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Preface xi Chapter 1. Replication of Archaeal Chromosomes 1 Ghislaine HENNEKE, Roxane LESTINI, Marc NADAL and Didier FLAMENT 1.1. Replication initiation 2 1.2. The elongation phase of replication 8 1.3. Okazaki fragment maturation 10 1.4. Restarting replication forks 15 1.5. Replication termination 18 1.6. Chromosome segregation and decatenation 18 1.7. References 19 Chapter 2. Archaeal DNA Repair 25 Caroline L'HERMITTE-STEAD, Anais BAYARD, Alexey ALEKSANDROV, Roxane LESTINI and Hannu MYLLYKALLIO 2.1. General introduction 25 2.2. Several different types of DNA damages occur in archaea 28 2.3. Different archaeal DNA repair pathways 31 2.4. Coordination of the different pathways by the replication clamp 40 2.5. Summary and conclusion 42 2.6. References 43 Chapter 3. Transcription in Archaea 45 Thomas FOUQUEAU, Duy KHANH PHUNG and Ludovic SAUGUET 3.1. RNA polymerase 47 3.2. The three stages of transcription 51 3.3. Transcription regulation 64 3.4. References 66 Chapter 4. RNA Classes and Their Maturation and Degradation Enzymes 77 Manon BATISTA, Beatrice CLOUET-D'ORVAL and Marie BOUVIER 4.1. Introduction 77 4.2. RNA classes in archaea 79 4.3. Ribonuclease families in archaea 84 4.4. Ubiquitous RNA-binding proteins in archaea 95 4.5. Conclusion 100 4.6. References 100 Chapter 5. Ribosome and Transfer RNA Biogenesis 115 Tamara BASTA and Sebastien FERREIRA-CERCA 5.1. Ribosome biogenesis 116 5.2. Synthesis and maturation of tRNAs 133 5.3. Methodical toolboxes 156 5.4. References 158 Chapter 6. The Diversity and Function of Noncoding RNAs in Archaea 167 Hubert F. BECKER and Christine GASPIN 6.1. Introduction 167 6.2. Noncoding RNA diversity 168 6.3. ncRNA identification 178 6.4. Circularization of noncoding RNAs 182 6.5. Conclusion 185 6.6. References 186 Chapter 7. Translation in Archaea 193 Emmanuelle SCHMITT and Yves MECHULAM 7.1. Initiating the translation 195 7.2. Elongation peptide synthesis 206 7.3. Translation termination and ribosome recycling 214 7.4. Conclusion 219 7.5. References 220 List of Authors 233 Index 237 |