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Related Concept Videos

Plasmids01:28

Plasmids

Plasmids are extrachromosomal DNA molecules found in bacteria, archaea, and some eukaryotic microbes like yeast. These small, circular DNA structures typically contain fewer than 30 genes, although some may exist linearly. Plasmids vary in their number within a cell, known as copy number. Single-copy plasmids are present in one copy per cell and multi-copy plasmids are present in multiple copies, reaching over 100 copies per cell.Plasmids usually replicate independently of the chromosomal DNA...

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Predicting plasmid promiscuity based on genomic signature.

Haruo Suzuki1, Hirokazu Yano, Celeste J Brown

  • 1Department of Biological Sciences, University of Idaho, Moscow, ID 83844-3051, USA.

Journal of Bacteriology
|September 21, 2010
PubMed
Summary

Researchers inferred the evolutionary host range of bacterial plasmids by analyzing their genomic signatures. This method accurately predicted known host ranges and identified plasmids with broad or promiscuous evolutionary histories.

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Area of Science:

  • Microbiology
  • Genomics
  • Evolutionary Biology

Background:

  • Self-transmissible plasmids significantly contribute to bacterial evolution.
  • The evolutionary host range of these plasmids remains poorly understood.
  • Plasmids often acquire the genomic signature of their current host.

Purpose of the Study:

  • To infer the evolutionary host range of self-transmissible plasmids.
  • To assess the utility of genomic signatures for predicting plasmid host range.
  • To investigate the evolutionary history of various plasmid incompatibility (Inc) groups.

Main Methods:

  • Compared plasmid trinucleotide composition (genomic signature) to bacterial chromosomal signatures.
  • Utilized taxonomic classification and genetic distance to determine candidate hosts.
  • Validated the method on plasmids with known narrow and broad host ranges (IncF, IncI, IncH, IncN, IncP, IncW).

Main Results:

  • Accurately predicted known host ranges for IncF, IncI, IncH, IncN, and IncP plasmids.
  • Identified IncP plasmids as having a broad evolutionary host range.
  • Suggested promiscuous nature for IncW and other plasmids lacking host chromosomal similarity.
  • Highlighted IncA/C, IncP-9, and IncL/M plasmids for further investigation.

Conclusions:

  • Genomic signature analysis is a valuable tool for predicting plasmid evolutionary host range.
  • This method aids in understanding the host interactions of mobile genetic elements.
  • High-throughput sequencing facilitates the prediction of host ranges for novel mobile elements.