Miracle-dz/UniFAR-FTUs huggingface dataset:
Milk Consumption for the Prevention of Fragility Fractures

Results indicating that a high milk intake is associated with both higher and lower risks of fragility fractures, or that indicate no association, can all be presented in the same meta-analysis, depending on how it is performed. In this narrative review, we discuss the available studies examining milk intake in relation to fragility fractures, highlight potential problems with meta-analyses of such studies, and discuss potential mechanisms and biases underlying the different results. We conclude that studies examining milk and dairy intakes in relation to fragility fracture risk need to study the different milk products separately. Meta-analyses should consider the doses in the individual studies. Additional studies in populations with a large range of intake of fermented milk are warranted.
Tolerance of Stored Boar Spermatozoa to Autologous Seminal Plasma: A Proteomic and Lipidomic Approach

Long-term exposure of liquid preserved boar spermatozoa to seminal plasma (SP) can cause dramatic sperm injury. This study examined whether boar specificity exists in the sensitivity of spermatozoa to SP and whether correspondent biomarkers can be identified. Consecutive ejaculates (n = 4–5) collected from 19 boars were centrifuged, diluted with a pH-stablising extender with 10% (v/v) autologous SP and evaluated by computer-assisted semen analysis and flow cytometry. Up until 144 h storage, four boars showed consistently high sperm motility, viability and mitochondria activity, and one boar showed consistently low values. Intra-boar variability was high in the other boars. Screening of SP (n = 12 samples) for protein markers using mass spectrometry identified three protein candidates of which the granulin precursor, legumain and AWN were 0.5 to 0.9 log2-fold less abundant (p < 0.05) in SP-resistant compared to SP-sensitive samples. Lipidome analysis by mass spectrometry revealed 568 lipids showing no difference between the SP-groups. The most abundant lipids were cholesterol (42,442 pmol), followed by phosphatidylserine (20,956 pmol) and ether-linked phosphatidylethanolamine (13,039 pmol). In conclusion, three candidate proteins were identified which might be indicative of SP-tolerance of sperm during long-term storage. Noteworthy, a first lipidomic profile of boar SP is presented.
Characterization of the Burkholderia cenocepacia J2315 Surface-Exposed Immunoproteome

Infections by the Burkholderia cepacia complex (Bcc) remain seriously life threatening to cystic fibrosis (CF) patients, and no effective eradication is available. A vaccine to protect patients against Bcc infections is a highly attractive therapeutic option, but none is available. A strategy combining the bioinformatics identification of putative surface-exposed proteins with an experimental approach encompassing the “shaving” of surface-exposed proteins with trypsin followed by peptide identification by liquid chromatography and mass spectrometry is here reported. The methodology allowed the bioinformatics identification of 263 potentially surface-exposed proteins, 16 of them also experimentally identified by the “shaving” approach. Of the proteins identified, 143 have a high probability of containing B-cell epitopes that are surface-exposed. The immunogenicity of three of these proteins was demonstrated using serum samples from Bcc-infected CF patients and Western blotting, validating the usefulness of this methodology in identifying potentially immunogenic surface-exposed proteins that might be used for the development of Bcc-protective vaccines.
The Zebrafish Perivitelline Fluid Provides Maternally-Inherited Defensive Immunity

In the teleost egg, the embryo is immersed in an extraembryonic fluid that fills the space between the embryo and the chorion and partially isolates it from the external environment, called the perivitelline fluid (PVF). The exact composition of the PVF remains unknown in vertebrate animals. The PVF allows the embryo to avoid dehydration, to maintain a safe osmotic balance and provides mechanical protection; however, its potential defensive properties against bacterial pathogens has not been reported. In this work, we determined the global proteomic profile of PVF in zebrafish eggs and embryos, and the maternal or zygotic origin of the identified proteins was studied. In silico analysis of PVF protein composition revealed an enrichment of protein classes associated with non-specific humoral innate immunity. We found lectins, protease inhibitors, transferrin, and glucosidases present from early embryogenesis until hatching. Finally, in vitro and in vivo experiments done with this fluid demonstrated that the PVF possessed a strong agglutinating capacity on bacterial cells and protected the embryos when challenged with the pathogenic bacteria Edwardsiella tarda. Our results suggest that the PVF is a primitive inherited immune extraembryonic system that protects the embryos from external biological threats prior to hatching.
Molecular Mechanisms of Immune Escape for Foot-and-Mouth Disease Virus

Foot-and-mouth disease virus (FMDV) causes a highly contagious vesicular disease in cloven-hoofed livestock that results in severe consequences for international trade, posing a great economic threat to agriculture. The FMDV infection antagonizes the host immune responses via different signaling pathways to achieve immune escape. Strategies to escape the cell immune system are key to effective infection and pathogenesis. This review is focused on summarizing the recent advances to understand how the proteins encoded by FMDV antagonize the host innate and adaptive immune responses.
Transfer RNAs: diversity in form and function

ABSTRACT As the adaptor that decodes mRNA sequence into protein, the basic aspects of tRNA structure and function are central to all studies of biology. Yet the complexities of their properties and cellular roles go beyond the view of tRNAs as static participants in protein synthesis. Detailed analyses through more than 60 years of study have revealed tRNAs to be a fascinatingly diverse group of molecules in form and function, impacting cell biology, physiology, disease and synthetic biology. This review analyzes tRNA structure, biosynthesis and function, and includes topics that demonstrate their diversity and growing importance.
Challenges in Antifungal Therapy in Diabetes Mellitus

Diabetic patients have an increased propensity to Candida sp. infections due to disease-related immunosuppression and various other physiological alterations. The incidence of candidiasis has increased in number over the years and is linked to significant morbidity and mortality in critically ill and immunosuppressed patients. Treatment of infection in diabetic patients may be complicated due to the various disease-related changes to the pharmacokinetics and pharmacodynamics (PK/PD) of a drug, including antifungal agents. Application of PK/PD principles may be a sensible option to optimise antifungal dosing regimens in this group of patients. Further studies on PK/PD of antifungals in patients with diabetes mellitus are needed as current data is limited or unavailable.
Evaluation of Two Major Rhodiola Species and the Systemic Changing Characteristics of Metabolites of Rhodiola crenulata in Different Altitudes by Chemical Methods Combined with UPLC-QqQ-MS-Based Metabolomics

Rhodiola species have a long history of use in traditional medicine in Asian and European countries and have been considered to possess resistance to the challenges presented by extreme altitudes. However, the influence of different Rhodiola species on quality is unclear, as well as the influence of altitude on phytochemicals. In this study, the phenolic components and antioxidant abilities of two major Rhodiola species are compared, namely Rhodiola crenulata and Rhodiola rosea, and the metabolomes of Rhodiola crenulata from two representative elevations of 2907 and 5116 m are analyzed using a UPLC-QqQ-MS-based metabolomics approach. The results show that the phenolic components and antioxidant activities of Rhodiola crenulata are higher than those of Rhodiola rosea, and that these effects in the two species are positively correlated with elevation. Here, 408 metabolites are identified, of which 178 differential metabolites (128 upregulated versus 50 downregulated) and 19 biomarkers are determined in Rhodiola crenulata. Further analysis of these differential metabolites showed a significant upregulation of flavonoids, featuring glucosides, the enhancement of the phenylpropanoid pathway, and the downregulation of hydrolyzed tannins in Rhodiola crenulata as elevation increased. Besides, the amino acids of differential metabolites were all upregulated as the altitude increased. Our results contribute to further exploring the Rhodiola species and providing new insights into the Rhodiola crenulata phytochemical response to elevation.
Testosterone on turkey growth, 2: Effects of castration and testosterone implant on carcass yield, carcass conformation and chemical compositions

Effects of castration and testosterone implants on carcass yield, carcass conformation, body composition, and chemical composition of edible meats in male turkeys were determined. A2•~2 factorial arrangement of treatments with testosterone implant and castration was incorporated in experimental design. Male turkeys were castrated at 9.5 weeks of age and implanted with testosterone pellets at 20mg/kg body weight at 11 weeks of age. Six turkeys from each treatment were killed at 21 weeks of age to determine the carcass quality and the chemical composition. The yield of eviscerated carcasses was increased (P•.0.05) by testosterone treatment (T), but not affected by castration (C). Abdominal fat was reduced (P•.0.05) by T, but not affected by C. The amount of skin was incresed (P•.0.05) by T and decreased (P•.0.05) by C. The wing yield was reduced (P•.0.05) by T and increased (P•.0.05) by C. The part and lean yields were not affected by either T or C with the following exceptions. The lean yield of breast was increased (P•.0.05) by T and the part and lean yields of drumsticks were reduced (P•.0.05) by C. Body composition was affected (P•.0.05) by T, but not by C. The moisture content was increased (P•.0.05) by T. The chemical composition of breast, thigh, and drumstick was not affected by either T or C with an exception that the moisture content of breast meat was increased (P•.0.05) by T. (Jpn. Poult. Sci., 33: 153-161, 1996)
It Is Our Turn to Get Cannabis High: Put Cannabinoids in Food and Health Baskets

Cannabis is an annual plant with a long history of use as food, feed, fiber, oil, medicine, and narcotics. Despite realizing its true value, it has not yet found its true place. Cannabis has had a long history with many ups and downs, and now it is our turn to promote it. Cannabis contains approximately 600 identified and many yet unidentified potentially useful compounds. Cannabinoids, phenolic compounds, terpenoids, and alkaloids are some of the secondary metabolites present in cannabis. However, among a plethora of unique chemical compounds found in this plant, the most important ones are phytocannabinoids (PCs). Over hundreds of 21-22-carbon compounds exclusively produce in cannabis glandular hairs through either polyketide and or deoxyxylulose phosphate/methylerythritol phosphate (DOXP/MEP) pathways. Trans-Δ9-tetrahydrocannabinol (Δ9-THC) and cannabidiol (CBD) are those that first come to mind while talking about cannabis. Nevertheless, despite the low concentration, cannabinol (CBN), cannabigerol (CBG), cannabichromene (CBC), tetrahydrocannabivarin (THCV), cannabidivarin (CBDV), cannabinodiol (CBND), and cannabinidiol (CBDL) may have potentially some medical effects. PCs and endocannabinoids (ECs) mediate their effects mainly through CB1 and CB2 receptors. Despite all concerns regarding cannabis, nobody can ignore the use of cannabinoids as promising tonic, analgesic, antipyretic, antiemetic, anti-inflammatory, anti-epileptic, anticancer agents, which are effective for pain relief, depression, anxiety, sleep disorders, nausea and vomiting, multiple sclerosis, cardiovascular disorders, and appetite stimulation. The scientific community and public society have now increasingly accepted cannabis specifically hemp as much more than a recreational drug. There are growing demands for cannabinoids, mainly CBD, with many diverse therapeutic and nutritional properties in veterinary or human medicine. The main objective of this review article is to historically summarize findings concerning cannabinoids, mainly THC and CBD, towards putting these valuable compounds into food, feed and health baskets and current and future trends in the consumption of products derived from cannabis.
A Survey on Adaptive Data Rate Optimization in LoRaWAN: Recent Solutions and Major Challenges

Long-Range Wide Area Network (LoRaWAN) is a fast-growing communication system for Low Power Wide Area Networks (LPWAN) in the Internet of Things (IoTs) deployments. LoRaWAN is built to optimize LPWANs for battery lifetime, capacity, range, and cost. LoRaWAN employs an Adaptive Data Rate (ADR) scheme that dynamically optimizes data rate, airtime, and energy consumption. The major challenge in LoRaWAN is that the LoRa specification does not state how the network server must command end nodes pertaining rate adaptation. As a result, numerous ADR schemes have been proposed to cater for the many applications of IoT technology, the quality of service requirements, different metrics, and radio frequency (RF) conditions. This offers a challenge for the reliability and suitability of these schemes. This paper presents a comprehensive review of the research on ADR algorithms for LoRaWAN technology. First, we provide an overview of LoRaWAN network performance that has been explored and documented in the literature and then focus on recent solutions for ADR as an optimization approach to improve throughput, energy efficiency and scalability. We then distinguish the approaches used, highlight their strengths and drawbacks, and provide a comparison of these approaches. Finally, we identify some research gaps and future directions.
Evaluation of genetic diversity and comparison of biochemical traits of soybean (Glycine max L.) germplasm collections.

Assessment of the genetic variation and biochemical traits among various germplasm collections are necessary for utilization of valuable genetic resource and effective strategies of germplasm conservation. The aims of this study were to analyze the genetic diversity using SSR markers and compare protein, oil content and fatty acid composition of about 185 soybean germplasm which is comprised of Korean landraces and collections from six different global regions. Seventy two SSR markers were selected based on their distribution on the 17 genetic linkage groups of soybean. A total of 784 alleles were detected from all accessions, with an average of 10.9 alleles per microsatellite locus. The genetic diversity observed was high wherein three distinct groups were formed containing several subgroups according to their geographic origins. Biochemical contents assay revealed significant differences in their protein and oil contents. Generally, the crude protein content was highest among India and Myanmar collections, while oil content was highest among accessions from USA and China. A negative correlation was observed between protein and oil contents, and between oleic and linolenic acids. The highest value observed for biochemical content among all germplam tested was 45.8% for crude protein, 26.7% for crude oil and 35.7% for oleic acid composition. Our study provided a better understanding of genetic relationships and geographical origin among various germplasm collections, and it could contribute to more efficient utilization of valuable genetic resources.
Gateways for Glutamate Neuroprotection in Parkinson’s Disease (PD): Essential Role of EAAT3 and NCX1 Revealed in an In Vitro Model of PD

Increasing evidence suggests that metabolic alterations may be etiologically linked to neurodegenerative disorders such as Parkinson’s disease (PD) and in particular empathizes the possibility of targeting mitochondrial dysfunctions to improve PD progression. Under different pathological conditions (i.e., cardiac and neuronal ischemia/reperfusion injury), we showed that supplementation of energetic substrates like glutamate exerts a protective role by preserving mitochondrial functions and enhancing ATP synthesis through a mechanism involving the Na+-dependent excitatory amino acid transporters (EAATs) and the Na+/Ca2+ exchanger (NCX). In this study, we investigated whether a similar approach aimed at promoting glutamate metabolism would be also beneficial against cell damage in an in vitro PD-like model. In retinoic acid (RA)-differentiated SH-SY5Y cells challenged with α-synuclein (α-syn) plus rotenone (Rot), glutamate significantly improved cell viability by increasing ATP levels, reducing oxidative damage and cytosolic and mitochondrial Ca2+ overload. Glutamate benefits were strikingly lost when either EAAT3 or NCX1 expression was knocked down by RNA silencing. Overall, our results open the possibility of targeting EAAT3/NCX1 functions to limit PD pathology by simultaneously favoring glutamate uptake and metabolic use in dopaminergic neurons.
Le rôle du mésoderme somitique dans la morphogenèse précoce des membres de l'embryon de Poulet

La morphogenese des membres a fait l9objet de nombreux travaux chez l9embryon de Poulet. Les recherches recentes concernent surtout les processus intervenant apres l9apparition de l9ebauche du membre, et conduisant a sa morphologie definitive. Le premier stade de developpement du membre consiste en une condensation localisee du mesoderme de la somatopleure. Par la suite seulement, l9ectoderme sus-jacent acquiert un aspect morphologique particulier: une crete epaissie a l9extremite distale. Les causes de la condensation initiale du mesoderme ne sont pas connues. Le role determinant du constituant mesodermique comme initiateur du developpement du membre a ete clairement mis en evidence par Kieny (1959, 1960). Le constituant mesodermique isole, greffe sous l9ectoderme du flanc, peut induire la formation d9une crete apicale dans l9ectoderme sus-jacent, et provoquer ainsi le developpement d9un membre surnumeraire. A quel moment et sous quelles influences le mesoderme acquiert-il cette propriete?
CERS6 required for cell migration and metastasis in lung cancer

Sphingolipids constitute a class of bio‐reactive molecules that transmit signals and exhibit a variety of physical properties in various cell types, though their functions in cancer pathogenesis have yet to be elucidated. Analyses of gene expression profiles of clinical specimens and a panel of cell lines revealed that the ceramide synthase gene CERS6 was overexpressed in non–small‐cell lung cancer (NSCLC) tissues, while elevated expression was shown to be associated with poor prognosis and lymph node metastasis. NSCLC profile and in vitro luciferase analysis results suggested that CERS6 overexpression is promoted, at least in part, by reduced miR‐101 expression. Under a reduced CERS6 expression condition, the ceramide profile became altered, which was determined to be associated with decreased cell migration and invasion activities in vitro. Furthermore, CERS6 knockdown suppressed RAC1‐positive lamellipodia/ruffling formation and attenuated lung metastasis efficiency in mice, while forced expression of CERS6 resulted in an opposite phenotype in examined cell lines. Based on these findings, we consider that ceramide synthesis by CERS6 has important roles in lung cancer migration and metastasis.
Preventive Role of Diet Interventions and Dietary Factors in Type 2 Diabetes Mellitus: An Umbrella Review

Background: Although the body of evidence indicates clear benefits of dietary modifications for prevention of type-2 diabetes mellitus (T2DM), it may be difficult for healthcare providers to recommend which diet interventions or dietary factors are appropriate for patients as there are too many modalities available. Accordingly, we performed an umbrella review to synthesize evidence on diet interventions and dietary factors in prevention of T2DM. Methods: Medline and Scopus databases were searched for relevant studies. Systematic reviews with meta-analyses of randomized-controlled trial or observational studies were eligible if they measured effects of diet interventions and/or dietary factors including dietary patterns, food groups, and nutrients on risk of T2DM. The effect of each diet intervention/factor was summarized qualitatively. Results: Sixty systematic reviews and meta-analyses were eligible. Results of the review suggest that healthy dietary patterns such as Mediterranean and Dietary Approaches to Stop Hypertension (DASH) diets, and high consumption of whole grains, low-fat dairy products, yogurt, olive oil, chocolate, fiber, magnesium, and flavonoid significantly reduced the risk of T2DM. In contrast, high glycemic index and glycemic load diets, high consumption of red and processed meat, and sugar or artificial sugar-sweetened beverages significantly increased risk of T2DM. Prescribing diet interventions with or without physical activity interventions significantly decreased risk of T2DM in both high-risk and general population. Conclusion: High consumption of Mediterranean and DASH diet, and interventions that modified the quality of diet intake significantly reduced risk of T2DM especially in the high-risk population. These lifestyle modifications should be promoted in both individual and population levels to prevent and decrease burden from T2DM in the future.
Laboratory identification methods of nonpathogenic Neisseria species

Although the clinically important members Neisseria gonorrhoeae and Neisseria meningitidis are relatively straightforward to identify, the differences between many of the nonpathogenic strains remain small and the speciation of these strains within a diagnostic setting is not always possible. We aim to provide an overview of laboratory identification methods used for commensal Neisseria characterization. This document focuses on a number of approaches that have been used to explore the relationships and species assignment of the genus Neisseria, including conventional biochemical methods, DNA–DNA hybridization, real-time PCR, 16S rRNA gene sequencing, analysis of the housekeeping gene fragments used in the multilocus sequence typing approach, whole genome sequencing and matrix-assisted laser desorption ionization time-of-flight. New methods exploiting next-generation sequencing genome data to classify bacterial genomes have the advantage of providing strain resolution within a given species.
How Do mAbs Make Use of Complement to Kill Cancer Cells? The Role of Ca2+

We examined the kinetics and mechanisms by which monoclonal antibodies (mAbs) utilize complement to rapidly kill targeted cancer cells. Based on results from flow cytometry, confocal microscopy and high-resolution digital imaging experiments, the general patterns which have emerged reveal cytotoxic activities mediated by substantial and lethal Ca2+ fluxes. The Ca2+ fluxes are common to the reported pathways that have been utilized by other toxins in killing nucleated cells. These reactions terminate in very high levels of cell killing, and based on these considerations, we suggest additional strategies to further enhance mAb-based targeting of cancer with complement.