New proposal of nitrogen metabolism regulation by small RNAs in the extreme halophilic archaeon Haloferax mediterranei

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Title: New proposal of nitrogen metabolism regulation by small RNAs in the extreme halophilic archaeon Haloferax mediterranei
Authors: Payá, Gloria | Bautista, Vanesa | Camacho, Mónica | Bonete, María-José | Esclapez, Julia
Research Group/s: Biotecnología de Extremófilos (BIOTECEXTREM)
Center, Department or Service: Universidad de Alicante. Departamento de Agroquímica y Bioquímica
Keywords: Non-coding RNAs | Haloarchaea | Nitrogen metabolism | Gene expression regulation | RNA-Seq
Knowledge Area: Bioquímica y Biología Molecular
Issue Date: May-2020
Publisher: Springer Nature
Citation: Molecular Genetics and Genomics. 2020, 295: 775-785. doi:10.1007/s00438-020-01659-9
Abstract: The regulatory networks involved in the uptake and metabolism of different nitrogen sources in response to their availability are crucial in all organisms. Nitrogen metabolism pathways have been studied in detail in archaea such as the extreme halophilic archaeon Haloferax mediterranei. However, knowledge about nitrogen metabolism regulation in haloarchaea is very scarce, and no transcriptional regulators involved in nitrogen metabolism have been identified to date. Advances in the molecular biology field have revealed that many small RNAs (sRNAs) are involved in the regulation of a diverse metabolic pathways. Surprisingly, no studies on regulation mediated by sRNAs have focused on the response to environmental fluctuations in nitrogen in haloarchaea. To identify sRNAs involved in the transcriptional regulation of nitrogen assimilation genes in Haloferax mediterranei and, thus, propose a novel regulatory mechanism, RNA-Seq was performed using cells grown in the presence of two different nitrogen sources. The differential transcriptional expression analysis of the RNA-Seq data revealed differences in the transcription patterns of 102 sRNAs according to the nitrogen source, and the molecular functions, cellular locations and biological processes with which the target genes were associated were predicted. These results enabled the identification of four sRNAs that could be directly related to the regulation of genes involved in nitrogen metabolism. This work provides the first proposed regulatory mechanism of nitrogen assimilation-related gene expression by sRNAs in haloarchaea as an alternative to transcriptional regulation mediated by proteins.
Sponsor: This study was funded by the Spanish Ministry of Economy and Competitiveness and FEDER (grant BIO2013-42921-P); the Generalitat Valenciana (Spain) (grant ACIF/2018/200); and the “Programa Propio para el Fomento de la I + D + i del Vicerrectorado de Investigación y Transferencia de Conocimiento” of the University of Alicante (Spain).
ISSN: 1617-4615 (Print) | 1617-4623 (Online)
DOI: 10.1007/s00438-020-01659-9
Language: eng
Type: info:eu-repo/semantics/article
Rights: © Springer-Verlag GmbH Germany, part of Springer Nature 2020
Peer Review: si
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Appears in Collections:INV - BIOTECEXTREM - Artículos de Revistas

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