RNA detection and visualization : methods and protocols / edited by Jeffrey E. Gerst.

Contributor(s): Gerst, Jeffrey E
Material type: TextTextSeries: Methods in molecular biology (Clifton, N.J.): v. 714.Publisher: [New York] : Humana Press, ©2011Description: 1 online resource (xiv, 497 pages)Content type: text Media type: computer Carrier type: online resourceISBN: 9781617790058; 1617790052Subject(s): RNA | RNA -- analysis | Genetic Techniques | RNA | Human Anatomy & Physiology | Health & Biological Sciences | Animal Biochemistry | celbiologie | cellular biology | nucleic acids | moleculaire biologie | molecular biology | Molecular Biology (General) | Cellular Biology | Moleculaire biologie (algemeen) | CelbiologieGenre/Form: Laboratory Manual. | Electronic books. Additional physical formats: Print version:: RNA detection and visualization.DDC classification: 572.8/8 LOC classification: QP623 | .R53 2011Online resources: Click here to access online
Contents:
Single molecule imaging of RNA in situ / M. Batish, A. Raj and S. Tyagi -- Fish and immunofluorescence staining in chlamydomonas / J. Uniacke, D. Colon-Ramos and W. Zerges -- High resolution fluorescent in situ hybridization in drosophila / E. Lecuyer -- Localization and anchorage of maternal mRNAs to cortical structures of ascidian eggs and embryos using high resolution in situ hybridization / A. Paix, J. Chenevert and C. Sardet -- Visualization of mRNA localization in xenopus oocytes / J.A. Gagnon and K.L. Mowry -- Visualization of mRNA expression in the zebrafish embryo / Y. Machluf and G. Levkowitz -- High-resolution fluorescence in situ hybridization to detect mRNAs in neuronal compartments in vitro and in vivo / S.A. Swanger, G.J. Bassell and C. Gross -- Localization of mRNA in vertebrate axonal compartments by in situ hybridization / J.R. Sotelo-Silveira [and others] -- Tiny molecular beacons for in vivo mRNA detection / D.P. Bratu, I.E. Catrina and S.A. Marras -- Delivery of molecular beacons for live-cell imaging and analysis of RNA / A.K. Chen [and others] -- Genetically-encoded fluorescent probes for imaging endogenous mRNA in living cells / T. Ozawa and Y. Umezawa -- Visualization of induced RNA in single bacterial cells / A. Borogovac and N.E. Broude -- Visualizing mRNAs in fixed and living yeast cells / F. Gallardo and P. Chartrand -- In vivo visualization of RNA using the U1A-based tagged RNA system / S. Chung and P.A. Takizawa -- Visualizing endogenous mRNAs in living yeast using m-tag, a pcr-based RNA aptamer integration method, and fluorescence microscopy / L. Haim-Vilmovsky and J.E. Gerst -- Imaging mRNAs in living mammalian cells / S. Yunger and Y. Shav-Tal -- Using the mRNA-MS2/MS2CP-FP system to study mRNA transport during drosophila oogenesis / K. Belaya and D. St Johnston -- Genome-wide analysis of RNA extracted from isolated mitochondria / E. Eliyahu, D. Melamed and Y. Arava -- Analyzing mRNA localization to the endoplasmic reticulum via cell fractionation / S. Jagannathan, C. Nwosu and C.V. Nicchitta -- Isolation of mRNAs encoding peroxisomal proteins from yeast using a combined cell fractionation and affinity purification procedure / G. Zipor, C. Brocard and J.E. Gerst -- Profiling axonal mRNA transport / D.E. Willis and J.L. Twiss -- RNA purification from tumor cell protrusions using porous polycarbonate filters / J. Shankar and I.R. Nabi -- Rna-binding protein immunopurification-microarray (rip-chip) analysis to profile localized rnas / A. Galgano and A.P. Gerber -- Rapid: An aptamer-based mRNA affinity purification technique for the identification of RNA and protein factors present in ribonucleoprotein complexes / B. Slobodin and J.E. Gerst -- Rip: An mRNA localization technique / S. Jayaseelan [and others] -- The dual use of RNA aptamer sequences for affinity purification and localization studies of RNAs and RNA-protein complexes / S.C. Walker [and others] -- Identifying and searching for conserved RNA localisation signals / R.S. Hamilton and I. Davis -- Computational prediction of RNA structural motifs involved in post-transcriptional regulatory processes / M. Rabani, M. Kertesz and E. Segal.
Summary: With its complex and extensively regulated metabolism, the study of the RNA lifecycle demands tools that allow for the localization of RNAs to be observed either in an in situ setting or, preferably, under in vivo conditions. In RNA Detection and Visualization: Methods and Protocols, the best and brightest investigators provide an up-to-date and in-depth description of basic methods and protocols used for detecting and visualizing mRNAs in both fixed and live cells, from bacteria to mammals. For novices and experts alike, this mix of classic in situ hybridization and advanced live imaging techniques, cell fractionation and affinity purification procedures, and bioinformatics tools gives researchers the most complete and extensive array of research aids possible. As a volume written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and expert tips on troubleshooting and avoiding known pitfalls. Authoritative and cutting-edge, RNA Detection and Visualization: Methods and Protocols offers well-honed techniques in order to inspire researchers around the world to further our knowledge of the vital biological significance of RNA.
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Includes bibliographical references and index.

Single molecule imaging of RNA in situ / M. Batish, A. Raj and S. Tyagi -- Fish and immunofluorescence staining in chlamydomonas / J. Uniacke, D. Colon-Ramos and W. Zerges -- High resolution fluorescent in situ hybridization in drosophila / E. Lecuyer -- Localization and anchorage of maternal mRNAs to cortical structures of ascidian eggs and embryos using high resolution in situ hybridization / A. Paix, J. Chenevert and C. Sardet -- Visualization of mRNA localization in xenopus oocytes / J.A. Gagnon and K.L. Mowry -- Visualization of mRNA expression in the zebrafish embryo / Y. Machluf and G. Levkowitz -- High-resolution fluorescence in situ hybridization to detect mRNAs in neuronal compartments in vitro and in vivo / S.A. Swanger, G.J. Bassell and C. Gross -- Localization of mRNA in vertebrate axonal compartments by in situ hybridization / J.R. Sotelo-Silveira [and others] -- Tiny molecular beacons for in vivo mRNA detection / D.P. Bratu, I.E. Catrina and S.A. Marras -- Delivery of molecular beacons for live-cell imaging and analysis of RNA / A.K. Chen [and others] -- Genetically-encoded fluorescent probes for imaging endogenous mRNA in living cells / T. Ozawa and Y. Umezawa -- Visualization of induced RNA in single bacterial cells / A. Borogovac and N.E. Broude -- Visualizing mRNAs in fixed and living yeast cells / F. Gallardo and P. Chartrand -- In vivo visualization of RNA using the U1A-based tagged RNA system / S. Chung and P.A. Takizawa -- Visualizing endogenous mRNAs in living yeast using m-tag, a pcr-based RNA aptamer integration method, and fluorescence microscopy / L. Haim-Vilmovsky and J.E. Gerst -- Imaging mRNAs in living mammalian cells / S. Yunger and Y. Shav-Tal -- Using the mRNA-MS2/MS2CP-FP system to study mRNA transport during drosophila oogenesis / K. Belaya and D. St Johnston -- Genome-wide analysis of RNA extracted from isolated mitochondria / E. Eliyahu, D. Melamed and Y. Arava -- Analyzing mRNA localization to the endoplasmic reticulum via cell fractionation / S. Jagannathan, C. Nwosu and C.V. Nicchitta -- Isolation of mRNAs encoding peroxisomal proteins from yeast using a combined cell fractionation and affinity purification procedure / G. Zipor, C. Brocard and J.E. Gerst -- Profiling axonal mRNA transport / D.E. Willis and J.L. Twiss -- RNA purification from tumor cell protrusions using porous polycarbonate filters / J. Shankar and I.R. Nabi -- Rna-binding protein immunopurification-microarray (rip-chip) analysis to profile localized rnas / A. Galgano and A.P. Gerber -- Rapid: An aptamer-based mRNA affinity purification technique for the identification of RNA and protein factors present in ribonucleoprotein complexes / B. Slobodin and J.E. Gerst -- Rip: An mRNA localization technique / S. Jayaseelan [and others] -- The dual use of RNA aptamer sequences for affinity purification and localization studies of RNAs and RNA-protein complexes / S.C. Walker [and others] -- Identifying and searching for conserved RNA localisation signals / R.S. Hamilton and I. Davis -- Computational prediction of RNA structural motifs involved in post-transcriptional regulatory processes / M. Rabani, M. Kertesz and E. Segal.

Print version record.

With its complex and extensively regulated metabolism, the study of the RNA lifecycle demands tools that allow for the localization of RNAs to be observed either in an in situ setting or, preferably, under in vivo conditions. In RNA Detection and Visualization: Methods and Protocols, the best and brightest investigators provide an up-to-date and in-depth description of basic methods and protocols used for detecting and visualizing mRNAs in both fixed and live cells, from bacteria to mammals. For novices and experts alike, this mix of classic in situ hybridization and advanced live imaging techniques, cell fractionation and affinity purification procedures, and bioinformatics tools gives researchers the most complete and extensive array of research aids possible. As a volume written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and expert tips on troubleshooting and avoiding known pitfalls. Authoritative and cutting-edge, RNA Detection and Visualization: Methods and Protocols offers well-honed techniques in order to inspire researchers around the world to further our knowledge of the vital biological significance of RNA.

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