A mobile laboratory for ancient DNA analysis
Mobile devices for on-field DNA analysis have been used for medical diagnostics at the point-of-care, forensic investigations and environmental surveys, but still have to be validated for ancient DNA studies. We report here on a mobile laboratory that we setup using commercially available devices, i...
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ftpubmed:oai:pubmedcentral.nih.gov:7080343 2023-05-15T18:04:25+02:00 A mobile laboratory for ancient DNA analysis Utge, José Sévêque, Noémie Lartigot-Campin, Anne-Sophie Testu, Agnès Moigne, Anne-Marie Vézian, Régis Maksud, Frédéric Begouën, Robert Verna, Christine Soriano, Sylvain Elalouf, Jean-Marc 2020-03-18 http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7080343/ http://www.ncbi.nlm.nih.gov/pubmed/32187203 https://doi.org/10.1371/journal.pone.0230496 en eng Public Library of Science http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7080343/ http://www.ncbi.nlm.nih.gov/pubmed/32187203 http://dx.doi.org/10.1371/journal.pone.0230496 © 2020 Utge et al http://creativecommons.org/licenses/by/4.0/ This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/) , which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. CC-BY Research Article Text 2020 ftpubmed https://doi.org/10.1371/journal.pone.0230496 2020-03-29T01:31:07Z Mobile devices for on-field DNA analysis have been used for medical diagnostics at the point-of-care, forensic investigations and environmental surveys, but still have to be validated for ancient DNA studies. We report here on a mobile laboratory that we setup using commercially available devices, including a compact real-time PCR machine, and describe procedures to perform DNA extraction and analysis from a variety of archeological samples within 4 hours. The process is carried out on 50 mg samples that are identified at the species level using custom TaqMan real-time PCR assays for mitochondrial DNA fragments. We evaluated the potential of this approach in museums lacking facilities for DNA studies by analyzing samples from the Enlène (MIS 2 layer) and the Portel-Ouest cave (MIS 3 deposits), and also performed experiments during an excavation campaign at the Roc-en-Pail (MIS 5) open-air site. Enlène Bovinae bone samples only yielded DNA for the extinct steppe bison (Bison priscus), whereas Portel-Ouest cave coprolites contained cave hyena (Crocuta crocuta spelaea) DNA together, for some of them, with DNA for the European bison sister species/subspecies (Bison schoetensacki/Bb1-X), thus highlighting the cave hyena diet. Roc-en-Pail Bovinae bone and tooth samples also contained DNA for the Bison schoetensacki/Bb1-X clade, and Cervidae bone samples only yielded reindeer (Rangifer tarandus) DNA. Subsequent DNA sequencing analyses confirmed that correct species identification had been achieved using our TaqMan assays, hence validating these assays for future studies. We conclude that our approach enables the rapid genetic characterization of tens of millennia-old archeological samples and is expected to be useful for the on-site screening of museums and freshly excavated samples for DNA content. Because our mobile laboratory is made up of commercially available instruments, this approach is easily accessible to other investigators. Text Rangifer tarandus PubMed Central (PMC) PLOS ONE 15 3 e0230496 |
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Research Article |
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Research Article Utge, José Sévêque, Noémie Lartigot-Campin, Anne-Sophie Testu, Agnès Moigne, Anne-Marie Vézian, Régis Maksud, Frédéric Begouën, Robert Verna, Christine Soriano, Sylvain Elalouf, Jean-Marc A mobile laboratory for ancient DNA analysis |
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Research Article |
description |
Mobile devices for on-field DNA analysis have been used for medical diagnostics at the point-of-care, forensic investigations and environmental surveys, but still have to be validated for ancient DNA studies. We report here on a mobile laboratory that we setup using commercially available devices, including a compact real-time PCR machine, and describe procedures to perform DNA extraction and analysis from a variety of archeological samples within 4 hours. The process is carried out on 50 mg samples that are identified at the species level using custom TaqMan real-time PCR assays for mitochondrial DNA fragments. We evaluated the potential of this approach in museums lacking facilities for DNA studies by analyzing samples from the Enlène (MIS 2 layer) and the Portel-Ouest cave (MIS 3 deposits), and also performed experiments during an excavation campaign at the Roc-en-Pail (MIS 5) open-air site. Enlène Bovinae bone samples only yielded DNA for the extinct steppe bison (Bison priscus), whereas Portel-Ouest cave coprolites contained cave hyena (Crocuta crocuta spelaea) DNA together, for some of them, with DNA for the European bison sister species/subspecies (Bison schoetensacki/Bb1-X), thus highlighting the cave hyena diet. Roc-en-Pail Bovinae bone and tooth samples also contained DNA for the Bison schoetensacki/Bb1-X clade, and Cervidae bone samples only yielded reindeer (Rangifer tarandus) DNA. Subsequent DNA sequencing analyses confirmed that correct species identification had been achieved using our TaqMan assays, hence validating these assays for future studies. We conclude that our approach enables the rapid genetic characterization of tens of millennia-old archeological samples and is expected to be useful for the on-site screening of museums and freshly excavated samples for DNA content. Because our mobile laboratory is made up of commercially available instruments, this approach is easily accessible to other investigators. |
format |
Text |
author |
Utge, José Sévêque, Noémie Lartigot-Campin, Anne-Sophie Testu, Agnès Moigne, Anne-Marie Vézian, Régis Maksud, Frédéric Begouën, Robert Verna, Christine Soriano, Sylvain Elalouf, Jean-Marc |
author_facet |
Utge, José Sévêque, Noémie Lartigot-Campin, Anne-Sophie Testu, Agnès Moigne, Anne-Marie Vézian, Régis Maksud, Frédéric Begouën, Robert Verna, Christine Soriano, Sylvain Elalouf, Jean-Marc |
author_sort |
Utge, José |
title |
A mobile laboratory for ancient DNA analysis |
title_short |
A mobile laboratory for ancient DNA analysis |
title_full |
A mobile laboratory for ancient DNA analysis |
title_fullStr |
A mobile laboratory for ancient DNA analysis |
title_full_unstemmed |
A mobile laboratory for ancient DNA analysis |
title_sort |
mobile laboratory for ancient dna analysis |
publisher |
Public Library of Science |
publishDate |
2020 |
url |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7080343/ http://www.ncbi.nlm.nih.gov/pubmed/32187203 https://doi.org/10.1371/journal.pone.0230496 |
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Rangifer tarandus |
genre_facet |
Rangifer tarandus |
op_relation |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7080343/ http://www.ncbi.nlm.nih.gov/pubmed/32187203 http://dx.doi.org/10.1371/journal.pone.0230496 |
op_rights |
© 2020 Utge et al http://creativecommons.org/licenses/by/4.0/ This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/) , which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. |
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CC-BY |
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https://doi.org/10.1371/journal.pone.0230496 |
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PLOS ONE |
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15 |
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3 |
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e0230496 |
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