Identification and characterization of plastid trnF(GAA) pseudogenes in four species of Solanum (Solanaceae) |
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Authors: | Poczai Péter Hyvönen Jaakko |
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Institution: | (1) Department of Plant Biology, University of Helsinki, PO Box 65, 00014 Helsinki, Finland;(2) Department of Plant Science and Biotechnology, Georgikon Faculty, University of Pannonia, Festetics 7, 8360 Keszthely, Hungary |
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Abstract: | Non-functional trnF pseudogenes that rarely occur in embryophytes have been found in Solanaceae. We have sequenced the trnL-F intergenic spacer of four species of Solanum, and found duplicated regions of the original trnF gene. These repeats were 94–260 bp long causing large length variation in the trnL-F intergenic spacer resulting from differences in pseudogene copy number (2–4). The duplicated trnF regions are comprised of several highly structured motifs, which were partial residues, or entire parts of the Anticodon,
T- and D-domains of the original gene, but all lacked the acceptor stems at the 5′- or 3′-end. Pseudogenes included several
transitions and transversions in their sequences compared to the original trnF gene. Among pseudogene copies, T-domains were more frequent and fragmented than D-domain elements. Our results demonstrate
that although chloroplast evolution is uniform such structural duplications in the sequences used for phylogenetic reconstructions
should be treated with great caution. |
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