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Analyzing the Complex Regulatory Landscape of Hfq – an Integrative, Multi-Omics Approach
The ability of bacteria to respond to environmental change is based on the ability to coordinate, redirect and fine-tune their genetic repertoire as and when required. While we can learn a great deal from reductive analysis of individual pathways and global approaches to gene regulation, a deeper un...
Autores principales: | , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Frontiers Media S.A.
2017
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5627042/ https://www.ncbi.nlm.nih.gov/pubmed/29033902 http://dx.doi.org/10.3389/fmicb.2017.01784 |
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author | Grenga, Lucia Chandra, Govind Saalbach, Gerhard Galmozzi, Carla V. Kramer, Günter Malone, Jacob G. |
author_facet | Grenga, Lucia Chandra, Govind Saalbach, Gerhard Galmozzi, Carla V. Kramer, Günter Malone, Jacob G. |
author_sort | Grenga, Lucia |
collection | PubMed |
description | The ability of bacteria to respond to environmental change is based on the ability to coordinate, redirect and fine-tune their genetic repertoire as and when required. While we can learn a great deal from reductive analysis of individual pathways and global approaches to gene regulation, a deeper understanding of these complex signaling networks requires the simultaneous consideration of several regulatory layers at the genome scale. To highlight the power of this approach we analyzed the Hfq transcriptional/translational regulatory network in the model bacterium Pseudomonas fluorescens. We first used extensive ‘omics’ analyses to assess how hfq deletion affects mRNA abundance, mRNA translation and protein abundance. The subsequent, multi-level integration of these datasets allows us to highlight the discrete contributions by Hfq to gene regulation at different levels. The integrative approach to regulatory analysis we describe here has significant potential, for both dissecting individual signaling pathways and understanding the strategies bacteria use to cope with external challenges. |
format | Online Article Text |
id | pubmed-5627042 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2017 |
publisher | Frontiers Media S.A. |
record_format | MEDLINE/PubMed |
spelling | pubmed-56270422017-10-13 Analyzing the Complex Regulatory Landscape of Hfq – an Integrative, Multi-Omics Approach Grenga, Lucia Chandra, Govind Saalbach, Gerhard Galmozzi, Carla V. Kramer, Günter Malone, Jacob G. Front Microbiol Microbiology The ability of bacteria to respond to environmental change is based on the ability to coordinate, redirect and fine-tune their genetic repertoire as and when required. While we can learn a great deal from reductive analysis of individual pathways and global approaches to gene regulation, a deeper understanding of these complex signaling networks requires the simultaneous consideration of several regulatory layers at the genome scale. To highlight the power of this approach we analyzed the Hfq transcriptional/translational regulatory network in the model bacterium Pseudomonas fluorescens. We first used extensive ‘omics’ analyses to assess how hfq deletion affects mRNA abundance, mRNA translation and protein abundance. The subsequent, multi-level integration of these datasets allows us to highlight the discrete contributions by Hfq to gene regulation at different levels. The integrative approach to regulatory analysis we describe here has significant potential, for both dissecting individual signaling pathways and understanding the strategies bacteria use to cope with external challenges. Frontiers Media S.A. 2017-09-20 /pmc/articles/PMC5627042/ /pubmed/29033902 http://dx.doi.org/10.3389/fmicb.2017.01784 Text en Copyright © 2017 Grenga, Chandra, Saalbach, Galmozzi, Kramer and Malone. http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) or licensor are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms. |
spellingShingle | Microbiology Grenga, Lucia Chandra, Govind Saalbach, Gerhard Galmozzi, Carla V. Kramer, Günter Malone, Jacob G. Analyzing the Complex Regulatory Landscape of Hfq – an Integrative, Multi-Omics Approach |
title | Analyzing the Complex Regulatory Landscape of Hfq – an Integrative, Multi-Omics Approach |
title_full | Analyzing the Complex Regulatory Landscape of Hfq – an Integrative, Multi-Omics Approach |
title_fullStr | Analyzing the Complex Regulatory Landscape of Hfq – an Integrative, Multi-Omics Approach |
title_full_unstemmed | Analyzing the Complex Regulatory Landscape of Hfq – an Integrative, Multi-Omics Approach |
title_short | Analyzing the Complex Regulatory Landscape of Hfq – an Integrative, Multi-Omics Approach |
title_sort | analyzing the complex regulatory landscape of hfq – an integrative, multi-omics approach |
topic | Microbiology |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5627042/ https://www.ncbi.nlm.nih.gov/pubmed/29033902 http://dx.doi.org/10.3389/fmicb.2017.01784 |
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