Gut Microbiome of an 11th Century A.D. Pre-Columbian Andean Mummy.
Identifieur interne : 000062 ( PubMed/Corpus ); précédent : 000061; suivant : 000063Gut Microbiome of an 11th Century A.D. Pre-Columbian Andean Mummy.
Auteurs : Tasha M. Santiago-Rodriguez ; Gino Fornaciari ; Stefania Luciani ; Scot E. Dowd ; Gary A. Toranzos ; Isolina Marota ; Raul J. CanoSource :
- PloS one [ 1932-6203 ] ; 2015.
English descriptors
- KwdEn :
- MESH :
- chemical , genetics : RNA, Bacterial, RNA, Ribosomal, 16S.
- genetics : Clostridium, Drug Resistance, Bacterial.
- microbiology : Mummies.
- Gastrointestinal Microbiome, Humans.
Abstract
The process of natural mummification is a rare and unique process from which little is known about the resulting microbial community structure. In the present study, we characterized the microbiome of paleofeces, and ascending, transverse and descending colon of an 11th century A.D. pre-Columbian Andean mummy by 16S rRNA gene high-throughput sequencing and metagenomics. Firmicutes were the most abundant bacterial group, with Clostridium spp. comprising up to 96.2% of the mummified gut, while Turicibacter spp. represented 89.2% of the bacteria identified in the paleofeces. Microbiome profile of the paleofeces was unique when compared to previously characterized coprolites that did not undergo natural mummification. We identified DNA sequences homologous to Clostridium botulinum, Trypanosoma cruzi and human papillomaviruses (HPVs). Unexpectedly, putative antibiotic-resistance genes including beta-lactamases, penicillin-binding proteins, resistance to fosfomycin, chloramphenicol, aminoglycosides, macrolides, sulfa, quinolones, tetracycline and vancomycin, and multi-drug transporters, were also identified. The presence of putative antibiotic-resistance genes suggests that resistance may not necessarily be associated with a selective pressure of antibiotics or contact with European cultures. Identification of pathogens and antibiotic-resistance genes in ancient human specimens will aid in the understanding of the evolution of pathogens as a way to treat and prevent diseases caused by bacteria, microbial eukaryotes and viruses.
DOI: 10.1371/journal.pone.0138135
PubMed: 26422376
Links to Exploration step
pubmed:26422376Le document en format XML
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Santiago-Rodriguez</name><affiliation><nlm:affiliation>Department of Pathology, University of California San Diego, San Diego, CA, United States of America.</nlm:affiliation></affiliation></author><author><name sortKey="Fornaciari, Gino" sort="Fornaciari, Gino" uniqKey="Fornaciari G" first="Gino" last="Fornaciari">Gino Fornaciari</name><affiliation><nlm:affiliation>Department of Translational Research on New Technologies in Medicine and Surgery, Division of Paleopathology, University of Pisa, Pisa, Italy; Center for Anthropological, Paleopathological and Historical Studies of the Sardinian and Mediterranean Populations, Department of Biomedical Sciences, University of Sassari, Sassari, Italy.</nlm:affiliation></affiliation></author><author><name sortKey="Luciani, Stefania" sort="Luciani, Stefania" uniqKey="Luciani S" first="Stefania" last="Luciani">Stefania Luciani</name><affiliation><nlm:affiliation>Laboratory of Molecular Archaeo-Anthropology/ancient DNA, School of Biosciences and Veterinary Medicine, University of Camerino, Camerino, Italy.</nlm:affiliation></affiliation></author><author><name sortKey="Dowd, Scot E" sort="Dowd, Scot E" uniqKey="Dowd S" first="Scot E" last="Dowd">Scot E. 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Santiago-Rodriguez</name><affiliation><nlm:affiliation>Department of Pathology, University of California San Diego, San Diego, CA, United States of America.</nlm:affiliation></affiliation></author><author><name sortKey="Fornaciari, Gino" sort="Fornaciari, Gino" uniqKey="Fornaciari G" first="Gino" last="Fornaciari">Gino Fornaciari</name><affiliation><nlm:affiliation>Department of Translational Research on New Technologies in Medicine and Surgery, Division of Paleopathology, University of Pisa, Pisa, Italy; Center for Anthropological, Paleopathological and Historical Studies of the Sardinian and Mediterranean Populations, Department of Biomedical Sciences, University of Sassari, Sassari, Italy.</nlm:affiliation></affiliation></author><author><name sortKey="Luciani, Stefania" sort="Luciani, Stefania" uniqKey="Luciani S" first="Stefania" last="Luciani">Stefania Luciani</name><affiliation><nlm:affiliation>Laboratory of Molecular Archaeo-Anthropology/ancient DNA, School of Biosciences and Veterinary Medicine, University of Camerino, Camerino, Italy.</nlm:affiliation></affiliation></author><author><name sortKey="Dowd, Scot E" sort="Dowd, Scot E" uniqKey="Dowd S" first="Scot E" last="Dowd">Scot E. Dowd</name><affiliation><nlm:affiliation>Molecular Research LP (MR DNA), Shallowater, Texas, United States of America.</nlm:affiliation></affiliation></author><author><name sortKey="Toranzos, Gary A" sort="Toranzos, Gary A" uniqKey="Toranzos G" first="Gary A" last="Toranzos">Gary A. Toranzos</name><affiliation><nlm:affiliation>Department of Biology, University of Puerto Rico, San Juan, PR.</nlm:affiliation></affiliation></author><author><name sortKey="Marota, Isolina" sort="Marota, Isolina" uniqKey="Marota I" first="Isolina" last="Marota">Isolina Marota</name><affiliation><nlm:affiliation>Laboratory of Molecular Archaeo-Anthropology/ancient DNA, School of Biosciences and Veterinary Medicine, University of Camerino, Camerino, Italy.</nlm:affiliation></affiliation></author><author><name sortKey="Cano, Raul J" sort="Cano, Raul J" uniqKey="Cano R" first="Raul J" last="Cano">Raul J. Cano</name><affiliation><nlm:affiliation>Center for Applications in Biotechnology, California Polytechnic State University, San Luis Obispo, CA, United States of America.</nlm:affiliation></affiliation></author></analytic><series><title level="j">PloS one</title><idno type="eISSN">1932-6203</idno><imprint><date when="2015" type="published">2015</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Clostridium (genetics)</term><term>Drug Resistance, Bacterial (genetics)</term><term>Gastrointestinal Microbiome</term><term>Humans</term><term>Mummies (microbiology)</term><term>RNA, Bacterial (genetics)</term><term>RNA, Ribosomal, 16S (genetics)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>RNA, Bacterial</term><term>RNA, Ribosomal, 16S</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Clostridium</term><term>Drug Resistance, Bacterial</term></keywords><keywords scheme="MESH" qualifier="microbiology" xml:lang="en"><term>Mummies</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Gastrointestinal Microbiome</term><term>Humans</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">The process of natural mummification is a rare and unique process from which little is known about the resulting microbial community structure. In the present study, we characterized the microbiome of paleofeces, and ascending, transverse and descending colon of an 11th century A.D. pre-Columbian Andean mummy by 16S rRNA gene high-throughput sequencing and metagenomics. Firmicutes were the most abundant bacterial group, with Clostridium spp. comprising up to 96.2% of the mummified gut, while Turicibacter spp. represented 89.2% of the bacteria identified in the paleofeces. Microbiome profile of the paleofeces was unique when compared to previously characterized coprolites that did not undergo natural mummification. We identified DNA sequences homologous to Clostridium botulinum, Trypanosoma cruzi and human papillomaviruses (HPVs). Unexpectedly, putative antibiotic-resistance genes including beta-lactamases, penicillin-binding proteins, resistance to fosfomycin, chloramphenicol, aminoglycosides, macrolides, sulfa, quinolones, tetracycline and vancomycin, and multi-drug transporters, were also identified. The presence of putative antibiotic-resistance genes suggests that resistance may not necessarily be associated with a selective pressure of antibiotics or contact with European cultures. Identification of pathogens and antibiotic-resistance genes in ancient human specimens will aid in the understanding of the evolution of pathogens as a way to treat and prevent diseases caused by bacteria, microbial eukaryotes and viruses.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">26422376</PMID><DateCreated><Year>2015</Year><Month>10</Month><Day>01</Day></DateCreated><DateCompleted><Year>2016</Year><Month>05</Month><Day>27</Day></DateCompleted><DateRevised><Year>2015</Year><Month>10</Month><Day>03</Day></DateRevised><Article PubModel="Electronic-eCollection"><Journal><ISSN IssnType="Electronic">1932-6203</ISSN><JournalIssue CitedMedium="Internet"><Volume>10</Volume><Issue>9</Issue><PubDate><Year>2015</Year></PubDate></JournalIssue><Title>PloS one</Title><ISOAbbreviation>PLoS ONE</ISOAbbreviation></Journal><ArticleTitle>Gut Microbiome of an 11th Century A.D. Pre-Columbian Andean Mummy.</ArticleTitle><Pagination><MedlinePgn>e0138135</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1371/journal.pone.0138135</ELocationID><Abstract><AbstractText>The process of natural mummification is a rare and unique process from which little is known about the resulting microbial community structure. In the present study, we characterized the microbiome of paleofeces, and ascending, transverse and descending colon of an 11th century A.D. pre-Columbian Andean mummy by 16S rRNA gene high-throughput sequencing and metagenomics. Firmicutes were the most abundant bacterial group, with Clostridium spp. comprising up to 96.2% of the mummified gut, while Turicibacter spp. represented 89.2% of the bacteria identified in the paleofeces. Microbiome profile of the paleofeces was unique when compared to previously characterized coprolites that did not undergo natural mummification. We identified DNA sequences homologous to Clostridium botulinum, Trypanosoma cruzi and human papillomaviruses (HPVs). Unexpectedly, putative antibiotic-resistance genes including beta-lactamases, penicillin-binding proteins, resistance to fosfomycin, chloramphenicol, aminoglycosides, macrolides, sulfa, quinolones, tetracycline and vancomycin, and multi-drug transporters, were also identified. The presence of putative antibiotic-resistance genes suggests that resistance may not necessarily be associated with a selective pressure of antibiotics or contact with European cultures. Identification of pathogens and antibiotic-resistance genes in ancient human specimens will aid in the understanding of the evolution of pathogens as a way to treat and prevent diseases caused by bacteria, microbial eukaryotes and viruses.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Santiago-Rodriguez</LastName><ForeName>Tasha M</ForeName><Initials>TM</Initials><AffiliationInfo><Affiliation>Department of Pathology, University of California San Diego, San Diego, CA, United States of America.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Fornaciari</LastName><ForeName>Gino</ForeName><Initials>G</Initials><AffiliationInfo><Affiliation>Department of Translational Research on New Technologies in Medicine and Surgery, Division of Paleopathology, University of Pisa, Pisa, Italy; Center for Anthropological, Paleopathological and Historical Studies of the Sardinian and Mediterranean Populations, Department of Biomedical Sciences, University of Sassari, Sassari, Italy.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Luciani</LastName><ForeName>Stefania</ForeName><Initials>S</Initials><AffiliationInfo><Affiliation>Laboratory of Molecular Archaeo-Anthropology/ancient DNA, School of Biosciences and Veterinary Medicine, University of Camerino, Camerino, Italy.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Dowd</LastName><ForeName>Scot E</ForeName><Initials>SE</Initials><AffiliationInfo><Affiliation>Molecular Research LP (MR DNA), Shallowater, Texas, United States of America.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Toranzos</LastName><ForeName>Gary A</ForeName><Initials>GA</Initials><AffiliationInfo><Affiliation>Department of Biology, University of Puerto Rico, San Juan, PR.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Marota</LastName><ForeName>Isolina</ForeName><Initials>I</Initials><AffiliationInfo><Affiliation>Laboratory of Molecular Archaeo-Anthropology/ancient DNA, School of Biosciences and Veterinary Medicine, University of Camerino, Camerino, Italy.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Cano</LastName><ForeName>Raul J</ForeName><Initials>RJ</Initials><AffiliationInfo><Affiliation>Center for Applications in Biotechnology, California Polytechnic State University, San Luis Obispo, CA, United States of America.</Affiliation></AffiliationInfo></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2015</Year><Month>09</Month><Day>30</Day></ArticleDate></Article><MedlineJournalInfo><Country>United States</Country><MedlineTA>PLoS One</MedlineTA><NlmUniqueID>101285081</NlmUniqueID><ISSNLinking>1932-6203</ISSNLinking></MedlineJournalInfo><ChemicalList><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D012329">RNA, Bacterial</NameOfSubstance></Chemical><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D012336">RNA, Ribosomal, 16S</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><CommentsCorrectionsList><CommentsCorrections RefType="Cites"><RefSource>Am J Phys Anthropol. 1998 Nov;107(3):285-95</RefSource><PMID Version="1">9821493</PMID></CommentsCorrections><CommentsCorrections RefType="Cites"><RefSource>Nat Methods. 2010 May;7(5):335-6</RefSource><PMID Version="1">20383131</PMID></CommentsCorrections><CommentsCorrections RefType="Cites"><RefSource>Nat Methods. 2011 Sep;8(9):761-3</RefSource><PMID Version="1">21765408</PMID></CommentsCorrections><CommentsCorrections RefType="Cites"><RefSource>Nature. 2011 Sep 22;477(7365):457-61</RefSource><PMID 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MajorTopicYN="Y">microbiology</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D012329" MajorTopicYN="N">RNA, Bacterial</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D012336" MajorTopicYN="N">RNA, Ribosomal, 16S</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName></MeshHeading></MeshHeadingList><OtherID Source="NLM">PMC4589460</OtherID></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="received"><Year>2015</Year><Month>06</Month><Day>12</Day></PubMedPubDate><PubMedPubDate PubStatus="accepted"><Year>2015</Year><Month>08</Month><Day>25</Day></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2015</Year><Month>10</Month><Day>1</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="pubmed"><Year>2015</Year><Month>10</Month><Day>1</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate 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