Phylogenetic signal in primate tooth enamel proteins and its relevance for paleoproteomics DOI Creative Commons
Ricardo Fong-Zazueta, Johanna Krueger, David M. Alba

и другие.

Genome Biology and Evolution, Год журнала: 2025, Номер 17(2)

Опубликована: Янв. 21, 2025

Ancient tooth enamel, and to some extent dentin bone, contain characteristic peptides that persist for long periods of time. In particular, from the enamel proteome (enamelome) have been used reconstruct phylogenetic relationships fossil taxa. However, enamelome is based on only about 10 genes, whose protein products undergo fragmentation in vivo post mortem. This raises question as whether alone provides enough information reliable inference. We address these considerations a selection enamel-associated proteins has computationally predicted genomic data 232 primate species. created multiple sequence alignments each estimated evolutionary rate site. examined which sites overlap with parts sequences are typically isolated fossils. Based this, we simulated ancient different degrees fragmentation, followed by analysis. compared trees reference species tree. Up degree similar samples 1 2 million years ago, placements most nodes at family level consistent tested analysis combinations found composition can influence deep splits phylogeny. With our methods, provide guidance researchers how evaluate potential paleoproteomics studies before sampling valuable specimens.

Язык: Английский

Phylogenetic signal in primate tooth enamel proteins and its relevance for paleoproteomics DOI Creative Commons
Ricardo Fong-Zazueta, Johanna Krueger, David M. Alba

и другие.

Genome Biology and Evolution, Год журнала: 2025, Номер 17(2)

Опубликована: Янв. 21, 2025

Ancient tooth enamel, and to some extent dentin bone, contain characteristic peptides that persist for long periods of time. In particular, from the enamel proteome (enamelome) have been used reconstruct phylogenetic relationships fossil taxa. However, enamelome is based on only about 10 genes, whose protein products undergo fragmentation in vivo post mortem. This raises question as whether alone provides enough information reliable inference. We address these considerations a selection enamel-associated proteins has computationally predicted genomic data 232 primate species. created multiple sequence alignments each estimated evolutionary rate site. examined which sites overlap with parts sequences are typically isolated fossils. Based this, we simulated ancient different degrees fragmentation, followed by analysis. compared trees reference species tree. Up degree similar samples 1 2 million years ago, placements most nodes at family level consistent tested analysis combinations found composition can influence deep splits phylogeny. With our methods, provide guidance researchers how evaluate potential paleoproteomics studies before sampling valuable specimens.

Язык: Английский

Процитировано

1