Ancient host-associated microbes obtained from mammoth remains

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Os dados deste recurso de ocorrência foram publicados como um Darwin Core Archive (DwC-A), que é o formato padronizado para compartilhamento de dados de biodiversidade como um conjunto de uma ou mais tabelas de dados. A tabela de dados do núcleo contém 35 registros.

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Versões

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Como citar

Pesquisadores deveriam citar esta obra da seguinte maneira:

Guinet B, Oskolkov N, Moreland K, Dehasque M, Chacón-Duque J C, Angerbjörn A, Arsuaga J L, Danilov G, Kanellidou F, Kitchener A C, Muller H, Plotnikov V, Protopopov A, Tikhonov A, Termes L, Zazula G, Mortensen P, Grigorieva L, Richards M, Shapiro B, Lister A M, Vartanyan S, Díez-Del-Molino D, Götherström A, Pečnerová P, Nikolskiy P, Dalén L, van der Valk T (2025). Ancient host-associated microbes obtained from mammoth remains. Dataset (metagenomic microbial DNA from mammoth remains). Centre for Palaeogenetics.

Direitos

Pesquisadores devem respeitar a seguinte declaração de direitos:

O editor e o detentor dos direitos deste trabalho é Centre for Palaeogenetics. This work is licensed under a Creative Commons Attribution (CC-BY 4.0) License.

GBIF Registration

Este recurso foi registrado no GBIF e atribuído ao seguinte GBIF UUID: fe104fc9-c453-49e0-90c0-5d71564289a4.  Centre for Palaeogenetics publica este recurso, e está registrado no GBIF como um publicador de dados aprovado por GBIF Sweden.

Palavras-chave

ancient DNA; aDNA; mammoth; metagenomics; microbial ecology; host-associated microbes; palaeogenetics

Contatos

Cobertura Geográfica

The dataset covers mammoth remains recovered from a broad geographic range (including Siberia, Russia; Yakutia; Yukon, Canada; Europe) spanning multiple localities. Specific sample coordinates and provenance details are provided in the associated supplementary material of the paper (TableS1)

Cobertura Taxonômica

Taxa include remains of wooly and steppe mammoths and associated microbial taxa from Actinobacillus sp., Pasteurella sp. , Streptococcus sp. and Erysipelothrix sp.). The microbial DNA is identified and/or reconstructed to clade level.

Dados Sobre o Projeto

International collaborative project to sequence and analyse ancient microbial DNA from mammoth remains spanning over one million years, to reconstruct host-associated microbial lineages and explore their evolutionary history.  Funding: SciLifeLab and Wallenberg Data Driven Life Science Program (KAW 2020.0239), Knut and Alice Wallenberg Foundation, National Bioinformatics Infrastructure Sweden (NBIS) at SciLifeLab, Swedish Research Council (grants 2017-04647 and 2021-00625), European Union – ERC (PrimiGenomes, 101054984), European Union – Horizon 2020 (Marie Skłodowska-Curie grant no. 892446), European Union – Horizon Europe (Marie Skłodowska-Curie Actions Postdoctoral Fellowships, 101111414)

O pessoal envolvido no projeto:

Métodos de Amostragem

Specimens were obtained from collections/museums and excavations (locations include Yakutia, Russia; Yukon, Canada; Europe). DNA was extracted from tissue types (e.g., bone, tooth, tusk) under ancient DNA clean-lab conditions. Metagenomic sequencing libraries were prepared, sequenced, and processed. Contaminants were filtered using standard damage-pattern screening and comparison to environmental controls.

Descrição dos passos do método:

1. Step 1: Collection of mammoth remains and contextual metadata (age, location, tissue type)  Step 2: Ancient DNA extraction and library preparation in clean-lab facilities  Step 3: High-throughput sequencing of metagenomic libraries  Step 4: Bioinformatic screening: mapping, contaminant filtering, damage pattern analysis  Step 5: Taxonomic assignment of microbial reads/contigs, genome reconstruction of key clades  Step 6: Phylogenetic and functional analyses of reconstructed microbial genomes  Step 7: Metadata integration and dataset assembly for publication and deposition

Citações bibliográficas

1. Guinet B, Oskolkov N, Moreland K, Dehasque M, Chacón-Duque J C, Angerbjörn A, Arsuaga J L, Danilov G, Kanellidou F, Kitchener A C, Muller H, Plotnikov V, Protopopov A, Tikhonov A, Termes L, Zazula G, Mortensen P, Grigorieva L, Richards M, Shapiro B, Lister A M, Vartanyan S, Díez-Del-Molino D, Götherström A, Pečnerová P, Nikolskiy P, Dalén L, van der Valk T. 2025. “Ancient host-associated microbes obtained from mammoth remains.” Cell. S0092-8674(25)00917-1. https://doi.org/10.1016/j.cell.2025.08.003

Metadados Adicionais