bluuebunny/crossref_metadata_2025_split huggingface dataset:
Imaginal disk growth factors are Drosophila chitinase-like proteins with roles in morphogenesis and CO2 response
Authors: Sustar Anne E , Strand Liesl G , Zimmerman Sandra G , Berg Celeste A 
Published: December 2022

Abstract
Chitinase-like proteins (CLPs) are members of the family 18 glycosyl hydrolases, which include chitinases and the enzymatically inactive CLPs. A mutation in the enzyme's catalytic site, conserved in vertebrates and invertebrates, allowed CLPs to evolve independently with functions that do not require chitinase activity. CLPs normally function during inflammatory responses, wound healing, and host defense, but when they persist at excessive levels at sites of chronic inflammation and in tissue-remodeling disorders, they correlate positively with disease progression and poor prognosis. Little is known, however, about their physiological function. Drosophila melanogaster has 6 CLPs, termed Imaginal disk growth factors (Idgfs), encoded by Idgf1, Idgf2, Idgf3, Idgf4, Idgf5, and Idgf6. In this study, we developed tools to facilitate characterization of the physiological roles of the Idgfs by deleting each of the Idgf genes using the CRISPR/Cas9 system and assessing loss-of-function phenotypes. Using null lines, we showed that loss of function for all 6 Idgf proteins significantly lowers viability and fertility. We also showed that Idgfs play roles in epithelial morphogenesis, maintaining proper epithelial architecture and cell shape, regulating E-cadherin and cortical actin, and remarkably, protecting these tissues against CO2 exposure. Defining the normal molecular mechanisms of CLPs is a key to understanding how deviations tip the balance from a physiological to a pathological state.
Effect of 2 vs 3 Doses of COVID-19 Vaccine in Patients With Inflammatory Bowel Disease: A Population-based Propensity Matched Analysis
Authors: Desai Aakash , Deepak Parakkal , Cross Raymond K , Murone Julie , Farraye Francis A , Ungaro Ryan C , Kochhar Gursimran S 
Published: December 2022

Abstract

Aim
There are limited data on the impact of 2 vs 3 doses of COVID-19 vaccine in patients with inflammatory bowel disease (IBD). The primary aim of the study was to assess the efficacy of COVID-19 vaccine based on number of administered doses in patients with IBD.

Methods
We conducted a retrospective cohort study using TriNetX, a multi-institutional database to compare patients with IBD who received 1, 2, or 3 doses of BNT162b2 or mRNA-1273 to unvaccinated IBD patients (1.1.2020-7.26.2022) to assess the risk of COVID-19 after 1:1 propensity score matching. We also evaluated the impact of vaccine on a composite of severe COVID-19 outcomes including hospitalization, intubation, intensive care unit care, acute kidney injury, or mortality.

Results
After propensity score matching, vaccinated patients with 2 (adjusted OR [aOR], 0.8; 95% confidence interval [CI], 0.6-0.9) and 3 doses (aOR, 0.7; 95% CI, 0.5-0.9) were found to have a lower risk of COVID-19 compared with unvaccinated patients. Vaccinated patients with IBD had a lower risk of severe COVID-19 outcomes (aOR, 0.7; 95% CI, 0.6-0.9) compared with unvaccinated patients. There was no difference in the risk of COVID-19 in IBD patients with 2 compared with 3 doses (aOR, 0.97; 95% CI, 0.7-1.3). However, IBD patients with 2 doses were at an increased risk for hospitalization due to COVID-19 (aOR, 1.78; 95% CI, 1.02-3.11) compared with those that received 3 doses.

Conclusion
Vaccinated patients with IBD had a lower risk of severe COVID-19 outcomes compared with unvaccinated patients. A third dose of COVID-19 vaccine compared with 2 doses decreases the risk of hospitalization but not breakthrough infection in patients with IBD.
Effects of fishing on the trophic structure of carnivorous fish assemblages from shallow rocky bottoms of the Mediterranean Sea and the temperate Atlantic Ocean
Authors: Cardona Luis , Reñones Olga , Gouraguine Adam , Saporiti Fabiana , Borrell Asunción , Aguilar Alex , Moranta Joan 
Published: December 2022

Abstract
Here, we assess whether fishery exploitation affects the trophic structure of carnivorous fish. We censused fish and analysed the stable isotope ratios of C and N of species targeted by fishermen in areas open to fishing and marine protected areas (MPAs) in the Mediterranean Sea and the north-eastern Atlantic Ocean. Results demonstrated a major impact of fishing on the biomass and size structure of nektobenthic carnivorous fish. However, those changes did not modify the diversity of the trophic resources used by the assemblage, the pattern of resource partitioning between species, or the degree of trophic redundancy. These results add to recent evidence suggesting that MPAs implemented in fished seascapes may fail to restore the original structure of the food webs that once existed in pre-fished ecosystems because regional decimation and extinction of highly mobile predators prevent recovering the original diversity of predators at local scales, even in no-take areas. If so, more strict local fishing regulations are unlikely to restore the original diversity of high trophic level carnivores and restoration goals should be reframed in terms of an objective that is less unrealistic than restoring the pre-fished condition while still recovering aspects of the historical trophic structure.
Rapidly adapted community health strategies to prevent treatment interruption and improve COVID-19 detection for Syrian refugees and the host population with hypertension and diabetes in Jordan
Authors: Ratnayake Ruwan , Rawashdeh Fatma , AbuAlRub Raeda , Al-Ali Nahla , Fawad Muhammad , Bani Hani Mohammad , Zoubi Saleem , Goyal Ravi , Al-Amire Khaldoun , Mahmoud Refqi , AlMaaitah Rowaida , Parmar Parveen K 
Published: December 2022

Abstract

Background
We evaluated community health volunteer (CHV) strategies to prevent non-communicable disease (NCD) care disruption and promote coronavirus disease 2019 (COVID-19) detection among Syrian refugees and vulnerable Jordanians, as the pandemic started.

Methods
Alongside medication delivery, CHVs called patients monthly to assess stockouts and adherence, provide self-management and psychosocial support, and screen and refer for complications and COVID-19 testing. Cohort analysis was undertaken of stockouts, adherence, complications and suspected COVID-19. Multivariable models of disease control assessed predictors and non-inferiority of the strategy pre-/post-initiation. Cost-efficiency and patient/staff interviews assessed implementation.

Results
Overall, 1119 patients were monitored over 8 mo. The mean monthly proportion of stockouts was 4.9%. The monthly proportion non-adherent (past 5/30 d) remained below 5%; 204 (18.1%) patients had complications, with 63 requiring secondary care. Mean systolic blood pressure and random blood glucose remained stable. For hypertensive disease control, age 41–65 y (OR 0.46, 95% CI 0.2 to 0.78) and with diabetes (OR 0.73, 95% CI 0.54 to 0.98) had decreased odds, and with baseline control had increased odds (OR 3.08, 95% CI 2.31 to 4.13). Cumulative suspected COVID-19 incidence (2.3/1000 population) was suggestive of ongoing transmission. While cost-efficient (108 US${\$}$/patient/year), funding secondary care was challenging.

Conclusions
During multiple crises, CHVs prevented care disruption and reinforced COVID-19 detection.
Classification of proteins inducing liquid–liquid phase separation: sequential, structural and functional characterization
Authors: Ozawa Yuhei , Anbo Hiroto , Ota Motonori , Fukuchi Satoshi 
Published: December 2022

AbstractLiquid–liquid phase separation (LLPS) within the cell can form biological condensates, which are increasingly recognized to play important roles in various biological processes. Most proteins involved in LLPS are known to be intrinsically disordered proteins containing intrinsically disordered regions (IDRs) with low complexity regions (LCRs). The proteins driving LLPS were selected from databases of LLPS-related proteins and then classified into three classes according to the components in the condensates. Through in silico analyses, we found that proteins in the homo class, those that induce LLPS without partner molecules, have different IDRs and LCRs compared with the reference proteome. In contrast, proteins in the other classes, those that induce LLPS with partner proteins (the hetero class) or nucleic acids (the mixed class), did not show a clear difference to the reference proteome in IDRs and LCRs. The hetero-class proteins contained structural domains to serve protein–protein interactions, and the mixed-class ones had the structural domains associated with nucleic acids. These results suggest that IDRs in the homo-class proteins have unique IDRs, which provide multivalent interaction sites required for LLPS, whereas the hetero- and mixed-class proteins can induce LLPS through the combination of the interaction among LCRs, structural domains and nucleic acids.
Differences in foliar phosphorus fractions, rather than in cell-specific phosphorus allocation, underlie contrasting photosynthetic phosphorus use efficiency among chickpea genotypes
Authors: Wen Zhihui , Pang Jiayin , Wang Xiao , Gille Clément E , De Borda Axel , Hayes Patrick E , Clode Peta L , Ryan Megan H , Siddique Kadambot H M , Shen Jianbo , Lambers Hans 
Published: December 2022

AbstractAlthough significant intraspecific variation in photosynthetic phosphorus (P) use efficiency (PPUE) has been shown in numerous species, we still know little about the biochemical basis for differences in PPUE among genotypes within a species. Here, we grew two high PPUE and two low PPUE chickpea (Cicer arietinum) genotypes with low P supply in a glasshouse to compare their photosynthesis-related traits, total foliar P concentration ([P]) and chemical P fractions (i.e. inorganic P (Pi), metabolite P, lipid P, nucleic acid P, and residual P). Foliar cell-specific nutrient concentrations including P were characterized using elemental X-ray microanalysis. Genotypes with high PPUE showed lower total foliar [P] without slower photosynthetic rates. No consistent differences in cellular [P] between the epidermis and mesophyll cells occurred across the four genotypes. In contrast, high PPUE was associated with lower allocation to Pi and metabolite P, with PPUE being negatively correlated with the percentage of these two fractions. Furthermore, a lower allocation to Pi and metabolite P was correlated with a greater allocation to nucleic acid P, but not to lipid P. Collectively, our results suggest that a different allocation to foliar P fractions, rather than preferential P allocation to specific leaf tissues, underlies the contrasting PPUE among chickpea genotypes.
A systematic review of Wikidata in Digital Humanities projects
Authors: Zhao Fudie 
Published: December 2022

Abstract
Wikidata has been widely used in Digital Humanities (DH) projects. However, a focused discussion regarding the current status, potential, and challenges of its application in the field is still lacking. A systematic review was conducted to identify and evaluate how DH projects perceive and utilize Wikidata, as well as its potential and challenges as demonstrated through use. This research concludes that: (1) Wikidata is understood in the DH projects as a content provider, a platform, and a technology stack; (2) it is commonly implemented for annotation and enrichment, metadata curation, knowledge modelling, and Named Entity Recognition (NER); (3) Most projects tend to consume data from Wikidata, whereas there is more potential to utilize it as a platform and a technology stack to publish data on Wikidata or to create an ecosystem of data exchange; and (4) Projects face two types of challenges: technical issues in the implementations and concerns with Wikidata’s data quality. In the discussion, this article contributes to addressing three issues related to coping with the challenges in the specific context of the DH field based on the research findings: the relevance and authority of other available domain sources; domain communities and their practices; and workflow design that coordinates technical and labour resources from projects and Wikidata.
The rapidly spinning intermediate-mass black hole 3XMM J150052.0+015452
Authors: Cao Z , Jonker P G , Wen S , Stone N C , Zabludoff A I 
Published: December 2022

ABSTRACT
A star tidally disrupted by a black hole can form an accretion disc with a super-Eddington mass accretion rate; the X-ray emission produced by the inner disc provides constraints on the black hole mass M• and dimensionless spin parameter a•. Previous studies have suggested that the M• responsible for the tidal disruption event 3XMM J150052.0+015452 (hereafter J150052) is ∼105 M⊙ in the intermediate-mass black hole (IMBH) regime. Fitting multi-epoch XMM–Newton and Chandra X-ray spectra obtained after 2008 during the source’s decade-long decay, with our latest slim accretion disc model, gives $M_\bullet = 2.0^{+1.0}_{-0.3}\times 10^{5}$ M⊙ (at 68 per cent confidence) and a• &gt; 0.97 (an 84.1 per cent confidence lower limit). The spectra obtained between 2008 and 2014 are significantly harder than those after 2014, an evolution that can be well explained by including the effects of inverse Comptonization by a corona on the early-time spectra. The corona is present when the source accretion rate is super-Eddington, while there is no evidence for its effect in data obtained after 2014, when the mass accretion rate is around the Eddington limit. Based on our spectral study, we infer that the corona is optically thick and warm ($kT_\mathrm{ e}=2.3^{+2.7}_{-0.8}$ keV). Our mass and spin measurements of J150052 confirm it as an IMBH and point to a rapid, near-extremal, spin. These M• and a• values rule out both vector bosons and axions of masses ∼10−16 eV.
First detection of the outer edge of an AGN accretion disc: very fast multiband optical variability of NGC 4395 with GTC/HiPERCAM and LT/IO:O
Authors: McHardy I M , Beard M , Breedt E , Knapen J H , Vincentelli F M , Veresvarska M , Dhillon V S , Marsh T R , Littlefair S P , Horne K , Glew R , Goad M R , Kammoun E , Emmanoulopoulos D 
Published: December 2022

ABSTRACT
We present fast (∼200 s sampling) $\it ugriz$ photometry of the low -mass AGN NGC 4395 with the Liverpool Telescope, followed by very fast (3 s sampling) us, gs, rs, is, and zs simultaneous monitoring with HiPERCAM on the 10.4m GTC. These observations provide the fastest ever AGN multiband photometry and very precise lag measurements. Unlike in all other AGN, gs lags us by a large amount, consistent with disc reprocessing but not with reprocessing in the broad-line region (BLR). There is very little increase in lag with wavelength at long wavelengths, indicating an outer edge (Rout) to the reprocessor. We have compared truncated disc reprocessing models to the combined HiPERCAM and previous X-ray/UV lags. For the normally accepted mass of 3.6 × 105M⊙, we obtain reasonable agreement with zero spin, Rout ∼ 1700Rg and the done physically motivated temperature-dependent disc colour-correction factor (f$\rm _{col}$). A smaller mass of 4 × 104M⊙ can only be accommodated if f$\rm _{col}=2.4$, which is probably unrealistically high. Disc self gravity is probably unimportant in this low-mass AGN but an obscuring wind may provide an edge. For the small mass, the dust sublimation radius is similar to Rout so the wind could be dusty. However, for the more likely large mass, the sublimation radius is further out so the optically thick base of a line-driven gaseous wind is more likely. The inner edge of the BLR is close to Rout in both cases. These observations provide the first good evidence for a truncated AGN disc and caution that truncation should be included in reverberation lag modelling.
The H i content of red geyser galaxies
Authors: Frank Emily , Stark David V , Masters Karen , Roy Namrata , Riffel Rogério , Lacerna Ivan , Riffel Rogemar A , Bizyaev Dmitry 
Published: December 2022

ABSTRACT
Red geysers are a specific type of quiescent galaxy, denoted by twin jets emerging from their galactic centres. These bisymmetric jets possibly inject energy and heat into the surrounding material, effectively suppressing star formation by stabilizing cool gas. In order to confirm the presence and evolutionary consequences of these jets, this paper discusses the scaling, stacking, and conversion of 21-cm H i flux data sourced from the H i-MaNGA survey into H i gas-to-stellar mass (G/S) spectra. Our samples were dominated by non-detections, or galaxies with weak H i signals, and consequently by H i upper limits. The stacking technique discussed successfully resolved emission features in both the red geyser G/S spectrum and the control sample G/S spectrum. From these stacked spectra, we find that on average, red geyser galaxies have G/S of 0.086 ± 0.011 (random) + 0.029 (systematic), while non-red geyser galaxies of similar stellar mass have a G/S ratio of 0.039 ± 0.018 (random) + 0.013 (systematic). Therefore, we find no statistically significant evidence that the H i content of red geysers is different from the general quiescent population.
A Phylogenomic Assessment of Processes Underpinning Convergent Evolution in Open-Habitat Chats
Authors: Alaei Kakhki Niloofar , Schweizer Manuel , Lutgen Dave , Bowie Rauri C K , Shirihai Hadoram , Suh Alexander , Schielzeth Holger , Burri Reto 
Published: December 2022

Abstract
Insights into the processes underpinning convergent evolution advance our understanding of the contributions of ancestral, introgressed, and novel genetic variation to phenotypic evolution. Phylogenomic analyses characterizing genome-wide gene tree heterogeneity can provide first clues about the extent of ILS and of introgression and thereby into the potential of these processes or (in their absence) the need to invoke novel mutations to underpin convergent evolution. Here, we were interested in understanding the processes involved in convergent evolution in open-habitat chats (wheatears of the genus Oenanthe and their relatives). To this end, based on whole-genome resequencing data from 50 taxa of 44 species, we established the species tree, characterized gene tree heterogeneity, and investigated the footprints of ILS and introgression within the latter. The species tree corroborates the pattern of abundant convergent evolution, especially in wheatears. The high levels of gene tree heterogeneity in wheatears are explained by ILS alone only for 30% of internal branches. For multiple branches with high gene tree heterogeneity, D-statistics and phylogenetic networks identified footprints of introgression. Finally, long branches without extensive ILS between clades sporting similar phenotypes provide suggestive evidence for the role of novel mutations in the evolution of these phenotypes. Together, our results suggest that convergent evolution in open-habitat chats involved diverse processes and highlight that phenotypic diversification is often complex and best depicted as a network of interacting lineages.
The future of carbon-neutrality science and technology from an industrial transformation perspective: an interview with Hou-Liang Dai
Authors: Huang By Hai-Xia 
Published: December 2022

Abstract
Since China announced that it will strive to achieve its carbon peak by 2030 and carbon neutrality by 2060, it has determined to take steps, which will establish low carbon development and a transition to carbon neutrality, as part of its long-term strategy for sustainable development and prosperity. This will be both a huge challenge and an opportunity. To achieve the dual-carbon goals, the whole society must undergo a broad and profound systemic transformation, involving changes in energy, technology, economy, industry and lifestyle, etc. Carbon-neutrality science and technology should be the foundation of the transformation.
Now, dual-carbon goals have become the focus, not just of scientific and technological circles [1], but of all society. Some Chinese scientists have put forward the concept of green carbon science (GCS) to promote rational and systematic scientific thinking on carbon science and sustainable development [2,3]. Additionally, hundreds of scientists and senior experts have participated in formulating the action plan and guiding the outline of basic research on the dual-carbon strategy and pathways, helping the country to formulate a timetable, roadmap and implementation plan for achieving carbon-peaking and carbon-neutralization goals in industries [4,5]. Among them, Hou-Liang Dai, an academician of the Chinese Academy of Engineering (CAE), took part in a major consulting project of the CAE. He is famous for the development and application of highly efficient and environmentally friendly aromatic hydrocarbon technology and also a leader in high-quality development of the petrochemical industry [6]. He has been working in the petroleum and chemical industry for almost 40 years. Currently, he is the chairman of the China National Petroleum Corporation (CNPC).
NSR spoke to Hou-Liang Dai on the future of carbon-neutrality science and technology.
Can Electronic Clinical Decision Support Systems Improve the Diagnosis of Urinary Tract Infections? A Systematic Review and Meta-Analysis
Authors: Hojat Leila S , Saade Elie A , Hernandez Adrian V , Donskey Curtis J , Deshpande Abhishek 
Published: December 2022

Abstract

Background
Urinary tract infection (UTI) is a commonly misdiagnosed infectious syndrome. Diagnostic stewardship interventions can reduce rates of asymptomatic bacteriuria treatment but are often labor intensive, and thus an automated means of reducing unnecessary urine testing is preferred. In this systematic review and meta-analysis, we sought to identify studies describing interventions utilizing clinical decision support (CDS) to optimize UTI diagnosis and to characterize the effectiveness of these interventions.

Methods
We conducted a comprehensive electronic search and manual reference list review for peer-reviewed articles published before July 2, 2021. Publications describing an intervention intending to enhance UTI diagnosis via CDS were included. The primary outcome was urine culture test rate.

Results
The electronic search identified 5013 studies for screening. After screening and full-text review, 9 studies met criteria for inclusion, and a manual reference list review identified 5 additional studies, yielding a total of 14 studies included in the systematic review. The most common CDS intervention was urinalysis with reflex to urine culture based on prespecified urinalysis parameters. All 9 studies that provided statistical comparisons reported a decreased urine culture rate postintervention, 8 of which were statistically significant. A meta-analysis including 4 studies identified a pooled urine culture incidence rate ratio of 0.56 (95% confidence interval, .52–.60) favoring the postintervention versus preintervention group.

Conclusions
In this systematic review and meta-analysis, CDS appeared to be effective in decreasing urine culture rates. Prospective trials are needed to confirm these findings and to evaluate their impact on antimicrobial prescribing, patient-relevant outcomes, and potential adverse effects.