Cargando…

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

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 Panv...

Descripción completa

Detalles Bibliográficos
Autores principales: Sharma, Narendra, Jaiswal, Dinesh Kumar, Kumari, Supriya, Dash, Goutam Kumar, Panda, Siddharth, Anandan, Annamalai, Raghuram, Nandula
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10093866/
https://www.ncbi.nlm.nih.gov/pubmed/37047052
http://dx.doi.org/10.3390/ijms24076080
_version_ 1785023690704945152
author Sharma, Narendra
Jaiswal, Dinesh Kumar
Kumari, Supriya
Dash, Goutam Kumar
Panda, Siddharth
Anandan, Annamalai
Raghuram, Nandula
author_facet Sharma, Narendra
Jaiswal, Dinesh Kumar
Kumari, Supriya
Dash, Goutam Kumar
Panda, Siddharth
Anandan, Annamalai
Raghuram, Nandula
author_sort Sharma, Narendra
collection PubMed
description 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.
format Online
Article
Text
id pubmed-10093866
institution National Center for Biotechnology Information
language English
publishDate 2023
publisher MDPI
record_format MEDLINE/PubMed
spelling pubmed-100938662023-04-13 Genome-Wide Urea Response in Rice Genotypes Contrasting for Nitrogen Use Efficiency Sharma, Narendra Jaiswal, Dinesh Kumar Kumari, Supriya Dash, Goutam Kumar Panda, Siddharth Anandan, Annamalai Raghuram, Nandula Int J Mol Sci Article 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. MDPI 2023-03-23 /pmc/articles/PMC10093866/ /pubmed/37047052 http://dx.doi.org/10.3390/ijms24076080 Text en © 2023 by the authors. https://creativecommons.org/licenses/by/4.0/Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Sharma, Narendra
Jaiswal, Dinesh Kumar
Kumari, Supriya
Dash, Goutam Kumar
Panda, Siddharth
Anandan, Annamalai
Raghuram, Nandula
Genome-Wide Urea Response in Rice Genotypes Contrasting for Nitrogen Use Efficiency
title Genome-Wide Urea Response in Rice Genotypes Contrasting for Nitrogen Use Efficiency
title_full Genome-Wide Urea Response in Rice Genotypes Contrasting for Nitrogen Use Efficiency
title_fullStr Genome-Wide Urea Response in Rice Genotypes Contrasting for Nitrogen Use Efficiency
title_full_unstemmed Genome-Wide Urea Response in Rice Genotypes Contrasting for Nitrogen Use Efficiency
title_short Genome-Wide Urea Response in Rice Genotypes Contrasting for Nitrogen Use Efficiency
title_sort genome-wide urea response in rice genotypes contrasting for nitrogen use efficiency
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10093866/
https://www.ncbi.nlm.nih.gov/pubmed/37047052
http://dx.doi.org/10.3390/ijms24076080
work_keys_str_mv AT sharmanarendra genomewideurearesponseinricegenotypescontrastingfornitrogenuseefficiency
AT jaiswaldineshkumar genomewideurearesponseinricegenotypescontrastingfornitrogenuseefficiency
AT kumarisupriya genomewideurearesponseinricegenotypescontrastingfornitrogenuseefficiency
AT dashgoutamkumar genomewideurearesponseinricegenotypescontrastingfornitrogenuseefficiency
AT pandasiddharth genomewideurearesponseinricegenotypescontrastingfornitrogenuseefficiency
AT anandanannamalai genomewideurearesponseinricegenotypescontrastingfornitrogenuseefficiency
AT raghuramnandula genomewideurearesponseinricegenotypescontrastingfornitrogenuseefficiency