ArticleGenome research2009
Direct multiplex sequencing (DMPS)--a novel method for targeted high-throughput sequencing of ancient and highly degraded DNA.
Article in Genome research, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 37 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
37 citing papers in PubMed, 119 citations in OpenAlex.
- Article
- EutherianCoP. An integrated biotic and climate database for conservation paleobiology based on eutherian mammals.Scientific data · 2025Article
- A convenient strategy to clone small RNA and mRNA for high-throughput sequencing.RNA (New York, N.Y.) · 2020Article
- Large-scale mitogenomic analysis of the phylogeography of the Late Pleistocene cave bear.Scientific reports · 2019Article
- Phylogeography of the Tyrrhenian red deer (Cervus elaphus corsicanus) resolved using ancient DNA of radiocarbon-dated subfossils.Scientific reports · 2017Article
- Climatic niche evolution is faster in sympatric than allopatric lineages of the butterfly genusProceedings. Biological sciences · 2017Article
- Retreat and extinction of the Late Pleistocene cave bear (Ursus spelaeus sensu lato).Die Naturwissenschaften · 2016Article
- Simultaneous Whole Mitochondrial Genome Sequencing with Short Overlapping Amplicons Suitable for Degraded DNA Using the Ion Torrent Personal Genome Machine.Human mutation · 2015Article
- Charging YOYO-1 on capillary wall for online DNA intercalation and integrating this approach with multiplex PCR and bare narrow capillary-hydrodynamic chromatography for online DNA analysis.Analytical chemistry · 2015Article
- Partial uracil-DNA-glycosylase treatment for screening of ancient DNA.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2015Article
- Ancient population genomics and the study of evolution.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2015Review
- Article
- Strategies for achieving high sequencing accuracy for low diversity samples and avoiding sample bleeding using illumina platform.PloS one · 2015Article
- Galaxy tools to study genome diversity.GigaScience · 2013Article
- Complete mitochondrial genome sequence of a Middle Pleistocene cave bear reconstructed from ultrashort DNA fragments.Proceedings of the National Academy of Sciences of the United States of America · 2013Article
- The de novo assembly of mitochondrial genomes of the extinct passenger pigeon (Ectopistes migratorius) with next generation sequencing.PloS one · 2013Article
- MicroRNA in Aging: From Discovery to Biology.Current genomics · 2012Article
- Ancient DNA studies: new perspectives on old samples.Genetics, selection, evolution : GSE · 2012Review
- Cost-effective, high-throughput DNA sequencing libraries for multiplexed target capture.Genome research · 2012Article
- Allele discovery of ten candidate drought-response genes in Austrian oak using a systematically informatics approach based on 454 amplicon sequencing.BMC research notes · 2012Article
Corrections and comments
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Authors and funding
5 authors at 1 institution in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Although the emergence of high-throughput sequencing technologies has enabled whole-genome sequencing from extinct organisms, little progress has been made in accelerating targeted sequencing from highly degraded DNA. Here, we present a novel and highly sensitive method for targeted sequencing of ancient and degraded DNA, which couples multiplex PCR directly with sample barcoding and high-throughput sequencing. Using this approach, we obtained a 96% complete mitochondrial genome data set from 31 cave bear (Ursus spelaeus) samples using only two 454 Life Sciences (Roche) GS FLX runs. In contrast to previous studies relying only on short sequence fragments, the overlapping portion of our data comprises almost 10 kb of replicated mitochondrial genome sequence, allowing for the unambiguous differentiation of three major cave bear clades. Our method opens up the opportunity to simultaneously generate many kilobases of overlapping sequence data from large sets of difficult samples, such as museum specimens, medical collections, or forensic samples. Embedded in our approach, we present a new protocol for the construction of barcoded sequencing libraries, which is compatible with all current high-throughput technologies and can be performed entirely in plate setup.
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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.