of pollen sterility and provide a more theoretical foundation for molecular-assisted breeding.
Effect of Purslane (Portulaca oleracea L.) on Intestinal Morphology, Digestion Activity and Microbiome of Chinese Pond Turtle (Mauremys reevesii) during Aeromonas hydrophila Infection
Authors: Yang Shiyong , Feng Langkun , Zhang Jiajin , Yan Chaozhan , Zhang Chaoyang , Huang Yanbo , Li Minghao , Luo Wei , Huang Xiaoli , Wu Jiayun , Du Xiaogang , Li Yunkun
Published: June 2023

Large-scale mortality due to Aeromonas hydrophila (A. hydrophila) infection has considerably decreased the yield of the Chinese pond turtle (Mauremys reevesii). Purslane is a naturally active substance with a wide range of pharmacological functions, but its antibacterial effect on Chinese pond turtles infected by A. hydrophila infection is still unknown. In this study, we investigated the effect of purslane on intestinal morphology, digestion activity, and microbiome of Chinese pond turtles during A. hydrophila infection. The results showed that purslane promoted epidermal neogenesis of the limbs and increased the survival and feeding rates of Chinese pond turtles during A. hydrophila infection. Histopathological observation and enzyme activity assay indicated that purslane improved the intestinal morphology and digestive enzyme (α-amylase, lipase and pepsin) activities of Chinese pond turtle during A. hydrophila infection. Microbiome analysis revealed that purslane increased the diversity of intestinal microbiota with a significant decrease in the proportion of potentially pathogenic bacteria (such as Citrobacter freundii, Eimeria praecox, and Salmonella enterica) and an increase in the abundance of probiotics (such as uncultured Lactobacillus). In conclusion, our study uncovers that purslane improves intestinal health to protect Chinese pond turtles against A. hydrophila infection.
First 24-Membered Macrocyclic 1,10-Phenanthroline-2,9-Diamides—An Efficient Switch from Acidic to Alkaline Extraction of f-Elements
Authors: Lemport Pavel S. , Petrov Valentine S. , Matveev Petr I. , Leksina Uliana M. , Roznyatovsky Vitaly A. , Gloriozov Igor P. , Yatsenko Alexandr V. , Tafeenko Viktor A. , Dorovatovskii Pavel V. , Khrustalev Viktor N. , Budylin Gleb S. , Shirshin Evgeny A. , Markov Vitaliy Yu. , Goryunkov Alexey A. , Petrov Vladimir G. , Ustynyuk Yuri A. , Nenajdenko Valentine G.
Published: June 2023

A reaction of acyl chlorides derived from 1,10-phenanthroline-2,9-dicarboxylic acids with piperazine allows the preparation of the corresponding 24-membered macrocycles in good yield. The structural and spectral properties of these new macrocyclic ligands were thoroughly investigated, revealing promising coordination properties towards f-elements (Am, Eu). It was shown that the prepared ligands can be used for selective extraction of Am(III) from alkaline–carbonate media in presence of Eu(III) with an SFAm/Eu up to 40. Their extraction efficiency is higher than calixarene-type extraction of the Am(III) and Eu(III) pair. Composition of macrocycle–metal complex with Eu(III) was investigated by luminescence and UV-vis spectroscopy. The possibility of such ligands to form complexes of L:Eu = 1:2 stoichiometry is revealed.
Drought Eliminates the Difference in Root Trait Plasticity and Mycorrhizal Responsiveness of Two Semiarid Grassland Species with Contrasting Root System
Authors: Duan Dongdong , Feng Xiaoxuan , Wu Nana , Tian Zhen , Dong Xin , Liu Huining , Nan Zhibiao , Chen Tao
Published: June 2023

Root traits and arbuscular mycorrhizal (AM) fungi are important in determining the access of plants to soil resources. However, whether plants with different root systems (i.e., taproot vs. fibrous-root) exhibit different root trait plasticity and mycorrhizal responsiveness under drought remains largely unexplored. Tap-rooted Lespedeza davurica and fibrous-rooted Stipa bungeana were grown in monocultures in sterilized and live soils, followed by a drought treatment. Biomass, root traits, root colonization by AM fungi, and nutrient availability were evaluated. Drought decreased biomass and root diameter but increased the root:shoot ratio (RSR), specific root length (SRL), soil NO3−-N, and available P for the two species. Under control and drought conditions, soil sterilization significantly increased the RSR, SRL, and soil NO3−-N for L. davurica, but this only occurs under drought condition for S. bungeana. Soil sterilization significantly reduced AM fungal root colonization of both species, but drought significantly increased it in live soil. In water-abundant conditions, tap-rooted L. davurica may depend more on AM fungi than fibrous-rooted S. bungeana; however, under drought conditions, AM fungi are of equal importance in favoring both plant species to forage soil resources. These findings provide new insights for understanding the resource utilization strategies under climate change.