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The Short Non-Coding Transcriptome of the Protozoan Parasite Trypanosoma cruzi
The pathway for RNA interference is widespread in metazoans and participates in numerous cellular tasks, from gene silencing to chromatin remodeling and protection against retrotransposition. The unicellular eukaryote Trypanosoma cruzi is missing the canonical RNAi pathway and is unable to induce RN...
Autores principales: | , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Public Library of Science
2011
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3166047/ https://www.ncbi.nlm.nih.gov/pubmed/21912713 http://dx.doi.org/10.1371/journal.pntd.0001283 |
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author | Franzén, Oscar Arner, Erik Ferella, Marcela Nilsson, Daniel Respuela, Patricia Carninci, Piero Hayashizaki, Yoshihide Åslund, Lena Andersson, Björn Daub, Carsten O. |
author_facet | Franzén, Oscar Arner, Erik Ferella, Marcela Nilsson, Daniel Respuela, Patricia Carninci, Piero Hayashizaki, Yoshihide Åslund, Lena Andersson, Björn Daub, Carsten O. |
author_sort | Franzén, Oscar |
collection | PubMed |
description | The pathway for RNA interference is widespread in metazoans and participates in numerous cellular tasks, from gene silencing to chromatin remodeling and protection against retrotransposition. The unicellular eukaryote Trypanosoma cruzi is missing the canonical RNAi pathway and is unable to induce RNAi-related processes. To further understand alternative RNA pathways operating in this organism, we have performed deep sequencing and genome-wide analyses of a size-fractioned cDNA library (16–61 nt) from the epimastigote life stage. Deep sequencing generated 582,243 short sequences of which 91% could be aligned with the genome sequence. About 95–98% of the aligned data (depending on the haplotype) corresponded to small RNAs derived from tRNAs, rRNAs, snRNAs and snoRNAs. The largest class consisted of tRNA-derived small RNAs which primarily originated from the 3′ end of tRNAs, followed by small RNAs derived from rRNA. The remaining sequences revealed the presence of 92 novel transcribed loci, of which 79 did not show homology to known RNA classes. |
format | Online Article Text |
id | pubmed-3166047 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2011 |
publisher | Public Library of Science |
record_format | MEDLINE/PubMed |
spelling | pubmed-31660472011-09-12 The Short Non-Coding Transcriptome of the Protozoan Parasite Trypanosoma cruzi Franzén, Oscar Arner, Erik Ferella, Marcela Nilsson, Daniel Respuela, Patricia Carninci, Piero Hayashizaki, Yoshihide Åslund, Lena Andersson, Björn Daub, Carsten O. PLoS Negl Trop Dis Research Article The pathway for RNA interference is widespread in metazoans and participates in numerous cellular tasks, from gene silencing to chromatin remodeling and protection against retrotransposition. The unicellular eukaryote Trypanosoma cruzi is missing the canonical RNAi pathway and is unable to induce RNAi-related processes. To further understand alternative RNA pathways operating in this organism, we have performed deep sequencing and genome-wide analyses of a size-fractioned cDNA library (16–61 nt) from the epimastigote life stage. Deep sequencing generated 582,243 short sequences of which 91% could be aligned with the genome sequence. About 95–98% of the aligned data (depending on the haplotype) corresponded to small RNAs derived from tRNAs, rRNAs, snRNAs and snoRNAs. The largest class consisted of tRNA-derived small RNAs which primarily originated from the 3′ end of tRNAs, followed by small RNAs derived from rRNA. The remaining sequences revealed the presence of 92 novel transcribed loci, of which 79 did not show homology to known RNA classes. Public Library of Science 2011-08-30 /pmc/articles/PMC3166047/ /pubmed/21912713 http://dx.doi.org/10.1371/journal.pntd.0001283 Text en Franzén et al. http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are properly credited. |
spellingShingle | Research Article Franzén, Oscar Arner, Erik Ferella, Marcela Nilsson, Daniel Respuela, Patricia Carninci, Piero Hayashizaki, Yoshihide Åslund, Lena Andersson, Björn Daub, Carsten O. The Short Non-Coding Transcriptome of the Protozoan Parasite Trypanosoma cruzi |
title | The Short Non-Coding Transcriptome of the Protozoan Parasite Trypanosoma cruzi
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title_full | The Short Non-Coding Transcriptome of the Protozoan Parasite Trypanosoma cruzi
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title_fullStr | The Short Non-Coding Transcriptome of the Protozoan Parasite Trypanosoma cruzi
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title_full_unstemmed | The Short Non-Coding Transcriptome of the Protozoan Parasite Trypanosoma cruzi
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title_short | The Short Non-Coding Transcriptome of the Protozoan Parasite Trypanosoma cruzi
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title_sort | short non-coding transcriptome of the protozoan parasite trypanosoma cruzi |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3166047/ https://www.ncbi.nlm.nih.gov/pubmed/21912713 http://dx.doi.org/10.1371/journal.pntd.0001283 |
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