Статья

Molecular identification of bacteria by total sequence screening: Determining the cause of death in ancient human subjects

C. Thèves, A. Senescau, S. Vanin, C. Keyser, F. Ricaut, A. Alekseev, H. Dabernat, B. Ludes, R. Fabre, E. Crubézy,
2021

Research of ancient pathogens in ancient human skeletons has been mainly carried out on the basis of one essential historical or archaeological observation, permitting specific pathogens to be targeted. Detection of ancient human pathogens without such evidence is more difficult, since the quantity and quality of ancient DNA, as well as the environmental bacteria potentially present in the sample, limit the analyses possible. Using human lung tissue and/or teeth samples from burials in eastern Siberia, dating from the end of 17th to the 19th century, we propose a methodology that includes the: 1) amplification of all 16S rDNA gene sequences present in each sample; 2) identification of all bacterial DNA sequences with a degree of identity ≥95%, according to quality criteria; 3) identification and confirmation of bacterial pathogens by the amplification of the rpoB gene; and 4) establishment of authenticity criteria for ancient DNA. This study demonstrates that from teeth samples originating from ancient human subjects, we can realise: 1) the correct identification of bacterial molecular sequence signatures by quality criteria; 2) the separation of environmental and pathogenic bacterial 16S rDNA sequences; 3) the distribution of bacterial species for each subject and for each burial; and 4) the characterisation of bacteria specific to the permafrost. Moreover, we identified three pathogens in different teeth samples by 16S rDNA sequence amplification: Bordetella sp., Streptococcus pneumoniae and Shigella dysenteriae. We tested for the presence of these pathogens by amplifying the rpoB gene. For the first time, we confirmed sequences from Bordetella pertussis in the lungs of an ancient male Siberian subject, whose grave dated from the end of the 17th century to the early 18th century. © 2011 Thèves et al.

Цитирование

Похожие публикации

Источник

Версии

  • 1. Version of Record от 2021-04-27

Метаданные

Об авторах
  • C. Thèves
    Laboratoire AMIS, UMR 5288, Université Toulouse IIII/CNRS/Université de Strasbourg, Toulouse, France
  • A. Senescau
    Laboratoire Bio Pole, Toulouse, France
  • S. Vanin
    Department of Chemical and Biological Sciences, University of Huddersfield, Huddersfield, United Kingdom
  • C. Keyser
    Institut de médecine légale, Strasbourg, France
  • F. Ricaut
    North-Eastern Federal University, Yakutsk, Sakha (Yakutia) Republic, Russian Federation
  • A. Alekseev
    Laboratoire de Bactériologie, Faculté de Médecine, Toulouse, France
  • H. Dabernat
  • B. Ludes
  • R. Fabre
  • E. Crubézy
Название журнала
  • PLoS ONE
Том
  • 6
Выпуск
  • 7
Страницы
  • -
Ключевые слова
  • DNA 16S; ribosome DNA; RNA polymerase beta subunit; Achromobacter xylosoxidans; Antiquity; article; bacterium identification; Bordetella bronchiseptica; Bordetella parapertussis; Bordetella pertussis; Bordetella petrii; cause of death; Clostridium; controlled study; DNA determination; DNA sequence; gene amplification; genotype; human; methodology; Mycobacterium marinum; nucleotide sequence; permafrost; phylogeny; polymerase chain reaction; Pseudomonas; Russian Federation; sequence homology; Shigella dysenteriae; short tandem repeat; single nucleotide polymorphism; Stenotrophomonas; Streptococcus pneumoniae; Xanthomonas; Bacteria; Bacterial Typing Techniques; Base Sequence; Bone and Bones; Cause of Death; DNA; DNA, Bacterial; DNA, Ribosomal; Environmental Microbiology; Fossils; Freezing; History, 17th Century; History, 18th Century; History, 19th Century; Humans; Male; Molecular Typing; Phylogeny; Reproducibility of Results; Reverse Transcriptase Polymerase Chain Reaction; Sequence Analysis, DNA; Siberia; Bacteria (microorganisms); Bordetella pertussis; Bordetella sp.; Shigella dysenteriae; Streptococcus pneumoniae
Тип документа
  • journal article
Тип лицензии Creative Commons
  • CC
Правовой статус документа
  • Свободная лицензия
Источник
  • scopus