Phylogenetic analysis of the grape family (Vitaceae) based on three chloroplast markers

Abstract

Seventy-nine species representing 12 genera of Vitaceae were sequenced for the trnL-F spacer, 37 of which were subsequently sequenced for the atpB-rbcL spacer and the rps16 intron. Phylogenetic analysis of the combined data provided a fairly robust phylogeny for Vitaceae. Cayratia, Tetrastigma, and Cyphostemma form a clade. Cyphostemma and Tetrastigma are each monophyletic, and Cayratia may be paraphyletic. Ampelopsis is paraphyletic with the African Rhoicissus and the South American Cissus striata nested within it. The pinnately leaved Ampelopsis form a subclade, and the simple and palmately leaved Ameplopsis constitutes another with both subclades containing Asian and American species. Species of Cissus from Asia and Central America are monophyletic, but the South American C. striata does not group with other Cissus species. The Asian endemic Nothocissus and Pterisanthes form a clade with Asian Ampelocissus, and A. javalensis from Central America is sister to this clade. Vitis is monophyletic and forms a larger clade with Ampelocissus, Pterisanthes, and Nothocissus. The eastern Asian and North American disjunct Parthenocissus forms a clade with Yua austro-orientalis, a species of a small newly recognized genus from China to eastern Himalaya. Vitaceae show complex multiple intercontinental relationships within the northern hemisphere and between northern and southern hemispheres.

Molecular Biology of Vitaceae using DNA Markers: A Review

“…species and infra-specific taxa of Vitaceae to reconstruct the relationships within Vitaceae with the nuclear GAI1 sequences. The three major clades formerly recognized by Soejima & Wen (2006) were strongly supported by the GAI1 data. Particularly, the first clade was 100% supported by the GAI1 data compared to a less than 50% bootstrap (BS) value in the three plastid markers, and a close relationship between the core Cissus clade and the 5-merous clade was well supported.…”

Molecular phylogeny and biogeographic diversification of Parthenocissus (Vitaceae) disjunct between Asia and North America

“…Soejima and Wen (2006) included representatives of the genus in their broad analysis of Vitaceae. In the plastid data, three species of Parthenocissus were sampled, and they formed a clade with Yua austro-orientalis in the strict consensus tree with moderate bootstrap support of 76% ( Soejima and Wen, 2006 ).…”

Comparative Analysis of the Complete Chloroplast Genome of the Alloplasmic Sunflower (Helianthus L.) Lines with Various CMS Types

“…The study of the structural and functional organization of the organelle genomes is also relevant from the point of view of modern taxonomy and phylogenetics. Until now, only a few chloroplast markers are used in studies of plant diversity and phylogeny (Soejima and Wen, 2006;Schroeder et al, 2011). With the advent of NextGeneration Sequencing (NGS) technologies, a real opportunity to use complete chloroplast genomes for the taxonomic and evolutionary studies was appeared (McPherson et al, 2013).…”