TAS3 miR390-dependent loci in non-vascular land plants: Towards a comprehensive reconstruction of the gene evolutionary history

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1 Belozersky Institute of Physico-Chemical Biology, Moscow State University, Moscow, Russia
2 Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Science, Moscow, Russia
3 Tsitsin Main Botanical Garden, Russian Academy of Science, Moscow, Russia
4 Institute of Molecular Medicine, Sechenov First Moscow State Medical University, Moscow, Russia
DOI
10.7287/peerj.preprints.26545v1
Published
Accepted
Subject Areas
Bioinformatics, Genomics, Molecular Biology, Plant Science
Keywords
silencing, trans-acting RNA, small interfering RNA, ARF genes, micro RNA, charophyte algae, bryophytes
Copyright
© 2018 Morozov et al.
Licence
This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, reproduction and adaptation in any medium and for any purpose provided that it is properly attributed. For attribution, the original author(s), title, publication source (PeerJ Preprints) and either DOI or URL of the article must be cited.
Cite this article
Morozov SY, Milyutina IA, Erokhina TN, Ozerova LV, Troitsky AV, Solovyev AG. 2018. TAS3 miR390-dependent loci in non-vascular land plants: Towards a comprehensive reconstruction of the gene evolutionary history. PeerJ Preprints 6:e26545v1

Abstract

Trans-acting small interfering RNAs (ta-siRNAs) are transcribed from protein non-coding genomic loci and belong to a plant-specific class of endogenous small RNAs. These siRNAs have been found to regulate gene expression in most taxa including seed plants, gymnosperms, ferns and mosses. In this study, bioinformatic and experimental PCR-based approaches were used as tools to analyze TAS3 and TAS6 loci in transcriptomes and genomic DNAs from representatives of evolutionary distant Bryophyta, Marchantiophyta and Anthocerotophyta. We revealed previously undiscovered TAS3 loci in classes Sphagnopsida and Anthocerotopsida, as well as TAS6 loci in Bryophyta classes Tetraphidiopsida, Polytrichopsida, Andreaeopsida and Takakiopsida. These data further unveil the evolutionary pathway of the miR390-dependent TAS3 loci in land plants. We also identified SGS3-coding sequences in charophytes and hypothesized that the appearance of TAS3-related sequences could take place at a very early step in evolutionary transition from charophyte algae to an earliest common ancestor of land plants.

Author Comment

This is a submission to PeerJ for review.

Supplemental Information

Nucleotide sequences of TAS3 loci in mosses of Sphagnum and Takakia genera

DOI: 10.7287/peerj.preprints.26545v1/supp-1

Nucleotide sequences and encoded amino acid sequences of moss mRNAs potentially recognized by the putative ta-siRNA preceding in the same phase tasiAP2 site and 21 bp site in some moss TAS3 loci

DOI: 10.7287/peerj.preprints.26545v1/supp-2

Nucleotide sequences of TAS3 loci in plants from Anthocerotophyta and Marchantiophyta

DOI: 10.7287/peerj.preprints.26545v1/supp-3

RNA transcripts of the selected Bryophyta TAS6/TAS3 loci found in 1KP database

DOI: 10.7287/peerj.preprints.26545v1/supp-4

Conserved portions of SGS3 amino acid sequences used for constructing of phylogenetic tree

DOI: 10.7287/peerj.preprints.26545v1/supp-5

SGS3 amino acid and nucleotide sequences in charophytes

DOI: 10.7287/peerj.preprints.26545v1/supp-6

Sequences reported in this paper

DOI: 10.7287/peerj.preprints.26545v1/supp-7