Locating chemical modifications in RNA sequences through ribonucleases and LC-MS based analysis
Knowledge of the structural information is essential for understanding the functional details of modified RNA. Cellular non-coding RNA such as rRNA, tRNA and even viral RNAs contain a number of post-transcriptional modifications with varied degree of diversity and density. In this chapter, we discus...
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| Veröffentlicht in: | Methods in enzymology 2021, Vol.658, p.1-24 |
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| container_title | Methods in enzymology |
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| creator | Thakur, Priti Abernathy, Scott Limbach, Patrick A Addepalli, Balasubrahmanyam |
| description | Knowledge of the structural information is essential for understanding the functional details of modified RNA. Cellular non-coding RNA such as rRNA, tRNA and even viral RNAs contain a number of post-transcriptional modifications with varied degree of diversity and density. In this chapter, we discuss the use of a combination of biochemical and analytical tools such as ribonucleases and liquid chromatography coupled with mass spectrometry approaches for characterization of modified RNA. We present the protocols and alternate strategies for obtaining confident modified sequence information to facilitate the understanding of function. |
| doi_str_mv | 10.1016/bs.mie.2021.06.023 |
| format | Article |
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We present the protocols and alternate strategies for obtaining confident modified sequence information to facilitate the understanding of function.</description><subject>Base Sequence</subject><subject>Chromatography, Liquid</subject><subject>Ribonucleases - metabolism</subject><subject>RNA - genetics</subject><subject>RNA Processing, Post-Transcriptional</subject><subject>RNA, Transfer - genetics</subject><subject>RNA, Transfer - metabolism</subject><subject>Tandem Mass Spectrometry</subject><issn>0076-6879</issn><issn>1557-7988</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2021</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNpVkEtLxDAUhYMoOj7-gAvJ0k3rTdLmsRFk8AWjgo91SZp0JtImY9MK8--t-EBXl3Pu5Tuci9AxgZwA4Wcm5Z13OQVKcuA5ULaFZqQsRSaUlNtoBiB4xqVQe2g_pVcAKqQiu2iPFSURqmAzVC1irQcflrheuc7XusVdtL7xn24MCfuAH-8vcHJvowu1S3hY9XFcrnDvTQxj3TqdJlcHixfz7O4Jm0nbSet2k3w6RDuNbpM7-p4H6OXq8nl-ky0erm_nF4tszQgMWWmBldQaqQrKBBXGyNJaQRXXUsoCjKasUQYaq4VVXFHGJTGUUkEaC5awA3T-xV2PpnO2dmHodVute9_pflNF7av_m-BX1TK-V4pLgAImwOk3oI9T1TRUnU-1a1sdXBxTRUtBS6oI8On05G_Wb8jPV9kHP6p7zA</recordid><startdate>2021</startdate><enddate>2021</enddate><creator>Thakur, Priti</creator><creator>Abernathy, Scott</creator><creator>Limbach, Patrick A</creator><creator>Addepalli, Balasubrahmanyam</creator><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>7X8</scope><scope>5PM</scope></search><sort><creationdate>2021</creationdate><title>Locating chemical modifications in RNA sequences through ribonucleases and LC-MS based analysis</title><author>Thakur, Priti ; Abernathy, Scott ; Limbach, Patrick A ; Addepalli, Balasubrahmanyam</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-p310t-5d0352db89423727bb85dd7296a88840ba23f9b0fda7d96923681b22271fd0d13</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2021</creationdate><topic>Base Sequence</topic><topic>Chromatography, Liquid</topic><topic>Ribonucleases - metabolism</topic><topic>RNA - genetics</topic><topic>RNA Processing, Post-Transcriptional</topic><topic>RNA, Transfer - genetics</topic><topic>RNA, Transfer - metabolism</topic><topic>Tandem Mass Spectrometry</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Thakur, Priti</creatorcontrib><creatorcontrib>Abernathy, Scott</creatorcontrib><creatorcontrib>Limbach, Patrick A</creatorcontrib><creatorcontrib>Addepalli, Balasubrahmanyam</creatorcontrib><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>MEDLINE - Academic</collection><collection>PubMed Central (Full Participant titles)</collection><jtitle>Methods in enzymology</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Thakur, Priti</au><au>Abernathy, Scott</au><au>Limbach, Patrick A</au><au>Addepalli, Balasubrahmanyam</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Locating chemical modifications in RNA sequences through ribonucleases and LC-MS based analysis</atitle><jtitle>Methods in enzymology</jtitle><addtitle>Methods Enzymol</addtitle><date>2021</date><risdate>2021</risdate><volume>658</volume><spage>1</spage><epage>24</epage><pages>1-24</pages><issn>0076-6879</issn><eissn>1557-7988</eissn><abstract>Knowledge of the structural information is essential for understanding the functional details of modified RNA. 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| source | MEDLINE; Access via ScienceDirect (Elsevier) |
| subjects | Base Sequence Chromatography, Liquid Ribonucleases - metabolism RNA - genetics RNA Processing, Post-Transcriptional RNA, Transfer - genetics RNA, Transfer - metabolism Tandem Mass Spectrometry |
| title | Locating chemical modifications in RNA sequences through ribonucleases and LC-MS based analysis |
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