bluuebunny/crossref_metadata_2025 huggingface dataset:
Polycrisis in the Anthropocene: an invitation to contributions and debates
Authors: Lawrence Michael
Published: January 2024

The popularity of the term polycrisis suggests a growing demand for new thinking about the world's intersecting crises, but loose and haphazard uses of the concept impede knowledge generation. The special issue, ‘Polycrisis in the Anthropocene’, aims to close the gap. This introductory comment first elaborates upon three key contributions of the lead article ‘Global Polycrisis: The Causal mechanisms of Crisis Entanglement’: a conceptualization of crisis as systemic disequilibrium; the distinction between the slow-moving stresses and the fast-moving trigger events that interact to generate a crisis; and a grammar with which to map the causality of crisis interactions. The commentary then explores three key debates around the polycrisis concept: Are we in a polycrisis, at risk of a polycrisis, or neither? Is the present polycrisis truly unique and unprecedented? And where are power and agency in a systemic approach to polycrisis? These ongoing debates suggest promising directions for polycrisis research that could feature in this special issue and advance the field of polycrisis analysis.

Non-technical summary

This commentary introduces the special issue ‘Polycrisis in the Anthropocene’ by elaborating upon three major contributions of its lead article, ‘Global Polycrisis: The Causal Mechanisms of Crisis Entanglement’, and exploring three key debates surrounding the polycrisis concept. It invites others to contribute to the special issue in order to advance polycrisis analysis, build a community of knowledge and practice, and generate new insights and strategies with which to address the world's worsening crises.

Technical summary

The popularity of the term polycrisis suggests a growing demand for new thinking about the world's intersecting crises, but loose and haphazard uses of the concept impede knowledge generation. The special issue, ‘Polycrisis in the Anthropocene’, aims to close the gap. This introductory comment first elaborates upon three key contributions of the lead article ‘Global Polycrisis: The Causal mechanisms of Crisis Entanglement’: a conceptualization of crisis as systemic disequilibrium; the distinction between the slow-moving stresses and the fast-moving trigger events that interact to generate a crisis; and a grammar with which to map the causality of crisis interactions. The commentary then explores three key debates around the polycrisis concept: Are we in a polycrisis, at risk of a polycrisis, or neither? Is the present polycrisis truly unique and unprecedented? And where are power and agency in a systemic approach to polycrisis? These ongoing debates suggest promising directions for polycrisis research that could feature in this special issue and advance the field of polycrisis analysis.

Social media summary

Inviting contributions and debates to Global Sustainability journal's special issue ‘Polycrisis in the Anthropocene’.
Interrupting the Self-Harm Continuum
Authors: Curtis Cate
Published: January 2024

Abstract: Background: Nonsuicidal self-injury (NSSI) has increased rapidly and is frequently linked to suicidal behavior; it has been argued that these behaviors are key points on a self-harm continuum. Aims: The current research explored self-harm and help-seeking behaviors, with the aim of identifying possibilities for prevention of further harm, including suicide. Methods: An online survey of 304 New Zealanders was undertaken, with the majority being aged under 25 and female. Results: Nearly half of the sample had engaged in self-harm and most of those had experienced suicidal thoughts; close to a quarter had made a suicide attempt. NSSI was used as a way of dealing with emotional distress. Very few sought help of any kind, especially professional support; of those who did seek professional support, most found it helpful but did not necessarily stop self-harming as a result. Limitations : Men are under-represented in the sample – though this is in accordance with the population of people who engage in NSSI. Conclusion: Many participants engaged in NSSI and also had suicidal thoughts using NSSI as an emotion regulation strategy; some participants appeared to use NSSI rather than attempting suicide. Given a link between NSSI and suicidal thoughts and behaviors, reluctance to seek help and on-going injurious behavior among some who do seek help, there is a need for increased identification and proactive support specifically focusing on improving emotion regulation and targeted at injurious behavior.
Arc Magmatism Controlled by Switches in Tectonic Style: Insights From the NE Asian Margin in the Cretaceous
Authors: Liu K. , Xiao W. , Wilde S. A. , Liu J. , Zhang J. , Wan B. , Ao S. , Xu M.
Published: January 2024

A relation between tectonics and arc magmatism has been proposed in the west Pacific‐type accretionary orogens, but the specific mechanism remains unclear. This study examines the Cretaceous records in NE Asia in order to unravel this link. Two tectono‐magmatic episodes, namely the Early and Late Cretaceous, are recognized. The first episode was under (trans‐)extension, consisting of both mafic and felsic, depleted and enriched, and deep‐ and shallow‐derived arc magmas. The second episode experienced several compressive events with highly evolved and shallow‐derived (mid‐crustal level) arc magmas. We propose that (trans‐)extension thinned the arc crust, facilitating deep mafic magmas to ascend and cool rapidly, maintaining their geochemical diversity. Compression led to magmatic emplacement around the middle crust; and the warm crust allowed highly‐evolved granitoids to form. Therefore, tectonic setting controls arc magmatism in NE Asia, and is likely representative of other west Pacific‐type orogens.
Investigation of Large Scale Traveling Atmospheric/Ionospheric Disturbances Using the Coupled SAMI3 and GITM Models
Authors: Bukowski A. , Ridley A. , Huba J. D. , Valladares C. , Anderson P. C.
Published: January 2024

We present simulation results of the vertical structure of Large Scale Traveling Ionospheric Disturbances (LSTIDs) during synthetic geomagnetic storms. These data are produced using a one‐way coupled SAMI3/Global Ionosphere Thermosphere Model (GITM) model, where GITM provides thermospheric information to SAMI3 (SAMI3 is Another Model of the Ionosphere), producing LSTIDs. We show simulation results which demonstrate that the traveling atmospheric disturbances (TADs) generated in GITM extend to the topside ionosphere in SAMI3 as LSTIDs. The speed and wavelength (600–700 m/s and 10º–20° latitude) are consistent with LSTID observations in storms of similar magnitudes. We demonstrate the LSTIDs reach altitudes beyond the topside ionosphere with amplitudes of <5% over background which will facilitate the use of plasma measurements from the topside ionosphere to supplement measurements from Global Navigation Satellite System in the study of Traveling Ionospheric Disturbances (TIDs). Additionally, we demonstrate the dependence of the characteristics of these TADs and TIDs on longitude.
Modeling the Simultaneous Dropout of Energetic Electrons and Protons by Magnetopause Shadowing
Authors: Lyu Xingzhi , Tu Weichao , Huang Jinbei , Ma Qianli , Li Zhi‐Gu
Published: January 2024

Magnetopause shadowing (MPS) effect could drive a concurrent dropout of radiation belt electrons and ring current protons. However, its relative role in the dropout of both plasma populations has not been well quantified. In this work, we study the simultaneous dropout of MeV electrons and 100s keV protons during an intense geomagnetic storm in May 2017. A radial diffusion model with an event‐specific last closed drift shell is used to simulate the MPS loss of both populations. The model well captures the fast shadowing loss of both populations at L* > 4.6, while the loss at L* < 4.6, possibly due to the electromagnetic ion cyclotron wave scattering, is not captured. The observed butterfly pitch angle distributions of electron fluxes in the initial loss phase are well reproduced by the model. The initial proton losses at low pitch angles are underestimated, potentially also contributed by other mechanisms such as field line curvature scattering.
The Sources and Atmospheric Processes of Strong Light‐Absorbing Components in Water Soluble Brown Carbon: Insights From a Multi‐Proxy Study of PM2.5 in 10 Chinese Cities
Authors: Mo Yangzhi , Li Jun , Zhong Guangcai , Zhu Sanyuan , Cheng Zhineng , Tang Jiao , Jiang Hongxing , Jiang Bin , Liao Yuhong , Song Jianzhong , Tian Chongguo , Chen Yingjun , Zhao Shizhen , Zhang Gan
Published: January 2024

Humic‐like substances (HULIS) are significant contributor to the light absorption of water‐soluble brown carbon (WSBrC), which contains certain strong light‐absorbing chemical components that are not well understood, impeding the assessment of WSBrC's climate impact. China as the hotspot regions with high loading of WSBrC characterized by high light‐absorbing capacity, here, we investigated the sources and atmospheric processes (δ13C–Δ14C), molecular composition (Fourier transform ion cyclotron resonance mass spectrometry), and light absorption properties (UV spectrophotometry) of HULIS in PM2.5 from 10 Chinese cities. HULIS‐C was major contributor to the light absorption coefficient (70.5 ± 6.6%) of WSBrC at 365 nm, which was more enriched with fossil sources (48.0 ± 9.0% vs. 30.3 ± 13.9%) but depleted in 13C (δ13C: −25.6 ± 0.9‰ vs. −22.4 ± 1.0‰) relative to non‐HULIS‐C. This suggests that the fossil components in HULIS are more recalcitrant to oxidative aging and exhibit higher light‐absorbing capacity, while the non‐fossil organic carbon is more likely to be oxidatively bleached into small, colorless, and highly polar molecules (i.e., non‐HULIS). Aromatic components are the major strong light‐absorbing fossil components in HULIS, dominantly originating from coal combustion (>77%). Non‐negative matrix factorization model showed that aromatic molecules from coal combustion have higher molecular weight and lower oxidation levels than biomass burning, potentially making them to be photo‐recalcitrant compounds. Our finding that coal combustion‐derived BrC maybe more persistent in the atmosphere and has greater long‐term impact on climate than BrC derived from biomass burning is an important consideration in climate models and mitigation policies.
Responses of Soil Nitrogen Pools to Litter Input Under Nitrogen Addition: A Meta‐Analysis
Authors: Yang Jing , Wu Fuzhong , Ni Xiangyin , Yue Kai , Wei Xinyu , Zhang Xiaoyue , Zhang Xinying
Published: January 2024

Litter input essentially regulates soil nitrogen (N) and phosphorus (P) pools in natural ecosystems, but uncertainties remain about how this regulation is affected by increasing N deposition. Here, we synthesized 1,263 observations from 34 field studies with paired treatments to elucidate how N addition affects the responses of soil N and P pools to litter input. Our results showed that the combination of litter input and N addition significantly enhanced soil N pools, with increases in total N (13.7%), microbial biomass N (38.7%), ammonium N (37.7%), and nitrate N (79.0%), but slightly affected soil P pools. Strikingly, soil N pools in forests displayed more positive responses to combined treatment than those in grasslands. Furthermore, experimental design and mean annual precipitation were critical controllers in regulating the responses of soil N pools to combined litter input and N addition. The present results underscore the importance of combined litter input and N addition in promoting soil N pools, thereby providing essential insights into how N addition can change nutrient cycling within natural ecosystems.
Improved National‐Scale Above‐Normal Flow Prediction for Gauged and Ungauged Basins Using a Spatio‐Temporal Hierarchical Model
Authors: Fang Shiqi , Johnson J. Michael , Yeghiazarian Lilit , Sankarasubramanian A.
Published: January 2024

Floods cause hundreds of fatalities and billions of dollars of economic loss each year in the United States. To mitigate these damages, accurate flood prediction is needed for issuing early warnings to the public. This situation is exacerbated in larger model domains flood prediction, particularly in ungauged basins. To improve flood prediction for both gauged and ungauged basins, we propose a spatio‐temporal hierarchical model (STHM) using above‐normal flow estimation with a 10‐day window of modeled National Water Model (NWM) streamflow and a variety of catchment characteristics as input. The STHM is calibrated (1993–2008) and validated (2009–2018) in controlled, natural, and coastal basins over three broad groups, and shows significant improvement for the first two basin types. A seasonal analysis shows the most influential predictors beyond NWM streamflow reanalysis are the previous 3‐day average streamflow and the aridity index for controlled and natural basins, respectively. To evaluate the STHM in improving above‐normal streamflow in ungauged basins, 20‐fold cross‐validation is performed by leaving 5% of sites. Results show that the STHM increases predictive skill in over 50% of sites' by 0.1 Nash‐Sutcliffe efficiency (NSE) and improves over 65% of sites' streamflow prediction to an NSE > 0.67, which demonstrates that the STHM is one of the first of its kind and could be employed for flood prediction in both gauged and ungauged basins.
The amygdala NT3-TrkC pathway underlies inter-individual differences in fear extinction and related synaptic plasticity
Authors: Masella Gianluca , Silva Francisca , Corti Elisa , Azkona Garikoitz , Madeira Maria Francisca , Tomé Ângelo R. , Ferreira Samira G. , Cunha Rodrigo A. , Duarte Carlos B. , Santos Mónica
Published: January 2024

Fear-related pathologies are among the most prevalent psychiatric conditions, having inappropriate learned fear and resistance to extinction as cardinal features. Exposure therapy represents a promising therapeutic approach, the efficiency of which depends on inter-individual variation in fear extinction learning, which neurobiological basis is unknown. We characterized a model of extinction learning, whereby fear-conditioned mice were categorized as extinction (EXT)-success or EXT-failure, according to their inherent ability to extinguish fear. In the lateral amygdala, GluN2A-containing NMDAR are required for LTP and stabilization of fear memories, while GluN2B-containing NMDAR are required for LTD and fear extinction. EXT-success mice showed attenuated LTP, strong LTD and higher levels of synaptic GluN2B, while EXT-failure mice showed strong LTP, no LTD and higher levels of synaptic GluN2A. Neurotrophin 3 (NT3) infusion in the lateral amygdala was sufficient to rescue extinction deficits in EXT-failure mice. Mechanistically, activation of tropomyosin receptor kinase C (TrkC) with NT3 in EXT-failure slices attenuated lateral amygdala LTP, in a GluN2B-dependent manner. Conversely, blocking endogenous NT3-TrkC signaling with TrkC-Fc chimera in EXT-success slices strengthened lateral amygdala LTP. Our data support a key role for the NT3-TrkC system in inter-individual differences in fear extinction in rodents, through modulation of amygdalar NMDAR composition and synaptic plasticity.
Phosphorylation of INF2 by AMPK promotes mitochondrial fission and oncogenic function in endometrial cancer
Authors: Ding Yan , Lv Zeheng , Cao Wenxin , Shi Wenming , He Qizhi , Gao Kun
Published: January 2024

Mitochondria are highly dynamic organelles capable of altering their sizes and shapes to maintain metabolic balance through coordinated fission and fusion processes. In various cancer types, mitochondrial hyperfragmentation has been frequently observed, contributing to the progression of cancer toward metastasis. Inverted formin 2 (INF2), which resides in the endoplasmic reticulum (ER), has been found to accelerate actin polymerization and drive mitochondrial fission. In this study, we demonstrate that INF2 expression is significantly upregulated in endometrial cancer (EC) and is associated with a poor prognosis in EC patients. INF2 promotes anchorage-dependent and independent EC cell growth in part by facilitating mitochondrial fission. Furthermore, in conditions of energy stress, AMP-activated protein kinase (AMPK) phosphorylates INF2 at Ser1077, leading to increased localization of INF2 to the ER and enhanced recruitment of the dynamin-related protein 1 (DRP1) to mitochondria. This AMPK-mediated phosphorylation of INF2 at Ser1077 facilitates mitochondrial division and promotes EC cell growth. Pathological examination using immunohistochemical analyses revealed a positive correlation between AMPK activity and phosphorylated INF2 (Ser1077) in EC specimens. Collectively, our findings uncover novel molecular mechanisms involving the AMPK-INF2 axis, which regulates mitochondrial dynamics and malignant cell growth in EC.
c-Fos regulated by TMPO/ERK axis promotes 5-FU resistance via inducing NANOG transcription in colon cancer
Authors: Gui Yanping , Qian Xiaoping , Ding Youxiang , Chen Qianqian , Fangyu Ye  , Ye Yuting , Hou Yingjian , Yu Jun , Zhao Li
Published: January 2024

Acquired drug resistance is one of the most common limitations for the clinical response of colon cancer to 5-Fluorouracil (5-FU)-based chemotherapy. The relevant molecular mechanisms might be diversity, but still not be elucidated clearly. In this study, we aimed to investigate the potential mechanisms of c-Fos, a subfamily of activator protein-1, in 5-FU chemoresistance. We determined that phosphorylated c-Fos promoted colon cancer cells resistance to 5-FU by facilitating the cancer stemness. Mechanically, 5-FU treatment induced autolysosome-dependent degradation of TMPO, which subsequently triggered ERK-mediated phosphorylation of c-Fos. Additionally, c-Fos was found to bind to the promoter of NANOG and phosphorylation of c-Fos at Ser 374 was required for its regulation of NANOG expression. NANOG ablation impaired c-Fos/p-c-Fos induced 5-FU resistance and stemness. Taken together, these findings revealed that TMPO-mediated phosphorylation of c-Fos conferred 5-FU resistance by regulating NANOG expression and promoting cell stemness in colon cancer cells. c-Fos could be as a therapeutic target for colon cancer.
BACH2-mediated CD28 and CD40LG axes contribute to pathogenesis and progression of T-cell lymphoblastic leukemia
Authors: Feng Min , Zhang Bailing , Li Guilan , Yang Yan , Liu Jiangyuan , Zhang Ziting , Zhou Bing , Zhang Han
Published: January 2024

T-cell acute lymphoblastic leukemia (T-ALL) is an aggressive subtype of ALL characterized by its high heterogeneity and unfavorable clinical features. Despite improved insights in genetic and epigenetic landscapes of T-ALL, the molecular mechanisms that drive malignant T-cell development remain unclear. BTB and CNC homology 2 (BACH2) is a lymphoid-specific transcription repressor recognized as a tumor suppressor in B-cell malignancies, but little is known about its function and regulatory network in T-ALL. Here we found extremely low levels of BACH2 in T-ALL clinical samples and cell lines compared to normal T cells. Overexpression of BACH2 in T-ALL cells not only induced cell growth retardation but also inhibited cancer progression and infiltration in xenografts. Further RNA sequencing (RNA-seq) analysis revealed significant alterations in regulation of defense and immune responses in T-ALL cells upon BACH2 overexpression. Strikingly, CD28 and CD40LG, two essential stimulatory molecules on T cells, were for the first time identified as novel downstream targets repressed by BACH2 in T-ALL cells. Interestingly, both CD28 and CD40LG were indispensable for T-ALL survival, since largely or completely silencing CD28 and CD40LG led to rapid cell death, whereas partial knockdown of them resulted in cell-cycle arrest and enhanced apoptosis. More importantly, BACH2-mediated CD28 and CD40LG signals contributed to cell migration and dissemination of T-ALL cells to the bone marrow, thus adding a new layer to the BACH2-mediated tumor immunoregulation in T-cell malignancies.
Dietary long-chain fatty acids promote colitis by regulating palmitoylation of STAT3 through CD36-mediated endocytosis
Authors: Wei Yuping , Li Jinting , Li Jiao , Liu Chuan , Guo Xingzhou , Liu Zhengru , Zhang Luyun , Bao Shenglan , Wu Xiaohan , Su Wenhao , Wang Xiaoli , Zhang Jixiang , Dong Weiguo
Published: January 2024

The Western diet, characterized by its high content of long-chain fatty acids (LCFAs), is widely recognized as a significant triggering factor for inflammatory bowel disease (IBD). While the link between a high-fat diet and colitis has been observed, the specific effects and mechanisms remain incompletely understood. Our study provides evidence that the diet rich in LCFAs can disrupt the integrity of the intestinal barrier and exacerbate experimental colitis in mice. Mechanistically, LCFAs upregulate the signal transducer and activator of transcription-3 (STAT3) pathway in the inflammatory model, and STAT3 knockout effectively counters the pro-inflammatory effects of LCFAs on colitis. Specifically, palmitic acid (PA), a representative LCFA, enters intestinal epithelial cells via the cluster of differentiation 36 (CD36) pathway and participates in the palmitoylation cycle of STAT3. Inhibiting this cycle using pharmacological inhibitors like 2-Bromopalmitate (2-BP) and ML349, as well as DHHC7 knockdown, has the ability to alleviate inflammation induced by PA. These findings highlight the significant role of dietary LCFAs, especially PA, in the development and progression of IBD. Diet adjustments and targeted modulation offer potential therapeutic strategies for managing this condition.
Synthesis of degradable polymers via 1,5-shift radical isomerization polymerization of vinyl ether derivatives with a cleavable bond
Authors: Uchiyama Mineto , Imai Masato , Kamigaito Masami
Published: January 2024

We report a novel method for synthesizing degradable polymers based on 1,5-shift radical isomerization polymerizations of vinyl ethers with transferable atoms or groups and in-between acid-cleavable ether linkages in the side chains. In particular, vinyl ethers with side chains composed of thiocyano and p-methoxybenzyl ether groups underwent radical isomerization polymerizations via 1,5-shifts, in which a vinyl ether radical abstracted the cyano group intramolecularly to generate a thiyl radical and result in a polymer with a p-methoxybenzyl ether linkage in the main chain. The obtained polymer was easily degraded into low molecular-weight products with HCl solution. Furthermore, the copolymerization with vinyl acetate proceeded via 1,5-shift isomerization to introduce cleavable linkages in the main chains of the copolymers, which were similarly degraded.
Body composition assessment in 6-month-old infants: A comparison of two- and three-compartment models using data from the Baby-bod study
Authors: Herath Manoja P. , Beckett Jeffrey M. , Jayasinghe Sisitha , Byrne Nuala M. , Ahuja Kiran D. K. , Hills Andrew P.
Published: January 2024

Background/Objectives

An appreciation of infant body composition is helpful to understand the ‘quality’ of growth in early life. Air displacement plethysmography (ADP) using PEA POD and the deuterium dilution (DD) technique are commonly used body composition approaches in infants. We evaluated the comparability of body composition assessed using both techniques with two-compartment (2C) and three-compartment (3C) models in 6-month-old infants.

Subjects/Methods

Infant fat mass (FM) and percent fat mass (%FM) obtained from a 2C model using PEA POD (2C-PP) and a 2C model using the deuterium dilution technique (2C-DD) were compared to those derived from a 3C model, and to each other, using Bland-Altman analysis and Deming regression.

Results

Measurements were available from 68 infants (93% Caucasian, 53% male). The mean biases were not significant between any of the method comparisons. However, significant constant and proportional biases were identified in 2C-DD vs 3C and 2C-PP vs 2C-DD, but not in the 2C-PP vs 3C comparison. Furthermore, we observed significant associations between the mean differences and infants’ percent total body water (%TBW).

Conclusions

While no significant between-method mean differences were found in body composition estimates, some comparisons revealed significant constant and proportional biases and notable associations between the mean differences and %TBW were observed. Our results emphasise the importance of method choice, ensuring methodological uniformity in long-term studies, and carefully considering and regulating multiple pre-analytical variables, such as the hydration status of the participants.
Embryos assist morphogenesis of others through calcium and ATP signaling mechanisms in collective teratogen resistance
Authors: Tung Angela , Sperry Megan M. , Clawson Wesley , Pavuluri Ananya , Bulatao Sydney , Yue Michelle , Flores Ramses Martinez , Pai Vaibhav P. , McMillen Patrick , Kuchling Franz , Levin Michael
Published: January 2024

Information for organismal patterning can come from a variety of sources. We investigate the possibility that instructive influences for normal embryonic development are provided not only at the level of cells within the embryo, but also via interactions between embryos. To explore this, we challenge groups of embryos with disruptors of normal development while varying group size. Here, we show that Xenopus laevis embryos are much more sensitive to a diverse set of chemical and molecular-biological perturbations when allowed to develop alone or in small groups, than in large groups. Keeping per-embryo exposure constant, we find that increasing the number of exposed embryos in a cohort increases the rate of survival while incidence of defects decreases. This inter-embryo assistance effect is mediated by short-range diffusible signals and involves the P2 ATP receptor. Our data and computational model emphasize that morphogenesis is a collective phenomenon not only at the level of cells, but also of whole bodies, and that cohort size is a crucial variable in studies of ecotoxicology, teratogenesis, and developmental plasticity.
Accelerating process development for 3D printing of new metal alloys
Authors: Guirguis David , Tucker Conrad , Beuth Jack
Published: January 2024

Addressing the uncertainty and variability in the quality of 3D printed metals can further the wide spread use of this technology. Process mapping for new alloys is crucial for determining optimal process parameters that consistently produce acceptable printing quality. Process mapping is typically performed by conventional methods and is used for the design of experiments and ex situ characterization of printed parts. On the other hand, in situ approaches are limited because their observable features are limited and they require complex high-cost setups to obtain temperature measurements to boost accuracy. Our method relaxes these limitations by incorporating the temporal features of molten metal dynamics during laser-metal interactions using video vision transformers and high-speed imaging. Our approach can be used in existing commercial machines and can provide in situ process maps for efficient defect and variability quantification. The generalizability of the approach is demonstrated by performing cross-dataset evaluations on alloys with different compositions and intrinsic thermofluid properties.
Thermal responses of dissolved organic matter under global change
Authors: Hu Ang , Jang Kyoung-Soon , Tanentzap Andrew J. , Zhao Wenqian , Lennon Jay T. , Liu Jinfu , Li Mingjia , Stegen James , Choi Mira , Lu Yahai , Feng Xiaojuan , Wang Jianjun
Published: January 2024

The diversity of intrinsic traits of different organic matter molecules makes it challenging to predict how they, and therefore the global carbon cycle, will respond to climate change. Here we develop an indicator of compositional-level environmental response for dissolved organic matter to quantify the aggregated response of individual molecules that positively and negatively associate with warming. We apply the indicator to assess the thermal response of sediment dissolved organic matter in 480 aquatic microcosms along nutrient gradients on three Eurasian mountainsides. Organic molecules consistently respond to temperature change within and across contrasting climate zones. At a compositional level, dissolved organic matter in warmer sites has a stronger thermal response and shows functional reorganization towards molecules with lower thermodynamic favorability for microbial decomposition. The thermal response is more sensitive to warming at higher nutrients, with increased sensitivity of up to 22% for each additional 1 mg L-1 of nitrogen loading. The utility of the thermal response indicator is further confirmed by laboratory experiments and reveals its positive links to greenhouse gas emissions.
Efficient biological carbon export to the mesopelagic ocean induced by submesoscale fronts
Authors: Guo Mingxian , Xing Xiaogang , Xiu Peng , Dall’Olmo Giorgio , Chen Weifang , Chai Fei
Published: January 2024

Oceanic submesoscale processes are ubiquitous in the North Pacific Subtropical Gyre (NPSG), where the biological carbon pump is generally ineffective. Due to difficulties in collecting continuous observations, however, it remains uncertain whether episodic submesoscale processes can drive significant changes in particulate organic carbon (POC) export into the mesopelagic ocean. Here we present observations from high-frequency Biogeochemical-Argo floats in the NPSG, which captured the enhanced POC export fluxes during the intensifying stages of a submesoscale front and a cyclonic eddy compared to their other life stages. A higher percentage of POC export flux was found to be transferred to the base of mesopelagic layer at the front compared to that at the intensifying eddy and the mean of previous studies (37% vs. ~10%), suggesting that the POC export efficiency was significantly strengthened by submesoscale dynamics. Such findings highlight the importance of submesoscale fronts for carbon export and sequestration in subtropical gyres.
Cochaperones convey the energy of ATP hydrolysis for directional action of Hsp90
Authors: Vollmar Leonie , Schimpf Julia , Hermann Bianca , Hugel Thorsten
Published: January 2024

The molecular chaperone and heat shock protein Hsp90 is part of many protein complexes in eukaryotic cells. Together with its cochaperones, Hsp90 is responsible for the maturation of hundreds of clients. Although having been investigated for decades, it still is largely unknown which components are necessary for a functional complex and how the energy of ATP hydrolysis is used to enable cyclic operation. Here we use single-molecule FRET to show how cochaperones introduce directionality into Hsp90’s conformational changes during its interaction with the client kinase Ste11. Three cochaperones are needed to couple ATP turnover to these conformational changes. All three are therefore essential for a functional cyclic operation, which requires coupling to an energy source. Finally, our findings show how the formation of sub-complexes in equilibrium followed by a directed selection of the functional complex can be the most energy efficient pathway for kinase maturation.
Differential perovskite hemispherical photodetector for intelligent imaging and location tracking
Authors: Feng Xiaopeng , Li Chenglong , Song Jinmei , He Yuhong , Qu Wei , Li Weijun , Guo Keke , Liu Lulu , Yang Bai , Wei Haotong
Published: January 2024

Advanced photodetectors with intelligent functions are expected to take an important role in future technology. However, completing complex detection tasks within a limited number of pixels is still challenging. Here, we report a differential perovskite hemispherical photodetector serving as a smart locator for intelligent imaging and location tracking. The high external quantum efficiency (~1000%) and low noise (10−13 A Hz−0.5) of perovskite hemispherical photodetector enable stable and large variations in signal response. Analysing the differential light response of only 8 pixels with the computer algorithm can realize the capability of colorful imaging and a computational spectral resolution of 4.7 nm in a low-cost and lensless device geometry. Through machine learning to mimic the differential current signal under different applied biases, one more dimensional detection information can be recorded, for dynamically tracking the running trajectory of an object in a three-dimensional space or two-dimensional plane with a color classification function.
Influence of radiation on borosilicate glass leaching behaviors
Authors: Qin Kemian , Zhang Buyun , Jin Zhaoxuan , Wang Yuchuan , Pan Yuhe , Sun Yuqian , Bai Kai , Zhu Shikun , Wang Tieshan , Peng Haibo
Published: January 2024

Vitrification is widely recognized as a promising method for the geological disposal of high-level radioactive waste (HLW) worldwide. To ensure the safe disposal of radioactive waste, the borosilicate glass that vitrifies HLW must exhibit exceptional water resistance to prevent the possibility of groundwater corrosion and subsequent radioactive leaks. Radiation might change the water resistance of borosilicate glass. A series of zirconium-containing borosilicate glass with an irradiation dose of 0.3 dpa were utilized to examine the radiation effect on glass-water interaction. Scanning electron microscopy (SEM), Time-of-Flight Secondary ion mass spectrometry (ToF-SIMS), X-ray photoelectron spectroscopy (XPS), Inductively Coupled Plasma Optical Emission spectroscopy (ICP-OES) and Fourier transform infrared spectroscopy (FTIR) were used to investigate the leaching behavior of the non- and irradiated samples. The depth profile of the leached samples implied the interdiffusion dominated glass-water interaction. The results from FTIR and ICP-OES indicated that, after irradiation, the initial leaching rate increased by threefold. Additionally, the impact of different zirconium contents on the water resistance of borosilicate glass was also presented.
Affinity-optimizing enhancer variants disrupt development
Authors: Lim Fabian , Solvason Joe J. , Ryan Genevieve E. , Le Sophia H. , Jindal Granton A. , Steffen Paige , Jandu Simran K. , Farley Emma K.
Published: January 2024

Enhancers control the location and timing of gene expression and contain the majority of variants associated with disease1–3. The ZRS is arguably the most well-studied vertebrate enhancer and mediates the expression ofShhin the developing limb4. Thirty-one human single-nucleotide variants (SNVs) within the ZRS are associated with polydactyly4–6. However, how this enhancer encodes tissue-specific activity, and the mechanisms by which SNVs alter the number of digits, are poorly understood. Here we show that the ETS sites within the ZRS are low affinity, and identify a functional ETS site, ETS-A, with extremely low affinity. Two human SNVs and a synthetic variant optimize the binding affinity of ETS-A subtly from 15% to around 25% relative to the strongest ETS binding sequence, and cause polydactyly with the same penetrance and severity. A greater increase in affinity results in phenotypes that are more penetrant and more severe. Affinity-optimizing SNVs in other ETS sites in the ZRS, as well as in ETS, interferon regulatory factor (IRF), HOX and activator protein 1 (AP-1) sites within a wide variety of enhancers, cause gain-of-function gene expression. The prevalence of binding sites with suboptimal affinity in enhancers creates a vulnerability in genomes whereby SNVs that optimize affinity, even slightly, can be pathogenic. Searching for affinity-optimizing SNVs in genomes could provide a mechanistic approach to identify causal variants that underlie enhanceropathies.
Impact of tumor microenvironment on efficacy of anti-CD19 CAR T cell therapy or chemotherapy and transplant in large B cell lymphoma
Authors: Locke Frederick L. , Filosto Simone , Chou Justin , Vardhanabhuti Saran , Perbost Regis , Dreger Peter , Hill Brian T. , Lee Catherine , Zinzani Pier L. , Kröger Nicolaus , López-Guillermo Armando , Greinix Hildegard , Zhang Wangshu , Tiwari Gayatri , Budka Justin , Marincola Francesco M. , To Christina , Mattie Mike , Schupp Marco , Cheng Paul , Bot Adrian , Shen Rhine , Bedognetti Davide , Miao Harry , Galon Jérôme
Published: January 2024

The phase 3 ZUMA-7 trial in second-line large B cell lymphoma demonstrated superiority of anti-CD19 CAR T cell therapy (axicabtagene ciloleucel (axi-cel)) over standard of care (SOC; salvage chemotherapy followed by hematopoietic transplantation) (NCT03391466). Here, we present a prespecified exploratory analysis examining the association between pretreatment tumor characteristics and the efficacy of axi-cel versus SOC. B cell gene expression signature (GES) and CD19 expression associated significantly with improved event-free survival for axi-cel (P = 0.0002 for B cell GES; P = 0.0165 for CD19 expression) but not SOC (P = 0.9374 for B cell GES; P = 0.5526 for CD19 expression). Axi-cel showed superior event-free survival over SOC irrespective of B cell GES and CD19 expression (P = 8.56 × 10–9 for B cell GES high; P = 0.0019 for B cell GES low; P = 3.85 × 10–9 for CD19 gene high; P = 0.0017 for CD19 gene low). Low CD19 expression in malignant cells correlated with a tumor GES consisting of immune-suppressive stromal and myeloid genes, highlighting the inter-relation between malignant cell features and immune contexture substantially impacting axi-cel outcomes. Tumor burden, lactate dehydrogenase and cell-of-origin impacted SOC more than axi-cel outcomes. T cell activation and B cell GES, which are associated with improved axi-cel outcome, decreased with increasing lines of therapy. These data highlight differences in resistance mechanisms to axi-cel and SOC and support earlier intervention with axi-cel.
Mock community taxonomic classification performance of publicly available shotgun metagenomics pipelines
Authors: Valencia E. Michael , Maki Katherine A. , Dootz Jennifer N. , Barb Jennifer J.
Published: January 2024

Shotgun metagenomic sequencing comprehensively samples the DNA of a microbial sample. Choosing the best bioinformatics processing package can be daunting due to the wide variety of tools available. Here, we assessed publicly available shotgun metagenomics processing packages/pipelines including bioBakery, Just a Microbiology System (JAMS), Whole metaGenome Sequence Assembly V2 (WGSA2), and Woltka using 19 publicly available mock community samples and a set of five constructed pathogenic gut microbiome samples. Also included is a workflow for labelling bacterial scientific names with NCBI taxonomy identifiers for better resolution in assessing results. The Aitchison distance, a sensitivity metric, and total False Positive Relative Abundance were used for accuracy assessments for all pipelines and mock samples. Overall, bioBakery4 performed the best with most of the accuracy metrics, while JAMS and WGSA2, had the highest sensitivities. Furthermore, bioBakery is commonly used and only requires a basic knowledge of command line usage. This work provides an unbiased assessment of shotgun metagenomics packages and presents results assessing the performance of the packages using mock community sequence data.
Comparing specific capacitance in rice husk-derived activated carbon through phosphoric acid and potassium hydroxide activation order variations
Authors: Barakat Nasser A. M. , Mahmoud Mohamed S. , Moustafa Hager M.
Published: January 2024

This manuscript investigates the influence of the chemical activation step order and process parameters on the specific capacitance of activated carbon derived from rice husk. The chemical activation was performed either before or after the carbonization step, using phosphoric acid (H3PO4) and potassium hydroxide (KOH) as activating agents. For activation before carbonization, the carbonization process was conducted at various temperatures (600, 750, 850, and 1050 °C). On the other hand, for activation after carbonization, the effect of the volume of the chemical agent solution was studied, with 0, 6, 18, 21, 24, and 30 mL/g of phosphoric acid and 0, 18, 30, 45, 60, and 90 mL/g of 3.0 M KOH solution. The results revealed that in the case of chemical activation before carbonization, the optimum temperature for maximizing specific capacitance was determined to be 900 °C. Conversely, in the case of chemical activation after carbonization, the optimal volumes of the chemical agent solutions were found to be 30 mL/g for phosphoric acid (H3PO4) and 21 mL/g for potassium hydroxide (KOH). Moreover, it was observed that utilizing phosphoric acid treatment before the carbonization step leads to an 21% increase in specific capacitance, attributed to the retention of inorganic compounds, particularly silica (SiO2). Conversely, when rice husks were treated with KOH after the carbonization step, the specific capacitance was found to be doubled compared to treatment with KOH prior to the carbonization step due to embedding of SiO2 and KHCO3 inorganic constituents. This study provides valuable insights into the optimization of the chemical activation step order and process parameters for enhanced specific capacitance in rice husk-derived activated carbon. These findings contribute to the development of high-performance supercapacitors using rice husk as a sustainable and cost-effective precursor material.
Impact of COVID-19 outbreak on healthcare workers in a Tertiary Healthcare Center in India: a cross sectional study
Authors: Mirza Shahzad , Arvinden V. R. , Rophina Mercy , Bhawalkar Jitendra , Khan Uzair , Chothani Bhavin , Singh Shivankur , Sharma Tanya , Dwivedi Aryan , Pandey Ellora , Garg Shivam , Mukhida Sahjid Sadrudin , Sange Zeeshan Shabbir Ahmed , Bhaumik Shalini , Varughese Jessin , Devkar Vishwamohini Yallappa , Singh Jyoti , V. K. AnjuMol , K. Veena , Mandviwala Husen Shabbir Husen , Scaria Vinod , Gupta Aayush
Published: January 2024

Numerous speculations have continually emerged, trying to explore the association between COVID-19 infection and a varied range of demographic and clinical factors. Frontline healthcare workers have been the primary group exposed to this infection, and there have been limited global research that examine this cohort. However, while there are a few large studies conducted on Indian healthcare professionals to investigate their potential risk and predisposing factors to COVID-19 infection, to our knowledge there are no studies evaluating the development of long COVID in this population. This cross-sectional study systematically utilized the demographic and clinical data of 3329 healthcare workers (HCW) from a tertiary hospital in India to gain significant insights into the associations between disease prevalence, severity of SARS-Cov-2 infection and long COVID. Most of the study population was found to be vaccinated (2,615, 78.5%), while 654 (19.65%) HCWs were found to be SARS-CoV-2 positive at least once. Of the infected HCWs, 75.1% (491) did not require hospitalization, whereas the rest were hospitalized for an average duration of 9 days. A total of 206 (6.19%) individuals were found to be suffering from long COVID. Persistent weakness/tiredness was the most experienced long-COVID symptom, while females (1.79, 1.25–2.57), individuals who consumed alcohol (1.85, 1.3–2.64) or had blood group B (1.9, 1.33–2.7) were at a significantly higher risk for developing long COVID.
Synergistic effects of bee venom, hesperidin, and piperine with tamoxifen on apoptotic and angiogenesis biomarker molecules against xerographic MCF-7 injected rats
Authors: Khamis Abeer A. , Ali Ehab M. M. , Salim Elsayed I. , El-Moneim Mohamed A. Abd
Published: January 2024

Breast cancer ranks as the second leading most significant of mortality for women. Studies have demonstrated the potential benefits of natural compounds in cancer treatment and prevention, either in isolation or in conjunction with chemotherapy. In order to improve Tamoxifen's therapeutic efficacy in in-vivo studies, our research sought to determine the effects of hesperidin, piperine, and bee venom as natural compounds, as well as their combination effect with or without Tamoxifen. First, 132 female albino rats were equally divided into six groups and five subgroups, and breast cancer was induced in the selected groups by xenografting of MCF7 cells. Second, the effect of single and best ratio combinations treatment from previous in vitro studies were selected. Next, tumorous mammary glands were collected for apoptotic and antiapoptotic biomarkers and cell cycle analysis. Single or combined natural products with or without Tamoxifen revealed a significant up-regulation in apoptotic genes Bax and Casp3 and a downregulation of antiapoptotic and angiogenesis genes Bcl-2 and VEGF genes. We found that cell cycle arrest in the G0/G1 phase was exclusively caused by Tamoxifen and/ or hesperidin. However, the cell cycle arrest in the G2/M phase is a result of the combination of piperine and bee venom, with or without Tamoxifen by using the flow cytometric technique. Our research concludes that bee venom, hesperidin, and piperine can synergistically enhance to increase Tamoxifen's efficiency in the management of breast cancer.
Bioconversion of waste glycerol into viscosinamide by Pseudomonas fluorescens DR54 and its activity evaluation
Authors: Jama Dominika , Łaba Wojciech , Kruszelnicki Mateusz , Polowczyk Izabela , Lazar Zbigniew , Janek Tomasz
Published: January 2024

Lipopeptides, derived from microorganisms, are promising surface-active compounds known as biosurfactants. However, the high production costs of biosurfactants, associated with expensive culture media and purification processes, limit widespread industrial application. To enhance the sustainability of biosurfactant production, researchers have explored cost-effective substrates. In this study, crude glycerol was evaluated as a promising and economical carbon source in viscosinamide production by Pseudomonas fluorescens DR54. Optimization studies using the Box − Behnken design and response surface methodology were performed. Optimal conditions for viscosinamide production including glycerol 70.8 g/L, leucine 2.7 g/L, phosphate 3.7 g/L, and urea 9.3 g/L were identified. Yield of viscosinamide production, performed under optimal conditions, reached 7.18 ± 0.17 g/L. Preliminary characterization of viscosinamide involved the measurement of surface tension. The critical micelle concentration of lipopeptide was determined to be 5 mg/L. Furthermore, the interactions between the viscosinamide and lipase from Candida rugosa (CRL) were investigated by evaluating the impact of viscosinamide on lipase activity and measuring circular dichroism. It was observed that the α-helicity of CRL increases with increasing viscosinamide concentration, while the random coil structure decreases.
Screening and validation of optimal miRNA reference genes in different developing stages and tissues of Lilium henryi Baker
Authors: Jin Ge , Zhang Xiuhai , Yu Shiyin , Du Yunpeng , Wang Meixian , Zhao Chunli , Zhang Mingfang
Published: January 2024

Dynamic miRNA detection using the qRT-PCR technique requires appropriate reference genes to ensure data reliability. Previous studies have screened internal reference genes in plants during embryonic development and various stress treatment, involving relatively few tissues and organs. There is no relevant miRNA study in Lilium henryi Baker and limited research on the optimal miRNA reference genes in lilies, such as 5S, 18S, U6 and Actin. Twelve genes were selected as candidate reference genes whose expression stability was analyzed in petals at different developmental stages and other tissues using various algorithms, such as geNorm, NormFinder, BestKeeper, and Delta CT. The results revealed that the optimal combination of reference genes for Lilium henryi Baker petals at different developmental stages was osa-miR166m and osa-miR166a-3p, while that for different tissues of Lilium henryi Baker was osa-miR166g-3p and osa-miR166a-3p.Four important genes related to growth and development regulation, namely, osa-miR156a, osa-miR395b, osa-miR396a-3p, and osa-miR396a-5p, were selected for validation. The findings of the present study could contribute to future investigations onmiRNA expression and the related functions in Lilium henryi Baker while providing important references for the normalization of the miRNA expression in other varieties of lily.