Comparative genome and transcriptome analysis unravels key factors of nitrogen use efficiency in <scp><i>Brassica napus</i></scp> L

Quan, Li; Ding, Guangda; Yang, Ningmei; White, Philip J.; Ye, Xiangsheng; Cai, Hongmei; Lu, Jianwei; Shi, Lei; Xu, Fangsen

doi:10.1111/pce.13689

Cited by 46 publications

(31 citation statements)

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“…5). What's more, recent research has identified the gene BnaA06g04560D (BnNRT2.1d) as a key factor in NUE through genomic and transcriptomic analysis experiments involving two Brassica napus genotypes contrasting in NUE [43]. Additionally, BnNRT2.5 expression profiles vary between seedlings and adult plants, though expression increased with decreases in external N supply (Figs.…”

Section: Discussionmentioning

confidence: 99%

Genome-wide identification and analysis of high-affinity nitrate transporter 2 (NRT2) family genes in rapeseed (Brassica napus L.) and their responses to various stresses

et al. 2020

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Background High-affinity nitrate transporter 2 (NRT2) genes have been implicated in nitrate absorption and remobilization under nitrogen (N) starvation stress in many plant species, yet little is known about this gene family respond to various stresses often occurs in the production of rapeseed (Brassica napus L.). Results This report details identification of 17 NRT2 gene family members in rapeseed, as well as, assessment of their expression profiles using RNA-seq analysis and qRT-PCR assays. In this study, all BnNRT2.1 members, BnNRT2.2a and BnNRT2.4a were specifically expressed in root tissues, while BnNRT2.7a and BnNRT2.7b were mainly expressed in aerial parts, including as the predominantly expressed NRT2 genes detected in seeds. This pattern of shoot NRT expression, along with homology to an Arabidopsis NRT expressed in seeds, strongly suggests that both BnNRT2.7 genes play roles in seed nitrate accumulation. Another rapeseed NRT, BnNRT2.5 s, exhibited intermediate expression, with transcripts detected in both shoot and root tissues. Functionality of BnNRT2s genes was further outlined by testing for adaptive responses in expression to exposure to a series of environmental stresses, including N, phosphorus (P) or potassium (K) deficiency, waterlogging and drought. In these tests, most NRT2 gene members were up-regulated by N starvation and restricted by the other stresses tested herein. In contrast to this overall trend, transcription of BnNRT2.1a was up-regulated under waterlogging and K deficiency stress, and BnNRT2.5 s was up-regulated in roots subjected to waterlogging. Furthermore, the mRNA levels of BnNRT2.7 s were enhanced under both waterlogging stress and P or K deficiency conditions. These results suggest that these three BnNRT2 genes might participate in crosstalk among different stress response pathways. Conclusions The results presented here outline a diverse set of NRT2 genes present in the rapeseed genome that collectively carry out specific functions throughout rapeseed development, while also responding not just to N deficiency, but also to several other stresses. Targeting of individual BnNRT2 members that coordinate rapeseed nitrate uptake and transport in response to cues from multiple stress response pathways could significantly expand the genetic resources available for improving rapeseed resistance to environmental stresses.

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Section: Discussionmentioning

confidence: 99%

Genome-wide identification and analysis of high-affinity nitrate transporter 2 (NRT2) family genes in rapeseed (Brassica napus L.) and their responses to various stresses

et al. 2020

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“…Seeds were soaked in deionized water in the dark for 2 days and subsequently transferred to a net floating on 0.5 mM CaCl 2 solution for 3 days. The seedlings were then grown in a nutrient solution (pH 5.8) according to our previous report [ 31 ]. The solution contained NH 4 NO 3 3.0 mM, NaH 2 PO 4 ·2H 2 O 1.0 mM, MgSO 4 ·7H 2 O 2.0 mM, KCl 2.0 mM, CaCl 2 3.24 mM, H 3 BO 3 46.0 μM, MnCl 2 ·4H 2 O 9.14 μM, Na 2 MoO 4 ·2H 2 O 0.5 μM, ZnSO 4 ·7H 2 O 0.77 μM, CuSO 4 ·5H 2 O 0.32 μM and EDTA-iron (Fe) 25.0 μM.…”

Section: Methodsmentioning

confidence: 99%

“…B. napus needs high amount of N to maintain normal growth and development, and is extremely susceptible to N deficiency. N shortage in the soil may inhibit the growth of B. napus , and its yield production and quality [ 30 , 31 ]. NPF families have been identified in various plant species, such as poplar [ 32 ], wheat [ 33 ], legumes [ 34 ], apple [ 35 ] and sugarcane [ 36 ].…”

Section: Introductionmentioning

confidence: 99%

Genome-Wide Systematic Characterization of the NPF Family Genes and Their Transcriptional Responses to Multiple Nutrient Stresses in Allotetraploid Rapeseed

Zhang

Shi

et al. 2020

IJMS

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NITRATE TRANSPORTER 1 (NRT1)/PEPTIDE TRANSPORTER (PTR) family (NPF) proteins can transport various substrates, and play crucial roles in governing plant nitrogen (N) uptake and distribution. However, little is known about the NPF genes in Brassica napus. Here, a comprehensive genome-wide systematic characterization of the NPF family led to the identification of 193 NPF genes in the whole genome of B. napus. The BnaNPF family exhibited high levels of genetic diversity among sub-families but this was conserved within each subfamily. Whole-genome duplication and segmental duplication played a major role in BnaNPF evolution. The expression analysis indicated that a broad range of expression patterns for individual gene occurred in response to multiple nutrient stresses, including N, phosphorus (P) and potassium (K) deficiencies, as well as ammonium toxicity. Furthermore, 10 core BnaNPF genes in response to N stress were identified. These genes contained 6–13 transmembrane domains, located in plasma membrane, that respond discrepantly to N deficiency in different tissues. Robust cis-regulatory elements were identified within the promoter regions of the core genes. Taken together, our results suggest that BnaNPFs are versatile transporters that might evolve new functions in B. napus. Our findings benefit future research on this gene family.

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“…It has been shown that gene expression of plants changes during N starvation. There are some differences in gene expression between N-efficient and N-inefficient genotypes (Wang et al 2016;Li et al 2020). In the present study, the nitrogen use efficiency of 338 P. deltoides genotypes had been preliminarily evaluated, and the adaptability to N stress had also been analyzed.…”

Section: Morphological and Physiological Differences Among Genotypes With Different Nitrogen Use Efficienciesmentioning

confidence: 99%

Morphological and physiological plasticity response to low nitrogen stress in black cottonwood (Populus deltoides Marsh.)

et al. 2021

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It is important to evaluate nitrogen use efficiency and nitrogen tolerance of trees in order to improve their productivity. In this study, both were evaluated for 338 Populus deltoides genotypes from six provenances. The plants were cultured under normal nitrogen (750 μM NH4NO3) and low nitrogen (5 μM NH4NO3) conditions for 3 months. Growth, chlorophyll content and glutamine synthetase activity of each genotype were measured. Under low nitrogen, heights, ground diameter, leaf area, leaf and root biomass, and chlorophyll contents were significantly lower than those under normal nitrogen level. Correlation analysis showed that nutrient distribution changed under different nitrogen treatments. There was a negative correlation between leaf traits and root biomass under normal nitrogen level, however, the correlation became positive in low nitrogen treatment. Moreover, with the decrease of nitrogen level, the negative correlation between leaf morphology and chlorophyll levels became weakened. The growth of the genotypes under the two treatments was evaluated by combining principal component analysis with a fuzzy mathematical membership function; the results showed that leaf traits accounted for a large proportion of the variation in the evaluation model. According to the results of comprehensive evaluation of plants under the two treatments, the 338 P. deltoides genotypes could be divided into nine categories, with wide genotypic diversity in nitrogen use efficiency and low nitrogen tolerance. As a result, 26 N-efficient genotypes and 24 N-inefficient genotypes were selected. By comparative analysis of their morphological and physiological traits under the two treatments, leaf traits could be significant indicators for nitrogen use efficiency and nitrogen tolerance, which is of considerable significance for breeding poplar varieties with high nitrogen use efficiencies.

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Comparative genome and transcriptome analysis unravels key factors of nitrogen use efficiency in Brassica napus L

Cited by 46 publications

References 74 publications

Genome-wide identification and analysis of high-affinity nitrate transporter 2 (NRT2) family genes in rapeseed (Brassica napus L.) and their responses to various stresses

Genome-wide identification and analysis of high-affinity nitrate transporter 2 (NRT2) family genes in rapeseed (Brassica napus L.) and their responses to various stresses

Genome-Wide Systematic Characterization of the NPF Family Genes and Their Transcriptional Responses to Multiple Nutrient Stresses in Allotetraploid Rapeseed

Morphological and physiological plasticity response to low nitrogen stress in black cottonwood (Populus deltoides Marsh.)

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