• 文献检索
  • 文档翻译
  • 深度研究
  • 学术资讯
  • Suppr Zotero 插件Zotero 插件
  • 邀请有礼
  • 套餐&价格
  • 历史记录
应用&插件
Suppr Zotero 插件Zotero 插件浏览器插件Mac 客户端Windows 客户端微信小程序
定价
高级版会员购买积分包购买API积分包
服务
文献检索文档翻译深度研究API 文档MCP 服务
关于我们
关于 Suppr公司介绍联系我们用户协议隐私条款
关注我们

Suppr 超能文献

核心技术专利:CN118964589B侵权必究
粤ICP备2023148730 号-1Suppr @ 2026

文献检索

告别复杂PubMed语法,用中文像聊天一样搜索,搜遍4000万医学文献。AI智能推荐,让科研检索更轻松。

立即免费搜索

文件翻译

保留排版,准确专业,支持PDF/Word/PPT等文件格式,支持 12+语言互译。

免费翻译文档

深度研究

AI帮你快速写综述,25分钟生成高质量综述,智能提取关键信息,辅助科研写作。

立即免费体验

应用RNA测序揭示细菌中的转录本概况。

Application of RNA-seq to reveal the transcript profile in bacteria.

作者信息

Pinto A C, Melo-Barbosa H P, Miyoshi A, Silva A, Azevedo V

机构信息

Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Belo Horizonte, MG, Brasil.

出版信息

Genet Mol Res. 2011;10(3):1707-18. doi: 10.4238/vol10-3gmr1554.

DOI:10.4238/vol10-3gmr1554
PMID:21863565
Abstract

The large number of microbial genomes deposited in databanks has opened the door for in-depth studies of organisms, including post-genomics investigations. Thanks to new generation sequencing technology, these studies have made advances that have lead to extraordinary discoveries in bacterial transcriptomics. In this review, we describe bacterial RNA sequencing studies that use these new techniques. We also examined the advantages and biases of these new generation technologies; advances in bioinformatics make it possible to overcome the biases, providing interesting and surprising results.

摘要

数据库中存储的大量微生物基因组为包括后基因组学研究在内的生物体深入研究打开了大门。得益于新一代测序技术,这些研究取得了进展,在细菌转录组学方面带来了非凡的发现。在本综述中,我们描述了使用这些新技术的细菌RNA测序研究。我们还研究了这些新一代技术的优点和偏差;生物信息学的进展使得克服这些偏差成为可能,从而提供了有趣且令人惊讶的结果。

相似文献

1
Application of RNA-seq to reveal the transcript profile in bacteria.应用RNA测序揭示细菌中的转录本概况。
Genet Mol Res. 2011;10(3):1707-18. doi: 10.4238/vol10-3gmr1554.
2
Next generation sequencing of microbial transcriptomes: challenges and opportunities.微生物转录组的下一代测序:挑战与机遇。
FEMS Microbiol Lett. 2010 Jan;302(1):1-7. doi: 10.1111/j.1574-6968.2009.01767.x. Epub 2009 Aug 21.
3
De novo assembly of bacterial transcriptomes from RNA-seq data.利用RNA测序数据对细菌转录组进行从头组装。
Genome Biol. 2015 Jan 13;16(1):1. doi: 10.1186/s13059-014-0572-2.
4
Bacterial RNA Biology on a Genome Scale.基于全基因组水平的细菌 RNA 生物学研究
Mol Cell. 2018 Jun 7;70(5):785-799. doi: 10.1016/j.molcel.2017.12.023. Epub 2018 Jan 18.
5
Accelerating Discovery and Functional Analysis of Small RNAs with New Technologies.利用新技术加速小分子 RNA 的发现和功能分析。
Annu Rev Genet. 2015;49:367-94. doi: 10.1146/annurev-genet-112414-054804. Epub 2015 Oct 14.
6
Ribosomal RNA depletion for massively parallel bacterial RNA-sequencing applications.用于大规模平行细菌RNA测序应用的核糖体RNA去除
Methods Mol Biol. 2011;733:93-103. doi: 10.1007/978-1-61779-089-8_7.
7
SPARTA: Simple Program for Automated reference-based bacterial RNA-seq Transcriptome Analysis.SPARTA:用于基于参考的细菌RNA测序转录组自动分析的简单程序。
BMC Bioinformatics. 2016 Feb 4;17:66. doi: 10.1186/s12859-016-0923-y.
8
Mapping the small RNA interactome in bacteria using RIL-seq.利用 RIL-seq 绘制细菌中的小 RNA 相互作用组。
Nat Protoc. 2018 Jan;13(1):1-33. doi: 10.1038/nprot.2017.115. Epub 2017 Dec 7.
9
RiboRid: A low cost, advanced, and ultra-efficient method to remove ribosomal RNA for bacterial transcriptomics.RiboRid:一种用于细菌转录组学的低成本、先进且超高效率的去除核糖体 RNA 的方法。
PLoS Genet. 2021 Sep 27;17(9):e1009821. doi: 10.1371/journal.pgen.1009821. eCollection 2021 Sep.
10
RNA-Seq for Bacterial Gene Expression.用于细菌基因表达的RNA测序
Curr Protoc Nucleic Acid Chem. 2018 Jun;73(1):e55. doi: 10.1002/cpnc.55. Epub 2018 May 18.

引用本文的文献

1
De novo assembly and annotation of the Amblyomma hebraeum tick midgut transcriptome response to Ehrlichia ruminantium infection.硬蜱属肠道转录组对感染埃立克体感染的从头组装和注释。
PLoS Negl Trop Dis. 2023 Aug 14;17(8):e0011554. doi: 10.1371/journal.pntd.0011554. eCollection 2023 Aug.
2
Transcript Profiling of Nitroxoline-Treated Biofilms Shows Rapid Up-regulation of Iron Acquisition Gene Clusters.硝呋太尔处理生物膜的转录组分析显示铁摄取基因簇的快速上调。
ACS Infect Dis. 2022 Aug 12;8(8):1594-1605. doi: 10.1021/acsinfecdis.2c00206. Epub 2022 Jul 13.
3
Current State and Challenges of the Global Outcomes of Dental Caries Research in the Meta-Omics Era.
元组学时代全球龋齿研究结局的现状与挑战
Front Cell Infect Microbiol. 2022 Jun 17;12:887907. doi: 10.3389/fcimb.2022.887907. eCollection 2022.
4
Subinhibitory concentrations of resveratrol reduce alpha-hemolysin production in Staphylococcus aureus isolates by downregulating saeRS.亚抑菌浓度的白藜芦醇通过下调 saeRS 减少金黄色葡萄球菌分离株的α-溶血素产生。
Emerg Microbes Infect. 2018 Jul 31;7(1):136. doi: 10.1038/s41426-018-0142-x.
5
The oral bacterial microbiome of occlusal surfaces in children and its association with diet and caries.儿童咬合面的口腔细菌微生物群及其与饮食和龋齿的关联。
PLoS One. 2017 Jul 5;12(7):e0180621. doi: 10.1371/journal.pone.0180621. eCollection 2017.
6
New Insights into the Anti-pathogenic Potential of against Based on RNA Sequencing Profiling.基于RNA测序分析对[具体物质]抗[病原体名称]潜力的新见解
Front Microbiol. 2017 Mar 8;8:359. doi: 10.3389/fmicb.2017.00359. eCollection 2017.
7
Ribosomal mutations promote the evolution of antibiotic resistance in a multidrug environment.核糖体突变促进了多药环境中抗生素耐药性的演变。
Elife. 2017 Feb 21;6:e20420. doi: 10.7554/eLife.20420.
8
Transcriptome Analysis of the Intracellular Facultative Pathogen Piscirickettsia salmonis: Expression of Putative Groups of Genes Associated with Virulence and Iron Metabolism.细胞内兼性病原菌鲑鱼立克次氏体的转录组分析:与毒力和铁代谢相关的假定基因群的表达
PLoS One. 2016 Dec 29;11(12):e0168855. doi: 10.1371/journal.pone.0168855. eCollection 2016.
9
Comparative analysis of the Corynebacterium glutamicum transcriptome in response to changes in dissolved oxygen levels.谷氨酸棒杆菌转录组对溶解氧水平变化响应的比较分析。
J Ind Microbiol Biotechnol. 2017 Feb;44(2):181-195. doi: 10.1007/s10295-016-1854-3. Epub 2016 Nov 14.
10
Replicates, Read Numbers, and Other Important Experimental Design Considerations for Microbial RNA-seq Identified Using Bacillus thuringiensis Datasets.使用苏云金芽孢杆菌数据集鉴定微生物RNA测序的重复样本、读数数量及其他重要实验设计考量因素
Front Microbiol. 2016 May 31;7:794. doi: 10.3389/fmicb.2016.00794. eCollection 2016.