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Related Concept Videos

Modern Molecular Taxonomy01:29

Modern Molecular Taxonomy

Advancements in molecular biology have revolutionized the identification and characterization of bacteria, with multiple methods leveraging DNA sequencing for enhanced precision. As sequencing technologies improve and costs decline, these approaches are increasingly used in clinical, environmental, and evolutionary studies.Multilocus Sequence Typing (MLST) examines several housekeeping genes, essential chromosomal genes encoding cellular functions, to distinguish strains. Approximately...

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Related Experiment Video

Updated: Jul 11, 2026

Hybrid De Novo Genome Assembly for the Generation of Complete Genomes of Urinary Bacteria using Short- and Long-read Sequencing Technologies
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Optical mapping as a routine tool for bacterial genome sequence finishing.

Phil Latreille1, Stacie Norton, Barry S Goldman

  • 1Monsanto Company, 800 North Lindbergh Boulevard St. Louis, MO 63167, USA. jplatre@monsanto.com

BMC Genomics
|September 18, 2007
PubMed
Summary

Optical mapping technology resolves bacterial genome assembly challenges, including sequence repeats and inversions. This method, combined with 454 sequencing, efficiently produces complete genome sequences.

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Area of Science:

  • Genomics
  • Microbial genetics

Background:

  • Genome sequencing of Xenorhabdus species revealed significant sequence repeats and assembly anomalies.
  • A 12 Kb region with >99.9% identity between plasmid and chromosome in X. nematophila complicated assembly.

Purpose of the Study:

  • To address challenges in bacterial genome finishing caused by sequence repeats and assembly anomalies.
  • To evaluate the utility of optical mapping in bacterial genome assembly.

Main Methods:

  • Whole genome restriction mapping using optical mapping technology.
  • 454 sequencing data integration.

Main Results:

  • Optical mapping successfully resolved sequence assembly problems and closed the genome.
  • A large inversion in a previously considered finished genome assembly was identified and corrected.
  • Rapid generation of ordered and oriented contigs was achieved.

Conclusions:

  • Optical mapping is a valuable tool for bacterial genome sequence finishing.
  • Combining optical mapping with 454 sequencing provides an efficient and cost-effective method for near-complete bacterial genome assembly.