Miracle-dz/UniFAR-FTUs huggingface dataset:
Heritability and GWAS Analyses of Acne in Australian Adolescent Twins

Acne vulgaris is a skin disease with a multifactorial and complex pathology. While several twin studies have estimated that acne has a heritability of up to 80%, the genomic elements responsible for the origin and pathology of acne are still undiscovered. Here we performed a twin-based structural equation model, using available data on acne severity for an Australian sample of 4,491 twins and their siblings aged from 10 to 24. This study extends by a factor of 3 an earlier analysis of the genetic factors of acne. Acne severity was rated by nurses on a 4-point scale (1 = absent to 4 = severe) on up to three body sites (face, back, chest) and on up to three occasions (age 12, 14, and 16). The phenotype that we analyzed was the most severe rating at any site or age. The polychoric correlation for monozygotic twins was higher (r MZ = 0.86, 95% CI [0.81, 0.90]) than for dizygotic twins (r DZ = 0.42, 95% CI [0.35, 0.47]). A model that includes additive genetic effects and unique environmental effects was the most parsimonious model to explain the genetic variance of acne severity, and the estimated heritability was 0.85 (95% CI [0.82, 0.87]). We then conducted a genome-wide analysis including an additional 271 siblings — for a total of 4,762 individuals. A genome-wide association study (GWAS) scan did not detect loci associated with the severity of acne at the threshold of 5E-08 but suggestive association was found for three SNPs: rs10515088 locus 5q13.1 (p = 3.9E-07), rs12738078 locus 1p35.5 (p = 6.7E-07), and rs117943429 locus 18q21.2 (p = 9.1E-07). The 5q13.1 locus is close to PIK3R1, a gene that has a potential regulatory effect on sebocyte differentiation.
Exploratory findings with virtual reality for phantom limb pain; from stump motion to agency and analgesia

Purpose. Phantom limb pain is chronic and intractable. Recently, virtual reality (VR) and motion capture technology has replicated the mirror box device of Ramachandran (Ramachandran et al. Nature 1995, 377, 489–490; Ramachandran and Rogers-Ramachandran Proc R Soc Biol Sci 1996, 263, 377–386) and led to reductions in this pain. We present results from a novel variation on this method which captures motion data directly from a patient's stump (rather than using the opposite remaining limb) and then transforms it into goal directed, virtual action enacted by an avatar in a VR environment. Method. A sample of subjects with ‘arm’ (n = 7) and ‘leg’ (n = 7) amputations underwent trials of a virtual reality (VR) system, controlled by motion captured from their stump which was translated into movements of a virtual limb within the VR environment. Measures of pain in the phantom limb were elicited from patients before and during this exercise as they attempted to gain agency for the movement they saw, and feel embodied within the limb. After this each subject was interviewed about their experiences. Results. Five subjects in each group felt the virtual limb to be moved by them and felt sensations of movement within it. With this they also reported reductions in their phantom limb pain greater than expected from distraction alone. No carry over effect was seen. Conclusions. This technique, which has shown similar success rates to trials of a virtual mirror box, is relatively cheap and portable, and will allow further trials in a home environment.
Study of Mold Invasion on the Surface of Wood/Polypropylene Composites Produced from Aqueous Pretreated Wood Particles, Part 2: Juniperus procera Wood-Branch

Mold invasion by Trichoderma harzianum T6776 over the surface of wood-plastic composites (WPCs) made from Juniperus procera wood-branch and polypropylene with a melt-blending technique was examined using scanning electron microscopy (SEM) and electron dispersive X-ray spectroscopy (EDX). Before the addition of coupling agent, the WPC samples were made from untreated and pretreated wood-branch particles of J. procera with either cold or hot water and then mixed with polypropylene to produce panels. The surfaces of WPC samples were inoculated by a mold suspension of T. harzianum. SEM-EDX measurements of WPCs made from J. procera particles showed little or no growth of T. harzianum, irrespective of treatment with cold or hot water. The results suggest that WPCs made from the particles of J. procera wood-branch pretreated with either cold or hot water could be useable in wet conditions. In addition, using of J. procera as durable wood for manufacturing of WPCs had good effects on the prevention of the mold infestation over the surfaces of the produced panels.
Sequencing of the Hepatitis C Virus: A Systematic Review

Since the identification of hepatitis C virus (HCV), viral sequencing has been important in understanding HCV classification, epidemiology, evolution, transmission clustering, treatment response and natural history. The length and diversity of the HCV genome has resulted in analysis of certain regions of the virus, however there has been little standardisation of protocols. This systematic review was undertaken to map the location and frequency of sequencing on the HCV genome in peer reviewed publications, with the aim to produce a database of sequencing primers and amplicons to inform future research. Medline and Scopus databases were searched for English language publications based on keyword/MeSH terms related to sequence analysis (9 terms) or HCV (3 terms), plus “primer” as a general search term. Exclusion criteria included non-HCV research, review articles, duplicate records, and incomplete description of HCV sequencing methods. The PCR primer locations of accepted publications were noted, and purpose of sequencing was determined. A total of 450 studies were accepted from the 2099 identified, with 629 HCV sequencing amplicons identified and mapped on the HCV genome. The most commonly sequenced region was the HVR-1 region, often utilised for studies of natural history, clustering/transmission, evolution and treatment response. Studies related to genotyping/classification or epidemiology of HCV genotype generally targeted the 5′UTR, Core and NS5B regions, while treatment response/resistance was assessed mainly in the NS3–NS5B region with emphasis on the Interferon sensitivity determining region (ISDR) region of NS5A. While the sequencing of HCV is generally constricted to certain regions of the HCV genome there is little consistency in the positioning of sequencing primers, with the exception of a few highly referenced manuscripts. This study demonstrates the heterogeneity of HCV sequencing, providing a comprehensive database of previously published primer sets to be utilised in future sequencing studies.
Internet Interventions or Patient Education Web sites?

In the paper “Internet Interventions for Long-Term Conditions: Patient and Caregiver Quality Criteria,” [1] the authors raise a timely concern with Internet interventions – consumers’ perspectives on the quality of these interventions. Given that consumers will ultimately decide the fate of Internet interventions, it is critical that we, as Internet intervention developers and researchers, solicit their thoughts and perspective in creating these programs. However, we have two major concerns that we believe limit what can be drawn from this paper.
Obese with higher FNDC5/Irisin levels have a better metabolic profile, lower lipopolysaccharide levels and type 2 diabetes risk

ABSTRACT Objective: Thus, the aim of this study was to compare if higher or smaller fibronectin type 3 domain-containing protein 5 (FNDC5)/irisin levels are associated with inflammatory and metabolic markers, caloric/macronutrient intake, physical fitness and type 2 diabetes mellitus (T2DM) risk in obese middle-aged men, and also to correlate all variables analyzed with FNDC5/irisin. Subjects and methods: On the basis of a cluster study, middle-aged obese men (IMC: 31.01 ± 1.64 kg/m2) were divided into groups of higher and smaller levels of FNDC5/irisin. The levels of leptin, resistin, adiponectin, tumor necrosis factor alpha (TNFα), interleukin 6 and 10 (IL6, IL10), lipopolysaccharide (LPS), glucose, insulin, glycated hemoglobin, insulin resistance and sensibility, lipid profile, risk of T2DM development, body composition, rest energy expenditure, caloric/macronutrient intake and physical fitness were measured. Results: The higher FNDC5/ irisin group presented improved insulin sensibility (homeostasis model assessment - sensibility (HOMA-S) (p = 0.01) and QUICKI index (p < 0.01)), insulin (p = 0.02) and triglyceride levels (p = 0.01), lower insulin resistance (homeostasis model assessment - insulin resistance (HOMA-IR) (p = 0.01), triglycerides/glucose (TYG index) (p = 0.02), neck circumference (p = 0.02), risk of T2DM development (p = 0.02), tendency to decrease serum resistin (p = 0.08) and significant lower LPS levels (p = 0.02). Inverse correlations between FNDC5/irisin and body weight (r −0.46, p = 0.04), neck circumference (r −0.51, p = 0.02), free fat mass (r −0.49, p = 0.02), triglycerides (r −0.43, p = 0.05) and risk of developing T2DM (r −0.61, p = 0.04) were observed. Conclusions: These results suggest that higher FNDC5/irisin levels in obese middle-aged men are related to a better metabolic profile and lower risk of T2DM development and serum LPS, a potential inducer of insulin resistance.
Active faulting in the Walker Lane

Deformation across the San Andreas and Walker Lane fault systems accounts for most relative Pacific–North American transform plate motion. The Walker Lane is composed of discontinuous sets of right‐slip faults that are located to the east and strike approximately parallel to the San Andreas fault system. Mapping of active faults in the central Walker Lane shows that right‐lateral shear is locally accommodated by rotation of crustal blocks bounded by steep‐dipping east striking left‐slip faults. The left slip and clockwise rotation of crustal blocks bounded by the east striking faults has produced major basins in the area, including Rattlesnake and Garfield flats; Teels, Columbus and Rhodes salt marshes; and Queen Valley. The Benton Springs and Petrified Springs faults are the major northwest striking structures currently accommodating transform motion in the central Walker Lane. Right‐lateral offsets of late Pleistocene surfaces along the two faults point to slip rates of at least 1 mm/yr. The northern limit of northwest trending strike‐slip faults in the central Walker Lane is abrupt and reflects transfer of strike‐slip to dip‐slip deformation in the western Basin and Range and transformation of right slip into rotation of crustal blocks to the north. The transfer of strike slip in the central Walker Lane to dip slip in the western Basin and Range correlates to a northward broadening of the modern strain field suggested by geodesy and appears to be a long‐lived feature of the deformation field. The complexity of faulting and apparent rotation of crustal blocks within the Walker Lane is consistent with the concept of a partially detached and elastic‐brittle crust that is being transported on a continuously deforming layer below. The regional pattern of faulting within the Walker Lane is more complex than observed along the San Andreas fault system to the west. The difference is attributed to the relatively less cumulative slip that has occurred across the Walker Lane and that oblique components of displacement are of opposite sense along the Walker Lane (extension) and San Andreas (contraction), respectively. Despite the gross differences in fault pattern, the Walker Lane and San Andreas also share similarities in deformation style, including clockwise rotations of crustal blocks leading to development of structural basins and the partitioning of oblique components of slip onto subparallel strike‐slip and dip‐slip faults.
Words versus faces in evoking preschool children’s knowledge of the causes of emotions

Children (N = 160), aged 3 to 4 years, generated stories describing the causes of six different emotions: happiness, surprise, fear, anger, disgust, and sadness. The emotion was specified to the child either by a word (such as scared or disgusted) or by a photograph of a facial expression said to be a universal, biologically based signal for that emotion. For no emotion did the face produce significantly better performance than did the word. For fear and disgust, the word produced significantly better performance than did the face.
A general basis for quarter-power scaling in animals

It has been known for decades that the metabolic rate of animals scales with body mass with an exponent that is almost always <1, >2/3, and often very close to 3/4. The 3/4 exponent emerges naturally from two models of resource distribution networks, radial explosion and hierarchically branched, which incorporate a minimum of specific details. Both models show that the exponent is 2/3 if velocity of flow remains constant, but can attain a maximum value of 3/4 if velocity scales with its maximum exponent, 1/12. Quarter-power scaling can arise even when there is no underlying fractality. The canonical “fourth dimension” in biological scaling relations can result from matching the velocity of flow through the network to the linear dimension of the terminal “service volume” where resources are consumed. These models have broad applicability for the optimal design of biological and engineered systems where energy, materials, or information are distributed from a single source.
Impact of hepatitis C virus on immune restoration in HIV-infected patients who start highly active antiretroviral therapy: a meta-analysis.

BACKGROUND There are conflicting data in the medical literature regarding the degree of immune restoration (as measured by CD4 cell count) in patients who commence highly active antiretroviral therapy (HAART) when coinfected with human immunodeficiency virus (HIV) and hepatitis C virus (HCV), compared with those with HIV infection alone. METHODS We performed a meta-analysis that compared CD4 cell count increases after HAART initiation in HCV-negative and HCV-positive patients who were infected with HIV. Published studies in the English-language medical literature that involved cohorts of HCV-negative and HCV-positive patients who were coinfected with HIV were obtained by searching the Medline, Embase Drugs and Pharmacology, and EBM Review-Cochrane Central Register of Controlled Trials databases. Data were extracted independently from relevant studies by 3 investigators and were used in a fixed-effects meta-analysis to determine the mean difference in the expected CD4 count change in the 2 groups. RESULTS Eight trials involving 6216 patients were analyzed. Patients with HIV-HCV coinfection had a mean increase in the CD4 cell count that was 33.4 cells/mm3 (95% CI, 23.5-43.3 cells/mm3) less than that for HIV-infected patients without HCV infection. The results of the meta-analysis were independent of any one study and were not influenced by the year in which HAART was started. CONCLUSIONS This meta-analysis shows that patients with HIV-HCV coinfection do, in fact, have less immune reconstitution, as determined by CD4 cell count after 48 weeks of HAART, than do patients with HCV infection alone. Future research should examine whether an impaired immunologic response corresponds with meaningful virologic and clinical outcomes.
Direct Seeding of Pinus halepensis Mill. for Recovery of Burned Semi-Arid Forests: Implications for Post-Fire Management for Improving Natural Regeneration

Background: In order to maximize the resiliency of Pinus halepensis in semiarid forests, we analyzed direct seeding methods to recover burned stands by simulating post-fire soil treatments. Methods: Seeding was done by installing spot seeding (100 seeds in a 50 × 50 cm plot), using five methods: (1) covering seeding with wood chips; (2) seeding in branch piles; (3) seeding along trunks on contour-felled logs (on the shaded side); (4) seeding next to grass (Stipa tenacissima); and (5) seeding on the bare ground (control). The experiment was replicated according to aspect (northern and southern aspects). The response variables were seed germination (%), and seedling survival after the summer (measured in autumn 2015 and 2016). Direct seeding was carried out in 32 plots with 160-spot seeding, and data were analyzed using general linear models, including nested random effects. Results: Wood chips as a surface-covering material represented the only treatment that significantly improved seed germination and seedling survival (by 12.4%, and 17.4 seedlings m−2 in year 2, respectively) compared with the control in the two topographic aspects. Conclusions: Covering seeding with wood chips, and thus chipping wood within the burned stand, form a recommended post-fire treatment to improve regeneration in Pinus halepensis semiarid stands.
Are dietary choline and betaine intakes determinants of total homocysteine concentration?

BACKGROUND Elevated homocysteine concentrations are associated with an increased risk of cardiovascular disease and a decline in cognitive function. Intakes of choline and betaine, as methyl donors, may affect homocysteine concentrations. OBJECTIVE The objective was to examine whether choline and betaine intakes, assessed from food-frequency questionnaires, are associated with total plasma homocysteine concentrations under both fasting and post-methionine-load conditions in both pre- and post-folic acid fortification periods in the United States. DESIGN We assessed the association between choline and betaine intakes and fasting and post-methionine-load homocysteine concentrations using the US Department of Agriculture revised food-composition tables and evaluated whether the associations varied by folic acid fortification periods in 1325 male and 1407 female participants in the sixth examination (1995-1998) of the Framingham Offspring Study. RESULTS A higher choline-plus-betaine intake was associated with lower concentrations of post-methionine-load homocysteine; the multivariate geometric means were 24.1 micromol/L (95% CI: 23.4, 24.9 micromol/L) in the top quintile of intake and 25.0 micromol/L (95% CI: 24.2, 25.7 micromol/L) in the bottom quintile (P for trend = 0.01). We found an inverse association between choline-plus-betaine intake and fasting homocysteine concentrations; the multivariate geometric mean fasting homocysteine concentrations were 9.6 micromol/L (95% CI: 9.3, 9.9 micromol/L) in the top quintile and 10.1 micromol/L (95% CI: 9.8, 10.4 micromol/L) in the bottom quintile (P for trend < 0.001). When we stratified by plasma folate and vitamin B-12 concentrations, the inverse association was limited to participants with low plasma folate or vitamin B-12 concentrations. In the postfortification period, the inverse association between choline-plus-betaine intake and either fasting or post-methionine-load homocysteine was no longer present. CONCLUSIONS Choline and betaine intakes were associated with both fasting and post-methionine-load total homocysteine concentrations, especially in participants with low folate and vitamin B-12 status. The inverse association between choline and betaine intakes and homocysteine concentrations was no longer present in the postfortification period.
Stress and Body Shape: Stress-Induced Cortisol Secretion Is Consistently Greater Among Women With Central Fat

Objective Excessive central fat puts one at greater risk of disease. In animal studies, stress-induced cortisol secretion has been shown to increase central fat. The objective of this study was to assess whether women with central fat distribution (as indicated by a high waist-to-hip ratio [WHR]), across a range of body mass indexes, display consistently heightened cortisol reactivity to repeated laboratory stressors. Methods Fifty nine healthy premenopausal women, 30 with a high WHR and 29 with a low WHR, were exposed to consecutive laboratory sessions over 4 days (three stress sessions and one rest session). During these sessions, cortisol and psychological responses were assessed. Results Women with a high WHR evaluated the laboratory challenges as more threatening, performed more poorly on them, and reported more chronic stress. These women secreted significantly more cortisol during the first stress session than women with a low WHR. Furthermore, lean women with a high WHR lacked habituation to stress in that they continued to secrete significantly more cortisol in response to now familiar challenges (days 2 and 3) than lean women with a low WHR. Conclusions Central fat distribution is related to greater psychological vulnerability to stress and cortisol reactivity. This may be especially true among lean women, who did not habituate to repeated stress. The current cross-sectional findings support the hypothesis that stress-induced cortisol secretion may contribute to central fat and demonstrate a link between psychological stress and risk for disease.
Novel SO2 spectral evaluation scheme using the 360-390 nm wavelength range

Abstract. Differential Optical Absorption Spectroscopy (DOAS) is a well established spectroscopic method to determine trace gases in the atmosphere. During the last decade, passive DOAS, which uses solar radiation scattered in the atmosphere as a light source, has become a standard tool to determine SO2 column densities and emission fluxes from volcanoes and other large sources by ground based as well as satellite measurements. For the determination of SO2 column densities, the structured absorption of the molecule in the 300–330 nm region (due to the A1B1 ← X1A1 transition) is used. However, there are several problems limiting the accuracy of the technique in this particular application. Here we propose to use an alternative wavelength region (360–390 nm) due to the spin-forbidden a3B2 ← X1A1 transition for the DOAS evaluation of SO2 in conditions where high SO2 column densities prevail. We show this range to have considerable advantages in such cases, in particular when the particle content of the plume is high and when measurements are performed at large distances from the area of interest.
A bacterial regulatory RNA attenuates virulence, spread and human host cell phagocytosis

Staphylococcus aureus pathogenesis is directed by regulatory proteins and RNAs. We report the case of an RNA attenuating virulence and host uptake, possibly to sustain commensalism. A S. aureus sRNA, SprC (srn_3610), reduced virulence and bacterial loads in a mouse infection model. S. aureus deleted for sprC became more virulent and increased bacterial dissemination in colonized animals. Conversely, inducing SprC expression lowered virulence and the bacterial load. Without sprC, S. aureus phagocytosis by monocytes and macrophages was higher, whereas bacteria were internalized at lower yields when SprC expression was stimulated. Without sprC, higher internalization led to a greater number of extracellular bacteria, facilitating colonization. SprC expression decreased after phagocytosis, concurring with the facilitated growth of bacteria lacking the sRNA in the presence of an oxidant. The major staphylococcal autolysin facilitates S. aureus uptake by human phagocytes. ATL proved to be negatively regulated by SprC. The SprC domains involved in pairing with atl mRNA were analyzed. The addition of ATL reduced phagocytosis of bacteria lacking sprC with no effects on wild-type bacterial uptake, implying that SprC influences phagocytosis, at least in part, by controlling ATL. Since the control of SprC on ATL was modest, other factors must contribute to atl regulation.