bluuebunny/crossref_metadata_2025_split huggingface dataset:
LOFAR discovery of rare large FR I jets in the low-luminosity radio galaxy NGC 5322
Authors: Omar Amitesh 
Published: October 2022

ABSTRACT
The discovery of faint Fanaroff–Riley type I (FR I) radio jets in the elliptical galaxy NGC 5322 is reported here using the 144-MHz image from Data Release 2 of the Low-Frequency Array (LOFAR) Two-metre Sky Survey (LoTSS). The jets have an angular extent of ∼40 arcmin or a projected physical extent of ∼360 kpc. The faint jets remain well collimated and disappear in the intergalactic medium, without any detected hotspots or radio lobes. The relatively brighter jets, previously detected only up to the ∼21 kpc extent at higher frequencies, are within the optical extent of the galaxy. The jets become faint abruptly outside, where detection is made only in the LOFAR image. The total radio luminosity of the galaxy at 144 MHz is estimated to be (3.7 ± 0.4) × 1022 W Hz−1. The 144-MHz radio luminosity of the faint jets outside the optical extent is estimated to be (7.1 ± 2.0) × 1021 W Hz−1. The size of the jets is exceptionally large for the galaxy’s low radio luminosity, when compared with other radio galaxies. It makes NGC 5322 a rare radio galaxy, previously not detected in other radio surveys. A combined effect of stellar core depletion and low-density environment around the jets, which results in a weak entrainment of the material surrounding the jets, could be responsible for its large size despite a low radio luminosity.
Positive antiphospholipid antibodies and pulmonary embolism in a patient with adalimumab-induced lupus
Authors: Uehara Masaaki , Matsushita Shinya , Aochi Satsuki , Yamamoto Motohisa 
Published: October 2022

ABSTRACT
It is known that administration of tumor necrotic factor (TNF) inhibitors induces lupus. The case of a Crohn’s disease patient who had been treated with adalimumab (ADA) and showed positive anti-DNA and antiphospholipid antibodies and developed pulmonary embolism is presented. Fortunately, early diagnosis and intervention helped her survive. Although ADA was withdrawn, the Crohn’s disease did not recur, and the autoantibodies became negative without any steroid therapy. It is important to recognise that administration of TNF inhibitors may be associated with antiphospholipid syndrome. It is necessary to perform therapeutic interventions such as TNF inhibitor withdrawal and prompt anticoagulant therapy when such pathology is suspected.
A case of pachydermaperiostosis with myelofibrosis and treatment with ruxolitinib
Authors: Deniz Rabia , Ezircan-Alay Merve 
Published: October 2022

ABSTRACT
Pachydermaperiostosis (PDP) is a rare condition of connective tissue presenting with abnormal skin and skeletal findings that usually occur as a complication of an underlying disease, especially malignancies. We described a case of a patient with severe transfusion-dependent anemia and both skin and joint findings, diagnosed as PDP. The haematological assessment revealed myelofibrosis as the underlying disease, and treatment with ruxolitinib as the first-line choice was given by skipping hydroxyurea due to pancytopenia. The patient got benefits in arthralgia and amelioration of pancytopenia and a reduced spleen volume was observed, despite the negative result for JAK2 gene mutation. This is the first case of ruxolitinib being used in PDP with myelofibrosis, and it highlights the importance of evaluating PDP as not just a skin and joint problem but a result of systemic disease and individual-based treatment.
Disease mutations of human α3 Na+/K+-ATPase define extracellular Na+ binding/occlusion kinetics at ion binding site III
Authors: Moreno Cristina , Jiao Song , Yano Sho , Holmgren Miguel 
Published: October 2022

Abstract
Na+/K+-ATPase, which creates transmembrane electrochemical gradients by exchanging 3 Na+ for 2 K+, is central to the pathogenesis of neurological diseases such as alternating hemiplegia of childhood. Although Na+/K+-ATPase has 3 distinct ion binding sites I–III, the difficulty of distinguishing ion binding events at each site from the others hinders kinetic study of these transitions. Here, we show that binding of Na+ at each site in the human α3 Na+/K+-ATPase can be resolved using extracellular Na+-mediated transient currents. When Na+/K+-ATPase is constrained to bind and release only Na+, three kinetic components: fast, medium, and slow, can be isolated, presumably corresponding to the protein dynamics associated with the binding (or release depending on the voltage step direction) and the occlusion (or deocclusion) of each of the 3 Na+. Patient-derived mutations of residues which coordinate Na+ at site III exclusively impact the slow component, demonstrating that site III is crucial for deocclusion and release of the first Na+ into the extracellular milieu. These results advance understanding of Na+/K+-ATPase mutation pathogenesis and provide a foundation for study of individual ions’ binding kinetics.
Money and happiness: the income–happiness correlation is higher when income inequality is higher
Authors: Oishi Shigehiro , Cha Youngjae , Komiya Asuka , Ono Hiroshi 
Published: October 2022

Abstract
Has the income–happiness correlation changed over time? If so, what predicts such changes? We tested these questions in diverse economic, political, and cultural contexts. Drawing on nationally representative data, we found that the income–happiness correlation has increased in the USA since 1972, as GDP per capita and income inequality increased (Study 1). Study 2 examined an income–life satisfaction correlation in nationally representative surveys between 1978 and 2011 in Japan. Unlike in the USA, there was no clear increase in the income–life satisfaction correlation over time. We next examined the income–life satisfaction correlations in 16 European countries and found that on average the income–life satisfaction correlation has increased since 1970, and it was particularly high in years of high GDP per capita and high-income inequality (Study 3). Finally, we found that among Latin American countries, the income–life satisfaction correlation has, on average, decreased since 1997, as income inequality has decreased (Study 4). Over the last 5 decades, the income–happiness correlation has increased, not decreased, in the USA and several European countries. The income–happiness correlation tends to get higher when both GDP per capita and income inequality are high, whereas it tends to get lower when GDP per capita and/or income inequality are low. These findings suggest the importance of accounting for income inequality as well as national wealth in understanding the role of money in happiness.
Alethic Openness and the Growing Block Theory of Time
Authors: Hodroj Batoul , Latham Andrew J , Lee-Tory Jordan , Miller Kristie 
Published: October 2022

AbstractWhatever its ultimate philosophical merits, it is often thought that the growing block theory presents an intuitive picture of reality that accords well with our pre-reflective or folk view of time, and of the past, present, and future. This is partly motivated by the idea that we find it intuitive that, in some sense, the future is open and the past closed, and that the growing block theory is particularly well suited to accommodate this being so. In this paper, we empirically investigate three claims. First, that people's intuitive or pre-reflective sense that the future is open is at least partly captured by there being truth-gaps for future contingents: what we call alethic openness. Second, that people, perhaps tacitly, believe that the fact that the future is alethically open is a reason to endorse the growing block theory; and third, that part of what explains why people tend to naively represent our world as a growing block is that they represent the future as alethically open. We found evidence in support of the first two claims. We consider the implications of these findings for several debates in the philosophy of time.
Global estimates of the fitness advantage of SARS-CoV-2 variant Omicron
Authors: van Dorp Christiaan , Goldberg Emma , Ke Ruian , Hengartner Nick , Romero-Severson Ethan 
Published: October 2022

Abstract
New variants of SARS-CoV-2 show remarkable heterogeneity in their relative fitness over both time and space. In this paper we extend the tools available for estimating the selection strength for new SARS-CoV-2 variants to a hierarchical, mixed-effects, renewal equation model. This formulation allows us to estimate selection effects at the global level while incorporating both measured and unmeasured heterogeneity among countries. Applying this model to the spread of Omicron in forty countries, we find evidence for very strong but very heterogeneous selection effects. To test whether this heterogeneity is explained by differences in the immune landscape, we considered several measures of vaccination rates and recent population-level infection as covariates, finding moderately strong, statistically significant effects. We also found a significant positive correlation between the selection advantage of Delta and Omicron at the country level, suggesting that other region-specific explanatory variables of fitness differences do exist. Our method is implemented in the Stan programming language, can be run on standard consumer-grade computing resources, and will be straightforward to apply to future variants.
Viral origin of eukaryotic type IIA DNA topoisomerases
Authors: Guglielmini Julien , Gaia Morgan , Da Cunha Violette , Criscuolo Alexis , Krupovic Mart , Forterre Patrick 
Published: October 2022

Abstract
Type II DNA topoisomerases of the family A (Topo IIAs) are present in all Bacteria (DNA gyrase) and eukaryotes. In eukaryotes, they play a major role in transcription, DNA replication, chromosome segregation, and modulation of chromosome architecture. The origin of eukaryotic Topo IIA remains mysterious since they are very divergent from their bacterial homologs and have no orthologs in Archaea. Interestingly, eukaryotic Topo IIAs have close homologs in viruses of the phylum Nucleocytoviricota, an expansive assemblage of large and giant viruses formerly known as the nucleocytoplasmic large DNA viruses. Topo IIAs are also encoded by some bacterioviruses of the class Caudoviricetes (tailed bacteriophages). To elucidate the origin of the eukaryotic Topo IIA, we performed in-depth phylogenetic analyses on a dataset combining viral and cellular Topo IIA homologs. Topo IIAs encoded by Bacteria and eukaryotes form two monophyletic groups nested within Topo IIA encoded by Caudoviricetes and Nucleocytoviricota, respectively. Importantly, Nucleocytoviricota remained well separated from eukaryotes after removing both Bacteria and Caudoviricetes from the data set, indicating that the separation of Nucleocytoviricota and eukaryotes is probably not due to long-branch attraction artifact. The topologies of our trees suggest that the eukaryotic Topo IIA was probably acquired from an ancestral member of the Nucleocytoviricota of the class Megaviricetes, before the emergence of the last eukaryotic common ancestor (LECA). This result further highlights a key role of these viruses in eukaryogenesis and suggests that early proto-eukaryotes used a Topo IIB instead of a Topo IIA for solving their DNA topological problems.
Nocardioides ochotonae sp. nov., Nocardioides campestrisoli sp. nov. and Nocardioides pantholopis sp. nov., isolated from the Qinghai–Tibet Plateau
Authors: Zhou Juan , Wang Xiaoxia , Xu Mingchao , Yang Jing , Lai Xin-He , Jin Dong , Lu Shan , Pu Ji , Yang Caixin , Zhang Sihui , Tao Yuanmeihui , Zhang Zehui , Liu Liyun , Xu Jianguo 
Published: October 2022

Six Gram-stain-positive, aerobic and irregular-rod-shaped actinobacteria (ZJ1313T, ZJ1307, MC1495T, Y192, 603T and X2025) were isolated from the Qinghai–Tibet Plateau of China and were characterized using a polyphasic taxonomic method. Phylogenetic analysis based on 16S rRNA gene sequences indicated that the six new strains formed three distinct clusters within the genus

Nocardioides

, and strains ZJ1313T and ZJ1307 were most closely related to

N. solisilvae

JCM 31492T (16S rRNA gene sequence similarity, 98.0 %), MC1495T and Y192 to

N. houyundeii

78T (98.5 %), and 603T and X2025 to

N. dokdonensis

JCM 14815T (97.6 %). The digital DNA–DNA hybridization values of strains ZJ1313T, MC1495T and 603T among each other and with type strains of their closest relatives were all below the 70 % cut-off point, but values within each pair of new strains were all higher than the threshold. The major fatty acids of these strains were iso-C16 : 0, C17 : 1
ω8c or C18 : 1
ω9c. MK-8(H4) was the predominant respiratory menaquinone and ʟʟ−2,6-diaminopimelic acid was the diagnostic diamino acid. All the strains shared diphosphatidylglycerol (predominant), phosphatidylglycerol, phosphatidylcholine and phosphatidylinositol as the common polar lipids, with minor difference in the types of unidentified phospholipids, glycolipids and lipids. The G+C contents based on genomic DNA of strains ZJ1313T, MC1495T and 603T were 72.5, 72.1 and 73.2 mol%, respectively. The above results suggested that strain pairs ZJ1313T/ZJ1307, MC1495T/Y192 and 603T/X2025 represent three new species of genus

Nocardioides

, for which the names Nocardioides ochotonae sp. nov. (ZJ1313T=GDMCC 4.177T=KCTC 49537T=JCM 34185T), Nocardioides campestrisoli sp. nov. (MC1495T=GDMCC 4.176T=KCTC 49536T=JCM 34307T) and Nocardioides pantholopis sp. nov. (603T=CGMCC 4.7510T=DSM 106494T) are proposed accordingly.
Parachryseolinea silvisoli gen. nov., sp. nov., isolated from forest soil, and reclassification of Chryseolinea flava as Pseudochryseolinea flava gen. nov., comb. nov.
Authors: Wang Chunling , Lv Yingying , Li Anzhang , Yao Qing , Zhu Honghui 
Published: October 2022

A lemon-chiffon strain, designated QH1ED-6-2T, was isolated from a soil sample collected from Qinghai Virgin Forests, Qinghai Province, PR China. The strain was Gram-stain-negative, aerobic, rod-shaped and motile by gliding. Phylogenetic analysis of 16S rRNA gene sequences revealed that strain QH1ED-6-2T belongs to the family

Fulvivirgaceae

, and has the highest similarity values of 93.6–92.0 % to

Ohtaekwangia koreensis

CCUG 58939T,

Ohtaekwangia kribbensis

CCUG 58938T,

Chryseolinea flava

SDU1-6T and

Chryseolinea serpens

DSM 24574T, respectively. The major cellular fatty acids included iso-C15 : 0, C16 : 1
ω5c, iso-C17 : 0 3-OH and summed feature 3. The major polar lipid was phosphatidylethanolamine. The predominant respiratory quinone was menaquinone-7. The average amino acid identity values and percentages of conserved proteins between QH1ED-6-2T and its closely related genera were 66.4–69.6 % and 58.9–64.9 %, respectively, which are interspersed in the intra-genera cutoff values. The digital DNA–DNA hybridization values were 17.6–19.2 %. The draft genome size of strain QH1ED-6-2T was 7.98 Mbp with a DNA G+C content of 51.4 mol%. Based on phenotypic, chemotaxonomic, phylogenetic data, genomic DNA G+C content, as well as AAI, POCP and dDDH results, strain QH1ED-6-2T represents a novel species of a new genus in the family

Fulvivirgaceae

, for which the name Parachryseolinea silvisoli sp. nov. is proposed. The type strain is QH1ED-6-2T (=GDMCC 1.2318T=JCM 35041T). We also propose the reclassification of

Chryseolinea flava

as Pseudochryseolinea flava gen. nov., comb. nov. (type strain SDU1-6T=CGMCC 1.13492T=JCM 32520T).
Nonuniform structural properties of wings confer sensing advantages
Authors: Weber Alison I , Babaei Mahnoush , Mamo Amanuel , Brunton Bingni W , Daniel Thomas L , Bergbreiter Sarah 
Published: October 2022

AbstractSensory feedback is essential to both animals and robotic systems for achieving coordinated, precise movements. Mechanosensory feedback, which provides information about body deformation and position in space, depends not only on the properties of sensors but also on the structure in which they are embedded. In insects, wing structure plays a particularly important role in flapping flight: in addition to generating aerodynamic forces, wings provide mechanosensory feedback necessary for guiding flight while undergoing dramatic deformations over the course of each wingbeat. However, the role that wing structure plays in determining mechanosensory information is relatively unexplored. Insect wings exhibit characteristic stiffness gradients, with greatest stiffness at the base and leading edge and lowest stiffness at the tip of the trailing edge. Additionally, wings are subject to both aerodynamic and structural damping. The sensory consequences of stiffness gradients and damping are unknown. Here we examine how both the nonuniform stiffness profile of a wing and its damping impacts sensory performance, using finite elements analysis combined with sensor placement optimization approaches. We show that wings with nonuniform stiffness exhibit several advantages over uniform stiffness wings, resulting in higher accuracy of rotation detection and lower sensitivity to the placement of sensors on the wing. Moreover, we show that higher damping generally improves the accuracy with which body rotations can be detected. These results contribute to our understanding of the evolution of the nonuniform stiffness patterns in insect wings, as well as suggest design principles for robotic systems.
Local and regional scale mycorrhizal network assembly in an experimental prairie-pasture system
Authors: Shek Katherine L. , Dawson Hilary Rose , Maxwell Toby M. , Bomfim Barbara , Reed Paul B. , Bridgham Scott , Bohannan Brendan , Silva Lucas C.R. 
Published: October 2022

ABSTRACTArbuscular mycorrhizal (AM) symbioses between plants and fungi are essential to the functioning of terrestrial ecosystems through maintaining soil stability, controlling nutrient cycles (e.g. C, N, P and K), and influencing competitive dynamics in plant communities. Despite the importance of AM symbioses, the ecological coassembly patterns of AM fungi-plant partners are not well characterized across environmental gradients. Further, it is unclear whether fungi forming associations with several plants of the same or different species – forming common mycorrhizal networks (CMNs) – preferentially allocate limiting resources within natural plant communities at the local-scale. We used an experimental prairie-pasture grassland system in three sites along a latitudinal gradient ranging from cool/wet to warm/dry climates to investigate how environmental conditions, local plant diversity and drought shift AM fungal composition and plant-fungal coassembly patterns across spatial scales. We show that plant-AM fungal assembly patterns are hierarchically structured, with environmental variables driving differences in AM fungal communities at the largest spatial scale (across sites), and plant host identity and diversity governing AM assembly at the local scale (within plot). Bipartite interaction networks revealed evidence for preferential partner selection between plants and fungi, while there was no evidence for nested assembly of plant-fungal partners. At the plot-level, we applied stable isotopes (13C and15N) to illustrate CMN assembly and nutritional function. There was no significant correlation between increased resource transfer among plants in a plot that shared more AM fungal partners; however, we identified specific AM fungi that were indicator taxa for increased plant isotope enrichment. Further research integrating stable isotope probing of fungal DNA in plant roots is necessary to more clearly illustrate the form and function of CMNs in grasslands under different environmental and plant diversity conditions.
MHC class Ia molecules facilitate MCK2-dependent MCMV infection of macrophages and virus dissemination to the salivary gland
Authors: Bošnjak Berislav , Henze Elisa , Lueder Yvonne , Hoang Do Kim Thi , Rezalofti Alaleh , Ritter Christiane , Schimrock Anja , Willenzon Stefanie , Georgiev Hristo , Fritz Lea , Galla Melanie , Wagner Karen , Messerle Martin , Förster Reinhold 
Published: October 2022

SummaryMurine cytomegalovirus (MCMV) infection of macrophages relies on MCMV-encoded chemokine 2 (MCK2) through one or more unknown cellular receptors while infection of fibroblast occurs independent of MCK2 and is mediated by cell-expressed neuropilin 1. Applying a CRISPR screen, we now identified that the MHC-Ia/Beta-2-microglobulin (B2m) complex serves as an entry port for MCK2-mediated infection of macrophages. Further analyses revealed that MCK2-dependent infection requires expression of the MHC-Ia haplotypes H-2b and H-2d but not H-2k. The importance of the MCK2-MHC-I-pathway for primary infection and viral dissemination was highlighted by experiments with B2m-deficient mice, which lack surface expression of MHC-I molecules. In those mice, intranasally administered MCK2-proficient MCMV could not infect alveolar macrophages and subsequently failed to disseminate into the salivary glands. The identified molecular pathway used by MCMV to infect lung resident macrophages provides essential knowledge for understanding cytomegalovirus-induced pathogenesis, tissue targeting, and virus dissemination.
Apoptotic factors and mitochondrial complexes assist determination of strain-specific susceptibility of mice to Parkinsonian neurotoxin MPTP
Authors: Yarreiphang Haorei , Vidyadhara D J , Nambisan Anand Krishnan , Raju Trichur R , Sagar BK Chandrashekar , Alladi Phalguni Anand 
Published: October 2022

AbstractIdentification of genetic mutations in Parkinson’s disease (PD) promulgates the genetic nature of disease susceptibility. Resilience-associated genes being unknown till date, the normal genetic makeup of an individual may be determinative too. Our earlier studies comparing the substantia nigra (SN) and striatum of C57BL/6J, CD-1 mice and their F1-crossbreds demonstrated neuroprotective role of admixing, against the neurotoxin MPTP. Further, the differences in levels of mitochondrial fission/fusion proteins in the SN of parent strains, imply effect on mitochondrial biogenesis. Our present investigations suggest that the baseline levels of apoptotic factors Bcl-2, Bax and AIF differ across the three strains and, are differentially altered in SN following MPTP-administration. The reduction in complex-I levels exclusively in MPTP-injected C57BL/6J, reiterate mitochondrial involvement in PD pathogenesis. The MPTP-induced increase in complex-IV, in the nigra of both parent strains may be compensatory in nature. Ultrastructural evaluation showed fairly preserved mitochondria in the dopaminergic neurons of CD-1 and F1-crossbreds. However, in CD-1, the endoplasmic reticulum demonstrated distinct luminal enlargement, bordering onto ballooning, suggesting proteinopathy as a possible initial trigger.The increase in α-synuclein in the pars reticulata of crossbreds suggests a supportive role for this output nucleus in compensating for the lost function of pars compacta. Alternatively, since α-synuclein over-expression occurs in different brain regions in PD, the α-synuclein increase here may suggest similar pathogenic outcome. Further understanding is required to resolve this biological contraption. Nevertheless, admixing reduces the risk to MPTP by favouring anti-apoptotic consequences. Similar neuroprotection may be envisaged in the admixed populace of Anglo-Indians.