bluuebunny/crossref_metadata_2025_split huggingface dataset:
8-Oxoguanine: from oxidative damage to epigenetic and epitranscriptional modification
Authors: Hahm Ja Young , Park Jongyeun , Jang Eun-Sook , Chi Sung Wook 
Published: October 2022

AbstractIn pathophysiology, reactive oxygen species control diverse cellular phenotypes by oxidizing biomolecules. Among these, the guanine base in nucleic acids is the most vulnerable to producing 8-oxoguanine, which can pair with adenine. Because of this feature, 8-oxoguanine in DNA (8-oxo-dG) induces a G > T (C > A) mutation in cancers, which can be deleterious and thus actively repaired by DNA repair pathways. 8-Oxoguanine in RNA (o8G) causes problems in aberrant quality and translational fidelity, thereby it is subjected to the RNA decay pathway. In addition to oxidative damage, 8-oxo-dG serves as an epigenetic modification that affects transcriptional regulatory elements and other epigenetic modifications. With the ability of o8G•A in base pairing, o8G alters structural and functional RNA–RNA interactions, enabling redirection of posttranscriptional regulation. Here, we address the production, regulation, and function of 8-oxo-dG and o8G under oxidative stress. Primarily, we focus on the epigenetic and epitranscriptional roles of 8-oxoguanine, which highlights the significance of oxidative modification in redox-mediated control of gene expression.
NLRP6 is required for cancer-derived exosome-modified macrophage M2 polarization and promotes metastasis in small cell lung cancer
Authors: Rao Xinrui , Zhou Xiaoshu , Wang Geng , Jie Xiaohua , Xing Biyuan , Xu Yingzhuo , Chen Yunshang , Li Jun , Zhu Kuikui , Wu Zilong , Wu Gang , Wu Chuangyan , Zhou Rui 
Published: October 2022

AbstractMetastasis remains the primary cause of small cell lung cancer (SCLC)-related deaths. Growing evidence links tumor metastasis with a pre-metastatic microenvironment characterized by an anti-inflammatory response, immunosuppression, and the presence of tumor-derived exosomes. To clarify the relationships among these factors in SCLC, we analyzed SCLC patient samples as well as a mouse model. Among the infiltrating immune cells, our study focused on the tumor-associated macrophages (TAMs), that are well-known to promote tumor progression and metastasis. We found that high expression of the alternatively activated (M2) TAM marker, CD206+ was associated clinically with a poorer prognosis and metastasis state in patients with SCLC. Moreover, infiltrating macrophages (MØ) were found in the metastatic foci of an SCLC mouse model. Additionally, we observed dominant switching to M2 phenotype, accompanied by increased NLRP6 expression. Since tumor-derived exosomes are the key links between the tumor and its immune microenvironment, we further investigated whether SCLC-derived exosomes contributed to the MØ phenotype switch. Our findings showed for the first time that SCLC-derived exosomes induce the M2 switch via the NLRP6/NF-κB pathway, and thus, promote SCLC metastasis in vitro and in vivo. Collectively, these results indicate a novel mechanism by which SCLC-derived exosomes induce immunosuppression of distant MØ to promote systemic metastasis by activating NLRP6. Here, we highlight the close relationship between the tumor-derived exosomes, inflammasomes and immune microenvironment in SCLC metastasis.
Oculomotor deficits in attention deficit hyperactivity disorder: a systematic review and meta-analysis
Authors: Sherigar Sharath S. , Gamsa Ashwitha H. , Srinivasan Krithica 
Published: October 2022

AbstractThere is equivocal evidence on the presence of oculomotor deficits among children with attention deficit hyperactivity disorder (ADHD), which can be an additional challenge in this population, especially with reading-related tasks. This study aimed to review the deficits in the oculomotor parameters among children with ADHD compared with age-matched controls. The review was conducted according to the Preferred Reporting Items for Systematic Reviews and Meta-analyses (PRISMA) guidelines. A search of original research articles on various databases was done using key terms, such as “oculomotor deficit,” “attention deficit hyperactivity disorder,” or related terms. We included case-control studies and excluded studies in which children received medications during the test. Twelve original research studies were considered for this review. Ten studies reported data on various types of saccades, two studies reported data on fixation, and one study reported data on pursuit. Among various oculomotor deficits, the forest-plot analysis of an antisaccade task showed that children with ADHD made more direction errors compared to controls. Although independent studies report that ADHD children have poorer performance compared to control populations during oculomotor tasks, there is a lack of evidence to draw a strong conclusion. Children with ADHD are less precise in performing eye movements and need more time to complete the oculomotor tasks than those without ADHD. The overall results provide minimal evidence regarding the presence of various oculomotor deficits in ADHD.
Tunable metasurfaces via the humidity responsive swelling of single-step imprinted polyvinyl alcohol nanostructures
Authors: Ko Byoungsu , Badloe Trevon , Yang Younghwan , Park Jeonghoon , Kim Jaekyung , Jeong Heonyeong , Jung Chunghwan , Rho Junsuk 
Published: October 2022

AbstractThe application of hydrogels in nanophotonics has been restricted due to their low fabrication feasibility and refractive index. Nevertheless, their elasticity and strength are attractive properties for use in flexible, wearable-devices, and their swelling characteristics in response to the relative humidity highlight their potential for use in tunable nanophotonics. We investigate the use of nanostructured polyvinyl alcohol (PVA) using a one-step nanoimprinting technique for tunable and erasable optical security metasurfaces with multiplexed structural coloration and metaholography. The resolution of the PVA nanoimprinting reaches sub-100 nm, with aspect ratios approaching 10. In response to changes in the relative humidity, the PVA nanostructures swell by up to ~35.5%, providing precise wavefront manipulation of visible light. Here, we demonstrate various highly-secure multiplexed optical encryption metasurfaces to display, hide, or destroy encrypted information based on the relative humidity both irreversibly and reversibly.
Transcriptome-wide and stratified genomic structural equation modeling identify neurobiological pathways shared across diverse cognitive traits
Authors: Grotzinger Andrew D. , de la Fuente Javier , Davies Gail , Nivard Michel G. , Tucker-Drob Elliot M. 
Published: October 2022

AbstractFunctional genomic methods are needed that consider multiple genetically correlated traits. Here we develop and validate Transcriptome-wide Structural Equation Modeling (T-SEM), a multivariate method for studying the effects of tissue-specific gene expression across genetically overlapping traits. T-SEM allows for modeling effects on broad dimensions spanning constellations of traits, while safeguarding against false positives that can arise when effects of gene expression are specific to a subset of traits. We apply T-SEM to investigate the biological mechanisms shared across seven distinct cognitive traits (N = 11,263–331,679), as indexed by a general dimension of genetic sharing (g). We identify 184 genes whose tissue-specific expression is associated with g, including 10 genes not identified in univariate analysis for the individual cognitive traits for any tissue type, and three genes whose expression explained a significant portion of the genetic sharing across g and different subclusters of psychiatric disorders. We go on to apply Stratified Genomic SEM to identify enrichment for g within 28 functional categories. This includes categories indexing the intersection of protein-truncating variant intolerant (PI) genes and specific neuronal cell types, which we also find to be enriched for the genetic covariance between g and a psychotic disorders factor.
Reward and aversion processing by input-defined parallel nucleus accumbens circuits in mice
Authors: Zhou Kuikui , Xu Hua , Lu Shanshan , Jiang Shaolei , Hou Guoqiang , Deng Xiaofei , He Miao , Zhu Yingjie 
Published: October 2022

AbstractThe nucleus accumbens (NAc) is critical in mediating reward seeking and is also involved in negative emotion processing, but the cellular and circuitry mechanisms underlying such opposing behaviors remain elusive. Here, using the recently developed AAV1-mediated anterograde transsynaptic tagging technique in mice, we show that NAc neurons receiving basolateral amygdala inputs (NAcBLA) promote positive reinforcement via disinhibiting dopamine neurons in the ventral tegmental area (VTA). In contrast, NAc neurons receiving paraventricular thalamic inputs (NAcPVT) innervate GABAergic neurons in the lateral hypothalamus (LH) and mediate aversion. Silencing the synaptic output of NAcBLA neurons impairs reward seeking behavior, while silencing of NAcPVT or NAcPVT→LH pathway abolishes aversive symptoms of opiate withdrawal. Our results elucidate the afferent-specific circuit architecture of the NAc in controlling reward and aversion.
Nanometer-scale photon confinement in topology-optimized dielectric cavities
Authors: Albrechtsen Marcus , Vosoughi Lahijani Babak , Christiansen Rasmus Ellebæk , Nguyen Vy Thi Hoang , Casses Laura Nevenka , Hansen Søren Engelberth , Stenger Nicolas , Sigmund Ole , Jansen Henri , Mørk Jesper , Stobbe Søren 
Published: October 2022

AbstractNanotechnology enables in principle a precise mapping from design to device but relied so far on human intuition and simple optimizations. In nanophotonics, a central question is how to make devices in which the light-matter interaction strength is limited only by materials and nanofabrication. Here, we integrate measured fabrication constraints into topology optimization, aiming for the strongest possible light-matter interaction in a compact silicon membrane, demonstrating an unprecedented photonic nanocavity with a mode volume of V ~ 3 × 10−4 λ3, quality factor Q ~ 1100, and footprint 4 λ2 for telecom photons with a λ ~ 1550 nm wavelength. We fabricate the cavity, which confines photons inside 8 nm silicon bridges with ultra-high aspect ratios of 30 and use near-field optical measurements to perform the first experimental demonstration of photon confinement to a single hotspot well below the diffraction limit in dielectrics. Our framework intertwines topology optimization with fabrication and thereby initiates a new paradigm of high-performance additive and subtractive manufacturing.
Lactose azocalixarene drug delivery system for the treatment of multidrug-resistant pseudomonas aeruginosa infected diabetic ulcer
Authors: Li Juan-Juan , Hu Yuqing , Hu Bing , Wang Wenbo , Xu Haiqi , Hu Xin-Yue , Ding Fei , Li Hua-Bin , Wang Ke-Rang , Zhang Xinge , Guo Dong-Sheng 
Published: October 2022

AbstractDiabetic wound is one of the most intractable chronic wounds that is prone to bacterial infection. Hypoxia is an important feature in its microenvironment. However, it is challenging for antimicrobial therapy to directly apply the existing hypoxia-responsive drug delivery systems due to the active targeting deficiency and the biofilm obstacle. Herein, we customizes a hypoxia-responsive carrier, lactose-modified azocalix[4]arene (LacAC4A) with the ability to actively target and inhibit biofilm. By loading ciprofloxacin (Cip), the resultant supramolecular nanoformulation Cip@LacAC4A demonstrates enhanced antibacterial efficacy resulting from both the increased drug accumulation and the controlled release at the site of infection. When applied on diabetic wounds together with multidrug-resistant Pseudomonas aeruginosa infection in vivo, Cip@LacAC4A induces definitely less inflammatory infiltration than free Cip, which translates into high wound healing performance. Importantly, such design principle provides a direction for developing antimicrobial drug delivery systems.
Probing the ultrafast dynamics of excitons in single semiconducting carbon nanotubes
Authors: Birkmeier Konrad , Hertel Tobias , Hartschuh Achim 
Published: October 2022

AbstractExcitonic states govern the optical spectra of low-dimensional semiconductor nanomaterials and their dynamics are key for a wide range of applications, such as in solar energy harvesting and lighting. Semiconducting single-walled carbon nanotubes emerged as particularly rich model systems for one-dimensional nanomaterials and as such have been investigated intensively in the past. The exciton decay dynamics in nanotubes has been studied mainly by transient absorption and time-resolved photoluminescence spectroscopy. Since different transitions are monitored with these two techniques, developing a comprehensive model to reconcile different data sets, however, turned out to be a challenge and remarkably, a uniform description seems to remain elusive. In this work, we investigate the exciton decay dynamics in single carbon nanotubes using transient interferometric scattering and time-resolved photoluminescence microscopy with few-exciton detection sensitivity and formulate a unified microscopic model by combining unimolecular exciton decay and ultrafast exciton-exciton annihilation on a time-scale down to 200 fs.
A phase II trial of weekly nab-paclitaxel for progressive and symptomatic desmoid tumors
Authors: Martin-Broto Javier , Redondo Andres , Moura David S. , Valverde Claudia , Morales Jose Manuel , Lopez-Pousa Antonio , Martinez-Trufero Javier , Gutierrez Antonio , Díaz-Beveridge Roberto , Luna Pablo , Martinez-Marin Virginia , Marcilla David , Arribas Ivan , Ledesma Patricio , Lopez-Martin Jose Antonio , Di Lernia Davide , Zamora Jorge , Hindi Nadia 
Published: October 2022

AbstractDesmoid fibromatosis (DF) are mesenchymal neoplasms, with potential aggressive course and relevant clinical impact. New systemic therapy modalities are needed in this symptomatic/progressive population. In this multicenter, phase II trial (NCT03275818), patients with symptomatic/progressing DF received three cycles of weekly nab-paclitaxel. Brief pain inventory short form (BPI-SF) was collected at baseline and in every visit. MRI was performed every 3 months. Primary composite endpoint was RECIST 1.1 overall response rate (ORR) and/or clinical response (improvement ≥ 2 points in BPI-SF). If 40% of patients achieved clinical/radiological response, further investigation would be warranted. Toxicity, progression-free survival (PFS), pattern of response and its correlation with clinical best response and BPI, variation of physical function, and analgesic consumption were secondary endpoints. The translational research reported was not a pre-specified secondary outcome. Forty eligible patients started therapy, being 35 radiologically and clinically evaluable. The study achieved its primary endpoint, as 7(20%) patients obtained RECIST partial response, whereas 31(89%) experienced pain reduction of ≥2 points in BPI-SF worst pain. Therapy was well tolerated. With a median follow-up of 30(14–44) months, median 12 and 24-months PFS rates were 91%(CI 95%, 82–100) and 84%(CI 95%, 71–97). For clinical progression, 12 and 24-months PFS rates were 85% (CI 95%, 73–97) and 74% (CI 95%, 58–90) respectively. Short course of nab-paclitaxel is active, safe and achieves quick and durable responses in progressing/symptomatic DF patients.
Interfacial water engineering boosts neutral water reduction
Authors: Sun Kaian , Wu Xueyan , Zhuang Zewen , Liu Leyu , Fang Jinjie , Zeng Lingyou , Ma Junguo , Liu Shoujie , Li Jiazhan , Dai Ruoyun , Tan Xin , Yu Ke , Liu Di , Cheong Weng-Chon , Huang Aijian , Liu Yunqi , Pan Yuan , Xiao Hai , Chen Chen 
Published: October 2022

AbstractHydrogen evolution reaction (HER) in neutral media is of great practical importance for sustainable hydrogen production, but generally suffers from low activities, the cause of which has been a puzzle yet to be solved. Herein, by investigating the synergy between Ru single atoms (RuNC) and RuSex cluster compounds (RuSex) for HER using ab initio molecular dynamics, operando X-ray absorption spectroscopy, and operando surface-enhanced infrared absorption spectroscopy, we establish that the interfacial water governs neutral HER. The rigid interfacial water layer in neutral media would inhibit the transport of H2O*/OH* at the electrode/electrolyte interface of RuNC, but the RuSex can promote H2O*/OH* transport to increase the number of available H2O* on RuNC by disordering the interfacial water network. With the synergy of RuSex and RuNC, the resulting neutral HER performance in terms of mass-specific activity is 6.7 times higher than that of 20 wt.% Pt/C at overpotential of 100 mV.
A universal glycoenzyme biosynthesis pipeline that enables efficient cell-free remodeling of glycans
Authors: Jaroentomeechai Thapakorn , Kwon Yong Hyun , Liu Yiwen , Young Olivia , Bhawal Ruchika , Wilson Joshua D. , Li Mingji , Chapla Digantkumar G. , Moremen Kelley W. , Jewett Michael C. , Mizrachi Dario , DeLisa Matthew P. 
Published: October 2022

AbstractThe ability to reconstitute natural glycosylation pathways or prototype entirely new ones from scratch is hampered by the limited availability of functional glycoenzymes, many of which are membrane proteins that fail to express in heterologous hosts. Here, we describe a strategy for topologically converting membrane-bound glycosyltransferases (GTs) into water soluble biocatalysts, which are expressed at high levels in the cytoplasm of living cells with retention of biological activity. We demonstrate the universality of the approach through facile production of 98 difficult-to-express GTs, predominantly of human origin, across several commonly used expression platforms. Using a subset of these water-soluble enzymes, we perform structural remodeling of both free and protein-linked glycans including those found on the monoclonal antibody therapeutic trastuzumab. Overall, our strategy for rationally redesigning GTs provides an effective and versatile biosynthetic route to large quantities of diverse, enzymatically active GTs, which should find use in structure-function studies as well as in biochemical and biomedical applications involving complex glycomolecules.
Spheroplasts preparation boosts the catalytic potential of a squalene-hopene cyclase
Authors: Benítez-Mateos Ana I. , Schneider Andreas , Hegarty Eimear , Hauer Bernhard , Paradisi Francesca 
Published: October 2022

AbstractSqualene-hopene cyclases are a highly valuable and attractive class of membrane-bound enzymes as sustainable biotechnological tools to produce aromas and bioactive compounds at industrial scale. However, their application as whole-cell biocatalysts suffer from the outer cell membrane acting as a diffusion barrier for the highly hydrophobic substrate/product, while the use of purified enzymes leads to dramatic loss of stability. Here we present an unexplored strategy for biocatalysis: the application of squalene-hopene-cyclase spheroplasts. By removing the outer cell membrane, we produce stable and substrate-accessible biocatalysts. These spheroplasts exhibit up to 100-fold higher activity than their whole-cell counterparts for the biotransformations of squalene, geranyl acetone, farnesol, and farnesyl acetone. Their catalytic ability is also higher than the purified enzyme for all high molecular weight terpenes. In addition, we introduce a concept for the carrier-free immobilization of spheroplasts via crosslinking, crosslinked spheroplasts. The crosslinked spheroplasts maintain the same catalytic activity of the spheroplasts, offering additional advantages such as recycling and reuse. These timely solutions contribute not only to harness the catalytic potential of the squalene-hopene cyclases, but also to make biocatalytic processes even greener and more cost-efficient.
Enhancing Gasdermin-induced tumor pyroptosis through preventing ESCRT-dependent cell membrane repair augments antitumor immune response
Authors: Li Zhaoting , Mo Fanyi , Wang Yixin , Li Wen , Chen Yu , Liu Jun , Chen-Mayfield Ting-Jing , Hu Quanyin 
Published: October 2022

AbstractPore-forming Gasdermin protein-induced pyroptosis in tumor cells promotes anti-tumor immune response through the release of pro-inflammatory cytokines and immunogenic substances after cell rupture. However, endosomal sorting complexes required for transport (ESCRT) III-mediated cell membrane repair significantly diminishes the tumor cell pyroptosis by repairing and subsequently removing gasdermin pores. Here, we show that blocking calcium influx-triggered ESCRT III-dependent membrane repair through a biodegradable nanoparticle-mediated sustained release of calcium chelator (EI-NP) strongly enhances the intracellularly delivered GSDMD-induced tumor pyroptosis via a bacteria-based delivery system (VNP-GD). An injectable hydrogel and a lyophilized hydrogel-based cell patch are developed for peritumoral administration for treating primary and metastatic tumors, and implantation for treating inoperable tumors respectively. The hydrogels, functioning as the local therapeutic reservoirs, can sustainedly release VNP-GD to effectively trigger tumor pyroptosis and EI-NP to prevent the ESCRT III-induced plasma membrane repair to boost the pyroptosis effects, working synergistically to augment the anti-tumor immune response.
CD8+ T cells induce interferon-responsive oligodendrocytes and microglia in white matter aging
Authors: Kaya Tuğberk , Mattugini Nicola , Liu Lu , Ji Hao , Cantuti-Castelvetri Ludovico , Wu Jianping , Schifferer Martina , Groh Janos , Martini Rudolf , Besson-Girard Simon , Kaji Seiji , Liesz Arthur , Gokce Ozgun , Simons Mikael 
Published: October 2022

AbstractA hallmark of nervous system aging is a decline of white matter volume and function, but the underlying mechanisms leading to white matter pathology are unknown. In the present study, we found age-related alterations of oligodendrocyte cell state with a reduction in total oligodendrocyte density in aging murine white matter. Using single-cell RNA-sequencing, we identified interferon (IFN)-responsive oligodendrocytes, which localize in proximity to CD8+ T cells in aging white matter. Absence of functional lymphocytes decreased the number of IFN-responsive oligodendrocytes and rescued oligodendrocyte loss, whereas T-cell checkpoint inhibition worsened the aging response. In addition, we identified a subpopulation of lymphocyte-dependent, IFN-responsive microglia in the vicinity of the CD8+ T cells in aging white matter. In summary, we provide evidence that CD8+ T-cell-induced, IFN-responsive oligodendrocytes and microglia are important modifiers of white matter aging.
De Novo transcriptome assembly and differential expression analysis of catharanthus roseus in response to salicylic acid
Authors: Soltani Narges , Firouzabadi Farhad Nazarian , Shafeinia Alireza , Shirali Masoud , Sadr Ayeh Sadat 
Published: October 2022

AbstractThe anti-cancer vinblastine and vincristine alkaloids can only be naturally found in periwinkle (Catharanthus roseus). Both of these alkaloids' accumulations are known to be influenced by salicylic acid (SA). The transcriptome data to reveal the induction effect (s) of SA, however, seem restricted at this time. In this study, the de novo approach of transcriptome assembly was performed on the RNA-Sequencing (RNA-Seq) data inC. roseus. The outcome demonstrated that SA treatment boosted the expression of all the genes in the Terpenoid Indole Alkaloids (TIAs) pathway that produces the vinblastine and vincristine alkaloids. These outcomes supported the time-course measurements of vincristine alkaloid, the end product of the TIAs pathway, and demonstrated that SA spray had a positive impact on transcription and alkaloid synthesis. Additionally, the abundance of transcription factor families including bHLH, C3H, C2H2, MYB, MYB-related, AP2/ ERF, NAC, bZIP, and WRKY suggests a role for a variety of transcription families in response to the SA stimuli. Di-nucleotide and tri-nucleotide SSRs were the most prevalent SSR markers in microsatellite analyses, making up 39% and 34% of all SSR markers, respectively, out of the 77,192 total SSRs discovered.