Dynamic transcriptome analysis indicates extensive and discrepant transcriptomic reprogramming of two rapeseed genotypes with contrasting NUE in response to nitrogen deficiency

Yang, Ningmei; Li, Shuang; Wang, Sheliang; Quan, Li; Xu, Fangsen; Shi, Lei; Wang, Chuang; Ye, Xiangsheng; Cai, Hongmei; Ding, Guangda

doi:10.1007/s11104-020-04720-z

Cited by 7 publications

(10 citation statements)

References 56 publications

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“…The precise functions of class II TPS genes in C metabolism and crop yield remain largely unknown. Our previous work shows that the transcript of BnaC02.TPS8 was significantly reduced by nitrogen (N) deficiency in whole‐transcriptome sequencing of B. napus (Yang et al., 2020). To investigate the function of BnaC02.TPS8 in B. napus , the amino acid sequences of Arabidopsis AtTPS8 were used for BLAST analysis in the BnTIR database (http://yanglab.hzau.edu.cn/BnTIR; Liu et al., 2021).…”

Section: Resultsmentioning

confidence: 99%

Trehalose‐6‐phosphate synthase 8 increases photosynthesis and seed yield in Brassica napus

Yuan,

Zhou,

et al. 2024

The Plant Journal

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SUMMARYTrehalose‐6‐phosphate (T6P) functions as a vital proxy for assessing carbohydrate status in plants. While class II T6P synthases (TPS) do not exhibit TPS activity, they are believed to play pivotal regulatory roles in trehalose metabolism. However, their precise functions in carbon metabolism and crop yield have remained largely unknown. Here, BnaC02.TPS8, a class II TPS gene, is shown to be specifically expressed in mature leaves and the developing pod walls of Brassica napus. Overexpression of BnaC02.TPS8 increased photosynthesis and the accumulation of sugars, starch, and biomass compared to wild type. Metabolomic analysis of BnaC02.TPS8 overexpressing lines and CRISPR/Cas9 mutants indicated that BnaC02.TPS8 enhanced the partitioning of photoassimilate into starch and sucrose, as opposed to glycolytic intermediates and organic acids, which might be associated with TPS activity. Furthermore, the overexpression of BnaC02.TPS8 not only increased seed yield but also enhanced seed oil accumulation and improved the oil fatty acid composition in B. napus under both high nitrogen (N) and low N conditions in the field. These results highlight the role of class II TPS in impacting photosynthesis and seed yield of B. napus, and BnaC02.TPS8 emerges as a promising target for improving B. napus seed yield.

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Section: Resultsmentioning

confidence: 99%

Trehalose‐6‐phosphate synthase 8 increases photosynthesis and seed yield in Brassica napus

Yuan,

Zhou,

et al. 2024

The Plant Journal

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“…Since the adaptive response of plants to N deprivation can be reflected by N starvation-responsive genes and metabolites, it is meaningful to conduct a comprehensive analysis of transcriptome and metabolome to clarify the metabolic and molecular mechanisms of plant adaptions to N starvation. Some researchers investigated N starvation-responsive genes in potato [ 15 ], wheat [ 16 ], Panicum miliaceum [ 17 ], rice [ 18 ], maize [ 19 ], and rapeseed [ 20 ]; and N starvation-responsive metabolites in Isatis indigotica [ 21 ], soybean [ 22 ], tea [ 9 ], and rapeseed [ 23 ]. Few researchers used a comprehensive analysis of transcriptome and metabolome to examine N starvation-responsive genes and metabolites in rice [ 24 ], soybean [ 25 ], poplar [ 26 ], barely [ 27 ], maize [ 14 ], apple [ 28 ], and Arabidopsis thaliana [ 29 ].…”

Section: Introductionmentioning

confidence: 99%

An Integrated Analysis of Metabolome, Transcriptome, and Physiology Revealed the Molecular and Physiological Response of Citrus sinensis Roots to Prolonged Nitrogen Deficiency

Lai

Peng

Rao

et al. 2023

Plants

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Citrus sinensis seedlings were supplied with a nutrient solution containing 15 (control) or 0 (nitrogen (N) deficiency) mM N for 10 weeks. Extensive metabolic and gene reprogramming occurred in 0 mM N-treated roots (RN0) to cope with N deficiency, including: (a) enhancing the ability to keep phosphate homeostasis by elevating the abundances of metabolites containing phosphorus and the compartmentation of phosphate in plastids, and/or downregulating low-phosphate-inducible genes; (b) improving the ability to keep N homeostasis by lowering the levels of metabolites containing N but not phosphorus, upregulating N compound degradation, the root/shoot ratio, and the expression of genes involved in N uptake, and resulting in transitions from N-rich alkaloids to carbon (C)-rich phenylpropanoids and phenolic compounds (excluding indole alkaloids) and from N-rich amino acids to C-rich carbohydrates and organic acids; (c) upregulating the ability to maintain energy homeostasis by increasing energy production (tricarboxylic acid cycle, glycolysis/gluconeogenesis, oxidative phosphorylation, and ATP biosynthetic process) and decreasing energy utilization for amino acid and protein biosynthesis and new root building; (d) elevating the transmembrane transport of metabolites, thus enhancing the remobilization and recycling of useful compounds; and (e) activating protein processing in the endoplasmic reticulum. RN0 had a higher ability to detoxify reactive oxygen species and aldehydes, thus protecting RN0 against oxidative injury and delaying root senescence.

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“…These processes can be controlled by numerous genes. Therefore, a better understanding of the underlying mechanism behind nitrogen uptake, transport, and assimilation would be helpful in providing a theoretical basis for improving NUE [22].…”

Section: Introductionmentioning

confidence: 99%

“…It was reported that foxtail millet can perform root thickening to improve N uptake under low-nitrogen conditions [27]. Transcription profiling using RNA-Seq is a successful and widely used approach to explore molecular aspects of nutrient stress [22]. Several studies have reported that this method is widely used for investigating the mechanism of low N stress tolerance on wheat [11], rice [28], rapeseed [22], and barley [29].…”

Section: Introductionmentioning

confidence: 99%

“…Transcription profiling using RNA-Seq is a successful and widely used approach to explore molecular aspects of nutrient stress [22]. Several studies have reported that this method is widely used for investigating the mechanism of low N stress tolerance on wheat [11], rice [28], rapeseed [22], and barley [29]. A previous study has explored potential regulatory factors and functional key genes in a single foxtail millet variety in response to low nitrogen [30].…”

Section: Introductionmentioning

confidence: 99%

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Physiological and Transcriptomic Analysis Provides Insights into Low Nitrogen Stress in Foxtail Millet (Setaria italica L.)

Chen,

Qin,

et al. 2023

IJMS

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Foxtail millet (Setaria italica (L.) P. Beauv) is an important food and forage crop that is well adapted to nutrient-poor soils. However, our understanding of how different LN-tolerant foxtail millet varieties adapt to long-term low nitrogen (LN) stress at the physiological and molecular levels remains limited. In this study, two foxtail millet varieties with contrasting LN tolerance properties were investigated through analyses of physiological parameters and transcriptomics. The physiological results indicate that JG20 (high tolerance to LN) exhibited superior biomass accumulation both in its shoots and roots, and higher nitrogen content, soluble sugar concentration, soluble protein concentration, zeatin concentration in shoot, and lower soluble sugar and soluble protein concentration in its roots compared to JG22 (sensitive to LN) under LN, this indicated that the LN-tolerant foxtail millet variety can allocate more functional substance to its shoots to sustain aboveground growth and maintain high root activity by utilizing low soluble sugar and protein under LN conditions. In the transcriptomics analysis, JG20 exhibited a greater number of differentially expressed genes (DEGs) compared to JG22 in both its shoots and roots in response to LN stress. These LN-responsive genes were enriched in glycolysis metabolism, photosynthesis, hormone metabolism, and nitrogen metabolism. Furthermore, in the shoots, the glutamine synthetase gene SiGS5, chlorophyll apoprotein of photosystem II gene SiPsbQ, ATP synthase subunit gene Sib, zeatin synthesis genes SiAHP1, and aldose 1-epimerase gene SiAEP, and, in the roots, the high-affinity nitrate transporter genes SiNRT2.3, SiNRT2.4, glutamate synthase gene SiGOGAT2, fructose-bisphosphate aldolase gene SiFBA5, were important genes involved in the LN tolerance of the foxtail millet variety. Hence, our study implies that the identified genes and metabolic pathways contribute valuable insights into the mechanisms underlying LN tolerance in foxtail millet.

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Dynamic transcriptome analysis indicates extensive and discrepant transcriptomic reprogramming of two rapeseed genotypes with contrasting NUE in response to nitrogen deficiency

Cited by 7 publications

References 56 publications

Trehalose‐6‐phosphate synthase 8 increases photosynthesis and seed yield in Brassica napus

Trehalose‐6‐phosphate synthase 8 increases photosynthesis and seed yield in Brassica napus

An Integrated Analysis of Metabolome, Transcriptome, and Physiology Revealed the Molecular and Physiological Response of Citrus sinensis Roots to Prolonged Nitrogen Deficiency

Physiological and Transcriptomic Analysis Provides Insights into Low Nitrogen Stress in Foxtail Millet (Setaria italica L.)

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