ArticleFrontiers in genetics2022
RNA-Seq-Based Transcriptomics Study to Investigate the Genes Governing Nitrogen Use Efficiency in Indian Wheat Cultivars.
Article in Frontiers in genetics, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.
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11 citing papers in PubMed.
- Genome-wide association study, linkage mapping and transcriptomic analysis reveal candidate genes associated with nitrogen use efficiency in wheat.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2025Article
- Hyperspectral imaging of grains uncovers the genetic architecture of nitrogen response of development in bread wheat.Molecular breeding : new strategies in plant improvement · 2025Article
- Article
- Morphological and Transcriptomic Analyses Provide New Insights into Linseed (Plants (Basel, Switzerland) · 2025Article
- Transcriptomic analysis reveals cloquintocet-mexyl-inducible genes in hexaploid wheat (Triticum aestivum L.).PloS one · 2025Article
- GWAS and RNA-seq reveal novel loci and genes of low-nitrogen tolerance in cucumber (Frontiers in plant science · 2025Article
- Nitrogen deficiency tolerance conferred by introgression of a QTL derived from wild emmer into bread wheat.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2024Article
- Transcriptome Profiling Reveals the Gene Network Responding to Low Nitrogen Stress in Wheat.Plants (Basel, Switzerland) · 2024Article
- Comparative analysis between 2D and 3D colorectal cancer culture models for insights into cellular morphological and transcriptomic variations.Scientific reports · 2023Article
- Cytological, transcriptome and miRNome temporal landscapes decode enhancement of rice grain size.BMC biology · 2023Article
- Omics-driven exploration and mining of key functional genes for the improvement of food and fiber crops.Frontiers in plant science · 2023Review
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Abstract
High NUE (nitrogen use efficiency) has great practical significance for sustainable crop production. Wheat is one of the main cultivated crops worldwide for human food and nutrition. However, wheat grain productivity is dependent upon cultivars with high NUE in addition to the application of nitrogen fertilizers. In order to understand the molecular mechanisms exhibiting a high NUE response, a comparative transcriptomics study was carried out through RNA-seq analysis to investigate the gene expression that regulates NUE, in root and shoot tissue of N-efficient (PBW677) and N-inefficient (703) cultivars under optimum and nitrogen (N) stress. Differentially expressed gene analysis revealed a total of 2,406 differentially expressed genes (DEGs) present in both the contrasting cultivars under N stress. The efficient genotype PBW677 had considerably more abundant DEGs with 1,653 (903 roots +750 shoots) compared to inefficient cultivar PBW703 with 753 (96 roots +657 shoots). Gene ontology enrichment and pathway analysis of these DEGs suggested that the two cultivars differed in terms of adaptive mechanism. Gene enrichment analysis revealed that among the upregulated and downregulated genes the overrepresented and underrepresented gene categories belonged to biological processes like DNA binding, response to abiotic stimulus, photosynthesis, carbon fixation, carbohydrate metabolic process, nitrogen compound metabolic process, nitrate transport, and translation in cultivar PBW677, while the enriched biological processes were nucleosome assembly, chromatin remodeling, DNA packaging, lipid transport, sulfur compound metabolic process, protein modifications, and protein folding and refolding in N inefficient cultivar PBW703. We found several transcription factors (MYB, WRKY, RING finger protein, zinc finger protein, transporters, NRT1, amino acid transporters, sugar), protein kinases, and genes involved in N absorption, transportation, and assimilation to be highly expressed in high NUE cultivar PBW677. In our study, we report 13 potential candidate genes which showed alternate gene expression in the two contrasting cultivars under study. These genes could serve as potential targets for future breeding programs.
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