Phylogenomic and structural analyses of 18 complete plastomes across nearly all families of early-diverging eudicots, including an angiosperm-wide analysis of IR …

Y Sun, MJ Moore, S Zhang, PS Soltis, DE Soltis… - Molecular Phylogenetics …, 2016 - Elsevier
The grade of early-diverging eudicots includes five major lineages: Ranunculales,
Trochodendrales, Buxales, Proteales and Sabiaceae. To examine the evolution of plastome …

Diversification of Rosaceae since the Late Cretaceous based on plastid phylogenomics

SD Zhang, JJ Jin, SY Chen, MW Chase… - New …, 2017 - Wiley Online Library
Phylogenetic relationships in Rosaceae have long been problematic because of frequent
hybridisation, apomixis and presumed rapid radiation, and their historical diversification has …

Plastid genome sequencing, comparative genomics, and phylogenomics: current status and prospects

L Gao, YJ SU, T Wang - Journal of Systematics and Evolution, 2010 - Wiley Online Library
More than 190 plastid genomes have been completely sequenced during the past two
decades due to advances in DNA sequencing technologies. Based on this unprecedented …

Robust inference of monocot deep phylogeny using an expanded multigene plastid data set

SW Grahan, JM Zgurski… - Aliso: A Journal of …, 2006 - scholarship.claremont.edu
We use multiple photosynthetic, chlororespiratory, and plastid translation apparatus loci and
their associated noncoding regions (ca. 16 kb per taxon, prior to alignment) to make strongly …

[HTML][HTML] Characterizing gene tree conflict in plastome-inferred phylogenies

JF Walker, N Walker-Hale, OM Vargas, DA Larson… - PeerJ, 2019 - peerj.com
Evolutionary relationships among plants have been inferred primarily using chloroplast data.
To date, no study has comprehensively examined the plastome for gene tree conflict. Using …

Phylotranscriptomic analysis of the origin and early diversification of land plants

NJ Wickett, S Mirarab, N Nguyen… - Proceedings of the …, 2014 - National Acad Sciences
Reconstructing the origin and evolution of land plants and their algal relatives is a
fundamental problem in plant phylogenetics, and is essential for understanding how critical …

Whole plastome sequencing reveals deep plastid divergence and cytonuclear discordance between closely related balsam poplars, P opulus balsamifera and P …

DI Huang, CA Hefer, N Kolosova, CJ Douglas… - New …, 2014 - Wiley Online Library
As molecular phylogenetic analyses incorporate evergreater numbers of loci, cases of
cytonuclear discordance–the phenomenon in which nuclear gene trees deviate significantly …

Phylogenetic analysis of 83 plastid genes further resolves the early diversification of eudicots

MJ Moore, PS Soltis, CD Bell… - Proceedings of the …, 2010 - National Acad Sciences
Although Pentapetalae (comprising all core eudicots except Gunnerales) include≈ 70% of
all angiosperms, the origin of and relationships among the major lineages of this clade have …

[HTML][HTML] Highly resolved papilionoid legume phylogeny based on plastid phylogenomics

IS Choi, D Cardoso, LP De Queiroz… - Frontiers in Plant …, 2022 - frontiersin.org
Comprising 501 genera and around 14,000 species, Papilionoideae is not only the largest
subfamily of Fabaceae (Leguminosae; legumes), but also one of the most extraordinarily …

Phylotranscriptomics of Theaceae: generic-level relationships, reticulation and whole-genome duplication

Q Zhang, L Zhao, RA Folk, JL Zhao… - Annals of …, 2022 - academic.oup.com
Abstract Background and Aims Theaceae, with three tribes, nine genera and more than 200
species, are of great economic and ecological importance. Recent phylogenetic analyses …