ArticleAmerican journal of human genetics2013
Pulling out the 1%: whole-genome capture for the targeted enrichment of ancient DNA sequencing libraries.
Article in American journal of human genetics, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 117 papers.
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Who cites it
117 citing papers in PubMed, 335 citations in OpenAlex.
- Target Capture of Ancient Shell DNA Enables Phylogenetic Reconstruction of Deep-Sea Molluscs.Molecular ecology resources · 2026Article
- A Roadmap for Using Hybridisation Capture-Based Target Enrichment of Ancient Environmental DNA in Palaeoecology.Molecular ecology resources · 2026Review
- Ground squirrel coprolites preserve complex archives of ancient environmental DNA over 700,000 years.Nature communications · 2026Article
- Evaluating the Molecular Potential and Interpretability of DNA in Historical Spirit Collection Media.Molecular ecology resources · 2026Article
- CarpeDeam: a de novo metagenome assembler for heavily damaged ancient datasets.Genome biology · 2025Article
- Typing ofMicroorganisms · 2025Article
- clusIBD: Robust Detection of Identity-by-descent Segments Using Unphased Genetic Data from Poor-quality Samples.Genomics, proteomics & bioinformatics · 2025Article
- Cost-effectiveness and other considerations for different research techniques applied in ancient DNA analysis.Anatomy & cell biology · 2025Review
- Review of genotyping methods for Yersinia pestis in Madagascar.PLoS neglected tropical diseases · 2024Review
- Population Genomic History of the Endangered Anatolian and Cyprian Mouflons in Relation to Worldwide Wild, Feral, and Domestic Sheep Lineages.Genome biology and evolution · 2024Article
- Unearthing who and Y at Harewood Cemetery and inference of George Washington's Y-chromosomal haplotype.iScience · 2024Article
- Hybrid-Capture Target Enrichment in Human Pathogens: Identification, Evolution, Biosurveillance, and Genomic Epidemiology.Pathogens (Basel, Switzerland) · 2024Review
- Evaluating genotyping-in-thousands by sequencing as a genetic monitoring tool for a climate sentinel mammal using non-invasive and archival samples.Ecology and evolution · 2024Article
- A fresh perspective on infrared spectroscopy as a prescreening method for molecular and stable isotopes analyses on ancient human bones.Scientific reports · 2024Article
- Article
- Genetic Predisposition of Atherosclerotic Cardiovascular Disease in Ancient Human Remains.Annals of global health · 2024Article
- The ancestry and geographical origins of St Helena's liberated Africans.American journal of human genetics · 2023Article
- The genomic history of the indigenous people of the Canary Islands.Nature communications · 2023Article
- A method to generate capture baits for targeted sequencing.Nucleic acids research · 2023Article
- Ancient dolphin genomes reveal rapid repeated adaptation to coastal waters.Nature communications · 2023Article
57 more citing papers are in PubMed but not listed here.
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Authors and funding
23 authors at 10 institutions in 9 countries.
Funding
Abstract
Most ancient specimens contain very low levels of endogenous DNA, precluding the shotgun sequencing of many interesting samples because of cost. Ancient DNA (aDNA) libraries often contain <1% endogenous DNA, with the majority of sequencing capacity taken up by environmental DNA. Here we present a capture-based method for enriching the endogenous component of aDNA sequencing libraries. By using biotinylated RNA baits transcribed from genomic DNA libraries, we are able to capture DNA fragments from across the human genome. We demonstrate this method on libraries created from four Iron Age and Bronze Age human teeth from Bulgaria, as well as bone samples from seven Peruvian mummies and a Bronze Age hair sample from Denmark. Prior to capture, shotgun sequencing of these libraries yielded an average of 1.2% of reads mapping to the human genome (including duplicates). After capture, this fraction increased substantially, with up to 59% of reads mapped to human and enrichment ranging from 6- to 159-fold. Furthermore, we maintained coverage of the majority of regions sequenced in the precapture library. Intersection with the 1000 Genomes Project reference panel yielded an average of 50,723 SNPs (range 3,062-147,243) for the postcapture libraries sequenced with 1 million reads, compared with 13,280 SNPs (range 217-73,266) for the precapture libraries, increasing resolution in population genetic analyses. Our whole-genome capture approach makes it less costly to sequence aDNA from specimens containing very low levels of endogenous DNA, enabling the analysis of larger numbers of samples.
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