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Donovan PD, Schröder MS, Higgins DG, et al. Identification of Non-Coding RNAs in the Candida parapsilosis Species Group. PLoS One. 2016;11(9):e0163235doi: 10.1371/journal.pone.0163235.
Donovan, P. D., Schröder, M. S., Higgins, D. G., & Butler, G. (2016). Identification of Non-Coding RNAs in the Candida parapsilosis Species Group. PloS one, 11(9), e0163235. https://doi.org/10.1371/journal.pone.0163235
Donovan, Paul D, et al. "Identification of Non-Coding RNAs in the Candida parapsilosis Species Group." PloS one vol. 11,9 (2016): e0163235. doi: https://doi.org/10.1371/journal.pone.0163235
Donovan PD, Schröder MS, Higgins DG, Butler G. Identification of Non-Coding RNAs in the Candida parapsilosis Species Group. PLoS One. 2016 Sep 22;11(9):e0163235. doi: 10.1371/journal.pone.0163235. eCollection 2016. PMID: 27658249; PMCID: PMC5033589.
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PLoS One. 2016 Sep 22;11(9):e0163235. doi: 10.1371/journal.pone.0163235. eCollection 2016.

Identification of Non-Coding RNAs in the Candida parapsilosis Species Group.

PloS one

Paul D Donovan, Markus S Schröder, Desmond G Higgins, Geraldine Butler

Affiliations

  1. School of Biomedical and Biomolecular Science and UCD Conway Institute of Biomolecular and Biomedical Research, Conway Institute, University College Dublin, Belfield, Dublin 4, Ireland.
  2. School of Medicine and UCD Conway Institute of Biomolecular and Biomedical Research, University College Dublin, Belfield, Dublin 4, Ireland.

PMID: 27658249 PMCID: PMC5033589 DOI: 10.1371/journal.pone.0163235

Abstract

The Candida CTG clade is a monophyletic group of fungal species that translates CTG as serine, and includes the pathogens Candida albicans and Candida parapsilosis. Research has typically focused on identifying protein-coding genes in these species. Here, we use bioinformatic and experimental approaches to annotate known classes of non-coding RNAs in three CTG-clade species, Candida parapsilosis, Candida orthopsilosis and Lodderomyces elongisporus. We also update the annotation of ncRNAs in the C. albicans genome. The majority of ncRNAs identified were snoRNAs. Approximately 50% of snoRNAs (including most of the C/D box class) are encoded in introns. Most are within mono- and polycistronic transcripts with no protein coding potential. Five polycistronic clusters of snoRNAs are highly conserved in fungi. In polycistronic regions, splicing occurs via the classical pathway, as well as by nested and recursive splicing. We identified spliceosomal small nuclear RNAs, the telomerase RNA component, signal recognition particle, RNase P RNA component and the related RNase MRP RNA component in all three genomes. Stem loop IV of the U2 spliceosomal RNA and the associated binding proteins were lost from the ancestor of C. parapsilosis and C. orthopsilosis, following the divergence from L. elongisporus. The RNA component of the MRP is longer in C. parapsilosis, C. orthopsilosis and L. elongisporus than in S. cerevisiae, but is substantially shorter than in C. albicans.

Conflict of interest statement

The authors have declared that no competing interests exist.

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