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Nitrogen transporter and assimilation genes exhibit developmental stage-selective expression in maize (Zea mays L.) associated with distinct cis-acting promoter motifs.

ABSTRACT: Nitrogen is considered the most limiting nutrient for maize (Zea mays L.), but there is limited understanding of the regulation of nitrogen-related genes during maize development. An Affymetrix 82K maize array was used to analyze the expression of ? 46 unique nitrogen uptake and assimilation probes in 50 maize tissues from seedling emergence to 31 d after pollination. Four nitrogen-related expression clusters were identified in roots and shoots corresponding to, or overlapping, juvenile, adult, and reproductive phases of development. Quantitative real time PCR data was consistent with the existence of these distinct expression clusters. Promoters corresponding to each cluster were screened for over-represented cis-acting elements. The 8-bp distal motif of the Arabidopsis 43-bp nitrogen response element (NRE) was over-represented in nitrogen-related maize gene promoters. This conserved motif, referred to here as NRE43-d8, was previously shown to be critical for nitrate-activated transcription of nitrate reductase (NIA1) and nitrite reductase (NIR1) by the NIN-LIKE PROTEIN 6 (NLP6) in Arabidopsis. Here, NRE43-d8 was over-represented in the promoters of maize nitrate and ammonium transporter genes, specifically those that showed peak expression during early-stage vegetative development. This result predicts an expansion of the NRE-NLP6 regulon and suggests that it may have a developmental component in maize. We also report leaf expression of putative orthologs of nitrite transporters (NiTR1), a transporter not previously reported in maize. We conclude by discussing how each of the four transcriptional modules may be responsible for the different nitrogen uptake and assimilation requirements of leaves and roots at different stages of maize development.

SUBMITTER: Liseron-Monfils C

PROVIDER: S-EPMC4091066 | biostudies-literature | 2013 Oct

REPOSITORIES: biostudies-literature

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Nitrogen transporter and assimilation genes exhibit developmental stage-selective expression in maize (Zea mays L.) associated with distinct cis-acting promoter motifs.

Liseron-Monfils Christophe C Bi Yong-Mei YM Downs Gregory S GS Wu Wenqing W Signorelli Tara T Lu Guangwen G Chen Xi X Bondo Eddie E Zhu Tong T Lukens Lewis N LN Colasanti Joseph J Rothstein Steven J SJ Raizada Manish N MN

Plant signaling & behavior 20131001 10

Nitrogen is considered the most limiting nutrient for maize (Zea mays L.), but there is limited understanding of the regulation of nitrogen-related genes during maize development. An Affymetrix 82K maize array was used to analyze the expression of ≤ 46 unique nitrogen uptake and assimilation probes in 50 maize tissues from seedling emergence to 31 d after pollination. Four nitrogen-related expression clusters were identified in roots and shoots corresponding to, or overlapping, juvenile, adult, ...[more]

PMID: 24270626

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Project description:Mulching and nitrogen are critical drivers of crop production for smallholders of the Loess Plateau in China. The purpose of this study was to investigate the effect of mulching and nitrogen fertilizer on the soil water content, soil nitrate-N content and vertical distribution in maize root-zone. The experiment was conducted over two consecutive years and used randomly assigned field plots with three replicates. The six treatments consisted of no fertilizer without plastic film (CK), plastic film mulching with no basal fertilizer and no top dressing (MN0), basal fertilizer with no top dressing and no mulching (BN1), plastic film mulching and basal fertilizer with no top dressing (MN1), basal fertilizer and top dressing with no mulching (BN2) and plastic film mulching with basal fertilizer and top dressing (MN2). In the top soil layers, the soil water content was a little high in the plastic film mulching than that without mulching. The mean soil water content from 0 to 40 cm without mulching were 3.35% lower than those measured in the corresponding mulching treatments in 31 days after sowing in 2012. The mulching treatment increased the soil nitrate-N content was observed in the 0-40-cm soil layers. The results indicate that high contents of soil nitrate-N were mainly distributed at 0-20-cm at 31 days after sowing in 2012, and the soil nitrate-N concentration in the MN2 treatment was 1.58 times higher than that did not receive fertilizer. The MN2 treatment greatly increased the soil nitrate-N content in the upper layer of soil (0-40-cm), and the mean soil nitrate-N content was increased nearly 50 mg kg-1 at 105 days after sowing compared with CK treatment in 2012. The soil nitrate-N leaching amount in MN1 treatment was 28.61% and 39.14% lower than BN1 treatment, and the mulch effect attained to 42.55% and 65.27% in MN2 lower than BN2 in both years. The yield increased with an increase in the basal fertilizer, top dressing and plastic film mulching, and the grain yield increase ranged from 31.41% to 83.61% in two consecutive years. The MN1 and MN2 treatment is recommended because it increased the grain yield and improved the fertilizer use efficiency, compared with the no-mulching treatment.

Project description:Maize is a heavy consumer of fertilizer nitrogen (N) which not only results in the high cost of cultivation but may also lead to environmental pollution. Therefore, there is a need to develop N-use efficient genotypes, a prerequisite for which is a greater understanding of N-deficiency stress adaptation. In this study, comparative transcriptome analysis was performed using leaf and root tissues from contrasting inbred lines, viz., DMI 56 (tolerant to N stress) and DMI 81 (susceptible to N stress) to delineate the differentially expressed genes (DEGs) under low-N stress. The contrasting lines were grown hydroponically in modified Hoagland solution having either sufficient- or deficient-N, followed by high-throughput RNA-sequencing. A total of 8 sequencing libraries were prepared and 88-97% of the sequenced raw reads were mapped to the reference B73 maize genome. Genes with a p value ≤ 0.05 and fold change of ≥ 2.0 or ≤ - 2 were considered as DEGs in various combinations performed between susceptible and tolerant genotypes. DEGs were further classified into different functional categories and pathways according to their putative functions. Gene Ontology based annotation of these DEGs identified three different functional categories: biological processes, molecular function, and cellular component. The KEGG and Mapman based analysis revealed that most of the DEGs fall into various metabolic pathways, biosynthesis of secondary metabolites, signal transduction, amino acid metabolism, N-assimilation and metabolism, and starch metabolism. Some of the key genes involved in N uptake (high-affinity nitrate transporter 2.2 and 2.5), N assimilation and metabolism (glutamine synthetase, asparagine synthetase), redox homeostasis (SOD, POX), and transcription factors (MYB36, AP2-EREBP) were found to be highly expressed in the tolerant genotype compared to susceptible one. The candidate genes identified in the present study might be playing a pivotal role in low-N stress adaptation in maize and hence could be useful in augmenting further research on N metabolism and development of N-deficiency tolerant maize cultivars.

Dataset Information

Nitrogen transporter and assimilation genes exhibit developmental stage-selective expression in maize (Zea mays L.) associated with distinct cis-acting promoter motifs.

Publications

Nitrogen transporter and assimilation genes exhibit developmental stage-selective expression in maize (Zea mays L.) associated with distinct cis-acting promoter motifs.

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