Miracle-dz/UniFAR-FTUs huggingface dataset:
The bivariate gas–stellar mass distributions and the mass functions of early- and late-type galaxies at 
$z\,{\sim}\,0$

Abstract We report the bivariate $\rm HI$ - and $\rm H_{2}$ -stellar mass distributions of local galaxies in addition of an inventory of galaxy mass functions, MFs, for $\rm HI$ , $\rm H_{2}$ , cold gas, and baryonic mass, separately into early- and late-type galaxies. The MFs are determined using the $\rm HI$ and $\rm H_{2}$ conditional distributions and the galaxy stellar mass function (GSMF). For the conditional distributions we use the results from the compilation presented in Calette et al. [(2018) RMxAA, 54, 443. ]. For determining the GSMF from $M_{*}\sim3\times10^{7}$ to $3\times10^{12}\ \text{M}_{\odot}$ , we combine two spectroscopic samples from the Sloan Digital Sky Survey at the redshift range $0.0033<z<0.2$ . We find that the low-mass end slope of the GSMF, after correcting from surface brightness incompleteness, is $\alpha\approx-1.4$ , consistent with previous determinations. The obtained $\rm HI\,$ MFs agree with radio blind surveys. Similarly, the $\rm H_{2}\,$ MFs are consistent with CO follow-up optically-selected samples. We estimate the impact of systematics due to mass-to-light ratios and find that our MFs are robust against systematic errors. We deconvolve our MFs from random errors to obtain the intrinsic MFs. Using the MFs, we calculate cosmic density parameters of all the baryonic components. Baryons locked inside galaxies represent 5.4% of the universal baryon content, while $\sim\! 96\%$ of the $\rm HI$ and $\rm H_{2}$ mass inside galaxies reside in late-type morphologies. Our results imply cosmic depletion times of $\rm H_{2}$ and total neutral H in late-type galaxies of $\sim\! 1.3$ and 7.2 Gyr, respectively, which shows that late type galaxies are on average inefficient in converting $\rm H_{2}$ into stars and in transforming $\rm HI$ gas into $\rm H_{2}$ . Our results provide a fully self-consistent empirical description of galaxy demographics in terms of the bivariate gas–stellar mass distribution and their projections, the MFs. This description is ideal to compare and/or to constrain galaxy formation models.
The potential of grass field margin management for enhancing beetle diversity in intensive livestock farms

1. Declining populations of UK grassland flora and fauna have been attributed to intensification of agricultural management practices, including changes in cutting, fertilizer, grazing and drainage regimes. We aimed to develop field margin management practices that could reverse declines in intensively managed grassland biodiversity that would have application in the UK and Europe. Here we focus on one aspect of grassland biodiversity, the beetles. 2. In four intensively managed livestock farms in south-west England, 10-m wide field margins in existing grasslands were managed to create seven treatments of increasing sward architectural complexity. This was achieved through combinations of inorganic (NPK) fertilizer, cattle grazing, and timing and height of cutting. To examine the potential influence of complexity on faunal diversity, beetles were identified to species level from suction samples taken between 2003 and 2005, and their assemblage structure was related to margin management, floral assemblages and sward architecture. 3. Beetle abundance, and species richness and evenness were influenced by margin management treatment and its interaction with year. Correlations with sward architecture and the percentage cover of dominant forbs and grasses were also found. Functional groups of the beetles showed different responses to the management treatments. In particular, higher proportional abundances of seed/flower-feeding guilds were found in treatments not receiving NPK fertilizer. 4. The assemblage structure was shown to respond to margin management treatments, sward architecture and the percentage cover of dominant forbs and grasses. The most extensively managed treatments were characterized by distinct successional trajectories from the control treatment. 5. Synthesis and applications. This study provides management options suitable for use within agri-environment schemes intended to improve faunal diversity associated with intensively managed lowland grasslands. Field margins receiving either no management or a single July silage cut were shown to support greater abundances and species richness of beetles, although subtler modifications of conventional management may also be beneficial, for example the absence of NPK fertilizer while maintaining grazing and silage cutting systems.
Astrophysical Insights into Radial Velocity Jitter from an Analysis of 600 Planet-search Stars

Radial velocity (RV) detection of planets is hampered by astrophysical processes on the surfaces of stars that induce a stochastic signal, or “jitter,” which can drown out or even mimic planetary signals. Here, we empirically and carefully measure the RV jitter of more than 600 stars from the California Planet Search sample on a star by star basis. As part of this process, we explore the activity–RV correlation of stellar cycles and include appendices listing every ostensibly companion-induced signal we removed and every activity cycle we noted. We then use precise stellar properties from Brewer et al. to separate the sample into bins of stellar mass and examine trends with activity and with evolutionary state. We find that RV jitter tracks stellar evolution and that in general, stars evolve through different stages of RV jitter: the jitter in younger stars is driven by magnetic activity, while the jitter in older stars is convectively driven and dominated by granulation and oscillations. We identify the “jitter minimum”—where activity-driven and convectively driven jitter have similar amplitudes—for stars between 0.7 and 1.7 M⊙ and find that more-massive stars reach this jitter minimum later in their lifetime, in the subgiant or even giant phases. Finally, we comment on how these results can inform future RV efforts, from prioritization of follow-up targets from transit surveys like TESS to target selection of future RV surveys.
The International Workshop on Osteoarthritis Imaging Knee MRI Segmentation Challenge: A Multi-Institute Evaluation and Analysis Framework on a Standardized Dataset

Purpose To organize a multi-institute knee MRI segmentation challenge for characterizing the semantic and clinical efficacy of automatic segmentation methods relevant for monitoring osteoarthritis progression. Materials and Methods A dataset partition consisting of three-dimensional knee MRI from 88 retrospective patients at two time points (baseline and 1-year follow-up) with ground truth articular (femoral, tibial, and patellar) cartilage and meniscus segmentations was standardized. Challenge submissions and a majority-vote ensemble were evaluated against ground truth segmentations using Dice score, average symmetric surface distance, volumetric overlap error, and coefficient of variation on a holdout test set. Similarities in automated segmentations were measured using pairwise Dice coefficient correlations. Articular cartilage thickness was computed longitudinally and with scans. Correlation between thickness error and segmentation metrics was measured using the Pearson correlation coefficient. Two empirical upper bounds for ensemble performance were computed using combinations of model outputs that consolidated true positives and true negatives. Results Six teams (T 1-T 6) submitted entries for the challenge. No differences were observed across any segmentation metrics for any tissues (P = .99) among the four top-performing networks (T 2, T 3, T 4, T 6). Dice coefficient correlations between network pairs were high (> 0.85). Per-scan thickness errors were negligible among networks T 1-T 4 (P = .99), and longitudinal changes showed minimal bias (< 0.03 mm). Low correlations (ρ < 0.41) were observed between segmentation metrics and thickness error. The majority-vote ensemble was comparable to top-performing networks (P = .99). Empirical upper-bound performances were similar for both combinations (P = .99). Conclusion Diverse networks learned to segment the knee similarly, where high segmentation accuracy did not correlate with cartilage thickness accuracy and voting ensembles did not exceed individual network performance.See also the commentary by Elhalawani and Mak in this issue.Keywords: Cartilage, Knee, MR-Imaging, Segmentation © RSNA, 2020Supplemental material is available for this article.
Active red giants: Close binaries versus single rapid rotators

Oscillating red-giant stars have provided a wealth of asteroseismic information regarding their interiors and evolutionary states, which enables detailed studies of the Milky Way. The objective of this work is to determine what fraction of red-giant stars shows photometric rotational modulation, and understand its origin. One of the underlying questions is the role of close binarity in this population, which relies on the fact that red giants in short-period binary systems (less than 150 days or so) have been observed to display strong rotational modulation. We selected a sample of about 4500 relatively bright red giants observed by Kepler, and show that about 370 of them (∼8%) display rotational modulation. Almost all have oscillation amplitudes below the median of the sample, while 30 of them are not oscillating at all. Of the 85 of these red giants with rotational modulation chosen for follow-up radial-velocity observation and analysis, 34 show clear evidence of spectroscopic binarity. Surprisingly, 26 of the 30 nonoscillators are in this group of binaries. On the contrary, about 85% of the active red giants with detectable oscillations are not part of close binaries. With the help of the stellar masses and evolutionary states computed from the oscillation properties, we shed light on the origin of their activity. It appears that low-mass red-giant branch stars tend to be magnetically inactive, while intermediate-mass ones tend to be highly active. The opposite trends are true for helium-core burning (red clump) stars, whereby the lower-mass clump stars are comparatively more active and the higher-mass ones are less active. In other words, we find that low-mass red-giant branch stars gain angular momentum as they evolve to clump stars, while higher-mass ones lose angular momentum. The trend observed with low-mass stars leads to possible scenarios of planet engulfment or other merging events during the shell-burning phase. Regarding intermediate-mass stars, the rotation periods that we measured are long with respect to theoretical expectations reported in the literature, which reinforces the existence of an unidentified sink of angular momentum after the main sequence. This article establishes strong links between rotational modulation, tidal interactions, (surface) magnetic fields, and oscillation suppression. There is a wealth of physics to be studied in these targets that is not available in the Sun.
Variability studies in pearl millet germplasm lines (Pennisetum glaucum L.)

In the present study, 105 germplasm lines were evaluated to know the nature of variance for different quantitative traits in relation to yield. A wide range of variability was observed for all the characters under study. Higher PCV and GCV were observed for ear length, ear girth, plant height, grain yield per plant and productive tillers per plant. High broad sense heritability was noticed for grain yield/plant, plant height, ear length, ear girth and 1000-seed weight. High genetic advance over mean was recorded for ear length, plant height, ear girth, grain yield/plant, peduncle length and flag leaf area
DNAH17-AS1 promotes pancreatic carcinoma by increasing PPME1 expression via inhibition of miR-432-5p

BACKGROUND The incidence and mortality rates of pancreatic carcinoma (PC) are rapidly increasing worldwide. Long noncoding RNAs (lncRNAs) play critical roles during PC initiation and progression. Since the lncRNA DNAH17-AS1 is highly expressed in PC, the regulation of DNAH17-AS1 in PC was investigated in this study. AIM To investigate the expression and molecular action of lncRNA DNAH17-AS1 in PC cells. METHODS The PC expression data for the lncRNA DNAH17-AS1 was downloaded from The Cancer Genome Atlas database and used to examine its profile. Western blot and reverse transcription-quantitative PCR were employed to assess protein and mRNA expression. A subcellular fractionation assay was used to determine the location of DNAH17-AS1 in cells. In addition, the regulatory effects of DNAH17-AS1 on miR-432-5p, PPME1, and tumor activity were investigated using luciferase reporter assay, MTT viability analysis, flow cytometry, and transwell migration analysis. RESULTS DNAH17-AS1 was upregulated in PC cells and was associated with aggressive tumor behavior and poor prognosis for patients. Silencing DNAH17-AS1 promoted the apoptosis and reduced the viability, invasion, and migration of PC cells. In addition, DNAH17-AS1 served as a PC oncogene by downregulating miR-432-5p which normally directly targeted PPME1 to downregulate its expression. CONLUSION DNAH17-AS1 functions in PC as a tumor promoter by regulating the miR-432-5p/PPME1 axis. This finding may provide new insights for PC prognosis and therapy.
Long-reads reveal that Rhododendron delavayi plastid genome contains extensive repeat sequences, and recombination exists among plastid genomes of photosynthetic Ericaceae

Background Rhododendron delavayi Franch. var. delavayi is a wild ornamental plant species in Guizhou Province, China. The lack of its plastid genome information seriously hinders the further application and conservation of the valuable resource. Methods The complete plastid genome of R. delavayi was assembled from long sequence reads. The genome was then characterized, and compared with those of other photosynthetic Ericaceae species. Results The plastid genome of R. delavayi has a typical quadripartite structure, and a length of 202,169 bp. It contains a large number of repeat sequences and shows preference for codon usage. The comparative analysis revealed the irregular recombination of gene sets, including rearrangement and inversion, in the large single copy region. The extreme expansion of the inverted repeat region shortened the small single copy, and expanded the full length of the genome. In addition, consistent with traditional taxonomy, R. delavayi with nine other species of the same family were clustered into Ericaceae based on the homologous protein-coding sequences of the plastid genomes. Thus, the long-read assembly of the plastid genome of R. delavayi would provide basic information for the further study of the evolution, genetic diversity, and conservation of R. delavayi and its relatives.
Monitoring body condition score of reintroduced banteng (Bos javanicus D’Alton, 1923) into Salakphra Wildlife Sanctuary, Thailand

Background Banteng (Bos javanicus d’Alton 1823) are an endangered species, highly sensitive to habitat structure and quality. In many areas, banteng were extinct and needed to be reintroduced to restore their population. Thus, understanding the responses of body condition of reintroduced banteng to their habitat was important for ensuring the sustainability of a reintroduction program. The aim of the present study was to evaluate the body condition of banteng after reintroduction into the Salakphra Wildlife Sanctuary in Thailand based on photographs from camera-traps carried out between July 2016 and November 2018. Methods Seven banteng were bred at the Khao Nampu Nature and Wildlife Education Center and systematically reintroduced into the Salakphra Wildlife Sanctuary in December 2015 (four) and July 2016 (three). The seven reintroduced adults and two newborns (from the 2015 group) were captured via camera traps in 2018. The body condition scoring (BCS) obtained from these photographs was used to identify the individual performance of all seven adults after their reintroduction. Results The BCS scores in reintroduced adult banteng, both males and females, (between 5 and 7 years old) increased significantly over time after reintroduction into a natural habitat (p < 0.05), although the BCS scores in females were not significantly different between the second and third years (p > 0.05). Conclusions The results from the present study suggest that camera traps are a practical tool to assess the BCS of reintroduced banteng, and can be used to monitor their condition post-release. These techniques may be appropriate for translocation programs elsewhere.
Multi-walled carbon nanotubes produced after forest fires improve germination and development of Eysenhardtia polystachya

Background Multi-walled carbon nanotubes (MWCNTs) are nanoparticles with countless applications. MWCNTs are typically of synthetic origin. However, recently, the formation of MWCNTs in nature after forest fires has been documented. Previous reports have demonstrated the positive effects of synthetic MWCNTs on the germination and development of species of agronomic interest; nevertheless, there is practically no information on how synthetic or natural MWCNTs affect forest plant development. In this report, based on insights from dose-response assays, we elucidate the comparative effects of synthetic MWCNTs, amorphous carbon, and natural MWCNTs obtained after a forest fire on Eysenhardtia polystachya plant. Methods E. polystachya seeds were sown in peat moss-agrolite substrate and conserved in a shade house. Germination was recorded daily up to 17 days after sowing, and plant development (manifested in shoot and root length, stem diameter, foliar area, and root architecture parameters) was recorded 60 days after sowing. Results The treatments with natural MWCNTs accelerated the emergence and improved the germination of this plant, thus while untreated seeds achieve 100% of germination within 16th day, seeds supplemented with natural MWCNTs at doses of 20 µg/mL achieve the above percentage within the 4th day. Natural MWCNTs also promoted fresh and dry biomass in all applied treatments, specially at doses of 40 µg/mL where natural MWCNTs significantly promoted leaf number, root growth, and the dry and fresh weights of shoots and roots of seedlings. Seeds supplemented with doses between 20 and 40 µg/mL of amorphous carbon achieving 100% of germination within the 6th day; however, seeds supplemented either with doses of 60 µg/mL of the above carbon or with synthetic MWCNTs at all the tested concentrations could achieve at most 80 % and 70% of germination respectively within the 17 days. Finally, neither treatments added with amorphous carbon nor those added with synthetic MWCNTs, showed significant increases in the fresh and dry biomass of the tested plant. Likewise, the survival of seedlings was reduced between 10 and 20 % with 40 and 60 µg/mL of amorphous carbon, and with synthetic MWCNTs in all the doses applied was reduced at 30% of survival plants. Conclusions These findings indicate that MWCNTs produced by wildfire act as plant growth promoters, contributing to the germination and development of adapted to fire-prone conditions species such as E. polystachya.
The Bethesda System for Reporting Thyroid Cytopathology: A Cytohistological Study

Introduction The Bethesda System for Reporting Thyroid Cytopathology (TBSRTC) is a significant step to standardize the reporting of thyroid fine needle aspiration (FNA). It has high predictive value, reproducibility, and improved clinical significance. Aim The study was aimed to evaluate the diagnostic utility and reproducibility of “TBSRTC” at our institute. Methods and Material. The study included 646 thyroid FNAs which were reviewed by three pathologists and classified according to TBSRTC. Cytohistological correlation was done for 100 cases with surgical follow-up and the sensitivity, specificity, positive predictive value, negative predictive value, diagnostic accuracy, and risk of malignancy (ROM) were calculated. The interobserver variation among three pathologists was also assessed. Results The distribution of cases in various TBSRTC categories is as follows: I—nondiagnostic 13.8%, II—benign 75.9%, III—atypia of undetermined significance (AUS)/follicular lesion of undetermined significance (FLUS) 1.2%, IV—follicular neoplasm (FN)/suspicious for follicular neoplasm (SFN) 3.7%, V—suspicious for malignancy (SM) 2.6%, and VI—malignant 2.8%. The sensitivity, specificity, positive predictive value, negative predictive value, and diagnostic accuracy are 72.4%, 94.3%, 84%, 89.2%, and 87.9%, respectively. The ROM of various TBSRTC categories were II—8.5%; III—66.7%; IV—63.6%; and V and VI—100%. Cohen's Weighted Kappa score was 0.99 which indicates almost perfect agreement among the three pathologists. Conclusions Our study substantiates greater reproducibility among pathologists using TBSRTC to arrive at a precise diagnosis with an added advantage of predicting the risk of malignancy which enables the clinician to plan for follow-up or surgery and also the extent of surgery.
Immunogenicity of Teffector and Treg epitopes from H7N9 avian-origin influenza: impact of cross-reactivity with the human genome (VAC2P.934)

Avian-origin H7N9 influenza is a novel influenza A virus (IAV) that emerged in humans in China in 2013. Using immunoinformatic tools, we found this virus has lower T cell epitope content than other IAV subtypes overall, and that some epitopes bear homology to human sequences. We hypothesized that these features may make the virus poorly immunogenic. To evaluate the reactivity of H7N9 epitopes, we synthesized four sets of H7N9 sequences with the following features: (i) unique to H7N9, (ii) cross-conserved with other IAV, (iii) cross-conserved with human genome (HG) and other IAV, and (iv) human analogs of influenza epitopes. 91% of sequences bound to at least one of five common HLA II alleles and 61% displayed strong binding. Epitopes that are conserved with other IAV induced higher IFNγ responses; conversely, epitopes that were conserved with human genome (even though equally well conserved with IAV) induced 3 fold lower IFNγ responses, similar to the level induced by H7N9 unique epitopes and to human analogs of influenza epitopes. Stimulation of human PBMCs from healthy donors with HG cross-conserved epitopes increased the frequency of CD4+CD25+FoxP3+ T cell population. Low overall T cell epitope content and the presence of HG cross-conserved H7N9 T cell epitopes that activate Tregs may explain the very low sero-conversion rates to newly developed H7HA unadjuvanted vaccines. Exploration of alternative vaccine development approaches is warranted for this new influenza virus.
Lateral Spread and Divot Recovery of Creeping Bentgrass Cultivars in Non-mowed and Mowed Settings

Creeping bentgrass (Agrostis stolonifera L.) creates a dense, high-quality playing surface and is commonly used for intensely managed turf areas on golf courses. Its popularity is partially due to its aggressive lateral growth, which allows this species to partially recuperate in areas continuously subjected to wear and divoting. A host of improved cultivars of creeping bentgrass were released on the market that possess improved agronomic characteristics such as vertical shoot growth, higher shoot densities, and narrower leaf blades. While many believe these morphological characteristics create an improved playing surface there are questions about the ability of these improved varieties to spread laterally compared with traditional varieties. While it is generally agreed that creeping bentgrass possesses relatively high recuperative potential, minimal research has focused on differences among cultivars of creeping bentgrass. The objectives were to determine differences in lateral spread and recuperative potential of creeping bentgrass cultivars in mowed and nonmowed settings.