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Description of plant tRNA-derived RNA fragments (tRFs) associated with argonaute and identification of their putative targets.
Biol Direct. 2013 Feb 12; 8:6.BD

Abstract

tRNA-derived RNA fragments (tRFs) are 19mer small RNAs that associate with Argonaute (AGO) proteins in humans. However, in plants, it is unknown if tRFs bind with AGO proteins. Here, using public deep sequencing libraries of immunoprecipitated Argonaute proteins (AGO-IP) and bioinformatics approaches, we identified the Arabidopsis thaliana AGO-IP tRFs. Moreover, using three degradome deep sequencing libraries, we identified four putative tRF targets. The expression pattern of tRFs, based on deep sequencing data, was also analyzed under abiotic and biotic stresses. The results obtained here represent a useful starting point for future studies on tRFs in plants.

Links

Publisher Full Text
ncbi.nlm.nih.gov
biologydirect.biomedcentral.com
PMC Free PDF

Authors+Show Affiliations

Loss-Morais G
Universidade Federal do Rio Grande do Sul, Centro de Biotecnologia, Predio 43431, Sala 213, POBox 15005, Porto Alegre, RS, Brazil.
Waterhouse PM
No affiliation info available
Margis R
No affiliation info available

MeSH

ArabidopsisArgonaute ProteinsComputational BiologyGene LibraryHigh-Throughput Nucleotide SequencingImmunoprecipitationMicroRNAsPseudomonas syringaeRNA, Transfer

Pub Type(s)

Journal Article
Research Support, Non-U.S. Gov't

Language

eng

PubMed ID

23402430

Citation

Loss-Morais, Guilherme, et al. "Description of Plant tRNA-derived RNA Fragments (tRFs) Associated With Argonaute and Identification of Their Putative Targets." Biology Direct, vol. 8, 2013, p. 6.
Loss-Morais G, Waterhouse PM, Margis R. Description of plant tRNA-derived RNA fragments (tRFs) associated with argonaute and identification of their putative targets. Biol Direct. 2013;8:6.
Loss-Morais, G., Waterhouse, P. M., & Margis, R. (2013). Description of plant tRNA-derived RNA fragments (tRFs) associated with argonaute and identification of their putative targets. Biology Direct, 8, 6. https://doi.org/10.1186/1745-6150-8-6
Loss-Morais G, Waterhouse PM, Margis R. Description of Plant tRNA-derived RNA Fragments (tRFs) Associated With Argonaute and Identification of Their Putative Targets. Biol Direct. 2013 Feb 12;8:6. PubMed PMID: 23402430.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Description of plant tRNA-derived RNA fragments (tRFs) associated with argonaute and identification of their putative targets. AU - Loss-Morais,Guilherme, AU - Waterhouse,Peter M, AU - Margis,Rogerio, Y1 - 2013/02/12/ PY - 2012/10/25/received PY - 2013/02/07/accepted PY - 2013/2/14/entrez PY - 2013/2/14/pubmed PY - 2013/7/17/medline SP - 6 EP - 6 JF - Biology direct JO - Biol Direct VL - 8 N2 - tRNA-derived RNA fragments (tRFs) are 19mer small RNAs that associate with Argonaute (AGO) proteins in humans. However, in plants, it is unknown if tRFs bind with AGO proteins. Here, using public deep sequencing libraries of immunoprecipitated Argonaute proteins (AGO-IP) and bioinformatics approaches, we identified the Arabidopsis thaliana AGO-IP tRFs. Moreover, using three degradome deep sequencing libraries, we identified four putative tRF targets. The expression pattern of tRFs, based on deep sequencing data, was also analyzed under abiotic and biotic stresses. The results obtained here represent a useful starting point for future studies on tRFs in plants. SN - 1745-6150 UR - https://www.unboundmedicine.com/medline/citation/23402430/Description_of_plant_tRNA_derived_RNA_fragments__tRFs__associated_with_argonaute_and_identification_of_their_putative_targets_ L2 - https://biologydirect.biomedcentral.com/articles/10.1186/1745-6150-8-6 DB - PRIME DP - Unbound Medicine ER -