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pH-dependent transcriptional profile changes in iron-deficient Arabidopsis roots
BACKGROUND: Iron is an essential element for plants and abundantly present in most mineral soils. The mobility of iron is, however, dependent on the redox potential and hydrogen activity (pH) of the soil, factors that may limit its availability to plants in particular at alkaline pHs. Iron deficienc...
Autores principales: | , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
BioMed Central
2020
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7539395/ https://www.ncbi.nlm.nih.gov/pubmed/33023472 http://dx.doi.org/10.1186/s12864-020-07116-6 |
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author | Tsai, Huei-Hsuan Schmidt, Wolfgang |
author_facet | Tsai, Huei-Hsuan Schmidt, Wolfgang |
author_sort | Tsai, Huei-Hsuan |
collection | PubMed |
description | BACKGROUND: Iron is an essential element for plants and abundantly present in most mineral soils. The mobility of iron is, however, dependent on the redox potential and hydrogen activity (pH) of the soil, factors that may limit its availability to plants in particular at alkaline pHs. Iron deficiency triggers pronounced changes in the transcriptional profile of plants, inducing processes that aid in the acquisition, uptake, and translocation of iron. How ambient pH impact the transcriptional iron deficiency response has not yet been elucidated in detail. RESULTS: Here, we provide an RNA-seq data set that catalogs global gene expression changes of iron-deficient plants grown at either optimal (5.5) or high (7.0) pH. A suite of 857 genes changed significantly and more than twofold in expression; only 54 genes of this suite were also differentially expressed between iron-deficient and iron-sufficient plants grown at pH 5.5. Among the high pH-responsive genes, 186 were earlier shown to be responsive to short-term transfer to low pH, 91 genes of this subset were anti-directionally regulated by high and low pH. The latter subset contained genes involved in cell wall organization, auxin homeostasis, and potential hubs of yet undefined signaling circuits. Growing iron-deficient plants at high pH also modulated the transcriptional iron deficiency response observed at pH 5.5 by compromising the enzymatic reduction of ferric chelates and favoring the production of iron-mobilizing coumarins. CONCLUSIONS: It is concluded that ambient pH is an important determinant of global gene expression which tunes iron acquisition to the prevailing edaphic conditions. |
format | Online Article Text |
id | pubmed-7539395 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2020 |
publisher | BioMed Central |
record_format | MEDLINE/PubMed |
spelling | pubmed-75393952020-10-08 pH-dependent transcriptional profile changes in iron-deficient Arabidopsis roots Tsai, Huei-Hsuan Schmidt, Wolfgang BMC Genomics Research Article BACKGROUND: Iron is an essential element for plants and abundantly present in most mineral soils. The mobility of iron is, however, dependent on the redox potential and hydrogen activity (pH) of the soil, factors that may limit its availability to plants in particular at alkaline pHs. Iron deficiency triggers pronounced changes in the transcriptional profile of plants, inducing processes that aid in the acquisition, uptake, and translocation of iron. How ambient pH impact the transcriptional iron deficiency response has not yet been elucidated in detail. RESULTS: Here, we provide an RNA-seq data set that catalogs global gene expression changes of iron-deficient plants grown at either optimal (5.5) or high (7.0) pH. A suite of 857 genes changed significantly and more than twofold in expression; only 54 genes of this suite were also differentially expressed between iron-deficient and iron-sufficient plants grown at pH 5.5. Among the high pH-responsive genes, 186 were earlier shown to be responsive to short-term transfer to low pH, 91 genes of this subset were anti-directionally regulated by high and low pH. The latter subset contained genes involved in cell wall organization, auxin homeostasis, and potential hubs of yet undefined signaling circuits. Growing iron-deficient plants at high pH also modulated the transcriptional iron deficiency response observed at pH 5.5 by compromising the enzymatic reduction of ferric chelates and favoring the production of iron-mobilizing coumarins. CONCLUSIONS: It is concluded that ambient pH is an important determinant of global gene expression which tunes iron acquisition to the prevailing edaphic conditions. BioMed Central 2020-10-06 /pmc/articles/PMC7539395/ /pubmed/33023472 http://dx.doi.org/10.1186/s12864-020-07116-6 Text en © The Author(s) 2020 Open AccessThis article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated in a credit line to the data. |
spellingShingle | Research Article Tsai, Huei-Hsuan Schmidt, Wolfgang pH-dependent transcriptional profile changes in iron-deficient Arabidopsis roots |
title | pH-dependent transcriptional profile changes in iron-deficient Arabidopsis roots |
title_full | pH-dependent transcriptional profile changes in iron-deficient Arabidopsis roots |
title_fullStr | pH-dependent transcriptional profile changes in iron-deficient Arabidopsis roots |
title_full_unstemmed | pH-dependent transcriptional profile changes in iron-deficient Arabidopsis roots |
title_short | pH-dependent transcriptional profile changes in iron-deficient Arabidopsis roots |
title_sort | ph-dependent transcriptional profile changes in iron-deficient arabidopsis roots |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7539395/ https://www.ncbi.nlm.nih.gov/pubmed/33023472 http://dx.doi.org/10.1186/s12864-020-07116-6 |
work_keys_str_mv | AT tsaihueihsuan phdependenttranscriptionalprofilechangesinirondeficientarabidopsisroots AT schmidtwolfgang phdependenttranscriptionalprofilechangesinirondeficientarabidopsisroots |