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(Reference retrieved automatically from Web of Science through information on FAPESP grant and its corresponding number as mentioned in the publication by the authors.)

A Repertory of Rearrangements and the Loss of an Inverted Repeat Region in Passiflora Chloroplast Genomes

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Author(s):
Cauz-Santos, Luiz Augusto [1] ; da Costa, Zirlane Portugal [1] ; Callot, Caroline [2] ; Cauet, Stephane [2] ; Zucchi, Maria Imaculada [3] ; Berges, Helene [2] ; van den Berg, Cassio [1, 4] ; Carneiro Vieira, Maria Lucia [1]
Total Authors: 8
Affiliation:
[1] Univ Sao Paulo, Dept Genet, Escola Super Agr Luiz de Queiroz, Piracicaba, SP - Brazil
[2] INRA, Ctr Natl Ressources Genom Vegetales, Castanet Tolosan - France
[3] Agencia Paulista Tecnol Agronegocios, Polo Reg Desenvolvimento Tecnol Ctr Sul, Piracicaba, SP - Brazil
[4] Univ Estadual Feira de Santana, Dept Ciencias Biol, Feira De Santana, BA - Brazil
Total Affiliations: 4
Document type: Journal article
Source: GENOME BIOLOGY AND EVOLUTION; v. 12, n. 10, p. 1841-1857, OCT 2020.
Web of Science Citations: 0
Abstract

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 Dikea 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 cosiaricensis, 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. (AU)

FAPESP's process: 17/11815-6 - Phylogenetic inferences in Passiflora based on the analysis of chloroplast genomes
Grantee:Maria Lúcia Carneiro Vieira
Support Opportunities: BIOTA-FAPESP Program - Regular Research Grants
FAPESP's process: 19/09210-4 - Chloroplast genomes in the genus Passiflora: cp-DNA sequencing, annotation and comparative studies
Grantee:Luiz Augusto Cauz dos Santos
Support Opportunities: Scholarships abroad - Research Internship - Doctorate (Direct)
FAPESP's process: 17/04216-9 - Chloroplast genomes of Passiflora: structure, evolutionary inferences and gene transfer to the nucleus
Grantee:Luiz Augusto Cauz dos Santos
Support Opportunities: Scholarships in Brazil - Doctorate (Direct)
FAPESP's process: 19/07838-6 - Unraveling the genome of Passiflora organensis: a reference for Passifloraceae and evolutionary studies
Grantee:Zirlane Portugal da Costa
Support Opportunities: Scholarships in Brazil - Post-Doctoral