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Early Pleistocene enamel proteome from Dmanisi resolves Stephanorhinus phylogeny

Cappellini, Enrico ; Welker, Frido ; Pandolfi, Luca ; Ramos-Madrigal, Jazmín ; Samodova, Diana ; Rüther, Patrick L ; Fotakis, Anna K ; Lyon, David ; Moreno-Mayar, J Víctor ; Bukhsianidze, Maia ; Rakownikow Jersie-Christensen, Rosa ; Mackie, Meaghan ; Ginolhac, Aurélien ; Ferring, Reid ; Tappen, Martha ; Palkopoulou, Eleftheria ; Dickinson, Marc R ; Stafford, Jr, Thomas W ; Chan, Yvonne L ; Götherström, Anders ; Nathan, Senthilvel K S S ; Heintzman, Peter D ; Kapp, Joshua D ; Kirillova, Irina ; Moodley, Yoshan ; Agusti, Jordi ; Kahlke, Ralf-Dietrich ; Kiladze, Gocha ; Martínez-Navarro, Bienvenido ; Liu, Shanlin ; Sandoval Velasco, Marcela ; Sinding, Mikkel-Holger S ; Kelstrup, Christian D ; Allentoft, Morten E ; Orlando, Ludovic ; Penkman, Kirsty ; Shapiro, Beth ; Rook, Lorenzo ; Dalén, Love ; Gilbert, M Thomas P ; Olsen, Jesper V ; Lordkipanidze, David ; Willerslev, Eske

Nature (London), 2019-10, Vol.574 (7776), p.103-107 [Periódico revisado por pares]

England: Nature Publishing Group

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Título:
Early Pleistocene enamel proteome from Dmanisi resolves Stephanorhinus phylogeny
Autor: Cappellini, Enrico ; Welker, Frido ; Pandolfi, Luca ; Ramos-Madrigal, Jazmín ; Samodova, Diana ; Rüther, Patrick L ; Fotakis, Anna K ; Lyon, David ; Moreno-Mayar, J Víctor ; Bukhsianidze, Maia ; Rakownikow Jersie-Christensen, Rosa ; Mackie, Meaghan ; Ginolhac, Aurélien ; Ferring, Reid ; Tappen, Martha ; Palkopoulou, Eleftheria ; Dickinson, Marc R ; Stafford, Jr, Thomas W ; Chan, Yvonne L ; Götherström, Anders ; Nathan, Senthilvel K S S ; Heintzman, Peter D ; Kapp, Joshua D ; Kirillova, Irina ; Moodley, Yoshan ; Agusti, Jordi ; Kahlke, Ralf-Dietrich ; Kiladze, Gocha ; Martínez-Navarro, Bienvenido ; Liu, Shanlin ; Sandoval Velasco, Marcela ; Sinding, Mikkel-Holger S ; Kelstrup, Christian D ; Allentoft, Morten E ; Orlando, Ludovic ; Penkman, Kirsty ; Shapiro, Beth ; Rook, Lorenzo ; Dalén, Love ; Gilbert, M Thomas P ; Olsen, Jesper V ; Lordkipanidze, David ; Willerslev, Eske
Assuntos: Admixtures ; Amino Acid Motifs ; Amino Acid Sequence ; Amino acids ; Analysis ; Animals ; Archaeological sites ; Bayes Theorem ; Bioinformatics ; Biological evolution ; Coelodonta antiquitatis ; Collagen ; Collagen (type I) ; Collagens ; Consortia ; Cretaceous ; Dental enamel ; Dental Enamel - metabolism ; Dental enamels ; Deoxyribonucleic acid ; Diversity of life ; DNA ; DNA methylation ; DNA sequencing ; DNA, Ancient - analysis ; Enamel ; Enamel, Dental ; Endangered & extinct species ; Extinct animals ; Extinct species ; Extinction ; Fossils ; Gene sequencing ; Genetic aspects ; Genomes ; Geofag: 450 ; Geosciences: 450 ; Historic buildings & sites ; Historic sites ; History, Ancient ; Humans ; Life Sciences ; Livets mångfald ; Male ; Mammals ; Mass spectrometry ; Mass spectroscopy ; Matematikk og Naturvitenskap: 400 ; Mathematics and natural science: 400 ; Molecular evolution ; Nucleotide sequencing ; Peptides ; Perissodactyla - classification ; Perissodactyla - genetics ; Perissodactyla - metabolism ; Permafrost ; Phosphorylation - genetics ; Phylogenetics ; Phylogeny ; Physiological aspects ; Pleistocene ; Preservation ; Proteins ; Proteome - analysis ; Proteome - genetics ; Proteomes ; Proteomics ; Reconstruction ; Rhinocerotidae ; Scientific imaging ; Speciation ; Stephanorhinus ; Stephanorhinus kirchbergensis ; Stratigrafi og paleontologi: 461 ; Stratigraphy and paleontology: 461 ; Taxonomic revision ; Taxonomy ; Teeth ; VDP ; Vertebrates
É parte de: Nature (London), 2019-10, Vol.574 (7776), p.103-107
Notas: ObjectType-Article-1
SourceType-Scholarly Journals-1
ObjectType-Feature-2
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Nature
PMCID: PMC6894936
Descrição: The sequencing of ancient DNA has enabled the reconstruction of speciation, migration and admixture events for extinct taxa . However, the irreversible post-mortem degradation of ancient DNA has so far limited its recovery-outside permafrost areas-to specimens that are not older than approximately 0.5 million years (Myr) . By contrast, tandem mass spectrometry has enabled the sequencing of approximately 1.5-Myr-old collagen type I , and suggested the presence of protein residues in fossils of the Cretaceous period -although with limited phylogenetic use . In the absence of molecular evidence, the speciation of several extinct species of the Early and Middle Pleistocene epoch remains contentious. Here we address the phylogenetic relationships of the Eurasian Rhinocerotidae of the Pleistocene epoch , using the proteome of dental enamel from a Stephanorhinus tooth that is approximately 1.77-Myr old, recovered from the archaeological site of Dmanisi (South Caucasus, Georgia) . Molecular phylogenetic analyses place this Stephanorhinus as a sister group to the clade formed by the woolly rhinoceros (Coelodonta antiquitatis) and Merck's rhinoceros (Stephanorhinus kirchbergensis). We show that Coelodonta evolved from an early Stephanorhinus lineage, and that this latter genus includes at least two distinct evolutionary lines. The genus Stephanorhinus is therefore currently paraphyletic, and its systematic revision is needed. We demonstrate that sequencing the proteome of Early Pleistocene dental enamel overcomes the limitations of phylogenetic inference based on ancient collagen or DNA. Our approach also provides additional information about the sex and taxonomic assignment of other specimens from Dmanisi. Our findings reveal that proteomic investigation of ancient dental enamel-which is the hardest tissue in vertebrates , and is highly abundant in the fossil record-can push the reconstruction of molecular evolution further back into the Early Pleistocene epoch, beyond the currently known limits of ancient DNA preservation.
Editor: England: Nature Publishing Group
Idioma: Inglês

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Early Pleistocene enamel proteome from Dmanisi resolves Stephanorhinus phylogeny

England: Nature Publishing Group

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