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...
Published in: | PLOS ONE |
---|---|
Main Authors: | , , , , , , , , , , |
Format: | Article in Journal/Newspaper |
Language: | English |
Published: |
Public Library of Science (PLoS)
2020
|
Subjects: | |
Online Access: | https://doi.org/10.1371/journal.pone.0230496 https://doaj.org/article/66518d2f0bdc4f699873cc7bb16dea30 |
id |
ftdoajarticles:oai:doaj.org/article:66518d2f0bdc4f699873cc7bb16dea30 |
---|---|
record_format |
openpolar |
spelling |
ftdoajarticles:oai:doaj.org/article:66518d2f0bdc4f699873cc7bb16dea30 2023-05-15T18:04:26+02:00 A mobile laboratory for ancient DNA analysis. José Utge Noémie Sévêque Anne-Sophie Lartigot-Campin Agnès Testu Anne-Marie Moigne Régis Vézian Frédéric Maksud Robert Begouën Christine Verna Sylvain Soriano Jean-Marc Elalouf 2020-01-01T00:00:00Z https://doi.org/10.1371/journal.pone.0230496 https://doaj.org/article/66518d2f0bdc4f699873cc7bb16dea30 EN eng Public Library of Science (PLoS) https://doi.org/10.1371/journal.pone.0230496 https://doaj.org/toc/1932-6203 1932-6203 doi:10.1371/journal.pone.0230496 https://doaj.org/article/66518d2f0bdc4f699873cc7bb16dea30 PLoS ONE, Vol 15, Iss 3, p e0230496 (2020) Medicine R Science Q article 2020 ftdoajarticles https://doi.org/10.1371/journal.pone.0230496 2022-12-31T07:55:44Z 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. Article in Journal/Newspaper Rangifer tarandus Directory of Open Access Journals: DOAJ Articles PLOS ONE 15 3 e0230496 |
institution |
Open Polar |
collection |
Directory of Open Access Journals: DOAJ Articles |
op_collection_id |
ftdoajarticles |
language |
English |
topic |
Medicine R Science Q |
spellingShingle |
Medicine R Science Q José Utge Noémie Sévêque Anne-Sophie Lartigot-Campin Agnès Testu Anne-Marie Moigne Régis Vézian Frédéric Maksud Robert Begouën Christine Verna Sylvain Soriano Jean-Marc Elalouf A mobile laboratory for ancient DNA analysis. |
topic_facet |
Medicine R Science Q |
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 |
Article in Journal/Newspaper |
author |
José Utge Noémie Sévêque Anne-Sophie Lartigot-Campin Agnès Testu Anne-Marie Moigne Régis Vézian Frédéric Maksud Robert Begouën Christine Verna Sylvain Soriano Jean-Marc Elalouf |
author_facet |
José Utge Noémie Sévêque Anne-Sophie Lartigot-Campin Agnès Testu Anne-Marie Moigne Régis Vézian Frédéric Maksud Robert Begouën Christine Verna Sylvain Soriano Jean-Marc Elalouf |
author_sort |
José Utge |
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 (PLoS) |
publishDate |
2020 |
url |
https://doi.org/10.1371/journal.pone.0230496 https://doaj.org/article/66518d2f0bdc4f699873cc7bb16dea30 |
genre |
Rangifer tarandus |
genre_facet |
Rangifer tarandus |
op_source |
PLoS ONE, Vol 15, Iss 3, p e0230496 (2020) |
op_relation |
https://doi.org/10.1371/journal.pone.0230496 https://doaj.org/toc/1932-6203 1932-6203 doi:10.1371/journal.pone.0230496 https://doaj.org/article/66518d2f0bdc4f699873cc7bb16dea30 |
op_doi |
https://doi.org/10.1371/journal.pone.0230496 |
container_title |
PLOS ONE |
container_volume |
15 |
container_issue |
3 |
container_start_page |
e0230496 |
_version_ |
1766175804345024512 |