Description

• Title:
  A cap 0-dependent mRNA capture method to analyze the yeast transcriptome
• Creator:
  Nowacka, Martyna;
  Latoch, Przemysław;
  Izert, Matylda A;
  Karolak, Natalia K;
  Tomecki, Rafał;
  Koper, Michał;
  Tudek, Agnieszka;
  Starosta, Agata L;
  Górna, Maria W
• Description:
  Analysis of the protein coding transcriptome by the RNA sequencing requires either enrichment of the desired fraction of coding transcripts or depletion of the abundant non-coding fraction consisting mainly of rRNA. We propose an alternative mRNA enrichment strategy based on the RNA-binding properties of the human IFIT1, an antiviral protein recognizing cap 0 RNA. Here, we compare for Saccharomyces cerevisiae an IFIT1-based mRNA pull-down with yeast targeted rRNA depletion by the RiboMinus method. IFIT1-based RNA capture depletes rRNA more effectively, producing high quality RNA-seq data with an excellent coverage of the protein coding transcriptome, while depleting cap-less transcripts such as mitochondrial or some non-coding RNAs. We propose IFIT1 as a cost effective and versatile tool to prepare mRNA libraries for a variety of organisms with cap 0 mRNA ends, including diverse plants, fungi and eukaryotic microbes.
• Object availability:
  free access
• Date:
  2022.10.19
• Type:
  Article;
  PeerReviewed
• Language:
  English;
  eng
• Format:
  application/pdf
• Publisher:
  Oxford
• Relation: http://eprints.ibb.waw.pl/2183 ;https://doi.org/10.1093/nar/gkac903
• Subject:
  QH301 Biology
• Identifier: http://eprints.ibb.waw.pl/2183/1/gkac903.pdf ;
  Nowacka, Martyna and Latoch, Przemysław and Izert, Matylda A and Karolak, Natalia K and Tomecki, Rafał and Koper, Michał and Tudek, Agnieszka and Starosta, Agata L and Górna, Maria W (2022) A cap 0-dependent mRNA capture method to analyze the yeast transcriptome. Nucleic Acids Research . ISSN 1362-4962
• Data provider:
  Repozytorium Instytutu Biochemii i Biofizyki Polskiej Akademii Nauk
• Can I use it?:
  seek permission
• Type:
  other