Systems Biology of Bacteria

Systems Biology of Bacteria

1st Edition - November 28, 2012

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  • Editors: Anil Wipat, Colin Harwood
  • eBook ISBN: 9780124072015
  • Hardcover ISBN: 9780080993874

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Focusing on the systems biology of bacteria and microorganisms, the 39th volume of Methods in Microbiology investigates the interface between molecular biology, bioinformatics, and modelling and predicting behavior. This cutting-edge research area is of extreme importance to the field and is developing quickly.

Key Features

  • Written by research experts in the field
  • Provides a guide for lab scientists, researchers, and students
  • Focuses on up-to-date research methods


Microbiologists, lab researchers, students


Table of Contents

  • Series Page

    Series Advisors


    Chapter 1. High-resolution temporal analysis of global promoter activity in Bacillus subtilis

    1. Introduction

    2. Gene Fusion Technology

    3. Reporter proteins

    4. Cellular Placement of Transcriptional Fusions

    5. Choice of System

    6. Use of Promoter Fusions to Study Biological Processes at High Temporal Resolution in Bacteria

    7. Methodology for High-throughput Analysis of Promoter Activity with Fine Temporal Resolution in B. subtilis

    8. Conclusions


    Chapter 2. Data mining for microbiologists

    1. Introduction

    2. What is Data Mining?

    3. The Data Mining Process

    4. Inferential Techniques

    5. Machine Learning Techniques

    6. The Role of eScience

    7. Case Study: Data Mining for Protein Function Prediction

    8. Data Mining with Microbial Data: Practical Issues

    9. Conclusions


    Chapter 3. Proteomics


    1. Introduction

    2. Absolute Quantification Workflows in Proteomics

    3. The Proteomics Workflow

    4. Generation of Absolute Quantitative Data by Targeted Mass Spectrometry

    5. Generation of Large-Scale Relative Proteomics Data: Differential 2D Gel Image Analysis

    6. Large-Scale Absolute Quantitative Proteomics with SRM-Calibrated 2D PAGE


    Chapter 4. Imaging fluorescent protein fusions in live bacteria

    1. Introduction

    2. Molecular Toolkits

    3. Functional Analysis

    4. Growth Conditions

    5. Agarose Slide Preparation

    6. Imaging Hardware

    7. Imaging Software

    8. Image Processing

    9. Concluding Remarks


    Chapter 5. Targeted and quantitative metabolomics in bacteria

    1. Introduction

    2. Cultivation of Bacteria for Metabolome Analysis

    3. Sampling Bacterial Cultures for Metabolome Analysis

    4. Extraction of Metabolites from Bacteria

    5. Analysis by Mass Spectrometry

    6. Interpretation of Metabolite Data

    7. Outlook


    Chapter 6. Array-based approaches to bacterial transcriptome analysis

    1. Introduction

    2. Prior Considerations

    3. Performing the Experiments

    4. Data Analysis

    5. Final Comments



Product details

  • No. of pages: 200
  • Language: English
  • Copyright: © Academic Press 2012
  • Published: November 28, 2012
  • Imprint: Academic Press
  • eBook ISBN: 9780124072015
  • Hardcover ISBN: 9780080993874

About the Serial Volume Editors

Anil Wipat

Affiliations and Expertise

University of Newcastle upon Tyne

Colin Harwood

Colin Harwwod is a professor at Newcastle University

Affiliations and Expertise

Newcastle University, UK

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