Noncoding RNAs: molecular biology and molecular medicine
Saved in:
| Format: | Book |
|---|---|
| Language: | English |
| Published: |
Georgetown, Tex. [u.a.]
Landes Bioscience [u.a.]
2003
|
| Edition: | Softcover reprint of the hardcover 1. ed. 2003 |
| Series: | Molecular biology intelligence unit
|
| Subjects: | |
| Online Access: | Inhaltsverzeichnis |
| Physical Description: | 274 S. graph. Darst. |
| ISBN: | 9781441934086 |
Staff View
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| 264 | 1 | |a Georgetown, Tex. [u.a.] |b Landes Bioscience [u.a.] |c 2003 | |
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Record in the Search Index
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|---|---|
| adam_text | I = CONTENTS =|
Preface xii
1. Riboregulators: An Overview 1
Maciej Szymanski, VolkerA. Erdmann andJan Barciszewski
Introduction 1
Properties of Ribonucleic Acids 1
Coding vs. Noncoding Transcripts 2
Functions of RNA Regulators 4
Perspectives 6
2. Introns and Noncoding RNAs: The Hidden Layer
of Eukaryotic Complexity 11
John S. Mattick
Introduction 11
Noncoding RNAs Represent the Majority of Genomic Output
in Mammals and Probably All Complex Organisms 13
Do Introns and ncRNAs Represent a Second Tier
of Gene Expression 14
Introns 15
Noncoding RNAs 16
Origin and Nomenclature of Noncoding RNAs 19
A New Definition of a Gene—A Transcription Cluster
with cis-Acting Regulatory Elements 19
Complex Genetic Phenomena Involving RNA 20
RNA Binding and Signaling Proteins 21
Possible Functions of ncRNAs 22
A New Genetics 23
3. Computational Gene-Finding for Noncoding RNAs 33
Peter Schattner
Abstract 33
Introduction 33
Gene-Finding for Protein-Coding Genes and ncRNAs 34
Custom-Designed ncRNA Gene-Finders 36
Reconfigurable ncRNA Gene-Finders 38
De novo ncRNA Gene-Finding—Searching for Genes
without a priori Knowledge of Sequence or Structure 40
Current Status and Future Prospects for Computational
ncRNA Gene-Finding 44
4. Xist RNA Associates with Chromatin and Causes Gene Silencing 49
Anton Wutz
Abstract 49
Introduction 49
The Xist Gene 51
Initiation of Xist-Medhted Silencing in the Embryo 53
Regulation of Xist Expression—Counting and Choosing the Xs 55
The Mechanism of Xist Function 57
A Model for Xist Function 60
Evolutionary Considerations 62
Concluding Remarks 62
5. Dosage Compensation in Drosophihv. A Ribonucleoprotein
Complex Mediates Transcriptional Up-Regulation 66
Dianne Kindel and Hubert Amrein
Summary 66
Different Mechanisms of Dosage Compensation 67
Basic Principles of Dosage Compensation 67
Male-Specific Hyper-Transcription Through
Chromatin Modification 67
Male-Specific Implementation of Dosage Compensation
Is Dependent on the Absence of SXL Repressor 68
The Components of the DCC 69
The roA RNAs Are Chromatin Entry Sites 74
Ordered Assembly of the DCC 74
Specific Functions of and Interactions Among MSL Proteins 76
The roXRNAs Are Essential for Dosage Compensation 77
Models and Outlook 78
6. The Structure, Regulation and Function
of the Imprinted H19 RNA 84
Raluca I. Verona and Marisa S. Bartolomei
Abstract 84
Introduction 84
Riboregulatory RNAs 85
Imprinting of HI 9 87
Tissue-Specific Exptession of H19 89
Sequence Conservation of HI 9 91
HI9 and Growth Control 91
Is the H19 RNA Functional? 91
7. MicroRNAs 99
Eric G. Moss
Abstract 99
Introduction 99
Discovery and Isolation of miRNAs 100
Characteristics of miRNAs 105
The Mechanism of Action of lin-4 107
Proteins Involved in miRNA Biogenesis and Function 110
Identifying miRNA Targets 111
Artificial miRNAs 112
Summary and Conclusions 112
8. Short Interfering and MicroRNAs: Tiny but Mighty 117
Martin Tabler, Alexandra Boutla, Kriton Kalantidis andMina Tsagris
Abstract 117
MicroRNAs (miRNAs) 118
Short Interfering RNA (siRNA) 120
Application of siRNAs to Trigger RNAi 123
9. Post-Transcriptional Gene Silencing in Plants 129
Matthew A. Escobar and Abhaya M. Dandekar
Abstract 129
Introduction 129
Initiation of PTGS in Plants Many Roads to dsRNA 130
From dsRNA to Silencing Models of the RNA
Degradation Pathway 133
Roles of PTGS in Plants 137
Conclusions 138
10. RNA-Directed DNA Methylation and Chromatin Modifications 141
Marjori A. Matzke, M. Florian Mette, Tatsuo Kanno, htvdn Papp,
Werner Aufiatz andAntonius J.M. Matzke
Abstract 141
Introduction 141
Homology-Dependent Gene Silencing 142
Discovery and Characteristics of RNA-Directed DNA Methylation 143
Mechanism of RdDM 144
RNA Guiding Chromatin Modifications 150
Evolution of RNA Silencing Mechanisms 152
Outlook 154
11. Brain-Specific Nonmessenger RNAs 159
Jiirgen Brosius, Alexander Hiittenhofer and Henri Tiedge
Abstract 159
Introduction 159
Large nmRNAs in the Brain 160
snmRNAs in the Brain 160
Outlook 164
12. New Frontiers for the snoRNA World 170
Jean-Pierre Bachellerie andje rome Cavaille
Abstract 170
Introduction 170
Two Large Families of Modification Guide snoRNAs 171
snoRNP Biogenesis 173
Novel Guides for snRNA Modifications 176
Orphan Guides snoRNAs in Search of RNA Targets 177
Brain-Specific Imprinted snoRNAs 178
Archaeal Homologs of Modification Guide snoRNAs 181
Archaeal tRNAs Are Targeted Too 182
Conclusions 183
13. New Perspectives on Noncoding or Short ORF-Encoding
RNAsin Plants 192
Martin Crespi, Anna Campalans, Claude Thermes and Adam Kondorosi
Abstract 192
mRNAs without Long ORFs Exist in Plants and Animals 193
mRNAs Only Containing sORFs Are Involved in Plant Growth
and Development 194
Potential Mechanisms of Action 197
Perspectives: Small Regulatory RNAs and sORF-Encoded
Oligopeptides as Novel Regulators of Gene Expression 199
14. The Noncoding DevelopmentaJly Active and Stress Inducible
hsrw Gene of Drosophila melanogaster Integrates
Post-Transcriptional Processing of Other Nuclear Transcripts 202
Subhash C. Lakhotia
Summary 202
Introduction 203
The 93D or the hsrw Gene in Drosophila Displays
Unique and Conserved Inducibiliry but Apparently
Does Not Produce a Protein 203
The hsrw Gene Shows a Unique Conserved Architecture
but with Little Conservation of Base Sequence
in Drosophila Species 206
The hsrw Gene Produces Multiple Noncoding Transcripts 207
The hsrw Gene Shows Widespread Developmental Expression 208
Promoter Region of the hsrw Gene Is Complex 208
The hsrw Gene Is Functional in Spite of Its Noncoding Transcripts 208
Functions of hsrw Transcripts 210
Future Prospects 214
15. Adapt Gene RNA Transcripts as Riboregulators 220
Dana R. Crawford and Kelvin J. A. Davies
Abstract 220
Background 220
Identification of adaptJ5 and adapt33 221
Mechanism of Action ofadapt 15 and adapt33 225
Conclusions 227
16. RNA Pathogenesis in Dominant Noncoding Microsatellite
Expansion Disorders 230
Laura P. W. Ranum and John W. Day
Abstract 230
Introduction 230
Myotonic Dystrophy Type 1: Gene Discovery
and Proposed Pathogenic Models 231
Spinocerebellar Ataxia Type 8 233
Spinocerebellar Ataxia Type 10 234
Clinical and Molecular Distinctions Between
DM1 SCA8 and SCA10 234
Myotonic Dystrophy Type 2 234
RNA Pathogenesis in the Myotonic Dystrophies 235
Other Noncoding Expansion Disorders 237
Conclusions 238
17. Noncoding RNAs Encoded by Bacterial Chromosomes 242
E. Gerhart H. Wagner andjorg Vogel
Abstract 242
Preface 242
Introduction 243
Housekeeping sRNAs 243
Regulatory Antisense RNAs Come in Two Flavors 244
The Trans-Encoded Antisense RNA MicF Is a Stress
Response Regulator 244
sRNAs Can Regulate Multiple Genes 246
One Regulatory RNA—Two (or More) Target RNAs 248
More Than One RNA Acting on the Same Target 249
Discoordinate Expression of Genes within Operons—Another
Role for sRNAs 250
Some sRNAs Require Helper Proteins 250
The Exception (?): aV-Encoded Antisense RNAs
in the E. coli Chromosome 252
Regulation of Gene Expression by Interaction between sRNAs
and Proteins 252
Structures of sRNAs 252
Stable or Unstable in Cells? 253
Primary or Processed Transcripts 253
What Is the Job of the New sRNAs? 254
And by What Mechanisms? 254
How Many Are There? 254
Conclusions 254
18. We Are Legion: Noncoding Regulatory RNAs and Hfq 259
Cristin C. Brescia and Darren D. Sledjeski
Summary 259
Noncoding RNAs 259
Functions of Noncoding RNAs in Gram Negatives 260
Noncoding RNAs in Gram-Positive Bacteria 261
Regulating the Regulators. How Are ncRNAs Regulated? 261
The RNA-Binding Protein Hfq and ncRNAs 262
What Is the Function of Hfq? 262
How Is Hfq Interacting with RNAs? 264
Conclusion 266
Index 271
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| indexdate | 2024-07-10T01:07:16Z |
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| isbn | 9781441934086 |
| language | English |
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| publishDate | 2003 |
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| publisher | Landes Bioscience [u.a.] |
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| spelling | Noncoding RNAs molecular biology and molecular medicine Jan Barciszewski ... Softcover reprint of the hardcover 1. ed. 2003 Georgetown, Tex. [u.a.] Landes Bioscience [u.a.] 2003 274 S. graph. Darst. txt rdacontent n rdamedia nc rdacarrier Molecular biology intelligence unit Non-coding RNA (DE-588)7650051-2 gnd rswk-swf Non-coding RNA (DE-588)7650051-2 s b DE-604 Barciszewski, Jan Sonstige oth HBZ Datenaustausch application/pdf http://bvbr.bib-bvb.de:8991/F?func=service&doc_library=BVB01&local_base=BVB01&doc_number=027323026&sequence=000002&line_number=0001&func_code=DB_RECORDS&service_type=MEDIA Inhaltsverzeichnis |
| spellingShingle | Noncoding RNAs molecular biology and molecular medicine Non-coding RNA (DE-588)7650051-2 gnd |
| subject_GND | (DE-588)7650051-2 |
| title | Noncoding RNAs molecular biology and molecular medicine |
| title_auth | Noncoding RNAs molecular biology and molecular medicine |
| title_exact_search | Noncoding RNAs molecular biology and molecular medicine |
| title_full | Noncoding RNAs molecular biology and molecular medicine Jan Barciszewski ... |
| title_fullStr | Noncoding RNAs molecular biology and molecular medicine Jan Barciszewski ... |
| title_full_unstemmed | Noncoding RNAs molecular biology and molecular medicine Jan Barciszewski ... |
| title_short | Noncoding RNAs |
| title_sort | noncoding rnas molecular biology and molecular medicine |
| title_sub | molecular biology and molecular medicine |
| topic | Non-coding RNA (DE-588)7650051-2 gnd |
| topic_facet | Non-coding RNA |
| url | http://bvbr.bib-bvb.de:8991/F?func=service&doc_library=BVB01&local_base=BVB01&doc_number=027323026&sequence=000002&line_number=0001&func_code=DB_RECORDS&service_type=MEDIA |
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