Miracle-dz/UniFAR-FTUs huggingface dataset:
Conditional cell reprogramming for modeling host‐virus interactions and human viral diseases

Conventional cancer and transformed cell lines are widely used in cancer biology and other fields within biology. These cells usually have abnormalities from the original tumor itself, but may also develop abnormalities due to genetic manipulation, or genetic and epigenetic changes during long‐term passages. Primary cultures may maintain lineage functions as the original tissue types, yet they have a very limited life span or population doubling time because of the nature of cellular senescence. Primary cultures usually have very low yields, and the high variability from any original tissue specimens, largely limiting their applications in research. Animal models are often used for studies of virus infections, disease modeling, development of antiviral drugs, and vaccines. Human viruses often need a series of passages in vivo to adapt to the host environment because of variable receptors on the cell surface and may have intracellular restrictions from the cell types or host species. Here, we describe a long‐term cell culture system, conditionally reprogrammed cells (CRCs), and its applications in modeling human viral diseases and drug discovery. Using feeder layer coculture in presence of Y‐27632 (conditional reprogramming, CR), CRCs can be obtained and rapidly propagated from surgical specimens, core or needle biopsies, and other minimally invasive or noninvasive specimens, for example, nasal cavity brushing. CRCs preserve their lineage functions and provide biologically relevant and physiological conditions, which are suitable for studies of viral entry and replication, innate immune responses of host cells, and discovery of antiviral drugs. In this review, we summarize the applications of CR technology in modeling host‐virus interactions and human viral diseases including severe acute respiratory syndrome coronavirus‐2 and coronavirus disease‐2019, and antiviral discovery.
Detection of high‐grade cervical disease among women referred directly to colposcopy after a positive HPV screening test varies with age and cytology findings

Australia's new HPV‐based cervical screening program is based on an algorithm that incorporates reflex cytology to guide decisions about further follow‐up with colposcopy and, if indicated, biopsy. We reviewed results for 2300 women referred directly for colposcopy after their first positive HPV screening test, to determine the proportion that had underlying histological high‐grade abnormality (HGA). Overall, HGA was detected in 24.3% of women. Among HPV16/18 positive women, 18.0% had HGA, increasing from 6.6% among women with negative cytology to 79.7% among women with high‐grade squamous lesion or worse, or any glandular lesion on cytology (HSIL+; P‐trend < .001). For this latter group, the proportion with HGA was higher among HPV16/18 positive women than among those positive for other oncogenic types (68.8%; P = .029). Among women with ASC‐H cytology, 51.8% had HGA, with no difference between HPV groups (P = .314). In analyses by age‐groups, detection of HGA was highest, at 36.4%, among women younger than 35 years, then decreased significantly to 5.9%, among women aged 65 to 74 years (P‐trend < .001). The relationship of decreasing HGA detection with increasing age was strong for women with negative cytology, and those with ASC‐H cytology (P‐trend < .001 for each). For women with HSIL+ cytology, detection of HGA was high and stable, regardless of age (P‐trend = .211). This report describes the first follow‐up colposcopy findings in Australia's new HPV‐based cervical screening program. The results demonstrate the additional value of reflex cytology in managing HPV positive women and suggest that further refinement of the risk‐based algorithm to account for age may be warranted.
Decreased longitudinal systolic strain rate of the left atrial myocardium as one of the earliest markers of atrial cardiomyopathy in subjects with brief paroxysmal atrial fibrillation

Brief paroxysmal atrial fibrillation (BPAF) is defined as episodes of atrial fibrillation (AF) lasting less than 30 seconds and can be a sign of atrial cardiomyopathy. We aimed to evaluate left atrial (LA) function in patients with BPAF.
Gone But Not Lost: Implications for Estimating HIV Care Outcomes When Loss to Clinic Is Not Loss to Care

Supplemental Digital Content is available in the text. Background: In some time-to-event analyses, it is unclear whether loss to follow up should be treated as a censoring event or competing event. Such ambiguity is particularly common in HIV research that uses routinely collected clinical data to report the timing of key milestones along the HIV care continuum. In this setting, loss to follow up may be viewed as a censoring event, under the assumption that patients who are “lost” from a study clinic immediately enroll in care elsewhere, or a competing event, under the assumption that people “lost” are out of care all together. Methods: We illustrate an approach to address this ambiguity when estimating the 2-year risk of antiretroviral treatment initiation among 19,506 people living with HIV who enrolled in the IeDEA Central Africa cohort between 2006 and 2017, along with published estimates from tracing studies in Africa. We also assessed the finite sample properties of the proposed approach using simulation experiments. Results: The estimated 2-year risk of treatment initiation was 69% if patients were censored at loss to follow up or 59% if losses to follow up were treated as competing events. Using the proposed approach, we estimated that the 2-year risk of antiretroviral therapy initiation was 62% (95% confidence interval: 61, 62). The proposed approach had little bias and appropriate confidence interval coverage under scenarios examined in the simulation experiments. Conclusions: The proposed approach relaxes the assumptions inherent in treating loss to follow up as a censoring or competing event in clinical HIV cohort studies.
The Role of MicroRNA in the Airway Surface Liquid Homeostasis

Mucociliary clearance, mediated by a coordinated function of cilia bathing in the airway surface liquid (ASL) on the surface of airway epithelium, protects the host from inhaled pathogens and is an essential component of the innate immunity. ASL is composed of the superficial mucus layer and the deeper periciliary liquid. Ion channels, transporters, and pumps coordinate the transcellular and paracellular movement of ions and water to maintain the ASL volume and mucus hydration. microRNA (miRNA) is a class of non-coding, short single-stranded RNA regulating gene expression by post-transcriptional mechanisms. miRNAs have been increasingly recognized as essential regulators of ion channels and transporters responsible for ASL homeostasis. miRNAs also influence the airway host defense. We summarize the most up-to-date information on the role of miRNAs in ASL homeostasis and host–pathogen interactions in the airway and discuss concepts for miRNA-directed therapy.
Measurement of Quantum Yields of Monolayer TMDs Using Dye-Dispersed PMMA Thin Films

In general, the quantum yields (QYs) of monolayer transition metal dichalcogenides (1L-TMDs) are low, typically less than 1% in their pristine state, significantly limiting their photonic applications. Many methods have been reported to increase the QYs of 1L-TMDs; however, the technical difficulties involved in the reliable estimation of these QYs have prevented the general assessment of these methods. Herein, we demonstrate the estimation of the QYs of 1L-TMDs using a poly methyl methacrylate (PMMA) thin film embedded with rhodamine 6G (R6G) as a reference specimen for measuring the QYs of 1L-TMDs. The PMMA/R6G composite films with thicknesses of 80 and 300 nm demonstrated spatially homogeneous emissions with the incorporation of well-dispersed R6G molecules, and may, therefore, be used as ideal reference specimens for the QY measurement of 1L-TMDs. Using our reference specimens, for which the QY ranged from 5.4% to 22.2% depending on the film thickness and R6G concentrations, we measured the QYs of the exfoliated or chemical vapor deposition (CVD)-grown 1L-WS2, -MoSe2, -MoS2, and -WSe2 TMDs. The convenient procedure proposed in this study for preparing the thin reference films and the simple protocol for the QY estimation of 1L-TMDs may enable accurate comparisons of the absolute QYs between the 1L-TMD samples, thereby enabling the development of a method to improve the QY of 1L-TMDs.
Analysis of the Bacterial Communities in Lime Concretion Black Soil upon the Incorporation of Crop Residues

To analyze the bacterial communities in lime concretion black soil upon the incorporation of crop residues for two years in wheat-maize system, total DNA was directly extracted and PCR-amplified with the F357GC and R518 primers targeting the 16S rRNA genes of V3 region. The amplified fragments were analyzed by perpendicular DGGE. Analyzing of species richness index S and Shannon diversity index H revealed that there was a high diversity of soil bacterial community compositions among all treatments after incorporation of crop residues and fertilizing under field conditions. Eleven DGGE bands recovered were re-amplified, sequenced. Phylogenetic analysis of the representative DGGE fingerprints identified four groups of the prokaryotic communities in the soil by returning wheat residues and fertilizing under field conditions. The bacterial communities belonged to gamma proteobacterium, Cupriavidus sp, halophilic eubacterium, Acidobacterium sp, Sorangium sp, delta proteobacterium, Streptococcus sp and Streptococcus agalactiae were main bacterial communities. Principal Component Analysis (PCA) showed that there were the differences in DNA profiles among the six treatments. It showed that wheat residue returning, maize residue returning and fertilizing all can improve bacterial diversity in varying degrees. As far as improvement of bacterial diversity was concerned, wheat residue returning was higher than fertilizing, and fertilizing higher than maize residue returning.
Effect of forced-molting methods and rearing temperatures on the performance and organ biometrics of laying hens

An experiment was conducted to evaluate the biometrics of organs (ovary, oviduct, liver, proventriculus and gizzard) of laying hens submitted to different forced-molting methods of molt and maintained at three different temperature. Organs were evaluated after molting and resting period. Six hundred birds were distributed according to a completely randomized experimental design in a 5x3 factorial arrangement (forced-molting methods x environmental temperatures) into 15 treatments with 5 replicates of 8 birds each. The molting methods applied were the dietary inclusion of 90%, 70%, 50% of alfalfa, 2,800 ppm zinc oxide, or total feed restriction. Birds were kept at ±20 oC, ±27 oC, or ±35 oC. Data were submitted to analysis of variance and means were compared by orthogonal and polynomial contrasts. The traditional forced-molting method (feed fasting) resulted in adequate performance. However, as the aim of the present study was to find an alternative method to feed fasting, the highest dietary alfafa inclusion level (90%) was shown to be efficient compared with other methods, particularly when hens were kept at high temperature. Therefore, this alternative forced-molting may be applied, especially when bird welfare is taken into consideration.
Emerging technologies / Technologies naissantes In vivo biochemical characterization of transcription factors regulating plant defense response to disease

The timely, coordinated transcriptional control of large sets of genes in response to microbial pathogen challenge is crucial for plant resistance to disease. Accordingly, the study of transcription factors (TFs), sequencespecific DNA-binding proteins that mediate pathogen-regulated gene expression, is key to the understanding of plant defense responses. Research to date has implicated several members from different families of TFs in mediation of plant defense responses. Considerable activity has been focused on ethylene response factors, WRKY and Whirly factors, the TGA subfamily of basic-domain leucine-zipper (bZIP) proteins, and NPR1 protein (nonexpressor of pathogenesis-related genes 1), which regulates defense responses through its interaction with TGA factors. Whereas relatively few TFs had been shown to mediate pathogen-regulated gene expression a decade ago, recent genomics projects are identifying large numbers of new candidates. Elucidating the function of these TFs at the biochemical or molecular level will be a daunting task, but one which should be greatly facilitated by emerging technologies that permit the analysis of protein–DNA and protein–protein interactions in planta. Here we describe some of these technologies as they have been, or could be, applied to plant TFs implicated in regulating defense-related gene
The influence of affective state on sensory and emotional perception: Application of the Sense’n Feel™ method

Emotions play a key role in our daily life through their control over our thoughts and behaviors. While it is commonly accepted that depressive patients have emotional perception disorders, it is important to know how these disorders affect patients’ sensory perception to develop products to provide them with better support. In this study, we first examined the existence of modifications in the emotional perception of subjects with minor depressive symptoms (MDS, n = 80) compared with healthy controls (HC, n = 80) using a nonverbal method based on pictures to measure projected emotions and personality traits: the Sense'n Feel™ method. The investigated stimuli were two unpleasant and two pleasant odors and one pleasant food product: a madeleine. Second, we investigated the hedonic, familiarity and intensity olfactory perceptions of the subjects using the same stimuli. No significant difference was found in any olfactory qualities between the two groups. Concerning the pleasant olfactory stimuli, however, we did note that the MDS subjects had a significantly lower score for the positive emotion of joy/happiness than the controls. Additionally, the MDS group's attribution of some positive personality traits for the three pleasant stimuli was significantly weaker than that in the HC group. These results could be explained by the affective state of the MDS subjects; they were more anxious and more alexithymic compared with the controls. Further research is needed to validate our study in clinically depressed individuals and to determine whether the modifications of the emotional olfactory perception are due to the disease and/or to neuropsychological alterations.
Whole blood for postpartum hemorrhage: early experience at two institutions

Death from postpartum hemorrhage (PPH) remains a significant preventable problem worldwide. Cold‐stored, low‐titer, type‐O whole blood (LTOWB) is increasingly being used for resuscitation of injured patients, but it is uncommon in PPH patients, and it is unclear what its role may be in this population.
Ravine forests (Tilio-Acerion) of the Iberian Peninsula

Abstract A review of ravine forests belonging to the alliance Tilio-Acerion was performed for the Iberian Peninsula by means of published relevés. This alliance is distributed in areas with temperate climate and thus it is concentrated in the Eurosiberian portion of the Peninsula, particularly in the NE quadrant. We recognise six associations: three for the Pyrenees and surrounding areas (Roso pendulinae-Aceretum platanoidis, Violo mirabilis-Ulmetum glabrae and Hedero helicis-Tilietum platyphylli), one for the Cantabrian Range area (Helleboro occidentalis-Tilietum cordatae), one for the Basque-Cantabrian area (Hyperico androsaemi-Ulmetum glabrae) and one for the southern Iberian mountains (Ononido aragonesis-Tilietum platyphylli). Numerical analyses have been carried out to support this classification and to relate the resulting syntaxa to bioclimatic indices and parameters.
Use of marine sponges as stress indicators in marine ecosystems at Algeciras Bay (southern Iberian Peninsula)

Infrallttoral sponge fauna was studied as part of a multidisciplinary investigation of benthic communities in Algeciras Bay On a monthly basis over 1 year, a senes of environmental vanables were measured (hydrodynamlsm, silting, suspended solids, dissolved organic matter % orgamc matter In silt) The only abiotic vanable that was significantly correlated wlth beta diversity was hydrodynamism, with a linear iegression model between the 2 variables showing a correlatlon coefficient of 0 66 The distributional pattern of the sponges (based on the relative abundance matrix) was correlated with the environmental vanables by matchlng sample simllanties uslng the Spearman rank correlatlon thus showing that the variable combination that best explalns the patterns of distribution is hydrodynamlsm/organlc matter ~n silt (p, = 0 6) Of the species considered, Phorbas fictit~us, Cliona celata, C l~ona v~nd i s , Crella elegans. Oscarelld lobular~s, Dysidea fragilis were among those s h o w ~ n g the greatest adaptive plast~city in their relatlonshlp to environmental variables, depth, and selection by substrate, and are categorized as eurytoplc specles present in areas subject to great environmental stress Other species such as Phorbas tenacior, Ren~era fulva Renjera mucosa Cliona rhodensis proved to be much more sensitive to these vanables and were categonzed as s tenotop~c species lndicators of normal conditions Due to the part~cular environmental cond~tions where it is located, A4ycale rnicracanthoxea was categonzed as a good ind~cator species in port environments Others such as Dysidea avara, Halichondna bower bank^ 01 Crella elegans presented morphological differentiations which have permitted them to adapt to sedimentary environments
Catheter-related obstruction of the right brachiocephalic vein following hemodialysis in a patient with lupus nephritis

Vascular access is necessary for hemodialysis, and in some cases where it is difficult to establish an arteriovenous fistula or arteriovenous graft, a permanent hemodialysis catheter may be used. However, serious catheter-related complications, such as central vein stenosis or thrombosis, can occur. We herein present a case of complete brachiocephalic vein obstruction in a patient with lupus nephritis receiving hemodialysis using a tunneled hemodialysis catheter. A 64-year-old patient underwent maintenance hemodialysis while taking an anticoagulant, with a tunneled hemodialysis catheter in the right internal jugular vein, because of arteriovenous fistula failure when hemodialysis was introduced. However, the catheter was removed because of a catheter-related bloodstream infection. Following the administration of antibiotics, an arteriovenous graft was implanted between the brachial artery and axillary vein in the right arm. Surprisingly, arteriovenous graft failure and complete obstruction of the right brachiocephalic vein were observed 3 days after arteriovenous graft creation. In conclusion, we report the case of tunneled hemodialysis catheter-related complete obstruction of the right brachiocephalic vein in a lupus nephritis patient undergoing hemodialysis. Clinicians should be aware of this potential complication when tunneled hemodialysis catheters are used and consider the next vascular access type before a tunneled hemodialysis catheter has been indwelled for the long term.
Design, synthesis, and in vitro biological evaluation of novel thiazolopyrimidine derivatives as antileishmanial compounds.

A series of thiazolopyrimidine derivatives was designed and synthesized as a Leishmania major pteridine reductase 1 (LmPTR1) enzyme inhibitor. Their LmPTR1 inhibitor activities were evaluated using the enzyme produced by Escherichia coli in a recombinant way. The antileishmanial activity of the selected compounds was tested in vitro against Leishmania sp. Additionally, the compounds were evaluated for cytotoxic activity against the murine macrophage cell line RAW 264.7. According to the results, four compounds displayed not only a potent in vitro antileishmanial activity against promastigote forms but also low cytotoxicity. Among them, compound L16 exhibited an antileishmanial activity for both the promastigote and amastigote forms of L. tropica, with IC50 values of 7.5 and 2.69 µM, respectively. In addition, molecular docking studies and molecular dynamics simulations were also carried out in this study. In light of these findings, the compounds provide a new potential scaffold for antileishmanial drug discovery.
Frequency threshold for ablation during holmium laser lithotripsy: How high can you go?

PURPOSE We performed in vitro studies to assess the relationship of pulse frequency on stone ablation during contact laser lithotripsy and determine if there is a threshold after which its effect on lithotripsy is limited. METHODS BegoStones were fragmented using a Ho:YAG laser (P120 Moses) and a 230 µm fiber at 0.5J on Long Pulse (LP) and Moses Distance (MD) modes in contact with the stone. The relationship between the number of pulses (1 to 40Hz) on stone crater volume was assessed using 3D confocal microscopy and nonlinear-segmented regression. To simulate a painting technique, we assessed fragmentation(mg/s) at 20, 40, and 60 Hz, with the fiber moving at a speed of 1 and 3 mm/s, respectively. High-speed imaging was used to record ablation. RESULTS When the laser fiber was fixed, after 13.0 (LP) and 15.4 (MD) pulses, greater pulse frequency did not lead to a significant increase in stone crater volume. Fragmentation was greatest at higher frequencies and faster fiber speed. Increasing the frequency from 20 to 60 Hz at 3 mm/s increased fragmentation by 82% and 61% for LP and MD modes, respectively. Using high-speed data, if the laser fiber is moving at 1mm/s, a hypothetical frequency threshold for ablation was calculated to be 52Hz and 61.6Hz for LP and MD modes, respectively. CONCLUSION Increasing the fiber speed increases stone ablation when using high frequency settings. When the fiber is fixed there is a threshold after which increasing the pulse frequency leads to minimal gain in ablation. The exact value for threshold when the fiber is moving needs further study. Our work serves to provide insight for parameter selection and safety of laser lithotripsy for dusting technique.
MnOx Nanospikes as Nanoadjuvants and Immuogenic Cell Death Drugs with Enhanced Antitumor Immunity and Antimetastatic Effect.

Despite the widespread applications of manganese oxide nanomaterials (MONs) in biomedicine, the intrinsic immunogenicity of MONs is still unclear. Herein, MnOx nanospikes (NSs) as tumor microenvironment (TME)-responsive nanoadjuvants and immuogenic cell death (ICD) drugs are proposed firstly for cancer nanovaccine-based immunotherapy. MnOx NSs with large mesopores structures show ultrahigh loading efficiencies for ovalbumin and tumor cell fragment. The combination of ICD via chemodynamic therapy and ferroptosis inductions as well as antigen stimulations presents a better synergistic immunopotentiation action. Furthermore, the obtained nanovaccines can not only achieve TME-responsive magnetic resonance/photoacoustic dual-mode imaging contrasts, but also effectively inhibit primary/distal tumor growth as well as tumor metastasis.