NCBI Taxonomy: a comprehensive update on curation, resources and tools
Abstract The National Center for Biotechnology Information (NCBI) Taxonomy includes
organism names and classifications for every sequence in the nucleotide and protein …
organism names and classifications for every sequence in the nucleotide and protein …
Diversity and evolution of the animal virome
The COVID-19 pandemic has given the study of virus evolution and ecology new relevance.
Although viruses were first identified more than a century ago, we likely know less about …
Although viruses were first identified more than a century ago, we likely know less about …
Ancient gene linkages support ctenophores as sister to other animals
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 …
are the sister group to all other animals. These alternative phylogenetic hypotheses imply …
AlphaFold predictions are valuable hypotheses and accelerate but do not replace experimental structure determination
Artificial intelligence-based protein structure prediction methods such as AlphaFold have
revolutionized structural biology. The accuracies of these predictions vary, however, and …
revolutionized structural biology. The accuracies of these predictions vary, however, and …
Deeply conserved synteny and the evolution of metazoan chromosomes
Animal genomes show networks of deeply conserved gene linkages whose phylogenetic
scope and chromosomal context remain unclear. Here, we report chromosome-scale …
scope and chromosomal context remain unclear. Here, we report chromosome-scale …
Toward a genome sequence for every animal: Where are we now?
S Hotaling, JL Kelley… - Proceedings of the …, 2021 - National Acad Sciences
In less than 25 y, the field of animal genome science has transformed from a discipline
seeking its first glimpses into genome sequences across the Tree of Life to a global …
seeking its first glimpses into genome sequences across the Tree of Life to a global …
[HTML][HTML] Divergent genomic trajectories predate the origin of animals and fungi
Animals and fungi have radically distinct morphologies, yet both evolved within the same
eukaryotic supergroup: Opisthokonta,. Here we reconstructed the trajectory of genetic …
eukaryotic supergroup: Opisthokonta,. Here we reconstructed the trajectory of genetic …
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 …
necessary to understand the origin and evolution of key animal traits. Sponges …
The origin of animals: an ancestral reconstruction of the unicellular-to-multicellular transition
How animals evolved from a single-celled ancestor, transitioning from a unicellular lifestyle
to a coordinated multicellular entity, remains a fascinating question. Key events in this …
to a coordinated multicellular entity, remains a fascinating question. Key events in this …
PhyKIT: a broadly applicable UNIX shell toolkit for processing and analyzing phylogenomic data
Motivation Diverse disciplines in biology process and analyze multiple sequence alignments
(MSAs) and phylogenetic trees to evaluate their information content, infer evolutionary …
(MSAs) and phylogenetic trees to evaluate their information content, infer evolutionary …