Investigating Mitochondrial Transcriptomes and RNA Processing Using Circular RNA Sequencing

Irina Kuznetsova; Oliver Rackham; Aleksandra Filipovska

doi:10.1007/978-1-0716-0834-0_4

Investigating Mitochondrial Transcriptomes and RNA Processing Using Circular RNA Sequencing

Methods Mol Biol. 2021:2192:43-57. doi: 10.1007/978-1-0716-0834-0_4.

Authors

Irina Kuznetsova^{1

2

3}, Oliver Rackham^{1

2

4

5

6}, Aleksandra Filipovska^{7

8

9

10

11}

Affiliations

¹ Harry Perkins Institute of Medical Research, Nedlands, WA, Australia.
² ARC Centre of Excellence in Synthetic Biology, QEII Medical Centre, Nedlands, WA, Australia.
³ Centre for Medical Research, The University of Western Australia, QEII Medical Centre, Nedlands, WA, Australia.
⁴ School of Pharmacy and Biomedical Sciences, Curtin University, Bentley, WA, Australia.
⁵ Curtin Health Innovation Research Institute, Curtin University, Bentley, WA, Australia.
⁶ Telethon Kids Institute, Northern Entrance, Perth Children's Hospital, Nedlands, WA, Australia.
⁷ Harry Perkins Institute of Medical Research, Nedlands, WA, Australia. aleksandra.filipovska@uwa.edu.au.
⁸ ARC Centre of Excellence in Synthetic Biology, QEII Medical Centre, Nedlands, WA, Australia. aleksandra.filipovska@uwa.edu.au.
⁹ Centre for Medical Research, The University of Western Australia, QEII Medical Centre, Nedlands, WA, Australia. aleksandra.filipovska@uwa.edu.au.
¹⁰ Telethon Kids Institute, Northern Entrance, Perth Children's Hospital, Nedlands, WA, Australia. aleksandra.filipovska@uwa.edu.au.
¹¹ School of Molecular Sciences, The University of Western Australia, Crawley, WA, Australia. aleksandra.filipovska@uwa.edu.au.

PMID: 33230764
DOI: 10.1007/978-1-0716-0834-0_4

Abstract

Transcriptomic technologies have revolutionized the study of gene expression and RNA biology. Different RNA sequencing methods enable the analyses of diverse species of transcripts, including their abundance, processing, stability, and other specific features. Mitochondrial transcriptomics has benefited from these technologies that have revealed the surprising complexity of its RNAs. Here we describe a method based upon cyclization of mitochondrial RNAs and next generation sequencing to analyze the steady-state levels and sizes of mitochondrial RNAs, their degradation products, as well as their processing intermediates by capturing both 5' and 3' ends of transcripts.

Keywords: Mitochondria; Next generation sequencing; RNA processing; RNA-Seq.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Animals
Computational Biology / methods
Gene Expression Profiling / methods
Genome, Mitochondrial
High-Throughput Nucleotide Sequencing / methods
Humans
Mice
Mitochondria / genetics*
RNA Processing, Post-Transcriptional / genetics*
RNA, Circular / genetics*
RNA, Circular / metabolism
RNA, Mitochondrial / genetics*
RNA, Mitochondrial / metabolism
Rats
Sequence Analysis, RNA / methods*
Software
Transcriptome*

Substances

RNA, Circular
RNA, Mitochondrial