大肠杆菌供体菌株ST18和MFD的全基因组序列
Complete Genome Sequences of the Escherichia coli Donor Strains ST18 and MFD.
作者信息
Jackson Simon A, Fellows Bridget J, Fineran Peter C
机构信息
Department of Microbiology and Immunology, University of Otago, Dunedin, New Zealand
Genetics Otago, University of Otago, Dunedin, New Zealand.
出版信息
Microbiol Resour Announc. 2020 Nov 5;9(45):e01014-20. doi: 10.1128/MRA.01014-20.
Abstract
ST18 and MFD are donors commonly used to transfer -containing plasmids to diverse bacteria via conjugation. ST18 and MFD were constructed via multiple genetic manipulations involving several strains. Here, we used Illumina and Nanopore sequencing to determine the complete genomes of these widely used strains.
摘要
ST18和MFD是常用的供体，可通过接合作用将含质粒转移到多种细菌中。ST18和MFD是通过涉及多个菌株的多次基因操作构建而成的。在这里，我们使用Illumina和Nanopore测序来确定这些广泛使用的菌株的完整基因组。
相似文献
1
Complete Genome Sequences of the Escherichia coli Donor Strains ST18 and MFD.大肠杆菌供体菌株ST18和MFD的全基因组序列
Microbiol Resour Announc. 2020 Nov 5;9(45):e01014-20. doi: 10.1128/MRA.01014-20.
2
A new family of mobilizable suicide plasmids based on broad host range R388 plasmid (IncW) and RP4 plasmid (IncPalpha) conjugative machineries and their cognate Escherichia coli host strains.基于广宿主范围R388质粒（IncW）和RP4质粒（IncPα）接合机制及其同源大肠杆菌宿主菌株构建的可移动自杀质粒新家族。
Res Microbiol. 2005 Mar;156(2):245-55. doi: 10.1016/j.resmic.2004.09.007.
3
Escherichia coli F plasmid transfers to and replicates within Legionella pneumophila: an alternative to using an RP4-based system for gene delivery.大肠杆菌F质粒转移至嗜肺军团菌并在其中复制：一种替代基于RP4系统进行基因传递的方法。
Plasmid. 1994 Nov;32(3):280-94. doi: 10.1006/plas.1994.1067.
4
Role and specificity of plasmid RP4-encoded DNA primase in bacterial conjugation.质粒RP4编码的DNA引发酶在细菌接合中的作用与特异性
J Bacteriol. 1986 Jul;167(1):12-7. doi: 10.1128/jb.167.1.12-17.1986.
5
Conjugative transfer of RP4-oriT shuttle vectors from Escherichia coli to Clostridium perfringens.RP4-oriT穿梭载体从大肠杆菌到产气荚膜梭菌的接合转移。
Plasmid. 1998;39(2):160-4. doi: 10.1006/plas.1997.1325.
6
Use of the rep technique for allele replacement to construct new Escherichia coli hosts for maintenance of R6K gamma origin plasmids at different copy numbers.利用重复技术进行等位基因替换，构建用于在不同拷贝数下维持R6Kγ 复制起点质粒的新型大肠杆菌宿主。
Gene. 1994 Jan 28;138(1-2):1-7. doi: 10.1016/0378-1119(94)90776-5.
7
Conjugal transfer of plasmid pMV158: uncoupling of the pMV158 origin of transfer from the mobilization gene mobM, and modulation of pMV158 transfer in Escherichia coli mediated by IncP plasmids.质粒pMV158的接合转移：转移起始点与动员基因mobM的解偶联，以及IncP质粒介导的大肠杆菌中pMV158转移的调控
Microbiology (Reading). 2000 Sep;146 ( Pt 9):2259-2265. doi: 10.1099/00221287-146-9-2259.
8
Intergeneric conjugation between Escherichia coli and Streptomyces species.大肠杆菌与链霉菌属之间的属间接合作用。
J Bacteriol. 1989 Jun;171(6):3583-5. doi: 10.1128/jb.171.6.3583-3585.1989.
9
Transfer of plasmid RP4 from Escherichia coli K-12 to indigenous bacteria of seawater.质粒RP4从大肠杆菌K-12向海水中本土细菌的转移。
Microb Releases. 1993 Dec;2(3):135-41.
10
Dissection of IncP conjugative plasmid transfer: definition of the transfer region Tra2 by mobilization of the Tra1 region in trans.IncP 接合型质粒转移的剖析：通过反式转移 Tra1 区域来定义转移区域 Tra2
J Bacteriol. 1992 Apr;174(8):2493-500. doi: 10.1128/jb.174.8.2493-2500.1992.
引用本文的文献
1
Birmingham-group IncP-1 plasmids revisited: RP4, RP1 and RK2 are identical and their remnants can be detected in environmental isolates.重新审视伯明翰菌群IncP-1质粒：RP4、RP1和RK2是相同的，并且它们的残余物可在环境分离株中检测到。
Microb Genom. 2025 Mar;11(3). doi: 10.1099/mgen.0.001381.
2
Rewiring Escherichia coli to transform formate into methyl groups.对大肠杆菌进行重新编程，使其将甲酸转化为甲基。
Microb Cell Fact. 2025 Mar 7;24(1):55. doi: 10.1186/s12934-025-02674-4.
3
Structure and mechanism of the Zorya anti-phage defence system.佐里亚抗噬菌体防御系统的结构与机制。
Nature. 2025 Mar;639(8056):1093-1101. doi: 10.1038/s41586-024-08493-8. Epub 2024 Dec 11.
4
An antiplasmid system drives antibiotic resistance gene integration in carbapenemase-producing Escherichia coli lineages.一种抗质粒系统驱动碳青霉烯酶产生大肠杆菌谱系中抗生素抗性基因的整合。
Nat Commun. 2024 May 15;15(1):4093. doi: 10.1038/s41467-024-48219-y.
5
Dissimilar gene repertoires of involved in the colonization of lesions and roots of .参与[植物名称]病斑和根部定殖的不同基因库。 （你提供的原文不完整，缺少具体涉及的植物等关键信息，以上是根据现有内容尽量完善后的译文）
Front Plant Sci. 2023 May 8;14:1154110. doi: 10.3389/fpls.2023.1154110. eCollection 2023.
6
Stringent response ensures the timely adaptation of bacterial growth to nutrient downshift.严格的响应确保了细菌生长对营养下降的及时适应。
Nat Commun. 2023 Jan 28;14(1):467. doi: 10.1038/s41467-023-36254-0.
7
A mobile restriction-modification system provides phage defence and resolves an epigenetic conflict with an antagonistic endonuclease.一种移动限制修饰系统提供了噬菌体防御功能，并解决了与拮抗内切酶的表观遗传冲突。
Nucleic Acids Res. 2022 Apr 8;50(6):3348-3361. doi: 10.1093/nar/gkac147.
8
SorTn-seq: a high-throughput functional genomics approach to discovering regulators of bacterial gene expression.SorTn-seq：一种高通量功能基因组学方法，用于发现细菌基因表达调控因子。
Nat Protoc. 2021 Sep;16(9):4382-4418. doi: 10.1038/s41596-021-00582-6. Epub 2021 Aug 4.
本文引用的文献
1
Deepbinner: Demultiplexing barcoded Oxford Nanopore reads with deep convolutional neural networks.Deepbinner：使用深度卷积神经网络对带有条形码的牛津纳米孔读取进行多路分解。
PLoS Comput Biol. 2018 Nov 20;14(11):e1006583. doi: 10.1371/journal.pcbi.1006583. eCollection 2018 Nov.
2
Minimap2: pairwise alignment for nucleotide sequences.Minimap2：核苷酸序列的两两比对。
Bioinformatics. 2018 Sep 15;34(18):3094-3100. doi: 10.1093/bioinformatics/bty191.
3
NanoPack: visualizing and processing long-read sequencing data.NanoPack：可视化和处理长读测序数据。
Bioinformatics. 2018 Aug 1;34(15):2666-2669. doi: 10.1093/bioinformatics/bty149.
4
RefSeq: an update on prokaryotic genome annotation and curation.RefSeq：原核生物基因组注释和管理的最新进展。
Nucleic Acids Res. 2018 Jan 4;46(D1):D851-D860. doi: 10.1093/nar/gkx1068.
5
Unicycler: Resolving bacterial genome assemblies from short and long sequencing reads.单轮循环器：从短读长和长读长测序数据中解析细菌基因组组装结果
PLoS Comput Biol. 2017 Jun 8;13(6):e1005595. doi: 10.1371/journal.pcbi.1005595. eCollection 2017 Jun.
6
NCBI prokaryotic genome annotation pipeline.美国国立生物技术信息中心原核生物基因组注释管道
Nucleic Acids Res. 2016 Aug 19;44(14):6614-24. doi: 10.1093/nar/gkw569. Epub 2016 Jun 24.
7
Inexpensive multiplexed library preparation for megabase-sized genomes.用于兆碱基大小基因组的低成本多重文库制备。
PLoS One. 2015 May 22;10(5):e0128036. doi: 10.1371/journal.pone.0128036. eCollection 2015.
8
Poretools: a toolkit for analyzing nanopore sequence data.Poretools：一个用于分析纳米孔序列数据的工具包。
Bioinformatics. 2014 Dec 1;30(23):3399-401. doi: 10.1093/bioinformatics/btu555. Epub 2014 Aug 20.
9
Trimmomatic: a flexible trimmer for Illumina sequence data.Trimmomatic：一款适用于 Illumina 测序数据的灵活修剪工具。
Bioinformatics. 2014 Aug 1;30(15):2114-20. doi: 10.1093/bioinformatics/btu170. Epub 2014 Apr 1.
10
Fast gapped-read alignment with Bowtie 2.快速缺口读对准与 Bowtie 2。
Nat Methods. 2012 Mar 4;9(4):357-9. doi: 10.1038/nmeth.1923.
Zotero 插件