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RNA Detection and visualization : methods and protocols = RNA检测与可视化 : 研究方法与实验方案 / edited by Jeffrey E. Gerst. -- [reprinted ed.]. -- Beijing : Science Press ; New York : Humana, c2013. – (58.174251/R627(R)) |
Contents
Preface
v
Contributors
xi
PART I VISUALIZING MRNAs IN SITU
1
Single Molecule Imaging of KNA In Situ
2
FISH and Immunofluorescence Staining in Chlamydomonas
3
High Resolution Fluorescent In Situ Hybridization in Drosophila
4
Localization and Anchorage of Maternal mRNAs to Cortical Structures of
Ascidian Eggs and Embryos Using High Resolution In Situ Hybridization 49
5
Visualization of mRNA Localization in Xenopus Oocytes 71
6
Visualization ofmRNA Expression in the Zebrafish Embryo 83
7
High-Resolution Fluorescence In Situ Hybridization to Detect mRNAs in
Neuronal Compartments In Vitro and In Vivo
103
8
Localization of mRNA in Vertebrate Axonal Compartments by In Situ
Hybridization 125
PART II
VISUALIZING MRNAs IN VIvo USING MOLECULAR PROBES OR RECONSTITUTED
FLUORESCENT PROTEINS
9
Tiny Molecular Beacons for in vivo mRNA Detection
10
Delivery of Molecular Beacons for Live-Cell Imaging and Analysis of RNA.
11
Genetically-Encoded Fluorescent Probes for Imaging Endogenous mRNA in
Living Cells
12 Visualization of Induced RNA in Single
Bacterial Cells
PART III
VISUALIZING MRNAs IN VIVO USING APTAMERS AND INTACT FLUORESCENT PROTEINS
13 Visualizing
mRNAs in Fixed and Living Yeast Cells
203
14 In
Vivo Visualization of RNA Using the U1A-Based Tagged RNA System 221
15
Visualizing Endogenous mRNAs in Living Yeast Using m-TAG, a PCR-Based
RNA Aptamer Integration Method, and Fluorescence Microscopy 237
16 Imaging
mRNAs in Living Mammalian Cells 249
17
Using the mRNA-MS2/MS2CP-FP System to Study mRNA Transport During
Drosophila Oogenesis 265
PART IV
USE OF CELL FRACTIONATION TO DEMONSTRATE THE SUB-CELLULAR LOCALIZATION
OF RNA
18
Genome-Wide Analysis of RNA Extracted from Isolated Mitochondria 287
19 Analyzing mRNA Localization to the
Endoplasmic Reticulum via Cell Fractionation
301
20
Isolation ofmRNAs Encoding Peroxisomal Proteins from Yeast Using a
Combined Cell Fractionation and Affinity Purification Procedure 323
21
Profiling Axonal mRNA Transport
335
22
RNA Purification from Tumor Cell Protrusions Using Porous Polycarbonate
Filters 353
PART V
AFFINITY PURIFICATION OF MRNAs AND THE IDENTIFICATION OF TRANS-ACTING
FACTORS
23
RNA-Binding Protein Immunopurification-Microarray (RIP-Chip) Analysis to
Profile Localized RNAs 369
24
RAPID: An Aptamer-Based mRNA Affinity Purification Technique for the
Identification of RNA and Protein Factors Present in Ribonucleoprotein
Complexes 387
25 RIP:
An mRNA Localization Technique 407
26 The
Dual Use of RNA Aptamer Sequences for Affinity Purification and Localization
Studies of RNAs and RNA-Protein Complexes
423
PART VI
USE OF BIOINFORMATICS TO IDENTIFY CIS-ACTING MOTIFS AND STRUCTURES IN
RNAs
27
Identifying and Sefirching for Conserved RNA Localisation Signals 447
28
Computational Prediction of RNA Structural Motifs Involved in
Post-Transcriptional Regulatory Processes
467
Index
481
