Roles of Non-Coding RNAs in Response to Nitrogen Availability in Plants

Fukuda, M; Fujiwara, Toru; Nishida, Sho

doi:10.3390/ijms21228508

Cited by 14 publications

(10 citation statements)

References 139 publications

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“…Moreover, many N-responsive transcription factors and functional genes have been identified, and their functions in N-associated metabolism and growth have been revealed (Hackenberg et al, 2013;Dash et al, 2015Dash et al, , 2016. With the rapid development of high-throughput sequencing technology and efficient big data technology, an increasing number of nonprotein coding genes, especially microRNAs (miRNAs) and long noncoding RNAs (lncRNAs), have been identified and shown to participate in the N metabolic response of woody plants (Li et al, 2016;Zuluaga et al, 2017;Lu et al, 2019;Fukuda et al, 2020;Zhou and Wu, 2022a). For example, miR167, miR169, miR393 and miR396 were inhibited by N starvation (Gifford et al, 2008;Pant et al, 2009;Vidal et al, 2010).…”

Section: Introductionmentioning

confidence: 99%

Identification and Functional Prediction of Poplar Root circRNAs Involved in Treatment With Different Forms of Nitrogen

et al. 2022

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Circular RNAs (circRNAs) are a class of noncoding RNA molecules with ring structures formed by covalent bonds and are commonly present in organisms, playing an important regulatory role in plant growth and development. However, the mechanism of circRNAs in poplar root responses to different forms of nitrogen (N) is still unclear. In this study, high-throughput sequencing was used to identify and predict the function of circRNAs in the roots of poplar exposed to three N forms [1 mM NO3− (T1), 0.5 mM NH4NO3 (T2, control) and 1 mM NH4+ (T3)]. A total of 2,193 circRNAs were identified, and 37, 24 and 45 differentially expressed circRNAs (DECs) were screened in the T1-T2, T3-T2 and T1-T3 comparisons, respectively. In addition, 30 DECs could act as miRNA sponges, and several of them could bind miRNA family members that play key roles in response to different N forms, indicating their important functions in response to N and plant growth and development. Furthermore, we generated a competing endogenous RNA (ceRNA) regulatory network in poplar roots treated with three N forms. DECs could participate in responses to N in poplar roots through the ceRNA regulatory network, which mainly included N metabolism, amino acid metabolism and synthesis, response to NO3− or NH4+ and remobilization of N. Together, these results provide new insights into the potential role of circRNAs in poplar root responses to different N forms.

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Section: Introductionmentioning

confidence: 99%

Identification and Functional Prediction of Poplar Root circRNAs Involved in Treatment With Different Forms of Nitrogen

et al. 2022

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“…Notably, N-dependent changes in root architecture are found in many plant species (56) and this has consequences on other root-dependent traits such as water acquisition. Concomitantly, it has been observed that N starvation changes the expression of multiple lncRNAs in arabidopsis (57), poplar (58), barley (59), maize (60) and rice (61). For example, two antisense lncRNAs are significantly induced in rice roots upon N starvation (61) and may regulate the AMMONIUM TRANSPORTER 1 (AMT1) gene that participates in N assimilation (62).…”

Section: Lncrnas-mediating Nutrient Homeostasis and Coordination Of R...mentioning

confidence: 99%

Regulatory long non-coding RNAs in root growth and development

Roulé

Crespi

Blein

2021

Biochemical Society Transactions

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As sessile organisms, plants have evolved sophisticated mechanisms of gene regulation to cope with changing environments. Among them, long non-coding RNAs (lncRNAs) are a class of RNAs regulating gene expression at both transcriptional and post-transcriptional levels. They are highly responsive to environmental cues or developmental processes and are generally involved in fine-tuning plant responses to these signals. Roots, in addition to anchoring the plant to the soil, allow it to absorb the major part of its mineral nutrients and water. Furthermore, roots directly sense environmental constraints such as mineral nutrient availability and abiotic or biotic stresses and dynamically adapt their growth and architecture. Here, we review the role of lncRNAs in the control of root growth and development. In particular, we highlight their action in fine-tuning primary root growth and the development of root lateral organs, such as lateral roots and symbiotic nodules. Lastly, we report their involvement in plant response to stresses and the regulation of nutrient assimilation and homeostasis, two processes leading to the modification of root architecture. LncRNAs could become interesting targets in plant breeding programs to subtly acclimate crops to coming environmental changes.

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“…The nitrate responsive microRNA393 (miR393): AFB3 module can integrate external nitrate availability and the internal N status in plants [ 40 ]. The roles of non-coding RNAs in response to N availability in plants have also been reviewed recently [ 41 ]. In addition, NRT1.1 has been shown to be involved in nitrate-repressed auxin transport [ 42 ].…”

Section: Regulation and Interaction Of C And N Metabolismmentioning

confidence: 99%

Recent Advances in Carbon and Nitrogen Metabolism in C3 Plants

Baslam

Mitsui

Sueyoshi

et al. 2020

IJMS

115

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C and N are the most important essential elements constituting organic compounds in plants. The shoots and roots depend on each other by exchanging C and N through the xylem and phloem transport systems. Complex mechanisms regulate C and N metabolism to optimize plant growth, agricultural crop production, and maintenance of the agroecosystem. In this paper, we cover the recent advances in understanding C and N metabolism, regulation, and transport in plants, as well as their underlying molecular mechanisms. Special emphasis is given to the mechanisms of starch metabolism in plastids and the changes in responses to environmental stress that were previously overlooked, since these changes provide an essential store of C that fuels plant metabolism and growth. We present general insights into the system biology approaches that have expanded our understanding of core biological questions related to C and N metabolism. Finally, this review synthesizes recent advances in our understanding of the trade-off concept that links C and N status to the plant’s response to microorganisms.

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Roles of Non-Coding RNAs in Response to Nitrogen Availability in Plants

Cited by 14 publications

References 139 publications

Identification and Functional Prediction of Poplar Root circRNAs Involved in Treatment With Different Forms of Nitrogen

Identification and Functional Prediction of Poplar Root circRNAs Involved in Treatment With Different Forms of Nitrogen

Regulatory long non-coding RNAs in root growth and development

Recent Advances in Carbon and Nitrogen Metabolism in C3 Plants

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