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Title:           Dynamic expression of Ralstonia solanacearum virulence factors and metabolism-controlling genes during plant infection
Subject:         BMC Genomics, 2021, doi:10.1186/s12864-021-07457-w
Keywords:        Ralstonia solanacearum,Bacterial wilt,RNAseq,Virulence factors,Dynamic gene expression,Metabolism,T3SS,Effectors,Xylem,Apoplast
Author:          R. Pedro-Jové
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        Title: Background
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       Item: 
        Title: Results
        Destination: sectionASec2
       Item: 
        Title: Conclusions
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     Item: 
      Title: Background
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     Item: 
      Title: Results
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      Children: 
       Item: 
        Title: R. solanacearum transcriptomes reflect four main genetic programmes inside the plant
        Destination: sectionSec3
       Item: 
        Title: R. solanacearum upregulates a variety of virulence factors in planta
        Destination: sectionSec4
       Item: 
        Title: Flagellar genes and the upstream regulators of the T3SS are exclusively up-regulated in the apoplast
        Destination: sectionSec5
       Item: 
        Title: R. solanacearum adapts to the xylem environment by inducing virulence, chemotaxis and nitrogen metabolism genes
        Destination: sectionSec6
       Item: 
        Title: R. solanacearum inhibits a large number of metabolic pathways at late infection stages
        Destination: sectionSec7
       Item: 
        Title: Expression profiles reinforce the existence of specific genetic programmes in the apoplast and the xylem
        Destination: sectionSec8
       Item: 
        Title: R. solanacearum specifically activates different sets of virulence factors in different plant environments
        Destination: sectionSec9
     Item: 
      Title: Discussion
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      Children: 
       Item: 
        Title: R. solanacearum gene expression displays a behavioural differentiation into four plant genetic programmes that develop over time during in planta infection
        Destination: sectionSec11
       Item: 
        Title: T3Es expression is prevalent throughout the in planta infection process, especially in the xylem
        Destination: sectionSec12
       Item: 
        Title: R. solanacearum modulates twitching and swimming in different plant environments
        Destination: sectionSec13
       Item: 
        Title: R. solanacearum specifically activates different nitrogen metabolism genes to thrive in the xylem
        Destination: sectionSec14
       Item: 
        Title: Phytohormone and ROS scavenging enzymes are expressed along the infection
        Destination: sectionSec15
     Item: 
      Title: Conclusion
      Destination: sectionSec16
     Item: 
      Title: Methods
      Destination: sectionSec17
      Children: 
       Item: 
        Title: Bacterial strains and plant growth conditions
        Destination: sectionSec18
       Item: 
        Title: Bacterial sampling
        Destination: sectionSec19
       Item: 
        Title: RNA extraction, sequencing and library preparation
        Destination: sectionSec20
       Item: 
        Title: Read alignment, mapping and differential gene expression analysis
        Destination: sectionSec21
       Item: 
        Title: Gene expression pattern clustering and enrichment analysis
        Destination: sectionSec22
       Item: 
        Title: In planta visualisation of R. solanacearum
        Destination: sectionSec23
       Item: 
        Title: Abbreviations
        Destination: sectionabr1
     Item: 
      Title: Supplementary Information
      Destination: sectionSec24
     Item: 
      Title: Acknowledgements
      Destination: section1
     Item: 
      Title: Authors’ contributions
      Destination: section2
     Item: 
      Title: Funding
      Destination: section3
     Item: 
      Title: Availability of data and materials
      Destination: section4
     Item: 
      Title: Declarations
      Destination: section5
     Item: 
      Title: Ethics approval and consent to participate
      Destination: sectionFPar1
     Item: 
      Title: Consent for publication
      Destination: sectionFPar2
     Item: 
      Title: Competing interests
      Destination: sectionFPar3
     Item: 
      Title: Author details
      Destination: section6
     Item: 
      Title: References
      Destination: sectionBib1
     Item: 
      Title: Publisher’s Note
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    Subject: BMC Genomics, 2021, doi:10.1186/s12864-021-07457-w
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