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 …

Origin of animal multicellularity: precursors, causes, consequences—the choanoflagellate/sponge transition, neurogenesis and the Cambrian explosion

T Cavalier-Smith - … Transactions of the Royal Society B …, 2017 - royalsocietypublishing.org
Evolving multicellularity is easy, especially in phototrophs and osmotrophs whose multicells
feed like unicells. Evolving animals was much harder and unique; probably only one …

Ancient gene linkages support ctenophores as sister to other animals

DT Schultz, SHD Haddock, JV Bredeson, RE Green… - Nature, 2023 - nature.com
A central question in evolutionary biology is whether sponges or ctenophores (comb jellies)
are the sister group to all other animals. These alternative phylogenetic hypotheses imply …

A large and consistent phylogenomic dataset supports sponges as the sister group to all other animals

P Simion, H Philippe, D Baurain, M Jager, DJ Richter… - Current biology, 2017 - cell.com
Resolving the early diversification of animal lineages has proven difficult, even using
genome-scale datasets. Several phylogenomic studies have supported the classical …

Early metazoan cell type diversity and the evolution of multicellular gene regulation

A Sebé-Pedrós, E Chomsky, K Pang… - Nature ecology & …, 2018 - nature.com
A hallmark of metazoan evolution is the emergence of genomic mechanisms that implement
cell-type-specific functions. However, the evolution of metazoan cell types and their …

Evidence for sponges as sister to all other animals from partitioned phylogenomics with mixture models and recoding

AK Redmond, A McLysaght - Nature communications, 2021 - nature.com
Resolving the relationships between the major lineages in the animal tree of life is
necessary to understand the origin and evolution of key animal traits. Sponges …

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 …

Genomic data do not support comb jellies as the sister group to all other animals

D Pisani, W Pett, M Dohrmann… - Proceedings of the …, 2015 - National Acad Sciences
Understanding how complex traits, such as epithelia, nervous systems, muscles, or guts,
originated depends on a well-supported hypothesis about the phylogenetic relationships …

Third generation sequencing: technology and its potential impact on evolutionary biodiversity research

C Bleidorn - Systematics and biodiversity, 2016 - Taylor & Francis
Next generation sequencing transformed the field of evolutionary biology and high
throughput sequencing platforms are routinely used in phylogenomic, population genomic …

Tracing animal genomic evolution with the chromosomal-level assembly of the freshwater sponge Ephydatia muelleri

NJ Kenny, WR Francis, RE Rivera-Vicéns… - Nature …, 2020 - nature.com
The genomes of non-bilaterian metazoans are key to understanding the molecular basis of
early animal evolution. However, a full comprehension of how animal-specific traits, such as …