Revealing the differential protein profiles behind the nitrogen use efficiency in popcorn (Zea mays var. everta)

Khan, Shahid; Pinto, Vitor Batista; Júnior, Antônio Teixeira do Amaral; Gonçalves, Gabriel Moreno Bernardo; Corrêa, Caio Cézar Guedes; Ferreira, Fernando Rafael Alves; Souza, Guilherme Augusto Rodrigues de; Campostrini, Eliemar; Freitas, Marta Simone Mendonça; Vieira, Marlene Evangelista; Santos, Talles de Oliveira; Lima, Valter Jário de; Kamphorst, Samuel Henrique; Amaral, José Francisco Teixeira do; Mora‐Poblete, Freddy; Filho, Gonçalo Apolinário de Souza; Silveira, Vanildo

doi:10.1038/s41598-022-05545-9

Cited by 7 publications

(13 citation statements)

References 81 publications

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“…Photosynthesis is one of the most important processes in crop N response and NUE [ 57 ] and its proteins are among those prominently affected by nitrogen status [ 34 , 58 ]. Our RT-qPCR data validate the higher downregulation of the DEG PsaN (photosystem I subunit N) by low urea in the low-NUE genotype relative to the high-NUE genotype.…”

Section: Discussionmentioning

confidence: 99%

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Genome-Wide Urea Response in Rice Genotypes Contrasting for Nitrogen Use Efficiency

Sharma

Jaiswal

Kumari

et al. 2023

IJMS

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Rice is an ideal crop for improvement of nitrogen use efficiency (NUE), especially with urea, its predominant fertilizer. There is a paucity of studies on rice genotypes contrasting for NUE. We compared low urea-responsive transcriptomes of contrasting rice genotypes, namely Nidhi (low NUE) and Panvel1 (high NUE). Transcriptomes of whole plants grown with media containing normal (15 mM) and low urea (1.5 mM) revealed 1497 and 2819 differentially expressed genes (DEGs) in Nidhi and Panvel1, respectively, of which 271 were common. Though 1226 DEGs were genotype-specific in Nidhi and 2548 in Panvel1, there was far higher commonality in underlying processes. High NUE is associated with the urea-responsive regulation of other nutrient transporters, miRNAs, transcription factors (TFs) and better photosynthesis, water use efficiency and post-translational modifications. Many of their genes co-localized to NUE-QTLs on chromosomes 1, 3 and 9. A field evaluation under different doses of urea revealed better agronomic performance including grain yield, transport/uptake efficiencies and NUE of Panvel1. Comparison of our urea-based transcriptomes with our previous nitrate-based transcriptomes revealed many common processes despite large differences in their expression profiles. Our model proposes that differential involvement of transporters and TFs, among others, contributes to better urea uptake, translocation, utilization, flower development and yield for high NUE.

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Section: Discussionmentioning

confidence: 99%

“…[ 14 ]. Nevertheless, some successful examples of NUE improvement in rice included targeted assimilation, transporters [ 19 , 20 , 21 , 22 , 23 , 24 , 25 ], transcription factors (TFs) [ 26 , 27 , 28 , 29 , 30 , 31 , 32 , 33 ] and others [ 12 , 29 , 34 , 35 , 36 , 37 , 38 , 39 ].…”

Section: Introductionmentioning

confidence: 99%

Genome-Wide Urea Response in Rice Genotypes Contrasting for Nitrogen Use Efficiency

Sharma

Jaiswal

Kumari

et al. 2023

IJMS

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“…Indeed, it is well-known that proline accumulates in plants subjected to environmental stress [ 28 ], maintaining osmotic balance and protecting cells against ROS under salt stress [ 29 ]. The biological significance of the alanine accumulation in plants is still controversial; indeed, its accumulation may be a N-storage mechanism, before restoring to an N-normal condition [ 30 ]. Thus, it is more difficult to explain the alanine increase in the N-use-inefficient genotypes.…”

Section: Discussionmentioning

confidence: 99%

Uncovering Pathways Highly Correlated to NUE through a Combined Metabolomics and Transcriptomics Approach in Eggplant

Mauceri

Aci

Toppino³

et al. 2022

Plants

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Nitrogen (N) fertilization is one of the main inputs to increase crop yield and food production. However, crops utilize only 30–40% of N applied; the remainder is leached into the soil, causing environmental and health damage. In this scenario, the improvement of nitrogen-use efficiency (NUE) will be an essential strategy for sustainable agriculture. Here, we compared two pairs of NUE-contrasting eggplant (Solanum melongena L.) genotypes, employing GC-MS and UPLC-qTOF-MS-based technologies to determine the differential profiles of primary and secondary metabolites in root and shoot tissues, under N starvation as well as at short- and long-term N-limiting resupply. Firstly, differences in the primary metabolism pathways of shoots related to alanine, aspartate and glutamate; starch, sucrose and glycine; serine and threonine; and in secondary metabolites biosynthesis were detected. An integrated analysis between differentially accumulated metabolites and expressed transcripts highlighted a key role of glycine accumulation and the related glyA transcript in the N-use-efficient genotypes to cope with N-limiting stress. Interestingly, a correlation between both sucrose synthase (SUS)- and fructokinase (scrK)-transcript abundances, as well as D-glucose and D-fructose accumulation, appeared useful to distinguish the N-use-efficient genotypes. Furthermore, increased levels of L-aspartate and L-asparagine in the N-use-efficient genotypes at short-term low-N exposure were detected. Granule-bound starch synthase (WAXY) and endoglucanase (E3.2.1.4) downregulation at long-term N stress was observed. Therefore, genes and metabolites related to these pathways could be exploited to improve NUE in eggplant.

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“…Process annotation of urea-responsive DEGs revealed photosynthesis, chloroplast and response to water (Supplementary Table S2) among those prominently regulated by urea in both contrasting rice genotypes. Photosynthesis is one of the most important processes in crop N response and NUE (Long, 2020) and its proteins are among those prominently affected by nitrogen status (Khan et al, 2022, Mu et al, 2017). Our RT-qPCR data validate the higher downregulation of the DEG PsaN (photosystem I subunit N) by low urea in the low NUE genotype relative to the high NUE genotype.…”

Section: Discussionmentioning

confidence: 99%

Genomewide basis for nitrogen use efficiency in contrasting genotypes of rice

Sharma

Jaiswal

Kumari

et al. 2022

Preprint

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Rice is an ideal crop with huge germplasm diversity and post-genomic resources for improvement of nitrogen (N) use efficiency (NUE). There is a paucity of comparative studies on rice genotypes contrasting for NUE, especially with urea, the predominant fertilizer in rice growing countries. In this study, low urea-responsive transcriptomes of contrasting rice genotypes namely Nidhi (low NUE) and Panvel1 (high NUE) were compared. They were based on whole plants grown for 21 days in pots containing nutrient-depleted soil fertilized with normal (15 mM) and low urea (1.5 mM) media. There were 1497 and 2819 differentially expressed genes (DEGs) in Nidhi and Panvel1, respectively, of which 271 were common. Though 1226 DEGs were genotype-specific in Nidhi and 2548 in Panvel1, there was far higher commonality in underlying processes. High NUE is associated with the urea-responsive regulation of other nutrient transporters, miRNAs, transcription factors and better photosynthesis, water use efficiency and post translational modifications. Many of their genes co-localized to NUE QTLs on chromosomes 1, 3 and 9. Field evaluation of the contrasting genotypes under different doses of urea revealed better performance of Panvel1 in different agronomic parameters including grain yield, transport/uptake efficiencies and NUE. Comparison of our urea-based transcriptomes with our previous nitrate-based transcriptomes from the same contrasting rice genotypes revealed many common processes despite large differences in their expression profiles. Our model proposes that differential involvement of transporters and transcription factors among others contributes to better urea uptake, translocation, utilization, flower development and yield for high NUE.SummaryRice genotypes with contrasting urea use efficiency differ in the role of transporters, transcription factors, miRNAs, post-translational modifications, photosynthesis and water use efficiency

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Revealing the differential protein profiles behind the nitrogen use efficiency in popcorn (Zea mays var. everta)

Cited by 7 publications

References 81 publications

Genome-Wide Urea Response in Rice Genotypes Contrasting for Nitrogen Use Efficiency

Genome-Wide Urea Response in Rice Genotypes Contrasting for Nitrogen Use Efficiency

Uncovering Pathways Highly Correlated to NUE through a Combined Metabolomics and Transcriptomics Approach in Eggplant

Genomewide basis for nitrogen use efficiency in contrasting genotypes of rice

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