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On Controls in Ancient Microbiome Studies, and Microbial Resilience in Ancient Samples

In the following comment, we reply to Eisenhofer and Weyrich’s letter “Proper authentication of ancient DNA is still essential” responding to the article “Gut Microbiome and Putative Resistome of Inca and Italian Nobility Mummies” by Santiago-Rodriguez et al. One of the concerns raised was the possi...

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Autores principales: Santiago-Rodriguez, Tasha M., Toranzos, Gary A.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2018
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6210261/
https://www.ncbi.nlm.nih.gov/pubmed/30262781
http://dx.doi.org/10.3390/genes9100471
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author Santiago-Rodriguez, Tasha M.
Toranzos, Gary A.
author_facet Santiago-Rodriguez, Tasha M.
Toranzos, Gary A.
author_sort Santiago-Rodriguez, Tasha M.
collection PubMed
description In the following comment, we reply to Eisenhofer and Weyrich’s letter “Proper authentication of ancient DNA is still essential” responding to the article “Gut Microbiome and Putative Resistome of Inca and Italian Nobility Mummies” by Santiago-Rodriguez et al. One of the concerns raised was the possibility that the patterns noted in the gut microbiome of pre-Inca/Inca and Italian nobility mummies were due to contamination of the blank control. When examining the blank controls and filtering the operational taxonomic units (OTUs) present in the blank controls, and further performing in-silico contamination analyses, we noticed very similar patterns as those previously reported. We also discuss controls in ancient microbiome studies, and aspects of microbial resilience in ancient samples.
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spelling pubmed-62102612018-11-02 On Controls in Ancient Microbiome Studies, and Microbial Resilience in Ancient Samples Santiago-Rodriguez, Tasha M. Toranzos, Gary A. Genes (Basel) Comment In the following comment, we reply to Eisenhofer and Weyrich’s letter “Proper authentication of ancient DNA is still essential” responding to the article “Gut Microbiome and Putative Resistome of Inca and Italian Nobility Mummies” by Santiago-Rodriguez et al. One of the concerns raised was the possibility that the patterns noted in the gut microbiome of pre-Inca/Inca and Italian nobility mummies were due to contamination of the blank control. When examining the blank controls and filtering the operational taxonomic units (OTUs) present in the blank controls, and further performing in-silico contamination analyses, we noticed very similar patterns as those previously reported. We also discuss controls in ancient microbiome studies, and aspects of microbial resilience in ancient samples. MDPI 2018-09-27 /pmc/articles/PMC6210261/ /pubmed/30262781 http://dx.doi.org/10.3390/genes9100471 Text en © 2018 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (http://creativecommons.org/licenses/by/4.0/).
spellingShingle Comment
Santiago-Rodriguez, Tasha M.
Toranzos, Gary A.
On Controls in Ancient Microbiome Studies, and Microbial Resilience in Ancient Samples
title On Controls in Ancient Microbiome Studies, and Microbial Resilience in Ancient Samples
title_full On Controls in Ancient Microbiome Studies, and Microbial Resilience in Ancient Samples
title_fullStr On Controls in Ancient Microbiome Studies, and Microbial Resilience in Ancient Samples
title_full_unstemmed On Controls in Ancient Microbiome Studies, and Microbial Resilience in Ancient Samples
title_short On Controls in Ancient Microbiome Studies, and Microbial Resilience in Ancient Samples
title_sort on controls in ancient microbiome studies, and microbial resilience in ancient samples
topic Comment
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6210261/
https://www.ncbi.nlm.nih.gov/pubmed/30262781
http://dx.doi.org/10.3390/genes9100471
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