Incongruence in the phylogenomics era

JL Steenwyk, Y Li, X Zhou, XX Shen… - Nature Reviews Genetics, 2023 - nature.com
Genome-scale data and the development of novel statistical phylogenetic approaches have
greatly aided the reconstruction of a broad sketch of the tree of life and resolved many of its …

The emerging phylogenetic perspective on the evolution of actinopterygian fishes

A Dornburg, TJ Near - Annual Review of Ecology, Evolution …, 2021 - annualreviews.org
The emergence of a new phylogeny of ray-finned fishes at the turn of the twenty-first century
marked a paradigm shift in understanding the evolutionary history of half of living …

Phylogenetic classification of bony fishes

R Betancur-R, EO Wiley, G Arratia, A Acero… - BMC evolutionary …, 2017 - Springer
Background Fish classifications, as those of most other taxonomic groups, are being
transformed drastically as new molecular phylogenies provide support for natural groups …

The interrelationships of land plants and the nature of the ancestral embryophyte

MN Puttick, JL Morris, TA Williams, CJ Cox, D Edwards… - Current Biology, 2018 - cell.com
The evolutionary emergence of land plant body plans transformed the planet. However, our
understanding of this formative episode is mired in the uncertainty associated with the …

Comprehensive phylogeny of ray-finned fishes (Actinopterygii) based on transcriptomic and genomic data

LC Hughes, G Ortí, Y Huang, Y Sun… - Proceedings of the …, 2018 - National Acad Sciences
Our understanding of phylogenetic relationships among bony fishes has been transformed
by analysis of a small number of genes, but uncertainty remains around critical nodes …

[PDF][PDF] Phylogenomics reveals ancient gene tree discordance in the amphibian tree of life

PM Hime, AR Lemmon, ECM Lemmon… - Systematic …, 2021 - academic.oup.com
Molecular phylogenies have yielded strong support for many parts of the amphibian Tree of
Life, but poor support for the resolution of deeper nodes, including relationships among …

Interrogating genomic-scale data for Squamata (lizards, snakes, and amphisbaenians) shows no support for key traditional morphological relationships

FT Burbrink, FG Grazziotin, RA Pyron… - Systematic …, 2020 - academic.oup.com
Genomics is narrowing uncertainty in the phylogenetic structure for many amniote groups.
For one of the most diverse and species-rich groups, the squamate reptiles (lizards, snakes …

Ctenophore relationships and their placement as the sister group to all other animals

NV Whelan, KM Kocot, TP Moroz, K Mukherjee… - Nature ecology & …, 2017 - nature.com
Ctenophora, comprising approximately 200 described species, is an important lineage for
understanding metazoan evolution and is of great ecological and economic importance …

Morphology, molecules and the phylogeny of Characidae (Teleostei, Characiformes)

JM Mirande - Cladistics, 2019 - Wiley Online Library
This is the most comprehensive phylogenetic analysis of the Characidae to date and the first
large‐scale hypothesis of the family, combining myriad morphological data with molecular …

Supergene origin and maintenance in Atlantic cod

M Matschiner, JMI Barth, OK Tørresen, B Star… - Nature Ecology & …, 2022 - nature.com
Supergenes are sets of genes that are inherited as a single marker and encode complex
phenotypes through their joint action. They are identified in an increasing number of …