The S. pombe mitochondrial transcriptome

Abstract

Mitochondrial gene expression is largely controlled through post-transcriptional processes including mitochondrial RNA (mt-RNA) processing, modification, decay, and quality control. Defective mitochondrial gene expression results in mitochondrial oxidative phosphorylation (OXPHOS) deficiency and has been implicated in human disease. To fully understand mitochondrial transcription and RNA processing, we performed RNA-seq analyses of mt-RNAs from the fission yeast RNA-seq analyses show that the abundance of mt-RNAs vary greatly. Analysis of data also reveals mt-RNA processing sites including an unusual RNA cleavage event by mitochondrial tRNA (mt-tRNA) 5'-end processing enzyme RNase P. Additionally, this analysis reveals previously unknown mitochondrial transcripts including the-derived fragment, mitochondrial small RNAs (mitosRNAs) such as mt-tRNA-derived fragments (mt-tRFs) and mt-tRNA halves, and mt-tRNAs marked with 3'-CCACCA/CCACC in Finally, RNA-seq reveals that inactivation of encoding mitochondrial tRNA 3'-end processing enzyme globally impairs mt-tRNA 3'-end processing, inhibits mt-mRNA 5'-end processing, and causes accumulation of unprocessed transcripts, demonstrating the feasibility of using RNA-seq to examine the protein known or predicted to be involved in mt-RNA processing in Our work uncovers the complexity of a fungal mitochondrial transcriptome and provides a framework for future studies of mitochondrial gene expression using as a model system.

Intraspecific Diversity of Fission Yeast Mitochondrial Genomes

“…Results of software-based annotation were verified by manual inspection. The annotations of mt-tRNAArg(UCU) and mt-tRNAGlu(UUC) were revised according to the recently published S. pombe mitochondrial transcriptome analysis (the starting and ending positions of the former were shifted upstream for one nucleotide and six nucleotides, respectively, and the ending position of the latter was shifted downstream for one nucleotide) (Shang et al. 2018).…”

Organellar and Secretory Ribonucleases: Major Players in Plant RNA Homeostasis

“…The RNase T2 family is conserved in almost all eukaryotes so far analyzed, with the exception of trypanosomes and Schizosaccharomyces pombe (Shang et al, 2018;Fricker et al, 2019) and is also found in a large number of bacteria and several viruses. In most nonplant organisms, only one gene belonging to this family is found in each genome (Hillwig et al, 2009;Ambrosio et al, 2014); however, in plants, the RNase T2 protein repertoire has expanded, and individual proteins have been adapted for a variety of functions.…”

Intraspecific diversity of fission yeast mitochondrial genomes

“…Results of software-based annotation were verified by manual inspection. The annotations of mt-tRNAArg(UCU) and mt-tRNAGlu(UUC) were revised according to the recently published S. pombe mitochondrial transcriptome analysis (the starting and ending positions of the former were shifted upstream for one nucleotide and six nucleotides, respectively, and the ending position of the latter was shifted downstream for one nucleotide) (Shang et al 2018). The 69 types of mitogenomes (MT1-MT69) together with their annotations have been deposited at GenBank under accession numbers MK618072-MK618140.…”