Long undecoded transcript isoform (LUTI) detection in meiotic budding yeast by direct RNA and transcript leader sequencing
© 2022 The Authors..
LUTIs (Long Undecoded Transcript Isoforms) are 5'-extended and poorly translated mRNAs that can downregulate transcription from promoters more proximal to a gene's coding sequence (CDS). In this protocol, polyA RNA is extracted from budding yeast cells undergoing highly synchronized meiosis. Using a combination of long-read direct RNA sequencing and transcript leader sequencing (TL-seq), meiosis-specific LUTIs are systematically identified. Following identification, TL-seq is used to quantify the abundance of both LUTI and the more canonical gene-proximal (PROX) transcripts. For complete details on the use and execution of this protocol, please refer to Tresenrider et al. (2021).
| Medienart: |
E-Artikel |
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| Erscheinungsjahr: |
2022 |
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| Erschienen: |
2022 |
| Enthalten in: |
Zur Gesamtaufnahme - volume:3 |
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| Enthalten in: |
STAR protocols - 3(2022), 1 vom: 18. März, Seite 101145 |
| Sprache: |
Englisch |
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| Beteiligte Personen: |
Tresenrider, Amy [VerfasserIn] |
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| Links: |
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| Anmerkungen: |
Date Completed 08.04.2022 Date Revised 06.01.2023 published: Electronic-eCollection Citation Status MEDLINE |
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| doi: |
10.1016/j.xpro.2022.101145 |
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| funding: |
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| Förderinstitution / Projekttitel: |
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| PPN (Katalog-ID): |
NLM337017042 |
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| 520 | |a © 2022 The Authors. | ||
| 520 | |a LUTIs (Long Undecoded Transcript Isoforms) are 5'-extended and poorly translated mRNAs that can downregulate transcription from promoters more proximal to a gene's coding sequence (CDS). In this protocol, polyA RNA is extracted from budding yeast cells undergoing highly synchronized meiosis. Using a combination of long-read direct RNA sequencing and transcript leader sequencing (TL-seq), meiosis-specific LUTIs are systematically identified. Following identification, TL-seq is used to quantify the abundance of both LUTI and the more canonical gene-proximal (PROX) transcripts. For complete details on the use and execution of this protocol, please refer to Tresenrider et al. (2021) | ||
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| 650 | 4 | |a Genetics | |
| 650 | 4 | |a Genomics | |
| 650 | 4 | |a Model Organisms | |
| 650 | 4 | |a Molecular Biology | |
| 650 | 4 | |a Sequence analysis | |
| 650 | 4 | |a Sequencing | |
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| 700 | 1 | |a Chia, Minghao |e verfasserin |4 aut | |
| 700 | 1 | |a van Werven, Folkert J |e verfasserin |4 aut | |
| 700 | 1 | |a Ünal, Elçin |e verfasserin |4 aut | |
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