Mass Spectrometry-Based Proteomics to Unveil the Non-coding RNA World
The interaction between non-coding RNAs (ncRNAs) and proteins is crucial for the stability, localization and function of the different classes of ncRNAs. Although ncRNAs, when embedded in various ribonucleoprotein (RNP) complexes, control the fundamental processes of gene expression, their biologica...
| Main Authors: | , , |
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| Format: | Article |
| Language: | English |
| Published: |
Frontiers Media S.A.
2018-11-01
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| Series: | Frontiers in Molecular Biosciences |
| Subjects: | |
| Online Access: | https://www.frontiersin.org/article/10.3389/fmolb.2018.00090/full |
| _version_ | 1818446794093232128 |
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| author | Roberto Giambruno Marija Mihailovich Tiziana Bonaldi |
| author_facet | Roberto Giambruno Marija Mihailovich Tiziana Bonaldi |
| author_sort | Roberto Giambruno |
| collection | DOAJ |
| description | The interaction between non-coding RNAs (ncRNAs) and proteins is crucial for the stability, localization and function of the different classes of ncRNAs. Although ncRNAs, when embedded in various ribonucleoprotein (RNP) complexes, control the fundamental processes of gene expression, their biological functions and mechanisms of action are still largely unexplored. Mass Spectrometry (MS)-based proteomics has emerged as powerful tool to study the ncRNA world: on the one hand, by identifying the proteins interacting with distinct ncRNAs; on the other hand, by measuring the impact of ncRNAs on global protein levels. Here, we will first provide a concise overview on the basic principles of MS-based proteomics for systematic protein identification and quantification; then, we will recapitulate the main approaches that have been implemented for the screening of ncRNA interactors and the dissection of ncRNA-protein complex composition. Finally, we will describe examples of various proteomics strategies developed to characterize the effect of ncRNAs on gene expression, with a focus on the systematic identification of microRNA (miRNA) targets. |
| first_indexed | 2024-12-14T19:53:23Z |
| format | Article |
| id | doaj.art-f8cf5945b4434b0dbfa389b7059cf524 |
| institution | Directory Open Access Journal |
| issn | 2296-889X |
| language | English |
| last_indexed | 2024-12-14T19:53:23Z |
| publishDate | 2018-11-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Molecular Biosciences |
| spelling | doaj.art-f8cf5945b4434b0dbfa389b7059cf5242022-12-21T22:49:21ZengFrontiers Media S.A.Frontiers in Molecular Biosciences2296-889X2018-11-01510.3389/fmolb.2018.00090415962Mass Spectrometry-Based Proteomics to Unveil the Non-coding RNA WorldRoberto GiambrunoMarija MihailovichTiziana BonaldiThe interaction between non-coding RNAs (ncRNAs) and proteins is crucial for the stability, localization and function of the different classes of ncRNAs. Although ncRNAs, when embedded in various ribonucleoprotein (RNP) complexes, control the fundamental processes of gene expression, their biological functions and mechanisms of action are still largely unexplored. Mass Spectrometry (MS)-based proteomics has emerged as powerful tool to study the ncRNA world: on the one hand, by identifying the proteins interacting with distinct ncRNAs; on the other hand, by measuring the impact of ncRNAs on global protein levels. Here, we will first provide a concise overview on the basic principles of MS-based proteomics for systematic protein identification and quantification; then, we will recapitulate the main approaches that have been implemented for the screening of ncRNA interactors and the dissection of ncRNA-protein complex composition. Finally, we will describe examples of various proteomics strategies developed to characterize the effect of ncRNAs on gene expression, with a focus on the systematic identification of microRNA (miRNA) targets.https://www.frontiersin.org/article/10.3389/fmolb.2018.00090/fullncRNAmass spectrometrySILACRNA-affinity purificationsmiRNAgene expression |
| spellingShingle | Roberto Giambruno Marija Mihailovich Tiziana Bonaldi Mass Spectrometry-Based Proteomics to Unveil the Non-coding RNA World Frontiers in Molecular Biosciences ncRNA mass spectrometry SILAC RNA-affinity purifications miRNA gene expression |
| title | Mass Spectrometry-Based Proteomics to Unveil the Non-coding RNA World |
| title_full | Mass Spectrometry-Based Proteomics to Unveil the Non-coding RNA World |
| title_fullStr | Mass Spectrometry-Based Proteomics to Unveil the Non-coding RNA World |
| title_full_unstemmed | Mass Spectrometry-Based Proteomics to Unveil the Non-coding RNA World |
| title_short | Mass Spectrometry-Based Proteomics to Unveil the Non-coding RNA World |
| title_sort | mass spectrometry based proteomics to unveil the non coding rna world |
| topic | ncRNA mass spectrometry SILAC RNA-affinity purifications miRNA gene expression |
| url | https://www.frontiersin.org/article/10.3389/fmolb.2018.00090/full |
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