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Different sequence signatures in the upstream regions of plant and animal tRNA genes shape distinct modes of regulation

In eukaryotes, the transcription of tRNA genes is initiated by the concerted action of transcription factors IIIC (TFIIIC) and IIIB (TFIIIB) which direct the recruitment of polymerase III. While TFIIIC recognizes highly conserved, intragenic promoter elements, TFIIIB binds to the non-coding 5′-upstr...

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Detalles Bibliográficos
Autores principales: Zhang, Gong, Lukoszek, Radoslaw, Mueller-Roeber, Bernd, Ignatova, Zoya
Formato: Texto
Lenguaje:English
Publicado: Oxford University Press 2011
Materias:
RNA
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3082873/
https://www.ncbi.nlm.nih.gov/pubmed/21138970
http://dx.doi.org/10.1093/nar/gkq1257
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author Zhang, Gong
Lukoszek, Radoslaw
Mueller-Roeber, Bernd
Ignatova, Zoya
author_facet Zhang, Gong
Lukoszek, Radoslaw
Mueller-Roeber, Bernd
Ignatova, Zoya
author_sort Zhang, Gong
collection PubMed
description In eukaryotes, the transcription of tRNA genes is initiated by the concerted action of transcription factors IIIC (TFIIIC) and IIIB (TFIIIB) which direct the recruitment of polymerase III. While TFIIIC recognizes highly conserved, intragenic promoter elements, TFIIIB binds to the non-coding 5′-upstream regions of the tRNA genes. Using a systematic bioinformatic analysis of 11 multicellular eukaryotic genomes we identified a highly conserved TATA motif followed by a CAA-motif in the tRNA upstream regions of all plant genomes. Strikingly, the 5′-flanking tRNA regions of the animal genomes are highly heterogeneous and lack a common conserved sequence signature. Interestingly, in the animal genomes the tRNA species that read the same codon share conserved motifs in their upstream regions. Deep-sequencing analysis of 16 human tissues revealed multiple splicing variants of two of the TFIIIB subunits, Bdp1 and Brf1, with tissue-specific expression patterns. These multiple forms most likely modulate the TFIIIB–DNA interactions and explain the lack of a uniform signature motif in the tRNA upstream regions of animal genomes. The anticodon-dependent 5′-flanking motifs provide a possible mechanism for independent regulation of the tRNA transcription in various human tissues.
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spelling pubmed-30828732011-04-27 Different sequence signatures in the upstream regions of plant and animal tRNA genes shape distinct modes of regulation Zhang, Gong Lukoszek, Radoslaw Mueller-Roeber, Bernd Ignatova, Zoya Nucleic Acids Res RNA In eukaryotes, the transcription of tRNA genes is initiated by the concerted action of transcription factors IIIC (TFIIIC) and IIIB (TFIIIB) which direct the recruitment of polymerase III. While TFIIIC recognizes highly conserved, intragenic promoter elements, TFIIIB binds to the non-coding 5′-upstream regions of the tRNA genes. Using a systematic bioinformatic analysis of 11 multicellular eukaryotic genomes we identified a highly conserved TATA motif followed by a CAA-motif in the tRNA upstream regions of all plant genomes. Strikingly, the 5′-flanking tRNA regions of the animal genomes are highly heterogeneous and lack a common conserved sequence signature. Interestingly, in the animal genomes the tRNA species that read the same codon share conserved motifs in their upstream regions. Deep-sequencing analysis of 16 human tissues revealed multiple splicing variants of two of the TFIIIB subunits, Bdp1 and Brf1, with tissue-specific expression patterns. These multiple forms most likely modulate the TFIIIB–DNA interactions and explain the lack of a uniform signature motif in the tRNA upstream regions of animal genomes. The anticodon-dependent 5′-flanking motifs provide a possible mechanism for independent regulation of the tRNA transcription in various human tissues. Oxford University Press 2011-04 2010-12-07 /pmc/articles/PMC3082873/ /pubmed/21138970 http://dx.doi.org/10.1093/nar/gkq1257 Text en © The Author(s) 2010. Published by Oxford University Press. http://creativecommons.org/licenses/by-nc/2.5 This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.5), which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle RNA
Zhang, Gong
Lukoszek, Radoslaw
Mueller-Roeber, Bernd
Ignatova, Zoya
Different sequence signatures in the upstream regions of plant and animal tRNA genes shape distinct modes of regulation
title Different sequence signatures in the upstream regions of plant and animal tRNA genes shape distinct modes of regulation
title_full Different sequence signatures in the upstream regions of plant and animal tRNA genes shape distinct modes of regulation
title_fullStr Different sequence signatures in the upstream regions of plant and animal tRNA genes shape distinct modes of regulation
title_full_unstemmed Different sequence signatures in the upstream regions of plant and animal tRNA genes shape distinct modes of regulation
title_short Different sequence signatures in the upstream regions of plant and animal tRNA genes shape distinct modes of regulation
title_sort different sequence signatures in the upstream regions of plant and animal trna genes shape distinct modes of regulation
topic RNA
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3082873/
https://www.ncbi.nlm.nih.gov/pubmed/21138970
http://dx.doi.org/10.1093/nar/gkq1257
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