Might exogenous circular RNAs act as protein-coding transcripts in plants?

Marquez‐Molins, Joan; Navarro, J. A.; Seco, Luis Cervera; Pallás, Vicente; Gómez, Gustavo

doi:10.1080/15476286.2021.1962670

Cited by 13 publications

(10 citation statements)

References 85 publications

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“…Furthermore, direct interaction of eIF1A, an important protein of the translation mechanism, and both CEVd and peach latent mosaic viroid (PLMVd) has been proposed [ 28 , 29 ]. A recent work by Marquez-Molins et al has reignited the possibility that viroid RNAs might be translated [ 30 ].…”

Section: Introductionmentioning

confidence: 99%

Revisiting the Non-Coding Nature of Pospiviroids

Κατσαρού

Adkar-Purushothama

Tassios

et al. 2022

Cells

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Viroids are small, circular, highly structured pathogens that infect a broad range of plants, causing economic losses. Since their discovery in the 1970s, they have been considered as non-coding pathogens. In the last few years, the discovery of other RNA entities, similar in terms of size and structure, that were shown to be translated (e.g., cirRNAs, precursors of miRNA, RNA satellites) as well as studies showing that some viroids are located in ribosomes, have reignited the idea that viroids may be translated. In this study, we used advanced bioinformatic analysis, in vitro experiments and LC-MS/MS to search for small viroid peptides of the PSTVd. Our results suggest that in our experimental conditions, even though the circular form of PSTVd is found in ribosomes, no produced peptides were identified. This indicates that the presence of PSTVd in ribosomes is most probably not related to peptide production but rather to another unknown function that requires further study.

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Section: Introductionmentioning

confidence: 99%

Revisiting the Non-Coding Nature of Pospiviroids

Κατσαρού

Adkar-Purushothama

Tassios

et al. 2022

Cells

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“…One theory that has very recently been proposed is that viroids, which have always been considered noncoding entities, may have the capacity to encode peptides after all [ 132 ]. This has been supported by the discovery of open reading frames (ORFs) within some viroid genomes, and the association of HSVd and eggplant latent viroid (ELVd) with translational machinery in planta [ 132 ]. PSTVd has also been revealed to associate with ribosomes in tomato and Nicotiana benthamiana [ 133 ].…”

Section: Viroid–host Transcriptomics In Context and Avenues For Futur...mentioning

confidence: 99%

Transcriptomics Advancement in the Complex Response of Plants to Viroid Infection

Joubert

Berg

Theron

et al. 2022

IJMS

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Viroids are the smallest plant pathogens, consisting of a single-stranded circular RNA of less than 500 ribonucleotides in length. Despite their noncoding nature, viroids elicit disease symptoms in many economically important plant hosts, and are, thus, a class of pathogens of great interest. How these viroids establish disease within host plants, however, is not yet fully understood. Recent transcriptomic studies have revealed that viroid infection influences the expression of genes in several pathways and processes in plants, including defence responses, phytohormone signalling, cell wall modification, photosynthesis, secondary metabolism, transport, gene expression and protein modification. There is much debate about whether affected pathways signify a plant response to viroid infection, or are associated with the appearance of disease symptoms in these interactions. In this review, we consolidate the findings of viroid–host transcriptome studies to provide an overview of trends observed in the data. When considered together, changes in the gene expression of different hosts upon viroid infection reveal commonalities and differences in diverse interactions. Here, we discuss whether trends in host gene expression can be correlated to plant defence or disease development during viroid infection, and highlight avenues for future research in this field.

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“…None of the encoded peptides had significant similarities with any of the putative peptides. Mutations in the ORFs showed a decrease in the subcellular localization of the encoded peptides ( Marquez-molins et al., 2021 ).…”

Section: Circular Rna Encoded Micropeptides In Plantsmentioning

confidence: 99%

Pervasive translation of small open reading frames in plant long non-coding RNAs

et al. 2022

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Long non-coding RNAs (lncRNAs) are primarily recognized as non-coding transcripts longer than 200 nucleotides with low coding potential and are present in both eukaryotes and prokaryotes. Recent findings reveal that lncRNAs can code for micropeptides in various species. Micropeptides are generated from small open reading frames (smORFs) and have been discovered frequently in short mRNAs and non-coding RNAs, such as lncRNAs, circular RNAs, and pri-miRNAs. The most accepted definition of a smORF is an ORF containing fewer than 100 codons, and ribosome profiling and mass spectrometry are the most prevalent experimental techniques used to identify them. Although the majority of micropeptides perform critical roles throughout plant developmental processes and stress conditions, only a handful of their functions have been verified to date. Even though more research is being directed toward identifying micropeptides, there is still a dearth of information regarding these peptides in plants. This review outlines the lncRNA-encoded peptides, the evolutionary roles of such peptides in plants, and the techniques used to identify them. It also describes the functions of the pri-miRNA and circRNA-encoded peptides that have been identified in plants.

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Might exogenous circular RNAs act as protein-coding transcripts in plants?

Cited by 13 publications

References 85 publications

Revisiting the Non-Coding Nature of Pospiviroids

Revisiting the Non-Coding Nature of Pospiviroids

Transcriptomics Advancement in the Complex Response of Plants to Viroid Infection

Pervasive translation of small open reading frames in plant long non-coding RNAs

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