Systems-wide analysis of manganese deficiency-induced changes in gene activity of Arabidopsis roots

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Rodríguez Celma, Jorge, Tsai, Yi-Hsiu, Wen, Tuan-Nan, Wu, Yu-Ching, Curie, Catherine and Schmidt, Wolfgang (2016) Systems-wide analysis of manganese deficiency-induced changes in gene activity of Arabidopsis roots. Scientific Reports, 6. ISSN 2045-2322

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Abstract

Manganese (Mn) is pivotal for plant growth and development, but little information is available regarding the strategies that evolved to improve Mn acquisition and cellular homeostasis of Mn. Using an integrated RNA-based transcriptomic and high-throughput shotgun proteomics approach, we generated a comprehensive inventory of transcripts and proteins that showed altered abundance in response to Mn deficiency in roots of the model plant Arabidopsis. A suite of 22,385 transcripts was consistently detected in three RNA-seq runs; LC-MS/MS-based iTRAQ proteomics allowed the unambiguous determination of 11,606 proteins. While high concordance between mRNA and protein expression (R = 0.87) was observed for transcript/protein pairs in which both gene products accumulated differentially upon Mn deficiency, only approximately 10% of the total alterations in the abundance of proteins could be attributed to transcription, indicating a large impact of protein-level regulation. Differentially expressed genes spanned a wide range of biological functions, including the maturation, translation, and transport of mRNAs, as well as primary and secondary metabolic processes. Metabolic analysis by UPLC-qTOF-MS revealed that the steady-state levels of several major glucosinolates were significantly altered upon Mn deficiency in both roots and leaves, possibly as a compensation for increased pathogen susceptibility under conditions of Mn deficiency.

Item Type:	Article
Additional Information:	This work is licensed under a Creative Commons Attribution 4.0 International License. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in the credit line; if the material is not included under the Creative Commons license, users will need to obtain permission from the license holder to reproduce the material. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/
Faculty \ School:	Faculty of Science > School of Biological Sciences
Related URLs:	http://www.nature.com/articles/srep35846
Depositing User:	Pure Connector
Date Deposited:	25 Nov 2016 16:17
Last Modified:	22 Oct 2022 01:55
URI:	https://ueaeprints.uea.ac.uk/id/eprint/61501
DOI:	10.1038/srep35846

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