Miracle-dz/UniFAR-FTUs huggingface dataset:
CXCL1: Gene, Promoter, Regulation of Expression, mRNA Stability, Regulation of Activity in the Intercellular Space

CXCL1 is one of the most important chemokines, part of a group of chemotactic cytokines involved in the development of many inflammatory diseases. It activates CXCR2 and, at high levels, CXCR1. The expression of CXCL1 is elevated in inflammatory reactions and also has important functions in physiology, including the induction of angiogenesis and recruitment of neutrophils. Due to a lack of reviews that precisely describe the regulation of CXCL1 expression and function, in this paper, we present the mechanisms of CXCL1 expression regulation with a special focus on cancer. We concentrate on the regulation of CXCL1 expression through the regulation of CXCL1 transcription and mRNA stability, including the involvement of NF-κB, p53, the effect of miRNAs and cytokines such as IFN-γ, IL-1β, IL-17, TGF-β and TNF-α. We also describe the mechanisms regulating CXCL1 activity in the extracellular space, including proteolytic processing, CXCL1 dimerization and the influence of the ACKR1/DARC receptor on CXCL1 localization. Finally, we explain the role of CXCL1 in cancer and possible therapeutic approaches directed against this chemokine.
Prolonged Viability of Senecavirus A in Exposed House Flies (Musca domestica)

House flies (Musca domestica) are often present in swine farms worldwide. These flies utilize animal secretions and waste as a food source. House flies may harbor and transport microbes and pathogens acting as mechanical vectors for diseases. Senecavirus A (SVA) infection in pigs occurs via oronasal route, and animals shed high virus titers to the environment. Additionally, SVA possesses increased environmental resistance. Due to these reasons, we investigated the tenacity of SVA in house flies. Five groups of flies, each composed of ten females and ten males, were exposed to SVA, titer of 109.3 tissue culture infectious dose (TCID50/mL). Groups of male and female flies were collected at 0, 6, 12, 24, and 48 h post-exposure. For comparison purposes, groups of flies were exposed to Swinepox virus (SwPV). Infectious SVA was identified in all tested groups. Successful isolation of SVA demonstrated the titers varied between 106.8 and 102.8 TCID50/mL in female groups and varied from 105.85 to 103.8 TCID50/mL in male groups. In contrast, infectious SwPV was only detected in the female group at 6 h. The significant SVA infectious titer for prolonged periods of time, up to 48 h, indicates a potential role of flies in SVA transmission.
Older adults’ recalled memorable messages about aging and their role in the communicative ecology model of successful aging

ABSTRACT This study examined how older adults’ dispositional hope was associated with the themes of up to three recalled memorable messages about aging, as well as how older adults’ own age-related communication and memorable message themes were indirectly associated with successful aging, via aging efficacy. Dispositional hope was positively associated with the recollection of memorable messages with a theme of aging is not important or aging is a subjective state that can be overcome with the right mind-set. Relative to engaged agers, bantering agers and gloomy agers reported less successful aging, via less aging efficacy. The memorable message themes were not indirectly associated with successful aging, via aging efficacy. The results suggest that people may have some agency in how well they age, and the results also inform conceptual and methodological issues in memorable messages scholarship.
Efficacy of Corticosteroid Therapy for HTLV-1-Associated Myelopathy: A Randomized Controlled Trial (HAMLET-P)

Corticosteroids are most commonly used to treat HTLV-1-associated myelopathy (HAM); however, their clinical efficacy has not been tested in randomized clinical trials. This randomized controlled trial included 8 and 30 HAM patients with rapidly and slowly progressing walking disabilities, respectively. Rapid progressors were assigned (1:1) to receive or not receive a 3-day course of intravenous methylprednisolone in addition to oral prednisolone therapy. Meanwhile, slow progressors were assigned (1:1) to receive oral prednisolone or placebo. The primary outcomes were a composite of ≥1-grade improvement in the Osame Motor Disability Score or ≥30% improvement in the 10 m walking time (10 mWT) at week 2 for rapid progressors and changes from baseline in 10 mWT at week 24 for slow progressors. In the rapid progressor trial, all four patients with but only one of four without intravenous methylprednisolone achieved the primary outcome (p = 0.14). In the slow progressor trial, the median changes in 10 mWT were −13.8% (95% CI: −20.1–−7.1; p < 0.001) and −6.0% (95% CI: −12.8–1.3; p = 0.10) with prednisolone and placebo, respectively (p for between-group difference = 0.12). Whereas statistical significance was not reached for the primary endpoints, the overall data indicated the benefit of corticosteroid therapy. (Registration number: UMIN000023798, UMIN000024085)
Remotely sensed vegetation productivity predicts breeding activity and drought refuges for a threatened bird in semi‐arid Australia

Refuges play a critical role protecting species against the effects of climate change. Managing high priority refuges could improve species resilience and facilitate dispersal during periods of environmental change. In this study, we identified drought refuges in semi‐arid Australia for a threatened bird, the malleefowl Leipoa ocellata. Using a Poisson regression model, we quantified the effect of remotely sensed vegetation indices, rainfall, soil moisture and site characteristics on malleefowl breeding activity at 144 sites surveyed from 2000 to 2017 during and after drought. We tested the effect of two vegetation productivity indices on malleefowl breeding activity – the Normalized Difference Vegetation Index (NDVI) and the Enhanced Vegetation Index (EVI) – averaged across three temporal and three spatial scales during the mound building and incubation stage of the breeding cycle. We found that NDVI and EVI were better predictors of malleefowl breeding activity than soil moisture and winter rainfall. The model with the lowest Akaike information criterion value contained NDVI averaged over 3 months (June–August) and a 1‐km radius. Malleefowl breeding activity had a strong positive association with NDVI (0.42 ± se 0.03) and a negative association with slope (−0.34 ± se 0.03) and vegetation patch size (−0.23 ± se 0.02). We found the proportion of refugia (top 20% of predicted breeding activity) in protected areas was highly variable, decreasing from 42% in an extreme wet year (2011) to 14% in an extreme drought year (2007). Expanding the reserve network to include refugia predicted to occur in the south of semi‐arid Victoria could improve resilience of malleefowl to climate change. We demonstrate how remotely sensed vegetation indices combined with citizen science data can identify where to protect native vegetation with high, stable productivity. Our approach could be applied to a broad range of species in semi‐arid regions vulnerable to climate change.
Gaps in moderate plaque psoriasis management: A survey of Saudi dermatologists

Background: There are many barriers that usually lead to under-treatment of moderate psoriasis patients, with subsequent unsatisfactory results and clinical outcomes. Objective: Given this lack of consistent guidelines on treating moderate plaque psoriasis patients, the aim of the current study is to define how Saudi dermatologists define and treat such cases in the real-world clinical setting. Methods: We conducted an online cross-sectional survey from May 2020 to October 2020, involving all eligible dermatologists working at different academic, governmental, and private sectors in Saudi Arabia. Results: Finally, a total of 260 dermatologists were included in the final analysis; out of them, 140 (53.8%) were males and 120 (46.2%) were females. Regarding the tools used by participating dermatologists for diagnosis of moderate psoriasis, most of the participants (86.5%) used Body Surface Area (BSA), 7.3% used Physician Global Assessment (PGA), and 6.2% used Dermatology Life Quality Index (DLQI). Cutoff scores for defining moderate psoriasis varied widely among surveyed dermatologists. The surveyed dermatologists reported that 46% of their patients with moderate plaque psoriasis were receiving biologics as their primary therapy, while 24.1% were receiving prescription topical treatment, 20.3% were receiving an oral systemic therapy, 4.9% were using over-the-counter topical treatment, and 4.7% were receiving phototherapy. Conclusion: There is a pervasive lack of consensus regarding the definition of moderate psoriasis, with reported wide ranges among the commonly used severity tools in psoriasis patients.
Influence of the Magnetic Field Strength and Solar Activity on the Thermospheric Zonal Wind

Based on Thermosphere‐Ionosphere Electrodynamics General Circulation Model simulation and CHAllenging Minisatellite Payload observations, the effects of the geomagnetic field intensity and solar activity on the thermospheric zonal wind and related physical mechanisms are investigated. The weakening of the magnetic field results in an increase in the westward wind during the daytime and a decrease in the eastward wind at night, and leading to a decreasing superrotation. The weakening solar activity causes a reduction in the zonal wind and superrotation. The theoretical term analysis shows that when the magnetic field is weakened, the vertical upward drift velocity of the plasma increases, resulting in a decrease in the electron density in the F layer. The weakening of eastward acceleration of viscous force and ion drag results in an enhanced westward wind. The downward drift velocity of ions increases at night, resulting in an increase in the electron density, while the ion‐neutral velocity difference decreases. The weakening of eastward acceleration of pressure gradient and viscous force at night are main reasons for the decreased eastward wind. The reduced solar activity leads to a decrease in the pressure gradient and ion drag. Combined with the change of viscous force, these processes cause the decrease in the superrotation. The geomagnetic field configuration is responsible for the UT variation (potential longitudinal change) in the superrotation. When the magnetic field is weakened, although the average neutral wind decreases, the Pedersen conductivity of the F‐layer is quadrupled. Therefore, the meridional current system driven by the F‐layer dynamo is enhanced accordingly.
Estimation of Genetic Parameters for Yield, Yield Components and Glucosinolate in Rapeseed (Brassica napus L.)

Eight genotypes of rapeseed (Brassica napus L.), including six cultivars and two breeding lines, were used to determine the genetic parameters for number of pods per main axis (NPM), number of pods per plant (NPP), length of pod (LOP), number of seeds per pods (NSP), 1000-seed weight , seed yield, and total glucosinolate. Analysis of variance based on Hayman’s method revealed significant general (a) and specific (b) combining ability mean squares for all traits except for 1000-seed weight, which indicated the importance of additive and non-additive genetic effects. For 1000-seed weight, only the general combining ability mean square was statistically significant. Significant ratios of a to b mean squares and high narrow-sense heritability estimates were observed for 1000-seed weight and total glucosinolate, which indicated the importance of additive genetic effects for these traits. Therefore, the efficiency of selection for improving these traits will be high. The significant b1 (mean deviation of F1’s from their mid-parental values) mean squares for all of the studied traits except LOP and 1000-seed weight, exhibited directional dominance and subsequently significant average heterosis. Significant maternal (c) mean squares were observed for all of traits, except LOP. Among yield components, NPM and NPP had a significant correlation with seed yield and can therefore be used as good criteria for improving seed yield. The correlation between seed yield and total glucosinolate was not significant, and so reducing this antiquality trait without any considerable changes in seed yield is possible. In general, the parents PF7045/91 and BL1 were good combiners and the crosses BL1×PF7045/91, BL1×BL2 and PF7045/91×Shiralee were good combinations for improving seed yield and total glucosinolate, simultaneously.
Microbial Contamination of Photographic and Cinematographic Materials in Archival Funds in the Czech Republic

In this study we investigated the microbial contamination of 126 samples of photographic and cinematographic materials from 10 archival funds in the Czech Republic. Microorganisms were isolated from the light-sensitive layer by swabbing it with a polyurethane sponge. Microbial isolates were identified by MALDI-TOF MS (bacteria) or by phenotype testing and microscopy (fungi). Bacterial contamination was more abundant and more diverse than fungal contamination, and both were significantly associated with archives. The most frequently isolated fungal genera were Cladosporium, Eurotium, Penicillium, Aspergillus and Alternaria. The most frequently isolated bacteria were Gram-positive genera such as Staphylococcus, Micrococcus, Kocuria, Streptococcus and Bacillus. This bacterial and fungal diversity suggests that air is the main vehicle of contamination. We also analysed the impact of the type of material used for the carrier (paper, baryta paper, cellulose acetate and nitrate or glass) or the light-sensitive layer (albumen, gelatine, collodion and other) on the level and diversity of microbial contamination. Carriers such as polyester and cellulose nitrate may have a negative impact on bacterial contamination, while paper and baryta paper may have a partially positive impact on both fungal and bacterial contamination.
Return to Play and Player Performance After Meniscal Tear Among Elite-Level European Soccer Players: A Matched Cohort Analysis of Injuries From 2006 to 2016

Background: Meniscal injuries are extremely common in soccer athletes, and little is known about postrecovery performance. Purpose: To (1) identify characteristics associated with return to play (RTP) to the same league level and (2) evaluate long-term effects that injury and management approach may have on player performance. Study Design: Cohort study; Level of evidence, 3. Methods: Using publicly available records, we identified athletes who sustained meniscal tears across the 5 major European soccer leagues (English Premier League, Bundesliga, La Liga, Ligue 1, and Serie A) between 2006 and 2016. Injured athletes were matched to controls 1:2 by demographics and performance. Investigations included rate of RTP to the same league level, reinjury, player characteristics associated with RTP within 2 seasons, long-term availability, field time, and performance metrics standardized to 90 minutes of play during the next 4 seasons. Results: A total of 250 players sustaining meniscal tears were included, of which 106 (42%) received surgical management. Median absence was 57.5 days (interquartile range [IQR], 35-92) or 7 games (IQR, 4-12). Rate of RTP was 70%, and the reinjury rate 5% if a player could RTP. Age greater than 30 years was a negative predictor for RTP (odds ratio [OR], 0.62; P = .002), whereas higher preinjury goals per game (OR, 2.80; P = .04) and surgical management (OR, 1.38; P = .002) were positive predictors for RTP. Surgical management was associated with higher long-term availability (P < .01). As compared with the control, there were no significant differences in field time or performance metrics after RTP, either overall or by player position. As compared with nonoperative management, defenders undergoing surgery demonstrated decreased field time. Attackers and midfielders demonstrated similar field time and performance regardless of management. Conclusion: RTP of elite soccer athletes sustaining meniscal tear is contingent on age, preinjury performance, and management approach. Those who RTP to the same league level can be expected to demonstrate equivalent field time, performance, and long-term availability as noninjured athletes.
Genome Sequence of a Thermoacidophilic Methanotroph Belonging to the Verrucomicrobiota Phylum from Geothermal Hot Springs in Yellowstone National Park: A Metagenomic Assembly and Reconstruction

Verrucomicrobiotal methanotrophs are thermoacidophilic methane oxidizers that have been isolated from volcanic and geothermal regions of the world. We used a metagenomic approach that entailed obtaining the whole genome sequence of a verrucomicrobiotal methanotroph from a microbial consortium enriched from samples obtained from Nymph Lake (89.9 °C, pH 2.73) in Yellowstone National Park in the USA. To identify and reconstruct the verrucomicrobiotal genome from Illumina NovaSeq 6000 sequencing data, we constructed a bioinformatic pipeline with various combinations of de novo assembly, alignment, and binning algorithms. Based on the marker gene (pmoA), we identified and assembled the Candidatus Methylacidiphilum sp. YNP IV genome (2.47 Mbp, 2392 ORF, and 41.26% GC content). In a comparison of average nucleotide identity between Ca. Methylacidiphilum sp. YNP IV and Ca. Methylacidiphilum fumariolicum SolV, its closest 16S rRNA gene sequence relative, is lower than 95%, suggesting that Ca. Methylacidiphilum sp. YNP IV can be regarded as a different species. The Ca. Methylacidiphilum sp. YNP IV genome assembly showed most of the key genes for methane metabolism, the CBB pathway for CO2 fixation, nitrogen fixation and assimilation, hydrogenases, and rare earth elements transporter, as well as defense mechanisms. The assembly and reconstruction of a thermoacidophilic methanotroph belonging to the Verrucomicrobiota phylum from a geothermal environment adds further evidence and knowledge concerning the diversity of biological methane oxidation and on the adaptation of this geochemically relevant reaction in extreme environments.
Escherichia coli YigI is a Conserved Gammaproteobacterial Acyl-CoA Thioesterase Permitting Metabolism of Unusual Fatty Acid Substrates

Previous research has shown that long chain acyl-CoA thioesterases are needed for E. coli to grow in the presence of carbon sources such as conjugated linoleic acid, but that E. coli must possess at least one such enzyme that had not previously been characterized. Building off structure-guided function predictions, we showed that the poorly annotated protein YigI is indeed the previously unidentified third acyl CoA thioesterase. ABSTRACT Thioesterases play a critical role in metabolism, membrane biosynthesis, and overall homeostasis for all domains of life. In this present study, we characterize a putative thioesterase from Escherichia coli MG1655 and define its role as a cytosolic enzyme. Building on structure-guided functional predictions, we show that YigI is a medium- to long-chain acyl-CoA thioesterase that is involved in the degradation of conjugated linoleic acid (CLA) in vivo, showing overlapping specificity with two previously defined E. coli thioesterases TesB and FadM. We then bioinformatically identify the regulatory relationships that induce YigI expression, which include: an acidic environment, high oxygen availability, and exposure to aminoglycosides. Our findings define a role for YigI and shed light on why the E. coli genome harbors numerous thioesterases with closely related functions. IMPORTANCE Previous research has shown that long chain acyl-CoA thioesterases are needed for E. coli to grow in the presence of carbon sources such as conjugated linoleic acid, but that E. coli must possess at least one such enzyme that had not previously been characterized. Building off structure-guided function predictions, we showed that the poorly annotated protein YigI is indeed the previously unidentified third acyl CoA thioesterase. We found that the three potentially overlapping acyl-CoA thioesterases appear to be induced by nonoverlapping conditions and use that information as a starting point for identifying the precise reactions catalyzed by each such thioesterase, which is an important prerequisite for their industrial application and for more accurate metabolic modeling of E. coli.
Crop-climate feedbacks boost US maize and soy yields

US maize and soy production have increased rapidly since the mid-20th century. While global warming has raised temperatures in most regions over this time period, trends in extreme heat have been smaller over US croplands, reducing crop-damaging high temperatures and benefiting maize and soy yields. Here we show that agricultural intensification has created a crop-climate feedback in which increased crop production cools local climate, further raising crop yields. We find that maize and soy production trends have driven cooling effects approximately as large as greenhouse gas induced warming trends in extreme heat over the central US and substantially reduced them over the southern US, benefiting crops in all regions. This reduced warming has boosted maize and soy yields by 3.3 (2.7–3.9; 13.7%–20.0%) and 0.6 (0.4–0.7; 7.5%–13.7%) bu/ac/decade, respectively, between 1981 and 2019. Our results suggest that if maize and soy production growth were to stagnate, the ability of the crop-climate feedback to mask warming would fade, exposing US crops to more harmful heat extremes.
miR-541-3p Promoted Porcine Reproductive and Respiratory Syndrome Virus 2 (PRRSV-2) Replication by Targeting Interferon Regulatory Factor 7

Porcine reproductive and respiratory syndrome (PRRS) is a disease caused by PRRS virus (PRRSV), which seriously harms the pig industry. Revealing the mechanism by which PRRSV inhibits immune response will help prevent and control PRRS. Here, we found that PRRSV-2 may hijack host miR-541-3p to inhibit host innate immune response. Firstly, this work showed that miR-541-3p mimics could facilitate the replication of PRRSV-2 and the results of the quantitative real time polymerase chain reaction (qRT-PCR) showed that PRRSV-2 could up-regulate the expression of miR-541-3p in MARC-145 cells. Since previous studies have shown that type I interferon could effectively inhibit the replication of PRRSV-2, the present work explored whether miR-541-3p regulated the expression of type I interferon and found that miR-541-3p could negatively regulate the transcription of type I interferon by targeting interferon regulatory factor 7 (IRF7). More importantly, PRRSV-2 infection could down-regulate the expression of IRF7 and over-expression of IRF7 could down-regulate the replication of PRRSV-2 in MARC-145 cells. In conclusion, PRRSV-2 infection up-regulated the expression of miR-541-3p to promote its replication in MARC-145 cells, since miR-541-3p can negatively regulate the transcription of type I interferon by targeting IRF7.