ArticleThe Journal of heredity2021
A Fast and Efficient Single-stranded Genomic Library Preparation Method Optimized for Ancient DNA.
Article in The Journal of heredity, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 109 papers.
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Who cites it
109 citing papers in PubMed, 193 citations in OpenAlex.
- Comparing the Performance of Double-Stranded and Single-Stranded DNA Libraries for Ancient Oral Microbiome Reconstruction.Molecular ecology resources · 2026Article
- Three thousand five hundred years of sheeppox virus evolution inferred from archaeological and codicological genomes.Science advances · 2026Article
- First Taxonomically Curated DNA Barcode Reference Library for Polish Myriapods Fills an Important Knowledge Gap for Soil Invertebrates in Central Europe, Part I: Millipedes (Myriapoda: Diplopoda).Ecology and evolution · 2026Article
- Ancient wheat DNA: How and what for?Journal, genetic engineering & biotechnology · 2026Article
- On the ancestry and evolution of the extinct dire wolf.Cell genomics · 2026Article
- De novo assembly and authentication of ancient DNA metagenomes with nf-core/mag.PLoS computational biology · 2026Article
- Ancient mitogenomes reveal the genetic relationship among extinct and extant water buffaloes.iScience · 2026Article
- BeeGees: A High-Throughput Protein-Coding DNA Barcode Recovery Pipeline Tailored for Genome Skims of Museum Specimens.Molecular ecology resources · 2026Article
- Development and Validation of PCR-Based Ancient DNA Analysis for Italian and Western Balkan Archaeological Collections.Balkan journal of medical genetics : BJMG · 2026Article
- Ontogenetic changes and sexual dimorphism in the cranium and mandible of the Atlantic walrus (Odobenus rosmarus rosmarus L.).Anatomical record (Hoboken, N.J. : 2007) · 2026Article
- The genetic landscape of northeastern Iberian communities from the early to late Iron Age.iScience · 2026Article
- Long-term small effective population size, inbreeding, and a recessive lethal haplotype drive premature death in the endangered Devils Hole pupfish (bioRxiv : the preprint server for biology · 2026Article
- Ground squirrel coprolites preserve complex archives of ancient environmental DNA over 700,000 years.Nature communications · 2026Article
- Persistent trade-offs balance competition and colonization across centuries.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- Genetic Diversity and Population Structure of the Black-Footed Cat: Insights intobioRxiv : the preprint server for biology · 2026Article
- Ancient DNA from shells reveals delayed genomic erosion and rapid immune adaptation in the critically endangered black abalone.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
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- Ancient DNA reveals a family ossuary and long-distance migration on the Pacific coast before the Inca Empire.Nature communications · 2026Article
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- Probing the zooarchaeological record across time and space for ancient pathogen DNA.Nature communications · 2026Article
49 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
We present a protocol to prepare extracted DNA for sequencing on the Illumina sequencing platform that has been optimized for ancient and degraded DNA. Our approach, the Santa Cruz Reaction or SCR, uses directional splinted ligation of Illumina's P5 and P7 adapters to convert natively single-stranded DNA and heat denatured double-stranded DNA into sequencing libraries in a single enzymatic reaction. To demonstrate its efficacy in converting degraded DNA molecules, we prepare 5 ancient DNA extracts into sequencing libraries using the SCR and 2 of the most commonly used approaches for preparing degraded DNA for sequencing: BEST, which targets and converts double-stranded DNA, and ssDNA2.0, which targets and converts single-stranded DNA. We then compare the efficiency with which each approach recovers unique molecules, or library complexity, given a standard amount of DNA input. We find that the SCR consistently outperforms the BEST protocol in recovering unique molecules and, despite its relative simplicity to perform and low cost per library, has similar performance to ssDNA2.0 across a wide range of DNA inputs. The SCR is a cost- and time-efficient approach that minimizes the loss of unique molecules and makes accessible a taxonomically, geographically, and a temporally broader sample of preserved remains for genomic analysis.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.