Cyanobacteria: Omics and Manipulation

Contents
Preface
Current Books of Interest
1 The Cyanobacterial Core Genome: Global and Specific Features with a Focus on Secondary Metabolites
	Introduction
	Metagenome analysis and information in cyanobacterial research
	Recent advances in pangenome assignment
	Detection of core- and clade-specific functions via metagenome analysis
	General principles of secondary metabolite biosynthesis in cyanobacteria
	Main classes of secondary metabolites in cyanobacteria
	Secondary metabolite gene clusters in the cyanobacterial pangenome
	Conclusions
	Future trends and challenges
2 Genome-wide Analysis of Cyanobacterial Evolution: The Example of Synechococcus
	Introduction
	The origin of Synechococcus
	The genome and pan-genome of cyanobacteria
	Speciation in cyanobacteria
	Genome-scale reconstruction of evolutionary relationships: phylogenomics
	Conclusion
	Future trends
3 Genomics of NRPS/PKS Biosynthetic Gene Clusters in Cyanobacteria
	Introduction
	Genome mining for NRPS/PKS biosynthetic gene clusters
	Comparative genomics of biosynthetic gene clusters
	Biosynthetic gene clusters conservation
	From prediction to characterization
	Genomics from isolated strains versus metagenomics
	Conclusion
	Future trends
4 RNA-seq Based Transcriptomic Analysis of Single Cyanobacterial Cells
	Introduction
	Quantitation of total RNA in single Synechocystis cells
	Single-cell RNA isolation
	Whole-transcriptome amplification
	Quality control
	RNA-seq analysis of single-cell transcriptome
	Verification of RNA-seq results
	Technical and biological significance
	Conclusions
	Considerations and future trends
5 Transcriptomics of Cyanobacterial Stress Responses: Genes, Sensors and Molecular Triggers
	Introduction
	Heat stress and other abiotic stresses
	Cold stress and other abiotic stresses
	Conclusions: Sensors and universal triggers of stress responses
6 Transcriptomic and Proteomic Analysis to Understand Systems-level Properties of Diurnal Cycles in Nitrogen-fixing Cyanobacteria
	Introduction
	Systems biology and proteomics
	Cyanobacterial proteomics
	Protein–protein interactions
	Growth of cyanobacteria in the light and dark
	Conclusion
	Future research directions
7 Proteomic Analysis of Post Translational Modifications in Cyanobacteria
	Introduction
	PTMs and proteomic analysis of PTMs in cyanobacteria
	Challenge and perspectives in PTM proteomics of cyanobacteria
	Conclusions
8 Metabolic Engineering and Systems Biology for Free Fatty Acid Production in Cyanobacteria
	Introduction
	Metabolic engineering of FFA production in cyanobacteria
	Systems biology for FFA production in cyanobacteria
	Conclusions and future trends
9 Terpene Hydrocarbons Production in Cyanobacteria
	Introduction: state of the art
	Perspective
	The process
	Solar-to-product energy conversion efficiency and photosynthetic productivity
	Principles of CO2 delivery and terpene hydrocarbons sequestration
	Efficacy of terpene hydrocarbons as biofuels
	Efficacy of alcohol molecules as biofuels
	Conclusion
10 Ethanol Production in Cyanobacteria: Impact of Omics of the Model Organism Synechocystis on Yield Enhancement
	Introduction
	Ethanol production in cyanobacteria
	The construction of the pdc/adh cassette
	The origin of the pdc/adh gene cassette
	The Zymomonas mobilis (Zm) pyruvate decarboxylase
	The native ADH of Synechocystis
	The Zymomonas mobilis (Zm) ADH
	The effect of the ADH co-factor
	Some key issues with metabolic engineering of Synechocystis
	Strains and substrains and genomics of the cell factory Synechocystis
	Proteomic analysis in response to ethanol
	Transcriptomic analysis in response to ethanol
	Modelling of metabolic flux in Synechocystis to enhance ethanol production
	Theoretical estimates of ethanol yields
	Towards industrial production of ethanol from cyanobacteria
	Conclusion and future trends
11 Engineering of Alkane Production in Cyanobacteria
	Introduction
	Alkane profiles in native cyanobacteria
	Molecular tools for genetic engineering of cyanobacteria
	Systems biology research on cyanobacterial alkanes
	Fatty acid production in engineered cyanobacteria
	Alkane production in engineered cyanobacteria
	Protein engineering for ADO
	Conclusions
	Future trends
12 Photoautotrophic Polyhydroxyalkanoate Production in Cyanobacteria
	Introduction
	Cyanobacteria as platforms for biomass production
	Cyanobacteria are native PHA producers
	Engineering cyanobacteria for PHA production
	Future trends
Index