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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Online Access: | https://hdl.handle.net/10088/94161 http://www.mdpi.com/2073-4425/9/9/436 https://doi.org/10.3390/genes9090436 |
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ftsmithonian:oai:repository.si.edu:10088/94161 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 Rühli, Frank Bouwman, Abigail S. Campana, Michael G. 2018 application/pdf https://hdl.handle.net/10088/94161 http://www.mdpi.com/2073-4425/9/9/436 https://doi.org/10.3390/genes9090436 unknown Genes Ferrari, Giada, Lischer, Heidi E. L., Neukamm, Judith, Rayo, Enrique, Borel, Nicole, Pospischil, Andreas, Rühli, Frank, Bouwman, Abigail S., and Campana, Michael G. 2018. " Assessing Metagenomic Signals Recovered from Lyuba, a 42,000-Year-Old Permafrost-Preserved Woolly Mammoth Calf ." Genes . 9 (9): https://doi.org/10.3390/genes9090436 2073-4425 http://www.mdpi.com/2073-4425/9/9/436 https://hdl.handle.net/10088/94161 148440 doi:10.3390/genes9090436 Journal Article 2018 ftsmithonian https://doi.org/10.3390/genes9090436 2020-09-09T18:36:29Z 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. NZP Article in Journal/Newspaper permafrost Unknown Genes 9 9 436 |
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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. NZP |
format |
Article in Journal/Newspaper |
author |
Ferrari, Giada Lischer, Heidi E. L. Neukamm, Judith Rayo, Enrique Borel, Nicole Pospischil, Andreas Rühli, Frank Bouwman, Abigail S. Campana, Michael G. |
spellingShingle |
Ferrari, Giada Lischer, Heidi E. L. Neukamm, Judith Rayo, Enrique Borel, Nicole Pospischil, Andreas Rühli, Frank Bouwman, Abigail S. 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 Rühli, Frank Bouwman, Abigail S. 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 |
publishDate |
2018 |
url |
https://hdl.handle.net/10088/94161 http://www.mdpi.com/2073-4425/9/9/436 https://doi.org/10.3390/genes9090436 |
genre |
permafrost |
genre_facet |
permafrost |
op_relation |
Genes Ferrari, Giada, Lischer, Heidi E. L., Neukamm, Judith, Rayo, Enrique, Borel, Nicole, Pospischil, Andreas, Rühli, Frank, Bouwman, Abigail S., and Campana, Michael G. 2018. " Assessing Metagenomic Signals Recovered from Lyuba, a 42,000-Year-Old Permafrost-Preserved Woolly Mammoth Calf ." Genes . 9 (9): https://doi.org/10.3390/genes9090436 2073-4425 http://www.mdpi.com/2073-4425/9/9/436 https://hdl.handle.net/10088/94161 148440 doi:10.3390/genes9090436 |
op_doi |
https://doi.org/10.3390/genes9090436 |
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Genes |
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9 |
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9 |
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436 |
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1766165253284954112 |