RNA biology an introduction
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2011
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| 100 | 1 | |a Meister, Gunter |d 1974- |e Verfasser |0 (DE-588)124318185 |4 aut | |
| 245 | 1 | 0 | |a RNA biology |b an introduction |c Gunter Meister |
| 264 | 1 | |a Weinheim |b Wiley-VCH |c 2011 | |
| 300 | |a XVI, 363 S. |b Ill., graph. Darst. | ||
| 336 | |b txt |2 rdacontent | ||
| 337 | |b n |2 rdamedia | ||
| 338 | |b nc |2 rdacarrier | ||
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Datensatz im Suchindex
| DE-BY-TUM_call_number | 0302/BIO 180f 2012 A 7539 |
|---|---|
| DE-BY-TUM_katkey | 1892155 |
| DE-BY-TUM_media_number | 040030494767 |
| _version_ | 1816713819461779456 |
| adam_text |
IMAGE 1
CONTENTS
PREFACE XV
PART ONE MRNA BIOLOGY 1
1 INTRODUCTION 3
1.1 RNA BUILDING BLOCKS 4
1.2 RNA FOLDING 6
1.3 THE RNA WORLD HYPOTHESIS 10 1.4 FUNCTIONS OF RNA 11
1.5 PROTEIN CLASSES THAT ARE REQUIRED FOR RNA FUNCTION 12 1.5.1 RNA
BINDING PROTEINS 12 1.5.1.1 PROTEINS THAT INTERACT WITH SINGLE STRANDED
RNAS 12 1.5.1.2 PROTEINS THAT INTERACT WITH DOUBLE STRANDED RNAS 14
1.5.2 RNA HELICASES 14
REFERENCES 15
2 TRANSCRIPTION OF PRE-M RNAS 17 2.1 STRUCTURE AND ORGANIZATION OF
PROTEIN CODING GENES 18 2.2 TRANSCRIPTION OF MRNAS BY RNA POLYMERASE II
20 2.2.1 TRANSCRIPTIONAL INITIATION OF PROTEIN CODING GENES 23
2.2.2 REGULATION OF TRANSCRIPTIONAL INITIATION OF RNA POLYMERASE II 27
2.2.3 TRANSITION FROM PREINITIATION TO INITIATION AND PROMOTER CLEARANCE
27 2.2.4 PRODUCTIVE ELONGATION OF MRNA TRANSCRIPTS 29 2.2.4.1 THE
NUDEOTIDE ADDITION CYCLE (NAC) 29 2.2.4.2 PROTEIN FACTORS THAT INFLUENCE
POL II ELONGATION 30 2.3 TRANSCRIPTIONAL TERMINATION OF PRE-MRNAS 31 2.4
TRANSCRIPTION IS COUPLED TO OTHER MRNA MATURATION STEPS 32 2.5 SUMMARY
34
REFERENCES 35
3 CAPPING OF THE PRE-MRNA 5' END 37
3.1 M 7 G-CAP STRUCTURE 37
3.2 MRNA CAPPING ENZYMES 39
BIBLIOGRAFISCHE INFORMATIONEN HTTP://D-NB.INFO/1002408164
DIGITALISIERT DURCH
IMAGE 2
VI I CONTENTS
3.2.1 RNA TRIPHOSPHATASE 39
3.2.2 GUANYLYLTRANSFERASE 39 3.2.3 GUANINE-N7-METHYLTRANSFERASE 40 3.3
5' CAPPING IS COUPLED TO TRANSCRIPTION 41 3.4 5' CAP BINDING PROTEINS 41
3.5 SUMMARY 42
REFERENCES 43
4 3' END PROCESSING OF PRE-MRNAS 45 4.1 POLYADENYLATION SIGNALS 46 4.2
PROTEINS INVOLVED IN 3' END PROCESSING OF PRE-MRNAS 47
4.2.1 CLEAVAGE AND POLYADENYLATION SPECIFIC FACTOR (CPSF) 47 4.2.2
CLEAVAGE STIMULATION FACTOR (CSTF) 47 4.2.3 MAMMALIAN CLEAVAGE FACTOR I
(CFI M ) AND II (CFII M ) 48 4.2.4 THE POLY(A) POLYMERASE (PAP) 49
4.2.5 POLY(A)-BINDING PROTEIN (PABP) 50 4.2.6 SYMPLEKIN 51
4.3 3' END PROCESSING IS TIGHTLY LINKED TO TRANSCRIPTIONAL TERMINATION
51 4.4 ALTERNATIVE POLYADENYLATION 51 4.5 CYTOPLASMIC POLYADENYLATION 53
4.6 3' END PROCESSING OF HISTONE MRNAS 54 4.7 SUMMARY 56
REFERENCES 57
5 SPLICING OF EUKARYOTIC PRE-MRNAS 59 5.1 GROUP I, II AND III INRRONS 59
5.1.1 GROUP I INRRONS 59
5.1.2 GROUP II INTRONS 61
5.1.3 GROUP III INTRONS 61
5.2 THE MECHANISM OF PRE-MRNA SPLICING 61 5.3 THE SPLICEOSOME 62
5.4 THE U12-DEPENDENT MINOR SPLICEOSOME 66 5.5 COUPLING OF SPLICING WITH
TRANSCRIPTION AND 5' CAPPING 67 5.6 ALTERNATIVE SPLICING AND THE
COMPLEXITY OF GENOMES 68
5.6.1 MECHANISMS OF EXON INCLUSION INTO THE MATURE MRNA 69 5.6.2
MECHANISM OF EXON EXCLUSION FROM THE MATURE MRNA 70 5.7 SUMMARY 70
5.8 QUESTIONS 71
REFERENCES 72
6 MRNA EXPORT FROM THE NUCLEUS TO THE CYTOPLASM 73 6.1 NUCLEAR IMPORT
AND NUCLEAR EXPORT 73 6.2 MRNA EXPORT RECEPTORS 75
IMAGE 3
CONTENTS VII
6.3 ADAPTORS THAT BRIDGE MRNAS WITH EXPORT
RECEPTORS 78
6.4 MECHANISM OF MRNA EXPORT 78 6.5 COUPLING OF MRNP EXPORT TO OTHER
STEPS OF MRNA MATURATION 80 6.6 SUMMARY 80
6.7 QUESTIONS 81
REFERENCES 81
7 TRANSLATION 83
7.1 AMINO ACIDS, MRNAS, TRNAS 83 7.1.1 MRNA 83
7.1.2 AMINO ACIDS 84
7.1.3 TRANSFER RNAS (TRNAS) 86 7.1.4 LOADING AMINO ACIDS ONTO TRNAS 87
7.2 THE RIBOSOME 89
7.3 THE MECHANISMS OF TRANSLATION 90 7.3.1 TRANSLATION INITIATION 90
7.3.1.1 EUKARYOTES 90 7.3.1.2 BACTERIA 93 7.3.1.3 ARCHAEA 96 7.3.1.4
INTERNAL RIBOSOME ENTRY SITES (IRESS) 96 7.3.2 ELONGATION 97
7.3.2.1 POLYRIBOSOMES 97 7.3.3 TERMINATION 99
7.3.4 RECYCLING OF THE RIBOSOME 100 7.4 TRANSLATIONAL REGULATION 100 7
A.I REGULATION OF TRANSLATION INITIATION 100 7 A.I REGULATION OF
TRANSLATION ELONGATION AND
TERMINATION 103
7.5 COUPLING TRANSLATION WITH OTHER MRNA MATURATION AND QUALITY CONTROL
STEPS 103 7.6 SUMMARY 104
7.7 QUESTIONS 105
REFERENCES 106
8 DEADENYLATION OF MRNA 107
8.1 DEADENYLATING ENZYMES 107 8.1.1 POLY(A) NUDEASE 107 8.1.2 CCR4-NOT
COMPLEX 108 8.1.3 POLY(A) RIBONUCLEASE 108 8.1.4 OTHER DEADENYLASES 110
8.2 SUMMARY 111
8.3 QUESTIONS 111
REFERENCES 112
IMAGE 4
VIII CONTENTS
9 MRNA DECAPPING 113
9.1 DECAPPING ENZYMES ARE THE CORE OF THE MRNA DECAPPING MACHINERY 1 13
9.2 SCAVENGER DECAPPING ENZYME DCPS 115 9.3 REGULATION OF MRNA DECAPPING
115
9.3.1 INHIBITORS OF DECAPPING 115 9.3.2 ENHANCERS OF DECAPPING 116 9.4
INTRACELLULAR LOCALIZATION OF MRNA DECAPPING 117 9.5 SUMMARY 118
9.6 QUESTIONS 119
REFERENCES 119
10 MRNA DECAY PATHWAYS 121
10.1 DEADENYLATION-DEPENDENT MRNA DECAY 122 10.1.1 THE 5' TO 3'
EXORIBONUDEASE XRNL 122 10.1.2 THE EXOSOME 122
10.1.2.1 STRUCTURAL ORGANIZATION OF THE EXOSOME 125 10.1.2.2 MECHANISM
OF EXOSOME-MEDIATED RNA DEGRADATION 125 10.1.2.3 REGULATION OF EXOSOME
ACTIVITY 126 10.2 DEADENYLATION-INDEPENDENT MRNA DECAY 127
10.3 ENDORIBONUCLEASE-MEDIATED MRNA DECAY 128 10.3.1 EUKARYOTIC
ENDORIBONUDEASES 129 10.4 REGULATION OF MRNA DECAY 131 10.5 RNA
DEGRADATION IN BACTERIA 131 10.6 SUMMARY 133
10.7 QUESTIONS 134
REFERENCES 135
11 MRNA QUALITY CONTROL 137
11.1 NUCLEAR MRNA QUALITY CONTROL MECHANISMS 137 11.1.1 MRNP RETENTION
AT THE TRANSCRIPTION SITE 138 11.1.2 MRNP QUALITY CONTROL AT THE NUDEAR
PORE COMPLEX 138 11.2 NONSENSE-MEDIATED MRNA DECAY (NMD) 138
11.2.1 PROTEIN FACTORS REQUIRED FOR NMD 139 11.2.1.1 UPF PROTEINS 139
11.2.1.2 THE EXON-EXON-JUNCTION COMPLEX (EJC) AND NMD 140
11.2.1.3 SMG PROTEINS AND THE PHOSPHORYLATION OF UPF1 141 11.2.2
MECHANISM OF NMD IN MAMMALS 142 11.2.3 CYTOPLASMIC PROCESSING BODIES AND
NMD 143 11.2.4 MECHANISMOF NMD IN YEAST AND FLIES 144
11.2.5 MRNA DEGRADATION PATHWAYS IN NMD 146 11.3 OTHER MRNA QUALITY
CONTROL PATHWAYS 146 11.3.1 NON-STOP MRNA DEGRADATION 146
IMAGE 5
CONTENTS IX
11.3.2 NO-GO MRNA DECAY (NGD) 148
11.4 SUMMARY 148
11.5 QUESTIONS 149
REFERENCES 149
PART TWO NON-CODING RNA BIOLOGY 151
12 RIBOSOMAL RNAS AND THE BIOGENESIS OF RIBOSOMES 153 12.1 GENOMIC
ORGANIZATION OF RIBOSOMAL RNA GENES 153 12.1.1 BACTERIA AND ARCHAEA 153
12.1.2 EUKARYOTES 155 12.1.2.1 28S, 18S AND 5.8S RRNAS 155 12.1.2.2
5SRRNA 156 12.2 TRANSCRIPTION OF RIBOSOMAL RNA GENES 157 12.2.1 RNA
POLYMERASE I 157 12.2.1.1 INITIATION OF POL I TRANSCRIPTION 158
12.2.1.2 PROMOTER CLEARANCE, TRANSCRIPT ELONGATION AND TERMINATION OF
POL I TRANSCRIPTION 160 12.2.1.3 REGULATION OF RNA POLYMERASE I
TRANSCRIPTION 161 12.2.2 RNA POLYMERASE III AND THE TRANSCRIPTION OF
THE 5S RRNA 162
12.2.2.1 POL III PROMOTERS 163 12.2.2.2 TRANSCRIPTION INITIATION AND
ELONGATION OF RNA POLYMERASE III 165 12.2.2.3 INITIATION OF TYPE 3
PROMOTERS 167
12.2.2.4 TERMINATION AND RE-INITIATION 168 12.3 MATURATION OF RRNAS 169
12.3.1 SMALL NUCLEOLAR RNAS ARE REQUIRED FOR PRE-RRNA PROCESSING 170
12 A ASSEMBLY OF RIBOSOMAL SUBUNITS 172 12.5 NUCLEAR EXPORT OF RIBOSOMAL
SUBUNITS 174 12.6 MODIFICATION, STRUCTURE AND FUNCTION OF RRNAS 175 12.7
SUMMARY 178
12.8 QUESTIONS 179
REFERENCES 180
13 TRANSFER RNAS 183
13.1 GENOMIC ORGANIZATION AND TRANSCRIPTION OF TRNA GENES 183 13.2
PROCESSING TO MATURE TRNAS 184 13.2.1 5'MATURATION OFTRNAS BY THE RNASEP
ENZYME COMPLEX 184 13.2.2 3' END MATURATION OFTRNAS 186 13.2.3 TRNA
SPLICING 188
13.3 TRNA MODIFICATIONS 191 13.4 NUCLEAR EXPORT OFTRNAS 193 13.5
TERTIARY STRUCTURE OF TRNAS 194
IMAGE 6
CONTENTS
13.6 SUMMARY 196
REFERENCES 197
14 THE 7SL RNA AND THE SIGNAL RECOGNITION PARTICLE 199 14.1 ARCHITECTURE
OF THE SRP 199 14.1.1 THE SRP RNA 199 14.1.2 PROTEIN COMPONENTS OF THE
SRP 201
14.1.2.1 EUKARYOTES 201 14.1.2.2 ARCHAEA AND BACTERIA 203 14.2
SRP-MEDIATED PROTEIN TRANSLOCATION 204 14.3 SUMMARY 206
REFERENCES 208
15 REGULATION OF TRANSCRIPTION: THE 7SK SMALL NUCLEAR RNA 209 15.1
ARCHITECTURE OF THE 7SK SNRNA 209 15.1.1 THE 7SK SNRNA 209 15.1.2
PROTEIN COMPONENTS OF THE 7SK SNRNP 210
15.2 THE 7SK SNRNP FUNCTIONS AS TRANSCRIPTIONAL REGULATOR 212 15.2.1
P-TEFB FUNCTION IN TRANSCRIPTION 212 15.2.2 REPRESSION OF P-TEFB BY THE
7SK SNRNP 214 15.3 OTHER SMALL NON-CODING RNAS THAT INTERFERE WITH
TRANSCRIPTION 214
15.3.1 THE 6S RNA IN BACTERIA 214 15.3.2 ALU, BL AND B2 NON-CODING RNAS
IN MAMMALS 215 15.4 SUMMARY 215
REFERENCES 226
16 SMALL NUCLEOLAR RNAS 217
16.1 GENOMIC ORGANIZATION AND SNORNA TRANSCRIPTION 217 16.2 BOX H/ACA
SNORNAS 218 16.3 BOX C/D SNORNAS 221 16 A MATURATION OF FUNCTIONAL
SNORNPS 223
16.5 ORPHAN SNORNAS 224
16.6 THE TELOMERASE RNP 226 16.7 SUMMARY 227
REFERENCES 228
17 SPLICEOSOMAL SMALL NUCLEAR RNAS 229 17.1 TRANSCRIPTION AND MATURATION
OF SPLICEOSOMAL SNRNAS 229 17.1.1 TRANSCRIPTION OF SPLICEOSOMAL SNRNAS
229 17.1.2 SNRNA MATURATION 230
17.1.3 SNRNA EXPORT TO THE CYTOPLASM 231 17.2 THE STRUCTURE OF USNRNPS
232 17.2.1 SECONDARY STRUCTURE OF SPLICEOSOMAL SNRNAS 232 17.2.2 PROTEIN
COMPOSITION OF USNRNPS 233
IMAGE 7
CONTENTS XI
17.2.2.1 THE SM/LSM CORE STRUCTURE 233
17.2.2.2 USNRNP-SPECIFIC PROTEINS 235 17.3 ASSEMBLY OF SPLICEOSOMAL
SNRNPS 237 17.3.1 CYTOPLASMIC ASSEMBLY OF THE SM CORE DOMAIN 237 17.3.2
FORMATION OF THE TRI-METHYL GUANINE CAP 240 17.3.3 IMPORT OF ASSEMBLED
USNRNPS INTO THE NUDEUS 241 17.4 SUMMARY 242
17.5 QUESTIONS 243
REFERENCES 244
18 SMALL NON-CODING RNAS AND THE MECHANISM OF CENE SILENCING 245 18.1
SHORT INTERFERING RNAS AND THE MECHANISM OF RNA INTERFERENCE 245 18.2
DICER 248
18.3 RNA-DEPENDENT RNA POLYMERASES 248 18.4 ARGONAUTE PROTEINS 251 18.5
MICRORNAS AND THE REGULATION OF GENE EXPRESSION 251 18.5.1 MIRNA
BIOGENESIS 251
18.5.2 NON-CANONICAL MIRNA BIOGENESIS PATHWAYS 253 18.5.3 MIRNA
FUNCTIONS 255 18.5.3.1 MIRNAS CAN ACT AS SIRNAS 255 18.5.3.2 MIRNAS
INHIBIT TRANSLATION 255 18.5.3.3 MIRNAS INDUCE DEADENYLATION AND MRNA
DECAY 256 18.6 PIRNAS AND THE REGULATION OF MOBILE GENETIC ELEMENTS IN
THE GERM LINE 257
18.6.1 TRANSPOSONS AS DRIVING FORCE BEHIND EVOLUTION 258 18.6.2 PIRNAS
CONTROL TRANSPOSON EXPRESSION 259 18.7 SMALL RNAS WITH FUNCTIONS IN
CHROMATIN REGULATION 261 18.8 THE CRISPR SYSTEM - A BACTERIAL AND
ARCHAEAL DEFENSE
MECHANISM 263
18.8.1 THE CRISPR LOCUS 263 18.8.2 ACQUISITION OF CRISPR-MEDIATED
RESISTANCE 264 18.8.3 MECHANISM OF CRISPR ACTIVITY 265 18.9 SUMMARY 266
REFERENCES 269
19 LONG NON-CODING RNAS 271
19.1 THE XIST NON-CODING RNA AND X CHROMOSOME INACTIVATION 271 19.1.1
THE X-CHROMOSOME INACTIVATION CENTER (XIC) 272 19.1.2 THE XIST
NON-CODING RNA AND THE MECHANISM OF
X INACTIVATION 272
19.1.3 REGULATION OF XIST FUNCTION 274 19.2 DOSAGE COMPENSATION IN FLIES
275
IMAGE 8
XII I CONTENTS
19.3 NON-CODING RNAS AND THE REGULATION OF IMPRINTING 276
19.4 THE REGULATION OF HOX GENES BY LONG NON-CODING RNAS 278 19.5 LONG
NON-CODING RNAS ARE COMMON IN COMPLEX GENOMES 278
19.6 SUMMARY 278
REFERENCES 280
20 RNA EDITING 281
20.1 RNA EDITING BY U INSERTIONS OR DELETIONS 281 20.1.1 MECHANISMS OF U
INSERTIONS OR DELETIONS 282 20.2 RNA EDITING BY BASE MODIFICATION 283
20.2.1 C TO U CONVERSION 284 20.2.2 ADENINE TO INOSINE EDITING 286
20.2.2.1 ADENOSINE DEAMINASE ACTING ON RNA 287 20.2.2.2 EDITING SITE
SELECTIVITY 288 20.2.2.3 BIOLOGICAL CONSEQUENCES OF A TO I CONVERSIONS
288 20.3 SUMMARY 290
REFERENCES 291
21 RIBOZYMES - CATALYTIC RNA MOLECULES 293 21.1 IDENTIFICATION OF
CATALYTIC RNAS 293 21.2 MECHANISMS AND SECONDARY STRUCTURES OF DIFFERENT
RIBOZYMES 294 21.2.1 GROUP I INTRONS 294 21.2.2 RNASE P 295
21.2.3 THE DIELS-ALDERASE RIBOZYME 296 21.2.4 HAMMERHEAD RIBOZYMES 298
21.2.5 THE GLMS RIBOZYME 298 21.3 SUMMARY 300
REFERENCES 301
22 RIBOSWITCHES AND RNA SENSORS 303 22.1 MECHANISMS OF RIBOSWITCH
FUNCTION 303 22.2 RIBOSWITCH STRUCTURES 305 22.3 RNA THERMOMETERS 305
22.4 SUMMARY 307
REFERENCES 308
23 RNOMICS 309
23.1 "OMICS" APPROACHES 309 23.2 EXPERIMENTAL RNA PROFILING STRATEGIES
310 23.2.1 NORTHERN BLOTTING 310 23.2.2 MICROARRAY 311
23.2.3 QUANTITATIVE PCR 313
IMAGE 9
CONTENTS XIII
23.2.4 RNA FLUORESCENT IN SITU HYBRIDIZATION 314
23.2.5 NEXT GENERATION SEQUENCING 314 23.3 RNA BIOLOGY AND THE
COMPLEXITY OF GENOMES 315 23.4 SUMMARY 315
REFERENCES 318
APPENDIX: ANSWERS TO QUESTIONS 319
INDEX 355 |
| any_adam_object | 1 |
| author | Meister, Gunter 1974- |
| author_GND | (DE-588)124318185 |
| author_facet | Meister, Gunter 1974- |
| author_role | aut |
| author_sort | Meister, Gunter 1974- |
| author_variant | g m gm |
| building | Verbundindex |
| bvnumber | BV036573228 |
| classification_rvk | WD 5355 |
| classification_tum | BIO 180f CHE 885f |
| ctrlnum | (OCoLC)705675279 (DE-599)DNB1002408164 |
| dewey-full | 572.88 |
| dewey-hundreds | 500 - Natural sciences and mathematics |
| dewey-ones | 572 - Biochemistry |
| dewey-raw | 572.88 |
| dewey-search | 572.88 |
| dewey-sort | 3572.88 |
| dewey-tens | 570 - Biology |
| discipline | Biologie Chemie |
| format | Book |
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| id | DE-604.BV036573228 |
| illustrated | Illustrated |
| indexdate | 2024-11-25T17:37:10Z |
| institution | BVB |
| isbn | 9783527322787 |
| language | English |
| oai_aleph_id | oai:aleph.bib-bvb.de:BVB01-020494298 |
| oclc_num | 705675279 |
| open_access_boolean | |
| owner | DE-355 DE-BY-UBR DE-20 DE-11 DE-19 DE-BY-UBM DE-188 DE-29T DE-703 DE-91G DE-BY-TUM |
| owner_facet | DE-355 DE-BY-UBR DE-20 DE-11 DE-19 DE-BY-UBM DE-188 DE-29T DE-703 DE-91G DE-BY-TUM |
| physical | XVI, 363 S. Ill., graph. Darst. |
| publishDate | 2011 |
| publishDateSearch | 2011 |
| publishDateSort | 2011 |
| publisher | Wiley-VCH |
| record_format | marc |
| spellingShingle | Meister, Gunter 1974- RNA biology an introduction RNS (DE-588)4076759-0 gnd |
| subject_GND | (DE-588)4076759-0 |
| title | RNA biology an introduction |
| title_auth | RNA biology an introduction |
| title_exact_search | RNA biology an introduction |
| title_full | RNA biology an introduction Gunter Meister |
| title_fullStr | RNA biology an introduction Gunter Meister |
| title_full_unstemmed | RNA biology an introduction Gunter Meister |
| title_short | RNA biology |
| title_sort | rna biology an introduction |
| title_sub | an introduction |
| topic | RNS (DE-588)4076759-0 gnd |
| topic_facet | RNS |
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