检索结果-南通市图书馆

SIRT3-mediated inhibition of FOS through histone H3 deacetylation prevents cardiac fibrosis and inflammation

Signal Transduction and Targeted Therapy 2020年第1期5卷 2322-2331页

作者： Xavier Palomer MSilvia Román-Azcona Javier Pizarro-Delgado Ana Planavila Francesc Villarroya Brenda Valenzuela-Alcaraz Fátima Crispi Álvaro Sepúlveda-Martínez Irene Miguel-Escalada Jorge Ferrer JFrancisco Nistal Raquel García Mercy MDavidson Emma Barroso Manuel Vázquez-Carrera Department of Pharmacology Toxicology and Therapeutic ChemistryIBUB(Institut de Biomedicina de la Universitat de Barcelona)Research Institute-Pediatric Research InstituteHospital Sant Joan de Déuand CIBER de Diabetes y Enfermedades Metabólicas Asociadas(CIBERDEM)Faculty of Pharmacy and Food SciencesUniversity of BarcelonaBarcelonaSpain Department of Biochemistry and Molecular Biomedicine IBUB and CIBER Fisiopatología de la Obesidad y Nutrición(CIBEROBN)Faculty of BiologyUniversity of BarcelonaBarcelonaSpain aBCNatal-Barcelona Center for Maternal–Fetal and Neonatal Medicine(Hospital Clínic and Hospital Sant Joan de Deu) Institut d’Investigacions Biomèdiques August Pi i SunyerUniversitat de Barcelonaand Center for Biomedical Research on Rare Diseases(CIBER-ER)BarcelonaSpain Genomic Programming of Betacells Laboratory Institut d’Investigacions August Pi i Sunyer(IDIBAPS)and CIBERDEMBarcelonaSpain Section of Epigenomics and Disease Department of Medicineand National Institute for Health Research(NIHR)Imperial Biomedical Research CentreImperial College LondonLondonUK Servicio de Cirugía Cardiovascular Hospital Universitario Marqués de ValdecillaDepartamento de Ciencias Médicas y QuirúrgicasFacultad de MedicinaUniversidad de CantabriaInstituto de Investigación Marqués de Valdecilla(IDIVAL)Centro de Investigación Biomédica en Red Cardiovascular(CIBERCV)Instituto de Salud Carlos IIISantanderSpain Departamento de Fisiología y Farmacología Facultad de MedicinaUniversidad de CantabriaInstituto de Investigación Marqués de Valdecilla(IDIVAL)SantanderSpain Department of Radiation Oncology Columbia UniversityNew YorkNYUSA

Sirtuin 3(SIRT3)is a deacetylase that modulates proteins that control metabolism and protects against oxidative stress.Modulation of SIRT3 activity has been proposed as a promising therapeutic target for ameliorating metabolic diseases and associated cardiac disturbances.In this study,we investigated the role of SIRT3 in inflammation and fibrosis in the heart using male mice with constitutive and systemic deletion of SIRT3 and human cardiac AC16 cells.SIRT3 knockout mice showed cardiac fibrosis and inflammation that was characterized by augmented transcriptional activity of AP-1.Consistent with this,SIRT3 overexpression in human and neonatal rat cardiomyocytes partially prevented the inflammatory and profibrotic response induced by TNF-α.Notably,these effects were associated with a decrease in the mRNA and protein levels of FOS and the DNA-binding activity of AP-1.Finally,we demonstrated that SIRT3 inhibits FOS transcription through specific histone H3 lysine K27 deacetylation at its promoter.These findings highlight an important function of SIRT3 in mediating the often intricate profibrotic and proinflammatory responses of cardiac cells through the modulation of the FOS/AP-1 pathway.Since fibrosis and inflammation are crucial in the progression of cardiac hypertrophy,heart failure,and diabetic cardiomyopathy,our results point to SIRT3 as a potential target for treating these diseases.

关键词： SIRT3 inflammation cardiac

来源：

维普期刊数据库评论

在线全文

维普期刊数据库

学校读者我要写书评

暂无评论

Effect of micro-algae Schizochytrium sp.supplementation in plant diet on reproduction of female rainbow trout(Oncorhynchus mykiss):maternal programming impact of progeny

引用

Journal of Animal Science and Biotechnology 2022年第4期13卷 1175-1192页

作者： Emilie Cardona Emilien Segret Yoann Cachelou Thibaut Vanderesse Laurence Larroquet Alexandre Hermann Anne Surget Geneviève Corraze Frederic Cachelou Julien Bobe Sandrine Skiba-Cassy INRAE Univ.Pau&Pays AdourE2S UPPANuMéAF-64310Saint Pée-sur-NivelleFrance INRAE UR1037 Fish Physiology and Genomic laboratoryF-35000 RennesFrance Viviers de Sarrance F-64490SarranceFrance Viviers de Rébénacq F-64260RébénacqFrance.

Background:The broodstock diet,and in particular the lipid and fatty acid composition of the diet,is known to play a key role in reproductive efficiency and survival of the progeny in fish.A major problem when replacing both fish meal and fish oil by plant sources is the lack of n-3 long chain polyunsaturated fatty acids,such as eicosapentaenoic acid(EPA)and docosahexaenoic acid(DHA).To address this problem,we studied the effect of the plant-based diet supplemented with Schizochytrium sp.microalgae,source of DHA,compared to a conventional commercial diet rich in fish meal and fish oil on reproductive performance and egg quality and the consequences on progeny,in female rainbow trout broodstock.Results:The results demonstrated that DHA-rich microalgae supplementation in a plant-based diet allowed for the maintenance of reproductive performance and egg quality comparable to a conventional commercial feed rich in fish meal and fish oil and led to an increased significant fry survival after resorption.Moreover,when females were fed a plant-based diet supplemented with micro-algae,the 4-month-old progenies showed a significant higher growth when they were challenged with a similar diet as broodstock during 1 month.We provide evidence for metabolic programming in which the maternal dietary induced significant protracted effects on lipid metabolism of progeny.Conclusions:The present study demonstrates that supplementation of a plant-based diet with DHA-rich microalgae can be an effective alternative to fish meal and fish oil in rainbow trout broodstock aquafeed.

关键词： Egg quality Micro-algae Nutritional programming Plant diet Rainbow trout Reproduction

来源：

维普期刊数据库

同方期刊数据库评论

在线全文

学校读者我要写书评

暂无评论

Opening up the black box of human cell plasticity

引用

The Innovation 2022年第5期3卷 13-14页

作者： Yusheng Cai Juan Carlos Izpisua Belmonte Jing Qu Guang-Hui Liu Weiqi Zhang State Key laboratory of Membrane Biology Institute of ZoologyChinese Academy of SciencesBeijing 100101China State Key laboratory of Stem Cell and Reproductive Biology Institute of ZoologyChinese Academy of SciencesBeijing 100101China CAS Key laboratory of genomic and Precision Medicine Beijing Institute of GenomicsChinese Academy of SciencesBeijing 100101China Institute for Stem Cell and Regeneration Chinese Academy of SciencesBeijing 100101China Beijing Institute for Stem Cell and Regenerative Medicine Beijing 100101China China National Center for Bioinformation Beijing 100101China Gene Expression laboratory Salk Institute for Biological StudiesLa JollaCA 92037USA Advanced Innovation Center for Human Brain Protection National Clinical Research Center for Geriatric DisordersXuanwu Hospital Capital Medical UniversityBeijing 100053China

Cell plasticity represents the ability of cells to acquire new characteristics.Cell plasticity can be reset in somatic cells via cellular reprogramming,a process that occurs in regeneration.However,cell plasticity occurs rarely in humans.Recently,Guan et al.recreated cell plasticity in mature human cells,which they found to be essential for reprogramming human somatic cells to pluripotent stem cells using only small molecules.As the first study demonstrates that chemical compounds can completely reprogram human somatic cells to a pluripotent state,it is a paradigm shift in developing pharmacological or therapeutic reprogramming approaches to control human cells.

关键词： al. plasticity programming

来源：

维普期刊数据库评论

在线全文

维普期刊数据库

学校读者我要写书评

暂无评论

Interactive Web-based Annotation of Plant MicroRNAs with iwa-miRNA

引用

genomics, Proteomics & Bioinformatics 2022年第3期20卷 557-567页

作者： Ting Zhang Jingjing Zhai Xiaorong Zhang Lei Ling Menghan Li Shang Xie Minggui Song Chuang Ma State Key laboratory of Crop Stress Biology for Arid Areas Center of BioinformaticsCollege of Life SciencesNorthwest A&F UniversityYangling 712100China Key laboratory of Biology and Genetics Improvement of Maize in Arid Area of Northwest Region Ministry of Agriculture and Rural AffairsNorthwest A&F UniversityYangling 712100China College of Plant Science Tibet Agricultural and Animal Husbandry UniversityLinzhi 860006China College of Information Engineering Northwest A&F UniversityYangling 712100China

MicroRNAs(miRNAs) are important regulators of gene expression. The large-scale detection and profiling of miRNAs have been accelerated with the development of highthroughput small RNA sequencing(sRNA-Seq) techniques and bioinformatics tools. However,generating high-quality comprehensive miRNA annotations remains challenging due to the intrinsic complexity of sRNA-Seq data and inherent limitations of existing miRNA prediction tools. Here,we present iwa-miRNA, a Galaxy-based framework that can facilitate miRNA annotation in plant species by combining computational analysis and manual curation. iwa-miRNA is specifically designed to generate a comprehensive list of miRNA candidates, bridging the gap between already annotated miRNAs provided by public miRNA databases and new predictions from sRNA-Seq datasets. It can also assist users in selecting promising miRNA candidates in an interactive mode,contributing to the accessibility and reproducibility of genome-wide miRNA annotation. iwamiRNA is user-friendly and can be easily deployed as a web application for researchers without programming experience. With fexible, interactive, and easy-to-use features, iwa-miRNA is a valuable tool for the annotation of miRNAs in plant species with reference genomes. We also illustrate the application of iwa-miRNA for miRNA annotation using data from plant species with varying genomic complexity. The source codes and web server of iwa-miRNA are freely accessible at http://iwa-miRNA.omicstudio.cloud/.

关键词： Galaxy Interactive annotation Manual inspection MicroRNA Platform

来源：

维普期刊数据库

同方期刊数据库评论

在线全文

学校读者我要写书评

暂无评论

Non-viral iPSCs:a safe way for therapy?

引用

Protein & Cell 2012年第4期3卷 241-245页

作者： Weiqi Zhang Di Guan Jing Qu Weizhou Zhang Guang-Hui Liu National laboratory of Biomacromolecules Institute of BiophysicsChinese Academy of SciencesBeijing 100101China laboratory of Gene Regulation and Signal Transduction Department of PharmacologySchool of MedicineUniversity of CaliforniaSan DiegoLa JollaCA 92093USA

Patients-derived induced pluripotent stem cells(iPSCs)pro-vide an invaluable tool to study mechanisms of human dis-eases and also a limitless cellular source for clinical trans-plantation(Takahashi et al.,2007;Yu et al.,2007;Liu et al.,2011a,2011b;Zhang et al.,2012).Retrovirus-or lenti-virus-based delivery systems have been serving as main-stream methods to generate patients-derived iPSCs.How-ever,genomic integrations of reprogramming factors in virally generated iPSCs not only cause insertional mutagenesis but also lead to residual expression of reprogramming factors in iPSCs and their derivatives.

关键词： al. clinical programming

来源：

维普期刊数据库评论

在线全文

维普期刊数据库

学校读者我要写书评

暂无评论

COSINE:A web server for clonal and subclonal structure inference and evolution in cancer genomics

引用

Zoological Research 2022年第1期43卷 75-77页

作者： Xi-Guo Yuan Yuan Zhao Yang Guo Lin-Mei Ge Wei Liu Shi-Yu Wen Qi Li Zhang-Bo Wan Pei-Na Zheng Tao Guo Zhi-Da Li Martin Peifer Yu-Peng Cun School of Computer Science and Technology Xidian UniversityXi'anShaanxi 710071China iFlora Bioinformatics Center Germplasm Bank of Wild SpeciesKunming Institute of BotanyChinese Academy of SciencesKunmingYunan 650201China Yuxi Rongjian Information Technology Co. Ltd.YuxiYunan 653100China Center for Molecular Medicine Cologne(CMMC) University of CologneCologne 50931Germany Pediatric Research Institute Ministry of Education Key Laboratory of Child Development and DisordersNational Clinical Research Center for Child Health and DisordersChina International Science and Technology Cooperation Base of Child Development and Critical DisordersChongqing Key Laboratory of Translational Medical Research in Cognitive Development and Learning and Memory DisordersChildren’s Hospital of Chongqing Medical UniversityChongqing 400014China

Cancer cell genomes originate from single-cell mutation with sequential clonal and subclonal expansion of somatic mutation acquisition during pathogenesis,thus exhibiting a Darwinian evolutionary process(Gerstung et al.,2020;Nik-Zainal et al.,2012).Through next-generation sequencing of tumor tissue,this evolutionary process can be characterized by statistical modelling,which can identify the clonal state,somatic mutation order,and evolutionary process(Gerstung et al.,2020;Mcgranahan&Swanton,2017).Inference of clonal and subclonal structure from bulk or single-cell tumor genomic sequencing data has a huge impact on studying cancer evolution.Clonal state and mutation order can provide detailed insight into tumor origin and future development.In the past decade,various methods for subclonal reconstruction using bulk tumor sequencing data have been developed.However,these methods had different programming languages and data input formats,which limited their use and comparison.Therefore,we established a web server for Clonal and Subclonal Structure Inference and Evolution(COSINE)of cancer genomic data,which incorporated twelve popular subclonal reconstruction methods.We deconstructed each method to provide a detailed workflow of single processing steps with a user-friendly interface.To the best of our knowledge,this is the first web server providing online subclonal inference based on the integration of most popular subclonal reconstruction methods.COSINE is freely accessible at ***.

关键词： .net server COSINE

来源：

维普期刊数据库

同方期刊数据库评论

在线全文

学校读者我要写书评

暂无评论

BioAnalyzer: Bioinformatic Software of Routinely Used Tools for Analysis of genomic Data

引用

Advances in Bioscience and Biotechnology 2019年第3期10卷 33-41页

作者： Peter Tharwat Habib Alsamman Mahmoud Alsamman Aladdin Hamwieh Department of Bioinformatics College of Biotechnology Misr University for Science and Technology 6th of October City Egypt Department of Biotechnology International Center for Agricultural Research in the Dry Areas (ICARDA) Cairo Egypt Department of Genome Mapping Molecular Genetics and Genome Mapping Laboratory Agricultural Genetic Engineering Research Institute Giza Egypt

The massive extension in biological data induced a need for user-friendly bioinformatics tools could be used for routine biological data manipulation. Bioanalyzer is a simple analytical software implements a variety of tools to perform common data analysis on different biological data types and databases. Bioanalyzer provides general aspects of data analysis such as handling nucleotide data, fetching different data formats information, NGS quality control, data visualization, performing multiple sequence alignment and sequence BLAST. These tools accept common biological data formats and produce human-readable output files could be stored on local computer machines. Bioanalyzer has a user-friendly graphical user interface to simplify massive biological data analysis and consume less memory and processing power. Bioanalyzer source code was written through Python programming language which provides less memory usage and initial startup time. Bioanalyzer is a free and open source software, where its code could be modified, extended or integrated in different bioinformatics pipelines. Bioinformatics Produce huge data in FASTA and Genbank format which can be used to produce a lot of annotation information which can be done with Python programming language that open the door form bioinformatics tool due to their elasticity in data analysis and simplicity which inspire us to develop new multiple tool software able to manipulate FASTA and Genbank files. The goal Develop new software uses genomic data files to produce annotated data. Software was written using python programming language and biopython packages.

关键词： Biopython Bioinformatics FASTA Genbank Multiple Sequence Alignment BLAST NCBI Data Visualization

来源：

维普期刊数据库评论

在线全文

维普期刊数据库

学校读者我要写书评

暂无评论

Aberrant DNA methylation reprogramming during induced pluripotent stem cell generation is dependent on the choice of reprogramming factors

引用

Cell Regeneration 2014年第1期3卷 30-43页

作者： Aline C Planello Junfeng Ji Vivek Sharma Rajat Singhania Faridah Mbabaali Fabian Müller Javier A Alfaro Christoph Bock Daniel D De Carvalho Nizar N Batada Campbell Family Cancer Research Institute Ontario Cancer InstitutePrincess Margaret Cancer CentreUniversity Health NetworkTorontoON M5G 2 M9Canada Department of Morphology Piracicaba Dental SchoolUniversity of CampinasPiracicabaSPBrazil Ontario Institute for Cancer Research TorontoOntario M4G 0A3Canada Center of Stem Cell and Developmental Biology Zhejiang UniversityHangzhouZhejiang Province 310058China National Cancer Institute NIHBethesdaMD 20892USA Department of Medical Biophysics University of TorontoTorontoON M5G 2 M9Canada Max Planck Institute for Informatics Campus E1.466123 SaarbrückenGermany CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences Lazarettgasse 141090 ViennaAustria Department of laboratory Medicine Medical University of ViennaWähringer Gürtel 18-201090 ViennaAustria

The conversion of somatic cells into pluripotent stem cells via overexpression of reprogramming factors involvesepigenetic remodeling. DNA methylation at a significant proportion of CpG sites in induced pluripotent stem cells(iPSCs) differs from that of embryonic stem cells (ESCs). Whether different sets of reprogramming factors influencethe type and extent of aberrant DNA methylation in iPSCs differently remains unknown. In order to help resolvethis critical question, we generated human iPSCs from a common fibroblast cell source using either the Yamanakafactors (OCT4, SOX2, KLF4 and cMYC) or the Thomson factors (OCT4, SOX2, NANOG and LIN28), and determinedtheir genome-wide DNA methylation profiles. In addition to shared DNA methylation aberrations present in all ouriPSCs, we identified Yamanaka-iPSC (Y-iPSC)-specific and Thomson-iPSC (T-iPSC)-specific recurrent aberrations.Strikingly, not only were the genomic locations of the aberrations different but also their types: reprogrammingwith Yamanaka factors mainly resulted in failure to demethylate CpGs, whereas reprogramming with Thomsonfactors mainly resulted in failure to methylate CpGs. Differences in the level of transcripts encoding DNMT3b andTET3 between Y-iPSCs and T-iPSCs may contribute partially to the distinct types of aberrations. Finally, de novoaberrantly methylated genes in Y-iPSCs were enriched for NANOG targets that are also aberrantly methylated insome cancers. Our study thus reveals that the choice of reprogramming factors influences the amount, location,and class of DNA methylation aberrations in iPSCs. These findings may provide clues into how to produce humaniPSCs with fewer DNA methylation abnormalities.

关键词： SOX2 programming Thomson

来源：

维普期刊数据库评论

在线全文

维普期刊数据库

学校读者我要写书评

暂无评论

欢迎您,

建议与咨询留下您的常用邮箱和电话号码，以便我们向您反馈解决方案和替代方法

时间限定

文献类型

馆藏选择

核心期刊

语言

文献类型

帮助

文字说明：

检索规则说明：

检索范例：

分类表

所选分类

限定检索结果

文献类型

馆藏范围

日期分布

学科分类号

主题

机构

作者

语言

在线全文

在线全文

在线全文

在线全文

在线全文

在线全文

在线全文

在线全文

请选择保存的检索档案：

请选择收藏分类：

通借通还

欢迎您,

建议与咨询 留下您的常用邮箱和电话号码，以便我们向您反馈解决方案和替代方法

时间限定

文献类型

馆藏选择

核心期刊

语言

文献类型

帮助

文字说明：

检索规则说明：

检索范例：

分类表

所选分类

限定检索结果

文献类型

馆藏范围

日期分布

学科分类号

主题

机构

作者

语言

在线全文

在线全文

在线全文

在线全文

在线全文

在线全文

在线全文

在线全文

请选择保存的检索档案： 新增检索档案 确定 取消

请选择收藏分类： 新增自定义分类 确定 取消

通借通还

建议与咨询留下您的常用邮箱和电话号码，以便我们向您反馈解决方案和替代方法

请选择保存的检索档案：

请选择收藏分类：