book

Bacterial Cellular Metabolic Systems

by K. Shimizu

March 2013

Intermediate to advanced

496 pages

13h 3m

English

Woodhead Publishing

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Abstract:1.1 Introduction1.2 Energy generation in the cell1.3 Carbohydrate metabolism1.4 Respiratory chain pathways1.5 Anaerobic metabolism1.6 Anaerobic respiration1.7 Photosynthesis1.8 Amino acids synthesis1.9 Nucleic acid synthesis and its control1.10 Fatty acid metabolism and degradation1.11 Phosphotransferase system (PTS)1.12 Carbohydrate metabolism other than glucose1.13 ATP generation under aerobic and anaerobic conditions1.14 Metabolic regulation and futile cycle
Abstract:2.1 Introduction2.2 Metabolic regulation analysis by protein expressions2.3 Metabolic regulation during the time course of batch culture2.4 Reduction of by-product (acetate) formation
Abstract:3.1 Introduction3.2 Carbon catabolite regulation3.3 Nitrogen regulation3.4 Phosphate regulation3.5 Oxygen level regulation3.6 Acid shock or the effect of pH3.7 Heat shock response3.8 Fatty acid metabolic regulation

Abstract:4.1 Introduction4.2 Basis for metabolic flux analysis4.3 Application to photosynthetic bacteria4.4 Metabolic flux analysis of a single gene knockout E. coli under anaerobic conditions
Abstract:5.1 Introduction5.2 Basic principle for flux calculation based on 13C-labeling experiment5.3 Simple example for flux calculation based on 13C-labeling experiment5.4 Analytical approach for flux computation5.5 13C metabolic flux analysis based on GC-MS5.6 13C-MFA using NMR5.7 13CMFA for cyanobacteria based on GC-MS and NMR5.8 Appendix 5.A ΛAP and bPEP in Equation 5.41
Abstract:6.1 Introduction6.2 Effect of ppc and pck gene knockout on metabolism6.3 Effect of zwf and gnd genes knockout on metabolism6.4 Effect of pyk gene knockout on metabolism6.5 Effect of lpdA gene knockout on metabolism6.6 Effect of sucA and sucC gene knockout on metabolism6.7 Effect of icdA gene knockout on metabolism6.8 Effect of pfl gene knockout on metabolism6.9 Effect of ldhA gene knockout on metabolism

Overview

The metabolic regulation of a cell system is of critical importance in systems biology, and a robust model of these mechanisms is essential in predicting the effects on the metabolism of both the culture environment and the knockout of specific genes. Bacterial cellular metabolic systems focuses on this highly topical subject in relation to culture environment and provides a detailed analysis from gene level to metabolic level regulation, as well as offering a discussion of the most recent modelling approaches. The book begins with an introduction to metabolic mechanisms and to the metabolic regulation of a cell, before moving on to discussing the action of global regulators in response to a specific culture environment. The second half of the book examines conventional flux balance analysis and its applications, 13C-metabolic flux analysis, and the effect of a specific gene knockout on the metabolism.

Comprehensive account of metabolic regulation via global regulators in response to changes in the culture environment
Basic formulation of 13C-metabolic flux analysis based on 13C-labelling experiments
Systems biology approach for the modelling and computer simulation of the main metabolic pathways of a cell system