Shining in the Dark: the Big World of Small Peptides in Plants

Overview

Journal aBIOTECH

Publisher Springer

Specialty Environmental Health

Date 2023 Nov 16

PMID 37970469

Authors

Yan-Zhao Feng

Qing-Feng Zhu

Jiao Xue

Pei Chen

Yang Yu

Affiliations

Soon will be listed here.

Abstract

Small peptides represent a subset of dark matter in plant proteomes. Through differential expression patterns and modes of action, small peptides act as important regulators of plant growth and development. Over the past 20 years, many small peptides have been identified due to technical advances in genome sequencing, bioinformatics, and chemical biology. In this article, we summarize the classification of plant small peptides and experimental strategies used to identify them as well as their potential use in agronomic breeding. We review the biological functions and molecular mechanisms of small peptides in plants, discuss current problems in small peptide research and highlight future research directions in this field. Our review provides crucial insight into small peptides in plants and will contribute to a better understanding of their potential roles in biotechnology and agriculture.

Citing Articles

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References

Nelde A, Flototto L, Jurgens L, Szymik L, Hubert E, Bauer J . Upstream open reading frames regulate translation of cancer-associated transcripts and encode HLA-presented immunogenic tumor antigens. Cell Mol Life Sci. 2022; 79(3):171. PMC: 8894207. DOI: 10.1007/s00018-022-04145-0. View

Combest M, Moroz N, Tanaka K, Rogan C, Anderson J, Thura L . StPIP1, a PAMP-induced peptide in potato, elicits plant defenses and is associated with disease symptom severity in a compatible interaction with Potato virus Y. J Exp Bot. 2021; 72(12):4472-4488. DOI: 10.1093/jxb/erab078. View

Zhong S, Liu M, Wang Z, Huang Q, Hou S, Xu Y . Cysteine-rich peptides promote interspecific genetic isolation in . Science. 2019; 364(6443). PMC: 7184628. DOI: 10.1126/science.aau9564. View

Luo W, Xiao Y, Liang Q, Su Y, Xiao L . Identification of Potential Auxin-Responsive Small Signaling Peptides through a Peptidomics Approach in . Molecules. 2019; 24(17). PMC: 6749465. DOI: 10.3390/molecules24173146. View

Rodiuc N, Barlet X, Hok S, Perfus-Barbeoch L, Allasia V, Engler G . Evolutionarily distant pathogens require the Arabidopsis phytosulfokine signalling pathway to establish disease. Plant Cell Environ. 2015; 39(7):1396-407. DOI: 10.1111/pce.12627. View

Nyiko T, Sonkoly B, Merai Z, Benkovics A, Silhavy D . Plant upstream ORFs can trigger nonsense-mediated mRNA decay in a size-dependent manner. Plant Mol Biol. 2009; 71(4-5):367-78. DOI: 10.1007/s11103-009-9528-4. View

Grillet L, Lan P, Li W, Mokkapati G, Schmidt W . IRON MAN is a ubiquitous family of peptides that control iron transport in plants. Nat Plants. 2018; 4(11):953-963. DOI: 10.1038/s41477-018-0266-y. View

Bi P, Ramirez-Martinez A, Li H, Cannavino J, McAnally J, Shelton J . Control of muscle formation by the fusogenic micropeptide myomixer. Science. 2017; 356(6335):323-327. PMC: 5502127. DOI: 10.1126/science.aam9361. View

Uzair M, Long H, Zafar S, Patil S, Chun Y, Li L . Narrow Leaf21, encoding ribosomal protein RPS3A, controls leaf development in rice. Plant Physiol. 2021; 186(1):497-518. PMC: 8154097. DOI: 10.1093/plphys/kiab075. View

10.

Jin J, Hua L, Zhu Z, Tan L, Zhao X, Zhang W . GAD1 Encodes a Secreted Peptide That Regulates Grain Number, Grain Length, and Awn Development in Rice Domestication. Plant Cell. 2016; 28(10):2453-2463. PMC: 5134979. DOI: 10.1105/tpc.16.00379. View

11.

Zhu C, Liu L, Crowell O, Zhao H, Brutnell T, Jackson D . The Homolog in Selectively Controls Inflorescence Meristem Size. Front Plant Sci. 2021; 12:636749. PMC: 7917188. DOI: 10.3389/fpls.2021.636749. View

12.

Bazzini A, Johnstone T, Christiano R, Mackowiak S, Obermayer B, Fleming E . Identification of small ORFs in vertebrates using ribosome footprinting and evolutionary conservation. EMBO J. 2014; 33(9):981-93. PMC: 4193932. DOI: 10.1002/embj.201488411. View

13.

Hsu P, Benfey P . Small but Mighty: Functional Peptides Encoded by Small ORFs in Plants. Proteomics. 2017; 18(10):e1700038. DOI: 10.1002/pmic.201700038. View

14.

Matsuzaki Y, Ogawa-Ohnishi M, Mori A, Matsubayashi Y . Secreted peptide signals required for maintenance of root stem cell niche in Arabidopsis. Science. 2010; 329(5995):1065-7. DOI: 10.1126/science.1191132. View

15.

Couzigou J, Andre O, Guillotin B, Alexandre M, Combier J . Use of microRNA-encoded peptide miPEP172c to stimulate nodulation in soybean. New Phytol. 2016; 211(2):379-81. DOI: 10.1111/nph.13991. View

16.

Wan K, Lu K, Gao M, Zhao T, He Y, Yang D . Functional analysis of the cotton CLE polypeptide signaling gene family in plant growth and development. Sci Rep. 2021; 11(1):5060. PMC: 7930028. DOI: 10.1038/s41598-021-84312-8. View

17.

Mosher S, Seybold H, Rodriguez P, Stahl M, Davies K, Dayaratne S . The tyrosine-sulfated peptide receptors PSKR1 and PSY1R modify the immunity of Arabidopsis to biotrophic and necrotrophic pathogens in an antagonistic manner. Plant J. 2012; 73(3):469-82. DOI: 10.1111/tpj.12050. View

18.

Chilley P, Casson S, Tarkowski P, Hawkins N, Wang K, Hussey P . The POLARIS peptide of Arabidopsis regulates auxin transport and root growth via effects on ethylene signaling. Plant Cell. 2006; 18(11):3058-72. PMC: 1693943. DOI: 10.1105/tpc.106.040790. View

19.

Nanjo Y, Maruyama K, Yasue H, Yamaguchi-Shinozaki K, Shinozaki K, Komatsu S . Transcriptional responses to flooding stress in roots including hypocotyl of soybean seedlings. Plant Mol Biol. 2011; 77(1-2):129-44. DOI: 10.1007/s11103-011-9799-4. View

20.

Hellens R, Brown C, Chisnall M, Waterhouse P, Macknight R . The Emerging World of Small ORFs. Trends Plant Sci. 2015; 21(4):317-328. DOI: 10.1016/j.tplants.2015.11.005. View