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  1. Article ; Online: The discovery of

    Hassani, Yasmine / Aboudharam, Gerard / Drancourt, Michel / Grine, Ghiles

    iScience

    2024  Volume 27, Issue 4, Page(s) 109488

    Abstract: To further assess the spectrum of nanoarchaea in human microbiota, we prospectively searched for nanoarchaea in 110 leftover stool specimens, using the complementary approaches of PCR-sequencing screening, ... ...

    Abstract To further assess the spectrum of nanoarchaea in human microbiota, we prospectively searched for nanoarchaea in 110 leftover stool specimens, using the complementary approaches of PCR-sequencing screening, fluorescent
    Language English
    Publishing date 2024-03-11
    Publishing country United States
    Document type Journal Article
    ISSN 2589-0042
    ISSN (online) 2589-0042
    DOI 10.1016/j.isci.2024.109488
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  2. Article ; Online: Current knowledge and clinical perspectives for a unique new phylum: Nanaorchaeota.

    Hassani, Yasmine / Aboudharam, Gérard / Drancourt, Michel / Grine, Ghiles

    Microbiological research

    2023  Volume 276, Page(s) 127459

    Abstract: Nanoarchaea measuring less than 500 nm and encasing an average 600-kb compact genome have been studied for twenty years, after an estimated 4193-million-year evolution. Comprising only four co-cultured representatives, these symbiotic organisms initially ...

    Abstract Nanoarchaea measuring less than 500 nm and encasing an average 600-kb compact genome have been studied for twenty years, after an estimated 4193-million-year evolution. Comprising only four co-cultured representatives, these symbiotic organisms initially detected in deep-sea hydrothermal vents and geothermal springs, have been further distributed in various environmental ecosystems worldwide. Recent isolation by co-culture of Nanopusillus massiliensis from the unique ecosystem of the human oral cavity, prompted us to review the evolutionary diversity of nanaorchaea resulting in a rapidly evolving taxonomiy. Regardless of their ecological niche, all nanoarchaea share limited metabolic capacities correlating with an obligate ectosymbiotic or parasitic lifestyle; focusing on the dynamics of nanoarchaea-bacteria nanoarchaea-archaea interactions at the morphological and metabolic levels; highlighting proteins involved in nanoarchaea attachment to the hosts, as well metabolic exchanges between both organisms; and highlighting clinical nanoarchaeology, an emerging field of research in the frame of the recent discovery of Candidate Phyla radiation (CPR) in human microbiota. Future studies in clinical nanobiology will expand knowledge of the nanaorchaea repertoire associated with human microbiota and diseases, to improve our understanding of the diversity of these nanoorganims and their intreactions with microbiota and host tissues.
    MeSH term(s) Humans ; Archaea/genetics ; Bacteria/genetics ; Bacteria/metabolism ; Microbiota ; Symbiosis ; Phylogeny
    Language English
    Publishing date 2023-07-26
    Publishing country Germany
    Document type Journal Article ; Review
    ZDB-ID 1189614-0
    ISSN 1618-0623 ; 0944-5013
    ISSN (online) 1618-0623
    ISSN 0944-5013
    DOI 10.1016/j.micres.2023.127459
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  3. Article ; Online: Current knowledge and clinical perspectives for a unique new phylum: Nanaorchaeota

    Hassani, Yasmine / Aboudharam, Gérard / Drancourt, Michel / Grine, Ghiles

    Microbiological Research. 2023 Nov., v. 276 p.127459-

    2023  

    Abstract: Nanoarchaea measuring less than 500 nm and encasing an average 600-kb compact genome have been studied for twenty years, after an estimated 4193-million-year evolution. Comprising only four co-cultured representatives, these symbiotic organisms initially ...

    Abstract Nanoarchaea measuring less than 500 nm and encasing an average 600-kb compact genome have been studied for twenty years, after an estimated 4193-million-year evolution. Comprising only four co-cultured representatives, these symbiotic organisms initially detected in deep-sea hydrothermal vents and geothermal springs, have been further distributed in various environmental ecosystems worldwide. Recent isolation by co-culture of Nanopusillus massiliensis from the unique ecosystem of the human oral cavity, prompted us to review the evolutionary diversity of nanaorchaea resulting in a rapidly evolving taxonomiy. Regardless of their ecological niche, all nanoarchaea share limited metabolic capacities correlating with an obligate ectosymbiotic or parasitic lifestyle; focusing on the dynamics of nanoarchaea-bacteria nanoarchaea-archaea interactions at the morphological and metabolic levels; highlighting proteins involved in nanoarchaea attachment to the hosts, as well metabolic exchanges between both organisms; and highlighting clinical nanoarchaeology, an emerging field of research in the frame of the recent discovery of Candidate Phyla radiation (CPR) in human microbiota. Future studies in clinical nanobiology will expand knowledge of the nanaorchaea repertoire associated with human microbiota and diseases, to improve our understanding of the diversity of these nanoorganims and their intreactions with microbiota and host tissues.
    Keywords coculture ; ecosystems ; evolution ; genome ; humans ; microorganisms ; mouth ; niches ; parasitism ; Nanoarchaea ; Nanopusillus massiliensis ; Clinical nanobiology ; Environmental microbiology ; Microbiota ; Nanoorganims
    Language English
    Dates of publication 2023-11
    Publishing place Elsevier GmbH
    Document type Article ; Online
    ZDB-ID 1189614-0
    ISSN 1618-0623 ; 0944-5013
    ISSN (online) 1618-0623
    ISSN 0944-5013
    DOI 10.1016/j.micres.2023.127459
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  4. Article ; Online: Sources of Materials for Paleomicrobiology.

    Aboudharam, Gérard

    Microbiology spectrum

    2016  Volume 4, Issue 4

    Abstract: The Paleomicrobiology establishes the diagnosis of ancient infectious diseases by studying ancient pathogens. This recent science also analyzes the evolution of these pathogens, virulence, and their adaptation to their habitat and their vectors. The DNA ... ...

    Abstract The Paleomicrobiology establishes the diagnosis of ancient infectious diseases by studying ancient pathogens. This recent science also analyzes the evolution of these pathogens, virulence, and their adaptation to their habitat and their vectors. The DNA persists a long time after the death of an organism despite the chemical and enzymatic degradation. The possibility of sequencing bacterial, viral, parasitic and archaeal DNA molecules persists over time.Various sources are used for these studies: frozen tissue and particularly human tissue are a exceptional source for the analysis because at very low temperatures, all biological activity is suspended. The coprolites are a source of choice for studying the human microbiome. Other sources, the ancient bones are the most abundant, however, they may contain only small amounts of DNA due to natural leaching. When the use of the tooth is possible, is a particularly interesting source because of its highly mineralized structure, which gives greater persistence than bone. The calcified tartar deposited on teeth is a source of interest for the study of oral microbiome.All these sources are subject to precautions (gloves and masks hat) at the time of sampling to avoid cross contamination and also be listed in the most precise way because they are precious and rare.
    MeSH term(s) Animals ; Archaea/genetics ; Bacteria/genetics ; Communicable Diseases/diagnosis ; Communicable Diseases/microbiology ; DNA/genetics ; DNA/isolation & purification ; Fossils ; Humans ; Microbiological Techniques/methods ; Paleopathology/methods ; Parasites/genetics ; Specimen Handling/methods ; Viruses/genetics
    Chemical Substances DNA (9007-49-2)
    Language English
    Publishing date 2016-10-10
    Publishing country United States
    Document type Journal Article ; Review
    ISSN 2165-0497
    ISSN (online) 2165-0497
    DOI 10.1128/microbiolspec.PoH-0016-2015
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  5. Article ; Online: Culturing clinical Methanobrevibacter smithii using GG medium in a minimal anaerobe atmosphere

    Pilliol, Virginie / Guindo, Cheick Oumar / Terrer, Elodie / Aboudharam, Gérard / Drancourt, Michel / Grine, Ghiles

    Journal of Microbiological Methods. 2023 Apr., v. 207 p.106704-

    2023  

    Abstract: Methanobrevibacter smithii (M. smithii), the most prevalent and abundant gut methanogen, detoxifies hydrogen into methane and is, therefore, of paramount importance for the equilibrium of the gut microbiota. The isolation by culture of M. smithii has ... ...

    Abstract Methanobrevibacter smithii (M. smithii), the most prevalent and abundant gut methanogen, detoxifies hydrogen into methane and is, therefore, of paramount importance for the equilibrium of the gut microbiota. The isolation by culture of M. smithii has routinely relied upon hydrogen‑carbon dioxide-enriched, oxygen-deprived atmospheres. In this study, we developed a medium referred to as “GG”, which allowed for M. smithii growth and isolation by culture in an oxygen-deprived atmosphere, with no supply of either hydrogen or carbon dioxide, making it easier to detect M. smithii by culture in clinical microbiology laboratories.
    Keywords Methanobrevibacter smithii ; carbon dioxide ; digestive system ; hydrogen ; intestinal microorganisms ; methane ; methanogens ; GG medium ; Atmosphere ; Clinical microbiology
    Language English
    Dates of publication 2023-04
    Publishing place Elsevier B.V.
    Document type Article ; Online
    Note Use and reproduction
    ZDB-ID 604916-3
    ISSN 1872-8359 ; 0167-7012
    ISSN (online) 1872-8359
    ISSN 0167-7012
    DOI 10.1016/j.mimet.2023.106704
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  6. Article: Methanobrevibacter massiliense

    Pilliol, Virginie / Beye, Mamadou / Terlier, Laureline / Balmelle, Julien / Kacel, Idir / Lan, Romain / Aboudharam, Gérard / Grine, Ghiles / Terrer, Elodie

    Microorganisms

    2024  Volume 12, Issue 1

    Abstract: Among oral microbiota methanogens, ...

    Abstract Among oral microbiota methanogens,
    Language English
    Publishing date 2024-01-20
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 2720891-6
    ISSN 2076-2607
    ISSN 2076-2607
    DOI 10.3390/microorganisms12010215
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  7. Article ; Online: Retraction Note: Peri-implantitis-associated methanogens: a preliminary report.

    Belkacemi, Souad / Mazel, Anthony / Tardivo, Delphine / Tavitian, Patrick / Stephan, Grégory / Bianca, Giancarlo / Terrer, Elodie / Drancourt, Michel / Aboudharam, Gérard

    Scientific reports

    2024  Volume 14, Issue 1, Page(s) 1355

    Language English
    Publishing date 2024-01-16
    Publishing country England
    Document type Retraction of Publication
    ZDB-ID 2615211-3
    ISSN 2045-2322 ; 2045-2322
    ISSN (online) 2045-2322
    ISSN 2045-2322
    DOI 10.1038/s41598-024-51888-w
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  8. Article ; Online: Use of rapid diagnostic tests for the detection of ancient malaria infections in dental pulp from the sixth century in Versailles, France.

    Boualam, Mahmoud A / Heitzmann, Annick / Mousset, Florence / Aboudharam, Gérard / Drancourt, Michel / Pradines, Bruno

    Malaria journal

    2023  Volume 22, Issue 1, Page(s) 151

    Abstract: Background: Paleomicrobiological data have clarified that Plasmodium spp. was circulating in the past in southern European populations, which are now devoid of malaria. The aim of this study was to evaluate the efficacy of immunodetection and, more ... ...

    Abstract Background: Paleomicrobiological data have clarified that Plasmodium spp. was circulating in the past in southern European populations, which are now devoid of malaria. The aim of this study was to evaluate the efficacy of immunodetection and, more particularly, rapid diagnostic tests (RDT), in order to further assess Plasmodium infections in ancient northern European populations.
    Methods: A commercially available RDT, PALUTOP
    Results: Plasmodium antigens were detected in 14/39 (35.9%) individuals, including Plasmodium vivax antigens in 11 individuals and Plasmodium falciparum antigens co-detected in two individuals, while Pan-Plasmodium antigens were detected in three individuals. Controls all yielded expected results.
    Conclusions: The data reported here showed that RDTs are a suitable tool for detecting Plasmodium spp. antigens in ancient dental pulp samples, and demonstrated the existence of malaria in Versailles, France, in the sixth century. Plasmodium vivax, which is regarded as being responsible for an attenuated form of malaria and less deadly forms, was the most prevalent species. This illustrates, for the first time in ancient populations, co-infection with P. falciparum, bringing into question the climate-driven ecosystems prevailing at that time in the Versailles area.
    MeSH term(s) Humans ; Dental Pulp ; Ecosystem ; Rapid Diagnostic Tests ; Malaria ; Malaria, Falciparum ; France ; Antigens, Protozoan
    Chemical Substances Antigens, Protozoan
    Language English
    Publishing date 2023-05-09
    Publishing country England
    Document type Journal Article
    ZDB-ID 2091229-8
    ISSN 1475-2875 ; 1475-2875
    ISSN (online) 1475-2875
    ISSN 1475-2875
    DOI 10.1186/s12936-023-04582-7
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  9. Article: Culturing the Human Oral Microbiota, Updating Methodologies and Cultivation Techniques.

    Khelaifia, Saber / Virginie, Pilliol / Belkacemi, Souad / Tassery, Herve / Terrer, Elodie / Aboudharam, Gérard

    Microorganisms

    2023  Volume 11, Issue 4

    Abstract: Recent years have been marked by a paradigm shift in the study of the human microbiota, with a re-emergence of culture-dependent approaches. Numerous studies have been devoted to the human microbiota, while studies on the oral microbiota still remain ... ...

    Abstract Recent years have been marked by a paradigm shift in the study of the human microbiota, with a re-emergence of culture-dependent approaches. Numerous studies have been devoted to the human microbiota, while studies on the oral microbiota still remain limited. Indeed, various techniques described in the literature may enable an exhaustive study of the microbial composition of a complex ecosystem. In this article, we report different methodologies and culture media described in the literature that can be applied to study the oral microbiota by culture. We report on specific methodologies for targeted culture and specific culture techniques and selection methodologies for cultivating members of the three kingdoms of life commonly found in the human oral cavity, namely, eukaryota, bacteria and archaea. This bibliographic review aims to bring together the various techniques described in the literature, enabling a comprehensive study of the oral microbiota in order to demonstrate its involvement in oral health and diseases.
    Language English
    Publishing date 2023-03-24
    Publishing country Switzerland
    Document type Journal Article ; Review
    ZDB-ID 2720891-6
    ISSN 2076-2607
    ISSN 2076-2607
    DOI 10.3390/microorganisms11040836
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  10. Article ; Online: Culturing clinical Methanobrevibacter smithii using GG medium in a minimal anaerobe atmosphere.

    Pilliol, Virginie / Guindo, Cheick Oumar / Terrer, Elodie / Aboudharam, Gérard / Drancourt, Michel / Grine, Ghiles

    Journal of microbiological methods

    2023  Volume 207, Page(s) 106704

    Abstract: Methanobrevibacter smithii (M. smithii), the most prevalent and abundant gut methanogen, detoxifies hydrogen into methane and is, therefore, of paramount importance for the equilibrium of the gut microbiota. The isolation by culture of M. smithii has ... ...

    Abstract Methanobrevibacter smithii (M. smithii), the most prevalent and abundant gut methanogen, detoxifies hydrogen into methane and is, therefore, of paramount importance for the equilibrium of the gut microbiota. The isolation by culture of M. smithii has routinely relied upon hydrogen‑carbon dioxide-enriched, oxygen-deprived atmospheres. In this study, we developed a medium referred to as "GG", which allowed for M. smithii growth and isolation by culture in an oxygen-deprived atmosphere, with no supply of either hydrogen or carbon dioxide, making it easier to detect M. smithii by culture in clinical microbiology laboratories.
    MeSH term(s) Methanobrevibacter ; Carbon Dioxide ; Bacteria, Anaerobic ; Gastrointestinal Microbiome ; Hydrogen
    Chemical Substances Carbon Dioxide (142M471B3J) ; Hydrogen (7YNJ3PO35Z)
    Language English
    Publishing date 2023-03-11
    Publishing country Netherlands
    Document type Journal Article
    ZDB-ID 604916-3
    ISSN 1872-8359 ; 0167-7012
    ISSN (online) 1872-8359
    ISSN 0167-7012
    DOI 10.1016/j.mimet.2023.106704
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