Miracle-dz/UniFAR-FTUs huggingface dataset:
A Human Lung-Associated Streptomyces sp. TR1341 Produces Various Secondary Metabolites Responsible for Virulence, Cytotoxicity and Modulation of Immune Response

Streptomycetes, typical soil dwellers, can be detected as common colonizers of human bodies, especially the skin, the respiratory tract, the guts and the genital tract using molecular techniques. However, their clinical manifestations and isolations are rare. Recently they were discussed as possible “coaches” of the human immune system in connection with certain immune disorders and cancer. This work aimed for the characterization and evaluation of genetic adaptations of a human-associated strain Streptomyces sp. TR1341. The strain was isolated from sputum of a senior male patient with a history of lung and kidney TB, recurrent respiratory infections and COPD. It manifested remarkably broad biological activities (antibacterial, antifungal, beta-hemolytic, etc.). We found that, by producing specific secondary metabolites, it is able to modulate host immune responses and the niche itself, which increase its chances for long-term survival in the human tissue. The work shows possible adaptations or predispositions of formerly soil microorganism to survive in human tissue successfully. The strain produces two structural groups of cytotoxic compounds: 28-carbon cytolytic polyenes of the filipin type and actinomycin X2. Additionally, we summarize and present data about streptomycete-related human infections known so far.
Quorum Sensing-Independent Cellulase-Sensitive Pellicle Formation Is Critical for Colonization of Burkholderia glumae in Rice Plants

Bacteria form biofilms as a means to adapt to environmental changes for survival. Pellicle is a floating biofilm formed at the air–liquid interface in static culture conditions; however, its functional roles have received relatively little attention compared to solid surface-associated biofilms in gram-negative bacteria. Here we show that the rice pathogen Burkholderia glumae BGR1 forms cellulase-sensitive pellicles in a bis-(3′-5′)-cyclic dimeric guanosine monophosphate (c-di-GMP)- and flagellum-dependent, but quorum sensing (QS)-independent, manner. Pellicle formation was more favorable at 28°C than at the optimum growth temperature (37°C), and was facilitated by constitutive expression of pelI, a diguanylate cyclase gene from B. glumae, or pleD, the GGDEF response regulator from Agrobacterium tumefaciens. Constitutive expression of pelI or pleD raised the levels of c-di-GMP, facilitated pellicle formation, and suppressed swarming motility in B. glumae. QS-defective mutants of B. glumae formed pellicles, while flagellum-defective mutants did not. Pellicles of B. glumae were sensitive to cellulase but not to proteinase K or DNase I. A gene cluster containing seven genes involved in bacterial cellulose biosynthesis, bcsD, bcsR, bcsQ, bcsA, bcsB, bcsZ, and bcsC, homologous to known genes involved in cellulose biosynthesis in other bacteria, was identified in B. glumae. Mutations in each gene abolished pellicle formation. These results revealed a positive correlation between cellulase-sensitive pellicles and putative cellulose biosynthetic genes. Pellicle-defective mutants did not colonize as successfully as the wild-type strain BGR1 in rice plants, which resulted in a significant reduction in virulence. Our findings show that cellulase-sensitive pellicles produced in a QS-independent manner play important roles in the interactions between rice plants and B. glumae.
Controversies in the Management of Lateral Pelvic Lymph Nodes in Patients With Advanced Rectal Cancer: East or West?

The presence of lateral pelvic lymph nodes (LPLN) in advanced rectal cancer entails challenges with ongoing debate regarding the role of prophylactic dissection vs. neoadjuvant radiation treatment. This article highlights the most recent data of both approaches: bilateral LPLN dissection in every patient with low rectal cancer (Rb) as per the Japanese guidelines, vs. the developing approach of neoadjuvant radiotherapy as per Eastern countries. In addition, we also accentuate the importance of a combined approach published by Sammour et al. where a simple “one-size-fits-all” strategy should be abandoned. Rectal cancer treatment is well-established in Western countries. Patients with advanced rectal cancer will undergo radiation ± chemo neoadjuvant therapy followed by TME. In the Dutch TME trial, TME plus radiotherapy showed that the presacral area was the most frequent site of recurrence and not the lateral pelvic wall. Supporting this data, the Swedish study also concluded that LPLN metastasis is not an important cause of local recurrence in patients with low rectal cancer. Therefore, Western approach is CRM-orientated and prophylactic LPLN dissection is not performed routinely as the NCCN guideline does not recommend its surgical removal unless metastases are clinically suspicious. The paradigm in Eastern countries differs somewhat. The Korean study demonstrated that adjuvant radiotherapy without lateral lymph node dissection was not enough to control local recurrence and LPLN metastases. The Japanese Trial JCOG 0212 demonstrated the effects of LPLN dissection in reducing local recurrence in the lateral pelvic compartment. We agree with Sammour and Chang on the fact that rather than a mutual exclusivity approach, we should claim for an approach where all available modalities are considered and used to optimize treatment outcomes, classifying patients into 3 categories of LPLN: low risk cT1/T2/earlyT3 (and Ra) with clinically negative LPLN on MRI; Moderate risk (cT3+/T4 with negative LPLN on MRI) and high risk (clinically abnormal LPLN on MRI). Treatment modality should be based on detailed pretreatment workup and an individualized approach that considers all options to optimize the treatment of patients with rectal cancer in the West or the East.
Association of Plasmodium berghei With the Apical Domain of Hepatocytes Is Necessary for the Parasite's Liver Stage Development

Plasmodium parasites undergo a dramatic transformation during the liver stage of their life cycle, amplifying over 10,000-fold inside infected hepatocytes within a few days. Such a rapid growth requires large-scale interactions with, and manipulations of, host cell functions. Whereas hepatocyte polarity is well-known to be critical for liver function, little is presently known about its involvement during the liver stage of Plasmodium development. Apical domains of hepatocytes are critical components of their polarity machinery and constitute the bile canalicular network, which is central to liver function. Here, we employed high resolution 3-D imaging and advanced image analysis of Plasmodium-infected liver tissues to show that the parasite associates preferentially with the apical domain of hepatocytes and induces alterations in the organization of these regions, resulting in localized changes in the bile canalicular architecture in the liver tissue. Pharmacological perturbation of the bile canalicular network by modulation of AMPK activity reduces the parasite's association with bile canaliculi and arrests the parasite development. Our findings using Plasmodium-infected liver tissues reveal a host-Plasmodium interaction at the level of liver tissue organization. We demonstrate for the first time a role for bile canaliculi, a central component of the hepatocyte polarity machinery, during the liver stage of Plasmodium development.
Fe3O4 Nanoparticles Attenuated Salmonella Infection in Chicken Liver Through Reactive Oxygen and Autophagy via PI3K/Akt/mTOR Signaling

Recently nanomaterials have received substantial attention in biotechnology areas for their innovative properties in physical and chemical function. One of the most arrestive properties of nanomaterials that has been reported is their bacteriostatic activity. Our previous research found that Fe3O4 magnetic nanoparticles (Fe3O4-NPs) could effectively reduce the viability of intracellular Salmonella Enteritidis in chicken cells. There is an essential need to explore whether the bacteriostatic activity of Fe3O4-NPs is available in vivo. As an extension of this research, we conducted the present study to investigate the potential effect of Fe3O4-NPs used for S. Enteritidis control in chickens and to extensively investigate the underlying mechanisms in the process. The overall study included the evaluation of pathological sections, antioxidant status, inflammation, and the autophagy status of chicken liver, including the signaling pathway involved in the process. Results indicated that Fe3O4-NPs pretreatment can effectively inhibit the invasion of S. Enteritidis in chicken liver. Fe3O4-NPs pretreatment significantly increased reactive oxygen species (ROS) generation in chickens, including antioxidant enzyme activities. S. Enteritidis infection significantly increased the protein expression of the autophagy marker LC3. Additionally, the inflammation response and pathological changes caused by S. Enteritidis infection were alleviated by Fe3O4-NPs pretreatment. Phosphorylated mTOR was significantly increased in S. Enteritidis infected chickens, but showed no difference in chickens pretreated with Fe3O4-NPs. In summary, the results demonstrated that ROS and autophagy were involved in the inhibition of S. Enteritidis in chickens by Fe3O4-NPs pretreatment. The redox balance and inflammation response appeared normal in the process, as did the expression of the PI3K/Akt/mTOR signaling pathways. Taken together, our research demonstrate that the bacteriostatic activity of Fe3O4-NPs in chickens is avaliable and safe, which can be an alternative to antibiotics for bacterial inhibition in poultry industry.
Cracking Open Bacterial Membrane Vesicles

Membrane vesicles (MVs) are nanoparticles composed of lipid membranes that are produced by both Gram-negative and Gram-positive bacteria. MVs have been assigned diverse biological functions, and they show great potential for applications in various fields. However, the mechanisms underlying their functions and biogenesis are not completely understood. Accumulating evidence shows that MVs are heterogenous, and different types of MVs with different compositions are released from the same species. To understand the origin and function of these MVs, determining the biochemical properties of MVs is important. In this review, we will discuss recent progress in understanding the biochemical composition and properties of MVs.
Comparing the Efficacy of Static and Dynamic Graph Types in Communicating Complex Statistical Relationships

Graphs are useful tools to communicate meaningful patterns in data, but their efficacy varies considerably based on the figure’s construction and presentation medium. Specifically, a digital format figure can be dynamic, allowing the reader to manipulate it and little is known about the efficacy of dynamic figures. This present study compared how effectively static and dynamic graphical formats convey relationship information, and in particular variable interactions. Undergraduates (N = 128, 56% female, Mage = 18.9) were given a brief tutorial on main effects and interactions in data and then answered 48 multiple-choice questions about specific graphs. Each question involved one of four figure types and one of four relationship types (main effect only, interaction only, main effect and interaction, or no relationship), with relationship types and graphical formats fully crossed. Multilevel logistic regression analysis revealed that participants were fairly accurate at detecting main effects and null relationships but struggled with interaction effects. Additionally, the static 3D graph lowered performance for detecting main effects, although this negative effect disappeared when participants were allowed to rotate the 3D graph. These results suggest that dynamic figures in digital publications are a potential tool to effectively communicate data, but they are not a panacea. Undergraduates continued to struggle with more complicated relationships (e.g., interactions) regardless of graph type. Future studies will need to examine more experienced populations and additional dynamic graph formats, especially ones tailored for demonstrating interactions (e.g., profiler plots).
Emotion Measurements Through the Touch of Materials Surfaces

The emotion generated by the touch of materials is studied via a protocol based on blind assessment of various stimuli. The human emotional reaction felt toward a material is estimated through (i) explicit measurements, using a questionnaire collecting valence and intensity, and (ii) implicit measurements of the activity of the autonomic nervous system, via a pupillometry equipment. A panel of 25 university students (13 women, 12 men), aged from 18 to 27, tested blind twelve materials such as polymers, sandpapers, wood, velvet and fur, randomly ordered. After measuring the initial pupil diameter, taken as a reference, its variation during the tactile exploration was recorded. After each touch, the participants were asked to quantify the emotional value of the material. The results show that the pupil size variation follows the emotional intensity. It is significantly larger during the touch of materials considered as pleasant or unpleasant, than with the touch of neutral materials. Moreover, after a time period of about 0.5 s following the stimulus, the results reveal significant differences between pleasant and unpleasant stimuli, as well as differences according to gender, i.e., higher pupil dilatation of women than men. These results suggest (i) that the autonomic nervous system is initially sensitive to high arousing stimulation, and (ii) that, after a certain period, the pupil size changes according to the cognitive interest induced and the emotional regulation adopted. This research shows the interest of the emotional characterization of materials for product design.
AMEP_A_198878 343..355

Point your SmartPhone at the code above. If you have a QR code reader the video abstract will appear. Or use: https://youtu.be/U1KqysQYLYw Purpose: The present study was conducted to find the preferred mode of learning among first-year preclinical students and compare the preferred mode of learning with sex, faculty of students, and academic performance of the students using the VARK questionnaire. Methods: A cross-sectional study was done among 142 first-year Bachelor of Medicine– Bachelor of Surgery and Bachelor of Dental Surgery students from February to May 2018. Demographic data and various academic performance marks were recorded for each individual. VARK (visual, aural, read/write and kinesthetic) questionnaire version 7.8 was administered to calculate the score of each component. Mean VARK scores were calculated and each student classified by their preferred mode of learning. The preferred mode of learning was compared with sex, nationality, faculty of students, and academic performance using χ, unpaired t-tests, and the Mann–Whitney U test. P<0.05 was taken as statistically significant for comparison. Results: A majority of the students (53.52%) were multimodal. The most common multimodal mode of preference was bimodal (26.06%), while the most common unimodal preference was kinesthetic (29.06%). Total V score, K score, and VARK score were higher among males, while A and R scores were higher among females. The K score (7.96±2.35 in males and 6.96±2.43 in females) differed significantly (P=0.019) between male and female subjects. More subjects with higher scores in the theory exam of anatomy were unimodal learners (53.8%) compared to multimodal learners (46.2%). Conclusion: From this study, it can be concluded that undergraduate students were diverse in their learning styles, but most were multimodal. Though learning styles were found to vary by sex, nationality, and academic performance, differences were not statistically significant.
Improving the Metabolic and Mental Health of Children with Obesity: A School-Based Nutrition Education and Physical Activity Intervention in Wuhan, China

This study aimed to evaluate the effectiveness of a school-based nutrition education and physical activity intervention on cardiovascular risk profile and mental health outcomes among Chinese children with obesity. Two primary schools were randomly allocated to the control group (CG) and the intervention group (IG). We selected children with obesity from 1340 students in the third and fourth grades as participants. The IG received 8 months of nutrition education and physical activity intervention, while the CG was waitlisted. A generalized estimating equation model was applied to assess repeated variables over time. A total of 171 children with obesity (99 IG and 72 CG) aged 9.8 ± 0.7 years completed the post-intervention stage. Compared with baseline, significant reductions were observed within the IG for depression and fasting plasma glucose at post-intervention. After adjusting for confounders, group and time interaction effects showed that the IG achieved improvements in the risk of poor well-being (p = 0.051) and social anxiety (p = 0.029), had decreased diastolic blood pressure (p = 0.020) and fasting plasma glucose (p < 0.001), and had significantly increased high-density lipoprotein (p < 0.001) from baseline to post-intervention relative to the CG. The effects of school-based nutrition education and physical activity intervention on children with obesity are diverse, including not only the improvement of metabolic health but also mental health promotion.
An Experimental Approach For Outlier Detection With Imperfect Data Labels

An anomaly or outlier is a deviation point which varies so much from other monitored data to indicate that it is different from others. Outliers are also mentioned as discordant, or anomalies. The chore of detecting outliers is to find data objects that are marked different from or incompatible with the original data. Data are imperfectly labeled due to data corruption or data of uncertainty. A data may be imperfectly labeled as outlier, although the data is not an outlier. These occur mainly due to negative examples or corrupted data. Typically, most outlier detection algorithms such as Index-based algorithm, Cell-based algorithm, Statistical based method use some distance measure of outlier or a statistical model. These methods cannot detect imperfectly labeled data and normal data which behave like an outlier. To find imperfectly labeled data, a membership value towards the normal and abnormal classes is proposed. The proposed approach works as follows: the Cuckoo k-means clustering method is used to detect the outliers and kernel LOF-based method will be used to reckon the membership values. The originated membership values and few negative examples are incorporated into Cuckoo-SVDD learning frame to develop a classifier for global outlier detection. The proposed method extensively deals with the imperfectly labeled data and attains the accuracy of detecting outliers. Keywords—Likelihood model, Support Vector Data Description, Outliers, Global Classifier
Modulation of Cadmium Induced Apoptotic, Cancer and Inflammation Related Cytokines by Diallyl Disulfide in Rat Liver Cells

Cadmium (Cd), an environmental heavy metal pollutant, is one of the high risk factors for human diseases due to the exponential increase of its use in industrial processes and products during the last 50 years. It deposits mainly in the liver and leads to various diseases including cancer. Currently, there is a growing attention to explore natural compounds for the prevention of unfavorable effects of Cd in humans.
Dengue in Malaysia: An epidemiological perspective Study

Objectives: Dengue is a mosquito-transmitted infection and is an important health problem in Asia for its fatality. The objective of the study was to determine some epidemiological parameters relating to age, gender, community, and prevalence nature, serology and disease severity. Methodology: One hundred forty nine dengue suspected sera samples were obtained from suspectedpatientspresentingwithdenguesymptoms. �Thesamplescollectedwereanalyzedby� serological detection of Immunoglobulin-M (IgM), Immunoglobulin G (IgG), virus culture in cell- lineC36/36�andReverseTranscriptasePolymeraseChainReaction�(RT-PCR). Results:�Thestudiesshowedthatoutof�149�serasamples,�48�(32.2%)�weredetecteddengue� virusbycellcultureandRT-PCRand�108�(72.5%)�positivebyserology. �Ofthe�108�cases,�40� (26.8%)�werepositivetoIgM,�61�(41%)�werepositivetobothIgGandIgM,�and�7(4.7%)�caseswere� positivetoIgGonly. �Prevalenceofdenguewashigherinagegroup�20-29�yearsandinfectionwas� more in male and in Malay population. Epidemic intensity was the highest in the month of June. Conclusions:�DengueishighlyendemicinMalaysiaandagegroup�20-29�wasvulnerableto� infection, male infected more than female and infection was higher in Malay community. Effective preventive and control measures may be strengthened to reduce the infections.
A Multicast Tree Management Method Supporting Fast Failure Recovery and Dynamic Group Membership Changes in OpenFlow Networks

We propose a multicast tree management method in an OpenFlow controller that handles both fast failure recovery and dynamic multicast group membership changes. Multicast communication is an efficient tool to distribute data to many hosts in various services such as live video streaming. To use multicast in such services, multicast communication must be reliable, which means multicast communication should be restored quickly after failures, and multicast tree management mechanism should support frequent group membership changes. A conventional approach, Point to Multipoint (P2MP) MPLS, only supports fast failure recovery for reliability, and is not very effective in terms of group membership changes. A new approach using OpenFlow supports dynamic group membership changes, but does not consider fast failure recovery in physical switches whose flow entry modification is slow. Our proposed method is to control multicast trees centrally, and it uses a precomputation and pre-installation approach for tree management. A controller calculates and keeps multiple trees that cover all switches where receivers are potentially connected and that have less common nodes and edges, and installs their sub-trees covering switches where receivers are actually connected. The controller calculates the difference per tree between sub-trees before and after membership changes, and reflects them into the network. At the time of failure, the controller checks and finds a pre-installed tree that is unaffected by the failure, and installs a new rule only to a root switch to send packets through the pre-installed alternate tree. Our experiments using switches and our prototype controller show that our proposed method can restore packet delivery quickly after a failure, as well as that our proposed method can handle tree modifications faster than a method of recalculating or reinstalling a tree every time that group memberships are changed.