Characterization of the splicing function of pseudouridine Ψ5 in U1 small nuclear RNA

Pseudouridine (Ψ) is the major post-transcriptionally modified nucleotide in RNA. The 5’ end of U1 snRNA contains two evolutionarily conserved pseudouridines, Ψ5 and Ψ6, yet, their role in recognition of thousands of 5’ss variants remains to be established. Therefore, in our study, we investigated t...

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Main Author: Yong, Jing Yen
Other Authors: Francesc Xavier Roca Castella
Format: Final Year Project
Language:English
Published: 2018
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Online Access:http://hdl.handle.net/10356/74455
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Institution: Nanyang Technological University
Language: English
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spelling sg-ntu-dr.10356-744552023-02-28T18:02:25Z Characterization of the splicing function of pseudouridine Ψ5 in U1 small nuclear RNA Yong, Jing Yen Francesc Xavier Roca Castella School of Biological Sciences DRNTU::Science Pseudouridine (Ψ) is the major post-transcriptionally modified nucleotide in RNA. The 5’ end of U1 snRNA contains two evolutionarily conserved pseudouridines, Ψ5 and Ψ6, yet, their role in recognition of thousands of 5’ss variants remains to be established. Therefore, in our study, we investigated the role of Ψ5 of U1 snRNA in splicing by utilizing CRISPR-Cas9 genome editing tool to knock out ACA47, the small cajal RNA that guides Ψ5 modification, in HEK293T cells. All HEK293T results were then cross-validated with K562 cells, and we expected that both cell types would produce similar splicing changes upon ACA47 knockout. With even partial ACA47 knockout of HEK293T obtained, we showed for the first time that Ψ5 of U1 snRNA plays considerable regulatory role in splicing. Surprisingly, HEK293T partial knockout and K562 knockout showed cell line-specialized alternative splicing changes. Our findings are useful not only for mechanistic understanding of mammalian 5’ss recognition, more importantly, they might be helpful in disease diagnosis with mutations at 5’ss. Bachelor of Science in Biological Sciences 2018-05-18T03:03:31Z 2018-05-18T03:03:31Z 2018 Final Year Project (FYP) http://hdl.handle.net/10356/74455 en Nanyang Technological University 29 p. application/pdf
institution Nanyang Technological University
building NTU Library
continent Asia
country Singapore
Singapore
content_provider NTU Library
collection DR-NTU
language English
topic DRNTU::Science
spellingShingle DRNTU::Science
Yong, Jing Yen
Characterization of the splicing function of pseudouridine Ψ5 in U1 small nuclear RNA
description Pseudouridine (Ψ) is the major post-transcriptionally modified nucleotide in RNA. The 5’ end of U1 snRNA contains two evolutionarily conserved pseudouridines, Ψ5 and Ψ6, yet, their role in recognition of thousands of 5’ss variants remains to be established. Therefore, in our study, we investigated the role of Ψ5 of U1 snRNA in splicing by utilizing CRISPR-Cas9 genome editing tool to knock out ACA47, the small cajal RNA that guides Ψ5 modification, in HEK293T cells. All HEK293T results were then cross-validated with K562 cells, and we expected that both cell types would produce similar splicing changes upon ACA47 knockout. With even partial ACA47 knockout of HEK293T obtained, we showed for the first time that Ψ5 of U1 snRNA plays considerable regulatory role in splicing. Surprisingly, HEK293T partial knockout and K562 knockout showed cell line-specialized alternative splicing changes. Our findings are useful not only for mechanistic understanding of mammalian 5’ss recognition, more importantly, they might be helpful in disease diagnosis with mutations at 5’ss.
author2 Francesc Xavier Roca Castella
author_facet Francesc Xavier Roca Castella
Yong, Jing Yen
format Final Year Project
author Yong, Jing Yen
author_sort Yong, Jing Yen
title Characterization of the splicing function of pseudouridine Ψ5 in U1 small nuclear RNA
title_short Characterization of the splicing function of pseudouridine Ψ5 in U1 small nuclear RNA
title_full Characterization of the splicing function of pseudouridine Ψ5 in U1 small nuclear RNA
title_fullStr Characterization of the splicing function of pseudouridine Ψ5 in U1 small nuclear RNA
title_full_unstemmed Characterization of the splicing function of pseudouridine Ψ5 in U1 small nuclear RNA
title_sort characterization of the splicing function of pseudouridine ψ5 in u1 small nuclear rna
publishDate 2018
url http://hdl.handle.net/10356/74455
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