Analysis of gene regulatory networks of maize in response to nitrogen

Jiang, L., Ball, G. ORCID: 0000-0001-5828-7129, Hodgman, C., Coules, A., Zhao, H. and Lu, C. ORCID: 0000-0002-0064-4725, 2018. Analysis of gene regulatory networks of maize in response to nitrogen. Genes, 9 (3), p. 151. ISSN 2073-4425

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Abstract

Nitrogen (N) fertilizer has a major influence on the yield and quality. Understanding and optimising the response of crop plants to nitrogen fertilizer usage is of central importance in enhancing food security and agricultural sustainability. In this study, the analysis of gene regulatory networks reveals multiple genes and biological processes in response to N. Two microarray studies have been used to infer components of the nitrogen-response network. Since they used different array technologies, a map linking the two probe sets to the maize B73 reference genome has been generated to allow comparison. Putative Arabidopsis homologues of maize genes were used to query the Biological General Repository for Interaction Datasets (BioGRID) network, which yielded the potential involvement of three transcription factors (TFs) (GLK5, MADS64 and bZIP108) and a Calcium-dependent protein kinase. An Artificial Neural Network was used to identify influential genes and retrieved bZIP108 and WRKY36 as significant TFs in both microarray studies, along with genes for Asparagine Synthetase, a dual-specific protein kinase and a protein phosphatase. The output from one study also suggested roles for microRNA (miRNA) 399b and Nin-like Protein 15 (NLP15). Co-expression-network analysis of TFs with closely related profiles to known Nitrate-responsive genes identified GLK5, GLK8 and NLP15 as candidate regulators of genes repressed under low Nitrogen conditions, while bZIP108 might play a role in gene activation.

Item Type: Journal article
Publication Title: Genes
Creators: Jiang, L., Ball, G., Hodgman, C., Coules, A., Zhao, H. and Lu, C.
Publisher: MDPI AG
Date: 2018
Volume: 9
Number: 3
ISSN: 2073-4425
Identifiers:
NumberType
10.3390/genes9030151DOI
genes9030151Publisher Item Identifier
Divisions: Schools > School of Animal, Rural and Environmental Sciences
Depositing User: Linda Sullivan
Date Added: 12 Mar 2018 12:18
Last Modified: 12 Mar 2018 12:18
URI: http://irep.ntu.ac.uk/id/eprint/32914

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