Sequencing of small RNAs of the fern Pleopeltis minima (Polypodiaceae) offers insight into the evolution of the microrna repertoire in land plants
MicroRNAs (miRNAs) are short, single stranded RNA molecules that regulate the stability and translation of messenger RNAs in diverse eukaryotic groups. Several miRNA genes are of ancient origin and have been maintained in the genomes of animal and plant taxa for hundreds of millions of years, playin...
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| Acceso en línea: | http://hdl.handle.net/20.500.12110/paper_19326203_v12_n5_p_Berruezo |
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todo:paper_19326203_v12_n5_p_Berruezo2023-10-03T16:34:48Z Sequencing of small RNAs of the fern Pleopeltis minima (Polypodiaceae) offers insight into the evolution of the microrna repertoire in land plants Berruezo, F. De Souza, F.S.J. Picca, P.I. Nemirovsky, S.I. Tosar, L.M. Rivero, M. Mentaberry, A.N. Zelada, A.M. microRNA plant RNA transcriptome messenger RNA microRNA plant RNA Article Embryophyta euphyllophyte fern functional genomics genetic conservation Lygodium japonicum nonhuman phylogenetic tree Pleopeltis minima Polypodiaceae protein family RNA analysis RNA sequence seed plant South American vascular plant conserved sequence genetics metabolism molecular evolution nucleotide sequence phylogeny procedures sequence analysis Base Sequence Conserved Sequence Evolution, Molecular Ferns MicroRNAs Phylogeny RNA, Messenger RNA, Plant Sequence Analysis, RNA MicroRNAs (miRNAs) are short, single stranded RNA molecules that regulate the stability and translation of messenger RNAs in diverse eukaryotic groups. Several miRNA genes are of ancient origin and have been maintained in the genomes of animal and plant taxa for hundreds of millions of years, playing key roles in development and physiology. In the last decade, genome and small RNA (sRNA) sequencing of several plant species have helped unveil the evolutionary history of land plants. Among these, the fern group (monilophytes) occupies a key phylogenetic position, as it represents the closest extant cousin taxon of seed plants, i.e. gymno-and angiosperms. However, in spite of their evolutionary, economic and ecological importance, no fern genome has been sequenced yet and few genomic resources are available for this group. Here, we sequenced the small RNA fraction of an epiphytic South American fern, Pleopeltis minima (Polypodiaceae), and compared it to plant miRNA databases, allowing for the identification of miRNA families that are shared by all land plants, shared by all vascular plants (tracheophytes) or shared by euphyllophytes (ferns and seed plants) only. Using the recently described transcriptome of another fern, Lygodium japonicum, we also estimated the degree of conservation of fern miRNA targets in relation to other plant groups. Our results pinpoint the origin of several miRNA families in the land plant evolutionary tree with more precision and are a resource for future genomic and functional studies of fern miRNAs. © 2017 Berruezo et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. Fil:Picca, P.I. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales; Argentina. Fil:Nemirovsky, S.I. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales; Argentina. Fil:Mentaberry, A.N. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales; Argentina. Fil:Zelada, A.M. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales; Argentina. JOUR info:eu-repo/semantics/openAccess http://creativecommons.org/licenses/by/2.5/ar http://hdl.handle.net/20.500.12110/paper_19326203_v12_n5_p_Berruezo |
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Universidad de Buenos Aires |
| institution_str |
I-28 |
| repository_str |
R-134 |
| collection |
Biblioteca Digital - Facultad de Ciencias Exactas y Naturales (UBA) |
| topic |
microRNA plant RNA transcriptome messenger RNA microRNA plant RNA Article Embryophyta euphyllophyte fern functional genomics genetic conservation Lygodium japonicum nonhuman phylogenetic tree Pleopeltis minima Polypodiaceae protein family RNA analysis RNA sequence seed plant South American vascular plant conserved sequence genetics metabolism molecular evolution nucleotide sequence phylogeny procedures sequence analysis Base Sequence Conserved Sequence Evolution, Molecular Ferns MicroRNAs Phylogeny RNA, Messenger RNA, Plant Sequence Analysis, RNA |
| spellingShingle |
microRNA plant RNA transcriptome messenger RNA microRNA plant RNA Article Embryophyta euphyllophyte fern functional genomics genetic conservation Lygodium japonicum nonhuman phylogenetic tree Pleopeltis minima Polypodiaceae protein family RNA analysis RNA sequence seed plant South American vascular plant conserved sequence genetics metabolism molecular evolution nucleotide sequence phylogeny procedures sequence analysis Base Sequence Conserved Sequence Evolution, Molecular Ferns MicroRNAs Phylogeny RNA, Messenger RNA, Plant Sequence Analysis, RNA Berruezo, F. De Souza, F.S.J. Picca, P.I. Nemirovsky, S.I. Tosar, L.M. Rivero, M. Mentaberry, A.N. Zelada, A.M. Sequencing of small RNAs of the fern Pleopeltis minima (Polypodiaceae) offers insight into the evolution of the microrna repertoire in land plants |
| topic_facet |
microRNA plant RNA transcriptome messenger RNA microRNA plant RNA Article Embryophyta euphyllophyte fern functional genomics genetic conservation Lygodium japonicum nonhuman phylogenetic tree Pleopeltis minima Polypodiaceae protein family RNA analysis RNA sequence seed plant South American vascular plant conserved sequence genetics metabolism molecular evolution nucleotide sequence phylogeny procedures sequence analysis Base Sequence Conserved Sequence Evolution, Molecular Ferns MicroRNAs Phylogeny RNA, Messenger RNA, Plant Sequence Analysis, RNA |
| description |
MicroRNAs (miRNAs) are short, single stranded RNA molecules that regulate the stability and translation of messenger RNAs in diverse eukaryotic groups. Several miRNA genes are of ancient origin and have been maintained in the genomes of animal and plant taxa for hundreds of millions of years, playing key roles in development and physiology. In the last decade, genome and small RNA (sRNA) sequencing of several plant species have helped unveil the evolutionary history of land plants. Among these, the fern group (monilophytes) occupies a key phylogenetic position, as it represents the closest extant cousin taxon of seed plants, i.e. gymno-and angiosperms. However, in spite of their evolutionary, economic and ecological importance, no fern genome has been sequenced yet and few genomic resources are available for this group. Here, we sequenced the small RNA fraction of an epiphytic South American fern, Pleopeltis minima (Polypodiaceae), and compared it to plant miRNA databases, allowing for the identification of miRNA families that are shared by all land plants, shared by all vascular plants (tracheophytes) or shared by euphyllophytes (ferns and seed plants) only. Using the recently described transcriptome of another fern, Lygodium japonicum, we also estimated the degree of conservation of fern miRNA targets in relation to other plant groups. Our results pinpoint the origin of several miRNA families in the land plant evolutionary tree with more precision and are a resource for future genomic and functional studies of fern miRNAs. © 2017 Berruezo et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. |
| format |
JOUR |
| author |
Berruezo, F. De Souza, F.S.J. Picca, P.I. Nemirovsky, S.I. Tosar, L.M. Rivero, M. Mentaberry, A.N. Zelada, A.M. |
| author_facet |
Berruezo, F. De Souza, F.S.J. Picca, P.I. Nemirovsky, S.I. Tosar, L.M. Rivero, M. Mentaberry, A.N. Zelada, A.M. |
| author_sort |
Berruezo, F. |
| title |
Sequencing of small RNAs of the fern Pleopeltis minima (Polypodiaceae) offers insight into the evolution of the microrna repertoire in land plants |
| title_short |
Sequencing of small RNAs of the fern Pleopeltis minima (Polypodiaceae) offers insight into the evolution of the microrna repertoire in land plants |
| title_full |
Sequencing of small RNAs of the fern Pleopeltis minima (Polypodiaceae) offers insight into the evolution of the microrna repertoire in land plants |
| title_fullStr |
Sequencing of small RNAs of the fern Pleopeltis minima (Polypodiaceae) offers insight into the evolution of the microrna repertoire in land plants |
| title_full_unstemmed |
Sequencing of small RNAs of the fern Pleopeltis minima (Polypodiaceae) offers insight into the evolution of the microrna repertoire in land plants |
| title_sort |
sequencing of small rnas of the fern pleopeltis minima (polypodiaceae) offers insight into the evolution of the microrna repertoire in land plants |
| url |
http://hdl.handle.net/20.500.12110/paper_19326203_v12_n5_p_Berruezo |
| work_keys_str_mv |
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