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Anaerococcus jeddahensis sp. nov., a New Bacterial Species Isolated From Healthy Nomadic Bedouin Woman From Saudi Arabia

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Abstract

An understanding of the microbial diversity of the human body has generated significant interest in recent years. With the advent of MALDI-TOF mass spectrometry, high-speed sequencing, and the rebirth of microbial culture, knowledge of human microbiota is growing. Using culturomics, a strategy to explore the microbial diversity of samples, coupled with a taxono-genomic strategy, we isolated a new bacterium named Anaerococcus jeddahensis sp. nov. strain SB3T. This strain was isolated from the stool sample of a healthy nomadic Bedouin woman from Saudi Arabia. Here, we describe the characteristics of this organism, and the complete genome sequence and annotation. Strain SB3T is a Gram-positive obligate anaerobic coccus which is non-motile and non-spore forming. Fatty acid analysis shows that the major fatty acid is by far hexadecanoic acid (C16:0; 52%). Its genome is 1,903,534 bp long and has 29.70 mol% of G+C content. It contains 1756 protein-coding genes and 53 RNA genes. These results show that strategy provides a better understanding of the microorganism and that is a good methodology for microbial identification and characterization.

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Abbreviations

CSUR:

Collection de souches de l’Unité des Rickettsies

DSM:

Deutsche Sammlung von Mikroorganismen

FAME:

Fatty acid methyl ester

GC/MS:

Gas chromatography/mass spectrometry

MALDI-TOF MS:

Matrix-assisted laser-desorption/ionization time-of-flight mass spectrometry

TE buffer:

Tris–EDTA buffer

SDS:

Sodium dodecyl sulfate

MEPHI:

Microbes evolution phylogeny and infections MEPHI

AP-HM:

Assistance Publique-Hôpitaux de Marseille

DPD:

Digital protologue database

EMBL–EBI:

European Molecular Biology Laboratory–European Bioinformatics Institute

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Acknowledgements

The authors thank the Xegen Company (http://www.xegen.fr) for automating the genomic annotation process. This work has benefited from the French State support, managed by the ‘Agence Nationale pour la Recherche’ including the “Programme d’Investissement d’avenir” under the reference Méditerranée Infection 10-IAHU-03. This work was supported by Région Provence Alpes Côte d’Azur and European funding FEDER PRIMI. We thank Claudia Andrieu for her administrative assistance.

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Author notes

  1. Niokhor Dione and Sara Bellali have contributed equally.

Authors and Affiliations

  1. Aix Marseille Univ, IRD, AP-HM, MEPHI, IHU Méditerranée Infection, Marseille, France

    Niokhor Dione, Sara Bellali, Mamadou Beye, Nicholas Armstrong, Frédéric Cadoret, Jaishriram Rathored, Noémie Labas, Pierre-Edouard Fournier, Didier Raoult & Jean-Christophe Lagier

  2. Special Infectious Agents Unit, King Fahd Medical Research Center, King Abdulaziz University, Jeddah, Saudi Arabia

    Muhammad Yasir, Esam I. Azhar, Fehmida Bibi & Didier Raoult

  3. Departments of Medical Laboratory Technology and Medical Microbiology and Parasitology, King Abdulaziz University, Jeddah, Saudi Arabia

    Esam I. Azhar & Asif A. Jiman-Fatani

  4. Department of Obstetrics and Gynecology, Suliman Fageeh Hospital, Jeddah, Saudi Arabia

    Nayel Helmy

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  1. Niokhor Dione
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Correspondence to Jean-Christophe Lagier.

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Dione, N., Bellali, S., Yasir, M. et al. Anaerococcus jeddahensis sp. nov., a New Bacterial Species Isolated From Healthy Nomadic Bedouin Woman From Saudi Arabia. Curr Microbiol 75, 1419–1428 (2018). https://doi.org/10.1007/s00284-018-1538-5

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