Molecular genetics of bacteria:
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| Main Authors: | , |
|---|---|
| Format: | Book |
| Language: | English |
| Published: |
Washington, D.C.
ASM Press
2007
|
| Edition: | 3. ed. |
| Subjects: | |
| Online Access: | Table of contents only Inhaltsverzeichnis |
| Item Description: | 4. Aufl. u.d.T.: Molecular genetics of bacteria / Larry Snyder Includes bibliographical references and index |
| Physical Description: | XVII, 735 S. Ill. 29 cm |
| ISBN: | 1555813992 9781555813994 |
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| 100 | 1 | |a Snyder, Larry |e Verfasser |4 aut | |
| 245 | 1 | 0 | |a Molecular genetics of bacteria |c Larry Snyder and Wendy Champness |
| 250 | |a 3. ed. | ||
| 264 | 1 | |a Washington, D.C. |b ASM Press |c 2007 | |
| 300 | |a XVII, 735 S. |b Ill. |c 29 cm | ||
| 336 | |b txt |2 rdacontent | ||
| 337 | |b n |2 rdamedia | ||
| 338 | |b nc |2 rdacarrier | ||
| 500 | |a 4. Aufl. u.d.T.: Molecular genetics of bacteria / Larry Snyder | ||
| 500 | |a Includes bibliographical references and index | ||
| 650 | 4 | |a Bactériophages - Génétique | |
| 650 | 4 | |a Génétique bactérienne | |
| 650 | 4 | |a Génétique moléculaire | |
| 650 | 4 | |a Bacterial genetics | |
| 650 | 4 | |a Bacteriophages |x Genetics | |
| 650 | 4 | |a Molecular genetics | |
| 650 | 4 | |a Bacteria |x genetics | |
| 650 | 4 | |a Bacteriophages |x genetics | |
| 650 | 4 | |a Chromosomes, Bacterial | |
| 650 | 4 | |a Genetics, Microbial |x methods | |
| 650 | 4 | |a Molecular Biology |x methods | |
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Record in the Search Index
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| adam_text | T H I R D E D I T I O N MOLECULAR GENETICS OF BACTERIA LARRY SNYDER AND
WENDY CHAMPNESS DEPARTMENT OF MICROBIOLOGY AND MOLECULAR GENETICS
MICHIGAN STATE UNIVERSITY EAST LANSING, MICHIGAN UNIVERSITSTS- UND
UND-SS- BIBLIOTHEK DA/IVFSTADT BIBLIOTHEK BIOJ 0 .JJ 0 ASM PRESS
WASHINGTON, D.C. CONTENTS PREFACE XV INTRODUCTION 1 THE BIOLOGICAL
UNIVERSE 3 THE EUBACTERIA 3 THE ARCHAEA 3 THE EUKARYOTES 4 THE
PROKARYOTES AND THE EUKARYOTES 5 WHAT IS GENETICS? 5 BACTERIAL GENETICS
6 BACTERIA ARE HAPLOID 6 SHORT GENERATION TIMES 6 ASEXUAL REPRODUCTION 6
COLONY GROWTH ON AGAR PLATES 7 COLONY PURIFICATION 7 SERIAL DILUTIONS 7
: , SELECTIONS 7 - STORING STOCKS OF BACTERIAL STRAINS 7 GENETIC
EXCHANGE 7 PHAGE GENETICS 8 PHAGES ARE HAPLOID 8 SELECTIONS WITH PHAGES
8 CROSSES WITH PHAGES 8 A BRIEF HISTORY OF BACTERIAL MOLECULAR GENETICS
8 INHERITANCE IN BACTERIA 8 TRANSFORMATION 9 CONJUGATION 9 TRANSDUCTION
9 VI CONTENTS RECOMBINATION WITHIN GENES 9 SEMICONSERVATIVE DNA
REPLICATION MRNA 10 THE GENETIC CODE 10 THE OPERON MODEL 10 ENZYMES FOR
MOLECULAR BIOLOGY 10 WHAT S AHEAD 10 SUGGESTED READING 11 CHAPTER 1 10
THE BACTERIAL CHROMOSOME: DNA STRUCTURE, REPLICATION, AND SEGREGATION 13
DNA STRUCTURE 13 THE DEOXYRIBONUCLEOTIDES 13 THE DNA CHAIN 14 THE 5 AND
3 ENDS 14 BASE PAIRING 16 ANTIPARALLEL CONSTRUCTION 17 THE MAJOR AND
MINOR GROOVES 1 7 MECHANISM OF DNA REPLICATION 17 DEOXYRIBONUCLEOTIDE
PRECURSOR SYNTHESIS 17 DEOXYRIBONUCLEOTIDE POLYMERIZATION 18
SEMICONSERVATIVE REPLICATION 21 REPLICATION OF DOUBLE-STRANDED DNA 21
REPLICATION ERRORS 25 EDITING 25 METHYL-DIRECTED MISMATCH REPAIR 27 ROLE
OF EDITING AND MISMATCH REPAIR IN MAINTAINING REPLICATION FIDELITY 27
REPLICATION OF THE BACTERIAL CHROMOSOME AND CELL DIVISION 29 STRUCTURE
OF THE BACTERIAL CHROMOSOME 29 REPLICATION OF THE BACTERIAL CHROMOSOME
30 INITIATION OF CHROMOSOME REPLICATION 30 TERMINATION OF CHROMOSOME
REPLICATION 34 CHROMOSOME SEGREGATION 35 WHERE ARE THE REPLICATION
FORKS? 42 CELL DIVISION 43 COORDINATION OF CELL DIVISION WITH
REPLICATION OF THE CHROMOSOME 44 TIMING OF INITIATION OF REPLICATION 45
THE BACTERIAL NUCLEOID 48 SUPERCOILING IN THE NUCLEOID 48 TOPOISOMERASES
50 THE BACTERIAL GENOME 51 ANTIBIOTICS THAT AFFECT REPLICATION AND DNA
STRUCTURE 53 ANTIBIOTICS THAT BLOCK PRECURSOR SYNTHESIS 53 ANTIBIOTICS
THAT BLOCK POLYMERIZATION OF DEOXYNUCLEOTIDES 54 ANTIBIOTICS THAT AFFECT
DNA STRUCTURE 54 ANTIBIOTICS THAT AFFECT GYRASE 55 MOLECULAR BIOLOGY
MANIPULATIONS WITH DNA 55 RESTRICTION ENDONUCLEASES 55 HYBRIDIZATIONS 58
APPLICATIONS OF THE ENZYMES USED IN DNA REPLICATION 61 RANDOM SHOTGUN
SEQUENCING OF BACTERIAL GENOMES 61 SITE-SPECIFIC MUTAGENESIS 62
POLYMERASE CHAIN REACTION 63 BOX 1.1 LINEAR CHROMOSOMES IN BACTERIA 32
BOX 1.2 RESTARTING REPLICATION FORKS 37 BOX 1.3 THE BACTERIAL
CYTOSKELETON AND BACTERIAL CELL BIOLOGY 40 BOX 1.4 FEATURES OF BACTERIAL
GENOMES 52 BOX 1.5 BACTERIAL GENOME SEQUENCING 62 SUMMARY 67 QUESTIONS
FOR THOUGHT 68 PROBLEMS 68 SUGGESTED READING 69 CHAPTER 2 BACTERIAL GENE
EXPRESSION: TRANSCRIPTION, TRANSLATION, AND PROTEIN FOLDING 71 OVERVIEW
71 THE STRUCTURE AND FUNCTION OF RNA TYPES OF RNA 72 RNA PRECURSORS 72
RNA STRUCTURE 72 RNA PROCESSING AND MODIFICATION 74 72 TRANSCRIPTION 74
STRUCTURE OF BACTERIAL RNA POLYMERASE OVERVIEW OF TRANSCRIPTION 75
DETAILS OF TRANSCRIPTION 76 RRNAS AND TRNAS 85 74 CONTENTS VII PROTEINS
86 LPROTEIN STRUCTURE 89 CHAPTER 3 87 ITRANSLATION JBETAILS OF PROTEIN
SYNTHESIS 90 |THE GENETIC CODE 93 97 102 |POLYCISTRONIC MRNA 104 JRNASES
AND MRNA PROCESSING AND DECAY ^TRANSLATION INITIATION ITRANSLATION
TERMINATION 105 F PROTEIN FOLDING 106 IPROTEIN CHAPERONES 106 JMEMBRANE
PROTEINS AND PROTEIN EXPORT JTHE TRANSLOCASE SYSTEM 110 FTHE SIGNAL
SEQUENCE 112 ISTHE TARGETING FACTORS 112 PROTEIN SECRETION 114
JDISULFIDE BONDS 114 IREGULATION OF GENE EXPRESSION 115 ITRANSCRIPTIONAL
REGULATION 116 ;POSTTRANSCRIPTIONAL REGULATION 117 MNTRONS AND INTEINS
117 USEFUL CONCEPTS 117 F OPEN READING FRAMES 121 I TRANSCRIPTIONAL AND
TRANSLATIONAL FUSIONS 122 I- BACTERIAL GENOME ANNOTATION 125 ANTIBIOTICS
THAT BLOCK TRANSCRIPTION AND TRANSLATION 125 { ANTIBIOTIC INHIBITORS OF
TRANSCRIPTION 125 ANTIBIOTIC INHIBITORS OF TRANSLATION 131 BOX 2.1
MOLECULAR PHYLOGENY 86 BOX 2.2 MIMICRY IN TRANSLATION 93 BOX 2.3
EXCEPTIONS TO THE CODE 95 BOX 2.4 TRAFFIC JAMS ON MRNA: REMOVING STALLED
RIBOSOMES WITH TMRNA 103 BOX 2.5 STABILITY AND DEGRADATION OF MRNA 107
BOX 2.6 SELFISH DNAS: RNA INTRONS AND PROTEIN INTEINS 118 BOX 2.7
ANNOTATION AND COMPARATIVE CENOMICS 125 SUMMARY 134 QUESTIONS FOR
THOUGHT 1 36 PROBLEMS 136 - SUGGESTED READING 137 BACTERIAL GENETIC
ANALYSIS: FORWARD AND REVERSE 139 DEFINITIONS 139 TERMS USED IN GENETICS
GENETIC NAMES 140 139 USEFUL PHENOTYPES IN BACTERIAL GENETICS 141
AUXOTROPHIC MUTANTS 141 CONDITIONAL LETHAL MUTANTS 142 109 RESISTANT
MUTANTS 143 INHERITANCE IN BACTERIA 144 THE LURIA AND DELBRIICK
EXPERIMENT THE NEWCOMBE EXPERIMENT 145 THE LEDERBERGS EXPERIMENT 149
144 MUTATION RATES 150 CALCULATING MUTATION RATES SUMMARY 153 150 TYPES
OF MUTATIONS 153 BASE PAIR CHANGES 154 FRAMESHIFT MUTATIONS 158 DELETION
MUTATIONS 159 INVERSION MUTATIONS 160 TANDEM DUPLICATION MUTATIONS
INSERTION MUTATIONS 161 161 163 REVERSION VERSUS SUPPRESSION INTRAGENIC
SUPPRESSORS 163 INTERGENIC SUPPRESSORS 163 NONSENSE SUPPRESSORS 164
GENETIC ANALYSIS IN BACTERIA 167 ISOLATING MUTANTS 167 ISOLATING
INDEPENDENT MUTATIONS 168 SELECTING MUTANTS 168 GENETIC MAPPING BY
RECOMBINATION IN BACTERIA 170 COMPLEMENTATION TESTS 171 GENETIC CROSSES
IN BACTERIA 174 * -- GENETIC MAPPING BY HFR CROSSES 1 76 MAPPING OF
BACTERIAL MARKERS BY TRANSDUCTION AND TRANSFORMATION 181 OTHER USES OF
TRANSFORMATION AND TRANSDUCTION: STRAIN CONSTRUCTION 184 GENE
REPLACEMENTS AND REVERSE GENETICS 186 / VIII CONTENTS ISOLATION OF
TANDEM DUPLICATIONS OF THE HIS OPERON IN SALMONELLA ENTERICA SEROVAR
TYPHIMURIUM 190 LENGTH OF TANDEM DUPLICATIONS 192 FREQUENCY OF
SPONTANEOUS DUPLICATIONS 192 BOX 3.1 STATISTICAL ANALYSIS OF THE NUMBER
OF MUTANTS PER CULTURE 148 BOX 3.2 INVERSIONS AND THE GENETIC MAP 162
SUMMARY 193 QUESTIONS FOR THOUGHT 194 PROBLEMS 194 SUGGESTED READING 196
CHAPTER 4 PLASMIDS 197 WHAT IS A PLASMID? 197 NAMING PLASMIDS 198
FUNCTIONS ENCODED BY PLASMIDS 198 PLASMID STRUCTURE 199 PROPERTIES OF
PLASMIDS 201 REPLICATION 201 FUNCTIONS OF THE ON REGION 206 PLASMID
REPLICATION CONTROL MECHANISMS 209 MECHANISMS TO PREVENT CURING OF
PLASMIDS 222 THE PAR SYSTEMS OF PLASMIDS 227 CONSTRUCTING A PLASMID
CLONING VECTOR 229 FINDING THE PLASMID ORI REGION 229 EXAMPLES OF
PLASMID CLONING VECTORS 231 BROAD-HOST-RANGE CLONING VECTORS 234 USING
PLASMID VECTORS FOR GENE REPLACEMENT AND FUNCTIONAL GENOMICS 235 BOX 4.1
PLASMIDS AND BACTERIAL PATHOGENESIS 199 BOX 4.2 LINEAR PLASMIDS 205 BOX
4.3 AN INCOMPATIBILITY GROUP OF ONE S OWN 214 BOX 4.4 PLASMID ADDICTION
223 SUMMARY 240 QUESTIONS, FOR THOUGHT 241 PROBLEMS 241 SUGGESTED
READING 241 CHAPTER 5 CONJUGATION 243 OVERVIEW 243 CLASSIFICATION OF
SELF-TRANSMISSIBLE PLASMIDS 244 MECHANISM OF DNA TRANSFER DURING
CONJUGATION IN GRAM-NEGATIVE BACTERIA 244 TRANSFER (TRA) GENES 244 THE
ORIT SEQUENCE 250 MALE-SPECIFIC PHAGES 250 EFFICIENCY OF TRANSFER 250
INTERSPECIES TRANSFER OF PLASMIDS 252 MOBILIZABLE PLASMIDS 252 GENETIC
ANALYSIS OF TRA SYSTEMS IN GRAM-NEGATIVE BACTERIA 259 ISOLATION OF TRA
MUTANT PLASMIDS 260 COMPLEMENTATION TESTS TO DETERMINETHE NUMBER OF TRA
GENES 260 CHROMOSOME TRANSFER BY PLASMIDS 261 FORMATION OF HFR STRAINS
263 TRANSFER OF CHROMOSOMAL DNA BY INTEGRATED PLASMIDS 263 CHROMOSOME
MOBILIZATION PRIME FACTORS 264 264 TRANSFER SYSTEMS OF GRAM-POSITIVE
BACTERIA 266 PLASMID-ATTRACTING PHEROMONES 267 OTHER TYPES OF
TRANSMISSIBLE ELEMENTS 269 CONJUGATIVE TRANSPOSONS 271 BOX 5.1 GENE
EXCHANGE BETWEEN KINGDOMS 253 BOX 5.2 CONJUGATION AND TYPE IV PROTEIN
SECRETION SYSTEMS 256 BOX 5.3 CONJUGATION IN STREPTOMYCETES 267 BOX 5.4
CONJUGATIVE TRANSPOSONS (INTEGRATING CONJUGATIVE ELEMENTS) 272 SUMMARY
274 QUESTIONS FOR THOUGHT 275 PROBLEMS 275 SUGGESTED READING 275 CHAPTER
6 TRANSFORMATION 277 NATURAL TRANSFORMATION 278 DISCOVERY OF
TRANSFORMATION 278 COMPETENCE 278 CONTENTS IX REGULATION OF COMPETENCE
IN B. SUBTILIS 282 EXPERIMENTAL EVIDENCE FOR MODELS OF NATURAL
TRANSFORMATION 283 PLASMID TRANSFORMATION AND PHAGE TRANSFECTION OF
NATURALLY COMPETENT BACTERIA 286 ROLE OF NATURAL TRANSFORMATION 286
IMPORTANCE OF NATURAL TRANSFORMATION FOR FORWARD AND REVERSE GENETICS
288 ARTIFICIALLY INDUCED COMPETENCE 289 CALCIUM ION INDUCTION 289
ELECTROPORATION 290 BOX 6.1 ANTIGENIC VARIATION IN NEISSERIA GONORRHOEAE
289 SUMMARY 291 QUESTIONS FOR THOUGHT 291 PROBLEMS 291 SUGGESTED READING
292 CHAPTER 7 LYTIC BACTERIOPHAGES: DEVELOPMENT, GENETICS, AND
GENERALIZED TRANSDUCTION 293 THE BACTERIOPHAGE LYTIC DEVELOPMENT CYCLE
295 PHAGE T7: A PHAGE-ENCODED RNA POLYMERASE 296 PHAGE T4:
TRANSCRIPTIONAL ACTIVATORS, ANTITERMINATION, A NEW SIGMA FACTOR, AND
REPLICATION-COUPLED TRANSCRIPTION 301 PHAGE DNA REPLICATION 306 PHAGES
WITH SINGLE-STRANDED CIRCULAR DNA PHAGE T7: LINEAR DNA THAT FORMS
CONCATEMERS 314 PHAGE T4: ANOTHER LINEAR DNA THAT FORMS CONCATEMERS 315
306 PHAGE LYSIS 318 320 GENETIC ANALYSIS OF PHAGES INFECTION OF CELLS
320 PHAGE CROSSES 321 RECOMBINATION AND COMPLEMENTATION TESTS WITH
PHAGES 321 GENETIC EXPERIMENTS WITH THE RLL GENES OF PHAGE T4 323
CONSTRUCTING THE GENETIC LINKAGE MAP OF A PHAGE 332 GENERALIZED
TRANSDUCTION 336 WHAT MAKES A TRANSDUCING PHAGE? 336 SHUTTLE PHASMIDS
337 ROLE OF TRANSDUCTION IN BACTERIAL EVOLUTION 339 BOX 7.1 RNA PHAGES
297 BOX 7.2 PHAGE DISPLAY 299 BOX 7.3 PROTEIN PRIMING 308 SUMMARY 339
QUESTIONS FOR THOUGHT 340 PROBLEMS 340 SUGGESTED READING 341 CHAPTER 8
LYSOGENY: THE X PARADIGM AND THE ROLE OF LYSOGENIC CONVERSION IN
BACTERIAL PATHOGENESIS 343 PHAGE X 344 LYTIC DEVELOPMENT 344 REPLICATION
OF X DNA 350 LYSOGENY 352 THE DL GENE PRODUCT 352 PHAGE X INTEGRATION
353 MAINTENANCE OF LYSOGENY 354 IMMUNITY TO SUPERINFECTION 356 INDUCTION
OF X 356 COMPETITION BETWEEN THE LYTIC AND LYSOGENIC CYCLES 359
SPECIALIZED TRANSDUCTION 359 362 OTHER LYSOGEN-FORMING PHAGES PHAGE P2
362 PHAGE P4 362 PHAGES P1 AND N15: PLASMID PROPHAGES PHAGE MU 365 USE
OF LYSOGEN-FORMING PHAGES AS CLONING VECTORS 365 LYSOGENIC CONVERSION
AND BACTERIAL PATHOGENESIS 366 E. COLI AND DYSENTERY: SHIGA TOXINS 366
DIPHTHERIA 368 CHOLERA 368 ^ BOTULISM AND TETANUS 369 SYNOPSIS 369 364
CONTENTS GENETIC EXPERIMENTS WITH PHAGE X 369 GENETICS OF X LYSOGENY 369
GENETICS OF THE CL REPRESSOR 370 ISOLATION OF X NUT MUTATIONS 370
ISOLATION OF HOST NUS MUTATIONS 373 BOX 8.1 EFFECTS OF PROPHAGE
INTEGRATION ON THE HOST 354 BOX 8.2 RETROREGULATION 358 BOX 8.3 HOW A
PATHOGENICITY ISLAND GETS AROUND 365 SUMMARY 373 QUESTIONS FOR THOUGHT
375 PROBLEMS 375 SUGGESTED READING 375 CHAPTER 9 TRANSPOSITION,
SITE-SPECIFIC RECOMBINATION, AND FAMILIES OF RECOMBINASES 377
TRANSPOSITION 377 OVERVIEW OF TRANSPOSITION 378 STRUCTURE OF BACTERIAL
TRANSPOSONS 378 - TYPES OF BACTERIAL TRANSPOSONS 379 ASSAYS OF
TRANSPOSITION 384 MECHANISMS OF TRANSPOSITION 385 GENETIC REQUIREMENTS
FOR TRANSPOSITION OF TN3 385 MOLECULAR MODELS FOR TRANSPOSITION OF TN3 J
AND MU 389 TRANSPOSITION BY TN 7 0 AND TN5 392 DETAILS OF TRANSPOSITION
BY THE DDE TRANSPOSONS 395 DETAILS OF THE MECHANISM OF TRANSPOSITION BY
TN5ANDTN7 395 ROLLING-CIRCLE TRANSPOSONS 397 Y AND S TRANSPOSONS 397
GENERAL PROPERTIES OF TRANSPOSONS 397 TARGET SITE SPECIFICITY 398
EFFECTS ON GENES ADJACENT TO THE INSERTION SITE 399 REGULATION OF
TRANSPOSITION 399 TARGET IMMUNITY 400 TRANSPOSON MUTAGENESIS 400
TRANSPOSON MUTAGENESIS OF PLASMIDS 403 TRANSPOSON MUTAGENESIS OF THE
BACTERIAL CHROMOSOME 405 TRANSPOSON MUTAGENESIS OF ALL BACTERIA 406
USING TRANSPOSON MUTAGENESIS TO MAKE RANDOM GENE FUSIONS 407 IN VIVO
CLONING 409 SITE-SPECIFIC RECOMBINATION 410 DEVELOPMENTALLY REGULATED
EXCISION OF INTERVENING DNA 411 INTEGRASES 412 RESOLVASES 415 DNA
INVERTASES 415 Y AND S RECOMBINASES 417 Y RECOMBINASES: MECHANISM 417 S
RECOMBINASES: MECHANISM 421 IMPORTANCE OF TRANSPOSITION AND
SITE-SPECIFIC RECOMBINATION IN BACTERIAL ADAPTATION 423 BOX 9.1 PHAGE
MU: A TRANSPOSON MASQUERADING AS A PHAGE 390 BOX 9.2 TRANSPOSON
MUTAGENESIS IN VITRO 402 SUMMARY 424 QUESTIONS FOR THOUGHT 425 PROBLEMS
425 * SUGGESTED READING 426 CHAPTER 10 MOLECULAR MECHANISMS OF
HOMOLOGOUS RECOMBINATION 429 OVERVIEW OF RECOMBINATION 430 REQUIREMENT
1: PAIRING BETWEEN IDENTICAL OR VERY SIMILAR SEQUENCES IN THE CROSSOVER
REGION 430 REQUIREMENT 2: COMPLEMENTARY BASE PAIRING BETWEEN
DOUBLE-STRANDED DNA MOLECULES 430 REQUIREMENT 3: CUTTING AND REJOINING
BY RECOMBINATION ENZYMES 431 REQUIREMENT 4: HETERODUPLEX FORMATION
INVOLVING ALL FOUR STRANDS 431 MOLECULAR MODELS OF RECOMBINATION 431
HOLLIDAY DOUBLE-STRAND INVASION MODEL 431 SINGLE-STRAND INVASION MODELS
433 DOUBLE-STRAND BREAK REPAIR MODEL 433 THE MOLECULAR BASIS FOR
RECOMBINATION IN E. CO// 435 CHI (%) SITES AND THE RECBCD NUCLEASE 436
THE RECFOR PATHWAY 438 CONTENTS XI ISYNAPSE FORMATION AND THE RECA
PROTEIN 440 |THE RUV AND RECG PROTEINS AND THE MIGRATION AND |; CUTTING
OF HOLLIDAY JUNCTIONS 442 IPHAGE RECOMBINATION PATHWAYS 446 I REC
PROTEINS OF PHAGES T4 AND T7 446 FTHE RECE PATHWAY OF THE RAC PROPHAGE
446 |.THE PHAGE X RED SYSTEM 446 I GENETIC ANALYSIS OF RECOMBINATION IN
FBACTERIA 446 I ISOLATING REC~ MUTANTS OF COLI 450 |ISOLATING MUTANTS
WITH MUTATIONS IN OTHER I; RECOMBINATION GENES 451 |GENE CONVERSION AND
OTHER MANIFESTATIONS | OF HETERODUPLEX FORMATION DURING I RECOMBINATION
452 BOX 10.1 BREAKING AND ENTERING: INTRONS AND INTEINS MOVE BY
DOUBLE-STRAND BREAK REPAIR |OR RETROHOMING 434 I BOX 10.2 THE THREE R S:
RECOMBINATION, REPLICATION, AND REPAIR 439 JBOX 10.3 RECOMBINEERING:
GENE REPLACEMENTS | IN E. COLI WITH PHAGE X RECOMBINATION | FUNCTIONS
447 NUMMARY 455 I QUESTIONS FOR THOUGHT 456 [ PROBLEMS 456 I SUGGESTED
READING 457 CHAPTER 11 DNA REPAIR AND MUTAGENESIS 459 EVIDENCE FOR DNA
REPAIR 460 SPECIFIC REPAIR PATHWAYS 461 DEAMINATION OF BASES 461 DAMAGE
DUE TO REACTIVE OXYGEN 464 DAMAGE DUE TO ALKYLATING AGENTS 467 DAMAGE
DUE TO UV IRRADIATION 470 GENERAL REPAIR MECHANISMS 471 THE
METHYL-DIRECTED MISMATCH REPAIR SYSTEM 471 NUDEOTIDE EXCISION REPAIR 477
DNA DAMAGE TOLERANCE MECHANISMS RECOMBINATION REPAIR OF DAMAGED
REPLICATION FORKS- 479 SOS INDUCIBLE REPAIR 484 478 MECHANISM OF
INDUCTION OF SOS MUTAGENESIS 489 MECHANISM OF TRANSLESION SYNTHESIS BY
THE UMUD 2 C COMPLEX 490 SUMMARY OF REPAIR PATHWAYS IN . COLI 493
BACTERIOPHAGE REPAIR PATHWAYS 494 BOX 11.1 OXYGEN: THE ENEMY WITHIN 465
BOX 11.2 CANCER AND MISMATCH REPAIR 475 BOX 11.3 TRANSCRIPTION-REPAIR
COUPLING 479 BOX 11.4 TRANSLESION SYNTHESIS AND CANCER 486 BOX 11.5 THE
AMES TEST 492 SUMMARY 494 QUESTIONS FOR THOUGHT 496 PROBLEMS 496
SUGGESTED READING 496 CHAPTER 12 REGULATION OF GENE EXPRESSION: OPERONS
499 TRANSCRIPTIONAL REGULATION IN BACTERIA 500 GENETIC EVIDENCE FOR
NEGATIVE AND POSITIVE REGULATION 500 NEGATIVE TRANSCRIPTIONAL REGULATION
502 THE E. COLI LAC OPERON 502 FINE-STRUCTURE ANALYSIS OF THE LAD GENE
OF COLI 506 THE COLI GAL OPERON 512 NEGATIVE REGULATION OF
BIOSYNTHETIC OPERONS: APOREPRESSORS AND COREPRESSORS 516 POSITIVE
REGULATION 518 THE COLI I-ARA OPERON 519 THE COLI MALTOSE OPERONS
525 THE TO/ OPERONS 528 REGULATION BY ATTENUATION OF TRANSCRIPTION 530
REGULATION OF THE COLI TRP OPERON BY ATTENUATION 530 REGULATION OF THE
TRP OPERON OF 8. SUBTILIS BY ATTENUATION 532 REGULATION OF THE BGL
OPERON OF COLI 536 REGULATION BY SECONDARY-STRUCTURE CHANGES IN THE
MRNA 536 RIBOSWITCH REGULATION 537 XII CONTENTS POSTTRANSLATIONAL
REGULATION: FEEDBACK INHIBITION 539 FEEDBACK INHIBITION OF THE
TRYPTOPHAN OPERON 539 FEEDBACK INHIBITION OF THE ISOLEUCINE-VALINE
OPERON 539 POSTTRANSLATION MODIFICATIONS OF ENZYMES 540 OPERON ANALYSIS
FOR SEQUENCED GENOMES 540 ALLELES OF OPERON GENES 540 ALLELES OF
REGULATORY GENES AND ELEMENTS 543 BOX 12.1 THE HELIX-TURN-HELIX MOTIF OF
DNA-BINDING PROTEINS 501 BOX 12.2 FAMILIES OF REGULATORS 521 SUMMARY 543
QUESTIONS FOR THOUGHT 544 PROBLEMS 544 SUGGESTED READING 545 CHAPTER 13
GLOBAL REGULATION: REGULONS AND STIMULONS 547 CATABOLITE-SENSITIVE
OPERONS 548 CAMP AND THE CAMP-BINDING PROTEIN 548 GENETIC ANALYSIS OF
CATABOLITE REGULATION IN COLI 554 USES OF CAMP IN OTHER ORGANISMS 556
A BACTERIAL TWO-HYBRID SYSTEM BASED ON ADENYLATE CYCLASE 557 REGULATION
OF NITROGEN ASSIMILATION 558 PATHWAYS FOR NITROGEN ASSIMILATION 558,
COORDINATION OF CATABOLITE REPRESSION, THE NTR SYSTEM, AND THE
REGULATION OF AMINO ACID-DEGRADATIVE OPERONS 566 GENETIC ANALYSIS OF
NITROGEN REGULATION IN ENTERIC BACTERIA 566 STRESS RESPONSES IN BACTERIA
568 Y HEAT SHOCK REGULATION 568 GENERAL STRESS RESPONSE IN GRAM-NEGATIVE
BACTERIA 571 ^ GENERAL STRESS RESPONSE IN GRAM-POSITIVE BACTERIA 572
EXTRACYTOPLASMIC (ENVELOPE) STRESS RESPONSES 573 REGULATION OF PORIN
SYNTHESIS 574 REGULATION OF THE ENVELOPE STRESS RESPONSE BY CPXA-CPXR: A
TWO-COMPONENT SENSOR-KINASE RESPONSE-REGULATOR SYSTEM 582 THE
EXTRACYTOPLASMIC FUNCTION: E. COLI SIGMA FACTOR A E 583 IRON REGULATION
IN E. COLI 584 THE FUR REGULON 584 THE RYHB RNA 584 THE ACONITASE
TRANSLATIONAL REPRESSOR 586 REGULATION OF VIRULENCE GENES IN PATHOGENIC
BACTERIA 587 DIPHTHERIA 587 CHOLERA AND QUORUM SENSING 587 WHOOPING
COUGH 593 REGULATION OF RIBOSOME AND TRNA SYNTHESIS 595 RIBOSOMAL
PROTEINS 595 REGULATION OF RRNA AND TRNA SYNTHESIS 598 MICROARRAY AND
PROTEOMIC ANALYSIS OF REGULATORY NETWORKS 602 TRANSCRIPTOME ANALYSIS 602
PROTEOME ANALYSIS 606 FROM GENES TO REGULONS TO NETWORKS TO GENETIC
ANALYSIS 607 BOX 13.1 CAMP-LNDEPENDENT CATABOLITE REPRESSION 551 BOX
13.2 NITROGEN FIXATION 559 BOX 13.3 SIGMA FACTORS 563 BOX 13.4 SIGNAL
TRANSDUCTION SYSTEMS IN BACTERIA 576 BOX 13.5 REGULATORY RNAS 580
SUMMARY 607 QUESTIONS FOR THOUGHT 609 PROBLEMS 609 SUGGESTED READING 610
CHAPTER 14 BACTERIAL CELL COMPARTMENTALIZATION AND SPORULATION 613
ANALYSIS OF PROTEIN TRANSPORT IN ESCHERICHIA COLI 614 USE OF THE MAL
GENES TO STUDY PROTEIN TRANSPORT: SIGNAL SEQUENCES, SEC, ANDSRP 615 THE
TAT SECRETION PATHWAY 620 CONTENTS XIII ^GENETIC ANALYSIS OF
TRANSMEMBRANE DOMAINS OF INNER MEMBRANE PROTEINS IN GRAM-NEGATIVE
BACTERIA 621 IDENTIFICATION OF GENES FOR TRANSPORTED PROTEINS BY RANDOM
PHOA FUSIONS 622 PROTEIN SECRETION 622 ^PROTEIN SECRETION SYSTEMS IN
GRAM-NEGATIVE BACTERIA 623 ^PROTEIN SECRETION IN GRAM-POSITIVE BACTERIA
630 RSORTASES 630 ;EXAMPLE OF A SORTASE-DEPENDENT PATHWAY: SPORULATION
IN STREPTOMYCES COELICOLOR 632 IGENETIC ANALYSIS OF SPORULATION IN
*BACILLUS SUBTILIS 635 IDENTIFICATION OF GENES THAT REGULATE SPORULATION
636 REGULATION OF INITIATION OF SPORULATION 636 ICOMPARTMENTALIZED
REGULATION OF SPORULATION GENES 641 ^ANALYSIS OF THE ROLE OF SIGMA
FACTORS IN SPORULATION REGULATION 642 INTERCOMPARTMENTAL REGULATION
DURING DEVELOPMENT 643 FINDING SPORULATION GENES: MUTANT HUNTS,
SUPPRESSOR ANALYSIS, AND FUNCTIONAL GENOMICS 650 BOX 14.1 SECRETION
SYSTEMS AND MOTILITY 626 BOX 14.2 PHOSPHORELAY ACTIVATION OF THE
TRANSCRIPTION FACTOR SPOOA 640 SUMMARY 652 QUESTIONS FOR THOUGHT 652
PROBLEMS 653 SUGGESTED READING 653 ANSWERS TO QUESTIONS FOR THOUGHT AND
PROBLEMS 655 GLOSSARY 669 FIGURE AND TABLE CREDITS 705 INDEX 711
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| adam_txt |
T H I R D E D I T I O N MOLECULAR GENETICS OF BACTERIA LARRY SNYDER AND
WENDY CHAMPNESS DEPARTMENT OF MICROBIOLOGY AND MOLECULAR GENETICS
MICHIGAN STATE UNIVERSITY EAST LANSING, MICHIGAN UNIVERSITSTS- UND
UND-SS- BIBLIOTHEK DA/IVFSTADT BIBLIOTHEK BIOJ 0 .JJ 0 ASM ' PRESS
WASHINGTON, D.C. CONTENTS PREFACE XV INTRODUCTION 1 THE BIOLOGICAL
UNIVERSE 3 THE EUBACTERIA 3 THE ARCHAEA 3 THE EUKARYOTES 4 THE
PROKARYOTES AND THE EUKARYOTES 5 WHAT IS GENETICS? 5 BACTERIAL GENETICS
6 BACTERIA ARE HAPLOID 6 SHORT GENERATION TIMES 6 ASEXUAL REPRODUCTION 6
COLONY GROWTH ON AGAR PLATES 7 COLONY PURIFICATION 7 SERIAL DILUTIONS 7
: , SELECTIONS 7 ' - STORING STOCKS OF BACTERIAL STRAINS 7 GENETIC
EXCHANGE 7 PHAGE GENETICS 8 PHAGES ARE HAPLOID 8 SELECTIONS WITH PHAGES
8 CROSSES WITH PHAGES 8 A BRIEF HISTORY OF BACTERIAL MOLECULAR GENETICS
8 INHERITANCE IN BACTERIA 8 TRANSFORMATION 9 CONJUGATION 9 TRANSDUCTION
9 VI CONTENTS RECOMBINATION WITHIN GENES 9 SEMICONSERVATIVE DNA
REPLICATION MRNA 10 THE GENETIC CODE 10 THE OPERON MODEL 10 ENZYMES FOR
MOLECULAR BIOLOGY 10 WHAT'S AHEAD 10 SUGGESTED READING 11 CHAPTER 1 10
THE BACTERIAL CHROMOSOME: DNA STRUCTURE, REPLICATION, AND SEGREGATION 13
DNA STRUCTURE 13 THE DEOXYRIBONUCLEOTIDES 13 THE DNA CHAIN 14 THE 5'AND
3'ENDS 14 BASE PAIRING 16 ANTIPARALLEL CONSTRUCTION 17 THE MAJOR AND
MINOR GROOVES 1 7 MECHANISM OF DNA REPLICATION 17 DEOXYRIBONUCLEOTIDE
PRECURSOR SYNTHESIS 17 DEOXYRIBONUCLEOTIDE POLYMERIZATION 18
SEMICONSERVATIVE REPLICATION 21 REPLICATION OF DOUBLE-STRANDED DNA 21
REPLICATION ERRORS 25 EDITING 25 METHYL-DIRECTED MISMATCH REPAIR 27 ROLE
OF EDITING AND MISMATCH REPAIR IN MAINTAINING REPLICATION FIDELITY 27
REPLICATION OF THE BACTERIAL CHROMOSOME AND CELL DIVISION 29 STRUCTURE
OF THE BACTERIAL CHROMOSOME 29 REPLICATION OF THE BACTERIAL CHROMOSOME
30 INITIATION OF CHROMOSOME REPLICATION 30 TERMINATION OF CHROMOSOME
REPLICATION 34 CHROMOSOME SEGREGATION 35 WHERE ARE THE REPLICATION
FORKS? 42 CELL DIVISION 43 COORDINATION OF CELL DIVISION WITH
REPLICATION OF THE CHROMOSOME 44 TIMING OF INITIATION OF REPLICATION 45
THE BACTERIAL NUCLEOID 48 SUPERCOILING IN THE NUCLEOID 48 TOPOISOMERASES
50 THE BACTERIAL GENOME 51 ANTIBIOTICS THAT AFFECT REPLICATION AND DNA
STRUCTURE 53 ANTIBIOTICS THAT BLOCK PRECURSOR SYNTHESIS 53 ANTIBIOTICS
THAT BLOCK POLYMERIZATION OF DEOXYNUCLEOTIDES 54 ANTIBIOTICS THAT AFFECT
DNA STRUCTURE 54 ANTIBIOTICS THAT AFFECT GYRASE 55 MOLECULAR BIOLOGY
MANIPULATIONS WITH DNA 55 RESTRICTION ENDONUCLEASES 55 HYBRIDIZATIONS 58
APPLICATIONS OF THE ENZYMES USED IN DNA REPLICATION 61 RANDOM SHOTGUN
SEQUENCING OF BACTERIAL GENOMES 61 SITE-SPECIFIC MUTAGENESIS 62
POLYMERASE CHAIN REACTION 63 BOX 1.1 LINEAR CHROMOSOMES IN BACTERIA 32
BOX 1.2 RESTARTING REPLICATION FORKS 37 BOX 1.3 THE BACTERIAL
CYTOSKELETON AND BACTERIAL CELL BIOLOGY 40 BOX 1.4 FEATURES OF BACTERIAL
GENOMES 52 BOX 1.5 BACTERIAL GENOME SEQUENCING 62 SUMMARY 67 QUESTIONS
FOR THOUGHT 68 PROBLEMS 68 SUGGESTED READING 69 CHAPTER 2 BACTERIAL GENE
EXPRESSION: TRANSCRIPTION, TRANSLATION, AND PROTEIN FOLDING 71 OVERVIEW
71 THE STRUCTURE AND FUNCTION OF RNA TYPES OF RNA 72 RNA PRECURSORS 72
RNA STRUCTURE 72 RNA PROCESSING AND MODIFICATION 74 72 TRANSCRIPTION 74
STRUCTURE OF BACTERIAL RNA POLYMERASE OVERVIEW OF TRANSCRIPTION 75
DETAILS OF TRANSCRIPTION 76 RRNAS AND TRNAS 85 74 CONTENTS VII PROTEINS
86 LPROTEIN STRUCTURE 89 CHAPTER 3 87 ITRANSLATION JBETAILS OF PROTEIN
SYNTHESIS 90 |THE GENETIC CODE 93 97 102 |POLYCISTRONIC MRNA 104 JRNASES
AND MRNA PROCESSING AND DECAY ^TRANSLATION INITIATION ITRANSLATION
TERMINATION 105 F PROTEIN FOLDING 106 IPROTEIN CHAPERONES 106 JMEMBRANE
PROTEINS AND PROTEIN EXPORT JTHE TRANSLOCASE SYSTEM 110 FTHE SIGNAL
SEQUENCE 112 ISTHE TARGETING FACTORS 112 PROTEIN SECRETION 114
JDISULFIDE BONDS 114 IREGULATION OF GENE EXPRESSION 115 ITRANSCRIPTIONAL
REGULATION 116 ;POSTTRANSCRIPTIONAL REGULATION 117 MNTRONS AND INTEINS
117 USEFUL CONCEPTS 117 F OPEN READING FRAMES 121 I TRANSCRIPTIONAL AND
TRANSLATIONAL FUSIONS 122 I- BACTERIAL GENOME ANNOTATION 125 ANTIBIOTICS
THAT BLOCK TRANSCRIPTION AND TRANSLATION 125 { ANTIBIOTIC INHIBITORS OF
TRANSCRIPTION 125 ANTIBIOTIC INHIBITORS OF TRANSLATION 131 BOX 2.1
MOLECULAR PHYLOGENY 86 BOX 2.2 MIMICRY IN TRANSLATION 93 BOX 2.3
EXCEPTIONS TO THE CODE 95 BOX 2.4 TRAFFIC JAMS ON MRNA: REMOVING STALLED
RIBOSOMES WITH TMRNA 103 BOX 2.5 STABILITY AND DEGRADATION OF MRNA 107
BOX 2.6 SELFISH DNAS: RNA INTRONS AND PROTEIN INTEINS 118 BOX 2.7
ANNOTATION AND COMPARATIVE CENOMICS 125 SUMMARY 134 QUESTIONS FOR
THOUGHT 1 36 PROBLEMS 136 - SUGGESTED READING 137 BACTERIAL GENETIC
ANALYSIS: FORWARD AND REVERSE 139 DEFINITIONS 139 TERMS USED IN GENETICS
GENETIC NAMES 140 139 USEFUL PHENOTYPES IN BACTERIAL GENETICS 141
AUXOTROPHIC MUTANTS 141 CONDITIONAL LETHAL MUTANTS 142 109 RESISTANT
MUTANTS 143 INHERITANCE IN BACTERIA 144 THE LURIA AND DELBRIICK
EXPERIMENT THE NEWCOMBE EXPERIMENT 145 THE LEDERBERGS' EXPERIMENT 149
144 MUTATION RATES 150 CALCULATING MUTATION RATES SUMMARY 153 150 TYPES
OF MUTATIONS 153 BASE PAIR CHANGES 154 FRAMESHIFT MUTATIONS 158 DELETION
MUTATIONS 159 INVERSION MUTATIONS 160 TANDEM DUPLICATION MUTATIONS
INSERTION MUTATIONS 161 161 163 REVERSION VERSUS SUPPRESSION INTRAGENIC
SUPPRESSORS 163 INTERGENIC SUPPRESSORS 163 NONSENSE SUPPRESSORS 164
GENETIC ANALYSIS IN BACTERIA 167 ISOLATING MUTANTS 167 ISOLATING
INDEPENDENT MUTATIONS 168 SELECTING MUTANTS 168 GENETIC MAPPING BY
RECOMBINATION IN BACTERIA 170 COMPLEMENTATION TESTS 171 GENETIC CROSSES
IN BACTERIA 174 * -- GENETIC MAPPING BY HFR CROSSES 1 76 MAPPING OF
BACTERIAL MARKERS BY TRANSDUCTION AND TRANSFORMATION 181 OTHER USES OF
TRANSFORMATION AND TRANSDUCTION: STRAIN CONSTRUCTION 184 GENE
REPLACEMENTS AND REVERSE GENETICS 186 / VIII CONTENTS ISOLATION OF
TANDEM DUPLICATIONS OF THE HIS OPERON IN SALMONELLA ENTERICA SEROVAR
TYPHIMURIUM 190 LENGTH OF TANDEM DUPLICATIONS 192 FREQUENCY OF
SPONTANEOUS DUPLICATIONS 192 BOX 3.1 STATISTICAL ANALYSIS OF THE NUMBER
OF MUTANTS PER CULTURE 148 BOX 3.2 INVERSIONS AND THE GENETIC MAP 162
SUMMARY 193 QUESTIONS FOR THOUGHT 194 PROBLEMS 194 SUGGESTED READING 196
CHAPTER 4 PLASMIDS 197 WHAT IS A PLASMID? 197 NAMING PLASMIDS 198
FUNCTIONS ENCODED BY PLASMIDS 198 PLASMID STRUCTURE 199 PROPERTIES OF
PLASMIDS 201 REPLICATION 201 FUNCTIONS OF THE ON REGION 206 PLASMID
REPLICATION CONTROL MECHANISMS 209 MECHANISMS TO PREVENT CURING OF
PLASMIDS 222 THE PAR SYSTEMS OF PLASMIDS 227 CONSTRUCTING A PLASMID
CLONING VECTOR 229 FINDING THE PLASMID ORI REGION 229 EXAMPLES OF
PLASMID CLONING VECTORS 231 BROAD-HOST-RANGE CLONING VECTORS 234 USING
PLASMID VECTORS FOR GENE REPLACEMENT AND FUNCTIONAL GENOMICS 235 BOX 4.1
PLASMIDS AND BACTERIAL PATHOGENESIS 199 BOX 4.2 LINEAR PLASMIDS 205 BOX
4.3 AN INCOMPATIBILITY GROUP OF ONE'S OWN 214 BOX 4.4 PLASMID ADDICTION
223 SUMMARY 240 QUESTIONS, FOR THOUGHT 241 PROBLEMS 241 SUGGESTED
READING 241 CHAPTER 5 CONJUGATION 243 OVERVIEW 243 CLASSIFICATION OF
SELF-TRANSMISSIBLE PLASMIDS 244 MECHANISM OF DNA TRANSFER DURING
CONJUGATION IN GRAM-NEGATIVE BACTERIA 244 TRANSFER (TRA) GENES 244 THE
ORIT SEQUENCE 250 MALE-SPECIFIC PHAGES 250 EFFICIENCY OF TRANSFER 250
INTERSPECIES TRANSFER OF PLASMIDS 252 MOBILIZABLE PLASMIDS 252 GENETIC
ANALYSIS OF TRA SYSTEMS IN GRAM-NEGATIVE BACTERIA 259 ISOLATION OF TRA
MUTANT PLASMIDS 260 COMPLEMENTATION TESTS TO DETERMINETHE NUMBER OF TRA
GENES 260 CHROMOSOME TRANSFER BY PLASMIDS 261 FORMATION OF HFR STRAINS
263 TRANSFER OF CHROMOSOMAL DNA BY INTEGRATED PLASMIDS 263 CHROMOSOME
MOBILIZATION PRIME FACTORS 264 264 TRANSFER SYSTEMS OF GRAM-POSITIVE
BACTERIA 266 PLASMID-ATTRACTING PHEROMONES 267 OTHER TYPES OF
TRANSMISSIBLE ELEMENTS 269 CONJUGATIVE TRANSPOSONS 271 BOX 5.1 GENE
EXCHANGE BETWEEN KINGDOMS 253 BOX 5.2 CONJUGATION AND TYPE IV PROTEIN
SECRETION SYSTEMS 256 BOX 5.3 CONJUGATION IN STREPTOMYCETES 267 BOX 5.4
CONJUGATIVE TRANSPOSONS (INTEGRATING CONJUGATIVE ELEMENTS) 272 SUMMARY
274 QUESTIONS FOR THOUGHT 275 PROBLEMS 275 SUGGESTED READING 275 CHAPTER
6 TRANSFORMATION 277 NATURAL TRANSFORMATION 278 DISCOVERY OF
TRANSFORMATION 278 COMPETENCE 278 CONTENTS IX REGULATION OF COMPETENCE
IN B. SUBTILIS 282 EXPERIMENTAL EVIDENCE FOR MODELS OF NATURAL
TRANSFORMATION 283 PLASMID TRANSFORMATION AND PHAGE TRANSFECTION OF
NATURALLY COMPETENT BACTERIA 286 ROLE OF NATURAL TRANSFORMATION 286
IMPORTANCE OF NATURAL TRANSFORMATION FOR FORWARD AND REVERSE GENETICS
288 ARTIFICIALLY INDUCED COMPETENCE 289 CALCIUM ION INDUCTION 289
ELECTROPORATION 290 BOX 6.1 ANTIGENIC VARIATION IN NEISSERIA GONORRHOEAE
289 SUMMARY 291 QUESTIONS FOR THOUGHT 291 PROBLEMS 291 SUGGESTED READING
292 CHAPTER 7 LYTIC BACTERIOPHAGES: DEVELOPMENT, GENETICS, AND
GENERALIZED TRANSDUCTION 293 THE BACTERIOPHAGE LYTIC DEVELOPMENT CYCLE
295 PHAGE T7: A PHAGE-ENCODED RNA POLYMERASE 296 PHAGE T4:
TRANSCRIPTIONAL ACTIVATORS, ANTITERMINATION, A NEW SIGMA FACTOR, AND
REPLICATION-COUPLED TRANSCRIPTION 301 PHAGE DNA REPLICATION 306 PHAGES
WITH SINGLE-STRANDED CIRCULAR DNA PHAGE T7: LINEAR DNA THAT FORMS
CONCATEMERS 314 PHAGE T4: ANOTHER LINEAR DNA THAT FORMS CONCATEMERS 315
306 PHAGE LYSIS 318 320 GENETIC ANALYSIS OF PHAGES INFECTION OF CELLS
320 PHAGE CROSSES 321 RECOMBINATION AND COMPLEMENTATION TESTS WITH
PHAGES 321 GENETIC EXPERIMENTS WITH THE RLL GENES OF PHAGE T4 323
CONSTRUCTING THE GENETIC LINKAGE MAP OF A PHAGE 332 GENERALIZED
TRANSDUCTION 336 WHAT MAKES A TRANSDUCING PHAGE? 336 SHUTTLE PHASMIDS
337 ROLE OF TRANSDUCTION IN BACTERIAL EVOLUTION 339 BOX 7.1 RNA PHAGES
297 BOX 7.2 PHAGE DISPLAY 299 BOX 7.3 PROTEIN PRIMING 308 SUMMARY 339
QUESTIONS FOR THOUGHT 340 PROBLEMS 340 SUGGESTED READING 341 CHAPTER 8
LYSOGENY: THE X PARADIGM AND THE ROLE OF LYSOGENIC CONVERSION IN
BACTERIAL PATHOGENESIS 343 PHAGE X 344 LYTIC DEVELOPMENT 344 REPLICATION
OF X DNA 350 LYSOGENY 352 THE DL GENE PRODUCT 352 PHAGE X INTEGRATION
353 MAINTENANCE OF LYSOGENY 354 IMMUNITY TO SUPERINFECTION 356 INDUCTION
OF X 356 COMPETITION BETWEEN THE LYTIC AND LYSOGENIC CYCLES 359
SPECIALIZED TRANSDUCTION 359 362 OTHER LYSOGEN-FORMING PHAGES PHAGE P2
362 PHAGE P4 362 PHAGES P1 AND N15: PLASMID PROPHAGES PHAGE MU 365 USE
OF LYSOGEN-FORMING PHAGES AS CLONING VECTORS 365 LYSOGENIC CONVERSION
AND BACTERIAL PATHOGENESIS 366 E. COLI AND DYSENTERY: SHIGA TOXINS 366
DIPHTHERIA 368 CHOLERA 368 ^ BOTULISM AND TETANUS 369 SYNOPSIS 369 364
CONTENTS GENETIC EXPERIMENTS WITH PHAGE X 369 GENETICS OF X LYSOGENY 369
GENETICS OF THE CL REPRESSOR 370 ISOLATION OF X NUT MUTATIONS 370
ISOLATION OF HOST NUS MUTATIONS 373 BOX 8.1 EFFECTS OF PROPHAGE
INTEGRATION ON THE HOST 354 BOX 8.2 RETROREGULATION 358 BOX 8.3 HOW A
PATHOGENICITY ISLAND GETS AROUND 365 SUMMARY 373 QUESTIONS FOR THOUGHT
375 PROBLEMS 375 SUGGESTED READING 375 CHAPTER 9 TRANSPOSITION,
SITE-SPECIFIC RECOMBINATION, AND FAMILIES OF RECOMBINASES 377
TRANSPOSITION 377 OVERVIEW OF TRANSPOSITION 378 STRUCTURE OF BACTERIAL
TRANSPOSONS 378 - TYPES OF BACTERIAL TRANSPOSONS 379 ASSAYS OF
TRANSPOSITION 384 MECHANISMS OF TRANSPOSITION 385 GENETIC REQUIREMENTS
FOR TRANSPOSITION OF TN3 385 MOLECULAR MODELS FOR TRANSPOSITION OF TN3 J
AND MU 389 TRANSPOSITION BY TN 7 0 AND TN5 392 DETAILS OF TRANSPOSITION
BY THE DDE TRANSPOSONS 395 DETAILS OF THE MECHANISM OF TRANSPOSITION BY
TN5ANDTN7 395 ROLLING-CIRCLE TRANSPOSONS 397 Y AND S TRANSPOSONS 397
GENERAL PROPERTIES OF TRANSPOSONS 397 TARGET SITE SPECIFICITY 398
EFFECTS ON GENES ADJACENT TO THE INSERTION SITE 399 REGULATION OF
TRANSPOSITION 399 TARGET IMMUNITY 400 TRANSPOSON MUTAGENESIS 400
TRANSPOSON MUTAGENESIS OF PLASMIDS 403 TRANSPOSON MUTAGENESIS OF THE
BACTERIAL CHROMOSOME 405 TRANSPOSON MUTAGENESIS OF ALL BACTERIA 406
USING TRANSPOSON MUTAGENESIS TO MAKE RANDOM GENE FUSIONS 407 IN VIVO
CLONING 409 SITE-SPECIFIC RECOMBINATION 410 DEVELOPMENTALLY REGULATED
EXCISION OF INTERVENING DNA 411 INTEGRASES 412 RESOLVASES 415 DNA
INVERTASES 415 Y AND S RECOMBINASES 417 Y RECOMBINASES: MECHANISM 417 S
RECOMBINASES: MECHANISM 421 IMPORTANCE OF TRANSPOSITION AND
SITE-SPECIFIC RECOMBINATION IN BACTERIAL ADAPTATION 423 BOX 9.1 PHAGE
MU: A TRANSPOSON MASQUERADING AS A PHAGE 390 BOX 9.2 TRANSPOSON
MUTAGENESIS IN VITRO 402 SUMMARY 424 QUESTIONS FOR THOUGHT 425 PROBLEMS
425 * SUGGESTED READING 426 CHAPTER 10 MOLECULAR MECHANISMS OF
HOMOLOGOUS RECOMBINATION 429 OVERVIEW OF RECOMBINATION 430 REQUIREMENT
1: PAIRING BETWEEN IDENTICAL OR VERY SIMILAR SEQUENCES IN THE CROSSOVER
REGION 430 REQUIREMENT 2: COMPLEMENTARY BASE PAIRING BETWEEN
DOUBLE-STRANDED DNA MOLECULES 430 REQUIREMENT 3: CUTTING AND REJOINING
BY RECOMBINATION ENZYMES 431 REQUIREMENT 4: HETERODUPLEX FORMATION
INVOLVING ALL FOUR STRANDS 431 \ MOLECULAR MODELS OF RECOMBINATION 431
HOLLIDAY DOUBLE-STRAND INVASION MODEL 431 SINGLE-STRAND INVASION MODELS
433 DOUBLE-STRAND BREAK REPAIR MODEL 433 THE MOLECULAR BASIS FOR
RECOMBINATION IN E. CO// 435 CHI (%) SITES AND THE RECBCD NUCLEASE 436
THE RECFOR PATHWAY 438 CONTENTS XI ISYNAPSE FORMATION AND THE RECA
PROTEIN 440 |THE RUV AND RECG PROTEINS AND THE MIGRATION AND |; CUTTING
OF HOLLIDAY JUNCTIONS 442 IPHAGE RECOMBINATION PATHWAYS 446 I'REC
PROTEINS OF PHAGES T4 AND T7 446 FTHE RECE PATHWAY OF THE RAC PROPHAGE
446 |.THE PHAGE X RED SYSTEM 446 I GENETIC ANALYSIS OF RECOMBINATION IN
FBACTERIA 446 I ISOLATING REC~ MUTANTS OF COLI 450 |ISOLATING MUTANTS
WITH MUTATIONS IN OTHER I; RECOMBINATION GENES 451 |GENE CONVERSION AND
OTHER MANIFESTATIONS | OF HETERODUPLEX FORMATION DURING I RECOMBINATION
452 BOX 10.1 BREAKING AND ENTERING: INTRONS AND INTEINS MOVE BY
DOUBLE-STRAND BREAK REPAIR |OR RETROHOMING 434 I BOX 10.2 THE THREE R'S:
RECOMBINATION, REPLICATION, AND REPAIR 439 JBOX 10.3 RECOMBINEERING:
GENE REPLACEMENTS | IN E. COLI WITH PHAGE X RECOMBINATION | FUNCTIONS
447 NUMMARY 455 I QUESTIONS FOR THOUGHT 456 ["PROBLEMS 456 I SUGGESTED
READING 457 CHAPTER 11 DNA REPAIR AND MUTAGENESIS 459 EVIDENCE FOR DNA
REPAIR 460 SPECIFIC REPAIR PATHWAYS 461 DEAMINATION OF BASES 461 DAMAGE
DUE TO REACTIVE OXYGEN 464 DAMAGE DUE TO ALKYLATING AGENTS 467 DAMAGE
DUE TO UV IRRADIATION 470 GENERAL REPAIR MECHANISMS 471 THE
METHYL-DIRECTED MISMATCH REPAIR SYSTEM 471 NUDEOTIDE EXCISION REPAIR 477
DNA DAMAGE TOLERANCE MECHANISMS RECOMBINATION REPAIR OF DAMAGED
REPLICATION FORKS- 479 SOS INDUCIBLE REPAIR 484 478 MECHANISM OF
INDUCTION OF SOS MUTAGENESIS 489 MECHANISM OF TRANSLESION SYNTHESIS BY
THE UMUD' 2 C COMPLEX 490 SUMMARY OF REPAIR PATHWAYS IN . COLI 493
BACTERIOPHAGE REPAIR PATHWAYS 494 BOX 11.1 OXYGEN: THE ENEMY WITHIN 465
BOX 11.2 CANCER AND MISMATCH REPAIR 475 BOX 11.3 TRANSCRIPTION-REPAIR
COUPLING 479 BOX 11.4 TRANSLESION SYNTHESIS AND CANCER 486 BOX 11.5 THE
AMES TEST 492 SUMMARY 494 QUESTIONS FOR THOUGHT 496 PROBLEMS 496
SUGGESTED READING 496 CHAPTER 12 REGULATION OF GENE EXPRESSION: OPERONS
499 TRANSCRIPTIONAL REGULATION IN BACTERIA 500 GENETIC EVIDENCE FOR
NEGATIVE AND POSITIVE REGULATION 500 NEGATIVE TRANSCRIPTIONAL REGULATION
502 THE E. COLI LAC OPERON 502 FINE-STRUCTURE ANALYSIS OF THE LAD GENE
OF COLI 506 THE COLI GAL OPERON 512 NEGATIVE REGULATION OF
BIOSYNTHETIC OPERONS: APOREPRESSORS AND COREPRESSORS 516 POSITIVE
REGULATION 518 THE COLI I-ARA OPERON 519 THE COLI MALTOSE OPERONS
525 THE TO/ OPERONS 528 REGULATION BY ATTENUATION OF TRANSCRIPTION 530
REGULATION OF THE COLI TRP OPERON BY ATTENUATION 530 REGULATION OF THE
TRP OPERON OF 8. SUBTILIS BY ATTENUATION 532 REGULATION OF THE BGL
OPERON OF COLI 536 REGULATION BY SECONDARY-STRUCTURE CHANGES IN THE
MRNA 536 RIBOSWITCH REGULATION 537 XII CONTENTS POSTTRANSLATIONAL
REGULATION: FEEDBACK INHIBITION 539 FEEDBACK INHIBITION OF THE
TRYPTOPHAN OPERON 539 FEEDBACK INHIBITION OF THE ISOLEUCINE-VALINE
OPERON 539 POSTTRANSLATION MODIFICATIONS OF ENZYMES 540 OPERON ANALYSIS
FOR SEQUENCED GENOMES 540 ALLELES OF OPERON GENES 540 ALLELES OF
REGULATORY GENES AND ELEMENTS 543 BOX 12.1 THE HELIX-TURN-HELIX MOTIF OF
DNA-BINDING PROTEINS 501 BOX 12.2 FAMILIES OF REGULATORS 521 SUMMARY 543
QUESTIONS FOR THOUGHT 544 PROBLEMS 544 SUGGESTED READING 545 CHAPTER 13
GLOBAL REGULATION: REGULONS AND STIMULONS 547 CATABOLITE-SENSITIVE
OPERONS 548 CAMP AND THE CAMP-BINDING PROTEIN 548 GENETIC ANALYSIS OF
CATABOLITE REGULATION IN COLI 554 USES OF CAMP IN OTHER ORGANISMS 556
A BACTERIAL TWO-HYBRID SYSTEM BASED ON ADENYLATE CYCLASE 557 REGULATION
OF NITROGEN ASSIMILATION 558 PATHWAYS FOR NITROGEN ASSIMILATION 558,
COORDINATION OF CATABOLITE REPRESSION, THE NTR SYSTEM, AND THE
REGULATION OF AMINO ACID-DEGRADATIVE OPERONS 566 GENETIC ANALYSIS OF
NITROGEN REGULATION IN ENTERIC BACTERIA 566 STRESS RESPONSES IN BACTERIA
568 Y HEAT SHOCK REGULATION 568 GENERAL STRESS RESPONSE IN GRAM-NEGATIVE
BACTERIA 571 ^ GENERAL STRESS RESPONSE IN GRAM-POSITIVE BACTERIA 572
EXTRACYTOPLASMIC (ENVELOPE) STRESS RESPONSES 573 REGULATION OF PORIN
SYNTHESIS 574 REGULATION OF THE ENVELOPE STRESS RESPONSE BY CPXA-CPXR: A
TWO-COMPONENT SENSOR-KINASE RESPONSE-REGULATOR SYSTEM 582 THE
EXTRACYTOPLASMIC FUNCTION: E. COLI SIGMA FACTOR A E 583 IRON REGULATION
IN E. COLI 584 THE FUR REGULON 584 THE RYHB RNA 584 THE ACONITASE
TRANSLATIONAL REPRESSOR 586 REGULATION OF VIRULENCE GENES IN PATHOGENIC
BACTERIA 587 DIPHTHERIA 587 CHOLERA AND QUORUM SENSING 587 WHOOPING
COUGH 593 REGULATION OF RIBOSOME AND TRNA SYNTHESIS 595 RIBOSOMAL
PROTEINS 595 REGULATION OF RRNA AND TRNA SYNTHESIS 598 MICROARRAY AND
PROTEOMIC ANALYSIS OF REGULATORY NETWORKS 602 TRANSCRIPTOME ANALYSIS 602
PROTEOME ANALYSIS 606 FROM GENES TO REGULONS TO NETWORKS TO GENETIC
ANALYSIS 607 BOX 13.1 CAMP-LNDEPENDENT CATABOLITE REPRESSION 551 BOX
13.2 NITROGEN FIXATION 559 BOX 13.3 SIGMA FACTORS 563 BOX 13.4 SIGNAL
TRANSDUCTION SYSTEMS IN BACTERIA 576 BOX 13.5 REGULATORY RNAS 580
SUMMARY 607 QUESTIONS FOR THOUGHT 609 PROBLEMS 609 SUGGESTED READING 610
CHAPTER 14 BACTERIAL CELL COMPARTMENTALIZATION AND SPORULATION 613
ANALYSIS OF PROTEIN TRANSPORT IN ESCHERICHIA COLI 614 USE OF THE MAL
GENES TO STUDY PROTEIN TRANSPORT: SIGNAL SEQUENCES, SEC, ANDSRP 615 THE
TAT SECRETION PATHWAY 620 CONTENTS XIII ^GENETIC ANALYSIS OF
TRANSMEMBRANE "DOMAINS OF INNER MEMBRANE PROTEINS IN GRAM-NEGATIVE
BACTERIA 621 IDENTIFICATION OF GENES FOR TRANSPORTED PROTEINS BY RANDOM
PHOA FUSIONS 622 PROTEIN SECRETION 622 ^PROTEIN SECRETION SYSTEMS IN
GRAM-NEGATIVE BACTERIA 623 ^PROTEIN SECRETION IN GRAM-POSITIVE BACTERIA
630 RSORTASES 630 ;EXAMPLE OF A SORTASE-DEPENDENT PATHWAY: SPORULATION
IN STREPTOMYCES COELICOLOR 632 IGENETIC ANALYSIS OF SPORULATION IN
*BACILLUS SUBTILIS 635 IDENTIFICATION OF GENES THAT REGULATE SPORULATION
636 REGULATION OF INITIATION OF SPORULATION 636 ICOMPARTMENTALIZED
REGULATION OF SPORULATION GENES 641 ^ANALYSIS OF THE ROLE OF SIGMA
FACTORS IN SPORULATION REGULATION 642 INTERCOMPARTMENTAL REGULATION
DURING DEVELOPMENT 643 FINDING SPORULATION GENES: MUTANT HUNTS,
SUPPRESSOR ANALYSIS, AND FUNCTIONAL GENOMICS 650 BOX 14.1 SECRETION
SYSTEMS AND MOTILITY 626 BOX 14.2 PHOSPHORELAY ACTIVATION OF THE
TRANSCRIPTION FACTOR SPOOA 640 SUMMARY 652 QUESTIONS FOR THOUGHT 652
PROBLEMS 653 SUGGESTED READING 653 ANSWERS TO QUESTIONS FOR THOUGHT AND
PROBLEMS 655 GLOSSARY 669 FIGURE AND TABLE CREDITS 705 INDEX 711 |
| any_adam_object | 1 |
| any_adam_object_boolean | 1 |
| author | Snyder, Larry Champness, Wendy |
| author_facet | Snyder, Larry Champness, Wendy |
| author_role | aut aut |
| author_sort | Snyder, Larry |
| author_variant | l s ls w c wc |
| building | Verbundindex |
| bvnumber | BV023213024 |
| callnumber-first | Q - Science |
| callnumber-label | QH434 |
| callnumber-raw | QH434 |
| callnumber-search | QH434 |
| callnumber-sort | QH 3434 |
| callnumber-subject | QH - Natural History and Biology |
| classification_rvk | WG 4100 |
| classification_tum | BIO 310f BIO 220f BIO 306f BIO 180f |
| ctrlnum | (OCoLC)77011542 (DE-599)DNB 2006101363 |
| dewey-full | 572.8/293 |
| dewey-hundreds | 500 - Natural sciences and mathematics |
| dewey-ones | 572 - Biochemistry |
| dewey-raw | 572.8/293 |
| dewey-search | 572.8/293 |
| dewey-sort | 3572.8 3293 |
| dewey-tens | 570 - Biology |
| discipline | Biologie |
| discipline_str_mv | Biologie |
| edition | 3. ed. |
| format | Book |
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| id | DE-604.BV023213024 |
| illustrated | Illustrated |
| index_date | 2024-07-02T20:12:53Z |
| indexdate | 2024-07-09T21:13:13Z |
| institution | BVB |
| isbn | 1555813992 9781555813994 |
| language | English |
| lccn | 2006101363 |
| oai_aleph_id | oai:aleph.bib-bvb.de:BVB01-016399063 |
| oclc_num | 77011542 |
| open_access_boolean | |
| owner | DE-703 DE-19 DE-BY-UBM DE-M49 DE-BY-TUM DE-20 |
| owner_facet | DE-703 DE-19 DE-BY-UBM DE-M49 DE-BY-TUM DE-20 |
| physical | XVII, 735 S. Ill. 29 cm |
| publishDate | 2007 |
| publishDateSearch | 2007 |
| publishDateSort | 2007 |
| publisher | ASM Press |
| record_format | marc |
| spelling | Snyder, Larry Verfasser aut Molecular genetics of bacteria Larry Snyder and Wendy Champness 3. ed. Washington, D.C. ASM Press 2007 XVII, 735 S. Ill. 29 cm txt rdacontent n rdamedia nc rdacarrier 4. Aufl. u.d.T.: Molecular genetics of bacteria / Larry Snyder Includes bibliographical references and index Bactériophages - Génétique Génétique bactérienne Génétique moléculaire Bacterial genetics Bacteriophages Genetics Molecular genetics Bacteria genetics Bacteriophages genetics Chromosomes, Bacterial Genetics, Microbial methods Molecular Biology methods Bakterien (DE-588)4004296-0 gnd rswk-swf Gentechnologie (DE-588)4071722-7 gnd rswk-swf Bakteriophagen (DE-588)4125508-2 gnd rswk-swf Molekulargenetik (DE-588)4039987-4 gnd rswk-swf Bakteriophagen (DE-588)4125508-2 s Molekulargenetik (DE-588)4039987-4 s DE-604 Bakterien (DE-588)4004296-0 s Gentechnologie (DE-588)4071722-7 s Champness, Wendy Verfasser aut http://www.loc.gov/catdir/toc/ecip076/2006101363.html Table of contents only HEBIS Datenaustausch application/pdf http://bvbr.bib-bvb.de:8991/F?func=service&doc_library=BVB01&local_base=BVB01&doc_number=016399063&sequence=000007&line_number=0001&func_code=DB_RECORDS&service_type=MEDIA Inhaltsverzeichnis |
| spellingShingle | Snyder, Larry Champness, Wendy Molecular genetics of bacteria Bactériophages - Génétique Génétique bactérienne Génétique moléculaire Bacterial genetics Bacteriophages Genetics Molecular genetics Bacteria genetics Bacteriophages genetics Chromosomes, Bacterial Genetics, Microbial methods Molecular Biology methods Bakterien (DE-588)4004296-0 gnd Gentechnologie (DE-588)4071722-7 gnd Bakteriophagen (DE-588)4125508-2 gnd Molekulargenetik (DE-588)4039987-4 gnd |
| subject_GND | (DE-588)4004296-0 (DE-588)4071722-7 (DE-588)4125508-2 (DE-588)4039987-4 |
| title | Molecular genetics of bacteria |
| title_auth | Molecular genetics of bacteria |
| title_exact_search | Molecular genetics of bacteria |
| title_exact_search_txtP | Molecular genetics of bacteria |
| title_full | Molecular genetics of bacteria Larry Snyder and Wendy Champness |
| title_fullStr | Molecular genetics of bacteria Larry Snyder and Wendy Champness |
| title_full_unstemmed | Molecular genetics of bacteria Larry Snyder and Wendy Champness |
| title_short | Molecular genetics of bacteria |
| title_sort | molecular genetics of bacteria |
| topic | Bactériophages - Génétique Génétique bactérienne Génétique moléculaire Bacterial genetics Bacteriophages Genetics Molecular genetics Bacteria genetics Bacteriophages genetics Chromosomes, Bacterial Genetics, Microbial methods Molecular Biology methods Bakterien (DE-588)4004296-0 gnd Gentechnologie (DE-588)4071722-7 gnd Bakteriophagen (DE-588)4125508-2 gnd Molekulargenetik (DE-588)4039987-4 gnd |
| topic_facet | Bactériophages - Génétique Génétique bactérienne Génétique moléculaire Bacterial genetics Bacteriophages Genetics Molecular genetics Bacteria genetics Bacteriophages genetics Chromosomes, Bacterial Genetics, Microbial methods Molecular Biology methods Bakterien Gentechnologie Bakteriophagen Molekulargenetik |
| url | http://www.loc.gov/catdir/toc/ecip076/2006101363.html http://bvbr.bib-bvb.de:8991/F?func=service&doc_library=BVB01&local_base=BVB01&doc_number=016399063&sequence=000007&line_number=0001&func_code=DB_RECORDS&service_type=MEDIA |
| work_keys_str_mv | AT snyderlarry moleculargeneticsofbacteria AT champnesswendy moleculargeneticsofbacteria |