A Repertory of Rearrangements and the Loss of an Inverted Repeat Region in Passiflora Chloroplast Genomes
| Autor: | Luiz Augusto Cauz-Santos, Maria Imaculada Zucchi, Maria Lucia Carneiro Vieira, Stéphane Cauet, Zirlane Portugal da Costa, Caroline Callot, Hélène Bergès, Cássio van den Berg |
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| Přispěvatelé: | Universidade de São Paulo (USP), Centre National de Ressources Génomiques Végétales (CNRGV), Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Agencia Paulista de Tecnologia dos Agronegocios, Universidade Estadual de Feira de Santana |
| Rok vydání: | 2020 |
| Předmět: |
AcademicSubjects/SCI01140
0106 biological sciences Genome evolution Inverted repeat Passiflora capsularis 01 natural sciences Genome Passiflora 03 medical and health sciences Genus Genetics inverted repeat (IR) loss Passiflora classification Genome Chloroplast Phylogeny Ecology Evolution Behavior and Systematics 030304 developmental biology Gene Rearrangement [SDV.GEN]Life Sciences [q-bio]/Genetics 0303 health sciences biology Inverted Repeat Sequences DNA Chloroplast AcademicSubjects/SCI01130 food and beverages biology.organism_classification Chloroplast chloroplast genome (plastome) rearrangements Chloroplast DNA Evolutionary biology PASSIFLORACEAE Research Article 010606 plant biology & botany |
| Zdroj: | Genome Biology and Evolution Genome Biology and Evolution, Society for Molecular Biology and Evolution, 2020, 12 (10), pp.1841-1857. ⟨10.1093/gbe/evaa155⟩ Repositório Institucional da USP (Biblioteca Digital da Produção Intelectual) Universidade de São Paulo (USP) instacron:USP |
| ISSN: | 1759-6653 |
| Popis: | Chloroplast genomes (cpDNA) in angiosperms are usually highly conserved. Although rearrangements have been observed in some lineages, such as Passiflora, the mechanisms that lead to rearrangements are still poorly elucidated. In the present study, we obtained 20 new chloroplast genomes (18 species from the genus Passiflora, and Dilkea retusa and Mitostemma brevifilis from the family Passifloraceae) in order to investigate cpDNA evolutionary history in this group. Passiflora cpDNAs vary in size considerably, with ∼50 kb between shortest and longest. Large inverted repeat (IR) expansions were identified, and at the extreme opposite, the loss of an IR was detected for the first time in Passiflora, a rare event in angiosperms. The loss of an IR region was detected in Passiflora capsularis and Passiflora costaricensis, a species in which occasional biparental chloroplast inheritance has previously been reported. A repertory of rearrangements such as inversions and gene losses were detected, making Passiflora one of the few groups with complex chloroplast genome evolution. We also performed a phylogenomic study based on all the available cp genomes and our analysis implies that there is a need to reconsider the taxonomic classifications of some species in the group. |
| Databáze: | OpenAIRE |
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