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 …

Phylogenomics and the flowering plant tree of life

C Guo, Y Luo, LM Gao, TS Yi, HT Li… - Journal of Integrative …, 2023 - Wiley Online Library
The advances accelerated by next‐generation sequencing and long‐read sequencing
technologies continue to provide an impetus for plant phylogenetic study. In the past …

Newly identified sex chromosomes in the Sphagnum (peat moss) genome alter carbon sequestration and ecosystem dynamics

AL Healey, B Piatkowski, JT Lovell, A Sreedasyam… - Nature Plants, 2023 - nature.com
Peatlands are crucial sinks for atmospheric carbon but are critically threatened due to
warming climates. Sphagnum (peat moss) species are keystone members of peatland …

Phylogenomic approaches untangle early divergences and complex diversifications of the olive plant family

W Dong, E Li, Y Liu, C Xu, Y Wang, K Liu, X Cui, J Sun… - BMC biology, 2022 - Springer
Background Deep-branching phylogenetic relationships are often difficult to resolve
because phylogenetic signals are obscured by the long history and complexity of …

The rise of baobab trees in Madagascar

JN Wan, SW Wang, AR Leitch, IJ Leitch, JB Jian… - Nature, 2024 - nature.com
The baobab trees (genus Adansonia) have attracted tremendous attention because of their
striking shape and distinctive relationships with fauna. These spectacular trees have also …

Genomic insights into zokors' phylogeny and speciation in China

X Liu, S Zhang, Z Cai, Z Kuang, N Wan, Y Wang… - Proceedings of the …, 2022 - pnas.org
The phylogeny and speciation of subterranean zokors in China are unclear, as previous
studies on morphology and limited molecular markers have generated conflicting results …

Phylogenomic discordance is driven by wide-spread introgression and incomplete lineage sorting during rapid species diversification within rattlesnakes (Viperidae …

EA Myers, RM Rautsaw, M Borja, J Jones… - Systematic …, 2024 - academic.oup.com
Abstract.—Phylogenomics allows us to uncover the historical signal of evolutionary
processes through time and estimate phylogenetic networks accounting for these signals …

Phylogenomics reveal extensive phylogenetic discordance due to incomplete lineage sorting following the rapid radiation of alpine butterflies (Papilionidae …

B He, Y Zhao, C Su, G Lin, Y Wang, L Li… - Systematic …, 2023 - Wiley Online Library
Under rapid radiation, the earliest components of evolutionary divergence are often difficult
to resolve, which were always driven by the characteristics of taxa and the limitations of …

Plastid phylogenomics and fossil evidence provide new insights into the evolutionary complexity of the 'woody clade'in Saxifragales

L Jia, S Wang, J Hu, K Miao, Y Huang, Y Ji - BMC Plant Biology, 2024 - Springer
Background The “woody clade” in Saxifragales (WCS), encompassing four woody families
(Altingiaceae, Cercidiphyllaceae, Daphniphyllaceae, and Hamamelidaceae), is a …

Ancient rapid radiation explains most conflicts among gene trees and well-supported phylogenomic trees of Nostocalean cyanobacteria

CJ Pardo-De la Hoz, N Magain, B Piatkowski… - Systematic …, 2023 - academic.oup.com
Prokaryotic genomes are often considered to be mosaics of genes that do not necessarily
share the same evolutionary history due to widespread horizontal gene transfers (HGTs) …