ancient DNA

The evolution and changing ecology of the African hominid oral microbiome
We analyzed 124 dental biofilm metagenomes from humans, including Neanderthals and Late Pleistocene to present-day modern humans, chimpanzees, and gorillas, as well as New World howler monkeys for comparison.
Reproducible, portable, and efficient ancient genome reconstruction with nf-core/eager
We present an advanced, and entirely redesigned and extended version of the EAGER pipeline for the analysis of ancient genomic data.
Community-curated and standardised metadata of published ancient metagenomic samples with AncientMetagenomeDir
AncientMetagenomeDir (archived at https://doi.org/10.5281/zenodo.3980833) is a collection of annotated metagenomic sample lists derived from published studies that provide basic, standardised metadata and accession numbers to allow rapid data retrieval from online repositories.
Community-curated and standardised metadata of published ancient metagenomic samples with AncientMetagenomeDir
AncientMetagenomeDir is a collection of indices of published genetic data deriving from ancient microbial samples that provides basic, standardised metadata and accession numbers to allow rapid data retrieval from online repositories.
Micro Methods for Megafauna: Novel Approaches to Late Quaternary Extinctions and Their Contributions to Faunal Conservation in the Anthropocene
In the present article, we highlight how developments in five such methodologies (radiocarbon approaches, stable isotope analysis, ancient DNA, ancient proteomics, microscopy) have helped drive detailed analysis of specific megafaunal species, their particular ecological settings, and responses to new competitors or predators, climate change, and other external phenomena.
Microbial differences between dental plaque and historic dental calculus are related to oral biofilm maturation stage
Here, we compare the microbial profiles of modern dental plaque, modern dental calculus, and historic dental calculus to establish expected differences between these substrates.
Differential preservation of endogenous human and microbial DNA in dental calculus and dentin
In this study, shotgun-sequenced data from paired dental calculus and dentin samples from 48 globally distributed individuals are compared using a metagenomic approach.