bluuebunny/crossref_metadata_2025_split huggingface dataset:
Quantifying the photocurrent fluctuation in quantum materials by shot noise
Authors: Xiang Longjun , Jin Hao , Wang Jian 
Published: March 2024

AbstractThe DC photocurrent can detect the topology and geometry of quantum materials without inversion symmetry. Herein, we propose that the DC shot noise (DSN), as the fluctuation of photocurrent operator, can also be a diagnostic of quantum materials. Particularly, we develop the quantum theory for DSNs in gapped systems and identify the shift and injection DSNs by dividing the second-order photocurrent operator into off-diagonal and diagonal contributions, respectively. Remarkably, we find that the DSNs can not be forbidden by inversion symmetry, while the constraint from time-reversal symmetry depends on the polarization of light. Furthermore, we show that the DSNs also encode the geometrical information of Bloch electrons, such as the Berry curvature and the quantum metric. Finally, guided by symmetry, we apply our theory to evaluate the DSNs in monolayer GeS and bilayer MoS2 with and without inversion symmetry and find that the DSNs can be larger in centrosymmetric phase.
Cation desolvation-induced capacitance enhancement in reduced graphene oxide (rGO)
Authors: Ge Kangkang , Shao Hui , Raymundo-Piñero Encarnacion , Taberna Pierre-Louis , Simon Patrice 
Published: March 2024

AbstractUnderstanding the local electrochemical processes is of key importance for efficient energy storage applications, including electrochemical double layer capacitors. In this work, we studied the charge storage mechanism of a model material - reduced graphene oxide (rGO) - in aqueous electrolyte using the combination of cavity micro-electrode, operando electrochemical quartz crystal microbalance (EQCM) and operando electrochemical dilatometry (ECD) tools. We evidence two regions with different charge storage mechanisms, depending on the cation-carbon interaction. Notably, under high cathodic polarization (region II), we report an important capacitance increase in Zn2+ containing electrolyte with minimum volume expansion, which is associated with Zn2+ desolvation resulting from strong electrostatic Zn2+-rGO interactions. These results highlight the significant role of ion-electrode interaction strength and cation desolvation in modulating the charging mechanisms, offering potential pathways for optimized capacitive energy storage. As a broader perspective, understanding confined electrochemical systems and the coupling between chemical, electrochemical and transport processes in confinement may open tremendous opportunities for energy, catalysis or water treatment applications in the future.
Structural insight into an Arl1–ArfGEF complex involved in Golgi recruitment of a GRIP-domain golgin
Authors: Duan H. Diessel , Jain Bhawik K. , Li Hua , Graham Todd R. , Li Huilin 
Published: March 2024

AbstractArl1 is an Arf-like (Arl) GTP-binding protein that interacts with the guanine nucleotide exchange factor Gea2 to recruit the golgin Imh1 to the Golgi. The Arl1–Gea2 complex also binds and activates the phosphatidylserine flippase Drs2 and these functions may be related, although the underlying molecular mechanism is unclear. Here we report high-resolution cryo-EM structures of the full-length Gea2 and the Arl1–Gea2 complex. Gea2 is a large protein with 1459 residues and is composed of six domains (DCB, HUS, SEC7, HDS1-3). We show that Gea2 assembles a stable dimer via an extensive interface involving hydrophobic and electrostatic interactions in the DCB and HUS region. Contrary to the previous report on a Gea2 homolog in which Arl1 binds to the dimerization surface of the DCB domain, implying a disrupted dimer upon Arl1 binding, we find that Arl1 binds to the outside surface of the Gea2 DCB domain, leaving the Gea2 dimer intact. The interaction between Arl1 and Gea2 involves the classic FWY aromatic residue triad as well as two Arl1-specific residues. We show that key mutations that disrupt the Arl1–Gea2 interaction abrogate Imh1 Golgi association. This work clarifies the Arl1–Gea2 interaction and improves our understanding of molecular events in the membrane trafficking.
Centrosome amplification and aneuploidy driven by the HIV-1-induced Vpr•VprBP•Plk4 complex in CD4+ T cells
Authors: Park Jung-Eun , Kim Tae-Sung , Zeng Yan , Mikolaj Melissa , Il Ahn Jong , Alam Muhammad S. , Monnie Christina M. , Shi Victoria , Zhou Ming , Chun Tae-Wook , Maldarelli Frank , Narayan Kedar , Ahn Jinwoo , Ashwell Jonathan D. , Strebel Klaus , Lee Kyung S. 
Published: March 2024

Abstract
HIV-1 infection elevates the risk of developing various cancers, including T-cell lymphoma. Whether HIV-1-encoded proteins directly contribute to oncogenesis remains unknown. We observe that approximately 1–5% of CD4+ T cells from the blood of people living with HIV-1 exhibit over-duplicated centrioles, suggesting that centrosome amplification underlies the development of HIV-1-associated cancers by driving aneuploidy. Through affinity purification, biochemical, and cellular analyses, we discover that Vpr, an accessory protein of HIV-1, hijacks the centriole duplication machinery and induces centrosome amplification and aneuploidy. Mechanistically, Vpr forms a cooperative ternary complex with an E3 ligase subunit, VprBP, and polo-like kinase 4 (Plk4). Unexpectedly, however, the complex enhances Plk4’s functionality by promoting its relocalization to the procentriole assembly and induces centrosome amplification. Loss of either Vpr’s C-terminal 17 residues or VprBP acidic region, the two elements required for binding to Plk4 cryptic polo-box, abrogates Vpr’s capacity to induce these events. Furthermore, HIV-1 WT, but not its Vpr mutant, induces multiple centrosomes and aneuploidy in human primary CD4+ T cells. We propose that the Vpr•VprBP•Plk4 complex serves as a molecular link that connects HIV-1 infection to oncogenesis and that inhibiting the Vpr C-terminal motif may reduce the occurrence of HIV-1-associated cancers.
Impact of preexisting proteinuria on the development of regorafenib-induced problematic proteinuria in real-world metastatic colorectal cancer treatment
Authors: Saito Yoshitaka , Takekuma Yoh , Komatsu Yoshito , Sugawara Mitsuru 
Published: March 2024

AbstractRegorafenib is the first multikinase inhibitor for treating metastatic colorectal cancer (mCRC). Proteinuria is a frequently encountered adverse effect, regardless of prior administration of vascular endothelial growth factor inhibitors. Herein, we aimed to assess the impact of baseline preexisting proteinuria on regorafenib-induced problematic proteinuria during real-world mCRC therapy. Patients with mCRC receiving regorafenib (n = 100) were retrospectively assessed and divided into control and preexisting proteinuria (baseline grade of 1–2) groups. The primary endpoint was the development of grade ≥ 2 (grade ≥ 3 in case of baseline grade 2 patients) proteinuria. Propensity score-matching was performed to confirm the robustness of primary analyses. Defined proteinuria occurred in 30.7 and 57.9% of patients in the control and preexisting proteinuria groups, respectively, with significant differences in the all-patient population (P = 0.01). The preexisting proteinuria group exhibited significant defined proteinuria development within 7 days of regorafenib initiation, grade ≥ 3 symptoms, and treatment suspension owing to proteinuria. Similar results were obtained in the propensity score-matched population. According to multivariate logistic regression analysis, baseline proteinuria was a singular risk factor for defined proteinuria development (adjusted odds ratio; 3.76, 95% confidence interval; 1.45–9.75, P = 0.007). Collectively, our study revealed that patients with preexisting proteinuria develop regorafenib-induced proteinuria degradation.
Insights into subspecies classification and conservation priorities of Central Asian lynx populations revealed by morphometric and genetic analyses
Authors: Bizhanova Nazerke , Nanova Olga , Fadakar Davoud , Grachev Alexey , Hong Zijia , Mohd Sah Shahrul Anuar , Bizhanova Zhansaya , Sablin Mikhail , Grachev Yuriy 
Published: March 2024

AbstractThe Eurasian lynx(Lynx lynx) exhibits geographic variability and phylogenetic intraspecific relationships. Previous morphological studies have suggested the existence of multiple lynx subspecies, but recent genetic research has questioned this classification, particularly in Central Asia. In this study, we aimed to analyse the geographic and genetic variation in Central Asian lynx populations, particularly the Turkestan lynx and Altai lynx populations, using morphometric data and mtDNA sequences to contribute to their taxonomic classification. The comparative analysis of morphometric data revealed limited clinal variability between lynx samples from the Altai and Tien Shan regions. By examining mtDNA fragments (control region and cytochromeb) obtained from Kazakhstani lynx populations, two subspecies were identified:L. l. isabellinus(represented by a unique haplotype of the South clade, H46) andL. l. wrangeli(represented by haplotypes H36, H45, and H47 of the East clade).L. l. isabellinuswas recognized only in Tien Shan Mountain, while Altai lynx was likely identical toL. l. wrangeliand found in northern Kazakhstan, Altai Mountain, Saur and Tarbagatai Mountains, and Tien Shan Mountain. The morphological and mtDNA evidence presented in this study, although limited in sample size and number of genetic markers, renders the differentiation of the two subspecies challenging. Further sampling and compilation of whole-genome sequencing data are necessary to confirm whether the proposed subspecies warrant taxonomic standing.
Exploring strategies to optimise outcomes in hepatitis-associated aplastic anaemia patients following haematopoietic stem cell transplantation
Authors: Li Jia , Liu Yilin , Wang Jieru , Wang Yan , Pang Aiming , Yang Donglin , Chen Xin , Zhang Rongli , Wei Jialin , Ma Qiaoling , Zhai Weihua , He Yi , Jiang Erlie , Han Mingzhe , Feng Sizhou 
Published: March 2024

AbstractThis study aimed to assess haematopoietic stem cell transplantation (HSCT) safety and efficacy while exploring strategies for optimising outcomes in patients with hepatitis-associated aplastic anaemia (HAAA). We retrospectively reviewed 35 HAAA patients who underwent HSCT at a large Chinese blood disease hospital between 2008 and 2022. HAAA patients receiving HSCT typically presented with severe (28.6%) and very severe (65.7%) AA. Male patients predominated (68.6%), with a median onset age of 23 years (range, 9–44). Haploidentical donor-HSCT and matched sibling donor-HSCT were in comparable proportions. The 5-year overall survival (OS) rate was 74.0%, with cumulative incidences of grade II–IV acute and chronic graft-versus-host disease (GVHD) at 37.1% and 22.4%, respectively. A diagnosis-to-HSCT interval ≥ 75 days, acute GVHD, and post-HSCT liver events (e.g., hepatic GVHD and a three-fold increase in aminotransferase or bilirubin) significantly worsened 5-year OS. In the multivariate models, recipients with sex-matched grafts had better OS, and those with younger male donors had a lower incidence of II–IV aGVHD. Higher HLA matching degree (HLA > = 7/10) was an independent prognostic factor associated with better OS and GFFS. A diagnosis-to-HSCT interval ≥ 75 days was predictive of post-transplant liver events in HAAA patients. In conclusion, HSCT was a safe and effective treatment for HAAA. Early transplantation, careful donor selection and improving post-transplant liver events were crucial to optimise outcomes.
Research on the coupling mechanism and influencing factors of digital economy and green technology innovation in Chinese urban agglomerations
Authors: Zhong Xuesi , Duan Ziyi , Liu Chang , Chen Wei 
Published: March 2024

AbstractThis paper examines the coupling coordination degree between digital economy and green technology innovation in 19 urban agglomerations across China from 2011 to 2020. Through the analysis of the coupling coordination degree model, spatial autocorrelation, multi-distance spatial clustering analysis, kernel density analysis and grey correlation model, this study uncovers the mechanism of coupling between digital economy and green technology in Chinese urban agglomerations. Data analysis revealed a significant increase in the coupling coordination between the digital economy and green technology innovation within urban agglomerations. However, there are noticeable spatial imbalances in this trend. Additionally, the multi-distance spatial distance analysis highlights a shift from a random distribution to a clustered distribution of spatial characteristics. The polarization features vary among each urban agglomeration and exhibit a significant positive spatial correlation. Factors such as economic sustainability, creative talent, policy support, digital impetus, and technological support will affect the coupling mechanism of green technology innovation and the digital economy in China's urban agglomerations. Policy recommendations are proposed to foster the development of the digital economy, promote coordinated growth within and beyond urban clusters, and ultimately build a digital ecological civilization that is both green and intelligent.
Decoding the leaf apical meristem of Guarea glabra Vahl (Meliaceae): insight into the evolution of indeterminate pinnate leaves
Authors: Moriyama Yasutake , Koga Hiroyuki , Tsukaya Hirokazu 
Published: March 2024

AbstractIn seed plants, growth of shoots and roots is indeterminate, while leaves are typically determinate organs that cease to grow after a certain developmental stage. This is due to the characteristics of the leaf meristem, where cell proliferation activity is retained only for a limited period. However, several plants exhibit indeterminacy in their leaves, exemplified by the pinnate compound leaves of Guarea and Chisocheton genera in the Meliaceae family. In these plants, the leaf meristem at the tip of the leaf retains meristematic activity and produces leaflets over years, resulting in a single leaf that resembles a twig. The molecular mechanism underlying the indeterminate leaf meristem of these plants has not been examined. In this research, we used Guarea glabra as a model to investigate the development of indeterminate pinnate leaves. Transcriptome analyses revealed that the gene expression profile in leaf apex tissue differed from that in the shoot apex. However, a class 1 KNOTTED-LIKE HOMEOBOX (KNOX1) gene which is lost in Brassicaceae was highly expressed in both tissues. We established an in situ hybridisation system for this species using Technovit 9100 to analyse the spatial expression patterns of genes. We revealed that the leaf meristematic region of G. glabra expresses KNOX1, LEAFY and ANGUSTIFORIA3 simultaneously, suggesting the involvement of these genes in the indeterminacy of the leaf meristem.
Electrical facies of the Asmari Formation in the Mansouri oilfield, an application of multi-resolution graph-based and artificial neural network clustering methods
Authors: Eftekhari Seyedeh Hajar , Memariani Mahmoud , Maleki Zahra , Aleali Mohsen , Kianoush Pooria 
Published: March 2024

AbstractElectrofacies analysis conducted the distribution effects throughout the reservoir despite the difficulty of characterizing stratigraphic relationships. Clustering methods quantitatively define the reservoir zone from non-reservoir considering electrofacies. Asmari Formation is the most significant reservoir of the Mansouri oilfield in SW Iran, generally composed of carbonate and sandstone layers. The stratigraphical study is determined by employing 250 core samples from one exploratory well in the studied field. Five zones with the best reservoir quality in zones 3 and 5 containing sandstone/shale are determined. Moreover, multi-resolution graph-based and artificial neural network clustering involving six logs are employed. Utilizing Geolog software, an optimal model with eight clusters with better rock separation is obtained. Eventually, five electrofacies with different lithological compositions and reservoir conditions are identified and based on lithofacies describing thin sections, sandstone, and shale in zones 3 and 5 show high reservoir quality. According to the depth related to these zones, most of the facies that exist in these depths include sandstone and dolomite facies, and this is affected by the two factors of the primary sedimentary texture and the effect of the diagenesis process on them. Results can compared to the clustering zone determination in other nearby sandstone reservoirs without cores.
The burden of atopic dermatitis in Portuguese patients: an observational study
Authors: Coelho Pedro S. , Apalhão Miguel , Victorino Guilherme , Cardoso Cristina , Camilo Joana , Silva João Maia 
Published: March 2024

AbstractAtopic dermatitis (AD) is a common inflammatory skin condition that significantly affects patients' lives and imposes both economic and non-economic burdens. The precise societal and individual consequences of AD remain incompletely understood. This study aimed to characterize AD in Portuguese patients and assess its personal, familial, and societal implications, including health status and quality of life. The research, conducted from June 2019 to January 2020, involved 204 confirmed AD patients in Portugal, who completed a 70-question questionnaire. Results show that, on average, patients experienced a two-year delay in diagnosis, with two-thirds having allergic comorbidities. Late-onset AD (after age 20) was found to be correlated with worsening symptoms post-diagnosis. Globally, patients reported substantial effects on health, quality of life, and mental well-being. Effects include significant levels of anxiety, frustration and sleep disorders. Severe AD correlated with more suffering and reduced perceived health, indicating a link between disease severity and quality of life. Remarkably, despite questionable effectiveness, 92% of severe AD patients were prescribed antihistamines, while only 19% received biological treatments. In Portugal, delayed AD diagnosis hinders timely treatment, and despite its profound impact and high comorbidity rates, AD patients tend to remain undertreated. Recognizing the personal and societal repercussions is crucial for enhancing care, contributing to improving QoL, social functioning and global well-being.
Assessing hydrothermal changes in the upper Yellow River Basin amidst permafrost degradation
Authors: Song Lei , Wang Lei , Luo Dongliang , Chen Deliang , Zhou Jing 
Published: March 2024

AbstractSince the 20th century, the temperature on the Qinghai–Tibetan Plateau (QTP) has increased at a rate of 2–3 times that of global warming. Consequently, the soil temperature and active layer thickness have also increased, which have directly caused severe degradation of the frozen ground on the QTP. Using a hydrological model driven by climate and vegetation forcing, the spatial and temporal changes in the hydrothermal characteristics of the Upper Yellow River Basin (UYRB) from 1960 to 2019 were modeled and the mechanism of the changes was analyzed. During the past six decades, the soil temperature in the UYRB exhibited an increasing trend. The degradation of permafrost in the UYRB was accompanied by thickening of the active layer, a reduction of the maximum depth of the seasonal frost penetration, and continuous extension of the basin thawing time. This degradation was also associated with the increase in the soil moisture content and decrease in the soil ice content, resulting in degradation of the permafrost area by one-tenth of the total area in the UYRB. The reduction of the permafrost area and the thickening of the active layer can profoundly impact hydrological processes and ecosystems. These findings play a critical role in designing efficient strategies to manage and protect frozen ground and serve as a valuable reference for understanding the consequences of frozen ground degradation globally.
Tertiary lymphoid structures predict survival and response to neoadjuvant therapy in locally advanced rectal cancer
Authors: Wang Qianyu , Zhong Wentao , Shen Xiaofei , Hao Zechen , Wan Meng , Yang Xiaopeng , An Ran , Zhu Hongyan , Cai Huiyun , Li Tao , Lv Yuan , Dong Xing , Chen Gang , Liu Aijun , Du Junfeng 
Published: March 2024

AbstractTertiary lymphoid structure (TLS) contributes to the anti-tumor immune response, and predicts the prognosis of colorectal cancer patients. However, the potential impact of TLS in shaping the immune status of rectal adenocarcinoma, and the intrinsic relationship between TLS and neoadjuvant therapies (neoTx) remain unclear. We performed hematoxylin-eosin staining, immunohistochemical and biomolecular analyses to investigate TLS and tumor-infiltrating lymphocytes (TILs) in 221 neoTx-treated and 242 treatment-naïve locally advanced rectal cancer (LARC) patients. High TLS density was significantly associated with the absence of vascular invasion, a lower neutrophil-to-lymphocyte ratio, increased TLS maturity, a longer recurrence-free survival (RFS) (hazard ratio [HR] 0.2985 95% confidence interval [CI] 0.1894–0.4706, p < 0.0001) and enhanced infiltration of adaptive immune cells. Biomolecular analysis showed that high TLS-score was strongly associated with more infiltration of immune cells and increased activation of immune-related pathways. TLS+ tumors in pre-treatment specimens were associated with a higher proportion of good respond (62.5% vs. 29.8%, p < 0.0002) and pathological complete remission (pCR) (40.0% vs. 11.1%, p < 0.0001), and significantly increased RFS (HR 0.3574 95%CI 0.1489–0.8578 p = 0.0213) compared with TLS- tumors in the neoTx cohort, which was confirmed in GSE119409 and GSE150082. Further studies showed that neoTx significantly reduced TLS density and maturity, and abolished the prognostic value of TLS. Our study illustrates that TLS may have a key role in mediating the T-cell-inflamed tumor microenvironment, which also provides a new direction for neoTx, especially neoadjuvant immunotherapy, in LRAC patients.
Biogeographic gradients of picoplankton diversity indicate increasing dominance of prokaryotes in warmer Arctic fjords
Authors: Hörstmann Cora , Hattermann Tore , Thomé Pauline C. , Buttigieg Pier Luigi , Morel Isidora , Waite Anya M. , John Uwe 
Published: March 2024

AbstractClimate change is opening the Arctic Ocean to increasing human impact and ecosystem changes. Arctic fjords, the region’s most productive ecosystems, are sustained by a diverse microbial community at the base of the food web. Here we show that Arctic fjords become more prokaryotic in the picoplankton (0.2–3 µm) with increasing water temperatures. Across 21 fjords, we found that Arctic fjords had proportionally more trophically diverse (autotrophic, mixotrophic, and heterotrophic) picoeukaryotes, while subarctic and temperate fjords had relatively more diverse prokaryotic trophic groups. Modeled oceanographic connectivity between fjords suggested that transport alone would create a smooth gradient in beta diversity largely following the North Atlantic Current and East Greenland Current. Deviations from this suggested that picoeukaryotes had some strong regional patterns in beta diversity that reduced the effect of oceanographic connectivity, while prokaryotes were mainly stopped in their dispersal if strong temperature differences between sites were present. Fjords located in high Arctic regions also generally had very low prokaryotic alpha diversity. Ultimately, warming of Arctic fjords could induce a fundamental shift from more trophic diverse eukaryotic- to prokaryotic-dominated communities, with profound implications for Arctic ecosystem dynamics including their productivity patterns.