bluuebunny/crossref_metadata_2025_split huggingface dataset:
Removal of a 10-kb Gret1 transposon from VvMybA1 of Vitis vinifera cv. Chardonnay
Authors: Yang Yingzhen , Ke John , Han Xiaoyan , Wuddineh Wegi A , Song Guo-qing , Zhong Gan-Yuan 
Published: September 2022

Abstract
Many white grape cultivars have a nonfunctional VvMybA1 gene due to the presence of a 10-kb Gret1 transposon in its promoter. In this study, we successfully demonstrated removal of the 10-kb Gret1 transposon and functional restoration of a VvMybA1 allele in Vitis vinifera cv. Chardonnay through transgenic expression of Cas9 and two gRNAs simultaneously targeting two junction sequences between Gret1 LTRs and VvMybA1. We generated 67 and 24 Cas9-positive vines via Agrobacterium-mediated and biolistic bombardment transformation, respectively. While the editing efficiencies were as high as 17% for the 5′ target site and 65% for the 3′ target site, simultaneous editing of both 5′ and 3′ target sites resulting in the removal of Gret1 transposon from the VvMybA1 promoter was 0.5% or less in most transgenic calli, suggesting that these calli had very limited numbers of cells with the Gret1 removed. Nevertheless, two bombardment-transformed vines, which shared the same unique editing features and were likely derived from a singly edited event, were found to have the Gret1 successfully edited out from one of their two VvMybA1 alleles. The edited allele was functionally restored based on the detection of its expression and a positive coloring assay result in leaves. Precise removal of more than a 10-kb DNA fragment from a gene locus in grape broadens the possibilities of using gene editing technologies to modify various trait genes in grapes and other plants.
Bypass of a Duodenal Stricture in Crohn’s Disease Using a Lumen Opposing Metal Stent (LAMS): A Case Report.
Authors: Manski Scott Adam , Schlachterman Alexander 
Published: September 2022

Lay Summary
We present an interesting case of a patient with Crohn’s Disease and a symptomatic duodenal stricture, which was successfully managed with a lumen opposing metal stent, demonstrating the potential utility of LAMS in such patients.
The Hermitian symmetric space Fokas–Lenells equation: spectral analysis and long-time asymptotics
Authors: Geng Xianguo , Wang Kedong , Chen Mingming 
Published: September 2022

Abstract
Based on the inverse scattering transformation, we carry out spectral analysis of the $4\times 4$ matrix spectral problems related to the Hermitian symmetric space Fokas–Lenells (FL) equation, by which the solution of the Cauchy problem of the Hermitian symmetric space FL equation is transformed into the solution of a Riemann–Hilbert problem. The nonlinear steepest descent method is extended to study the Riemann–Hilbert problem, from which the various Deift–Zhou contour deformations and the motivation behind them are given. Through some proper transformations between the corresponding Riemann–Hilbert problems and strict error estimates, we obtain explicitly the long-time asymptotics of the Cauchy problem of the Hermitian symmetric space FL equation with the aid of the parabolic cylinder function.
A search for hot subdwarf binaries in data from the Transiting Exoplanet Survey Satellite
Authors: Krzesinski J , Şener H T , Zola S , Siwak M 
Published: September 2022

ABSTRACT
We present the results of a search for binary hot subdwarf stars in photometric data from the Transiting Exoplanet Survey Satellite (TESS). The sample of objects used in this work was a byproduct of another search for pulsating hot subdwarfs, which resulted in the discovery of nearly 400 non-pulsating variable candidates. The periodogram for each object was calculated and a frequency signal with one or more harmonics above the 4 σ detection threshold was used to consider the candidate as a possible binary system. The type of variability was subsequently confirmed by visual inspection. We present a list of 46 binary system candidates that were not previously known as binaries. We also analysed a few example light curves to demonstrate the importance of double checking the variability of the source in the TESS light curves corrected for instrumental signatures. Four objects, TIC 55753808, TIC 118412596, TIC 4999380, and TIC 68834079, which show variations in the TESS-calibrated fluxes, were actually found to be constant. We also found that it might be more appropriate to increase the commonly used  4σ detection threshold in order to avoid the detection of multiple spurious peaks in the periodograms or Fourier transform of the TESS light curves.
The value-added catalogue of ASAS-SN eclipsing binaries: parameters of 30 000 detached systems
Authors: Rowan D M , Jayasinghe T , Stanek K Z , Kochanek C S , Thompson Todd A , Shappee B J , Holoien T W -S , Prieto J L , Giles W 
Published: September 2022

ABSTRACT
Detached eclipsing binaries are a fundamental tool for measuring the physical parameters of stars that are effectively evolving in isolation. Starting from more than 40 000 eclipsing binary candidates identified by the All-Sky Automated Survey for Supernovae (ASAS-SN), we use PHOEBE to determine the sum of the fractional radii, the ratio of effective temperatures, the inclinations, and the eccentricities for 35 576 systems. We visually inspect all the light-curve models to verify the model fits and examine the TESS light curves, when available, to select systems with evidence for additional physics, such as spots, mass transfer, and hierarchical triples. We examine the distributions of the eclipsing binary model parameters and the orbital parameters. We identify two groups in the sum of the fractional radii and effective temperature ratio parameter space that may distinguish systems approaching the semidetached limit. Combining Gaia EDR3 with extinction estimates from three-dimensional dust maps, we examine the properties of the systems as a function of their absolute magnitude and evolutionary state. Finally, we present light curves of selected eclipsing binaries that may be of interest for follow-up studies.
Two-spacecraft detection of short-period decayless kink oscillations of solar coronal loops
Authors: Zhong Sihui , Nakariakov Valery M , Kolotkov Dmitrii Y , Verbeeck Cis , Berghmans David 
Published: September 2022

ABSTRACT
Decayless kink oscillations of an ensemble of loops are captured simultaneously by the High Resolution Imager (HRI) of the Extreme Ultraviolet Imager (EUI) and the Atmospheric Imaging Assembly (AIA) from 22:58 ut on 2021 November 5 to 00:27 ut on 2021 November 6. Oscillations are analysed by processing image sequences taken by the two instruments with a motion magnification technique. The analysed loops are around 51 Mm in length, and oscillate with short periods of 1–3 min (1.6 min in average) and displacement amplitudes of 24–83 km. The signals recorded by AIA are delayed by 66 s as compared to HRI, which coincides with the light traveltime difference from the Sun to each instrument. After correction of this time difference, the cross-correlation coefficient between the signals from the two data varies from 0.82 to 0.97, indicating that they are well consistent. This work confirms that HRI sees the same oscillations as AIA, which is the necessary first step before proceeding to the detection of shorter time-scales by EUI. In addition, our results indicate the robustness of the dejittering procedure in the study of kink oscillations with HRI.
The luminosity function of ringed galaxies
Authors: Smirnov Daniil V , Reshetnikov Vladimir P 
Published: September 2022

ABSTRACT
We perform an analysis of the luminosity functions (LFs) of two types of ringed galaxies – polar-ring galaxies and collisional ring galaxies – using data from the Sloan Digital Sky Survey (SDSS). Both classes of galaxies were formed as a result of interaction with their environment and they are very rare objects. We constructed LFs of galaxies by different methods and found their approximations by the Schechter function. The luminosity functions of both types of galaxies show a systematic fall-off at low luminosities. The polar structures around bright (Mr ≤ −20m) and red (g − r &gt; +0.8) galaxies are about twice as common as around blue ones. The LF of collisional rings is shifted towards brighter luminosities compared to polar-ring galaxies. We analysed the published data on the ringed galaxies in several deep fields and confirmed the increase in their volume density with redshift: up to z ∼ 1 their density grows as (1 + z)m, where m ≳ 5.
The multi-epoch X-ray tale of I Zwicky 1 outflows
Authors: Rogantini D , Costantini E , Gallo L C , Wilkins D R , Brandt W N , Mehdipour M 
Published: September 2022

ABSTRACT
The narrow-line Seyfert 1 galaxy $\rm I\,\,Zwicky\, 1$ shows a unique and complex system of ionized gas in outflow, which consists of an ultra-fast wind and a two-component warm absorber. In the last two decades, XMM–Newton monitored the source multiple times enabling the study of the long-term variability of the various outflows. Plasma in photoionization equilibrium with the ionizing source responds and varies accordingly to any change of the ionizing luminosity. However, detailed modelling of the past Reflection Grating Spectrometer (RGS) data has shown no correlation between the plasma ionization state and the ionizing continuum, revealing a complex long-term variability of the multiphase warm absorber. Here, we present a new observation of $\rm I\,\,Zwicky\, 1$ by XMM–Newton taken in early 2020 characterized by a lower X-ray flux state. The soft X-ray spectrum from the RGS reveals the two components of the warm absorber with log ξ ∼ −1.0 and log ξ ∼ 1.7. Comparing our results with the previous observations, the ionization state of the two absorbing gas components is continuously changing, following the same unpredictable behaviour. The new results strengthen the scenario in which the ionization state of the warm absorber is driven by the density of the gas rather than the ionizing luminosity. In particular, the presence of a radiation driven, inhomogeneous clumpy outflow may explain both the variability in ionization throughout the years and the line-locked N v system observed in the ultraviolet band. Finally, the EPIC-pn spectrum reveals an ultra-fast wind with an outflow velocity of ∼0.26c and ionization parameter of log ξ ∼ 3.8.
Probing Quintessence using BAO imprint on the cross-correlation of weak lensing and post-reionization H i 21 cm signal
Authors: Dash Chandrachud B V , Guha Sarkar Tapomoy 
Published: September 2022

ABSTRACT
In this work, we investigate the possibility of constraining a thawing Quintessence scalar field model for dark energy. We propose using the imprint of baryon acoustic oscillation on the cross-correlation of post-reionization 21-cm signal and galaxy weak lensing convergence field to tomographically measure the angular diameter distance DA(z) and the Hubble parameter H(z). The projected errors in these quantities are then used to constrain the Quintessence model parameters. We find that independent 600 h radio interferometric observation at four observing frequencies 916, 650, 520, and 430 MHz with an SKA-1-Mid like radio telescope in cross-correlation with a deep weak lensing survey covering half the sky may measure the binned DA and H at a few per cent level of sensitivity. The Monte Carlo analysis for a power-law thawing Quientessence model gives the 1 − σ marginalized bounds on the initial slope λi, dark energy density parameter Ωϕ0 and the shape of the potential Γ at 8.63, 10.08, and $9.75{{\ \rm per\ cent}}$, respectively. The constraints improve to 7.66, 4.39, and $5.86{{\ \rm per\ cent}}$, respectively, when a joint analysis with supernovae and other probes is performed.
High plasma homocysteine level is associated with increased prevalence of the non-remission state in rheumatoid arthritis: Findings from the KURAMA cohort
Authors: Katsushima Masao , Minamino Hiroto , Shirakashi Mirei , Onishi Akira , Fujita Yoshihito , Yamamoto Wataru , Onizawa Hideo , Tsuji Hideaki , Watanabe Ryu , Murakami Kosaku , Fujii Takayuki , Murata Koichi , Tanaka Masao , Inagaki Nobuya , Morinobu Akio , Hashimoto Motomu 
Published: September 2022

ABSTRACT

Objectives
We aimed to determine the clinical impact of plasma homocysteine levels on disease activity and clinical remission in patients with rheumatoid arthritis (RA).

Methods
A cross-sectional study was conducted using KURAMA (Kyoto University Rheumatoid Arthritis Management Alliance) database. We enrolled 291 female patients, who were treated in a treat-to-target manner. We measured plasma total homocysteine using a liquid chromatography–tandem mass spectrometry system and collected clinical data including a 28-joint RA disease activity score-erythrocyte sedimentation rate (DAS28-ESR). Clinical remission of disease activity was defined as a DAS28-ESR &lt; 2.6.

Results
In a univariable analysis, the plasma homocysteine concentration was significantly and positively associated with DAS-28-ESR and was higher in the non-remission group than in the remission group. The cutoff value of the plasma homocysteine level was calculated to be 7.9 nmol/mL by the test of the receiver operating characteristic curve analysis. In a multivariable analysis, after adjusting for clinically relevant variables, the high homocysteine level remained a significant positive association for DAS28-ESR (estimate 0.27, P = .0019) and a positive factor for the presence of RA non-remission (odds ratio 2.39, P = .0071).

Conclusions
Increased plasma homocysteine levels showed a significant positive association with current disease activity and the non-remission state in female patients with RA under treat-to-target treatment. The findings suggest the potential utility of plasma homocysteine as a disease state marker reflecting conditions that are treatment failure and difficult to remission and may provide clinical evidence on the interplay between homocysteine and inflammatory activation in RA.
Pretransplant evaluation and the risk of glucose metabolic alterations after renal transplantation: a prospective study
Authors: Fariña-Hernández Arminda , Marrero-Miranda Domingo , Perez-Carreño Estefania , De Vera-Gonzalez Antonia , González Alejandra , Acosta-Sorensen Cristian , Rodríguez-Rodríguez Ana Elena , Collantes Tatiana , García Marta del Pino , Rodríguez-Muñoz Ana Isabel , Rodriguez-Alvarez Carla , Rivero Antonio , Macía Manuel , Teran Elena , Sanchez-Dorta Nuria V , Perez-Tamajón Lourdes , Alvarez-González Alejandra , González-Rinne Ana , Rodríguez-Hernández Aurelio , De Bonis-Redondo Eduardo , Rodriguez-Adanero Concepción , Hernández Domingo , Porrini Esteban , Torres Armando 
Published: September 2022

ABSTRACTBackgroundPost-transplant prediabetes (PreDM) and diabetes (PTDM) are common and have an impact on cardiovascular events. We sought to investigate the pathogenesis and best approach for prediction.MethodsWe prospectively studied 115 waitlisted patients from a single center without manifest diabetes. An oral glucose tolerance test (OGTT) was performed yearly until transplantation and 12 months later. Insulin secretion, insulin sensitivity (IS) and disposition index (DI) were derived from the OGTT.ResultsPreDM and PTDM were observed in 27% and 28.6% of patients, respectively. Pretransplant age, body mass index (BMI), 120 min glucose, IS, DI, and prediabetes or undiagnosed diabetes were significantly associated with these alterations. In multivariate analysis, pretransplant age [odds ratio (OR) 1.5; 95% confidence interval (CI) 1.04–2.1], BMI (OR 1.16; 95% CI 1.04–1.3) and cumulative steroids (OR 1.5; 95% CI 1.02–2.2) were predictors of PreDM or PTDM. Receiver operating characteristic curve analysis showed that pretransplant BMI and 120 min glucose had the highest area under the curve (0.72; 95% CI 0.62–0.8; and 0.69; 95% CI 0.59–0.79, respectively). The highest discrimination cut-off for BMI (≥28.5 kg/m2) and 120 min glucose (≥123.5 mg/dL) yielded a similar number needed to diagnose (2.5).ConclusionsPreDM or PTDM develops in waitlisted patients with an ineffective insulin secretion and BMI shows a similar diagnostic capacity to OGTT. Pretransplant interventions may reduce post-transplant glucose alterations.
Scientific experiments on Tiangong-2, the predecessor of the China Space Station
Authors: Zhu He 
Published: September 2022

Abstract
‘The fact is that after ISS, China may be the only station in orbit,’ remarked Leroy Chiao, a former NASA astronaut and commander of the International Space Station (ISS). As of July 2022, Tianhe, the core module of the China Space Station (CSS), has been orbiting the Earth for more than a year, and the Wentian experiment module joined the Tianhe station on 25 July. Together, they make up about two thirds of the CSS. Later in October, the third piece of the puzzle, the Mengtian experiment module, will complete the T-shaped structure of the CSS. In 2024, the China Sky Survey Telescope, Xuntian, will enter orbit. The ISS, on the other hand, was just mentioned in Russia's response to the latest round of economic sanctions, confirming the concern expressed by Commander Chiao when he said ‘The ISS will be deorbited in 2030. The politics with the Russians is no longer tenable.’
Ezekiel Imperialized Geographies in the Nation Oracles
Authors: Davidson Steed Vernyl 
Published: September 2022

Abstract
The book of Ezekiel pays attention to spatial location, presented through the voice of the prophet Ezekiel, who occupies his own space in both Chaldea and Jerusalem. This chapter employs postcolonial geography in its examination of the imperial registers in the construction of space, particularly the boundaries of the renewed Israel. The chapter first explores the foreign nation oracles located in chapters 25–32, where reterritorialization of space is accomplished mostly through the decimation of populations, resulting in an imperialized geography of control operating through the domination of space by politics, identity, and representation. Lastly, the chapter examines the role of the invention of the mythical space of the Magog which provides the book’s map with an effective border not supplied by other real spaces. Through these nation oracles a new map of the world emerges that echoes the imperial registers of difference and Otherness that support control and subjugation.
Mixing Loops, Mixing Envelopes, and Scattered Correlations among Trace Elements and Isotope Ratios Produced by Mixing of Melts Derived from a Spatially and Lithologically Heterogenous Mantle
Authors: Liang Yan 
Published: September 2022

Abstract
Mixing has been widely used in the interpretation of radiogenic isotope ratios and highly incompatible trace element variations in basalts produced by melting of a heterogeneous mantle. The binary mixing model is constructed by considering mass balance of endmember components, which is independent of physical state and spatial distribution of the endmembers in the mantle source. Variations of radiogenic isotope ratios and highly incompatible trace elements in basalts also depend on the size and spatial distribution of chemical and lithological heterogeneities in the mantle source. Here we present a new mixing model and a mixing scheme that take into account of the size, spatial location, and melting history of enriched mantle (EM) and depleted mantle (DM) parcels in the melting column. We show how Sr, Nd, and Hf concentrations and isotope ratios in the aggregated or pooled melt collected at the top of the melting column vary as a function of location of the EM parcel in the melting column. With changing location of the EM parcel in the upwelling melting column, compositions of the pooled melt do not follow a single mixing curve expected by the binary mixing model. Instead, they define a mixing loop that has an enriched branch and a depleted branch joined by two extreme points in composition space. The origin of the mixing loop can be traced back to four types of EM distribution or configuration in the melting column. The shape of the mixing loop depends on the relative melting rate of the EM to that of the DM and the number and spacing of EM parcels in the melting column. Probabilities of sampling the enriched and depleted branches in the pooled melt are proportional to volume fractions of the enriched and depleted materials in the mantle source. Mixing of pooled melts from a bundle of melting columns results in mixing envelopes in the isotope ratio correlation diagrams. The mixing envelope is a useful tool for studying chemical variations in mantle-derived melts. As an application, we consider scattered correlations in 87Sr/86Sr vs. 143Nd/144Nd and 143Nd/144Nd vs. 176Hf/177Hf in mid-ocean ridge basalts. We show that such correlations arise naturally from melting of a spatially heterogeneous mantle.
Multiple cyclic nucleotide-gated channels function as ABA-activated Ca2+ channels required for ABA-induced stomatal closure in Arabidopsis
Authors: Tan Yan-Qiu , Yang Yang , Shen Xin , Zhu Meijun , Shen Jianlin , Zhang Wei , Hu Honghong , Wang Yong-Fei 
Published: September 2022

AbstractAbscisic acid (ABA)-activated inward Ca2+-permeable channels in the plasma membrane (PM) of guard cells are required for the initiation and regulation of ABA-specific cytosolic Ca2+ signaling and stomatal closure in plants. But the identities of the PM Ca2+ channels are still unknown. We hypothesized that the ABA-activated Ca2+ channels consist of multiple CYCLIC NUCLEOTIDE-GATED CHANNEL (CNGC) proteins from the CNGC family, which is known as a Ca2+-permeable channel family in Arabidopsis (Arabidopsis thaliana). In this research, we observed high expression of multiple CNGC genes in Arabidopsis guard cells, namely CNGC5, CNGC6, CNGC9, and CNGC12. The T-DNA insertional loss-of-function quadruple mutant cngc5-1 cngc6-2 cngc9-1 cngc12-1 (hereafter c5/6/9/12) showed a strong ABA-insensitive phenotype of stomatal closure. Further analysis revealed that ABA-activated Ca2+ channel currents were impaired, and ABA-specific cytosolic Ca2+ oscillation patterns were disrupted in c5/6/9/12 guard cells compared with in wild-type guard cells. All ABA-related phenotypes of the c5/6/9/12 mutant were successfully rescued by the expression of a single gene out of the four CNGCs under the respective native promoter. Thus, our findings reveal a type of ABA-activated PM Ca2+ channel comprising multiple CNGCs, which is essential for ABA-specific Ca2+ signaling of guard cells and ABA-induced stomatal closure in Arabidopsis.
Plant-specific HDT family histone deacetylases are nucleoplasmins
Authors: Bobde Ruchir C , Kumar Ashish , Vasudevan Dileep 
Published: September 2022

Abstract
Histone acetyltransferase (HAT)- and histone deacetylase (HDAC)-mediated histone acetylation and deacetylation regulate nucleosome dynamics and gene expression. HDACs are classified into different families, with HD-tuins or HDTs being specific to plants. HDTs show some sequence similarity to nucleoplasmins, the histone chaperones that aid in binding, storing, and loading H2A/H2B dimers to assemble nucleosomes. Here, we solved the crystal structure of the N-terminal domain (NTD) of all four HDTs (HDT1, HDT2, HDT3, and HDT4) from Arabidopsis (Arabidopsis thaliana). The NTDs form a nucleoplasmin fold, exist as pentamers in solution, and are resistant to protease treatment, high temperature, salt, and urea conditions. Structurally, HDTs do not form a decamer, unlike certain classical nucleoplasmins. The HDT-NTD requires an additional A2 acidic tract C-terminal to the nucleoplasmin domain for interaction with histone H3/H4 and H2A/H2B oligomers. We also report the in-solution structures of HDT2 pentamers in complex with histone oligomers. Our study provides a detailed structural and in vitro functional characterization of HDTs, revealing them to be nucleoplasmin family histone chaperones. The experimental confirmation that HDTs are nucleoplasmins may spark new interest in this enigmatic family of proteins.