The Dynamic Kaleidoscope of RNA Biology in Plants

Bailey‐Serres, Julia; Zhai, Jixian; Seki, Motoaki

doi:10.1104/pp.19.01558

Cited by 9 publications

(2 citation statements)

References 68 publications

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“…As CPSF30-L contains an YTH domain, whether it also serves as the m 6 A reader to regulate NO 3 − signaling needs further investigation. There are over 100 types of RNA modifications (Roundtree et al, 2017;Bailey-Serres et al, 2020), yet our knowledge about their occurrence and functions are still limited. One thing is certain though: post-transcriptional regulation of gene expression is much more intricate than previously thought.…”

Section: Post-transcriptional Regulation Of Nitratementioning

confidence: 99%

Novel Aspects of Nitrate Regulation in Arabidopsis

Fan

Quan

et al. 2020

Front. Plant Sci.

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Nitrogen (N) is one of the most essential macronutrients for plant growth and development. Nitrate (NO3–), the major form of N that plants uptake from the soil, acts as an important signaling molecule in addition to its nutritional function. Over the past decade, significant progress has been made in identifying new components involved in NO3– regulation and starting to unravel the NO3– regulatory network. Great reviews have been made recently by scientists on the key regulators in NO3– signaling, NO3– effects on plant development, and its crosstalk with phosphorus (P), potassium (K), hormones, and calcium signaling. However, several novel aspects of NO3– regulation have not been previously reviewed in detail. Here, we mainly focused on the recent advances of post-transcriptional regulation and non-coding RNA (ncRNAs) in NO3– signaling, and NO3– regulation on leaf senescence and the circadian clock. It will help us to extend the general picture of NO3– regulation and provide a basis for further exploration of NO3– regulatory network.

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Section: Post-transcriptional Regulation Of Nitratementioning

confidence: 99%

Novel Aspects of Nitrate Regulation in Arabidopsis

Fan

Quan

et al. 2020

Front. Plant Sci.

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“…The RNA recognition motif (RRM) and the K homology (KH) domain are the most prevalent RNA domains in plants. These RBPs regulate the transcriptome via AS, APA, and transcript stability (Bailey-Serres et al, 2020). Thus, it is necessary to investigate the dynamics of these RBPs in response to stress.…”

Section: Introductionmentioning

confidence: 99%

PSDX: A Comprehensive Multi-Omics Association Database of Populus trichocarpa With a Focus on the Secondary Growth in Response to Stresses

et al. 2021

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Populus trichocarpa (P. trichocarpa) is a model tree for the investigation of wood formation. In recent years, researchers have generated a large number of high-throughput sequencing data in P. trichocarpa. However, no comprehensive database that provides multi-omics associations for the investigation of secondary growth in response to diverse stresses has been reported. Therefore, we developed a public repository that presents comprehensive measurements of gene expression and post-transcriptional regulation by integrating 144 RNA-Seq, 33 ChIP-seq, and six single-molecule real-time (SMRT) isoform sequencing (Iso-seq) libraries prepared from tissues subjected to different stresses. All the samples from different studies were analyzed to obtain gene expression, co-expression network, and differentially expressed genes (DEG) using unified parameters, which allowed comparison of results from different studies and treatments. In addition to gene expression, we also identified and deposited pre-processed data about alternative splicing (AS), alternative polyadenylation (APA) and alternative transcription initiation (ATI). The post-transcriptional regulation, differential expression, and co-expression network datasets were integrated into a new P. trichocarpa Stem Differentiating Xylem (PSDX) database, which further highlights gene families of RNA-binding proteins and stress-related genes. The PSDX also provides tools for data query, visualization, a genome browser, and the BLAST option for sequence-based query. Much of the data is also available for bulk download. The availability of PSDX contributes to the research related to the secondary growth in response to stresses in P. trichocarpa, which will provide new insights that can be useful for the improvement of stress tolerance in woody plants.

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Spermidine enhanced the antioxidant capacity of rice seeds during seed aging

Chen

Song

et al. 2020

Plant Growth Regul

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The Dynamic Kaleidoscope of RNA Biology in Plants

Cited by 9 publications

References 68 publications

Novel Aspects of Nitrate Regulation in Arabidopsis

Novel Aspects of Nitrate Regulation in Arabidopsis

PSDX: A Comprehensive Multi-Omics Association Database of Populus trichocarpa With a Focus on the Secondary Growth in Response to Stresses

Spermidine enhanced the antioxidant capacity of rice seeds during seed aging

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