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A Data-Mining Approach to Identify NF-kB-Responsive microRNAs in Tissues Involved in Inflammatory Processes: Potential Relevance in Age-Related Diseases

The nuclear factor NF-kB is the master transcription factor in the inflammatory process by modulating the expression of pro-inflammatory genes. However, an additional level of complexity is the ability to promote the transcriptional activation of post-transcriptional modulators of gene expression as...

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Autores principales: Micolucci, Luigina, Matacchione, Giulia, Albertini, Maria Cristina, Marra, Massimo, Ramini, Deborah, Giuliani, Angelica, Sabbatinelli, Jacopo, Procopio, Antonio Domenico, Olivieri, Fabiola, Marsico, Annalisa, Monsurrò, Vladia
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10049099/
https://www.ncbi.nlm.nih.gov/pubmed/36982191
http://dx.doi.org/10.3390/ijms24065123
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author Micolucci, Luigina
Matacchione, Giulia
Albertini, Maria Cristina
Marra, Massimo
Ramini, Deborah
Giuliani, Angelica
Sabbatinelli, Jacopo
Procopio, Antonio Domenico
Olivieri, Fabiola
Marsico, Annalisa
Monsurrò, Vladia
author_facet Micolucci, Luigina
Matacchione, Giulia
Albertini, Maria Cristina
Marra, Massimo
Ramini, Deborah
Giuliani, Angelica
Sabbatinelli, Jacopo
Procopio, Antonio Domenico
Olivieri, Fabiola
Marsico, Annalisa
Monsurrò, Vladia
author_sort Micolucci, Luigina
collection PubMed
description The nuclear factor NF-kB is the master transcription factor in the inflammatory process by modulating the expression of pro-inflammatory genes. However, an additional level of complexity is the ability to promote the transcriptional activation of post-transcriptional modulators of gene expression as non-coding RNA (i.e., miRNAs). While NF-kB’s role in inflammation-associated gene expression has been extensively investigated, the interplay between NF-kB and genes coding for miRNAs still deserves investigation. To identify miRNAs with potential NF-kB binding sites in their transcription start site, we predicted miRNA promoters by an in silico analysis using the PROmiRNA software, which allowed us to score the genomic region’s propensity to be miRNA cis-regulatory elements. A list of 722 human miRNAs was generated, of which 399 were expressed in at least one tissue involved in the inflammatory processes. The selection of “high-confidence” hairpins in miRbase identified 68 mature miRNAs, most of them previously identified as inflammamiRs. The identification of targeted pathways/diseases highlighted their involvement in the most common age-related diseases. Overall, our results reinforce the hypothesis that persistent activation of NF-kB could unbalance the transcription of specific inflammamiRNAs. The identification of such miRNAs could be of diagnostic/prognostic/therapeutic relevance for the most common inflammatory-related and age-related diseases.
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spelling pubmed-100490992023-03-29 A Data-Mining Approach to Identify NF-kB-Responsive microRNAs in Tissues Involved in Inflammatory Processes: Potential Relevance in Age-Related Diseases Micolucci, Luigina Matacchione, Giulia Albertini, Maria Cristina Marra, Massimo Ramini, Deborah Giuliani, Angelica Sabbatinelli, Jacopo Procopio, Antonio Domenico Olivieri, Fabiola Marsico, Annalisa Monsurrò, Vladia Int J Mol Sci Article The nuclear factor NF-kB is the master transcription factor in the inflammatory process by modulating the expression of pro-inflammatory genes. However, an additional level of complexity is the ability to promote the transcriptional activation of post-transcriptional modulators of gene expression as non-coding RNA (i.e., miRNAs). While NF-kB’s role in inflammation-associated gene expression has been extensively investigated, the interplay between NF-kB and genes coding for miRNAs still deserves investigation. To identify miRNAs with potential NF-kB binding sites in their transcription start site, we predicted miRNA promoters by an in silico analysis using the PROmiRNA software, which allowed us to score the genomic region’s propensity to be miRNA cis-regulatory elements. A list of 722 human miRNAs was generated, of which 399 were expressed in at least one tissue involved in the inflammatory processes. The selection of “high-confidence” hairpins in miRbase identified 68 mature miRNAs, most of them previously identified as inflammamiRs. The identification of targeted pathways/diseases highlighted their involvement in the most common age-related diseases. Overall, our results reinforce the hypothesis that persistent activation of NF-kB could unbalance the transcription of specific inflammamiRNAs. The identification of such miRNAs could be of diagnostic/prognostic/therapeutic relevance for the most common inflammatory-related and age-related diseases. MDPI 2023-03-07 /pmc/articles/PMC10049099/ /pubmed/36982191 http://dx.doi.org/10.3390/ijms24065123 Text en © 2023 by the authors. https://creativecommons.org/licenses/by/4.0/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 (https://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Micolucci, Luigina
Matacchione, Giulia
Albertini, Maria Cristina
Marra, Massimo
Ramini, Deborah
Giuliani, Angelica
Sabbatinelli, Jacopo
Procopio, Antonio Domenico
Olivieri, Fabiola
Marsico, Annalisa
Monsurrò, Vladia
A Data-Mining Approach to Identify NF-kB-Responsive microRNAs in Tissues Involved in Inflammatory Processes: Potential Relevance in Age-Related Diseases
title A Data-Mining Approach to Identify NF-kB-Responsive microRNAs in Tissues Involved in Inflammatory Processes: Potential Relevance in Age-Related Diseases
title_full A Data-Mining Approach to Identify NF-kB-Responsive microRNAs in Tissues Involved in Inflammatory Processes: Potential Relevance in Age-Related Diseases
title_fullStr A Data-Mining Approach to Identify NF-kB-Responsive microRNAs in Tissues Involved in Inflammatory Processes: Potential Relevance in Age-Related Diseases
title_full_unstemmed A Data-Mining Approach to Identify NF-kB-Responsive microRNAs in Tissues Involved in Inflammatory Processes: Potential Relevance in Age-Related Diseases
title_short A Data-Mining Approach to Identify NF-kB-Responsive microRNAs in Tissues Involved in Inflammatory Processes: Potential Relevance in Age-Related Diseases
title_sort data-mining approach to identify nf-kb-responsive micrornas in tissues involved in inflammatory processes: potential relevance in age-related diseases
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10049099/
https://www.ncbi.nlm.nih.gov/pubmed/36982191
http://dx.doi.org/10.3390/ijms24065123
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