Phylogenomics and the flowering plant tree of life
The advances accelerated by next‐generation sequencing and long‐read sequencing
technologies continue to provide an impetus for plant phylogenetic study. In the past …
technologies continue to provide an impetus for plant phylogenetic study. In the past …
Practical considerations for plant phylogenomics
MR McKain, MG Johnson… - Applications in plant …, 2018 - Wiley Online Library
The past decade has seen a major breakthrough in our ability to easily and inexpensively
sequence genome‐scale data from diverse lineages. The development of high‐throughput …
sequence genome‐scale data from diverse lineages. The development of high‐throughput …
A universal probe set for targeted sequencing of 353 nuclear genes from any flowering plant designed using k-medoids clustering
Sequencing of target-enriched libraries is an efficient and cost-effective method for obtaining
DNA sequence data from hundreds of nuclear loci for phylogeny reconstruction. Much of the …
DNA sequence data from hundreds of nuclear loci for phylogeny reconstruction. Much of the …
Monocot plastid phylogenomics, timeline, net rates of species diversification, the power of multi‐gene analyses, and a functional model for the origin of monocots
Premise of the Study We present the first plastome phylogeny encompassing all 77 monocot
families, estimate branch support, and infer monocot‐wide divergence times and rates of …
families, estimate branch support, and infer monocot‐wide divergence times and rates of …
[HTML][HTML] Resolution of the ordinal phylogeny of mosses using targeted exons from organellar and nuclear genomes
Mosses are a highly diverse lineage of land plants, whose diversification, spanning at least
400 million years, remains phylogenetically ambiguous due to the lack of fossils, massive …
400 million years, remains phylogenetically ambiguous due to the lack of fossils, massive …
A phylogenomic framework, evolutionary timeline and genomic resources for comparative studies of decapod crustaceans
Comprising over 15 000 living species, decapods (crabs, shrimp and lobsters) are the most
instantly recognizable crustaceans, representing a considerable global food source …
instantly recognizable crustaceans, representing a considerable global food source …
A new classification of Cyperaceae (Poales) supported by phylogenomic data
Cyperaceae (sedges) are the third largest monocot family and are of considerable economic
and ecological importance. Sedges represent an ideal model family to study evolutionary …
and ecological importance. Sedges represent an ideal model family to study evolutionary …
[HTML][HTML] Incongruence between gene trees and species trees and phylogenetic signal variation in plastid genes
The current classification of angiosperms is based primarily on concatenated plastid
markers and maximum likelihood (ML) inference. This approach has been justified by the …
markers and maximum likelihood (ML) inference. This approach has been justified by the …
Out of Sight, Out of Mind: Widespread Nuclear and Plastid-Nuclear Discordance in the Flowering Plant Genus Polemonium (Polemoniaceae) Suggests Widespread …
Phylogenomic data from a rapidly increasing number of studies provide new evidence for
resolving relationships in recently radiated clades, but they also pose new challenges for …
resolving relationships in recently radiated clades, but they also pose new challenges for …
[HTML][HTML] Tackling rapid radiations with targeted sequencing
In phylogenetic studies across angiosperms, at various taxonomic levels, polytomies have
persisted despite efforts to resolve them by increasing sampling of taxa and loci. The large …
persisted despite efforts to resolve them by increasing sampling of taxa and loci. The large …