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Gene Mining for Proline Based Signaling Proteins in Cell Wall of Arabidopsis thaliana
The cell wall (CW) as a first line of defense against biotic and abiotic stresses is of primary importance in plant biology. The proteins associated with cell walls play a significant role in determining a plant's sustainability to adverse environmental conditions. In this work, the genes encod...
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/PMC5326801/ https://www.ncbi.nlm.nih.gov/pubmed/28289422 http://dx.doi.org/10.3389/fpls.2017.00233 |
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author | Ihsan, Muhammad Z. Ahmad, Samina J. N. Shah, Zahid Hussain Rehman, Hafiz M. Aslam, Zubair Ahuja, Ishita Bones, Atle M. Ahmad, Jam N. |
author_facet | Ihsan, Muhammad Z. Ahmad, Samina J. N. Shah, Zahid Hussain Rehman, Hafiz M. Aslam, Zubair Ahuja, Ishita Bones, Atle M. Ahmad, Jam N. |
author_sort | Ihsan, Muhammad Z. |
collection | PubMed |
description | The cell wall (CW) as a first line of defense against biotic and abiotic stresses is of primary importance in plant biology. The proteins associated with cell walls play a significant role in determining a plant's sustainability to adverse environmental conditions. In this work, the genes encoding cell wall proteins (CWPs) in Arabidopsis were identified and functionally classified using geneMANIA and GENEVESTIGATOR with published microarrays data. This yielded 1605 genes, out of which 58 genes encoded proline-rich proteins (PRPs) and glycine-rich proteins (GRPs). Here, we have focused on the cellular compartmentalization, biological processes, and molecular functioning of proline-rich CWPs along with their expression at different plant developmental stages. The mined genes were categorized into five classes on the basis of the type of PRPs encoded in the cell wall of Arabidopsis thaliana. We review the domain structure and function of each class of protein, many with respect to the developmental stages of the plant. We have then used networks, hierarchical clustering and correlations to analyze co-expression, co-localization, genetic, and physical interactions and shared protein domains of these PRPs. This has given us further insight into these functionally important CWPs and identified a number of potentially new cell-wall related proteins in A. thaliana. |
format | Online Article Text |
id | pubmed-5326801 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2017 |
publisher | Frontiers Media S.A. |
record_format | MEDLINE/PubMed |
spelling | pubmed-53268012017-03-13 Gene Mining for Proline Based Signaling Proteins in Cell Wall of Arabidopsis thaliana Ihsan, Muhammad Z. Ahmad, Samina J. N. Shah, Zahid Hussain Rehman, Hafiz M. Aslam, Zubair Ahuja, Ishita Bones, Atle M. Ahmad, Jam N. Front Plant Sci Plant Science The cell wall (CW) as a first line of defense against biotic and abiotic stresses is of primary importance in plant biology. The proteins associated with cell walls play a significant role in determining a plant's sustainability to adverse environmental conditions. In this work, the genes encoding cell wall proteins (CWPs) in Arabidopsis were identified and functionally classified using geneMANIA and GENEVESTIGATOR with published microarrays data. This yielded 1605 genes, out of which 58 genes encoded proline-rich proteins (PRPs) and glycine-rich proteins (GRPs). Here, we have focused on the cellular compartmentalization, biological processes, and molecular functioning of proline-rich CWPs along with their expression at different plant developmental stages. The mined genes were categorized into five classes on the basis of the type of PRPs encoded in the cell wall of Arabidopsis thaliana. We review the domain structure and function of each class of protein, many with respect to the developmental stages of the plant. We have then used networks, hierarchical clustering and correlations to analyze co-expression, co-localization, genetic, and physical interactions and shared protein domains of these PRPs. This has given us further insight into these functionally important CWPs and identified a number of potentially new cell-wall related proteins in A. thaliana. Frontiers Media S.A. 2017-02-27 /pmc/articles/PMC5326801/ /pubmed/28289422 http://dx.doi.org/10.3389/fpls.2017.00233 Text en Copyright © 2017 Ihsan, Ahmad, Shah, Rehman, Aslam, Ahuja, Bones and Ahmad. 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 | Plant Science Ihsan, Muhammad Z. Ahmad, Samina J. N. Shah, Zahid Hussain Rehman, Hafiz M. Aslam, Zubair Ahuja, Ishita Bones, Atle M. Ahmad, Jam N. Gene Mining for Proline Based Signaling Proteins in Cell Wall of Arabidopsis thaliana |
title | Gene Mining for Proline Based Signaling Proteins in Cell Wall of Arabidopsis thaliana |
title_full | Gene Mining for Proline Based Signaling Proteins in Cell Wall of Arabidopsis thaliana |
title_fullStr | Gene Mining for Proline Based Signaling Proteins in Cell Wall of Arabidopsis thaliana |
title_full_unstemmed | Gene Mining for Proline Based Signaling Proteins in Cell Wall of Arabidopsis thaliana |
title_short | Gene Mining for Proline Based Signaling Proteins in Cell Wall of Arabidopsis thaliana |
title_sort | gene mining for proline based signaling proteins in cell wall of arabidopsis thaliana |
topic | Plant Science |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5326801/ https://www.ncbi.nlm.nih.gov/pubmed/28289422 http://dx.doi.org/10.3389/fpls.2017.00233 |
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