Transposable elements in Coffea (Gentianales: Rubiacea) transcripts and their role in the origin of protein diversity in flowering plants.
Identifieur interne : 003966 ( Main/Curation ); précédent : 003965; suivant : 003967Transposable elements in Coffea (Gentianales: Rubiacea) transcripts and their role in the origin of protein diversity in flowering plants.
Auteurs : Fabrício Ramon Lopes [Brésil] ; Marcelo Falsarella Carazzolle ; Gonçalo Amarante Guimarães Pereira ; Carlos Augusto Colombo ; Claudia Marcia Aparecida CararetoSource :
- Molecular genetics and genomics : MGG [ 1617-4615 ] ; 2008.
Descripteurs français
- KwdFr :
- ADN des plantes (génétique), Analyse de profil d'expression de gènes (MeSH), Arabidopsis (génétique), Coffea (classification), Coffea (génétique), Données de séquences moléculaires (MeSH), Exons (MeSH), Génome végétal (MeSH), Magnoliopsida (classification), Magnoliopsida (génétique), Phosphotransferases (génétique), Phylogenèse (MeSH), Protéines végétales (génétique), Protéome (MeSH), Similitude de séquences d'acides aminés (MeSH), Similitude de séquences d'acides nucléiques (MeSH), Séquence d'acides aminés (MeSH), Séquence nucléotidique (MeSH), Transcription génétique (MeSH), Variation génétique (MeSH), Éléments transposables d'ADN (génétique), Étiquettes de séquences exprimées (MeSH), Évolution moléculaire (MeSH).
- MESH :
- génétique : ADN des plantes, Arabidopsis, Coffea, Magnoliopsida, Phosphotransferases, Protéines végétales, Éléments transposables d'ADN.
- Analyse de profil d'expression de gènes, Données de séquences moléculaires, Exons, Génome végétal, Phylogenèse, Protéome, Similitude de séquences d'acides aminés, Similitude de séquences d'acides nucléiques, Séquence d'acides aminés, Séquence nucléotidique, Transcription génétique, Variation génétique, Étiquettes de séquences exprimées, Évolution moléculaire.
English descriptors
- KwdEn :
- Amino Acid Sequence (MeSH), Arabidopsis (genetics), Base Sequence (MeSH), Coffea (classification), Coffea (genetics), DNA Transposable Elements (genetics), DNA, Plant (genetics), Evolution, Molecular (MeSH), Exons (MeSH), Expressed Sequence Tags (MeSH), Gene Expression Profiling (MeSH), Genetic Variation (MeSH), Genome, Plant (MeSH), Magnoliopsida (classification), Magnoliopsida (genetics), Molecular Sequence Data (MeSH), Phosphotransferases (genetics), Phylogeny (MeSH), Plant Proteins (genetics), Proteome (MeSH), Sequence Homology, Amino Acid (MeSH), Sequence Homology, Nucleic Acid (MeSH), Transcription, Genetic (MeSH).
- MESH :
- chemical , genetics : DNA Transposable Elements, DNA, Plant, Phosphotransferases, Plant Proteins.
- classification : Coffea, Magnoliopsida.
- genetics : Arabidopsis, Coffea, Magnoliopsida.
- Amino Acid Sequence, Base Sequence, Evolution, Molecular, Exons, Expressed Sequence Tags, Gene Expression Profiling, Genetic Variation, Genome, Plant, Molecular Sequence Data, Phylogeny, Proteome, Sequence Homology, Amino Acid, Sequence Homology, Nucleic Acid, Transcription, Genetic.
Abstract
Transposable elements are major components of plant genomes and they influence their evolution, acting as recombination hot spots, acquiring specific cell functions or becoming part of protein-coding regions. The latter is the subject of the present analysis. This study is a report on the annotation of transposable elements (TEs) in expressed sequences of Coffea arabica, Coffea canephora and Coffea racemosa, showing the occurrence of 383 ESTs and 142 unigenes with TE fragments in these three Coffea species. Based on selected unigenes, it was possible to suggest 26 putative proteins with TE-cassette insertions, demonstrating a likely contribution to protein variability. The genes for two of those proteins, the fertility restorer (FR) and the pyrophosphate-dependent phosphofructokinase (PPi-PFKs) genes, were selected for evaluating the impact of TE-cassettes on host gene evolution of other plant genomes (Arabidopsis thaliana, Oryza sativa and Populus trichocarpa). This survey allowed identifying a FR gene in O. sativa harboring multiple insertions of LTR retrotransposons that originated new exons, which however does not necessarily mean a case of molecular domestication. A possible transduction event of a fragment of the PPi-PFK beta-subunit gene mediated by Helitron ATREPX1 in Arabidopsis thaliana was also highlighted.
DOI: 10.1007/s00438-008-0319-4
PubMed: 18231813
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<term>Coffea (genetics)</term>
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<term>DNA, Plant (genetics)</term>
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<term>Genetic Variation (MeSH)</term>
<term>Genome, Plant (MeSH)</term>
<term>Magnoliopsida (classification)</term>
<term>Magnoliopsida (genetics)</term>
<term>Molecular Sequence Data (MeSH)</term>
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<term>Plant Proteins (genetics)</term>
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<term>Coffea (génétique)</term>
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<term>Séquence nucléotidique (MeSH)</term>
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<term>Variation génétique (MeSH)</term>
<term>Éléments transposables d'ADN (génétique)</term>
<term>Étiquettes de séquences exprimées (MeSH)</term>
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<term>Base Sequence</term>
<term>Evolution, Molecular</term>
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<term>Expressed Sequence Tags</term>
<term>Gene Expression Profiling</term>
<term>Genetic Variation</term>
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<term>Molecular Sequence Data</term>
<term>Phylogeny</term>
<term>Proteome</term>
<term>Sequence Homology, Amino Acid</term>
<term>Sequence Homology, Nucleic Acid</term>
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<front><div type="abstract" xml:lang="en">Transposable elements are major components of plant genomes and they influence their evolution, acting as recombination hot spots, acquiring specific cell functions or becoming part of protein-coding regions. The latter is the subject of the present analysis. This study is a report on the annotation of transposable elements (TEs) in expressed sequences of Coffea arabica, Coffea canephora and Coffea racemosa, showing the occurrence of 383 ESTs and 142 unigenes with TE fragments in these three Coffea species. Based on selected unigenes, it was possible to suggest 26 putative proteins with TE-cassette insertions, demonstrating a likely contribution to protein variability. The genes for two of those proteins, the fertility restorer (FR) and the pyrophosphate-dependent phosphofructokinase (PPi-PFKs) genes, were selected for evaluating the impact of TE-cassettes on host gene evolution of other plant genomes (Arabidopsis thaliana, Oryza sativa and Populus trichocarpa). This survey allowed identifying a FR gene in O. sativa harboring multiple insertions of LTR retrotransposons that originated new exons, which however does not necessarily mean a case of molecular domestication. A possible transduction event of a fragment of the PPi-PFK beta-subunit gene mediated by Helitron ATREPX1 in Arabidopsis thaliana was also highlighted.</div>
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<Abstract><AbstractText>Transposable elements are major components of plant genomes and they influence their evolution, acting as recombination hot spots, acquiring specific cell functions or becoming part of protein-coding regions. The latter is the subject of the present analysis. This study is a report on the annotation of transposable elements (TEs) in expressed sequences of Coffea arabica, Coffea canephora and Coffea racemosa, showing the occurrence of 383 ESTs and 142 unigenes with TE fragments in these three Coffea species. Based on selected unigenes, it was possible to suggest 26 putative proteins with TE-cassette insertions, demonstrating a likely contribution to protein variability. The genes for two of those proteins, the fertility restorer (FR) and the pyrophosphate-dependent phosphofructokinase (PPi-PFKs) genes, were selected for evaluating the impact of TE-cassettes on host gene evolution of other plant genomes (Arabidopsis thaliana, Oryza sativa and Populus trichocarpa). This survey allowed identifying a FR gene in O. sativa harboring multiple insertions of LTR retrotransposons that originated new exons, which however does not necessarily mean a case of molecular domestication. A possible transduction event of a fragment of the PPi-PFK beta-subunit gene mediated by Helitron ATREPX1 in Arabidopsis thaliana was also highlighted.</AbstractText>
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