Origin, duplication and reshuffling of plasmid genes: Insights from Burkholderia vietnamiensis G4 genome

Isabel Maida; Marco Fondi; Valerio Orlandini; Giovanni Emiliani; Maria Cristiana Papaleo; Elena Perrin; Renato Fani

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Origin, duplication and reshuffling of plasmid genes: Insights from Burkholderia vietnamiensis G4 genome

机译：质粒基因的起源，复制和改组：来自越南伯克霍尔德菌G4基因组的见解

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Usingacomputationalpipelinebasedonsimilaritynetworksreconstructionweanalysedthe1133genesoftheemBurkholderiavietnamiensis/em(emBv)/emG4fiveplasmids,showingthatgeneandoperonduplicationplayedanimportantroleinshapingtheplasmidarchitecture.Severalsingle/multipleduplicationsoccurringatintra-and/orinterplasmidslevelinvolving253paralogousgenes(stand-alone,clusteredoroperons)weredetected.Anextensivegene/operonexchangebetweenplasmidsandchromosomeswasalsodisclosed.Thelargertheplasmid,thehigherthenumberandsizeofparalogousfragments.Manyparalogsencodedmobilegeneticelementsandduplicatedveryrecently,suggestingthattherearrangementoftheemBv/emplasticgenomeisongoing.Concerningtheldquo;molecularhabitatrdquo;andtheldquo;taxonomicalstatusrdquo;(thePreferentialOrganismalSharing)ofemBv/emplasmidgenes,mostofthemhavebeenexchangedwithotherplasmidsofbacteriabelonging(orphylogeneticallyveryclose)toemBurkholderia/em,suggestingthattaxonomicalproximityofbacterialstrainsisacrucialissueinplasmid-mediatedgeneexchange./p/div

机译：Usingacomputationalpipelinebasedonsimilaritynetworksreconstructionweanalysedthe1133genesofthe Burkholderiavietnamiensis （ BV） G4fiveplasmids，showingthatgeneandoperonduplicationplayedanimportantroleinshapingtheplasmidarchitecture.Severalsingle / multipleduplicationsoccurringatintra-和/ orinterplasmidslevelinvolving253paralogousgenes（独立，clusteredoroperons）weredetected.Anextensivegene / operonexchangebetweenplasmidsandchromosomeswasalsodisclosed.Thelargertheplasmid，thehigherthenumberandsizeofparalogousfragments.Manyparalogsencodedmobilegeneticelementsandduplicatedveryrecently，suggestingthattherearrangementofthe BV plasticgenomeisongoing.Concerningtheldquo; molecularhabitatrdquo; andtheldquo; taxonomicalstatusrdquo;（thePreferentialOrganismalSharing）的 BV plasmidgenes，mostofthemhavebeenexchangedwithotherplasmidsofbacteriabelonging（orphylogeneticallyveryclose）至伯克霍尔德，suggestingthattaxonomicalproximityofbacterialstrainsisacrucialissueinplasmid医科iatedgeneexchange。 展开▼

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《Genomics》 |2014年第2014期|共页

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Isabel Maida; Marco Fondi; Valerio Orlandini; Giovanni Emiliani; Maria Cristiana Papaleo; Elena Perrin; Renato Fani;
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中图分类医学遗传学;

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1. Origin, duplication and reshuffling of plasmid genes: Insights from Burkholderia vietnamiensis G4 genome [J] . MaidaI., FondiM., OrlandiniV., Genomics . 2014,第2a3期

机译：质粒基因的起源，复制和改组：来自越南伯克霍尔德菌G4基因组的见解

2. Origin, duplication and reshuffling of plasmid genes: Insights from Burkholderia vietnamiensis G4 genome [J] . MaidaI., FondiM., OrlandiniV., Genomics . 2014,第2a3期

机译：质粒基因的起源，重复和重新装潢：来自Burkholderia Vietnamiensis G4基因组的见解

3. Differential Expression and PAH Degradation: What Burkholderia vietnamiensis G4 Can Tell Us? [J] . Guilherme Pinto Cauduro, Ana Lusia Leal, Tiago Falcón Lopes, International Journal of Microbiology . 2020,第3期

机译：差异表达和PAH降解：Burkholderia Vietnamiensis G4可以告诉我们什么？

4. Comparison between linear chromosomes in terms of duplicate genes: implication of whole genome duplication in yeast [C] . Satoshi Fukuchi, Ken Nishikawa, Katsuhisa Horimoto Workshop on Genome Informatics . 2001

机译：在二份基因方面线性染色体之间的比较：酵母中全基因组重复的含义

5. Polyploid origins, experimental evolution of gene duplicates, and duplication and divergence of reproductive genes [D] . Holloway, Alisha Kay 2004

机译：多倍体起源，基因复制品的实验进化以及生殖基因的复制和发散

6. A Novel Inducible Prophage from Burkholderia vietnamiensis G4 Is Widely Distributed across the Species and Has Lytic Activity against Pathogenic Burkholderia [O] . Rebecca Weiser, Zhong Ling Yap, Ashley Otter, 2020

机译：越南伯克霍尔德菌G4的新型诱导性噬菌体广泛分布于整个物种并具有针对病原性伯克霍尔德菌的溶菌活性

7. Origin, duplication and reshuffling of plasmid genes: Insights from Burkholderia vietnamiensis G4 genome [O] . Maida Isabel, Fondi Marco, Orlandini Valerio, 2014

机译：质粒基因的起源，复制和改组：来自越南伯克霍尔德菌G4基因组的见解

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2. 洋葱伯克霍尔德菌T1828质粒消除方法及条件 [J] . 钟义军 ,吴晓玉 ,刘好桔 . 微生物学通报 . 2011,第006期

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4. 越南伯克霍尔德氏菌B418杀线虫活性产物的分离鉴定 [J] . 王贻莲 ,陈凯 ,李哲 . 植物保护 . 2014,第004期

5. 越南伯克霍尔德氏菌B418杀线虫活性产物的稳定性研究 [J] . 王贻莲 ,郭凯 ,陈凯 . 湖北农业科学 . 2014,第005期

6. 新洋葱伯克霍尔德氏菌AU-1054菌株的三条染色体上必需基因的异常分布 [C] . 郭锋彪 ,宁绿文 ,黄健 . 2011中国遗传学会大会 . 2011

7. 颖壳伯克霍尔德菌基因组分析及水平转移基因的筛选 [A] . 王赛 . 2019

1. 一株伯克霍尔德氏菌、包括伯克霍尔德氏菌的菌剂、菌肥及制备方法和应用 [P] . 中国专利： CN113355262A . 2021-09-07

2. 一株伯克霍尔德氏菌、包括伯克霍尔德氏菌的菌剂、菌肥及制备方法和应用 [P] . 中国专利： CN113278551A . 2021-08-20

3. METHOD OF INSERTION OF THE FOREIGN GENES TO GENOMES OF GRAM-NEGATIVE MICROORGANISMS, PLASMID VECTOR PKC 47M FOR INSERTION OF FOREIGN GENES TO GENOMES OF GRAM-NEGATIVE MICROORGANISMS, METHOD OF PLASMID VECTOR PKC 47M CONSTRUCTING [P] . 外国专利： RU2092556C1 . 1997-10-10

机译：将外来基因插入革兰氏阴性微生物的基因组的方法，质粒矢量PKC 47M用于将外来基因插入革兰氏阴性微生物的基因组的方法，质粒矢量PKC 47M

4. VIRAL GENOME FRAGMENT OF CHICKEN K STRAIN VARIOLA WHICH CONTAINS THYMIDINE KINASE GENE, pTK1FPV AND pTK2FPV RECOMBINANT PLASMID DNAs WHICH CONTAIN THIS SEQUENCE, AND pINTFPV1 RECOMBINANT PLASMID DNA WHICH IS ABLE TO INTEGRATE INTO VIRAL GENOME OF CHICKEN VARIOLA [P] . 外国专利： RU2180352C2 . 2002-03-10

机译：包含该序列的胸腺激酶基因，pTK1FPV和pTK2FPV重组质粒DNA的鸡K株变异株的病毒基因片段，以及可整合进鸡中的pINTFPV1重组质粒DNA的病毒基因组片段。

5. Stable strains of xylose and arabinose fermenting zymomonas mobilis, transposon for insertion, stable of alien genes within a bacterial genome, plasmid vector containing said transposon, bacteria transformed with said plasmid, vector pzb1862-idhl-ara atcc with ascension number pta-1798, transposable element mini-tn5-tal / tkt-xilaxilb atcc with ascension number pta-1795, bacterium strain g8 atcc with ascension number pta-1796, bacterium strain c25 atcc with ascension number pta-1799, ax atcc bacterial strain with ascension number pta-1797, reaction mixture comprising fermentable medium [P] . 外国专利： BR0110987A . 2006-02-07

机译：木糖和阿拉伯糖发酵的运动发酵单胞菌的稳定菌株，用于插入的转座子，细菌基因组内的外源基因稳定，含有所述转座子的质粒载体，用所述质粒转化的细菌，载体pzb1862-idhl-ara atcc，提升编号pta-1798，可转座元件编号：tn5-tal / tkt-xilaxilb atcc，升序编号为pta-1795，细菌菌株g8 atcc，升序编号为pta-1796，细菌菌株c25 atcc，升序编号为pta-1799，ax atcc细菌菌株，编号为pta-1797 ，包含可发酵培养基的反应混合物

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Origin, duplication and reshuffling of plasmid genes: Insights from Burkholderia vietnamiensis G4 genome

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