Pathogenic Escherichia coli : evolution, omics, detection and control / edited by Pina M. Fratamico, Yanhong Liu and Christopher H. Sommers.

Format:

Book

Contributor:

Fratamico, Pina M., editor.

Liu, Yanhong, editor.

Sommers, Christopher H., editor.

Language:

English

Subjects (All):

Escherichia coli.

Escherichia coli--Genetics.

Physical Description:

1 online resource (266 pages)

Edition:

1st ed.

Place of Publication:

Norfolk, UK : Caister Academic Press, [2018]

Summary:

Under the expert guidance of the editors in this book, renowned international authors provide timely and up-to-date reviews of current cutting-edge E. coli omics, molecular- and cellular-biology research. Topics range from E. coli genome plasticity and evolution to the application of omics technologies for in silico modeling to understand stress-triggered physiological responses. This authoritative volume is essential reading for scientists, both experts and students, working on pathogenic E. coli in academia, government, and biotechnology companies. It is also a must-read for anyone with an interest in bacterial pathogenesis and an important acquisition for all microbiology libraries.

Contents:

Intro

Contents

Preface

1. Escherichia coli Pathotypes

Introduction

Enteroinvasive Escherichia coli (EIEC)

Diffusely adherent E. coli (DAEC)

Enteropathogenic E. coli (EPEC)

Enteroaggregative E. coli (EAEC)

Enterotoxigenic E. coli (ETEC)

Shiga toxin-producing E. coli (STEC)

Enteroaggregative haemorrhagic E. coli (EAHEC)

Adherent invasive E. coli (AIEC)

Extraintestinal pathogenic E. coli (ExPEC)

Hybrid pathogenic E. coli

Evolution of pathogenic E. coli

Control of pathogenic E. coli

2. Escherichia coli Genome Plasticity and Evolution

The E. coli phylogroups

Development of a genomic framework for the E. coli species

Hallmark features of the species landscape

Intraphylogroup genomic diversity

Refinement of O157:H7 cladistics

Genome architecture and plasticity framework

Genome architecture and plasticity in phylogroup E

Genome architecture and plasticity in phylogroup B1

Gap analysis and landscape bias: future directions

3. Diarrhoeagenic Escherichia coli: Virulence Genes and Other Markers for Detection and Typing

Diagnostic markers for enterotoxigenic E. coli (ETEC)

Diagnostic markers for enteroinvasive E. coli (EIEC)

Diagnostic markers for enteraggregative E. coli (EAEC)

Diagnostic markers for enteropathogenic E. coli (EPEC)

Diagnostic and typing markers for Shiga toxin-producing E. coli (STEC)

4. Extra-intestinal Pathogenic Escherichia coli (ExPEC): Characteristics, Virulence Genes, Detection and Control

ExPEC-associated clinical diseases

Challenges in predicting virulence of individual ExPEC strains

Multidrug resistance amongst ExPEC

Successful clones

Control of ExPEC infections

Detection and characterization

Future trends and challenges.

5. Bacteriophage-based Strategies to Control Pathogenic Escherichia coli in Humans and Animals

Therapeutic use of bacteriophages

Pre-harvest strategies to reduce pathogenic E. coli

Human trials

Future trends

Conclusion

6. New Developments in Detection Technologies for Escherichia coli and Other Pathogenic Organisms

Colorimetric detection methods

Spectroscopic detection methods

Paper-based detection methods

Chip-based detection methods

7. Understanding Pathogenic Escherichia coli Through Whole-genome Sequencing

Genomics to understand the continuum of pathogenic E. coli

Hybrid shigatoxigenic E. coli

WGS-based typing of STEC for surveillance and outbreak investigation

8. Use of Whole-genome Sequencing to Improve Investigations of Outbreaks of Escherichia coli

Historical perspective

Current methods for typing E. coli using WGS data

Outbreak definitions and outbreak detection using SNP typing

Initial evaluation studies

Comparison of WGS with current molecular typing techniques

Robust and timely phylogenetic resolution improves case ascertainment during outbreak

Outbreaks associated with direct contact with animals

Inferring the geographical origin of an isolate from the WGS phylogeny at the national level

Food-borne outbreaks - domestic or non-domestic produce?

Outbreaks caused by STEC other than serotype O157:H7

Outbreaks of DEC other than STEC

Use of long-read sequencing in outbreak investigations

Summary

9. Data Processing of Escherichia coli Genome Sequencing, Characterization and Comparison

Escherichia coli: an introduction

Advances in DNA sequencing technologies

File formats

Genome assembly and annotation

In silico characterization of Escherichia coli

Comparison and visualization of genetic content.

Pan-genome characterization and phylogenetic tools

Future perspectives

10. Culture-independent Sequence-based Approaches for Diagnostics and Food Safety Testing

Approaches to sequencing and analysis of metagenomic samples

Microbial community analysis applications

Strain characterization using shotgun metagenomics

Determining strain relatedness using metagenomic data

Detection sensitivity

Challenges and future directions

11. Use of Omics Technologies to Develop Strategies to Control Escherichia coli from Farm to Table

Shiga toxin-producing E. coli (STEC) as a public health concern

STEC stress responses characterized by omics technologies

STEC response to stresses in the primary production environment

STEC responses to stresses in foods

STEC responses to stresses encountered during food processing

Using microbiome data to characterize interactions between STEC and other bacteria

Using omics data for intervention strategies

12. Application of Omics Technologies for in Silico Modelling to Understand Stress-triggered Physiology of Escherichia coli and to Develop Novel Therapeutics

Background Information

Methods used

Results

Conclusions and discussion

Current Books of Interest

Index.

Notes:

Description based on print version record.

ISBN:

1-910190-78-0