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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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Autor principal: Randau, Lennart
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2012
Materias:
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.
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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
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