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Bacterial Small RNAs in the Genus Herbaspirillum spp.

The genus Herbaspirillum includes several strains isolated from different grasses. The identification of non-coding RNAs (ncRNAs) in the genus Herbaspirillum is an important stage studying the interaction of these molecules and the way they modulate physiological responses of different mechanisms, t...

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Autores principales: Carvalho Garcia, Amanda, dos Santos, Vera Lúcia Pereira, Santos Cavalcanti, Teresa Cristina, Collaço, Luiz Martins, Graf, Hans
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2018
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6337395/
https://www.ncbi.nlm.nih.gov/pubmed/30583511
http://dx.doi.org/10.3390/ijms20010046
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author Carvalho Garcia, Amanda
dos Santos, Vera Lúcia Pereira
Santos Cavalcanti, Teresa Cristina
Collaço, Luiz Martins
Graf, Hans
author_facet Carvalho Garcia, Amanda
dos Santos, Vera Lúcia Pereira
Santos Cavalcanti, Teresa Cristina
Collaço, Luiz Martins
Graf, Hans
author_sort Carvalho Garcia, Amanda
collection PubMed
description The genus Herbaspirillum includes several strains isolated from different grasses. The identification of non-coding RNAs (ncRNAs) in the genus Herbaspirillum is an important stage studying the interaction of these molecules and the way they modulate physiological responses of different mechanisms, through RNA–RNA interaction or RNA–protein interaction. This interaction with their target occurs through the perfect pairing of short sequences (cis-encoded ncRNAs) or by the partial pairing of short sequences (trans-encoded ncRNAs). However, the companion Hfq can stabilize interactions in the trans-acting class. In addition, there are Riboswitches, located at the 5′ end of mRNA and less often at the 3′ end, which respond to environmental signals, high temperatures, or small binder molecules. Recently, CRISPR (clustered regularly interspaced palindromic repeats), in prokaryotes, have been described that consist of serial repeats of base sequences (spacer DNA) resulting from a previous exposure to exogenous plasmids or bacteriophages. We identified 285 ncRNAs in Herbaspirillum seropedicae (H. seropedicae) SmR1, expressed in different experimental conditions of RNA-seq material, classified as cis-encoded ncRNAs or trans-encoded ncRNAs and detected RNA riboswitch domains and CRISPR sequences. The results provide a better understanding of the participation of this type of RNA in the regulation of the metabolism of bacteria of the genus Herbaspirillum spp.
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spelling pubmed-63373952019-01-22 Bacterial Small RNAs in the Genus Herbaspirillum spp. Carvalho Garcia, Amanda dos Santos, Vera Lúcia Pereira Santos Cavalcanti, Teresa Cristina Collaço, Luiz Martins Graf, Hans Int J Mol Sci Article The genus Herbaspirillum includes several strains isolated from different grasses. The identification of non-coding RNAs (ncRNAs) in the genus Herbaspirillum is an important stage studying the interaction of these molecules and the way they modulate physiological responses of different mechanisms, through RNA–RNA interaction or RNA–protein interaction. This interaction with their target occurs through the perfect pairing of short sequences (cis-encoded ncRNAs) or by the partial pairing of short sequences (trans-encoded ncRNAs). However, the companion Hfq can stabilize interactions in the trans-acting class. In addition, there are Riboswitches, located at the 5′ end of mRNA and less often at the 3′ end, which respond to environmental signals, high temperatures, or small binder molecules. Recently, CRISPR (clustered regularly interspaced palindromic repeats), in prokaryotes, have been described that consist of serial repeats of base sequences (spacer DNA) resulting from a previous exposure to exogenous plasmids or bacteriophages. We identified 285 ncRNAs in Herbaspirillum seropedicae (H. seropedicae) SmR1, expressed in different experimental conditions of RNA-seq material, classified as cis-encoded ncRNAs or trans-encoded ncRNAs and detected RNA riboswitch domains and CRISPR sequences. The results provide a better understanding of the participation of this type of RNA in the regulation of the metabolism of bacteria of the genus Herbaspirillum spp. MDPI 2018-12-22 /pmc/articles/PMC6337395/ /pubmed/30583511 http://dx.doi.org/10.3390/ijms20010046 Text en © 2018 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (http://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Carvalho Garcia, Amanda
dos Santos, Vera Lúcia Pereira
Santos Cavalcanti, Teresa Cristina
Collaço, Luiz Martins
Graf, Hans
Bacterial Small RNAs in the Genus Herbaspirillum spp.
title Bacterial Small RNAs in the Genus Herbaspirillum spp.
title_full Bacterial Small RNAs in the Genus Herbaspirillum spp.
title_fullStr Bacterial Small RNAs in the Genus Herbaspirillum spp.
title_full_unstemmed Bacterial Small RNAs in the Genus Herbaspirillum spp.
title_short Bacterial Small RNAs in the Genus Herbaspirillum spp.
title_sort bacterial small rnas in the genus herbaspirillum spp.
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6337395/
https://www.ncbi.nlm.nih.gov/pubmed/30583511
http://dx.doi.org/10.3390/ijms20010046
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