bluuebunny/crossref_metadata_2025_split huggingface dataset:
7Feminist Theory
Authors: Clare Stephanie 
Published: April 2023

Abstract
This chapter provides an overview to central contributions to feminist theory published in 2022. It focuses on three topics around which many contributions congealed: (1) the relationship between transgender and feminist praxis; (2) ecofeminist approaches to violence; and finally (3) feminism’s entanglements with neoliberalism. The chapter outlines the contexts of the publications’ interventions and speculates about what might come next.
EFFECT OF EXOSOMES DERIVED FROM BONE MARROW MESENCHYMAL STEM CELLS ON PROGRAMMED CELL DEATH IN BLAST-INDUCED LUNG INJURY IN RATS
Authors: Deng Meng , He Jing , Hao Changfu , Guo Yonghua , Si Huifang , Deng Xuedan , Zhang Chengpeng , Li Shiyu , Yao Sanqiao , Ren Wenjie , Yao Wu 
Published: April 2023

ABSTRACT
Blast lung injuries (BLIs) are frequent because of industrial accidents and terrorist groups. Bone marrow mesenchymal stem cells (BMSCs) and exosomes derived from BMSCs (BMSCs-Exo) have become a hot topic in modern biology because of their significance in damage healing, immune regulation, and gene therapy. The aim of this study is to investigate the effect of BMSCs and BMSCs-Exo on BLI in rats caused by gas explosion. Here, BMSCs and BMSCs-Exo were transplanted into BLI rats via tail vein and then evaluated pathological alterations, oxidative stress, apoptosis, autophagy, and pyroptosis in the lung tissue. Through histopathology and changes in malondialdehyde (MDA) and superoxide dismutase (SOD) contents, we discovered that oxidative stress and inflammatory infiltration in the lungs were significantly reduced by BMSCs and BMSCs-Exo. After treatment with BMSCs and BMSCs-Exo, apoptosis-related proteins, such as cleaved caspase-3 and Bax, were significantly decreased, and the ratio of Bcl-2/Bax was significantly increased; the level of pyroptosis-associated proteins, including NLRP3, GSDMD-N, cleaved caspase-1, IL-1β, and IL-18, were decreased; autophagy-related proteins, beclin-1 and LC3, were downregulated while P62 was upregulated; the number of autophagosomes was decreased. In summary, BMSCs and BMSCs-Exo attenuate BLI caused by gas explosion, which may be associated with apoptosis, aberrant autophagy, and pyroptosis.
BODY TEMPERATURE VARIATION AFTER PACKED CELL TRANSFUSION IN ADULT PATIENTS WITH SEPSIS—WHERE WILL THE PENDULUM STOP?
Authors: Klein Moti , Hassan Lior , Binyamin Yair , Frank Dmitry , Boyko Matthew , Zlotnik Alexander , Raab Tehila , Novack Victor , Frenkel Amit 
Published: April 2023

ABSTRACT

Background: Critically ill patients with sepsis often require packed cell transfusions (PCTs). Packed cell transfusion causes changes in body’s core temperature. Objective: To trace the course and amplitude of body core temperature after PCT in adults with sepsis. Methods: We conducted a population-based retrospective cohort study of patients with sepsis who received one unit of PCT during their hospitalization in a general intensive care unit during 2000–2019. A control group was established by matching each of these patients to a patient who did not receive PCT. We calculated the mean values of urinary bladder temperature for the 24 h before and 24 h after PCT. To evaluate the effect of PCT on body core temperature, multivariable analyses using a mixed linear regression model were performed. Results: The study comprised 1,100 patients who received one unit of PCT and 1,100 matched patients. The mean temperature before PCT was 37.3°C. Immediately from initiation of PCT, body temperature decreased, to a minimum of 37.0°C. During the 24 subsequent hours, the temperature increased gradually and consistently, until a peak temperature of 37.4°C. In a linear regression model, body core temperature increased by a mean 0.06°C in the first 24 h after PCT and decreased by a mean 0.65°C for every 1.0°C increase before PCT. Conclusions: Among critically ill patients with sepsis, PCT itself causes only mild and clinically insignificant temperature changes. Thus, significant changes in core temperature during the 24 h after PCT may indicate an unusual clinical event that requires clinicians’ immediate attention.
DeepUMQA3: a web server for model quality assessment of protein complexes
Authors: Liu Jun , Liu Dong , Zhang Guijun 
Published: April 2023

AbstractModel quality assessment is a crucial part of protein structure prediction and a gateway to proper usage of models in biomedical applications. Many methods have been proposed for assessing the quality of structural models of protein monomers, but few methods for evaluating protein complex models. As protein complex structure prediction becomes a new challenge, model quality assessment methods that can provide accurate evaluation of complex structures are urgently required. Here, we present DeepUMQA3, a web server for evaluating protein complex structures using deep neural network. For an input complex structure, features are extracted from three levels of overall complex, intra-monomer, and inter-monomer, and a improved deep residual neural network is used to predict per-residue lDDT and interface residue accuracy. DeepUMQA3 ranks first in the blind test of interface residue accuracy estimation in CASP15, with Pearson, Spearman and AUC of 0.564, 0.535 and 0.755 under the lDDT measurement, which are 18.5%, 23.6% and 10.9% higher than the second-best method, respectively. DeepUMQA3 can also accurately assess the accuracy of all residues in the entire complex and distinguish high- and low-precision residues/models. The websever of DeepUMQA3 are freely available athttp://zhanglab-bioinf.com/DeepUMQA_server/.
Generating immunogenomic data-guided virtual patients using a QSP model to predict response of advanced NSCLC to PD-L1 inhibition
Authors: Wang Hanwen , Arulraj Theinmozhi , Kimko Holly , Popel Aleksander S. 
Published: April 2023

AbstractGenerating realistic virtual patients from a limited amount of patient data is one of the major challenges for quantitative systems pharmacology modeling in immuno-oncology. Quantitative systems pharmacology (QSP) is a mathematical modeling methodology that integrates mechanistic knowledge of biological systems to investigate dynamics in a whole system during disease progression and drug treatment. In the present analysis, we parameterized our previously published QSP model of the cancer-immunity cycle to non-small cell lung cancer (NSCLC) and generated a virtual patient cohort to predict clinical response to PD-L1 inhibition in NSCLC. The virtual patient generation was guided by immunogenomic data from iAtlas portal and population pharmacokinetic data of durvalumab, a PD-L1 inhibitor. With virtual patients generated following the immunogenomic data distribution, our model predicted a response rate of 18.6% (95% bootstrap confidence interval: 13.3-24.2%) and identified CD8/Treg ratio as a potential predictive biomarker in addition to PD-L1 expression and tumor mutational burden. We demonstrated that omics data served as a reliable resource for virtual patient generation techniques in immuno-oncology using QSP models.
African rice (Oryza glaberrima) genomic introgressions impacting upon panicle architecture in Asian rice (O. sativa) lead to the identification of key QTLs
Authors: Adam Hélène , Gutierrez Andrés , Couderc Marie , Sabot François , Ntakirutimana Fabrice , Serret Julien , Orjuela Julie , Tregear James , Jouannic Stefan , Lorieux Mathias 
Published: April 2023

AbstractBackgroundDeveloping high yielding varieties is a major challenge for breeders tackling the challenges of climate change in agriculture. The panicle (inflorescence) architecture of rice is one of the key components of yield potential and displays high inter- and intra-specific variability. The genus Oryza features two different crop species: Asian rice (Oryza sativaL.) and the African rice (O. glaberrimaSteud). One of the main morphological differences between the two independently domesticated species is the structure (or complexity) of the panicle, withO. sativadisplaying a highly branched panicle, which in turn produces a larger number of grains than that ofO. glaberrima. The genetic interactions that govern the diversity of panicle complexity within and between the two species are still poorly understood.ResultsTo identify genetic factors linked to panicle architecture diversity in the two species, we used a set of 60 Chromosome Segment Substitution Lines (CSSLs) issued from third generation backcross (BC3DH) and carrying genomic segments fromO. glaberrimacv. MG12 in the genetic background ofO. sativaTropical Japonica cv. Caiapó. Phenotypic data were collected for rachis and primary branch length, primary, secondary and tertiary branch number and spikelet number. A total of 15 QTLs were localized on chromosomes 1, 2, 3, 7, 11 and 12 and QTLs associated with enhanced secondary and tertiary branch numbers were detected in two CSSLs. Furthermore, BC4F3:5lines carrying different combinations of substituted segments were produced to decipher the effects of the identified QTL regions on variations in panicle architecture. A detailed analysis of phenotypes versus genotypes was carried out between the two parental genomes within these regions in order to understand howO. glaberrimaintrogression events may lead to alterations in panicle traits.ConclusionOur analysis led to the detection of genomic variations betweenO. sativacv. Caiapó andO. glaberrimacv. MG12 in regions associated with enhanced panicle traits in specific CSSLs. These regions contain a number of key genes that regulate panicle development inO. sativaand their interspecific genomic variations may explain the phenotypic effects observed.
A Ray of Light Against Age Related Neurodegeneration
Authors: Fear Elizabeth J. , Torkelsen Frida H. , Chen Kuan-Ju , Scott Martin , Jeffery Glenn , Baseler Heidi , Kennerley Aneurin J. 
Published: April 2023

AbstractMitochondrial function declines with age and many pathological processes of neurodegenerative diseases stem from this dysfunction when mitochondria fail to produce the necessary energy required. Photobiomodulation (PBM), long-wavelength light therapy, has been shown to rescue mitochondrial function in animal models and improve human health, but clinical uptake is limited due to uncertainty around efficacy and the mechanisms responsible. Through combined theoretical Monte Carlo light modelling and practical31P Magnetisation Transfer Magnetic Resonance Spectroscopy (MT-MRS) we quantify the effects of 670 nm PBM treatment on healthy aging brains.31P MT-MRS revealed a significant increase in the rate of ATP flux after PBM in a sample of older adults. Light modelling shows 1% absorption in grey matter and confirms absorption peaks at 670 and 820 nm. Our study provides evidence of PBM therapeutic efficacy and strengthens confidence in PBM as an acceptable healthcare technology to improve mitochondrial function and human health.
A brain model of altered self-appraisal in social anxiety disorder
Authors: Jamieson Alec J. , Harrison Ben J. , Delahoy Rebekah , Schmaal Lianne , Felmingham Kim L. , Phillips Lisa , Davey Christopher G. 
Published: April 2023

AbstractThe brain’s default mode network has a central role in the processing of information concerning oneself. Dysfunction in this self-referential processing represents a key component of multiple mental health conditions, including social anxiety disorder (SAD). This case-control study aimed to clarify alterations to network dynamics present during self-appraisal in SAD participants. A total of 38 adolescents and young adults with SAD and 72 healthy control participants underwent a self-referential processing fMRI task. The task involved two primary conditions of interest:direct self-appraisal(thinking about oneself) andreflected self-appraisal(thinking about how others might think about oneself). Dynamic causal modelling and parametric empirical Bayes were then used to explore differences in the effective connectivity of the default mode network between groups. We observed connectivity differences between SAD and healthy control participants in the reflected self-appraisal but not the direct self-appraisal condition. Specifically, SAD participants exhibited greater excitatory connectivity from the posterior cingulate cortex (PCC) to medial prefrontal cortex (MPFC) and greater inhibitory connectivity from the inferior parietal lobule (IPL) to MPFC. In contrast, in the absence of task modulation, SAD participants exhibited reduced intrinsic connectivity, with reduced excitatory connectivity from the PCC to MPFC and reduced inhibitory connectivity from the IPL to MPFC. As such, participants with SAD showed changes to afferent connections to the MPFC which occurred during both reflected self-appraisal as well as intrinsically. The presence of connectivity differences in reflected and not direct self-appraisal is consistent with the characteristic fear of negative social evaluation that is experienced by people with SAD.
Two distinct mechanisms lead to either oocyte or spermatocyte decrease inC. elegansafter whole developmental exposure to γ-rays
Authors: Dufourcq Sekatcheff E. , Godon C. , Bailly A. , Quevarec L. , Camilleri V. , Galas S. , Frelon S. 
Published: April 2023

ABSTRACTWildlife is subject to various sources of pollution, including ionizing radiation. Adverse effects can impact organisms’ survival, growth, or reproduction, later affecting population dynamics. In invertebrates, reproduction, which directly impacts population dynamics, has been found to be the most radiosensitive endpoint. Understanding the underlying molecular pathways inducing this reproduction decrease can help to comprehend species-specific differences in radiosensitivity. In line with previous studies, we used a life stage dependent approach to better understand the molecular determinants of reproduction decrease, especially of gamete decrease, in the hermaphrodite roundwormCaenorhabditis elegans. Worms were chronically exposed to 50 mGy·h−1external gamma ionizing radiations throughout different developmental periods (namely embryogenesis, gametogenesis, and full development). Conserved molecular pathways across invertebrates and vertebrates involved in reproduction processes and stress response were analyzed: apoptosis and MAP kinase Ras/ERK (MPK-1). Our results showed that these pathways are life-stage dependant, resulting from an accumulation of damages upon chronic exposure to IR throughout the whole development. The Ras/ERK pathway was found to be activated in our conditions in the pachytene region of the gonad where it induces the apoptotic pathway, but not in the ovulation zone, showing no incidence on oocyte maturation and ovulation. Additionally, no effect on germ cell proliferation was found, meaning that Ras/ERK pathway is probably not involved in this process in our conditions. Finally, a functional analysis of apoptosis revealed that the decrease of ovulation rate is due to DNA-damaged induced apoptosis which does not occur in spermatocytes. Thus, sperm decrease seem to be mediated via another mechanism, probably a decrease in germ cells proliferation speed that needs further investigation to better characterize sex-specific responses to IR exposure.
Reproductive success mediates the effects of climate change and grassland management on plant populations dynamics
Authors: Andrzejak Martin , Knight Tiffany M. , Plos Carolin , Korell Lotte 
Published: April 2023

AbstractClimate change is one of the largest threats to grassland plant species, which can be modified by land management. Although climate change and land management can separately and interactively influence plant demography this has been rarely considered within one experimental set-up. We used a large-scale experiment to quantify the effects of grassland management, climate change and their joint effect on the demography and population growth rate of 11 native plant species. We parameterized integral projection models with four years of demographic data to project the population growth rate. We hypothesized, plants would perform better in ambient than in the future climate treatment that creates hotter and drier summer conditions and that plant performance in grazing vs. mowing would vary across species and depend on their traits. Due to extreme drought events, over half of our study species went quasi extinct, which highlights how extreme climate events can influence long term experimental results. Of the persistent species, only one supported our expectations, and the rest either had higher population growth rates in the future climate treatment or showed no significant difference in population growth between climate treatments. Species with shorter flowering durations performed better in the mowing treatment while those with longer flowering durations performed better in the grazing treatment. The population growth rates of these species were sensitive to changes in vital rates related to reproduction and recruitment. Depending on the species we found effects of land management and climate change on population growth rates but we did not find strong support for interactive effects among both factors. Experiments combined with measuring plant demographic responses provide a way to isolate the effects of different drivers on the long-term persistence of species, and to identify the demographic vital rates that are critical to manage in the future. Our study suggests that it will become increasingly difficult to maintain species with preferences for moister soil conditions, that traits such as flowering duration might predict responses to management, and that vital rates such as reproduction and recruitment are disproportionately important.
Rit2 silencing in dopamine neurons drives a Parkinsonian phenotype
Authors: Kearney Patrick J. , Zhang Yuanxi , Tan Yanglan , Kahuno Elizabeth , Conklin Tucker L. , Fagan Rita R. , Pavchinskiy Rebecca G. , Shafer Scott A. , Yue Zhenyu , Melikian Haley E. 
Published: April 2023

AbstractParkinson’s disease (PD) is the second most prevalent neurodegenerative disease and arises from dopamine (DA) neuron death selectively in the substantia nigra pars compacta (SNc). Rit2 is a reported PD risk allele, and recent single cell transcriptomic studies identified a major RIT2 cluster in PD DA neurons, potentially linking Rit2 expression loss to a PD patient cohort. However, it is still unknown whether Rit2 loss itself is causative for PD or PD-like symptoms. Here we report that conditional Rit2 silencing in mouse DA neurons drove motor dysfunction that occurred earlier in males than females and was rescued at early stages by either inhibiting the DA transporter (DAT) or with L-DOPA treatment. Motor dysfunction was accompanied by decreased DA release, striatal DA content, phenotypic DAergic markers, DA neurons, and DAergic terminals, with increased pSer129-alpha synuclein and pSer935-LRRK2 expression. These results provide the first evidence that Rit2 loss is causal for SNc cell death and a PD-like phenotype, and reveal key sex-specific differences in the response to Rit2 loss.
Rapid cold hardening modifies mechanisms of ion regulation to delay anoxia-induced spreading depolarization in the CNS ofLocusta migratoria
Authors: Srithiphaphirom Phinyaphat , Wang Yuyang , Aristizabal Maria J. , Robertson R. Meldrum 
Published: April 2023

AbstractInsects live in varied habitats and experience different kinds of environmental stresses. These stresses can impair neural performance, leading to spreading depolarization (SD) of nerve cells and neural shutdown underlying coma. The sensitivity of an insect’s nervous system to stress (e.g., anoxia) can be modulated by acute pre-treatment. Rapid cold hardening (RCH) is a form of preconditioning, in which a brief exposure to low temperature can enhance the stress tolerance of insects. SD is associated with a sudden loss of ion, notably K+, homeostasis. We used a pharmacological approach to investigate whether RCH affects anoxia-induced SD in the locust,L. migratoria, via one or more of the following homeostatic mechanisms: (1) Na+/K+-ATPase (NKA), (2) Na+/K+/2Cl-co-transporter (NKCC), and (3) voltage-gated K+(Kv) channels. We also assessed abundance and phosphorylation of NKCC using immunoblotting. We found that inhibition of NKA or Kvchannels delayed the onset of anoxia-induced SD in both control and RCH preparations. However, NKCC inhibition preferentially abrogated the effect of RCH. Additionally, we observed a higher abundance of NKCC in RCH preps but no statistical difference in its phosphorylation level, indicating the involvement of NKCC expression or degradation as part of the RCH mechanism.
Social aging trajectories are sex-specific, sensitive to adolescent stress, and most robustly revealed during social tests with familiar stimuli
Authors: Figueroa Christopher , Edgar Erin L. , Kirkland J. M. , Patel Ishan , King’uyu David N. , Kopec Ashley M. 
Published: April 2023

ABSTRACTSocial networks and support are integral to health and wellness across the lifespan, and social engagement may be particularly important during aging. However, social behavior and social cognition decline naturally during aging across species. Social behaviors are in part supported by the ‘reward’ circuitry, a network of brain regions that develops during adolescence. We published that male and female rats undergo adolescent social development during sex-specific periods, pre-early adolescence in females and early-mid adolescence males. Although males and females have highly dimorphic development, expression, and valuation of social behaviors, there is relatively little data indicating whether social aging is the same or different between the sexes. Thus, we sought to test two hypotheses: (1) natural social aging will be sex-speciifc, and (2) social isolation stress restricted to sex-specific adolescent critical periods for social development would impact social aging in sex-specific ways. To do this, we bred male and female rats in-house, and divided them randomly to receive either social isolation for one week during each sex’s respective critical period, or no manipulation. We followed their social aging trajectory with a battery of five tests at 3, 7, and 11 months of age. We observed clear social aging signatures in all tests administered, but sex differences in natural social aging were most robustly observed when a familiar social stimulus was included in the test. We also observed that adolescent isolation did impact social behavior, in both age-independent and age-dependent ways, that were entirely sex-specific. Please note, this preprint will not be pushed further to publication (by me, AMK), as I am leaving academia. So, it’s going to be written more conversationally.