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Characterization of a Pathogenic Escherichia coli Strain Derived from Oreochromis spp. Farms Using Whole-Genome Sequencing
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Genetics
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JoVE Journal Genetics
Characterization of a Pathogenic Escherichia coli Strain Derived from Oreochromis spp. Farms Using Whole-Genome Sequencing

Characterization of a Pathogenic Escherichia coli Strain Derived from Oreochromis spp. Farms Using Whole-Genome Sequencing

DOI:
10.3791/64404-v

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09:44 min

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December 23, 2022

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, , ,
1Unidad de Investigaciones en Salud Pública “Dra. Kaethe Willms”, Facultad de Ciencias Químico Biológicas,Universidad Autónoma de Sinaloa, 2Centro de Investigación en Alimentación y Desarrollo, A. C. (CIAD),Unidad Mazatlán en Acuicultura y Manejo Ambiental

Chapters

  • 00:04Introduction
  • 01:32DNA Library Preparation
  • 04:15Library Pooling, Denaturalizing, Sequencer Initiating
  • 07:05Sequence Data Analysis
  • 08:07Results: Circular Map and Subsystem Distribution of Draft Genome of E. coli ACM5
  • 09:15Conclusion

Summary

Automatic Translation

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The feasibility of whole-genome sequencing (WGS) strategies using benchtop instruments has simplified the genome interrogation of every microbe of public health relevance in a lab setting. A methodological adaptation of the workflow for bacterial WGS is described and a bioinformatics pipeline for analysis is also presented.

Tags

Keywords: Whole-genome SequencingWGSAntimicrobial ResistancePathogenic Escherichia ColiOreochromis Spp. FarmsNext-generation SequencingDNA ExtractionTagmentationIndexingPCRMagnetic Bead Purification

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