Polyphasic Analysis of a Middle Ages Coprolite Microbiota, Belgium
Identifieur interne : 000191 ( Main/Exploration ); précédent : 000190; suivant : 000192Polyphasic Analysis of a Middle Ages Coprolite Microbiota, Belgium
Auteurs : Sandra Appelt [France] ; Fabrice Armougom [France] ; Matthieu Le Bailly [France] ; Catherine Robert [France] ; Michel Drancourt [France]Source :
- PLoS ONE [ 1932-6203 ] ; 2014.
Abstract
Paleomicrobiological investigations of a 14th-century coprolite found inside a barrel in Namur, Belgium were done using microscopy, a culture-dependent approach and metagenomics. Results were confirmed by
Url:
DOI: 10.1371/journal.pone.0088376
PubMed: 24586319
PubMed Central: 3938422
Affiliations:
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type="main">Polyphasic Analysis of a Middle Ages Coprolite Microbiota, Belgium</title><author><name sortKey="Appelt, Sandra" sort="Appelt, Sandra" uniqKey="Appelt S" first="Sandra" last="Appelt">Sandra Appelt</name><affiliation wicri:level="4"><nlm:aff id="aff1"><addr-line>Unité de Recherche sur les Maladies Infectieuses Tropicales Emergentes, UM63, Centre national de la recherche scientifique 7278, IRD 198, Institut National de la Santé et de la Recherche Médicale 1095, Aix Marseille Université, Marseille, France</addr-line></nlm:aff><country xml:lang="fr">France</country><wicri:regionArea>Unité de Recherche sur les Maladies Infectieuses Tropicales Emergentes, UM63, Centre national de la recherche scientifique 7278, IRD 198, Institut National de la Santé et de la Recherche Médicale 1095, Aix Marseille Université, Marseille</wicri:regionArea><placeName><settlement type="city">Marseille</settlement></placeName><orgName type="university">Université d'Aix-Marseille</orgName><placeName><settlement type="city">Marseille</settlement><region type="region" nuts="2">Provence-Alpes-Côte d'Azur</region></placeName></affiliation></author><author><name sortKey="Armougom, Fabrice" sort="Armougom, Fabrice" uniqKey="Armougom F" first="Fabrice" last="Armougom">Fabrice Armougom</name><affiliation wicri:level="4"><nlm:aff id="aff1"><addr-line>Unité de Recherche sur les Maladies Infectieuses Tropicales Emergentes, UM63, Centre national de la recherche scientifique 7278, IRD 198, Institut National de la Santé et de la Recherche Médicale 1095, Aix Marseille Université, Marseille, France</addr-line></nlm:aff><country xml:lang="fr">France</country><wicri:regionArea>Unité de Recherche sur les Maladies Infectieuses Tropicales Emergentes, UM63, Centre national de la recherche scientifique 7278, IRD 198, Institut National de la Santé et de la Recherche Médicale 1095, Aix Marseille Université, Marseille</wicri:regionArea><placeName><settlement type="city">Marseille</settlement></placeName><orgName type="university">Université d'Aix-Marseille</orgName><placeName><settlement type="city">Marseille</settlement><region type="region" nuts="2">Provence-Alpes-Côte d'Azur</region></placeName></affiliation></author><author><name sortKey="Le Bailly, Matthieu" sort="Le Bailly, Matthieu" uniqKey="Le Bailly M" first="Matthieu" last="Le Bailly">Matthieu Le Bailly</name><affiliation wicri:level="1"><nlm:aff id="aff2"><addr-line>Centre national de la recherche scientifique UMR 6249 Chrono-Environnement, Franche-Comté Université, Besançon, France</addr-line></nlm:aff><country xml:lang="fr">France</country><wicri:regionArea>Centre national de la recherche scientifique UMR 6249 Chrono-Environnement, Franche-Comté Université, Besançon</wicri:regionArea><placeName><settlement type="city">Besançon</settlement></placeName></affiliation></author><author><name sortKey="Robert, Catherine" sort="Robert, Catherine" uniqKey="Robert C" first="Catherine" last="Robert">Catherine Robert</name><affiliation wicri:level="4"><nlm:aff id="aff1"><addr-line>Unité de Recherche sur les Maladies Infectieuses Tropicales Emergentes, UM63, Centre national de la recherche scientifique 7278, IRD 198, Institut National de la Santé et de la Recherche Médicale 1095, Aix Marseille Université, Marseille, France</addr-line></nlm:aff><country xml:lang="fr">France</country><wicri:regionArea>Unité de Recherche sur les Maladies Infectieuses Tropicales Emergentes, UM63, Centre national de la recherche scientifique 7278, IRD 198, Institut National de la Santé et de la Recherche Médicale 1095, Aix Marseille Université, Marseille</wicri:regionArea><placeName><settlement type="city">Marseille</settlement></placeName><orgName type="university">Université d'Aix-Marseille</orgName><placeName><settlement type="city">Marseille</settlement><region type="region" nuts="2">Provence-Alpes-Côte d'Azur</region></placeName></affiliation></author><author><name sortKey="Drancourt, Michel" sort="Drancourt, Michel" uniqKey="Drancourt M" first="Michel" last="Drancourt">Michel Drancourt</name><affiliation wicri:level="4"><nlm:aff id="aff1"><addr-line>Unité de Recherche sur les Maladies Infectieuses Tropicales Emergentes, UM63, Centre national de la recherche scientifique 7278, IRD 198, Institut National de la Santé et de la Recherche Médicale 1095, Aix Marseille Université, Marseille, France</addr-line></nlm:aff><country xml:lang="fr">France</country><wicri:regionArea>Unité de Recherche sur les Maladies Infectieuses Tropicales Emergentes, UM63, Centre national de la recherche scientifique 7278, IRD 198, Institut National de la Santé et de la Recherche Médicale 1095, Aix Marseille Université, Marseille</wicri:regionArea><placeName><settlement type="city">Marseille</settlement></placeName><orgName type="university">Université d'Aix-Marseille</orgName><placeName><settlement type="city">Marseille</settlement><region type="region" nuts="2">Provence-Alpes-Côte d'Azur</region></placeName></affiliation></author></analytic><series><title level="j">PLoS ONE</title><idno type="eISSN">1932-6203</idno><imprint><date when="2014">2014</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p>Paleomicrobiological investigations of a 14<sup>th</sup>-century coprolite found inside a barrel in Namur, Belgium were done using microscopy, a culture-dependent approach and metagenomics. Results were confirmed by <italic>ad hoc</italic> PCR – sequencing. Investigations yielded evidence for flora from ancient environment preserved inside the coprolite, indicated by microscopic observation of amoebal cysts, plant fibers, seeds, pollens and mold remains. Seventeen different bacterial species were cultured from the coprolite, mixing organisms known to originate from the environment and organisms known to be gut inhabitants. Metagenomic analyses yielded 107,470 reads, of which known sequences (31.9%) comprised 98.98% bacterial, 0.52% eukaryotic, 0.44% archaeal and 0.06% viral assigned reads. Most abundant bacterial phyla were <italic>Proteobacteria</italic>, <italic>Gemmatimonadetes</italic>, <italic>Actinobacteria</italic> and <italic>Bacteroidetes</italic>. The 16 S rRNA gene dataset yielded 132,000 trimmed reads and 673 Operational Taxonomic Units. Most abundant bacterial phyla observed in the 16 S rRNA gene dataset belonged to <italic>Proteobacteria</italic>, <italic>Firmicutes</italic>, <italic>Actinobacteria</italic> and <italic>Chlamydia</italic>. The Namur coprolite yielded typical gut microbiota inhabitants, intestinal parasites <italic>Trichuris</italic> and <italic>Ascaris</italic> and systemic pathogens <italic>Bartonella</italic> and <italic>Bordetella</italic>. This study adds knowledge to gut microbiota in medieval times.</p></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Drancourt, M" uniqKey="Drancourt M">M Drancourt</name></author><author><name sortKey="Raoult, D" uniqKey="Raoult D">D Raoult</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Ubaldi, M" uniqKey="Ubaldi M">M Ubaldi</name></author><author><name sortKey="Luciani, S" uniqKey="Luciani S">S Luciani</name></author><author><name sortKey="Marota, I" uniqKey="Marota I">I Marota</name></author><author><name sortKey="Fornaciari, G" uniqKey="Fornaciari G">G Fornaciari</name></author><author><name sortKey="Cano, Rj" uniqKey="Cano R">RJ Cano</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Dittmar, K" uniqKey="Dittmar K">K Dittmar</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Tito, Ry" uniqKey="Tito R">RY 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Lin</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Hyatt, D" uniqKey="Hyatt D">D Hyatt</name></author><author><name sortKey="Chen, Gl" uniqKey="Chen G">GL Chen</name></author><author><name sortKey="Locascio, Pf" uniqKey="Locascio P">PF Locascio</name></author><author><name sortKey="Land, Ml" uniqKey="Land M">ML Land</name></author><author><name sortKey="Larimer, Fw" uniqKey="Larimer F">FW Larimer</name></author></analytic></biblStruct><biblStruct></biblStruct><biblStruct><analytic><author><name sortKey="Greenberg, De" uniqKey="Greenberg D">DE Greenberg</name></author><author><name sortKey="Ding, L" uniqKey="Ding L">L Ding</name></author><author><name sortKey="Zelazny, Am" uniqKey="Zelazny A">AM Zelazny</name></author><author><name sortKey="Stock, F" uniqKey="Stock F">F Stock</name></author><author><name sortKey="Wong, A" uniqKey="Wong A">A Wong</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Greub, G" uniqKey="Greub G">G Greub</name></author></analytic></biblStruct></listBibl></div1></back></TEI><affiliations><list><country><li>France</li></country><region><li>Provence-Alpes-Côte d'Azur</li></region><settlement><li>Besançon</li><li>Marseille</li></settlement><orgName><li>Université d'Aix-Marseille</li></orgName></list><tree><country name="France"><noRegion><name sortKey="Appelt, Sandra" sort="Appelt, Sandra" uniqKey="Appelt S" first="Sandra" last="Appelt">Sandra Appelt</name></noRegion><name sortKey="Armougom, Fabrice" sort="Armougom, Fabrice" uniqKey="Armougom F" first="Fabrice" last="Armougom">Fabrice Armougom</name><name sortKey="Drancourt, Michel" sort="Drancourt, Michel" uniqKey="Drancourt M" first="Michel" last="Drancourt">Michel Drancourt</name><name sortKey="Le Bailly, Matthieu" sort="Le Bailly, Matthieu" uniqKey="Le Bailly M" first="Matthieu" last="Le Bailly">Matthieu Le Bailly</name><name sortKey="Robert, Catherine" sort="Robert, Catherine" uniqKey="Robert C" 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