bluuebunny/crossref_metadata_2025_split huggingface dataset:
Autophagy promotes cell survival by maintaining NAD(H) levels
Authors: Sedlackova Lucia , Kataura Tetsushi , Seranova Elena , Sun Congxin , Otten Elsje , Cohen Malkiel , Chipara Miruna , Palhegyi Adina , Shapira David , Scialo Filippo , Stefanatos Rhoda , Ishikawa Kei-ichi , Kenneth Niall , Zhang Tong , Panda Prashanta , Zatyka Malgorzata , Silva Luiz , Torresi Jorge , Kauffman Kevin , Zhang Shupei , Maetzel Dorothea , Varga Thiago , Ward Carl , Cartwright David , Lavery Gareth , Sahay Gaurav , Buganim Yosef , Anderson Daniel , Acharjee Animesh , Bascom Charles , Tasseff Ryan , Isfort Robert , Oblong John , Gsponer Joerg , Miwa Satomi , Lazarou Michael , Papamichos-Chronakis Manolis , Wang Haoyi , Imoto Masaya , Saiki Shinji , Maddocks Oliver , Sanz Alberto , Rosenstock Tatiana , Jaenisch Rudolf , Korolchuk Viktor , Sarkar Sovan 
Published: July 2021

Abstract
Autophagy is an essential catabolic process that promotes the clearance of surplus or damaged intracellular components1. As a recycling process, autophagy is also important for the maintenance of cellular metabolites to aid metabolic homeostasis2. Loss of autophagy in animal models or malfunction of this process in a number of age-related human pathologies, including neurodegenerative and lysosomal storage diseases, contributes to tissue degeneration3-9. However, it remains unclear which of the many cellular functions of autophagy primarily underlies its role in cell survival. Here we have identified an evolutionarily conserved role of autophagy from yeast to humans in the preservation of nicotinamide adenine dinucleotide (NAD+/NADH) levels, which are critical for cellular survival. In respiring cells, loss of autophagy caused hyperactivation of PARP and Sirtuin families of NADases. Uncontrolled depletion of NAD(H) pool by these enzymes resulted in mitochondrial membrane depolarisation and cell death. Supplementation with NAD(H) precursors improved cell viability in autophagy-deficient models including human pluripotent stem cell-derived neurons with autophagy deficiency or patient-derived neurons with autophagy dysfunction. Our study provides a mechanistic link between autophagy and NAD(H) metabolism, and suggests that boosting NAD(H) levels may have therapeutic benefits in human diseases associated with autophagy dysfunction.
Herbivore Fish as Sustainable Alternative for Nutrition Security: Food Habits and Nutritional Composition of the Acha Fish (Medialuna Ancietae) in Northern Chile.
Authors: Lozano-Muñoz Ivonne , Giorgio Castellaro , Jurij Wacyk , German Bueno 
Published: July 2021

Abstract
Sustainability in aquaculture is a necessity of the future, not only as the most promising means of supplying the protein that the world will require to feed its growing population but to offer needed conservation of the world’s ocean resources. The use of wild fish inputs in farm-raised fish outputs has been a primary concern of sustainability in aquaculture production. Herbivorous fish are more efficient convertors of protein into fish flesh. Species of the genus Medialuna fish have been reported as a fast-growing, short-lived species. The endemic Acha fish (Medialuna ancietae) in the Northern part of Chile is an over-exploited fish that has been associated with aquatic vegetation as a food source. We studied the eating habits and nutritional composition of M. ancietae. For this, we developed a reference collection of marine macroalga (epidermis and nutritional composition) observed in the diet of individuals of this species for the study of digestive material. More than 90% of the components found were marine macroalgae, indicating that M. ancietae is an herbivorous fish. Compared to non-herbivorous fish our results showed that most of the nutrients present in the Medialuna diet are found at much lower levels including n-3 long-chain polyunsaturated fatty acids (49.7%) and protein (13–60%). M. ancietae meat provides essential components of human nutrition with a significant protein content (18.99 ± 0.26%) and the presence of n-3 long-chain polyunsaturated fatty acids. Most fed aquaculture non-herbivorous species rely on wild-captured fish for these essential nutrients, while M. ancietae can obtain and has the ability to concentrate them from potentially cultivable macroalgae. M. ancietae has potential for a sustainable aquaculture production as a contribution to nutrition security and re-stocking of wild populations.
Aptamer-assisted tumor localization of bacteria for enhanced biotherapy
Authors: Geng Zhongmin , Cao Zhenping , Liu Rui , Liu Ke , Liu Jinyao , Tan Weihong 
Published: July 2021

Abstract
Despite bacterial-mediated biotherapies have been widely explored for treating different types of cancer, their implementation has been restricted by severe side effects and low treatment efficacies, due largely to the absence of tumor-specific accumulation following administration. Here, the conjugation of aptamers to bacterial surface is described by a simple and cytocompatible amidation procedure, which can significantly promote the localization of bacteria in tumor site after systemic administration. The surface density of aptamers can be easily adjusted by varying feed ratio and the conjugation is able to increase the stability of anchored aptamers. Optimal bacteria conjugated with an average of 2.8 × 105 aptamers per cell present the highest specificity to tumor cells in vitro, separately generating near 2- and 5-times higher accumulation in tumor tissue at 12 and 60 hours compared to unmodified bacteria. In both 4T1 and H22 tumor-bearing mouse models, aptamer-conjugated attenuated Salmonella show strikingly enhanced antitumor efficacy, along with highly activated immune responses inside the tumor. This work demonstrates how bacterial behaviors can be tuned by surface conjugation and supports the potential of aptamer-conjugated bacteria for both targeted intratumoral localization and enhanced tumor biotherapy.
A Canonical Correlation Analysis of Factors that Influence Quality of Life Among Patients with Chronic Obstructive Pulmonary Disease Based on QLICD-COPD (V2.0)
Authors: Liu Yuxi , Ruan Jinghao , Wan Chonghua , Tan Jianfeng , Wu Bin , Zhao Zhihuan 
Published: July 2021

Abstract

Background
Chronic obstructive pulmonary disease (COPD) is one of the diseases with the highest morbidity and mortality globally. The Quality of Life Instrument for Chronic Diseases(QLICD)-COPD(V2.0) was designed to assess the health condition of patients with COPD. The objective of this study was to evaluate the quality of life (QOL) of patients, the influential clinical factors, and the relationships between QOL and clinical objective indicators.
Methods
Two hundred and sixty-one in-patients with COPD in the acute exacerbation stage were evaluated using the QLICD-COPD(V2.0) and data on clinical objective indicators were collected. The relationships between QOL and the clinical objective indicators were determined using canonical correlation analysis.
Results
The standardized scores for the patients in four domains, namely physical function, psychological function, social function, and a disease-specific module, were 49.00 ± 12.91, 59.89 ± 13.51, 68.59 ± 11.94, and 51.84 ± 13.58, respectively. The total score for the QOL of patients was 57.17 ± 10.26. Two pairs of canonical correlation variables were statistically significant (P < 0.05), with coefficients of 0.35 and 0.26. These variables respectively accounted for 45.8% and 33.8% of the variance. The levels of total protein, albumin, serum sodium, and alkaline phosphatase and the percentages of neutrophils and lymphocytes were correlated with the QOL.
Conclusion
During COPD treatment, clinicians should pay close attention to the levels of total protein, albumin, serum sodium, and alkaline phosphatase and the percentages of neutrophils and lymphocytes to improve the QOL of patients.
Quasiparticle tunneling as a probe of Josephson junction quality and capacitor
material in superconducting qubits
Authors: Kurter Cihan , Murray Conal , Gordon Ryan , Wymore Benjamin , Sandberg Martin , Shelby Robert , Eddins Andrew , Adiga Vivek , Finck Aaron , Rivera Elmer , Stabile Adam , Trimm Bryan , Wacaser Brent , Balakrishnan Karthik , Pyzyna Adam , Sleight Jeffrey , Steffen Matthias , Rodbell Ken 
Published: July 2021

Abstract
Non-equilibrium quasiparticles are possible sources for decoherence in superconducting qubits because they can lead to energy decay or dephasing upon tunneling across Josephson junctions (JJs). Here, we investigate the impact of the intrinsic properties of two-dimensional transmon qubits on quasiparticle tunneling (QPT) and discuss how we can use quasiparticle dynamics to gain critical information about the quality of JJ barrier and device performance. We find the tunneling rate of the non-equilibrium quasiparticles to be sensitive to the choice of the shunting capacitor material and their geometry in qubits. In some devices, we observe an anomalous temperature dependence of the QPT rate below 100 mK that deviates from a constant background associated with non-equilibrium quasiparticles. We speculate that high transmission sites/defects within the oxide barriers of the JJs can lead to this behavior, which we can model by assuming that the defect sites have a smaller effective superconducting gap than the leads of the junction. Our results present a unique in situ characterization tool to assess the uniformity of tunnel barriers in qubit junctions and shed light on how quasiparticles can interact with various elements of the qubit circuit.
Metagenomic Analysis of Non-Apis Wild Insect Pollinators and Predators Shows Virus Threat to Their Survival
Authors: Li Nan Nan , Huang Yi Zhao , Li Wei , Wang Deya 
Published: July 2021

Abstract
Background: Insect pollinators provide major pollination services for wild plants and crops, this is necessary for both agriculture and ecology, we should protect their population size and diversity as much as possible. Currently, we have known that the virus disease of honeybee can cause serious damage to bee colony, but we know little about the virus of other wild pollinating insects. Here we investigated the virus host wild insect pollinators as a reminder that they are facing virus threaten too.Methods: Transcriptome sequencing was used to investigate the viruses of Non-Apis insect pollinators and predators. Furthermore, host and replicability of several novel viruses that weakly related to honey bee viruses were determined by using reverse transcription-polymerase chain reaction (RT-PCR).Results: Three honey pathogenic virus, five viruses host insect and twenty-six novel viruses were detected. Seven novel viruses showed weakly similarity to honeybee pathogenic viruses and five of them were determined can be replicated their genomes in the corresponding host by detected complementary strands of viral genomes, suggests that they may be pathogenic to the corresponding host.Conclusion: So many novel viruses detected in wild insect pollinators and their predators indicates that we don’t have a clear understanding of the virus composition in pollinator insect and related species. The same living environment provides the conditions for virus cross infection, we should be alert to this situation in the protection of pollinating insects.
Simultaneous Viscum Pleurodesis and Bullectomy in Patients With Primary Spontaneous Pneumothorax
Authors: Jung Hee Suk , Kim Hyun Jung 
Published: July 2021

Abstract
Objectives: Although surgery is the gold standard for treatment of primary spontaneous pneumothorax (PSP), recurrence after surgery remains a concern. This study sought to evaluate the efficacy of simultaneous pleurodesis using Viscum album (VA) extract and bullectomy for the treatment of PSP.Methods: From March 2016 to November 2020, 196 patients with PSP underwent bullectomy and intraoperative pleurodesis with VA extract at a single institution. All operations were performed through video-assisted thoracic surgery by one surgeon. Upon completion of bullectomy, a polyglycolic acid sheet was used to cover the stapler lines, and 40 mg of VA extract was instilled over the entire chest wall before chest tube placement.Results: The mean operating time was 18.5±5.0 minutes (range, 10­–65) and the mean indwelling time of chest drainage was 1.8±0.5 days (range, 2–6). There were no postoperative complications over grade 3. During the median follow-up period of 36.3±18.4 months (range, 2–57), no recurrence of pneumothorax was observed.Conclusions: The results of this study demonstrated that simultaneous Viscum pleurodesis and bullectomy provides a feasible and effective treatment option for preventing postoperative pneumothorax in patients with PSP.
Deciphering the tumor-specific immunopeptidome in vivo with genetically engineered mouse models
Authors: Jacks Tyler , Jaeger Alex , Stopfer Lauren , Sanders Emma , Sandel Demi , Freed-Pastor William , III William Rideout , Naranjo Santiago , Fessenden Tim , Winter Peter , Kohn Ryan , Schenkel Jason , Shanahan Sean-Luc , Shalek Alex , Spranger Stefani , White Forest 
Published: July 2021

Abstract
Effective immunosurveillance of cancer requires the presentation of peptide antigens on major histocompatibility complex Class I (MHC-I). Recent developments in proteomics have improved the identification of peptides that are naturally presented by MHC-I, collectively known as the “immunopeptidome”. Current approaches to profile tumor immunopeptidomes have been limited to in vitro investigation, which fails to capture the in vivo repertoire of MHC-I peptides, or bulk tumor lysates, which are obscured by the lack of tumor-specific MHC-I isolation. To overcome these limitations, we report here the engineering of a Cre recombinase-inducible affinity tag into the endogenous mouse MHC-I gene and targeting of this allele to the KrasLSL-G12D/+; p53fl/fl (KP) mouse model (KP; KbStrep). This novel approach has allowed us to isolate tumor-specific MHC-I peptides from autochthonous pancreatic ductal adenocarcinoma (PDAC) and lung adenocarcinoma (LUAD) in vivo. With this powerful analytical tool, we were able to profile the evolution of the LUAD immunopeptidome through tumor progression and show that in vivo MHC-I presentation is shaped by post-translational mechanisms. We also uncovered novel, putative LUAD tumor associated antigens (TAAs). Many peptides that were recurrently presented in vivo exhibited very low expression of the cognate mRNA, provoking reconsideration of antigen prediction pipelines that triage peptides according to transcript abundance. Beyond cancer, the KbStrep allele is compatible with a broad range of Cre-driver lines to explore antigen presentation in vivo in the pursuit of understanding basic immunology, infectious disease, and autoimmunity.
Pre- Versus Post-Operative Untargeted Plasma Nuclear Magnetic Resonance Spectroscopy Metabolomics of Pheochromocytoma And Paraganglioma
Authors: Bliziotis Nikolaos Georgios , Kluijtmans Leo AJ , Soto Sebastian , Tinnevelt Gerjen H , Langton Katharina , Robledo Mercedes , Pamporaki Christina , Engelke Udo FH , Erlic Zoran , Engel Jasper , Deutschbein Timo , Nölting Svenja , Prejbisz Aleksander , Richter Susan , Prehn Cornelia , Adamski Jerzy , Januszewicz Andrzej , Reincke Martin , Fassnacht Martin , Eisenhofer Graeme , Beuschlein Felix , Kroiss Matthias , Wevers Ron A , Jansen Jeroen J , Deinum Jaap , Timmers Henri JLM 
Published: July 2021

Abstract
Purpose: Pheochromocytomas and Paragangliomas (PPGL) result in chronic catecholamine excess and serious health complications. A recent study obtained a metabolic signature in plasma from PPGL patients; however, its targeted nature may have generated an incomplete picture and a broader approach could provide additional insights. We aimed to characterize the plasma metabolome of PPGL patients before and after surgery, using an untargeted approach, and to broaden the scope of the investigated metabolic impact of these tumors.Design: A cohort of 36 PPGL patients was investigated. Blood plasma samples were collected before and after surgical tumor removal, in association with clinical and tumor characteristics.Methods: Plasma samples were analyzed using untargeted nuclear magnetic resonance (NMR) spectroscopy metabolomics. The data were evaluated using a combination of uni- and multi-variate statistical methods.Results: Before surgery, patients with a nonadrenergic tumor could be distinguished from those with an adrenergic tumor based on their metabolic profiles. Tyrosine levels were significantly higher in patients with high compared to those with low BMI. Comparing subgroups of pre-operative samples with their post-operative counterparts, we found a metabolic signature that included ketone bodies, glucose, organic acids, methanol, dimethyl sulfone and amino acids. Three signals with unclear identities were found to be affected.Conclusions: Our study demonstrates how the pathways of glucose and ketone body homeostasis are affected in PPGL patients. BMI-related metabolite levels were also found to be altered, potentially linking muscle atrophy to PPGL. At baseline, patient metabolomes could be discriminated based on their catecholamine phenotype.
High Sensitivity And Ultra-High Quality Factor For An All-Optical Temperature Sensor Based On Photonic Crystal Technology
Authors: Elhachemi Kouddad , Rafah Naoum , Leila Dekkiche 
Published: July 2021

Abstract
In our work, we propose a novel temperature sensor design based on a two-dimensional (2D) photonic crystal resonant cavity structure designed to detect and monitor temperature under very harsh environmental conditions from 0 °C to 500 ºC. The sensitivity of the proposed structure is 109.8 pm/ºC, an ultra-high quality factor, high transmission efficiency and ultra-compact size. The characteristics of the proposed sensor under different temperatures are simulated using the Plane Wave Expansion (PWE) method and Finite Difference Time Domain (FDTD) method to calculate, respectively, the Photonic Band Gap (PBG) and transmission efficiency. The results obtained show that the wavelength of the resonant cavity increases linearly with increasing temperature. Our sensor is suitable for applications based on nanotechnology.
The receptor kinase SRF3 coordinates iron-level and flagellin dependent defense and growth responses in plants
Authors: Platre Matthieu , Satbhai Santosh , Brent Lukas , Gleason Matias , Grison Magali , Glavier Marie , Zhang Ling , Cao Min , Gaillochet Christophe , Göschl Christian , Giovannetti Marco , Enugutti Balaji , von Reth Marcel , Alcázar Rubén , Parker Jane , Vert Gregory , Bayer Emmanuelle , Busch Wolfgang 
Published: July 2021

Abstract
Iron is critical for host-pathogen interactions. While pathogens seek to scavenge iron to spread, the host aims at decreasing iron availability to reduce pathogen virulence. Thus, iron sensing and homeostasis are of particular importance to prevent host infection and part of nutritional immunity. While the link between iron homeostasis and immunity pathways is well established in plants, how iron levels are sensed and integrated with immune response pathways remain unknown. We identified a receptor kinase, SRF3 coordinating root growth, iron homeostasis and immunity pathways via regulation of callose synthase activity. These processes are modulated by iron levels and rely on SRF3 extracellular and kinase domain which tune its accumulation and partitioning at the cell surface. Mimicking bacterial elicitation with the flagellin peptide flg22 phenocopies SRF3 regulation upon low iron levels and subsequent SRF3-dependent responses. We propose that SRF3 is part of nutritional immunity responses involved in sensing external iron levels.
Hydrometeorological Triggering of Periglacial Debris Flows Using a Bayesian Approach: A Case Study of the Hailuogou Gully Region, China
Authors: Wang Zheng , Chen Ningsheng , Hu Guisheng , Zhang Yong , Wang Genxu , Han Zheng 
Published: July 2021

Abstract
Mount Gonggais located in the east of the Qinghai–Tibet Plateau; many debris flows have occurred in small basins with a small glacier cover or snow cover in this area. The hydrometeorological conditions that caused debris flows in this region are complex, making forecasting and early warning difficult. Previous studies for these small-glacial-covered basins have primarily considered rainfall as the only inducing factor of debris flows, and often the effects of temperature are neglected. Thus, we carried out a probabilistic analysis of variables derived from hydrometeorological factors for the Mount Gongga region, Sichuan, China, where debris flows were recorded on 14 days between 1988 and 2019. By analyzing hydrological characteristics when debris flows occurred, three distinct dominant trigger types could be identified. The results show that 7 (50%) of the observed debris flow events during the study period, high-intensity rainfall was the dominant trigger, snowmelt by high temperature was identified as the dominant trigger for 2 (14%). Furthermore, 5 (36%) debris flow events could be attributed to the combined effects of long-lasting (or short-medium) rainfall and sustained higher temperatures. We find that the differences between the trigger types are statistically significant, and a susceptibility prediction differentiating between trigger types can outperform simple rainfall-only situations. This study contributes to an improved understanding of the hydrometeorological impact on debris flow initiation in high elevation watersheds.
Positive correlations between social hierarchy and memory in weaning mice and young children
Authors: Chou Yu-Ju , Lu Yi-Han , Ma Yu-Kai , King Jung-Tai , Tasi Wen-Sheng , Yang Shi-Bing , Kuo Tsung-Han 
Published: July 2021

Abstract
Social hierarchy is associated with various phenotypes. Although memory is known to be important for hierarchy formation, the difference between dominant and subordinate individuals in memory abilities remains not well investigated. In this study, we examined memory performance in weanling mice with different social ranks and found better memory abilities in dominant mice, along with higher memory-related gene expressions and greater long-term potentiation in the hippocampus than the subordinates. To validate this correlation across species, through inventory, behavioral and event-related potential studies, we further identified better memory abilities in preschool children with higher social dominance. Better memory potentially helped children in processing dominance facial cues and learning social strategies to acquire higher social positions. Our study shows a remarkable similarity between humans and mice in the association between memory and social hierarchy and provides a new perspective on the social interaction in young with potential implications for preschool education.