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Talk: Plasmids: copy number control by antisense RNAs (47 min)

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DETAILED SLIDE INDEX

  1. 1. Introduction
  2. 2. Outline
  3. 3. The plasmid lifestyle
  4. 4. Plasmids don't want to get lost
  5. 5. Plasmids run a high risk of getting lost
  6. 6. Negative feedback control of plasmid replication
  7. 7. Plasmid R1
  8. 8. General properties
  9. 9. Copy number control of plasmid R1
  10. 10. Indirect inhibition and translational coupling
  11. 11. Interaction between folded RNAs
  12. 12. Copy number control of ColE1-type plasmids
  13. 13. Regulation by induced RNA folding change
  14. 14. Copy number control of plasmid pIP501
  15. 15. RNAIII induces transcription termination
  16. 16. Copy number control of IncI-alpha/IncB plasmids
  17. 17. Inhibition of activator pseudoknot
  18. 18. Different mechanisms - same principle
  19. 19. Kinetic control of copy number
  20. 20. Binding pathways - a hierarchy of steps
  21. 21. The CopA/CopT four helix junction structure
  22. 22. Special tricks for fast RNA-RNA recognition
  23. 23. Helper proteins
  24. 24. Acknowledgements
  25. 25. END

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TALK'S CITATION

Wagner, G. (2008), "Plasmids: copy number control by antisense RNAs", in Clewell, D. (ed.), Biology and Significance of Plasmids: A multi-talk discussion of extrachromosomal elements in microorganisms, The Biomedical & Life Sciences Collection, Henry Stewart Talks Ltd, London (online at http://hstalks.com/?t=BL0461746)

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ABOUT THIS TALK

Speaker(s)

Prof. Gerhart Wagner Show Biography

SPEAKER BIOGRAPHY

Prof. Gerhart Wagner – Uppsala University, Sweden

Gerhart Wagner is a Professor of Prokaryote Microbiology in the Department of Cell and Molecular Biology at Uppsala University in Sweden. His work is concerned with the many roles that small RNAs play in fundamental life processes.

Publication Date

January, 2008

Topics Covered

Negative feedback control of plasmid replication... more

TOPICS COVERED IN THIS TALK

  • Negative feedback control of plasmid replication
  • General properties of plasmids
  • Plasmid R1
  • Copy number control of plasmid R1
  • Inhibition and translational coupling
  • Interaction between folded RNAs
  • Copy number control of ColE1-type plasmids
  • Regulation by induced RNA folding change
  • Copy number control of plasmid pIP501
  • RNAIII induces transcription termination
  • Copy number control of IncIa/IncB plasmids
  • Inhibition of activator pseudoknot
  • Kinetic control of copy number
  • Binding pathways: a hierarchy of steps
  • The CopA/CopT four helix junction structure
  • Fast RNA-RNA recognition
  • Helper proteins

Series

Biology and Significance of Plasmids

OTHER TALKS IN THIS SERIES

INTRODUCTION AND GENERAL PROPERTIES OF PLASMIDS
Play '1. Introduction to plasmid biology'
1. Introduction to plasmid biology More info
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TOPICS COVERED IN THIS TALK

  • Ubiquity of plasmids
  • The prokaryotic world
  • Conjugation
  • Common traits encoded by plasmids
  • Conformation
  • Maintenance
  • Classification
  • Higher systems
Play '2. General properties and applications of plasmids'
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TOPICS COVERED IN THIS TALK

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  • Restriction enzymes and their use as analytical tools
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REPLICATION
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3. Plasmids: copy number control by antisense RNAs
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  • Model for plasmid rolling-circle replication
  • Initiation and termination of replication in plasmids carrying two pT181 dsos
  • DNA sequence and structure of the pT181 origin
  • Initiator proteins of RCR plasmids
  • Comparison of the replication origins of the plasmids of pT181 family
  • Rep-DNA specificity
  • Role of individual monomers of the Rep protein
  • Purification of RepC heterodimers
  • PcrA helicase
  • Role of PcrA helicase in plasmid RC replication
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  • Lagging-strand replication
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  • The end replication problem and solutions
  • Replication of linear DNA in Streptomyces species using terminal proteins
  • Replication of linear DNA in Borrelia species using telomere resolution
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MAINTENANCE AND PARTITIONING
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6. Plasmid segregation and stability in bacteria More info
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TOPICS COVERED IN THIS TALK

  • Mechanisms of plasmid segregation and partition reactions
  • Types of plasmid partition systems in bacteria
  • ParA partition ATPases
  • Structural biology of partition-site binding proteins
  • Chromosome dynamics
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  • The plasmid R1 hok/sok system
  • The plasmid pAD1 par system
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8. Dimer catastrophes and plasmid resolution More info
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TOPICS COVERED IN THIS TALK

  • Multicopy plasmid inheritance
  • The causes of plasmid instability
  • Plasmid multimer formation and the dimer catastrophe
  • Plasmid dimer resolution by site-specific recombination
  • The Rcd checkpoint and its role in multicopy plasmid stability
CONJUGATION AND MOBILIZATION
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TOPICS COVERED IN THIS TALK

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  • The mechanism and key components of conjugation
  • The mating channel
  • The complex between TrwC and its substrate DNA
  • The relaxosome
  • The diversity of relaxases
  • The IncW family
  • Methods for plasmid classification
  • Plasmid MOB families
  • The NCBI plasmid database
  • Plasmid sequencing
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TOPICS COVERED IN THIS TALK

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  • The sex pheromone system
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TOPICS COVERED IN THIS TALK

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  • VirA and VirG
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GENETIC TRAITS FREQUENTLY ASSOCIATED WITH PLASMIDS
Play '13. Insertion sequences and DNA transposition'
13. Insertion sequences and DNA transposition More info
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TOPICS COVERED IN THIS TALK

  • Insertions sequences
  • A major form of mobile genetic elements in eubacteria and archaebacteria
  • Insertion sequences move via DNA transposition
  • Insertion sequences cause genome changes (insertions, deletions, inversions and chromosome fusions) and facilitate the horizontal transfer of genes
  • Related processes include integration of HIV-1 DNA
Play '14. Plasmids, integrons and the spread of antibiotic resistance'
14. Plasmids, integrons and the spread of antibiotic resistance More info
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TOPICS COVERED IN THIS TALK

  • A description of the integron/gene cassette system
  • Integrons in the general environment
  • Class 1 integron mediated spread of antibiotic resistance genes in pathogens
  • How class 1 integrons work with plasmids and transposons to spread between cells
Play '15. Virulence plasmids'
15. Virulence plasmids More info
Prof. Julian Rood

TOPICS COVERED IN THIS TALK

  • Definition and importance of virulence plasmids
  • Types of virulence plasmids
  • Toxin plasmids
  • The anthrax toxin plasmids
  • Clostridial toxin plasmids
  • Metabolic plasmids
  • Mycolactone biosynthesis by Mycobacterium ulcerans
  • Iron uptake by Vibrio anguillarum
  • Adhesin plasmids
  • Enterotoxigenic E. coli: CFA
  • Enteropathogenic E. coli: BFP
  • Linear plasmids of Borrelia
  • Other virulence plasmids
  • Shigella: type III secretion system, ipa genes
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  • Bacillus anthracis is the causative agent of anthrax
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  • The chloro-catechol orthocleavage pathway
  • Catabolic pathways/genes in 2,4-D degradation
  • Chemostatic evolution of 2,4,5-T degradative genes
  • Unusual genomic structure of the 2,4,5-T genes
  • Sequence characteristics of the clc element
  • Evolution of s-triazine degradative plasmids
  • Azurin interaction with different targets
  • Structural features of azurin and immunoglobulins
  • Secretion of azurin upon exposure to cancer cells
  • Sequences in released extrachromosomal DNA
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TOPICS COVERED IN THIS TALK

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  • The need for an active partitioning system for the segregation of a high copy plasmid
  • Coupling between plasmid segregation and chromosome segregation
  • Poaching of host factors required for chromosome segregation by the plasmid partitioning system
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  • Why are plasmids important?
  • Plasmids and gene exchange
  • Pseudomonas plasmids illustrate diversity through modular structures
  • Plasmid backbones and their building blocks
  • IncP-1 plasmids as an example of sophisticated circuitry to extend host range and minimize burden on host

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