bluuebunny/crossref_metadata_2025_split huggingface dataset:
The CXCL12-CXCR4-NLRP3 axis promotes Schwann cell pyroptosis and sciatic nerve demyelination in rats
Authors: Li Wei , Liang Jie , Li Shaohua , Jiang Suli , Song Meiying , Xu Shuo , Wang Luoyang , Meng Haining , Zhai Dongchang , Tang Lei , Yang Yanyan , Zhang Bei 
Published: July 2023

Abstract
Studies have shown that the activation of the NOD-like receptor protein 3 (NLRP3) inflammasome is detrimental to the functional recovery of the sciatic nerve, but the regulatory mechanisms of the NLRP3 inflammasome in peripheral nerves are unclear. C-X-C motif chemokine 12 (CXCL12) can bind to C-X-C chemokine receptor type 4 (CXCR4) and participate in a wide range of nerve inflammation by regulating the NLRP3 inflammasome. Based on these, we explore whether CXCL12-CXCR4 axis regulates the NLRP3 inflammasome in the peripheral nerve. We found that CXCR4/CXCL12, NLRP3 inflammasome-related components, pyroptosis-related proteins and inflammatory factors in the sciatic nerve injured rats were markedly increased compared with the sham-operated group. AMD3100, a CXCR4 antagonist, reverses the activation of NLRP3 inflammasome, Schwann cell pyroptosis and sciatic nerve demyelination. We further treated rat Schwann cells with LPS (lipopolysaccharide) and adenosine triphosphate (ATP) to mimic the cellular inflammation model of sciatic nerve injury, and the results were consistent with those in vivo. In addition, both in vivo and in vitro experiments demonstrated that AMD3100 treatment reduced the phosphorylation of nuclear factor κB (NF-κB) and the expression of thioredoxin interacting protein (TXNIP), which contributes to activating NLRP3 inflammasome. Therefore, our findings suggest that, after sciatic nerve injury, CXCL12-CXCR4 axis may promote Schwann cell pyroptosis and sciatic nerve demyelination through activating NLRP3 inflammasome and slow the recovery process of the sciatic nerve.
Exoprotease exploitation and social cheating in a Pseudomonas aeruginosa environmental lysogenic strain with a noncanonical quorum sensing system
Authors: Huelgas-Méndez Daniel , Cazares Daniel , Alcaraz Luis David , Ceapã Corina Diana , Cocotl-Yañez Miguel , Shotaro Toya , Maeda Toshinari , Fernández-Presas Ana María , Tostado-Islas Oswaldo , González-Vadillo Ana Lorena , Limones-Martínez Aldo , Hernandez-Cuevas Carlos Eduardo , González-García Karen , Jiménez-García Luis Felipe , Martínez Reyna-Lara , Santos-López Cristian Sadalis , Husain Fohad Mabood , Khan Altaf , Arshad Mohammed , Kokila Kota , Wood Thomas K , García-Contreras Rodolfo 
Published: July 2023

Abstract
Social cheating is the exploitation of public goods that are costly metabolites, like exoproteases. Exoprotease exploitation in Pseudomonas aeruginosa has been studied in reference strains. Experimental evolution with reference strains during continuous growth in casein has demonstrated that nonexoprotease producers that are lasR mutants are selected while they behave as social cheaters. However, noncanonical quorum-sensing systems exist in P. aeruginosa strains, which are diverse. In this work, the exploitation of exoproteases in the environmental strain ID4365 was evaluated; ID4365 has a nonsense mutation that precludes expression of LasR. ID4365 produces exoproteases under the control of RhlR, and harbors an inducible prophage. As expected, rhlR mutants of ID4365 behave as social cheaters, and exoprotease-deficient individuals accumulate upon continuous growth in casein. Moreover, in all continuous cultures, population collapses occur. However, this also sometimes happens before cheaters dominate. Interestingly, during growth in casein, ID4565’s native prophage is induced, suggesting that the metabolic costs imposed by social cheating may increase its induction, promoting population collapses. Accordingly, lysogenization of the PAO1 lasR mutant with this prophage accelerated its collapse. These findings highlight the influence of temperate phages in social cheating.
Probing cytoplasmic peroxide metabolism in Shewanella oneidensis
Authors: Toporek Yael , Pak David , Snyder Hannah , Shin Hyun-Dong , DiChristina Thomas J 
Published: July 2023

Abstract
The facultative anaerobe Shewanella oneidensis respires an extensive set of electron acceptors and, as a consequence, can leak electrons to produce reactive oxygen species such as hydrogen peroxide (H2O2). However, the effects of respiration on cytoplasmic redox homeostasis are poorly characterized in comparison. In the present study, the H2O2 sensor HyPer-3 was deployed to interrogate cytoplasmic peroxide levels of both wild-type and gene deletion mutants lacking peroxide scavenging enzymes following exposure to H2O2. HyPer-3 signals were validated in the S. oneidensis wild-type strain and exhibited a dynamic range of 0–250 μM H2O2. As reported by the HyPer-3 sensor, the cytoplasm of H2O2-perturbed mutant strains lacking periplasmic glutathione peroxidase (PgpD) and double deletion mutants lacking catalase (KatB) and bifunctional catalase-peroxidases (KatG1 or KatG2) contained high H2O2 concentrations. The high cytoplasmic H2O2 concentrations correlated with impaired H2O2 removal rates displayed by the mutant strains. Results of the present study provide the first in vivo interrogation of the redox environment of the S. oneidensis cytoplasm with HyPer-3 sensors and indicate that proper redox conditions in minimal growth medium are maintained by the concerted action of both well-known (periplasmic PgpD, cytoplasmic KatB and KatG1) and previously overlooked (cytoplasmic KatG2) peroxidases and catalases.
Learning curves of resection and reconstruction procedures in robotic-assisted pancreatoduodenectomy by a single surgeon: a retrospective cohort study of 160 consecutive cases
Authors: Huang Xi-Tai , Wang Xi-Yu , Xie Jin-Zhao , Cai Jian-Peng , Chen Wei , Chen Liu-Hua , Yin Xiao-Yu 
Published: July 2023

Abstract

Background
Robotic-assisted pancreatoduodenectomy (RPD) has been routinely performed in a few of centers worldwide. This study aimed to evaluate the perioperative outcomes and the learning curves of resection and reconstruction procedures in RPD by one single surgeon.

Methods
Consecutive patients undergoing RPD by a single surgeon at the First Affiliated Hospital of Sun Yat-sen University (Guangzhou, China) between July 2016 and October 2022 were included. The perioperative outcomes and learning curves were retrospectively analysed by using cumulative sum (CUSUM) analyses.

Results
One-hundred and sixty patients were included. According to the CUSUM curve, the times of resection and reconstruction procedures were shortened significantly after 30 cases (median, 284 vs 195 min; P &lt; 0.001) and 45 cases (median, 138 vs 120 min; P &lt; 0.001), respectively. The estimated intraoperative blood loss (median, 100 vs 50 mL; P &lt; 0.001) and the incidence of clinically relevant post-operative pancreatic fistula (29.2% vs 12.5%; P = 0.035) decreased significantly after 20 and 120 cases, respectively. There were no significant differences in the total number of lymph nodes examined, post-operative major complications, or post-operative length-of-stay between the two groups.

Conclusions
Optimization of the resection procedure and the acquisition of visual feedback facilitated the performance of RPD. RPD was a safe and feasible procedure in the selected patients.
Potential Contribution of Ancient Introgression to the Evolution of a Derived Reproductive Strategy in Ricefishes
Authors: Flury Jana M , Meusemann Karen , Martin Sebastian , Hilgers Leon , Spanke Tobias , Böhne Astrid , Herder Fabian , Mokodongan Daniel F , Altmüller Janine , Wowor Daisy , Misof Bernhard , Nolte Arne W , Schwarzer Julia 
Published: July 2023

Abstract
Transitions from no parental care to extensive care are costly and involve major changes in life history, behavior, and morphology. Nevertheless, in Sulawesi ricefishes, pelvic brooding evolved from transfer brooding in two distantly related lineages within the genera Adrianichthys and Oryzias, respectively. Females of pelvic brooding species carry their eggs attached to their belly until the fry hatches. Despite their phylogenetic distance, both pelvic brooding lineages share a set of external morphological traits. A recent study found no direct gene flow between pelvic brooding lineages, suggesting independent evolution of the derived reproductive strategy. Convergent evolution can, however, also rely on repeated sorting of preexisting variation of an admixed ancestral population, especially when subjected to similar external selection pressures. We thus used a multispecies coalescent model and D-statistics to identify gene-tree–species-tree incongruencies, to evaluate the evolution of pelvic brooding with respect to interspecific gene flow not only between pelvic brooding lineages but also between pelvic brooding lineages and other Sulawesi ricefish lineages. We found a general network-like evolution in Sulawesi ricefishes, and as previously reported, we detected no gene flow between the pelvic brooding lineages. Instead, we found hybridization between the ancestor of pelvic brooding Oryzias and the common ancestor of the Oryzias species from the Lake Poso area. We further detected signs of introgression within the confidence interval of a quantitative trait locus associated with pelvic brooding in O. eversi. Our results hint toward a contribution of ancient standing genetic variation to the evolution of pelvic brooding in Oryzias.
A Reinvestigation of Multiple Independent Evolution and Triassic–Jurassic Origins of Multicellular Volvocine Algae
Authors: Ma Xiaoya , Shi Xuan , Wang Qiuping , Zhao Mengru , Zhang Zhenhua , Zhong Bojian 
Published: July 2023

AbstractThe evolution of multicellular organisms is considered to be a major evolutionary transition, profoundly affecting the ecology and evolution of nearly all life on earth. The volvocine algae, a unique clade of chlorophytes with diverse cell morphology, provide an appealing model for investigating the evolution of multicellularity and development. However, the phylogenetic relationship and timescale of the volvocine algae are not fully resolved. Here, we use extensive taxon and gene sampling to reconstruct the phylogeny of the volvocine algae. Our results support that the colonial volvocine algae are not monophyletic group and multicellularity independently evolve at least twice in the volvocine algae, once in Tetrabaenaceae and another in the Goniaceae + Volvocaceae. The simulation analyses suggest that incomplete lineage sorting is a major factor for the tree topology discrepancy, which imply that the multispecies coalescent model better fits the data used in this study. The coalescent-based species tree supports that the Goniaceae is monophyletic and Crucicarteria is the earliest diverging lineage, followed by Hafniomonas and Radicarteria within the Volvocales. By considering the multiple uncertainties in divergence time estimation, the dating analyses indicate that the volvocine algae occurred during the Cryogenian to Ediacaran (696.6–551.1 Ma) and multicellularity in the volvocine algae originated from the Triassic to Jurassic. Our phylogeny and timeline provide an evolutionary framework for studying the evolution of key traits and the origin of multicellularity in the volvocine algae.
Genomic analyses provide insights into the evolution and salinity adaptation of halophyte Tamarix chinensis
Authors: Liu Jian Ning , Fang Hongcheng , Liang Qiang , Dong Yuhui , Wang Changxi , Yan Liping , Ma Xinmei , Zhou Rui , Lang Xinya , Gai Shasha , Wang Lichang , Xu Shengyi , Yang Ke Qiang , Wu Dejun 
Published: July 2023

Abstract

Background
The woody halophyte Tamarix chinensis is a pioneer tree species in the coastal wetland ecosystem of northern China, exhibiting high resistance to salt stress. However, the genetic information underlying salt tolerance in T. chinensis remains to be seen. Here we present a genomic investigation of T. chinensis to elucidate the underlying mechanism of its high resistance to salinity.

Results
Using a combination of PacBio and high-throughput chromosome conformation capture data, a chromosome-level T. chinensis genome was assembled with a size of 1.32 Gb and scaffold N50 of 110.03 Mb. Genome evolution analyses revealed that T. chinensis significantly expanded families of HAT and LIMYB genes. Whole-genome and tandem duplications contributed to the expansion of genes associated with the salinity adaptation of T. chinensis. Transcriptome analyses were performed on root and shoot tissues during salt stress and recovery, and several hub genes responding to salt stress were identified. WRKY33/40, MPK3/4, and XBAT31 were critical in responding to salt stress during early exposure, while WRKY40, ZAT10, AHK4, IRX9, and CESA4/8 were involved in responding to salt stress during late stress and recovery. In addition, PER7/27/57/73 encoding class III peroxidase and MCM3/4/5/7 encoding DNA replication licensing factor maintained up/downregulation during salt stress and recovery stages.

Conclusions
The results presented here reveal the genetic mechanisms underlying salt adaptation in T. chinensis, thus providing important genomic resources for evolutionary studies on tamarisk and plant salt tolerance genetic improvement.
Sulfur oxidizing bacteria in agro ecosystem and its role in plant productivity—a review
Authors: Ranadev Praveen , Revanna Ashwin , Bagyaraj Davis Joseph , Shinde Ambika H 
Published: July 2023

Abstract
Sulfur (S) deficiency is becoming more common in agro-ecosystems worldwide due to factors such as agronomic practices, high biomass production, reduced sulfur emissions, and the use of non-sulfur fertilizers. This review explores the natural occurrence and commercial exploitation of sulfur pools in nature, the mineralization and immobilization of sulfur, the physiological role of sulfur in plants, and its deficiency symptoms. Additionally, the organic and inorganic forms of sulfur in soil, their transformations, and the process of microbiological oxidation of sulfur are discussed. The review also addresses the diversity of sulfur-oxidizing bacteria (SOB) and the various biochemical mechanisms involved in their role in plant productivity and soil reclamation. The measurement of S oxidation rate in soil and the variables that influence the process are also examined. Typically, the rate of oxidation of added elemental S is around 40%–51%, which is available for plant uptake. These characteristics of SOB demonstrate their potential as bioinoculants for increasing plant growth, indicating their use as biofertilizers for sustainable crop production in agro-ecosystems.
Examining standardized consumer-generated social determinants of health and resilience data supported by Omaha System terminology
Authors: Austin Robin R , Rajamani Sripriya , Jantraporn Ratchada , Pirsch Anna , Martin Karen S 
Published: July 2023

Abstract
Nursing terminologies like the Omaha System are foundational in realizing the vision of formal representation of social determinants of health (SDOH) data and whole-person health across biological, behavioral, social, and environmental domains. This study objective was to examine standardized consumer-generated SDOH data and resilience (strengths) using the MyStrengths+MyHealth (MSMH) app built using Omaha System. Overall, 19 SDOH concepts were analyzed including 19 Strengths, 175 Challenges, and 76 Needs with additional analysis around Income Challenges. Data from 919 participants presented an average of 11(SD = 6.1) Strengths, 21(SD = 15.8) Challenges, and 15(SD = 14.9) Needs. Participants with at least one Income Challenge (n = 573) had significantly (P &lt; .001) less Strengths [9.4(6.4)], more Challenges [27.4(15.5)], and more Needs [15.1(14.9)] compared to without an Income Challenge (n = 337) Strengths [13.4(4.5)], Challenges [10.5(8.9)], and Needs [5.1(10.0)]. This standards-based approach to examining consumer-generated SDOH and resilience data presents a great opportunity in understanding 360-degree whole-person health as a step towards addressing health inequities.
Modelling UX Ori star eclipses based on spectral observations with the Nordic Optical Telescope − I. RR Tau
Authors: Grinin V P , Tambovtseva L V , Djupvik A A , Gahm G , Grenman T , Weber H , Bengtsson H , De Angelis H , Duszanowicz G , Heinonen D , Holmberg G , Karlsson T , Larsson M , Warell J , Wikander T 
Published: July 2023

ABSTRACT
Based on observations obtained with the Nordic Optical Telescope (NOT) we investigate the spectral variability of the Herbig Ae star RR Tau. This star belongs to the UX Ori family, characterized by very deep fadings caused by the screening of the star with opaque fragments (clouds) of the protoplanetary discs. At the moments of such minima one observes strong spectral variability due to the fact that the dust cloud occults, for an observer, not only the star but also a part of the region where the emission spectrum originates. We calculated a series of obscuration models to interpret the observed variability of the H α line parameters. We consider two main obscuration scenarios: (1) the dust screen rises vertically above the circumstellar disc, and (2) the screen intersects the line-of-sight moving azimuthally with the disc. In both cases, the model of the emission region consists of a compact magnetosphere and a magnetocentrifugal disc wind. Comparison with observations shows that the first scenario explains well the variability of the radiation flux, the equivalent width, as well as the asymmetry of the H α line during eclipses, while the second scenario explains them only partly. This permits us to suggest that in the case of RR Tau, the main causes of the eclipses are either a structured disc wind, or the charged dust lifted along the field lines of the poloidal component of the magnetic field of the circumstellar disc.
Probing the variations in the timing of the Sun’s polar magnetic field reversals through observations and surface flux transport simulations
Authors: Golubeva Elena M , Biswas Akash , Khlystova Anna I , Kumar Pawan , Karak Bidya Binay 
Published: July 2023

ABSTRACT
The polar field reversal is a crucial process in the cyclic evolution of the large-scale magnetic field of the Sun. Various important characteristics of a solar cycle, such as its duration and strength, and also the cycle predictability, are determined by the polar field reversal time. While the regular measurements of solar magnetic field have been accumulated for more than half a century, there is no consensus in the heliophysics community concerning the interpretation of the Sun’s polar field measurements and especially the determination of polar field reversal time. There exists a severe problem of non-reproducibility in the reported results even from studies of the same observational data set, and this causes an obstacle to make more accurate forecasts of solar cycle. Here, we analyze the solar magnetograms from four instruments for the last four cycles, to provide a more correct interpretation of the polar field observations and to find more accurate time of the reversals. We show the absence of triple (multiple) reversals in Cycles 21–24, significant variations in the time interval between reversals in the hemispheres and in the time interval between a reversal and a cycle beginning. In order to understand the origin of the reversal time variation, we perform Surface Flux Transport (SFT) simulations and find out that the presence of the ‘anomalous’ bipolar magnetic regions (BMRs) in different phases of a cycle can cause cycle-to-cycle variations of the reversal time within the similar range found in observations.
The role of magnetic fields in the formation of the filamentary infrared dark cloud G11.11–0.12
Authors: Chen Zhiwei , Sefako Ramotholo , Yang Yang , Jiang Zhibo , Su Yang , Zhang Shaobo , Zhou Xin 
Published: July 2023

ABSTRACT
We report on the near-infrared polarimetric observations of G11.11–0.12 (hereafter G11) obtained with SIRPOL on the 1.4 m IRSF telescope. The starlight polarisation of the background stars reveals the on-sky component of magnetic fields in G11, and these are consistent with the field orientation observed from polarised dust emission at $850\, \mu$m. The magnetic fields in G11 are perpendicular to the filament, and are independent of the filament’s orientation relative to the Galactic plane. The field strength in the envelope of G11 is in the range $50-100\, \mu$G, derived from two methods. The analyses of the magnetic fields and gas velocity dispersion indicate that the envelope of G11 is supersonic but sub-Alfvénic. The critical mass-to-flux ratio in the envelope of G11 is close to 1 and increases to ≳ 1 on the spine of G11. The relative weights on the importance of magnetic fields, turbulence and gravity indicate that gravity dominates the dynamical state of G11, but with significant contribution from magnetic fields. The field strength, |B|, increases slower than the gas density, n, from the envelope to the spine of G11, characterized by |B|∝n0.3. The observed strength and orientation of magnetic fields in G11 imply that supersonic and sub-Alfvénic gas flow is channelled by the strong magnetic fields and is assembled into filaments perpendicular to the magnetic fields. The formation of low-mass stars is enhanced in the filaments with high column density, in agreement with the excess of low-mass protostars detected in the densest regions of G11.
CSDE1 promotes miR-451 biogenesis
Authors: Kakumani Pavan Kumar , Ko Yunkoo , Ramakrishna Sushmitha , Christopher Grace , Dodgson Maria , Shrinet Jatin , Harvey Louis-Mathieu , Shin Chanseok , Simard Martin J 
Published: July 2023

Abstract
MicroRNAs are sequentially processed by RNase III enzymes Drosha and Dicer. miR-451 is a highly conserved miRNA in vertebrates which bypasses Dicer processing and instead relies on AGO2 for its maturation. miR-451 is highly expressed in erythrocytes and regulates the differentiation of erythroblasts into mature red blood cells. However, the mechanistic details underlying miR-451 biogenesis in erythrocytes remains obscure. Here, we report that the RNA binding protein CSDE1 which is required for the development of erythroblasts into erythrocytes, controls the expression of miR-451 in erythroleukemia cells. CSDE1 binds miR-451 and regulates AGO2 processing of pre-miR-451 through its N-terminal domains. CSDE1 further interacts with PARN and promotes the trimming of intermediate miR-451 to the mature length. Together, our results demonstrate that CSDE1 promotes biogenesis of miR-451 in erythroid progenitors.
Analysis of recommended thresholds for medical evaluation in cases of radionuclide intakes
Authors: Reis Arlene , Sampaio Camilla , Sousa Wanderson , Aguiar Laís 
Published: July 2023

Abstract
Literature presents different thresholds for evaluation intended for screening people who may need additional medical assistance in cases of radionuclide intakes. There are thresholds based on the committed effective dose (CED), as well as thresholds based on the relative biological effectiveness-weighted absorbed dose (ADT) in the bone marrow and lungs. As in some emergency exposure scenarios with radionuclide intakes the risk for stochastic effects may be low whereas the threshold for deterministic effects may be exceeded, the aim of this analysis was to evaluate and to present the most appropriated threshold for each exposure scenario of interest. The results show that even adopting CED of 100 mSv as threshold for medical evaluation, it is important to screen for tissue reactions because in some scenarios the adopted threshold for deterministic effects is reached whilst the CED is below the adopted threshold value for stochastic effects.