Assessing Metagenomic Signals Recovered from Lyuba, a 42,000-Year-Old Permafrost-Preserved Woolly Mammoth Calf
The reconstruction of ancient metagenomes from archaeological material, and their implication in human health and evolution, is one of the most recent advances in paleomicrobiological studies. However, as for all ancient DNA (aDNA) studies, environmental and laboratory contamination need to be speci...
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ftoslouniv:oai:www.duo.uio.no:10852/71907 2023-05-15T17:56:56+02:00 Assessing Metagenomic Signals Recovered from Lyuba, a 42,000-Year-Old Permafrost-Preserved Woolly Mammoth Calf Ferrari, Giada Lischer, Heidi E L Neukamm, Judith Rayo, Enrique Borel, Nicole Pospischil, Andreas Ruhli, Frank J Bouwman, Abigail Campana, Michael G 2019-01-30T12:58:19Z http://hdl.handle.net/10852/71907 http://urn.nb.no/URN:NBN:no-75027 https://doi.org/10.3390/genes9090436 EN eng M D P I AG http://urn.nb.no/URN:NBN:no-75027 Ferrari, Giada Lischer, Heidi E L Neukamm, Judith Rayo, Enrique Borel, Nicole Pospischil, Andreas Ruhli, Frank J Bouwman, Abigail Campana, Michael G . Assessing Metagenomic Signals Recovered from Lyuba, a 42,000-Year-Old Permafrost-Preserved Woolly Mammoth Calf. Genes. 2018, 9(9) http://hdl.handle.net/10852/71907 1668762 info:ofi/fmt:kev:mtx:ctx&ctx_ver=Z39.88-2004&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.jtitle=Genes&rft.volume=9&rft.spage=&rft.date=2018 Genes 9 https://doi.org/10.3390/genes9090436 URN:NBN:no-75027 Fulltext https://www.duo.uio.no/bitstream/handle/10852/71907/1/genes-09-00436.pdf Attribution 4.0 International https://creativecommons.org/licenses/by/4.0/ CC-BY 2073-4425 Journal article Tidsskriftartikkel Peer reviewed PublishedVersion 2019 ftoslouniv https://doi.org/10.3390/genes9090436 2020-06-21T08:53:00Z The reconstruction of ancient metagenomes from archaeological material, and their implication in human health and evolution, is one of the most recent advances in paleomicrobiological studies. However, as for all ancient DNA (aDNA) studies, environmental and laboratory contamination need to be specifically addressed. Here we attempted to reconstruct the tissue-specific metagenomes of a 42,000-year-old, permafrost-preserved woolly mammoth calf through shotgun high-throughput sequencing. We analyzed the taxonomic composition of all tissue samples together with environmental and non-template experimental controls and compared them to metagenomes obtained from permafrost and elephant fecal samples. Preliminary results suggested the presence of tissue-specific metagenomic signals. We identified bacterial species that were present in only one experimental sample, absent from controls, and consistent with the nature of the samples. However, we failed to further authenticate any of these signals and conclude that, even when experimental samples are distinct from environmental and laboratory controls, this does not necessarily indicate endogenous presence of ancient host-associated microbiomic signals. Article in Journal/Newspaper permafrost Universitet i Oslo: Digitale utgivelser ved UiO (DUO) Genes 9 9 436 |
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Universitet i Oslo: Digitale utgivelser ved UiO (DUO) |
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ftoslouniv |
language |
English |
description |
The reconstruction of ancient metagenomes from archaeological material, and their implication in human health and evolution, is one of the most recent advances in paleomicrobiological studies. However, as for all ancient DNA (aDNA) studies, environmental and laboratory contamination need to be specifically addressed. Here we attempted to reconstruct the tissue-specific metagenomes of a 42,000-year-old, permafrost-preserved woolly mammoth calf through shotgun high-throughput sequencing. We analyzed the taxonomic composition of all tissue samples together with environmental and non-template experimental controls and compared them to metagenomes obtained from permafrost and elephant fecal samples. Preliminary results suggested the presence of tissue-specific metagenomic signals. We identified bacterial species that were present in only one experimental sample, absent from controls, and consistent with the nature of the samples. However, we failed to further authenticate any of these signals and conclude that, even when experimental samples are distinct from environmental and laboratory controls, this does not necessarily indicate endogenous presence of ancient host-associated microbiomic signals. |
format |
Article in Journal/Newspaper |
author |
Ferrari, Giada Lischer, Heidi E L Neukamm, Judith Rayo, Enrique Borel, Nicole Pospischil, Andreas Ruhli, Frank J Bouwman, Abigail Campana, Michael G |
spellingShingle |
Ferrari, Giada Lischer, Heidi E L Neukamm, Judith Rayo, Enrique Borel, Nicole Pospischil, Andreas Ruhli, Frank J Bouwman, Abigail Campana, Michael G Assessing Metagenomic Signals Recovered from Lyuba, a 42,000-Year-Old Permafrost-Preserved Woolly Mammoth Calf |
author_facet |
Ferrari, Giada Lischer, Heidi E L Neukamm, Judith Rayo, Enrique Borel, Nicole Pospischil, Andreas Ruhli, Frank J Bouwman, Abigail Campana, Michael G |
author_sort |
Ferrari, Giada |
title |
Assessing Metagenomic Signals Recovered from Lyuba, a 42,000-Year-Old Permafrost-Preserved Woolly Mammoth Calf |
title_short |
Assessing Metagenomic Signals Recovered from Lyuba, a 42,000-Year-Old Permafrost-Preserved Woolly Mammoth Calf |
title_full |
Assessing Metagenomic Signals Recovered from Lyuba, a 42,000-Year-Old Permafrost-Preserved Woolly Mammoth Calf |
title_fullStr |
Assessing Metagenomic Signals Recovered from Lyuba, a 42,000-Year-Old Permafrost-Preserved Woolly Mammoth Calf |
title_full_unstemmed |
Assessing Metagenomic Signals Recovered from Lyuba, a 42,000-Year-Old Permafrost-Preserved Woolly Mammoth Calf |
title_sort |
assessing metagenomic signals recovered from lyuba, a 42,000-year-old permafrost-preserved woolly mammoth calf |
publisher |
M D P I AG |
publishDate |
2019 |
url |
http://hdl.handle.net/10852/71907 http://urn.nb.no/URN:NBN:no-75027 https://doi.org/10.3390/genes9090436 |
genre |
permafrost |
genre_facet |
permafrost |
op_source |
2073-4425 |
op_relation |
http://urn.nb.no/URN:NBN:no-75027 Ferrari, Giada Lischer, Heidi E L Neukamm, Judith Rayo, Enrique Borel, Nicole Pospischil, Andreas Ruhli, Frank J Bouwman, Abigail Campana, Michael G . Assessing Metagenomic Signals Recovered from Lyuba, a 42,000-Year-Old Permafrost-Preserved Woolly Mammoth Calf. Genes. 2018, 9(9) http://hdl.handle.net/10852/71907 1668762 info:ofi/fmt:kev:mtx:ctx&ctx_ver=Z39.88-2004&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.jtitle=Genes&rft.volume=9&rft.spage=&rft.date=2018 Genes 9 https://doi.org/10.3390/genes9090436 URN:NBN:no-75027 Fulltext https://www.duo.uio.no/bitstream/handle/10852/71907/1/genes-09-00436.pdf |
op_rights |
Attribution 4.0 International https://creativecommons.org/licenses/by/4.0/ |
op_rightsnorm |
CC-BY |
op_doi |
https://doi.org/10.3390/genes9090436 |
container_title |
Genes |
container_volume |
9 |
container_issue |
9 |
container_start_page |
436 |
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1766165252593942528 |