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Metabolism and RNA

Lixin Zhang, Cui Ma, Xiaoying Wang, Siyu He, Qian Li, Yutian Zhou, Ying Liu, Min Zhang, Xiufeng Yu, Xijuan Zhao, Fei Li, Da-Ling Zhu
Abnormal airway smooth muscle cells (ASMCs) proliferation is an important pathological process in airway remodeling contributes to increased mortality in asthma. Mitochondrial dynamics and metabolism have a central role in the maintenance of the cell function. In this study, lipopolysaccharide (LPS)-induced ASMCs proliferative model was used to investigate the effect of mitochondria on the proliferation of ASMCs and the possible mechanism. We used cell and molecular biology to determine the effect of dynamin-related protein 1 (Drp1) on LPS-mediated ASMCs cell cycle progression and glycolysis...
October 14, 2018: Journal of Cellular Physiology
Zhaoju Tian, Shuang Cao, Cheng Li, Mingfang Xu, Huaiqing Wei, Han Yang, Qiyu Sun, Qikui Ren, Le Zhang
PURPOSE: The aim of our study was to validate the sway of long noncoding RNA (lncRNA) plasmacytoma variant translocation 1 (PVT1) on the metabolism and growth of bladder cancer cells by microRNA-31 (miR-31)/cyclin-dependent kinase 1 ( CDK1). METHODS: The Gene Expression Omnibus database was used for analyzing the differentially expressed lncRNA and messenger RNA (mRNA) in bladder cancer tissues, with the highly expressed lncRNA PVT1 and mRNA CDK1 screened out. The expression level of PVT1 was detected by quantitative reverse-transcription polymerase chain reaction, cell viability by Cell Counting Kit-8 assay, cell proliferation and scratch by 5-bromo-2'-deoxyuridine assay, cell migration and invasion by transwell assays, the expression level of CDK1 by immunohistochemistry and western blot analysis, transcription factor targeting by dual-luciferase assay, and the effect of PVT1 on bladder cancer growth by nude mice tumor formation experiment...
October 14, 2018: Journal of Cellular Physiology
Yvonne Knopp, Franziska K Geis, Dirk Heckl, Stefan Horn, Thomas Neumann, Johannes Kuehle, Janine Meyer, Boris Fehse, Christopher Baum, Michael Morgan, Johann Meyer, Axel Schambach, Melanie Galla
The recently discovered CRISPR/Cas9 system is widely used in basic research and is a useful tool for disease modeling and gene editing therapies. However, long-term expression of DNA-modifying enzymes can be associated with cytotoxicity and is particularly unwanted in clinical gene editing strategies. Because current transient expression methods may still suffer from cytotoxicity and/or low efficiency, we developed non-integrating retrovirus-based CRISPR/Cas9 all-in-one particles for targeted gene knockout...
September 13, 2018: Molecular Therapy. Nucleic Acids
Xiuli Jiang, Lei Jiang, Aijing Shan, Yutong Su, Yulong Cheng, Dalong Song, He Ji, Guang Ning, Weiqing Wang, Yanan Cao
BACKGROUND: Effective targeting therapies for common chronic liver disease nonalcoholic steatohepatitis (NASH) are in urgent need. MicroRNA-targeted therapeutics would be potentially an effective treatment strategy of hepatic diseases. Here we investigated the functional role of miR-221/222 and the therapeutic effects of antimiRs-221/222 in NASH mouse models. METHODS: We generated the miR-221/222flox/flox mice on a C57BL/6 J background and the hepatic miR-221/222 knockout (miR-221/222-LKO) mice...
October 10, 2018: EBioMedicine
Shuhan Ji, Hong Xin, Yingchun Li, Emily J Su
INTRODUCTION: Fetoplacental angiogenesis plays a vital role in pregnancy outcome. Vascular endothelial growth factor A (VEGFA) is one major regulator of angiogenesis. It primarily binds to FMS-like tyrosine kinase (FLT1) and kinase insert domain receptor (KDR). In most vascular beds, KDR appears to be the main mediator of angiogenesis. However, the role of both receptors within the human placenta remains unknown. METHODS: Human fetoplacental ECs were isolated/cultured from placentas of full-term, uncomplicated pregnancies after scheduled Cesarean section...
October 2018: Placenta
Fanwei Dai, Zhenjiang Wang, Zhiyi Li, Guoqing Luo, Yi Wang, Cuiming Tang
The aim of this work was to gain insights into the molecular mechanisms and dynamics of the mulberry (Morus atropurpurea) fruit response to Ciboria carunculoides infection. A transcriptomic and proteomic study was carried out based on RNA sequencing and isobaric tags for relative and absolute quantification analysis, respectively. These data were then validated using quantitative real-time PCR and multiple reaction monitoring assays. Comparative analyses revealed that 9.0% of the transcriptome and 20.8% of the proteome were differentially regulated after C...
October 10, 2018: Journal of Proteomics
Jungwook Park, Areum Lee, Hyun-Hee Lee, Inmyoung Park, Young-Su Seo, Jaeho Cha
Sulfolobus species can grow on a variety of organic compounds as carbon and energy sources. These species degrade glucose to pyruvate by the modified branched Entner-Doudoroff pathway. We attempted to determine the differentially expressed genes (DEGs) under sugar-limited and sugar-rich conditions. RNA sequencing (RNA-seq) was used to quantify the expression of the genes and identify those DEGs between the S. acidocaldarius cells grown under sugar-rich (YT with glucose) and sugar-limited (YT only) conditions...
November 2018: Genes & Genomics
Xiao-Xiao Gong, Bing-Yu Yan, Jin Hu, Cui-Ping Yang, Yi-Jian Li, Jin-Ping Liu, Wen-Bin Liao
Tropical plant rubber tree (Hevea brasiliensis) is the sole source of commercial natural rubber and low-temperature stress is the most important limiting factor for its cultivation. To characterize the gene expression profiles of H. brasiliensis under the cold stress and discover the key cold stress-induced genes. Three cDNA libraries, CT (control), LT2 (cold treatment at 4 °C for 2 h) and LT24 (cold treatment at 4 °C for 24 h) were constructed for RNA sequencing (RNA-Seq) and gene expression profiling...
November 2018: Genes & Genomics
Yi Xu, Bingru Huang
Heat and drought stress are primary abiotic stresses confining growth of cool-season grass species during summer. The objective of this study was to identify common molecular factors and metabolic pathways associated with heat and drought responses in creeping bentgrass (Agrostis stolonifera) by comparative analysis of transcriptomic profiles between plants exposed to heat and drought stress. Plants were exposed to heat stress (35/30 °C day/night temperature) or drought stress by withholding irrigation for 21 d in growth chambers...
October 12, 2018: Scientific Reports
Enhui Shen, Xintian Zhu, Shuijin Hua, Hongyu Chen, Chuyu Ye, Longhua Zhou, Qing Liu, Qian-Hao Zhu, Longjiang Fan, Xi Chen
BACKGROUND: Long noncoding RNAs (lncRNAs) are transcripts longer than 200 bp that do not encode proteins but nonetheless have been shown to play important roles in various biological processes in plants. Brassica napus is an important seed oil crop worldwide and the target of many genetic improvement activities. To understand better the function of lncRNAs in regulating plant metabolic activities, we carried out a genome-wide lncRNA identification of lncRNAs in Brassica napus with a focus on lncRNAs involved in lipid metabolism...
October 12, 2018: BMC Genomics
Ying Li, Chao Zhang, Luwei Qin, Dong Li, Guangyuan Zhou, Dejian Dang, Shuaiyin Chen, Tiantian Sun, Rongguang Zhang, Weidong Wu, Yuanlin Xi, Yuefei Jin, Guangcai Duan
Enterovirus 71 (EV71) is the main pathogen of severe hand-foot-mouth disease (HFMD). Long non-coding RNAs (lncRNAs) are recognized as pivotal factors during the pathogenesis of viral infection. However, the critical functions of lncRNAs in EV71⁻host interactions have not been characterized. Here, for the first time, we performed global transcriptome analysis of lncRNA and mRNA expression profiles in EV71-infected human rhabdomyosarcoma (RD) cells and skeletal muscle of mice using second-generation sequencing...
October 11, 2018: Viruses
Natália Manuela Strohmayer Lourencetti, Ivan Rodrigo Wolf, Maria Priscila Franco Lacerda, Guilherme Targino Valente, Cleslei Fernando Zanelli, Mariana Marchi Santoni, Maria José Soares Mendes-Giannini, Francisco Javier Enguita, Ana Marisa Fusco-Almeida
The fermentation process is widely used in the industry for bioethanol production. Even though it is widely used, microbial contamination is unpredictable and difficult to control. The problem of reduced productivity is directly linked to competition for nutrients during contamination. Yeasts representing the Candida species are frequently isolated contaminants. Elucidating the behavior of a contaminant during the fermentation cycle is essential for combatting the contamination. Consequently, the aim of the current study was to better understand the functional and transcriptional behavior of a contaminating yeast Candida tropicalis...
October 11, 2018: AMB Express
Pengfei Liu, Montserrat Rojo de la Vega, Saad Sammani, Joseph B Mascarenhas, Michael Kerins, Matthew Dodson, Xiaoguang Sun, Ting Wang, Aikseng Ooi, Joe G N Garcia, Donna D Zhang
NRF2 regulates cellular redox homeostasis, metabolic balance, and proteostasis by forming a dimer with small musculoaponeurotic fibrosarcoma proteins (sMAFs) and binding to antioxidant response elements (AREs) to activate target gene transcription. In contrast, NRF2-ARE-dependent transcriptional repression is unreported. Here, we describe NRF2-mediated gene repression via a specific seven-nucleotide sequence flanking the ARE, which we term the NRF2-replication protein A1 (RPA1) element (NRE). Mechanistically, RPA1 competes with sMAF for NRF2 binding, followed by interaction of NRF2-RPA1 with the ARE-NRE and eduction of promoter activity...
October 11, 2018: Proceedings of the National Academy of Sciences of the United States of America
Qun Huang, Meiyu Xu, Hailu Zhang, Dan He, Yuting Kong, Lei Chen, Hongbo Song
In present study, the content of main nutrients in wild coix seed were significantly higher than cultivated coix seed. Transcriptome and proteome were combined to provide new insight of the molecular mechanisms linked to nutritional quality of wild coix seed and cultivated coix seed by RNA sequencing and isobaric tags for relative and absolute quantification techniques. A total of 20,039 genes and 471 proteins exhibited differential expression level in cultivated coix seed when compared with wild coix seed...
January 30, 2019: Food Chemistry
Yang Hu, Yanjie Liu, Xiaoran Hao, Dan Wang, Oren Akhberdi, Biyun Xiang, Xudong Zhu
BACKGROUND: The canonical heterotrimeric G protein-cAMP/PKA pathway regulates numerous cellular processes in filamentous fungi. Chaetomium globosum, a saprophytic fungus, is known for producing many secondary metabolites, including cytotoxic chaetoglobosin A (ChA), as well as abundant cellulase and xylanase. RESULTS: Here we report on the functional characterization of this signaling pathway in C. globosum. We blocked the pathway by knocking down the putative Gα-encoding gene gna1 (in the pG14 mutant)...
October 11, 2018: Microbial Cell Factories
Todd A Cameron, Lisa M Matz, Nicholas R De Lay
Almost 60 years ago, Severo Ochoa was awarded the Nobel Prize in Physiology or Medicine for his discovery of the enzymatic synthesis of RNA by polynucleotide phosphorylase (PNPase). Although this discovery provided an important tool for deciphering the genetic code, subsequent work revealed that the predominant function of PNPase in bacteria and eukaryotes is catalyzing the reverse reaction, i.e., the release of ribonucleotides from RNA. PNPase has a crucial role in RNA metabolism in bacteria and eukaryotes mainly through its roles in processing and degrading RNAs, but additional functions in RNA metabolism have recently been reported for this enzyme...
October 2018: PLoS Genetics
Karim Mouzannar, Floriane Fusil, Benoît Lacombe, Anaïs Ollivier, Camille Ménard, Vincent Lotteau, François-Loïc Cosset, Christophe Ramière, Patrice André
Hepatitis B virus (HBV) infection and bile acid (BA) metabolism are interdependent: infection modifies the expression of the BA nuclear receptor farnesoid X receptor (FXR)-α, and modulation of FXRα activity by ligands alters HBV replication. Mechanisms of HBV control by FXRα remain to be unveiled. FXRα silencing in HBV-infected HepaRG cells decreased the viral covalently closed circular (ccc)DNA pool size and transcriptional activity. Treatment with the FXRα agonist GW4064 inhibited FXRα proviral effect on cccDNA similarly for wild-type and hepatitis B viral X protein (HBx)-deficient virus, whereas agonist-induced inhibition of pregenomic and precore RNA transcription and viral DNA secretion was HBx dependent...
October 11, 2018: FASEB Journal: Official Publication of the Federation of American Societies for Experimental Biology
Vasilios G Athyros, Niki Katsiki, Aikaterini Dimakopoulou, Dimitrios Patoulias, Sofia Alataki, Michael Doumas
BACKGROUND: Drugs mimicking natural beneficial mutations, including that for familial hypercholesterolemia (FH), might represent the future of hypolipidemic drug treatment. OBJECTIVE: The aim of this review is to review the properties and the effects of these drugs, which are either already commercially available or are in the process to be approved for the treatment of dyslipidemia. RESULTS: More than a decade ago, it was accidentally discovered that proprotein convertase subtilisin/kexin type 9 (PCSK9) loss-of-function mutations resulted in marked lifelong reduction of LDL-C and the incidence of cardiovascular disease (CVD)...
October 8, 2018: Current Pharmaceutical Design
Weiliang Xiong, Wanli Peng, Rubing Liang
Biodegradation with microorganisms is considered as an efficient strategy to remove the environmental pollutants. In this work, Deinococcus actinosclerus SJTR1 isolated from the wastewater was confirmed with great degradation capability to 17β-estradiol, one typical estrogen chemical. It could degrade nearly 90% of 17β-estradiol (10 mg/L) in 5 days and transform it into estrone; its degradation kinetics fitted for the first-order kinetic equation. The whole genome sequence of D. actinosclerus SJTR1 was obtained and annotated, containing one chromosome (3,315,586 bp) and four plasmids (ranging from 17,267 bp to 460,244 bp)...
October 2018: 3 Biotech
Arun Samidurai, Rakesh C Kukreja, Anindita Das
Mechanistic/mammalian target of rapamycin (mTOR), an atypical serine/threonine kinase of the phosphoinositide 3-kinase- (PI3K-) related kinase family, elicits a vital role in diverse cellular processes, including cellular growth, proliferation, survival, protein synthesis, autophagy, and metabolism. In the cardiovascular system, the mTOR signaling pathway integrates both intracellular and extracellular signals and serves as a central regulator of both physiological and pathological processes. MicroRNAs (miRs), a class of short noncoding RNA, are an emerging intricate posttranscriptional modulator of critical gene expression for the development and maintenance of homeostasis across a wide array of tissues, including the cardiovascular system...
2018: Oxidative Medicine and Cellular Longevity
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