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Unraveling retrograde signaling pathways: finding candidate signaling molecules via metabolomics and systems biology driven approaches

A tight coordination of biological processes between cellular compartments and organelles is crucial for the survival of any eukaryotic organism. According to cellular requirements, signals can be generated within organelles, such as chloroplasts and mitochondria, modulating the nuclear gene express...

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Autores principales: Caldana, Camila, Fernie, Alisdair R., Willmitzer, Lothar, Steinhauser, Dirk
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2012
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3514617/
https://www.ncbi.nlm.nih.gov/pubmed/23227029
http://dx.doi.org/10.3389/fpls.2012.00267
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author Caldana, Camila
Fernie, Alisdair R.
Willmitzer, Lothar
Steinhauser, Dirk
author_facet Caldana, Camila
Fernie, Alisdair R.
Willmitzer, Lothar
Steinhauser, Dirk
author_sort Caldana, Camila
collection PubMed
description A tight coordination of biological processes between cellular compartments and organelles is crucial for the survival of any eukaryotic organism. According to cellular requirements, signals can be generated within organelles, such as chloroplasts and mitochondria, modulating the nuclear gene expression in a process called retrograde signaling. Whilst many research efforts have been focused on dissecting retrograde signaling pathways using biochemical and genetics approaches, metabolomics and systems biology driven studies have illustrated their great potential for hypotheses generation and for dissecting signaling networks in a rather unbiased or untargeted fashion. Recently, integrative genomics approaches, in which correlation analysis has been applied on transcript and metabolite profiling data of Arabidopsis thaliana, revealed the identification of metabolites which are putatively acting as mediators of nuclear gene expression. Complimentary, the continuous technological developments in the field of metabolomics per se has further demonstrated its potential as a very suitable readout to unravel metabolite-mediated signaling processes. As foundation for these studies here we outline and discuss recent advances in elucidating retrograde signaling molecules and pathways with an emphasis on metabolomics and systems biology driven approaches.
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spelling pubmed-35146172012-12-07 Unraveling retrograde signaling pathways: finding candidate signaling molecules via metabolomics and systems biology driven approaches Caldana, Camila Fernie, Alisdair R. Willmitzer, Lothar Steinhauser, Dirk Front Plant Sci Plant Science A tight coordination of biological processes between cellular compartments and organelles is crucial for the survival of any eukaryotic organism. According to cellular requirements, signals can be generated within organelles, such as chloroplasts and mitochondria, modulating the nuclear gene expression in a process called retrograde signaling. Whilst many research efforts have been focused on dissecting retrograde signaling pathways using biochemical and genetics approaches, metabolomics and systems biology driven studies have illustrated their great potential for hypotheses generation and for dissecting signaling networks in a rather unbiased or untargeted fashion. Recently, integrative genomics approaches, in which correlation analysis has been applied on transcript and metabolite profiling data of Arabidopsis thaliana, revealed the identification of metabolites which are putatively acting as mediators of nuclear gene expression. Complimentary, the continuous technological developments in the field of metabolomics per se has further demonstrated its potential as a very suitable readout to unravel metabolite-mediated signaling processes. As foundation for these studies here we outline and discuss recent advances in elucidating retrograde signaling molecules and pathways with an emphasis on metabolomics and systems biology driven approaches. Frontiers Media S.A. 2012-12-05 /pmc/articles/PMC3514617/ /pubmed/23227029 http://dx.doi.org/10.3389/fpls.2012.00267 Text en Copyright © Caldana, Fernie, Willmitzer and Steinhauser. http://creativecommons.org/licenses/by/3.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits use, distribution and reproduction in other forums, provided the original authors and source are credited and subject to any copyright notices concerning any third-party graphics etc.
spellingShingle Plant Science
Caldana, Camila
Fernie, Alisdair R.
Willmitzer, Lothar
Steinhauser, Dirk
Unraveling retrograde signaling pathways: finding candidate signaling molecules via metabolomics and systems biology driven approaches
title Unraveling retrograde signaling pathways: finding candidate signaling molecules via metabolomics and systems biology driven approaches
title_full Unraveling retrograde signaling pathways: finding candidate signaling molecules via metabolomics and systems biology driven approaches
title_fullStr Unraveling retrograde signaling pathways: finding candidate signaling molecules via metabolomics and systems biology driven approaches
title_full_unstemmed Unraveling retrograde signaling pathways: finding candidate signaling molecules via metabolomics and systems biology driven approaches
title_short Unraveling retrograde signaling pathways: finding candidate signaling molecules via metabolomics and systems biology driven approaches
title_sort unraveling retrograde signaling pathways: finding candidate signaling molecules via metabolomics and systems biology driven approaches
topic Plant Science
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3514617/
https://www.ncbi.nlm.nih.gov/pubmed/23227029
http://dx.doi.org/10.3389/fpls.2012.00267
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