keyword
https://read.qxmd.com/read/37581984/genome-wide-crispr-screens-identify-noncanonical-translation-factor-eif2a-as-an-enhancer-of-sars-cov-2-programmed-1-ribosomal-frameshifting
#21
JOURNAL ARTICLE
Lian-Huan Wei, Yu Sun, Junjie U Guo
Many positive-strand RNA viruses, including all known coronaviruses, employ programmed -1 ribosomal frameshifting (-1 PRF) to regulate the translation of polycistronic viral RNAs. However, only a few host factors have been shown to regulate -1 PRF. Through a genome-wide CRISPR-Cas9 knockout screen, we have identified host factors that either suppress or enhance severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) -1 PRF. Among them, eukaryotic translation initiation factor 2A (eIF2A) specifically and directly enhances -1 PRF independent of changes in initiation...
August 14, 2023: Cell Reports
https://read.qxmd.com/read/37567453/sivelestat-sodium-alleviated-lipopolysaccharide-induced-acute-lung-injury-by-improving-endoplasmic-reticulum-stress
#22
JOURNAL ARTICLE
Junting Weng, Danjuan Liu, Bingbing Shi, Min Chen, Shuoyun Weng, Rongjie Guo, Xiaoping Zhou
Acute lung injury (ALI) is a common inflammatory respiratory disorder characterized by a high incidence and mortality rate. This study aimed to investigate the potential therapeutic effects of the neutrophil elastase inhibitor Sivelestat sodium (SIV) in improving endoplasmic reticulum stress (ERS) while treating lipopolysaccharide (LPS)-induced ALI. An ALI model was established using LPS induction. The effects of SIV on ALI were observed both in vivo and in vitro, along with its impact on ERS. Lung tissue damage was assessed using Hematoxylin-eosin (H&E) staining...
August 9, 2023: Gene
https://read.qxmd.com/read/37497782/detecting-intragenic-trans-splicing-events-from-non-co-linearly-spliced-junctions-by-hybrid-sequencing
#23
JOURNAL ARTICLE
Yu-Chen Chen, Chia-Ying Chen, Tai-Wei Chiang, Ming-Hsien Chan, Michael Hsiao, Huei-Mien Ke, Isheng Jason Tsai, Trees-Juen Chuang
Trans-spliced RNAs (ts-RNAs) are a type of non-co-linear (NCL) transcripts that consist of exons in an order topologically inconsistent with the corresponding DNA template. Detecting ts-RNAs is often interfered by experimental artifacts, circular RNAs (circRNAs) and genetic rearrangements. Particularly, intragenic ts-RNAs, which are derived from separate precursor mRNA molecules of the same gene, are often mistaken for circRNAs through analyses of RNA-seq data. Here we developed a bioinformatics pipeline (NCLscan-hybrid), which integrated short and long RNA-seq reads to minimize false positives and proposed out-of-circle and rolling-circle long reads to distinguish between intragenic ts-RNAs and circRNAs...
July 27, 2023: Nucleic Acids Research
https://read.qxmd.com/read/37482689/sars-cov-2-nonstructural-protein-6-triggers-endoplasmic-reticulum-stress-induced-autophagy-to-degrade-sting1
#24
JOURNAL ARTICLE
Pengtao Jiao, Wenhui Fan, Xiaoya Ma, Runshan Lin, Yuna Zhao, Yabo Li, He Zhang, Xiaojuan Jia, Yuhai Bi, Xiaoli Feng, Minghua Li, Wenjun Liu, Ke Zhang, Lei Sun
aa: amino acid; ATF6: activating transcription factor 6; ATG5: autophagy related 5; CCPG1: cell cycle progression 1; CFTR: CF transmembrane conductance regulator; cGAMP: cyclic GMP-AMP; CGAS: cyclic GMP-AMP synthase; CHX: cycloheximide; Co-IP: co-immunoprecipitation; CQ: chloroquine; EIF2A/eIF2α: eukaryotic translation initiation factor 2A; EIF2AK3/PERK: eukaryotic translation initiation factor 2 alpha kinase 3; ER: endoplasmic reticulum; ERN1/IRE1: endoplasmic reticulum to nucleus signaling 1; GFP: green fluorescent protein; HSPA5/GRP78: heat shock protein family A (Hsp70) member 5; HSV-1: herpes simplex virus type 1; IFIT1: interferon induced protein with tetratricopeptide repeats 1; IFNB1/IFN-β: interferon beta 1; IRF3: interferon regulatory factor 3; ISG15: ISG15 ubiquitin like modifier; MAP1LC3B/LC3B: microtubule associated protein 1 light chain 3 beta; MAP3K7/TAK1: mitogen-activated protein kinase kinase kinase 7; MAVS: mitochondrial antiviral signaling protein; MOI: multiplicity of infection; NFKB/NF-κB: nuclear factor kappa B; NSP6: non-structural protein 6; Δ106-108: deletion of amino acids 106-108 in NSP6 of SARS-CoV-2; Δ105-107: deletion of amino acids 105-107 in NSP6 of SARS-CoV-2; RETREG1/FAM134B: reticulophagy regulator 1; RIGI/DDX58: RNA sensor RIG-I; SQSTM1/p62: sequestosome 1; STING1: stimulator of interferon response cGAMP interactor 1; TBK1: TANK binding kinase 1...
July 23, 2023: Autophagy
https://read.qxmd.com/read/37403271/heart-failure-in-patients-is-associated-with-downregulation-of-mitochondrial-quality-control-genes
#25
JOURNAL ARTICLE
T Svagusa, S Sikiric, M Milavic, A Sepac, S Seiwerth, D Milicic, H Gasparovic, B Biocina, I Rudez, Z Sutlic, S Manola, J Varvodic, M Udovicic, M Urlic, S Ivankovic, S Plestina, F Paic, A Kulic, P Bakovic, F Sedlic
BACKGROUND: Mitochondrial dysfunction is one of key factors causing heart failure. We performed a comprehensive analysis of expression of mitochondrial quality control (MQC) genes in heart failure. METHODS: Myocardial samples were obtained from patients with ischemic and dilated cardiomyopathy in a terminal stage of heart failure and donors without heart disease. Using quantitative real-time PCR, we analysed a total of 45 MQC genes belonging to mitochondrial biogenesis, fusion-fission balance, mitochondrial unfolded protein response (UPRmt), translocase of the inner membrane (TIM) and mitophagy...
July 4, 2023: European Journal of Clinical Investigation
https://read.qxmd.com/read/37371681/inhibition-of-perk-kinase-an-orchestrator-of-the-unfolded-protein-response-upr-significantly-reduces-apoptosis-and-inflammation-of-lung-epithelial-cells-triggered-by-sars-cov-2-orf3a-protein
#26
JOURNAL ARTICLE
Panagiotis Keramidas, Eleni Papachristou, Rigini M Papi, Aglaia Mantsou, Theodora Choli-Papadopoulou
SARS-CoV-2 ORF3a accessory protein was found to be involved in virus release, immunomodulation and exhibited a pro-apoptotic character. In order to unravel a potential ORF3a-induced apoptotic and inflammatory death mechanism, lung epithelial cells (A549) were transfected with in vitro synthesized ORF3a mRNA. The protein's dynamic involvement as "stress factor" for the endoplasmic reticulum, causing the activation of PERK kinase and other UPR-involved proteins and therefore the upregulation of their signaling pathway executioners (ATF6, XBP-1s, PERK, phospho eIF2a, ATF4 , CHOP, GADD34 ), has been clearly demonstrated...
May 30, 2023: Biomedicines
https://read.qxmd.com/read/37353739/knockout-of-perk-protects-rat-m%C3%A3-ller-glial-cells-against-ogd-induced-endoplasmic-reticulum-stress-related-apoptosis
#27
JOURNAL ARTICLE
Xiaorui Wang, Xinxing Zhu, Guangqian Huang, Lili Wu, Zhiyong Meng, Yuyu Wu
BACKGROUND: The pathological basis for many retinal diseases, retinal ischemia is also one of the most common causes of visual impairment. Numerous ocular diseases have been linked to Endoplasmic reticulum(ER)stress. However, there is still no clear understanding of the relationship between ER stress and Müller glial cells during retinal ischemia and hypoxia. This study examined the effects of ER stress on autophagy and apoptosis-related proteins, as well as the microtubule-related protein tau in rMC-1 cells...
June 23, 2023: BMC Ophthalmology
https://read.qxmd.com/read/37314245/transthyretin-knockdown-recapitulates-the-insulin-sensitizing-effects-of-exercise-and-promotes-skeletal-muscle-adaptation-to-exercise-endurance
#28
JOURNAL ARTICLE
Beibei Wu, Ruojun Qiu, Shuo Wang, Yingzi He, Jing Wang, Zhiye Xu, Xihua Lin, Hong Li, Fenping Zheng
Liver transthyretin (TTR) synthesis and release are exacerbated in insulin-resistant states but are decreased by exercise training, in relation to the insulin-sensitizing effects of exercise. We hypothesized that TTR knockdown (TTR-KD) may mimic this exercise-induced metabolic improvement and skeletal muscle remodeling. Adeno-associated virus-mediated TTR-KD and control mice were trained for 8 weeks on treadmills. Their metabolism status and exercise capacity were investigated and then compared with sedentary controls...
July 1, 2023: Journal of Molecular Endocrinology
https://read.qxmd.com/read/37294427/integrating-network-pharmacology-and-experimental-models-to-examine-the-mechanisms-of-corosolic-acid-in-preventing-hepatocellular-carcinoma-progression-through-activation-perk-eif2a-atf4-signaling
#29
JOURNAL ARTICLE
Feifeng Tang, Yingxiu Peng, Jingjin Liu, Wenhui Gao, Yanfeng Xu
Hepatocellular carcinoma (HCC) is the most prevalent form of liver cancer, with a high recurrence rate and heterogeneity. We aimed to examine the effect of corosolic acid (CRA) on HCC. We employed transcriptomics to validate the target molecules in CRA-treated HCC cells and conducted enrichment analyses that revealed their involvement in the regulation of endoplasmic reticulum (ER) stress and apoptosis. Our experimental data indicated that CRA markedly induced apoptosis in human HCC cell lines through the mitochondrial apoptosis pathway...
June 9, 2023: Naunyn-Schmiedeberg's Archives of Pharmacology
https://read.qxmd.com/read/37269954/loss-of-the-mitochondrial-protein-abcb10-results-in-altered-arginine-metabolism-in-mel-and-k562-cells-and-nutrient-stress-signaling-through-atf4
#30
JOURNAL ARTICLE
Marisa Miljkovic, Alexandra Seguin, Xuan Jia, James E Cox, Jonathan Leon Catrow, Hector Bergonia, John D Phillips, W Zac Stephens, Diane M Ward
Abcb10 is a mitochondrial membrane protein involved in hemoglobinization of red cells. Abcb10 topology and ATPase domain localization suggest it exports a substrate, likely biliverdin, out of mitochondria that is necessary for hemoglobinization. In this study we generated Abcb10 deletion cell lines in both mouse murine erythroleukemia (MEL) and human erythroid precursor human myelogenous leukemia (K562) cells to better understand the consequences of Abcb10 loss. Loss of Abcb10 resulted in an inability to hemoglobinize upon differentiation in both K562 and MEL cells with reduced heme and intermediate porphyrins and decreased levels of aminolevulinic acid synthase 2 activity...
June 1, 2023: Journal of Biological Chemistry
https://read.qxmd.com/read/37269649/stress-regulation-of-wfs1-and-perk-p-eif2%C3%AE-atf4-signaling-pathway-in-placental-tissue-cells-of-intrahepatic-cholestasis-of-pregnancy
#31
JOURNAL ARTICLE
Daijuan Chen, Tingting Xu, Yaqian Li, Jinfeng Xu, Bing Peng, Wenming Xu, Xiaodong Wang
INTRODUCTION: The placental tissue stress of intrahepatic cholestasis of pregnancy (ICP) is activated by ERS under hypoxia condition. PERK signaling pathway is the key pathway for UPR regulation, and is first to activated during ERS. WFS1, as an important regulatory gene of UPR pathway, participates in ERS regulation. The purpose of our study is to explore the expression level and mutual regulation mechanisms of WFS1 and PERK-mediated UPR pathway in ICP placental tissue cell under stress...
May 29, 2023: Placenta
https://read.qxmd.com/read/37266373/transcriptome-wide-selection-and-validation-of-a-solid-set-of-reference-genes-for-gene-expression-studies-in-the-cephalopod-mollusk-octopus-vulgaris
#32
JOURNAL ARTICLE
Pamela Imperadore, Stefano Cagnin, Vittoria Allegretti, Caterina Millino, Francesca Raffini, Graziano Fiorito, Giovanna Ponte
Octopus vulgaris is a cephalopod mollusk and an active marine predator that has been at the center of a number of studies focused on the understanding of neural and biological plasticity. Studies on the machinery involved in e.g., learning and memory, regeneration, and neuromodulation are required to shed light on the conserved and/or unique mechanisms that these animals have evolved. Analysis of gene expression is one of the most essential means to expand our understanding of biological machinery, and the selection of an appropriate set of reference genes is the prerequisite for the quantitative real-time polymerase chain reaction (qRT-PCR)...
2023: Frontiers in Molecular Neuroscience
https://read.qxmd.com/read/37225585/alterations-in-skeletal-muscle-abundance-of-protein-turnover-stress-and-antioxidant-proteins-during-the-periparturient-period-in-dairy-cows-fed-ethyl-cellulose-rumen-protected-methionine
#33
JOURNAL ARTICLE
Lam Phuoc Thanh, Nithat Wichasit, Yu Li, Fernanda Batistel, Wandee Tartrakoon, Claudia Parys, Jessie Guyader, Juan J Loor
Skeletal muscle turnover helps support the physiological needs of dairy cows during the transition into lactation. We evaluated effects of feeding ethyl-cellulose rumen-protected methionine (RPM) during the periparturient period on abundance of proteins associated with transport AA and glucose, protein turnover, metabolism, and antioxidant pathways in skeletal muscle. Sixty multiparous Holstein cows were used in a block design and assigned to a control or RPM diet from -28 to 60 d in milk. The RPM was fed at a rate of 0...
May 22, 2023: Journal of Dairy Science
https://read.qxmd.com/read/37144468/translational-fidelity-screens-in-mammalian-cells-reveal-eif3-and-eif4g2-as-regulators-of-start-codon-selectivity
#34
JOURNAL ARTICLE
Richard She, Jingchuan Luo, Jonathan S Weissman
The translation initiation machinery and the ribosome orchestrate a highly dynamic scanning process to distinguish proper start codons from surrounding nucleotide sequences. Here, we performed genome-wide CRISPRi screens in human K562 cells to systematically identify modulators of the frequency of translation initiation at near-cognate start codons. We observed that depletion of any eIF3 core subunit promoted near-cognate start codon usage, though sensitivity thresholds of each subunit to sgRNA-mediated depletion varied considerably...
May 5, 2023: Nucleic Acids Research
https://read.qxmd.com/read/37064149/immunogenic-cell-death-associated-biomarkers-classification-predicts-prognosis-and-immunotherapy-efficacy-in-pancreatic-ductal-adenocarcinoma
#35
JOURNAL ARTICLE
Wenguang Peng, Jiarui Yang, Long Xia, Xiangjun Qian, Guojie Long, Hao Zhang, Jiancong Xie, Junzhang Zhao, Lei Zhang, Weidong Pan
INTRODUCTION: Immunogenic cell death (ICD) is a sort of regulated cell death (RCD) sufficient to trigger an adaptive immunological response. According to the current findings, ICD has the capacity to alter the tumor immune microenvironment by generating danger signals or damage-associated molecular patterns (DAMPs), which may contribute in immunotherapy. It would be beneficial to develop ICD-related biomarkers that classify individuals depending on how well they respond to ICD immunotherapy...
2023: Frontiers in Oncology
https://read.qxmd.com/read/36889209/the-zip9-centered-androgen-pathway-compensates-for-the-2605%C3%A2-mhz-radiofrequency-electromagnetic-radiation-mediated-reduction-in-resistance-to-h-2-o-2-damage-in-sertoli-cells-of-adult-rats
#36
JOURNAL ARTICLE
Gang Yu, Yabing Zhu, Chao Song, Liang Chen, Zeping Tang, Tianpeng Wu
The direct biological effects of radiofrequency electromagnetic radiation (RF-EMR) from wireless communication equipment on the testes are still unclear. Our previous study proved that long-term exposure to 2605 MHz RF-EMR gradually damage spermatogenesis and resulted in time-dependent reproductive toxicity by directly disrupting blood-testis barrier circulation. Although short-term exposure did not cause readily observable damage to fertility, whether it caused specific biological effects and how these effects contributed to the time-dependent reproductive toxicity of RF-EMR were currently unknown...
March 6, 2023: Ecotoxicology and Environmental Safety
https://read.qxmd.com/read/36689548/the-enterovirus-genome-can-be-translated-in-an-ires-independent-manner-that-requires-the-initiation-factors-eif2a-eif2d
#37
JOURNAL ARTICLE
Hyejeong Kim, David Aponte-Diaz, Mohamad S Sotoudegan, Djoshkun Shengjuler, Jamie J Arnold, Craig E Cameron
RNA recombination in positive-strand RNA viruses is a molecular-genetic process, which permits the greatest evolution of the genome and may be essential to stabilizing the genome from the deleterious consequences of accumulated mutations. Enteroviruses represent a useful system to elucidate the details of this process. On the biochemical level, it is known that RNA recombination is catalyzed by the viral RNA-dependent RNA polymerase using a template-switching mechanism. For this mechanism to function in cells, the recombining genomes must be located in the same subcellular compartment...
January 23, 2023: PLoS Biology
https://read.qxmd.com/read/36634655/exosome-mediated-delivery-of-gga-mir-20a-5p-regulates-immune-response-of-chicken-macrophages-by-targeting-ifngr2-mapk1-map3k5-and-map3k14
#38
JOURNAL ARTICLE
Yeojin Hong, Jubi Heo, Suyeon Kang, Thi Hao Vu, Hyun S Lillehoj, Yeong Ho Hong
OBJECTIVE: This study aims to evaluate the target genes of gga-miR-20a-5p and the regulated immune responses in the chicken macrophage cell line, HD11, by the exosome-mediated delivery of miR-20a-5p. METHODS: Exosomes were purified from the chicken macrophage cell line HD11. Then, mimic gga-miR-20p or negative control miRNA were internalized into HD11 exosomes. HD11 cells were transfected with gga-miR-20a-5p or negative control miRNA containing exosomes. After 44 h of transfection, cells were incubated with or without 5 μg/mL poly(I:C) for 4 h...
January 11, 2023: Animal bioscience
https://read.qxmd.com/read/36607617/erratum-to-eif2a-knockout-mice-reveal-decreased-life-span-and-metabolic-syndrome
#39
(no author information available yet)
No abstract text is available yet for this article.
February 2023: FASEB Journal: Official Publication of the Federation of American Societies for Experimental Biology
https://read.qxmd.com/read/36594740/the-chaperone-assisted-selective-autophagy-complex-dynamics-and-dysfunctions
#40
JOURNAL ARTICLE
Barbara Tedesco, Leen Vendredy, Vincent Timmerman, Angelo Poletti
Each protein must be synthesized with the correct amino acid sequence, folded into its native structure, and transported to a relevant subcellular location and protein complex. If any of these steps fail, the cell has the capacity to break down aberrant proteins to maintain protein homeostasis (also called proteostasis). All cells possess a set of well-characterized protein quality control systems to minimize protein misfolding and the damage it might cause. Autophagy, a conserved pathway for the degradation of long-lived proteins, aggregates, and damaged organelles, was initially characterized as a bulk degradation pathway...
January 3, 2023: Autophagy
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