bluuebunny/crossref_metadata_2025_split huggingface dataset:
Equine enterocytes actively oxidize l-glutamine, but do not synthesize l-citrulline or l-arginine from l-glutamine or l-proline in vitro
Authors: Martinez Rafael E , Leatherwood Jessica L , Bradbery Amanda N , Silvers Brittany L , Fridley Jennifer , Arnold Carolyn E , Posey Erin A , He Wenliang , Bazer Fuller W , Wu Guoyao 
Published: March 2022

Abstract
In livestock species, the enterocytes of the small intestine are responsible for the synthesis of citrulline and arginine from glutamine and proline. At present, little is known about de novo synthesis of citrulline and arginine in horses. To test the hypothesis that horses of different age groups can utilize glutamine and proline for the de novo synthesis of citrulline and arginine, jejunal enterocytes from 19 horses of three different age groups: neonates (n = 4; 7.54 ± 2.36 d of age), adults (n = 9; 6.4 ± 0.35 yr), and aged (n = 6; 22.9 ± 1.0 yr) with healthy gastrointestinal tracts were used in the present study. Enterocytes were isolated from the jejunum and incubated at 37 °C for 30 min in oxygenated (95% O2/5% CO2) Krebs bicarbonate buffer (pH 7.4) containing 5 mM D-glucose and 0 mM, 2-mM L-[U-14C]glutamine, or 2 mM L-[U-14C]proline plus 2 mM L-glutamine. Concentrations of arginine, citrulline, and ornithine in cells plus medium were determined using high-performance liquid chromatography. Results indicate that the rate of oxidation of glutamine to CO2 was high in enterocytes from neonatal horses, but low in cells from adult and aged horses. Enterocytes from all age groups of horses did not degrade proline into CO2. Regardless of age, equine enterocytes formed ornithine from glutamine and proline, but failed to convert ornithine into citrulline and arginine. Because arginine is an essential substrate for the synthesis of not only proteins, but also nitrogenous metabolites (e.g., nitric oxide, polyamines, and creatine), our novel findings have important implications for the nutrition, performance, and health of horses.
Molecular classification of patients with NMIBC predicts the efficacy of intravesical chemotherapy with pirarubicin, pharmorubicin and gemcitabine-immunohistochemistry-based classification
Authors: Wang Tianwei , Niu Xiaobing , Zhong Bing 
Published: March 2022

Abstract

Objective
To investigate the relationships between non-muscle invasive bladder cancer molecular subtypes and predict the efficacy of intravesical chemotherapy with pirarubicin, pharmorubicin and gemcitabine.

Methods
A total of 160 patients with T1 stage non-muscle invasive bladder cancer were enrolled in this study. Fifty-three patients underwent anthracycline (Pirarubicin and Pharmorubicin) therapy and 107 patients accepted gemcitabine therapy. Uroplakin II and CK20 were categorized as immunohistochemistry (IHC) markers for luminal subtype, whereas CK5/6 and CD44 were categorized as immunohistochemistry markers for basal subtype. The cluster results with immunohistochemical score indicated that non-muscle invasive bladder cancer can be subgrouped into three major classes.

Results
Class 2 showed the luminal-like characteristics, whereas class 3 showed the basal-like characteristics. Class 1 showed no high expression of luminal or basal-associated immunohistochemistry markers. The molecular subtype is an independent risk factor for recurrence-free survival (P = 0.030) and progression-free survival (P = 0.006) in patients with T1 stage non-muscle invasive bladder cancer. In class 1 and class 2 (luminal-like) subtypes, gemcitabine and anthracycline show no difference in recurrence-free survival and progression-free survival. Gemcitabine was associated with reduced recurrence compared with anthracycline (P = 0.039) in class 3 (basal-like) subtypes and show no difference in decreasing progression.

Conclusions
The molecular classification based on immunohistochemical results is an independent risk factor for the prognosis of non-muscle invasive bladder cancer with T1 stage. Different therapeutic methods should be selected according to different molecular subtypes.
Changes in plant multidimensional chemical diversity along a local soil chemical gradient in temperate forest swamps
Authors: Liu Xu-Yan , Hu Yu-Kun 
Published: March 2022

AbstractMultiple elements are critical for plant growth and survival, community structure and vegetation function. Chemical diversity, defined as the ranges in element concentrations of plant species within communities, could provide essential insights into plant nutrient strategies and community assembly rules. However, little is known about the chemical diversity of multi-elements besides N and P, and current understanding of chemical diversity is largely based on aboveground plant traits. We investigated understory plant communities in forest swamps along a local soil chemical gradient and determined 11 major and trace elements in leaves and roots of dominant and subordinate plants. Using n-dimensional hypervolume, we examined the changes in leaf and root chemical diversity and their linkages with soil properties. Plant chemical diversity decreased significantly with soil Al, Mn, Mg and Zn concentrations, but showed no relationships with soil N, P, K, Na, and Fe concentrations, soil pH and C:N. These patterns also held after controlling for species richness and soil moisture. Furthermore, leaf and root chemical diversity was positively correlated and showed similar relationships with soil factors. Root chemical diversity was not significantly higher than leaf chemical diversity. Our results emphasized the important role of soil trace elements for plant chemical diversity along the local soil chemical gradient. Similar patterns and extent of leaf and root chemical diversity may indicate similar local-scale environmental constraint on above- and belowground plant chemical diversity. These findings have important implications for plant community assembly and ecosystem functioning influenced by soil nutrient changes.
Breast metastasis 18 years after nephrectomy for renal cell carcinoma: a case report
Authors: Elouarith Ihssan , Bouhtouri Yassine , Elmajoudi Salma , Bekarsabein Salma , Ech-charif Soumaya , Khmou Mouna , Messaoudi Hamza , Mahdi Youssef , Hachi Hafid , El khannoussi Basma 
Published: March 2022

Abstract
Metastasis of renal clear cell carcinoma (RCC) to the breast is exceptional. Breast metastases of extra-mammary tumors are rare and usually involve melanoma, lymphoma or leukemia. We report the case of a patient with breast metastasis of renal clear cell carcinoma occurring 18 years after nephrectomy. A history of RCC should always raise suspicion about breast metastasis, a situation that remains exceptional and whose diagnosis relies on anatomopathology.
Spontaneous rupture of spleen in a patient with COVID-19 disease: case report and review of the literature
Authors: Trabulsi Nora H , Alshammakh Sonds S , Shabkah Alaa A , Aladawi Mohannad , Farsi Ali H 
Published: March 2022

Abstract
Coronavirus disease 2019 (COVID-19) has been associated with multisystemic complications and thrombotic events including pulmonary embolism and deep venous thrombosis. Splenic rupture has been recently reported as a complication in patients with COVID-19, however, the number of cases is limited and the mechanism is still not clearly understood. We present a case of spontaneous splenic rupture secondary to COVID-19 disease.
The Corpus of Contemporary Czech Poetry: A database for research on contemporary poetic language across media
Authors: Škrabal Michal , Piorecký Karel 
Published: March 2022

Abstract
Our article reports on the emerging Corpus of Contemporary Czech Poetry and the possibilities for its use. We describe the genesis of the idea of creating a specific corpus that combines the principles of synchronicity and genre instead of relying on the presence of poetry in the general corpus of contemporary Czech. We also characterize the structure of our corpus, which is designed to cover both of the basic media areas in which contemporary poetry is published and distributed: either in books or through open publishing platforms on the Internet (literary forums). We additionally describe the functionalities of the tools for mining the corpus data, which are designed to easily serve comparative analyses across media (print/web). We suggest how useful quantitative data analysis can be in the first phase of language-oriented literary research; or rather we point out the necessity of combining quantitative and qualitative approaches. Only the researcher’s interpretative proficiency can decide on the boundaries of the field under study and the meaning of the elements present in it. In text-centred analyses, language corpora should start to play a similar role as other tools of scientific infrastructure, such as bibliographic databases.
SPLASH: the Southern Parkes Large-Area Survey in Hydroxyl – data description and release
Authors: Dawson J R , Jones P A , Purcell C , Walsh A J , Breen S L , Brown C , Carretti E , Cunningham M R , Dickey J M , Ellingsen S P , Gibson S J , Gómez J F , Green J A , Imai H , Krishnan V , Lo N , Lowe V , Marquarding M , McClure-Griffiths N M 
Published: March 2022

ABSTRACT
We present the full data release for the Southern Parkes Large-Area Survey in Hydroxyl (SPLASH), a sensitive, unbiased single-dish survey of the Southern Galactic Plane in all four ground-state transitions of the OH radical at 1612, 1665, 1667, and 1720 MHz. The survey covers the inner Galactic Plane, Central Molecular Zone, and Galactic Centre over the range |b| &lt; 2°, 332$^{\circ }\, \lt l \lt $ 10°, with a small extension between 2$^{\circ }\, \lt b \lt $ 6°, 358$^{\circ }\, \lt l \lt $ 4°. SPLASH is the most sensitive large-scale survey of OH to-date, reaching a characteristic root-mean-square sensitivity of ∼15 mK for an effective velocity resolution of ∼0.9 km s−1. The spectral line datacubes are optimized for the analysis of extended, quasi-thermal OH, but also contain numerous maser sources, which have been confirmed interferometrically and published elsewhere. We also present radio continuum images at 1612, 1666, and 1720 MHz. Based on initial comparisons with 12CO(J = 1–0), we find that OH rarely extends outside CO cloud boundaries in our data, but suggest that large variations in CO-to-OH brightness temperature ratios may reflect differences in the total gas column density traced by each. Column density estimation in the complex, continuum-bright Inner Galaxy is a challenge, and we demonstrate how failure to appropriately model sub-beam structure and the line-of-sight source distribution can lead to order-of-magnitude errors. Anomalous excitation of the 1612 and 1720 MHz satellite lines is ubiquitous in the inner Galaxy, but is disabled by line overlap in and around the Central Molecular Zone.
Non-local thermal equilibrium spectra of atmospheric molecules for exoplanets
Authors: Wright Sam O M , Waldmann Ingo , Yurchenko Sergei N 
Published: March 2022

ABSTRACT
Here we present a study of non-local thermodynamic equilibrium (LTE) effects on the exoplanetary spectra of a collection of molecules that are key in the investigation of exoplanet atmospheres: water, methane, carbon monoxide, and titanium oxide. These molecules are chosen as examples of different spectral ranges (infrared and ultraviolet), molecular types (diatomics and polyatomics), and spectral types (electronic and rovibrational); the importance of different vibrational bands in forming distinct non-LTE spectral features is investigated. Most notably, such key spectral signatures for distinguishing between the LTE and non-LTE cases include: for CH4 the 3.15 $\mu$m band region; for H2O the 2.0 and 2.7 $\mu$m band regions; for TiO, a strong variation in intensity in the bands between 0.5 and 0.75 $\mu$m; and a sole CO signature between 5 and 6 $\mu$m. The analysis is based on the ExoMol cross-sections and takes advantage of the extensive vibrational assignment of these molecular line lists in the ExoMol data base. We examine LTE and non-LTE cross-sections under conditions consistent with those on WASP-12b and WASP-76b using the empirically motivated bi-temperature Treanor model.
Circularly polarized radio emission from the repeating fast radio burst source FRB 20201124A
Authors: Kumar P , Shannon R M , Lower M E , Bhandari S , Deller A T , Flynn C , Keane E F 
Published: March 2022

ABSTRACT
The mechanism that produces fast radio burst (FRB) emission is poorly understood. Targeted monitoring of repeating FRB sources provides the opportunity to fully characterize the emission properties in a manner impossible with one-off bursts. Here, we report observations of the source of FRB 20201124A, with the Australian Square Kilometre Array Pathfinder (ASKAP) and the ultra-wideband low (UWL) receiver at the Parkes 64-m radio telescope (Murriyang). The source entered a period of emitting bright bursts during early 2021 April. We have detected 16 bursts from this source. One of the bursts detected with ASKAP is the brightest burst ever observed from a repeating FRB source with an inferred fluence of 640 ± 70 Jy ms. Of the five bursts detected with the Parkes UWL, none display any emission in the range 1.1–4 GHz. All UWL bursts are highly polarized, with their Faraday rotation measures (RMs) showing apparent variations. We obtain an average RM of −614 rad m−2 for this FRB source with a standard deviation of 16 rad m−2 in the UWL bursts. In one of the UWL bursts, we see evidence of significant circularly polarized emission with a fractional extent of 47 ± 1 per cent. Such a high degree of circular polarization has never been seen before in bursts from repeating FRB sources. We also see evidence for significant variation in the linear polarization position angle in the pulse profile of this UWL repeat burst. Models for repeat burst emission will need to account for the increasing diversity in the burst polarization properties.
Externally driven plasma models as candidates for pulsar radio emission
Authors: Rahaman Sk Minhajur , Mitra Dipanjan , Melikidze George I 
Published: March 2022

ABSTRACT
Coherent radio emission from pulsars originates from excited plasma waves in an ultra-relativistic and strongly magnetized electron–positron pair plasma streaming along the open magnetic field lines of the pulsar. Traditional coherent radio emission models have relied on instabilities in this pair plasma. Recently, alternative models have been suggested. These models appeal to direct coupling of the external electromagnetic field to the superluminal O-mode (lt2 mode) during the time-dependent pair cascade process at the polar gap. The objective of this work is to provide generic constraints on plasma models based on lt2 mode using realistic pulsar parameters. We find that the very short time-scale associated with pair cascades does not allow lt2 mode to be excited at radio frequencies and the impulsive energy transfer can only increase the kinetic spread (‘temperature’) of the pair plasma particles. Moreover, under homogeneous plasma conditions, plasma waves on both branches of O mode (i.e. superluminal lt2 and subluminal lt1) cannot escape the plasma. In the strongly magnetized pair plasma, only the extraordinary mode (t mode) can escape freely. We show that any generic fictitious mechanisms do not result in the wave electric field of t mode to have predominant orientation either parallel or perpendicular to the magnetic field plane as observed. Such fictitious mechanisms will inevitably lead to depolarization of signals and cannot account for the highly polarized single pulses observed in pulsars. We suggest coherent curvature radiation as a promising candidate for pulsar radio emission mechanism.
A case of mixed connective tissue disease complicated by pulmonary hypertension and ascites after addition of pulmonary vasodilators
Authors: Kusaka Katsuhide , Nakano Kazuhisa , Fukuyo Shunsuke , Miyazaki Yusuke , Matsunaga Satsuki , Tanaka Yoshiya 
Published: March 2022

ABSTRACT
We present the case of a 54-year-old woman with a long history of pulmonary hypertension associated with mixed connective tissue disease. She was being treated with pulmonary vasodilators, including epoprostenol and bosetan, but her mean pulmonary arterial pressure (mPAP) gradually worsened. Although her mPAP began to improve with adding sildenafil, ascites occurred. Discontinuing newly initiated drugs and starting diuretics improved her ascites. This suggested that an intensification of the treatment with vasodilators might have led to ascites (on a background of a probable arteriovenous shunt formation) in this patient with a long history of pulmonary hypertension.
Landscape of mobile genetic elements and their antibiotic resistance cargo in prokaryotic genomes
Authors: Khedkar Supriya , Smyshlyaev Georgy , Letunic Ivica , Maistrenko Oleksandr M , Coelho Luis Pedro , Orakov Askarbek , Forslund Sofia K , Hildebrand Falk , Luetge Mechthild , Schmidt Thomas S B , Barabas Orsolya , Bork Peer 
Published: March 2022

Abstract
Prokaryotic Mobile Genetic Elements (MGEs) such as transposons, integrons, phages and plasmids, play important roles in prokaryotic evolution and in the dispersal of cargo functions like antibiotic resistance. However, each of these MGE types is usually annotated and analysed individually, hampering a global understanding of phylogenetic and environmental patterns of MGE dispersal. We thus developed a computational framework that captures diverse MGE types, their cargos and MGE-mediated horizontal transfer events, using recombinases as ubiquitous MGE marker genes and pangenome information for MGE boundary estimation. Applied to ∼84k genomes with habitat annotation, we mapped 2.8 million MGE-specific recombinases to six operational MGE types, which together contain on average 13% of all the genes in a genome. Transposable elements (TEs) dominated across all taxa (∼1.7 million occurrences), outnumbering phages and phage-like elements (&lt;0.4 million). We recorded numerous MGE-mediated horizontal transfer events across diverse phyla and habitats involving all MGE types, disentangled and quantified the extent of hitchhiking of TEs (17%) and integrons (63%) with other MGE categories, and established TEs as dominant carriers of antibiotic resistance genes. We integrated all these findings into a resource (proMGE.embl.de), which should facilitate future studies on the large mobile part of genomes and its horizontal dispersal.
Optical control of protein delivery and partitioning in the nucleolus
Authors: Tan Peng , Hong Tingting , Cai Xiaoli , Li Wenbo , Huang Yun , He Lian , Zhou Yubin 
Published: March 2022

Abstract
The nucleolus is a subnuclear membraneless compartment intimately involved in ribosomal RNA synthesis, ribosome biogenesis and stress response. Multiple optogenetic devices have been developed to manipulate nuclear protein import and export, but molecular tools tailored for remote control over selective targeting or partitioning of cargo proteins into subnuclear compartments capable of phase separation are still limited. Here, we report a set of single-component photoinducible nucleolus-targeting tools, designated pNUTs, to enable rapid and reversible nucleoplasm-to-nucleolus shuttling, with the half-lives ranging from milliseconds to minutes. pNUTs allow both global protein infiltration into nucleoli and local delivery of cargoes into the outermost layer of the nucleolus, the granular component. When coupled with the amyotrophic lateral sclerosis (ALS)-associated C9ORF72 proline/arginine-rich dipeptide repeats, pNUTs allow us to photomanipulate poly-proline–arginine nucleolar localization, perturb nucleolar protein nucleophosmin 1 and suppress nascent protein synthesis. pNUTs thus expand the optogenetic toolbox by permitting light-controllable interrogation of nucleolar functions and precise induction of ALS-associated toxicity in cellular models.
Time-Varying Mediation of Pharmacological Smoking Cessation Treatments on Smoking Lapse via Craving, Cessation Fatigue, and Negative Mood
Authors: Chakraborti Yajnaseni , Coffman Donna L , Piper Megan E 
Published: March 2022

Abstract

Introduction
The addictive nature of nicotine makes smoking cessation an extremely challenging process. With prolonged exposure, tobacco smoking transforms from being a positive reinforcer to a negative one, as smoking is used to mitigate aversive withdrawal symptoms. Studying the variations in withdrawal symptoms, especially during their peak in the first week of a quit attempt, could help improve cessation treatment for the future. The time-varying mediation model effectively studies whether altering withdrawal symptoms act as mediators in the pathway between treatment and cessation.

Aims and Methods
This secondary data analysis of a randomized clinical smoking cessation trial of three pharmacotherapy regimens (nicotine patch, varenicline, and nicotine patch + mini-lozenge) analyzes ecological momentary assessment (EMA) data from the first 4 weeks post-target quit day (TQD). We assess whether withdrawal symptoms (eg, negative mood, cessation fatigue, and craving) mediate the pathway between pharmacotherapy and daily smoking status and whether this effect varies over time.

Results
We found a statistically significant time-varying mediation effect of varenicline on smoking status through craving, which shows decreasing risk of lapse via reduction in craving. We did not find significant time-varying mediation effects through negative mood and cessation fatigue.

Conclusions
This study supports the importance of craving suppression in the smoking cessation process. It also helped identify specific timepoints when withdrawal symptoms increased that would likely benefit from targeted cessation intervention strategies.

Implications
This study aimed to understand the underlying dynamic mechanisms of the smoking cessation process using a new analytical approach that capitalizes on the intensive longitudinal data collected via EMAs. The findings from this study further elucidate the smoking cessation process and provide insight into behavioral intervention targets and the timing of such interventions through the estimation of time-varying mediation effects.
Association of Secretor Status and Recent Norovirus Infection With Gut Microbiome Diversity Metrics in a Veterans Affairs Population
Authors: Johnson Jordan A , Read Timothy D , Petit Robert A , Marconi Vincent C , Meagley Kathryn L , Rodriguez-Barradas Maria C , Beenhouwer David O , Brown Sheldon T , Holodniy Mark , Lucero-Obusan Cynthia A , Schirmer Patricia , Ingersoll Jessica M , Kraft Colleen S , Neill Frederick H , Atmar Robert L , Kambhampati Anita K , Cates Jordan E , Mirza Sara A , Hall Aron J , Cardemil Cristina V , Lopman Benjamin A 
Published: March 2022

Abstract
Norovirus infection causing acute gastroenteritis could lead to adverse effects on the gut microbiome. We assessed the association of microbiome diversity with norovirus infection and secretor status in patients from Veterans Affairs medical centers. Alpha diversity metrics were lower among patients with acute gastroenteritis but were similar for other comparisons.