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RNA processing in the minimal organism Nanoarchaeum equitans
BACKGROUND: The minimal genome of the tiny, hyperthermophilic archaeon Nanoarchaeum equitans contains several fragmented genes and revealed unusual RNA processing pathways. These include the maturation of tRNA molecules via the trans-splicing of tRNA halves and genomic rearrangements to compensate f...
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Formato: | Online Artículo Texto |
Lenguaje: | English |
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BioMed Central
2012
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Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3491384/ https://www.ncbi.nlm.nih.gov/pubmed/22809431 http://dx.doi.org/10.1186/gb-2012-13-7-r63 |
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author | Randau, Lennart |
author_facet | Randau, Lennart |
author_sort | Randau, Lennart |
collection | PubMed |
description | BACKGROUND: The minimal genome of the tiny, hyperthermophilic archaeon Nanoarchaeum equitans contains several fragmented genes and revealed unusual RNA processing pathways. These include the maturation of tRNA molecules via the trans-splicing of tRNA halves and genomic rearrangements to compensate for the absence of RNase P. RESULTS: Here, the RNA processing events in the N. equitans cell are analyzed using RNA-Seq deep sequencing methodology. All tRNA half precursor and tRNA termini were determined and support the tRNA trans-splicing model. The processing of CRISPR RNAs from two CRISPR clusters was verified. Twenty-seven C/D box small RNAs (sRNAs) and a H/ACA box sRNA were identified. The C/D box sRNAs were found to flank split genes, to form dicistronic tRNA-sRNA precursors and to be encoded within the tRNAMet intron. CONCLUSIONS: The presented data provide an overview of the production and usage of small RNAs in a cell that has to survive with a highly reduced genome. N. equitans lost many essential metabolic pathways but maintains highly active CRISPR/Cas and rRNA modification systems that appear to play an important role in genome fragmentation. |
format | Online Article Text |
id | pubmed-3491384 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2012 |
publisher | BioMed Central |
record_format | MEDLINE/PubMed |
spelling | pubmed-34913842012-11-07 RNA processing in the minimal organism Nanoarchaeum equitans Randau, Lennart Genome Biol Research BACKGROUND: The minimal genome of the tiny, hyperthermophilic archaeon Nanoarchaeum equitans contains several fragmented genes and revealed unusual RNA processing pathways. These include the maturation of tRNA molecules via the trans-splicing of tRNA halves and genomic rearrangements to compensate for the absence of RNase P. RESULTS: Here, the RNA processing events in the N. equitans cell are analyzed using RNA-Seq deep sequencing methodology. All tRNA half precursor and tRNA termini were determined and support the tRNA trans-splicing model. The processing of CRISPR RNAs from two CRISPR clusters was verified. Twenty-seven C/D box small RNAs (sRNAs) and a H/ACA box sRNA were identified. The C/D box sRNAs were found to flank split genes, to form dicistronic tRNA-sRNA precursors and to be encoded within the tRNAMet intron. CONCLUSIONS: The presented data provide an overview of the production and usage of small RNAs in a cell that has to survive with a highly reduced genome. N. equitans lost many essential metabolic pathways but maintains highly active CRISPR/Cas and rRNA modification systems that appear to play an important role in genome fragmentation. BioMed Central 2012 2012-07-18 /pmc/articles/PMC3491384/ /pubmed/22809431 http://dx.doi.org/10.1186/gb-2012-13-7-r63 Text en Copyright ©2012 Randau; licensee BioMed Central Ltd. http://creativecommons.org/licenses/by/2.0 This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Research Randau, Lennart RNA processing in the minimal organism Nanoarchaeum equitans |
title | RNA processing in the minimal organism Nanoarchaeum equitans |
title_full | RNA processing in the minimal organism Nanoarchaeum equitans |
title_fullStr | RNA processing in the minimal organism Nanoarchaeum equitans |
title_full_unstemmed | RNA processing in the minimal organism Nanoarchaeum equitans |
title_short | RNA processing in the minimal organism Nanoarchaeum equitans |
title_sort | rna processing in the minimal organism nanoarchaeum equitans |
topic | Research |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3491384/ https://www.ncbi.nlm.nih.gov/pubmed/22809431 http://dx.doi.org/10.1186/gb-2012-13-7-r63 |
work_keys_str_mv | AT randaulennart rnaprocessingintheminimalorganismnanoarchaeumequitans |