Shining in the dark: the big world of small peptides in plants

Feng, Yan-Zhao; Zhu, Qingfeng; Jiao, Xiaoguo; Chen, Pei; Yu, Yang

doi:10.1007/s42994-023-00100-0

Cited by 15 publications

(10 citation statements)

References 191 publications

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“…Specifically, transcript cleavage is facilitated by exoribonuclease activity, while translation inhibition happens through targeting the 5 untranslated region to prevent ribosome recruitment [40]. Notably, a type of peptide known as miRNA-encoded peptides (miPEPs) is translated from short open reading frames (sORFs) in the 5 leader sequence of pri-miRNAs [41,42]. These peptides promote the transcription of their corresponding pri-miRNAs, thus regulating many biological processes [43].…”

Section: Micrornas (Mirnas)mentioning

confidence: 99%

The Emerging Role of Non-Coding RNAs (ncRNAs) in Plant Growth, Development, and Stress Response Signaling

Yadav,

Mathan,

Dubey

et al. 2024

ncRNA

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Plant species utilize a variety of regulatory mechanisms to ensure sustainable productivity. Within this intricate framework, numerous non-coding RNAs (ncRNAs) play a crucial regulatory role in plant biology, surpassing the essential functions of RNA molecules as messengers, ribosomal, and transfer RNAs. ncRNAs represent an emerging class of regulators, operating directly in the form of small interfering RNAs (siRNAs), microRNAs (miRNAs), long noncoding RNAs (lncRNAs), and circular RNAs (circRNAs). These ncRNAs exert control at various levels, including transcription, post-transcription, translation, and epigenetic. Furthermore, they interact with each other, contributing to a variety of biological processes and mechanisms associated with stress resilience. This review primarily concentrates on the recent advancements in plant ncRNAs, delineating their functions in growth and development across various organs such as root, leaf, seed/endosperm, and seed nutrient development. Additionally, this review broadens its scope by examining the role of ncRNAs in response to environmental stresses such as drought, salt, flood, heat, and cold in plants. This compilation offers updated information and insights to guide the characterization of the potential functions of ncRNAs in plant growth, development, and stress resilience in future research.

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Section: Micrornas (Mirnas)mentioning

confidence: 99%

The Emerging Role of Non-Coding RNAs (ncRNAs) in Plant Growth, Development, and Stress Response Signaling

Yadav,

Mathan,

Dubey

et al. 2024

ncRNA

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“…Major bottlenecks regarding the synthesis of peptides, even in smaller concentration, is quite expensive and difficult to adopt for agricultural produce (Feng et al, 2023). Majority of small signaling peptides undergo C-terminal processing occurs to produce mature signals (Mastubayashinet al, 2011, Mastubayashinet al, 2014).…”

Section: Introductionmentioning

confidence: 99%

miR858a-encoded peptide, miPEP858a, interacts with miR858a promoter and requires C-terminus for the associated functions

Gautam,

Sharma,

Anyatama

et al. 2024

Preprint

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MicroRNAs (miRNAs) play a crucial role in regulating gene expression as processed products of primary miRNAs (pri-miRNAs). Recent studies suggest that certain pri-miRNAs encode miRNA-encoded Peptides (miPEPs), influencing miRNA function. Despite this emerging insight, molecular mechanisms and the specific domain or essential amino acid residues required for the functionality of these miPEPs have yet to be explored. Here, we report that the pri-miR858a-encoded peptide, miPEP858a, interacts with the promoter region of the MIR858 gene and its C-terminal region consisting of 14 amino acid residues is indispensable for its functionality. DNA-protein interaction through Yeast-one-hybrid and ChIP-qPCR analysis revealed that miPEP858 interacts with specific region in the MIR858 promoter. An exogenous application of a truncated peptide, the C-terminal region, resulted in enhanced expression and related phenotypic effects, similar to complete miPEP858. Furthermore, the C-terminal region of miPEP858a complemented mutant plants lacking miPEP858, highlighting their regulatory role in miR858a expression and associated target genes, impacting flavonoid biosynthesis and plant development. These findings suggest that full-length miPEP858a may not be essential for its functionality. Identifying functional domains of other peptides offers promise, potentially reducing synthesis costs for application in crop plants and avoiding laborious biotechnological approaches to enhance agronomic traits.

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“…The mechanisms by which plant lncRNAs function are numerous, and some of them are better understood in animals [ 9 , 10 , 11 , 12 , 13 , 14 , 15 , 16 ]. Recent studies have shown that the short open reading frames (sORFs) of some plant lncRNAs encode functional small peptides (micropeptides) with a size of around 5 to 100 amino acids [ 10 , 12 , 17 , 18 , 19 , 20 , 21 , 22 ]. Importantly, these lncRNAs also include precursors of many microRNAs, which code for peptides called miPEPs (peptides encoded by primary microRNAs), and some trans-acting siRNAs [ 19 , 23 , 24 , 25 , 26 , 27 , 28 , 29 , 30 , 31 , 32 , 33 , 34 ].…”

Section: Introductionmentioning

confidence: 99%

“…Recent studies have shown that the short open reading frames (sORFs) of some plant lncRNAs encode functional small peptides (micropeptides) with a size of around 5 to 100 amino acids [ 10 , 12 , 17 , 18 , 19 , 20 , 21 , 22 ]. Importantly, these lncRNAs also include precursors of many microRNAs, which code for peptides called miPEPs (peptides encoded by primary microRNAs), and some trans-acting siRNAs [ 19 , 23 , 24 , 25 , 26 , 27 , 28 , 29 , 30 , 31 , 32 , 33 , 34 ]. Currently, bioinformatic tools as well as experimental methods such as mass spectrometry, ribosome mapping and in vitro translation are used to reveal the potential translational products of lncRNAs [ 10 , 16 , 17 , 19 , 21 , 24 , 32 , 35 , 36 , 37 , 38 , 39 ].…”

Section: Introductionmentioning

confidence: 99%

Biological Activity of Artificial Plant Peptides Corresponding to the Translational Products of Small ORFs in Primary miRNAs and Other Long “Non-Coding” RNAs

Erokhina,

Ryazantsev,

Zavriev

et al. 2024

Plants

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Generally, lncPEPs (peptides encoded by long non-coding RNAs) have been identified in many plant species of several families and in some animal species. Importantly, molecular mechanisms of the miPEPs (peptides encoded by primary microRNAs, pri-miRNAs) are often poorly understood in different flowering plants. Requirement for the additional studies in these directions is highlighted by alternative findings concerning positive regulation of pri-miRNA/miRNA expression by synthetic miPEPs in plants. Further extensive studies are also needed to understand the full set of their roles in eukaryotic organisms. This review mainly aims to consider the available data on the regulatory functions of the synthetic miPEPs. Studies of chemically synthesized miPEPs and analyzing the fine molecular mechanisms of their functional activities are reviewed. Brief description of the studies to identify lncORFs (open reading frames of long non-coding RNAs) and the encoded protein products is also provided.

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Shining in the dark: the big world of small peptides in plants

Cited by 15 publications

References 191 publications

The Emerging Role of Non-Coding RNAs (ncRNAs) in Plant Growth, Development, and Stress Response Signaling

The Emerging Role of Non-Coding RNAs (ncRNAs) in Plant Growth, Development, and Stress Response Signaling

miR858a-encoded peptide, miPEP858a, interacts with miR858a promoter and requires C-terminus for the associated functions

Biological Activity of Artificial Plant Peptides Corresponding to the Translational Products of Small ORFs in Primary miRNAs and Other Long “Non-Coding” RNAs

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