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Meta-proteomic analysis of the Shandrin mammoth by EVA technology and high-resolution mass spectrometry: what is its gut microbiota telling us?

During the last decade, paleoproteomics allowed us to open a direct window into the biological past, improving our understanding of the phylogenetic relationships of extant and extinct species, past human diseases, and reconstruction of the human diet. In particular, meta-proteomic studies, mainly c...

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Autores principales: Cucina, Annamaria, Cunsolo, Vincenzo, Di Francesco, Antonella, Saletti, Rosaria, Zilberstein, Gleb, Zilberstein, Svetlana, Tikhonov, Alexei, Bublichenko, Andrey G., Righetti, Pier Giorgio, Foti, Salvatore
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Springer Vienna 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8519927/
https://www.ncbi.nlm.nih.gov/pubmed/34453585
http://dx.doi.org/10.1007/s00726-021-03061-0
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author Cucina, Annamaria
Cunsolo, Vincenzo
Di Francesco, Antonella
Saletti, Rosaria
Zilberstein, Gleb
Zilberstein, Svetlana
Tikhonov, Alexei
Bublichenko, Andrey G.
Righetti, Pier Giorgio
Foti, Salvatore
author_facet Cucina, Annamaria
Cunsolo, Vincenzo
Di Francesco, Antonella
Saletti, Rosaria
Zilberstein, Gleb
Zilberstein, Svetlana
Tikhonov, Alexei
Bublichenko, Andrey G.
Righetti, Pier Giorgio
Foti, Salvatore
author_sort Cucina, Annamaria
collection PubMed
description During the last decade, paleoproteomics allowed us to open a direct window into the biological past, improving our understanding of the phylogenetic relationships of extant and extinct species, past human diseases, and reconstruction of the human diet. In particular, meta-proteomic studies, mainly carried out on ancient human dental calculus, provided insights into past oral microbial communities and ancient diets. On the contrary, very few investigations regard the analysis of ancient gut microbiota, which may enable a greater understanding of how microorganisms and their hosts have co-evolved and spread under the influence of changing diet practices and habitat. In this respect, this paper reports the results of the first-ever meta-proteomic analysis carried out on a gut tissue sample some 40,000 years old. Proteins were extracted by applying EVA (ethylene–vinyl acetate) films to the surface of the gut sample of a woolly mammoth (Mammuthus primigenus), discovered in 1972 close to the Shandrin River (Yakutia, Russia), and then investigated via a shotgun MS-based approach. Proteomic and peptidomic analysis allowed in-depth exploration of its meta-proteome composition. The results were validated through the level of deamidation and other diagenetic chemical modifications of the sample peptides, which were used to discriminate the “original” endogenous peptides from contaminant ones. Overall, the results of the meta-proteomic analysis here reported agreeing with the previous paleobotanical studies and with the reconstructed habitat of the Shandrin mammoth and provided insight into its diet. The data have been deposited to the ProteomeXchange with identifier < PXD025518 > . SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1007/s00726-021-03061-0.
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spelling pubmed-85199272021-10-29 Meta-proteomic analysis of the Shandrin mammoth by EVA technology and high-resolution mass spectrometry: what is its gut microbiota telling us? Cucina, Annamaria Cunsolo, Vincenzo Di Francesco, Antonella Saletti, Rosaria Zilberstein, Gleb Zilberstein, Svetlana Tikhonov, Alexei Bublichenko, Andrey G. Righetti, Pier Giorgio Foti, Salvatore Amino Acids Original Article During the last decade, paleoproteomics allowed us to open a direct window into the biological past, improving our understanding of the phylogenetic relationships of extant and extinct species, past human diseases, and reconstruction of the human diet. In particular, meta-proteomic studies, mainly carried out on ancient human dental calculus, provided insights into past oral microbial communities and ancient diets. On the contrary, very few investigations regard the analysis of ancient gut microbiota, which may enable a greater understanding of how microorganisms and their hosts have co-evolved and spread under the influence of changing diet practices and habitat. In this respect, this paper reports the results of the first-ever meta-proteomic analysis carried out on a gut tissue sample some 40,000 years old. Proteins were extracted by applying EVA (ethylene–vinyl acetate) films to the surface of the gut sample of a woolly mammoth (Mammuthus primigenus), discovered in 1972 close to the Shandrin River (Yakutia, Russia), and then investigated via a shotgun MS-based approach. Proteomic and peptidomic analysis allowed in-depth exploration of its meta-proteome composition. The results were validated through the level of deamidation and other diagenetic chemical modifications of the sample peptides, which were used to discriminate the “original” endogenous peptides from contaminant ones. Overall, the results of the meta-proteomic analysis here reported agreeing with the previous paleobotanical studies and with the reconstructed habitat of the Shandrin mammoth and provided insight into its diet. The data have been deposited to the ProteomeXchange with identifier < PXD025518 > . SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1007/s00726-021-03061-0. Springer Vienna 2021-08-28 2021 /pmc/articles/PMC8519927/ /pubmed/34453585 http://dx.doi.org/10.1007/s00726-021-03061-0 Text en © The Author(s) 2021 https://creativecommons.org/licenses/by/4.0/Open AccessThis article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) .
spellingShingle Original Article
Cucina, Annamaria
Cunsolo, Vincenzo
Di Francesco, Antonella
Saletti, Rosaria
Zilberstein, Gleb
Zilberstein, Svetlana
Tikhonov, Alexei
Bublichenko, Andrey G.
Righetti, Pier Giorgio
Foti, Salvatore
Meta-proteomic analysis of the Shandrin mammoth by EVA technology and high-resolution mass spectrometry: what is its gut microbiota telling us?
title Meta-proteomic analysis of the Shandrin mammoth by EVA technology and high-resolution mass spectrometry: what is its gut microbiota telling us?
title_full Meta-proteomic analysis of the Shandrin mammoth by EVA technology and high-resolution mass spectrometry: what is its gut microbiota telling us?
title_fullStr Meta-proteomic analysis of the Shandrin mammoth by EVA technology and high-resolution mass spectrometry: what is its gut microbiota telling us?
title_full_unstemmed Meta-proteomic analysis of the Shandrin mammoth by EVA technology and high-resolution mass spectrometry: what is its gut microbiota telling us?
title_short Meta-proteomic analysis of the Shandrin mammoth by EVA technology and high-resolution mass spectrometry: what is its gut microbiota telling us?
title_sort meta-proteomic analysis of the shandrin mammoth by eva technology and high-resolution mass spectrometry: what is its gut microbiota telling us?
topic Original Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8519927/
https://www.ncbi.nlm.nih.gov/pubmed/34453585
http://dx.doi.org/10.1007/s00726-021-03061-0
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