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Hasnaoui B, Diarra AZ, Makouloutou-Nzassi P, Bérenger JM, Hamame A, Ngoubangoye B, Gaye M, Davoust B, Mediannikov O, Lekana-Douki JB, Parola P. Identification of termites from Gabon using MALDI-TOF MS. Heliyon 2024; 10:e28081. [PMID: 38524549 PMCID: PMC10957415 DOI: 10.1016/j.heliyon.2024.e28081] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/05/2023] [Revised: 03/11/2024] [Accepted: 03/12/2024] [Indexed: 03/26/2024] Open
Abstract
Termites are one of the most common pests that damage wood and other cellulosic materials. Although Africa has more varieties of termite species than any other continent, few entomological studies have been conducted in Gabon. Identifying termites poses significant difficulties for entomologists. The aim of this study was to evaluate the reliability and confirm the significance of MALDI-TOF MS in identifying fresh termites collected in equatorial Africa. A total of 108 termites were collected from 13 termite nests during a field mission in 2021 in Lekedi and Bongoville, Gabon. Termites were morphologically identified and subjected to MALDI-TOF MS, then molecular analyses using the COI and 12S rRNA genes. Four termite species were morphologically identified in this study: Pseudacanthotermes militaris, Macrotermes muelleri, Macrotermes nobilis, and Noditermes indoensis. However, when using molecular biology, only three species were identified, namely Macrotermes bellicosus, P. militaris, and N. indoensis, because the specimens initially identified as M. muelleri and M. nobilis were found to be M. bellicosus. The MALDI-TOF MS spectral profiles of the termites were all of good quality, with intra-species reproducibility and inter-species specificity. The spectra of 98 termites were blind tested against our upgraded database, which included the spectra of ten termite specimens. All tested spectra were correctly matched to their respective species, with log score values (LSVs) ranging from 1.649 to 2.592. The mean LSV was 2.215 ± 0.203, and the median was 2.241. However, 95.91% (94/98) of our spectra had LSVs above 1.8. This study demonstrates how a proteomic approach can overcome termites' molecular and morphological identification limitations and serve as a useful taxonomic tool.
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Affiliation(s)
- Bouthaina Hasnaoui
- Aix-Marseille Univ, IRD, SSA, AP-HM, VITROME, Marseille, France
- IHU Méditerranée Infection, Marseille, France
| | - Adama Zan Diarra
- Aix-Marseille Univ, IRD, SSA, AP-HM, VITROME, Marseille, France
- IHU Méditerranée Infection, Marseille, France
| | - Patrice Makouloutou-Nzassi
- Unité de Recherches en Ecologie de La Santé (URES), Centre Interdisciplinaire de Recherches Médicales de Franceville, B.P. 769, Franceville, Gabon
- Institut de Recherches en Ecologie Tropicale (IRET-CENAREST), B.P. 13354, Libreville, Gabon
| | - Jean-Michel Bérenger
- Aix-Marseille Univ, IRD, SSA, AP-HM, VITROME, Marseille, France
- IHU Méditerranée Infection, Marseille, France
| | - Afaf Hamame
- IHU Méditerranée Infection, Marseille, France
- Aix-Marseille Univ, IRD, AP-HM, MEPHI, Marseille, France
| | - Barthelemy Ngoubangoye
- Centre de Primatologie, Centre Interdisciplinaire de Recherches Médicales de Franceville, B.P. 769, Franceville, Gabon
| | - Mapenda Gaye
- IHU Méditerranée Infection, Marseille, France
- Aix-Marseille Univ, IRD, AP-HM, MEPHI, Marseille, France
| | - Bernard Davoust
- IHU Méditerranée Infection, Marseille, France
- Aix-Marseille Univ, IRD, AP-HM, MEPHI, Marseille, France
| | - Oleg Mediannikov
- IHU Méditerranée Infection, Marseille, France
- Aix-Marseille Univ, IRD, AP-HM, MEPHI, Marseille, France
| | - Jean Bernard Lekana-Douki
- Unité D’Evolution, Epidémiologie et Résistances Parasitaires, Centre Interdisciplinaire de Recherches Médicales de Franceville, B.P. 769, Franceville, Gabon
- Département de Parasitologie- Mycologie, Université des Sciences de La Santé, B.P. 4009, Libreville, Gabon
| | - Philippe Parola
- Aix-Marseille Univ, IRD, SSA, AP-HM, VITROME, Marseille, France
- IHU Méditerranée Infection, Marseille, France
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Gutierrez R, Landa M, Sambou M, Bassane H, Dia N, Djalo AS, Domenichini C, Fall G, Faye M, Faye O, Fernandez-Garcia MD, Flevaud L, Loko J, Mediannikov O, Mize V, Ndiaye K, Niang M, Raoult D, Rocaspana M, Villen S, Sall AA, Fenollar F. Aetiology of non-malaria acute febrile illness fever in children in rural Guinea-Bissau: a prospective cross-sectional investigation. Front Epidemiol 2024; 4:1309149. [PMID: 38577653 PMCID: PMC10991789 DOI: 10.3389/fepid.2024.1309149] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/07/2023] [Accepted: 03/06/2024] [Indexed: 04/06/2024]
Abstract
Background With growing use of parasitological tests to detect malaria and decreasing incidence of the disease in Africa; it becomes necessary to increase the understanding of causes of non-malaria acute febrile illness (NMAFI) towards providing appropriate case management. This research investigates causes of NMAFI in pediatric out-patients in rural Guinea-Bissau. Methods Children 0-5 years presenting acute fever (≥38°) or history of fever, negative malaria rapid diagnostic test (mRDT) and no signs of specific disease were recruited at the out-patient clinic of 3 health facilities in Bafatá province during 54 consecutive weeks (dry and rainy season). Medical history was recorded and blood, nasopharyngeal, stool and urine samples were collected and tested for the presence of 38 different potential aetiological causes of fever. Results Samples from 741 children were analysed, the protocol was successful in determining a probable aetiological cause of acute fever in 544 (73.61%) cases. Respiratory viruses were the most frequently identified pathogens, present in the nasopharynx samples of 435 (58.86%) cases, followed by bacteria detected in 167 (22.60%) samples. Despite presenting negative mRDTs, P. falciparum was identified in samples of 24 (3.25%) patients. Conclusions This research provides a description of the aetiological causes of NMAFI in West African context. Evidence of viral infections were more commonly found than bacteria or parasites.
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Affiliation(s)
- Rui Gutierrez
- Médecins Sans Frontières, Barcelona Athens Operational Centre, Barcelona, Spain
| | - Mariana Landa
- Médecins Sans Frontières, Barcelona Athens Operational Centre, Barcelona, Spain
| | - Masse Sambou
- Vitrome, Aix Marseille Univ, Dakar, Senegal
- Institute de Recherche Pour le Development, IHU Méditerranée Infection, Dakar, Senegal
| | - Hubert Bassane
- Vitrome, Aix Marseille Univ, Dakar, Senegal
- Institute de Recherche Pour le Development, IHU Méditerranée Infection, Dakar, Senegal
| | - Ndongo Dia
- Virology Pole, Institut Pasteur Dakar, Dakar, Senegal
| | - Alfa Saliu Djalo
- Médecins Sans Frontières, Barcelona Athens Operational Centre, Barcelona, Spain
| | - Chiara Domenichini
- Médecins Sans Frontières, Barcelona Athens Operational Centre, Barcelona, Spain
| | - Gamou Fall
- Virology Pole, Institut Pasteur Dakar, Dakar, Senegal
| | - Martin Faye
- Virology Pole, Institut Pasteur Dakar, Dakar, Senegal
| | - Ousmane Faye
- Virology Pole, Institut Pasteur Dakar, Dakar, Senegal
| | | | - Laurence Flevaud
- Médecins Sans Frontières, Barcelona Athens Operational Centre, Barcelona, Spain
| | - Jerlie Loko
- Médecins Sans Frontières, Barcelona Athens Operational Centre, Barcelona, Spain
| | - Oleg Mediannikov
- Vitrome, Aix Marseille Univ, Marseille, France
- Institute de Recherche Pour le Development, IHU Méditerranée Infection, Marseille, France
| | - Valerie Mize
- Médecins Sans Frontières, Barcelona Athens Operational Centre, Barcelona, Spain
| | - Kader Ndiaye
- Virology Pole, Institut Pasteur Dakar, Dakar, Senegal
| | - Mbayame Niang
- Virology Pole, Institut Pasteur Dakar, Dakar, Senegal
| | - Didier Raoult
- Vitrome, Aix Marseille Univ, Marseille, France
- Institute de Recherche Pour le Development, IHU Méditerranée Infection, Marseille, France
| | - Merce Rocaspana
- Médecins Sans Frontières, Barcelona Athens Operational Centre, Barcelona, Spain
| | - Susana Villen
- Médecins Sans Frontières, Barcelona Athens Operational Centre, Barcelona, Spain
| | | | - Florence Fenollar
- Vitrome, Aix Marseille Univ, Marseille, France
- Institute de Recherche Pour le Development, IHU Méditerranée Infection, Marseille, France
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Abou Chacra L, Benatmane A, Iwaza R, Ly C, Alibar S, Armstrong N, Mediannikov O, Bretelle F, Fenollar F. Culturomics reveals a hidden world of vaginal microbiota with the isolation of 206 bacteria from a single vaginal sample. Arch Microbiol 2023; 206:20. [PMID: 38095693 PMCID: PMC10721685 DOI: 10.1007/s00203-023-03742-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/05/2023] [Revised: 10/05/2023] [Accepted: 11/10/2023] [Indexed: 12/17/2023]
Abstract
The composition of the vaginal microbiota is known to be influenced by various factors and to be associated with several disorders affecting women's health. Although metagenomics is currently a widely used method for studying the human microbiota, it has certain limitations, such as a lack of information on bacterial viability. It is therefore important to use culture-based methods such as culturomics. Here, we used 35 different culture conditions to comprehensively characterize the vaginal bacterial diversity of a single woman's flora. A total of 206 bacterial species, belonging to six phyla (for a little more than half to Firmicutes, followed mainly by Actinobacteria, Bacteroidetes, and Proteobacteria) and 45 families, and 2 fungal species were cultivated. While several species of lactobacilli have been isolated, a wide variety of other bacteria were also separated, including 65 never reported before in vaginal flora, including a new bacterial species, Porphyromonas vaginalis sp. nov. Extensive culture-based methods are essential to establish a comprehensive, evidence-based repertoire of bacterial viability. If combined with molecular methods, they can provide a much more thorough understanding of the vaginal microbiota and fulfil the unknown part of metagenomic studies.
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Affiliation(s)
- Linda Abou Chacra
- Aix Marseille Univ, IRD, AP-HM, SSA, VITROME, Marseille, France
- IHU-Méditerranée Infection, Marseille, France
| | - Amel Benatmane
- Aix Marseille Univ, IRD, AP-HM, SSA, VITROME, Marseille, France
- IHU-Méditerranée Infection, Marseille, France
| | - Rim Iwaza
- IHU-Méditerranée Infection, Marseille, France
- Aix Marseille Univ, IRD, AP-HM, MEPHI, Marseille, France
| | - Claudia Ly
- Aix Marseille Univ, IRD, AP-HM, SSA, VITROME, Marseille, France
- IHU-Méditerranée Infection, Marseille, France
| | | | | | - Oleg Mediannikov
- IHU-Méditerranée Infection, Marseille, France
- Aix Marseille Univ, IRD, AP-HM, MEPHI, Marseille, France
| | - Florence Bretelle
- IHU-Méditerranée Infection, Marseille, France
- Aix Marseille Univ, IRD, AP-HM, MEPHI, Marseille, France
- Department of Gynecology and Obstetrics, AP-HM, Gynépole, La Conception, Marseille, France
| | - Florence Fenollar
- Aix Marseille Univ, IRD, AP-HM, SSA, VITROME, Marseille, France.
- Aix Marseille Univ, IRD, AP-HM, MEPHI, Marseille, France.
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Del Giudice P, Freychet F, Kopec L, Fenollar F, Eldin C, Velin M, Hubiche T, Raoult D, Mediannikov O. Erythema Migrans Caused by Borrelia spielmanii, France. Emerg Infect Dis 2023; 29:2366-2369. [PMID: 37877610 PMCID: PMC10617338 DOI: 10.3201/eid2911.230149] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2023] Open
Abstract
We describe a rare case of early Lyme borreliosis in France caused by Borrelia spielmanii, which manifested as a large erythema chronicum migrans rash. The patient completely recovered after a 15-day course of amoxicillin. Absence of pathognomonic signs prevented distinguishing B. spielmanii from other etiologies as cause in this case-patient.
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Abou Chacra L, Ly C, Hammoud A, Iwaza R, Mediannikov O, Bretelle F, Fenollar F. Relationship between Bacterial Vaginosis and Sexually Transmitted Infections: Coincidence, Consequence or Co-Transmission? Microorganisms 2023; 11:2470. [PMID: 37894128 PMCID: PMC10609101 DOI: 10.3390/microorganisms11102470] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/26/2023] [Revised: 09/23/2023] [Accepted: 09/29/2023] [Indexed: 10/29/2023] Open
Abstract
Sexually transmitted infections (STIs) are a serious global problem, causing disease, suffering, and death. Although bacterial vaginosis (BV) is not considered to be an STI, it may be associated with an increased risk of contracting a wide range of STIs. We sought to assess the link between the different microorganisms involved in STIs and BV. A total of 290 vaginal swabs from 290 women sent for diagnostic purposes to the clinical microbiology laboratory of the Marseille University Public Hospitals were tested by specific qPCR targeting STI-causing microorganisms and BV. Of these 290 swabs, 15.2% (44/290) were diagnosed with at least one STI-causing microorganism and 17.2% (50/290) with BV. The prevalence of STIs was significantly higher in women with BV (28%, 14/50) than in those without (20.4%, 51/240). The prevalence of co-infections involving two STI-causing microorganisms was significantly more frequent in women with BV than in those without (18% [8/50] vs. 2% [5/250]; p < 0.001). The prevalence of monoinfections and polyinfections with STI-causing microorganisms was lower in women without BV than in those with (8.8% [21/240] vs. 28% [14/50]), p < 0.001 and 2% (5/240) vs. 8% (4/50), p = 0.05, respectively). Our data suggest that a correlation between BV and STI may exist, with a higher prevalence of both monoinfections and polyinfections involving STI-causing microorganisms in women with BV. Further research is needed to better understand BV and its links to STIs.
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Affiliation(s)
- Linda Abou Chacra
- Campus Santé Timone, Aix-Marseille University, IRD, AP-HM, SSA, VITROME, 13005 Marseille, France; (L.A.C.); (C.L.)
- IHU-Méditerranée Infection, 13005 Marseille, France (R.I.); (O.M.)
| | - Claudia Ly
- Campus Santé Timone, Aix-Marseille University, IRD, AP-HM, SSA, VITROME, 13005 Marseille, France; (L.A.C.); (C.L.)
- IHU-Méditerranée Infection, 13005 Marseille, France (R.I.); (O.M.)
| | - Alissa Hammoud
- IHU-Méditerranée Infection, 13005 Marseille, France (R.I.); (O.M.)
- Campus Santé Timone, Aix-Marseille University, IRD, AP-HM, MEPHI, 13005 Marseille, France;
| | - Rim Iwaza
- IHU-Méditerranée Infection, 13005 Marseille, France (R.I.); (O.M.)
- Campus Santé Timone, Aix-Marseille University, IRD, AP-HM, MEPHI, 13005 Marseille, France;
| | - Oleg Mediannikov
- IHU-Méditerranée Infection, 13005 Marseille, France (R.I.); (O.M.)
- Campus Santé Timone, Aix-Marseille University, IRD, AP-HM, MEPHI, 13005 Marseille, France;
| | - Florence Bretelle
- Campus Santé Timone, Aix-Marseille University, IRD, AP-HM, MEPHI, 13005 Marseille, France;
- Department of Gynaecology and Obstetrics, Gynépole, La Conception, AP-HM, 13005 Marseille, France
| | - Florence Fenollar
- Campus Santé Timone, Aix-Marseille University, IRD, AP-HM, SSA, VITROME, 13005 Marseille, France; (L.A.C.); (C.L.)
- IHU-Méditerranée Infection, 13005 Marseille, France (R.I.); (O.M.)
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Hammoud A, Medkour H, Zgheib R, Louni M, Diatta G, Bassene H, Sambou M, Gaye M, Haddad G, Fenollar F, Sokhna C, Mediannikov O. Bartonella raoultii sp. nov., isolated from infected rodents ( Mastomys erythroleucus) in Senegal. Int J Syst Evol Microbiol 2023; 73. [PMID: 37578895 DOI: 10.1099/ijsem.0.005888] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 08/16/2023] Open
Abstract
Bartonella species are involved in various human diseases, causing a range of clinical manifestations; animals are considered as the main reservoirs, transmitting diverse species of Bartonella through direct contact and haematophagous insects. Here, we characterize a new species, Bartonella raoultii sp. nov., within the genus Bartonella, using a taxonogenomic polyphasic approach. Strain 094T (= CSUR B1097T=DSM 28004T), isolated from the blood of an infected rodent (Mastomys erythroleucus) in Senegal, is an aerobic and rod-shaped bacterium. The annotated non-contiguous genome sequence is 1 952322 bp long and contains 37.2 mol% G+C content, 1686 protein-coding genes and 50 RNA genes, including seven rRNA genes.
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Affiliation(s)
- Alissa Hammoud
- IHU Méditerranée Infection, 13005 Marseille, France
- Aix Marseille Univ, IRD, APHM, MEPHI, 13005 Marseille, France
| | - Hacène Medkour
- IHU Méditerranée Infection, 13005 Marseille, France
- Aix Marseille Univ, IRD, APHM, MEPHI, 13005 Marseille, France
| | - Rita Zgheib
- IHU Méditerranée Infection, 13005 Marseille, France
- Aix Marseille Univ, IRD, APHM, VITROME, 13005 Marseille, France
| | - Meriem Louni
- IHU Méditerranée Infection, 13005 Marseille, France
- Aix Marseille Univ, IRD, APHM, VITROME, 13005 Marseille, France
- Faculty of Science, M'Hamed Bougara Boumerdès University, Boumerdès 35000, Algeria
| | - Georges Diatta
- VITROME, Campus International IRD-UCAD Hann, Dakar, Senegal
| | - Hubert Bassene
- VITROME, Campus International IRD-UCAD Hann, Dakar, Senegal
| | - Masse Sambou
- VITROME, Campus International IRD-UCAD Hann, Dakar, Senegal
| | - Mapenda Gaye
- IHU Méditerranée Infection, 13005 Marseille, France
- Aix Marseille Univ, IRD, APHM, MEPHI, 13005 Marseille, France
| | - Gabriel Haddad
- IHU Méditerranée Infection, 13005 Marseille, France
- Aix Marseille Univ, IRD, APHM, MEPHI, 13005 Marseille, France
| | - Florence Fenollar
- IHU Méditerranée Infection, 13005 Marseille, France
- Aix Marseille Univ, IRD, APHM, VITROME, 13005 Marseille, France
| | - Cheikh Sokhna
- IHU Méditerranée Infection, 13005 Marseille, France
- Aix Marseille Univ, IRD, APHM, VITROME, 13005 Marseille, France
| | - Oleg Mediannikov
- IHU Méditerranée Infection, 13005 Marseille, France
- Aix Marseille Univ, IRD, APHM, MEPHI, 13005 Marseille, France
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Sarr H, Niang AA, Diop A, Mediannikov O, Zerrouki H, Diene SM, Lo S, Dia ML, Sow AI, Fenollar F, Rolain JM, Hadjadj L. The Emergence of Carbapenem- and Colistin-Resistant Enterobacteria in Senegal. Pathogens 2023; 12:974. [PMID: 37623934 PMCID: PMC10459028 DOI: 10.3390/pathogens12080974] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/24/2023] [Revised: 07/19/2023] [Accepted: 07/24/2023] [Indexed: 08/26/2023] Open
Abstract
Antibiotic resistance is a public health problem. The emergence of carbapenemase-producing Enterobacterales (CPE) infections is a concern, particularly in Senegal. (1) Methods: Between January 2019 and July 2022, 240 isolates of enterobacteria resistant to third-generation cephalosporins and imipenem from biological samples from Fann Hospital (Dakar) and Hôpital Paix (Ziguinchor) were selected. The isolates were identified by MALDI-TOF mass spectrometry, and susceptibility tests were performed by the disk diffusion method. Antibiotic-resistance genes for class A beta-lactamases, carbapenemases, and plasmid resistance to colistin resistance (mcr-1-8) were screened by RT-PCR. (2) Results: The 240 enterobacteria were composed of: Escherichia coli (60.83%), Klebsiella pneumoniae (21.67%), Enterobacter cloacae (13.75%), Citrobacter freundii (2.08%), Serratia marcescens (0.83%), Klebsiella aerogenes (0.42%), and Proteus mirabilis (0.42%). Class A beta-lactamase genes were found in 229 isolates (70.41% blaTEM, 37.5% blaSHV, 83.75% blaCTX-A, and 0.42% blaCTX-B). The carbapenemase genes blaOXA-48 and blaNDM were found in 25 isolates, including 14 isolates with blaOXA-48, 13 isolates with blaNDM, and 2 isolates with both genes simultaneously. The mcr-8 gene was found in one isolate of E. cloacae. (3) Conclusions: The epidemiology of antibiotic-resistance genes in enterobacteria in Senegal shows the emergence of CPEs. This phenomenon is worrying, and rigorous surveillance is necessary to avoid further spread.
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Affiliation(s)
- Habibou Sarr
- UFR des Sciences de la Santé, Université Assane Seck de Ziguinchor, Ziguinchor BP 523, Senegal;
- Unité de Bactériologie, Hôpital de la Paix de Ziguinchor, Ziguinchor BP 523, Senegal
- Faculté de Médecine et de Pharmacie, MEPHI IRD, APHM, Aix Marseille Université, 13005 Marseille, France; (O.M.); (H.Z.); (S.M.D.); (J.-M.R.)
- IHU Méditerranée Infection, 13005 Marseille, France;
| | - Aissatou Ahmet Niang
- Faculté de Médecine, Pharmacie et Odonto-Stomatologie, Université Cheikh-Anta-Diop, Dakar BP 5005, Senegal; (A.A.N.); (A.D.); (M.L.D.); (A.I.S.)
| | - Amadou Diop
- Faculté de Médecine, Pharmacie et Odonto-Stomatologie, Université Cheikh-Anta-Diop, Dakar BP 5005, Senegal; (A.A.N.); (A.D.); (M.L.D.); (A.I.S.)
| | - Oleg Mediannikov
- Faculté de Médecine et de Pharmacie, MEPHI IRD, APHM, Aix Marseille Université, 13005 Marseille, France; (O.M.); (H.Z.); (S.M.D.); (J.-M.R.)
- IHU Méditerranée Infection, 13005 Marseille, France;
| | - Hanane Zerrouki
- Faculté de Médecine et de Pharmacie, MEPHI IRD, APHM, Aix Marseille Université, 13005 Marseille, France; (O.M.); (H.Z.); (S.M.D.); (J.-M.R.)
- IHU Méditerranée Infection, 13005 Marseille, France;
| | - Seydina M. Diene
- Faculté de Médecine et de Pharmacie, MEPHI IRD, APHM, Aix Marseille Université, 13005 Marseille, France; (O.M.); (H.Z.); (S.M.D.); (J.-M.R.)
- IHU Méditerranée Infection, 13005 Marseille, France;
| | - Seynabou Lo
- UFR des Sciences de la Santé, Université Gaston Berger, Saint Louis BP 234, Senegal;
| | - Mouhamadou Lamine Dia
- Faculté de Médecine, Pharmacie et Odonto-Stomatologie, Université Cheikh-Anta-Diop, Dakar BP 5005, Senegal; (A.A.N.); (A.D.); (M.L.D.); (A.I.S.)
| | - Ahmad Iyane Sow
- Faculté de Médecine, Pharmacie et Odonto-Stomatologie, Université Cheikh-Anta-Diop, Dakar BP 5005, Senegal; (A.A.N.); (A.D.); (M.L.D.); (A.I.S.)
| | - Florence Fenollar
- IHU Méditerranée Infection, 13005 Marseille, France;
- VITROME, IRD, APHM, SSA, Aix Marseille Université, 13005 Marseille, France
| | - Jean-Marc Rolain
- Faculté de Médecine et de Pharmacie, MEPHI IRD, APHM, Aix Marseille Université, 13005 Marseille, France; (O.M.); (H.Z.); (S.M.D.); (J.-M.R.)
- IHU Méditerranée Infection, 13005 Marseille, France;
| | - Linda Hadjadj
- Faculté de Médecine et de Pharmacie, MEPHI IRD, APHM, Aix Marseille Université, 13005 Marseille, France; (O.M.); (H.Z.); (S.M.D.); (J.-M.R.)
- IHU Méditerranée Infection, 13005 Marseille, France;
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Mangombi-Pambou JB, Granjon L, Flirden F, Kane M, Niang Y, Davoust B, Fenollar F, Mediannikov O. Molecular Survey of Rodent-Borne Infectious Agents in the Ferlo Region, Senegal. Genes (Basel) 2023; 14:1107. [PMID: 37239466 PMCID: PMC10218615 DOI: 10.3390/genes14051107] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/22/2023] [Revised: 05/15/2023] [Accepted: 05/16/2023] [Indexed: 05/28/2023] Open
Abstract
Zoonotic pathogens are responsible for most infectious diseases in humans, with rodents being important reservoir hosts for many of these microorganisms. Rodents, thus, pose a significant threat to public health. Previous studies in Senegal have shown that rodents harbour a diversity of microorganisms, including human pathogens. Our study aimed to monitor the prevalence of infectious agents in outdoor rodents, which can be the cause of epidemics. We screened 125 rodents (both native and expanding) from the Ferlo region, around Widou Thiengoly, for different microorganisms. Analysis, performed on rodent spleens, detected bacteria from the Anaplasmataceae family (20%), Borrelia spp. (10%), Bartonella spp. (24%) and Piroplasmida (2.4%). Prevalences were similar between native and the expanding (Gerbillus nigeriae) species, which has recently colonised the region. We identified Borrelia crocidurae, the agent responsible for tick-borne relapsing fever, which is endemic in Senegal. We also identified two other not-yet-described bacteria of the genera Bartonella and Ehrlichia that were previously reported in Senegalese rodents. Additionally, we found a potential new species, provisionally referred to here as Candidatus Anaplasma ferloense. This study highlights the diversity of infectious agents circulating in rodent populations and the importance of describing potential new species and evaluating their pathogenicity and zoonotic potential.
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Affiliation(s)
- Joa Braïthe Mangombi-Pambou
- Centre Interdisciplinaire de Recherches Médicales de Franceville (CIRMF), Franceville BP 769, Gabon;
- Department of Epidemiology of Parasitic Diseases, Aix-Marseille University, IRD, AP-HM, MEPHI, 13005 Marseille, France; (F.F.); (B.D.)
- IHU Méditerranée Infection, 13005 Marseille, France;
| | - Laurent Granjon
- CBGP, IRD, CIRAD, INRAE, Institut Agro, University Montpellier, 34000 Montpellier, France;
| | - Fabien Flirden
- Department of Epidemiology of Parasitic Diseases, Aix-Marseille University, IRD, AP-HM, MEPHI, 13005 Marseille, France; (F.F.); (B.D.)
- IHU Méditerranée Infection, 13005 Marseille, France;
| | - Mamadou Kane
- BIOPASS, CBGP-IRD, ISRA, UCAD, CIRAD, Campus de Bel-Air, Dakar 1386, Senegal; (M.K.)
| | - Youssoupha Niang
- BIOPASS, CBGP-IRD, ISRA, UCAD, CIRAD, Campus de Bel-Air, Dakar 1386, Senegal; (M.K.)
| | - Bernard Davoust
- Department of Epidemiology of Parasitic Diseases, Aix-Marseille University, IRD, AP-HM, MEPHI, 13005 Marseille, France; (F.F.); (B.D.)
- IHU Méditerranée Infection, 13005 Marseille, France;
| | - Florence Fenollar
- IHU Méditerranée Infection, 13005 Marseille, France;
- IRD, AP-HM, SSA, VITROME, Aix-Marseille University, 13005 Marseille, France
| | - Oleg Mediannikov
- Department of Epidemiology of Parasitic Diseases, Aix-Marseille University, IRD, AP-HM, MEPHI, 13005 Marseille, France; (F.F.); (B.D.)
- IHU Méditerranée Infection, 13005 Marseille, France;
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9
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Çelebi B, Yeni DK, Yılmaz Y, Matur F, Babür C, Öktem MA, Sözen M, Karataş A, Raoult D, Mediannikov O, Fournier PE. Borrelia miyamotoi in wild rodents from four different regions of Turkey. Ticks Tick Borne Dis 2023; 14:102143. [PMID: 36857879 DOI: 10.1016/j.ttbdis.2023.102143] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/23/2022] [Revised: 12/26/2022] [Accepted: 01/31/2023] [Indexed: 03/03/2023]
Abstract
Borrelia miyamotoi is a tick-borne zoonotic agent that causes hard tick-borne relapsing fever, an emerging disease in humans. Some small mammalian and bird species are reported to be reservoirs of B. miyamotoi. This study aims to examine Borrelia species present in rodents captured from rural areas of Turkey. Blood samples of rodents were initially screened with Borrelia 16S rRNA qPCR. The Borrelia flaB gene was subsequently amplified by conventional PCR, after which all positive samples were sequenced. Borrelia miyamotoi was observed in nine out of 536 blood samples (1.7%) collected from wild rodents. Phylogenetic analysis showed that all positive samples belonged to the European genotype clade of B. miyamotoi. PCR positivity was 5.3%, 3.7%, and 1.8% in Apodemus uralensis, Apodemus flavicollis, and Myodes glareolus, respectively. Borrelia burgdorferi sensu lato that causes Lyme borreliosis in humans could not be detected in the rodents. In this study, presence of B. miyamotoi DNA is reported for the first time in rodents in Turkey.
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Affiliation(s)
- Bekir Çelebi
- Microbiology Reference Laboratory Department, General Directorate of Public Health, Ministry of Health, Ankara, Turkey.
| | - Derya Karataş Yeni
- Veterinary Control Central Research Institute, Bacterial Disease Laboratory, Ankara, Turkey
| | - Yusuf Yılmaz
- Microbiology Reference Laboratory Department, General Directorate of Public Health, Ministry of Health, Ankara, Turkey
| | - Ferhat Matur
- Dokuz Eylul University, Faculty of Science, Biology Department, Izmir, Turkey
| | - Cahit Babür
- Microbiology Reference Laboratory Department, General Directorate of Public Health, Ministry of Health, Ankara, Turkey
| | - Mehmet Ali Öktem
- Dokuz Eylul University, Faculty of Medicine, Department of Microbiology and Clinical Microbiology, Izmir, Turkey
| | - Mustafa Sözen
- Zonguldak Bulent Ecevit University, Faculty of Science, Biology Department, Zonguldak, Turkey
| | - Ahmet Karataş
- Nigde Omer Halisdemir University, Faculty of Science, Biology Department, Nigde, Turkey
| | - Didier Raoult
- Institut Méditerranée-Infection, Marseille, France; Aix-Marseille University, Institut de Recherche pour le Développement (IRD), UMR Microbes Evolution Phylogeny and Infections (MEPHI), Institut Hospitalo-Universitaire Méditerranée Infection, Marseille, France
| | - Oleg Mediannikov
- Institut Méditerranée-Infection, Marseille, France; Aix-Marseille University, Institut de Recherche pour le Développement (IRD), UMR Microbes Evolution Phylogeny and Infections (MEPHI), Institut Hospitalo-Universitaire Méditerranée Infection, Marseille, France
| | - Pierre Edouard Fournier
- Institut Méditerranée-Infection, Marseille, France; Aix-Marseille University, Institut de Recherche pour le Développement (IRD), UMR Microbes Evolution Phylogeny and Infections (MEPHI), Institut Hospitalo-Universitaire Méditerranée Infection, Marseille, France
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10
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Mangombi-Pambou J, Granjon L, Labarrere C, Kane M, Niang Y, Fournier PE, Delerce J, Fenollar F, Mediannikov O. New Genotype of Coxiella burnetii Causing Epizootic Q Fever Outbreak in Rodents, Northern Senegal. Emerg Infect Dis 2023; 29:1078-1081. [PMID: 37081672 PMCID: PMC10124644 DOI: 10.3201/eid2905.221034] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/22/2023] Open
Abstract
In Senegal, Coxiella burnetii, which causes Q fever, has often been identified in ticks and humans near livestock, which are considered to be reservoirs and main sources of infection. We describe the emergence of C. burnetii in rodents, not previously known to carry this pathogen, and describe 2 new genotypes.
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11
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Manoj RRS, Latrofa MS, Louni M, Laidoudi Y, Fenollar F, Otranto D, Mediannikov O. In vitro maintenance of the endosymbiont Wolbachia of Dirofilaria immitis. Parasitol Res 2023; 122:939-943. [PMID: 36810669 DOI: 10.1007/s00436-023-07789-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/17/2022] [Accepted: 02/01/2023] [Indexed: 02/24/2023]
Abstract
Wolbachia has an obligatory mutualistic relationship with many onchocercid nematodes of the subfamilies Dirofilariinae and Onchocercinae. Till date, no attempts have been made for the in vitro cultivation of this intracellular bacterium from the filarioid host. Hence, the current study attempted cell co-culture method using embryonic Drosophila S2 and the LD cell lines to cultivate Wolbachia from Dirofilaria immitis microfilariae (mfs) harvested from infected dogs. Microfilariae (mfs = 1500) were inoculated in shell vials supplemented with Schneider medium using both cell lines. The establishment and multiplication of the bacterium were observed during the initial inoculation, at day 0 and before every medium change (from days 14 to 115). An aliquot (50 µl) from each time point was tested by quantitative real-time PCR (qPCR). Comparing the average of Ct values, obtained by the tested parameters (i.e., LD/S2 cell lines and mfs with/without treatment), the S2 cell line without mechanical disruption of mfs provided the highest Wolbachia cell count by qPCR. Despite the maintenance of Wolbachia within both S2 and LD-based cell co-culture models for up to 115 days, a definitive conclusion is still far. Further trials using fluorescent microscopy and viable staining will help to demonstrate the cell line infection and viability of Wolbachia. Use of considerable amount of untreated mfs to inoculate the Drosophilia S2 cell lines, as well as the supplementation of the culture media with growth stimulants or pre-treated cells to increase their susceptibility for the infection and development of a filarioid-based cell line system are recommended for the future trials.
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Affiliation(s)
- Ranju Ravindran Santhakumari Manoj
- Department of Veterinary Medicine, University of Bari, Valenzano, Italy.
- Aix Marseille University, IRD, AP-HM, MEPHI, 13385, Marseille, France.
- IHU Méditerranée Infection, 13385, Marseille, France.
| | | | - Meriem Louni
- Aix Marseille University, IRD, AP-HM, MEPHI, 13385, Marseille, France
- IHU Méditerranée Infection, 13385, Marseille, France
| | - Younes Laidoudi
- Department of Veterinary Medicine, University of Bari, Valenzano, Italy
- Aix Marseille University, IRD, AP-HM, MEPHI, 13385, Marseille, France
- IHU Méditerranée Infection, 13385, Marseille, France
| | - Florence Fenollar
- IHU Méditerranée Infection, 13385, Marseille, France
- Aix Marseille University, IRD, AP-HM, SSA, VITROME, Marseille, France
| | - Domenico Otranto
- Department of Veterinary Medicine, University of Bari, Valenzano, Italy
- Faculty of Veterinary Sciences, Bu-Ali Sina University, Hamedan, Iran
| | - Oleg Mediannikov
- Aix Marseille University, IRD, AP-HM, MEPHI, 13385, Marseille, France.
- IHU Méditerranée Infection, 13385, Marseille, France.
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12
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Klement-Frutos E, Mediannikov O, Fournier PE, Haroche J, Leblond V, Caumes E. Mycoplasma haemohominis as a cause of fever of unknown origin in a traveller. J Travel Med 2023; 30:6798399. [PMID: 36331263 DOI: 10.1093/jtm/taac129] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 06/06/2022] [Revised: 09/20/2022] [Accepted: 09/21/2022] [Indexed: 11/06/2022]
Abstract
Candidatus mycoplasma haemohominis (cMh) is the most human-adapted and lethal haemoplasma. Bats are the common reservoir worldwide. cMh should be suspected in fever of unknown origin associated with splenomegaly, and haemolytic anaemia or haemophagocytic lymphohistiocytosis, above all in Asia Pacific travellers. Doxycycline should be started preemptively as diagnosis can be retrospectively confirmed.
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Affiliation(s)
- Elise Klement-Frutos
- Department of Infectious and Tropical Diseases, Pitié-Salpêtrière Hospital, Sorbonne University, AP-HP, Paris, France
- Department of Internal Medicine, Agen Hospital, Agen, France
| | - Oleg Mediannikov
- IHU-Méditerranée Infection, IRD, APHM, SSA, VITROME, Aix Marseille University, Marseille, France
| | - Pierre-Edouard Fournier
- IHU-Méditerranée Infection, IRD, APHM, SSA, VITROME, Aix Marseille University, Marseille, France
| | - Julien Haroche
- Department of Internal Medicine, Pitié-Salpêtrière Hospital, Sorbonne University, AP-HP, Paris, France
| | - Véronique Leblond
- Department of Clinical Hematology, Pitié-Salpêtrière Hospital, Sorbonne University, AP-HP, Paris, France
| | - Eric Caumes
- Department of Infectious and Tropical Diseases, Pitié-Salpêtrière Hospital, Sorbonne University, AP-HP, Paris, France
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13
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Zoaiter M, Zeaiter Z, Mediannikov O, Sokhna C, Fournier PE. Carbonyl Cyanide 3-Chloro Phenyl Hydrazone (CCCP) Restores the Colistin Sensitivity in Brucella intermedia. Int J Mol Sci 2023; 24:ijms24032106. [PMID: 36768429 PMCID: PMC9917161 DOI: 10.3390/ijms24032106] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/15/2022] [Revised: 01/07/2023] [Accepted: 01/18/2023] [Indexed: 01/25/2023] Open
Abstract
Brucella intermedia (formerly Ochrobactrum intermedium), a non-fermentative bacterium, has been isolated from animals and human clinical specimens. It is naturally resistant to polymyxins, including colistin (CO), and may cause opportunistic infections in humans. We isolated six Brucella intermedia strains from Senegalese monkey stool. In order to determine whether an efflux pump mechanism was involved in CO resistance in B. intermedia, we evaluated the effects of verapamil (VRP), reserpine (RSP), phe-arg β-naphthylamide dihydrochloride (PAβN) and carbonyl cyanide 3-chloro phenyl hydrazone (CCCP), four efflux pump inhibitors, on these colistin-resistant strains. Using the broth microdilution method, a CO and CCCP combination of 2 µg/mL and 10 µg/mL, respectively, significantly reduced the CO minimal inhibitory concentration (MIC) of B. intermedia, supporting an efflux pump mechanism. In contrast, VRP, PAβN and RSP did not restore CO susceptibility. A time kill assay showed a bactericidal effect of the CO-CCCP combination. Genomic analysis revealed a potential implication in the CO resistance mechanism of some conserved efflux pumps, such as YejABEF, NorM and EmrAB, as previously reported in other bacteria. An inhibitory effect of the CO-CCCP combination was observed on biofilm formation using the crystal violet method. These results suggest that the intrinsic CO resistance in Brucella intermedia is linked to an efflux pump mechanism and that the synergistic effect of CO-CCCP may open a new field to identify new treatments to restore antibiotic efficacy in humans.
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Affiliation(s)
- Malak Zoaiter
- Institut Hospitalo-Universitaire Méditerranée-Infection, 13005 Marseille, France
- Institut de Recherche pour le développement (IRD), Assistance publique des hôpitaux de Marseille (AP-HM), SSA, Vecteurs Infections Tropicales et Méditerranéennes (VITROME), Aix-Marseille Université, 13005 Marseille, France
| | - Zaher Zeaiter
- Department of Biology, Faculty of Sciences, Lebanese University LU, Beirut 146404, Lebanon
| | - Oleg Mediannikov
- Institut Hospitalo-Universitaire Méditerranée-Infection, 13005 Marseille, France
- Institut de Recherche pour le développement (IRD), Assistance publique des hôpitaux de Marseille (AP-HM), Microbes, Evolution, Phylogénie et Infection (MEPHI), Aix-Marseille Université, 13005 Marseille, France
| | - Cheikh Sokhna
- Institut Hospitalo-Universitaire Méditerranée-Infection, 13005 Marseille, France
- Institut de Recherche pour le développement (IRD), Assistance publique des hôpitaux de Marseille (AP-HM), Microbes, Evolution, Phylogénie et Infection (MEPHI), Aix-Marseille Université, 13005 Marseille, France
- Campus Commun UCAD-IRD of Hann, Dakar 1020, Senegal
| | - Pierre-Edouard Fournier
- Institut Hospitalo-Universitaire Méditerranée-Infection, 13005 Marseille, France
- Institut de Recherche pour le développement (IRD), Assistance publique des hôpitaux de Marseille (AP-HM), SSA, Vecteurs Infections Tropicales et Méditerranéennes (VITROME), Aix-Marseille Université, 13005 Marseille, France
- Correspondence: ; Tel.: +33-(0)-413732401; Fax: +33-(0)-413732402
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Hammoud A, Louni M, Fenollar F, Bassene H, Sambou M, Duclos N, Diatta G, Sokhna C, Levasseur A, Raoult D, Mediannikov O. Bartonella quintana transmitted by head lice: an outbreak of trench fever in Senegal. Clin Infect Dis 2022; 76:1382-1390. [PMID: 36571112 DOI: 10.1093/cid/ciac937] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/04/2022] [Revised: 11/15/2022] [Accepted: 12/07/2022] [Indexed: 12/27/2022] Open
Abstract
BACKGROUND Louse-borne trench fever caused by Bartonella quintana is a neglected public health concern, known to be transmitted from body louse faeces via scratching. No viable B. quintana have ever been isolated from head lice before; therefore, their role as a vector is still poorly understood. METHODS In Senegal, the implementation of a permanent local surveillance system in a Point-of-Care laboratory (POC) allows the monitoring of emerging diseases. Here, we used culture as well as molecular and genomic approaches to document an outbreak of trench fever associated with head lice in the village of Ndiop. Head lice and blood samples were collected from febrile patients between November 2010 and April 2015. Genomes of two isolated strains of B. quintana were sequenced and analysed. RESULTS A total of 2,289 blood samples were collected in the 2010-2015 period. From 2010-2013, B. quintana DNA was detected by PCR in 0.25% (4/1,580). In 2014, 228 blood samples were collected, along with 161 head lice from five individuals. B. quintana DNA was detected in 4·4% (10/228) of blood samples, and in lice specimens collected from febrile patients (61·7%, 50/81) and non-febrile patients (61·4%, 43/70). Two B. quintana strains were isolated from blood and head lice from two different patients. Genomic sequence analysis showed 99·98% overall similarity between both strains. CONCLUSION The presence of live B. quintana in head lice, and the genetic identity of strains from patients' blood and head lice during a localised outbreak in Senegal, supports the evidence of head lice vectorial capacity.
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Affiliation(s)
- Alissa Hammoud
- Institut Hospitalo-Universitaire Méditerranée Infection, Marseille, France.,Aix Marseille Univ, IRD, AP-HM, MEPHI, Marseille, France
| | - Meriem Louni
- Institut Hospitalo-Universitaire Méditerranée Infection, Marseille, France.,Aix Marseille Univ, IRD, AP-HM, MEPHI, Marseille, France
| | - Florence Fenollar
- Institut Hospitalo-Universitaire Méditerranée Infection, Marseille, France.,Aix Marseille Univ, IRD, AP-HM, SSA, VITROME, Marseille, France
| | - Hubert Bassene
- Institut Hospitalo-Universitaire Méditerranée Infection, Marseille, France.,Campus International Commun UCAD-IRD of Hann, VITROME, IRD 257, Dakar, Senegal
| | - Masse Sambou
- Institut Hospitalo-Universitaire Méditerranée Infection, Marseille, France.,Campus International Commun UCAD-IRD of Hann, VITROME, IRD 257, Dakar, Senegal
| | - Nathalie Duclos
- Institut Hospitalo-Universitaire Méditerranée Infection, Marseille, France.,Aix Marseille Univ, IRD, AP-HM, MEPHI, Marseille, France
| | - Georges Diatta
- Institut Hospitalo-Universitaire Méditerranée Infection, Marseille, France.,Campus International Commun UCAD-IRD of Hann, VITROME, IRD 257, Dakar, Senegal
| | - Cheikh Sokhna
- Institut Hospitalo-Universitaire Méditerranée Infection, Marseille, France.,Campus International Commun UCAD-IRD of Hann, VITROME, IRD 257, Dakar, Senegal
| | - Anthony Levasseur
- Institut Hospitalo-Universitaire Méditerranée Infection, Marseille, France.,Aix Marseille Univ, IRD, AP-HM, SSA, VITROME, Marseille, France
| | - Didier Raoult
- Institut Hospitalo-Universitaire Méditerranée Infection, Marseille, France.,Aix Marseille Univ, IRD, AP-HM, MEPHI, Marseille, France
| | - Oleg Mediannikov
- Institut Hospitalo-Universitaire Méditerranée Infection, Marseille, France.,Aix Marseille Univ, IRD, AP-HM, MEPHI, Marseille, France
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15
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Zobba R, Murgia C, Dahmani M, Mediannikov O, Davoust B, Piredda R, Schianchi E, Scagliarini A, Pittau M, Alberti A. Emergence of Anaplasma Species Related to A. phagocytophilum and A. platys in Senegal. Int J Mol Sci 2022; 24:ijms24010035. [PMID: 36613478 PMCID: PMC9820347 DOI: 10.3390/ijms24010035] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2022] [Revised: 12/14/2022] [Accepted: 12/16/2022] [Indexed: 12/24/2022] Open
Abstract
The genus Anaplasma (Anaplasmataceae, Rickettsiales) includes tick-transmitted bacterial species of importance to both veterinary and human medicine. Apart from the traditionally recognized six Anaplasma species (A. phagocytophilum, A. platys, A. bovis, A. ovis, A. centrale, A. marginale), novel strains and candidate species, also of relevance to veterinary and human medicine, are emerging worldwide. Although species related to the zoonotic A. platys and A. phagocytophilum have been reported in several African and European Mediterranean countries, data on the presence of these species in sub-Saharan countries are still lacking. This manuscript reports the investigation of Anaplasma strains related to zoonotic species in ruminants in Senegal by combining different molecular tests and phylogenetic approaches. The results demonstrated a recent introduction of Candidatus (Ca) Anaplasma turritanum, a species related to the pathogenic A. platys, possibly originating by founder effect. Further, novel undetected strains related to Candidatus (Ca) Anaplasma cinensis were detected in cattle. Based on groEL and gltA molecular comparisons, we propose including these latter strains into the Candidatus (Ca) Anaplasma africanum species. Finally, we also report the emergence of Candidatus (Ca) A. boleense in Senegal. Collectively, results confirm that Anaplasma species diversity is greater than expected and should be further investigated, and that Anaplasma routine diagnostic procedures and epidemiological surveillance should take into account specificity issues raised by the presence of these novel strains, suggesting the use of a One Health approach for the management of Anaplasmataceae in sub-Saharan Africa.
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Affiliation(s)
- Rosanna Zobba
- Dipartimento di Medicina Veterinaria, University of Sassari, 07100 Sassari, Italy
| | - Claudio Murgia
- Dipartimento di Medicina Veterinaria, University of Sassari, 07100 Sassari, Italy
| | - Mustapha Dahmani
- IRD, AP-HM, MEPHI, Aix Marseille University, 13001 Marseille, France
- IHU Méditerranée Infection, 13005 Marseille, France
| | - Oleg Mediannikov
- IRD, AP-HM, MEPHI, Aix Marseille University, 13001 Marseille, France
- IHU Méditerranée Infection, 13005 Marseille, France
| | - Bernard Davoust
- IRD, AP-HM, MEPHI, Aix Marseille University, 13001 Marseille, France
- IHU Méditerranée Infection, 13005 Marseille, France
| | - Roberta Piredda
- Dipartimento di Medicina Veterinaria, University of Sassari, 07100 Sassari, Italy
| | - Eleonora Schianchi
- Dipartimento di Medicina Veterinaria, University of Sassari, 07100 Sassari, Italy
| | - Alessandra Scagliarini
- Dipartimento di Medicina Specialistica, Diagnostica e Sperimentale, University of Bologna, 40126 Bologna, Italy
| | - Marco Pittau
- Dipartimento di Medicina Veterinaria, University of Sassari, 07100 Sassari, Italy
| | - Alberto Alberti
- Dipartimento di Medicina Veterinaria, University of Sassari, 07100 Sassari, Italy
- Correspondence: ; Tel.: +39-320-922-5647
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Ouarti B, Fonkou DMM, Houhamdi L, Mediannikov O, Parola P. Lice and lice-borne diseases in humans in Africa: a narrative review. Acta Trop 2022; 237:106709. [PMID: 36198330 DOI: 10.1016/j.actatropica.2022.106709] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/27/2022] [Revised: 09/30/2022] [Accepted: 10/01/2022] [Indexed: 01/18/2023]
Abstract
Lice are host-specific insects. Human lice include Pediculus humanus humanus (body lice) which are known to be vectors of serious human bacterial infectious diseases including epidemic typhus, relapsing fever, trench fever and plague; Pediculus humanus capitis (head lice) that frequently affect children; and Pthirus pubis, commonly known as crab lice. In Africa, human infections transmitted by lice remained poorly known and therefore, underestimated, perhaps due to the lack of diagnostic tools and professional knowledge. In this paper we review current knowledge of the microorganisms identified in human lice in the continent of Africa, in order to alert health professionals to the importance of recognising the risk of lice-related diseases.
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Affiliation(s)
- Basma Ouarti
- Aix Marseille Univ, IRD, AP-HM, SSA, VITROME, Marseille, France; IHU-Méditerranée Infection, Marseille, France.
| | | | - Linda Houhamdi
- Aix Marseille Univ, IRD, AP-HM, SSA, VITROME, Marseille, France; IHU-Méditerranée Infection, Marseille, France.
| | - Oleg Mediannikov
- IHU-Méditerranée Infection, Marseille, France; IRD, AP-HM, MEPHI, Aix Marseille University, Marseille, France.
| | - Philippe Parola
- Aix Marseille Univ, IRD, AP-HM, SSA, VITROME, Marseille, France; IHU-Méditerranée Infection, Marseille, France.
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Abo-Aziza FAM, Hendawy SHM, Abdullah HHAM, El Namaky A, Laidoudi Y, Mediannikov O. Emergent and Neglected Equine Filariosis in Egypt: Species Diversity and Host Immune Response. Pathogens 2022; 11:pathogens11090979. [PMID: 36145411 PMCID: PMC9501446 DOI: 10.3390/pathogens11090979] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/24/2022] [Revised: 08/15/2022] [Accepted: 08/17/2022] [Indexed: 11/16/2022] Open
Abstract
Equine filariosis (EF) is a neglected vector-borne disease caused by nematode species belonging to the Onchocercidae and Setariidae families. Aside from their zoonotic potential, some species are responsible for serious health problems in equids worldwide, leading to significant economic difficulties. Here, we molecularly investigated equine blood samples (320 horses and 109 donkeys from Egypt) and four adult worms isolated from the peritoneal cavity of 5 out of the 94 slaughtered donkeys. In addition, quantitative enzyme-linked immunoassays (ELISAs) targeting circulating cytokines were used to identify whether the immunological profile of the infected animals is a Th1 (i.e., INF-gamma as indicator) or Th2 (i.e., IL-5 and IL-10 as indicators) response type. Overall, 13.8% and 0.3% of the donkeys and horses, respectively, were scored as positive for filaroid DNA. The 18S phylogeny revealed the occurrence of three different filaroid species, identified here as Mansonella (Tetrapetalonema) sp., Setaria digitata and Dirofilaria repens. Th1 (INF-gamma and IL-5) and Th2 (IL-10) immune response types were identified in equines infected with S. digitata and Mansonella (T.) sp., respectively. These results provide new data on the species diversity of EF in Egypt and extend knowledge of the downregulation of the protective immune response by the potentially zoonotic Mansonella (T) sp. There is an urgent need to implement control measures to preserve equine health and limit the propagation of these vector-borne filaroids in Egypt.
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Affiliation(s)
- Faten A. M. Abo-Aziza
- Department of Parasitology and Animal Diseases, Veterinary Research Institute, National Research Centre, Dokki, Giza 12622, Egypt
| | - Seham H. M. Hendawy
- Department of Parasitology and Animal Diseases, Veterinary Research Institute, National Research Centre, Dokki, Giza 12622, Egypt
- Tick and Tick-Borne Diseases Research Unit, Veterinary Research Institute, National Research Centre, Dokki, Giza 12622, Egypt
| | - Hend H. A. M. Abdullah
- Department of Parasitology and Animal Diseases, Veterinary Research Institute, National Research Centre, Dokki, Giza 12622, Egypt
- Aix Marseille Université, IRD, AP-HM, MEPHI, IHU-Méditerranée Infection, 13005 Marseille, France
| | - Amira El Namaky
- Department of Parasitology and Animal Diseases, Veterinary Research Institute, National Research Centre, Dokki, Giza 12622, Egypt
| | - Younes Laidoudi
- Aix Marseille Université, IRD, AP-HM, MEPHI, IHU-Méditerranée Infection, 13005 Marseille, France
- PADESCA Laboratory, Veterinary Science Institute, University of Constantine 1, El-Khroub 25100, Algeria
| | - Oleg Mediannikov
- Aix Marseille Université, IRD, AP-HM, MEPHI, IHU-Méditerranée Infection, 13005 Marseille, France
- Correspondence: ; Tel.: +33-04-1373-24-01
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18
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Davoust B, Guérin P, Orain N, Fligny C, Flirden F, Fenollar F, Mediannikov O, Edouard S. Evidence of antibodies against SARS-CoV-2 in wild mustelids from Brittany (France). Transbound Emerg Dis 2022; 69:e3400-e3407. [PMID: 35841263 PMCID: PMC9350122 DOI: 10.1111/tbed.14663] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/20/2022] [Revised: 07/10/2022] [Accepted: 07/14/2022] [Indexed: 11/28/2022]
Abstract
In the French region of Brittany, mainly in the department of the Côtes d'Armor, during the first half of 2021, seropositivity for SARS‐CoV‐2 was detected in five wild mustelids out of 33 animals tested (15.6%). Anti‐SARS‐CoV‐2 IgG was detected against at least four out of five recombinant viral proteins (S1 receptor binding domain, nucleocapsid, S1 subunit, S2 subunit and spike) in three pine martens (Martes martes) and in two badgers (Meles meles) using the automated western blot technique. An ELISA test also identified seropositive cases, although these did not align with western blot results. Although the 171 qPCRs carried out on samples from the 33 mustelids were all negative, these preliminary results from this observational study nevertheless bear witness to infections of unknown origin. The epidemiological surveillance of Covid‐19 in wildlife must continue, in particular with effective serology tools.
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Affiliation(s)
- Bernard Davoust
- Aix Marseille Univ, IRD, AP-HM, MEPHI, Marseille, France.,IHU Méditerranée Infection, Marseille, France
| | | | | | - Camille Fligny
- Aix Marseille Univ, IRD, AP-HM, MEPHI, Marseille, France.,IHU Méditerranée Infection, Marseille, France
| | - Fabien Flirden
- Aix Marseille Univ, IRD, AP-HM, MEPHI, Marseille, France.,IHU Méditerranée Infection, Marseille, France
| | - Florence Fenollar
- IHU Méditerranée Infection, Marseille, France.,Aix Marseille Univ, IRD, AP-HM, SSA, VITROME, Marseille, France
| | - Oleg Mediannikov
- Aix Marseille Univ, IRD, AP-HM, MEPHI, Marseille, France.,IHU Méditerranée Infection, Marseille, France
| | - Sophie Edouard
- Aix Marseille Univ, IRD, AP-HM, MEPHI, Marseille, France.,IHU Méditerranée Infection, Marseille, France
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Mediannikov O, Bechah Y, Amanzougaghene N, Lepidi H, Bassene H, Sambou M, Lienhard C, Benkacimi L, Dieme C, Sokhna C, Fenollar F, Raoult D. Booklice Liposcelis bostrychophila naturally infected by Rickettsia felis cause fever and experimental pneumonia in mammals. J Infect Dis 2022; 226:1075-1083. [PMID: 35776143 DOI: 10.1093/infdis/jiac282] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/16/2021] [Accepted: 06/30/2022] [Indexed: 11/14/2022] Open
Abstract
BACKGROUND Rickettsia felis is emergent in tropical areas. Despite its high morbidity, its natural history has not yet been fully determined. We investigated the role of the common household booklouse, Liposcelis bostrychophila, recently found to harbour R. felis. METHODS Blood samples from 372 febrile patients from Senegalese villages, as well as nasal and skin samples from 264 asymptomatic individuals, were tested for cat flea-associated and booklice-associated strains of R. felis. Dust samples from beds were collected to isolate booklice and R. felis. Mice were infected with aerosol of R. felis strain from naturally infected booklice. RESULTS Forty febrile patients (11%) were infected by R. felis, including 26 (7%) by the booklice-associated strain. Nine nasal samples (3.4%) and 28 skin samples (10.6%) contained R. felis, including seven and 24, respectively, with the booklice-associated strain. The presence of live L. bostrychophila was observed in 32 dust samples (16.8%); R. felis was identified in 62 dust samples (32.5%). Several mice samples were positive for R. felis; interstitial lymphohistiocytic infiltrates were identified in lungs. CONCLUSIONS L. bostrychophila may be a reservoir of R. felis. The booklice-associated strain is pathogenic in mammals causing pneumonia. Human infection may be acquired via inhalation of infected booklice particles.
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Affiliation(s)
- Oleg Mediannikov
- Aix Marseille Univ, IRD, AP-HM, MEPHII, Marseille, France.,IHU-Méditerranée Infection, Marseille, France
| | - Yassina Bechah
- Aix Marseille Univ, IRD, AP-HM, MEPHII, Marseille, France.,IHU-Méditerranée Infection, Marseille, France
| | - Nadia Amanzougaghene
- Aix Marseille Univ, IRD, AP-HM, MEPHII, Marseille, France.,IHU-Méditerranée Infection, Marseille, France
| | - Hubert Lepidi
- Aix Marseille Univ, IRD, AP-HM, MEPHII, Marseille, France.,IHU-Méditerranée Infection, Marseille, France
| | | | - Masse Sambou
- VITROME, Campus International UCAD-IRD, Dakar, Senegal
| | | | - Linda Benkacimi
- Aix Marseille Univ, IRD, AP-HM, SSA, VITROME, Marseille, France
| | | | - Cheikh Sokhna
- Aix Marseille Univ, IRD, AP-HM, SSA, VITROME, Marseille, France
| | - Florence Fenollar
- IHU-Méditerranée Infection, Marseille, France.,Aix Marseille Univ, IRD, AP-HM, SSA, VITROME, Marseille, France
| | - Didier Raoult
- Aix Marseille Univ, IRD, AP-HM, MEPHII, Marseille, France.,IHU-Méditerranée Infection, Marseille, France
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Ndiaye EHI, Diatta G, Diarra AZ, Berenger JM, Bassene H, Mediannikov O, Bouganali C, Sokhna C, Parola P. Morphological, Molecular and MALDI-TOF MS Identification of Bedbugs and Associated Wolbachia Species in Rural Senegal. J Med Entomol 2022; 59:1019-1032. [PMID: 35286393 DOI: 10.1093/jme/tjac019] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/03/2021] [Indexed: 06/14/2023]
Abstract
Bed bugs are known to carry several microorganisms. The purpose of this study was to assess the prevalence of bed bug infestation in two rural areas of Senegal and determine the species present in the population. A screening was conducted to detect some arthropod associated pathogenic bacteria in bed bugs and to evaluate the prevalence of endosymbiont carriage. One survey took place in 17 villages in Niakhar and two surveys in Dielmo and Ndiop and surroundings area in the same 20 villages. Bed bugs collected were identified morphologically and by MALDI-TOF MS tools. Microorganisms screening was performed by qPCR and confirmed by sequencing. During the survey in the Niakhar region, only one household 1/255 (0.4%) in the village of Ngayokhem was found infested by bed bugs. In a monitoring survey of the surroundings of Dielmo and Ndiop area, high prevalence was found during the two rounds of surveys in 65/314 (21%) in 16/20 villages (January-March) and 93/351 (26%) in 19/20 villages (December). All bed bugs were morphologically identified as the species Cimex hemipterus, of which 285/1,637 (17%) were randomly selected for MALDI-TOF MS analysis and bacteria screening. Among the Bacteria tested only Wolbachia (Alphaproteobacteria, Rickettsiales, Rickettsiaceae) DNA was found in 248/276 (90%) of the bedbugs. We briefly describe a high level of non-generalized bed bug infestation in rural Senegal and the diversity of Wolbachia strains carried by C. hemipterus. This study opens perspectives for raising household awareness of bed bug infestations and possibilities for appropriate control.
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Affiliation(s)
- El Hadji Ibrahima Ndiaye
- Aix Marseille Univ, IRD, APHM, SSA, VITROME, Marseille, France
- IHU Méditerranée Infection, Marseille, France
- VITROME, Campus International IRD-UCAD Hann, Dakar, Senegal
| | - Georges Diatta
- VITROME, Campus International IRD-UCAD Hann, Dakar, Senegal
| | - Adama Zan Diarra
- Aix Marseille Univ, IRD, APHM, SSA, VITROME, Marseille, France
- IHU Méditerranée Infection, Marseille, France
| | - Jean Michel Berenger
- Aix Marseille Univ, IRD, APHM, SSA, VITROME, Marseille, France
- IHU Méditerranée Infection, Marseille, France
| | - Hubert Bassene
- VITROME, Campus International IRD-UCAD Hann, Dakar, Senegal
| | - Oleg Mediannikov
- Aix Marseille Univ, IRD, APHM, SSA, VITROME, Marseille, France
- IHU Méditerranée Infection, Marseille, France
| | | | - Cheikh Sokhna
- IHU Méditerranée Infection, Marseille, France
- VITROME, Campus International IRD-UCAD Hann, Dakar, Senegal
| | - Philippe Parola
- Aix Marseille Univ, IRD, APHM, SSA, VITROME, Marseille, France
- IHU Méditerranée Infection, Marseille, France
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21
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Abdallah R, Kuete Yimagou E, Hadjadj L, Mediannikov O, Ibrahim A, Davoust B, Barciela A, Hernandez-Aguilar RA, Diatta G, Sokhna C, Raoult D, Rolain JM, Baron SA. Population Diversity of Antibiotic Resistant Enterobacterales in Samples From Wildlife Origin in Senegal: Identification of a Multidrug Resistance Transposon Carrying blaCTX–M–15 in Escherichia coli. Front Microbiol 2022; 13:838392. [PMID: 35369484 PMCID: PMC8971907 DOI: 10.3389/fmicb.2022.838392] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/17/2021] [Accepted: 02/18/2022] [Indexed: 01/08/2023] Open
Abstract
Introduction The role of wildlife in the transmission of antimicrobial resistant (AMR) is suspected but scarcely reported in current studies. Therefore, we studied the dynamics and prevalence of antibiotic-resistant Enterobacterales in antibiotic-limited areas of Senegal. Materials and Methods We collected fecal samples from monkeys and apes (N = 226) and non-fecal environmental samples (N = 113) from Senegal in 2015 and 2019. We grew the samples on selective media, subsequently isolated AMR Enterobacterales, and then sequenced their genomes. Results We isolated 72 different Enterobacterales among which we obtained a resistance rate of 65% for colistin (N = 47/72) and 29% for third generation-cephalosporin (C3G) (29%, N = 21/72). Interestingly, almost 46% of our isolates, among Enterobacter sp., Citrobacter cronae and Klebsiella aerogenes, belong to 34 new STs. Moreover, the genes blaCTX–M–15, blaTEM1B, sul2, dfrA14, qnrs, aph(3′′), aph(6), tetA, and tetR harbored within a transposon on the IncY plasmid of ST224 Escherichia coli were transferred and inserted into a ST10 E. coli phage coding region. Conclusion Wildlife constitutes a rich, unexplored reservoir of natural microbial diversity, AMR genes and international resistant clones pathogenic in humans. The presence of a transposon that carries AMR genes is intriguing since no antibiotics are used in the non-human primates we studied.
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Affiliation(s)
- Rim Abdallah
- IRD, APHM, MEPHI, Faculté de Médecine et de Pharmacie, Aix Marseille University, Marseille, France
- IHU Méditerranée Infection, Marseille, France
| | - Edmond Kuete Yimagou
- IRD, APHM, MEPHI, Faculté de Médecine et de Pharmacie, Aix Marseille University, Marseille, France
- IHU Méditerranée Infection, Marseille, France
| | - Linda Hadjadj
- IRD, APHM, MEPHI, Faculté de Médecine et de Pharmacie, Aix Marseille University, Marseille, France
- IHU Méditerranée Infection, Marseille, France
| | - Oleg Mediannikov
- IRD, APHM, MEPHI, Faculté de Médecine et de Pharmacie, Aix Marseille University, Marseille, France
- IHU Méditerranée Infection, Marseille, France
| | - Ahmad Ibrahim
- IRD, APHM, MEPHI, Faculté de Médecine et de Pharmacie, Aix Marseille University, Marseille, France
- IHU Méditerranée Infection, Marseille, France
| | - Bernard Davoust
- IRD, APHM, MEPHI, Faculté de Médecine et de Pharmacie, Aix Marseille University, Marseille, France
- IHU Méditerranée Infection, Marseille, France
| | - Amanda Barciela
- Dindefelo Biological Station, Jane Goodall Institute Spain and Senegal, Kedougou, Senegal
| | - R. Adriana Hernandez-Aguilar
- Dindefelo Biological Station, Jane Goodall Institute Spain and Senegal, Kedougou, Senegal
- Department of Social Psychology and Quantitative Psychology, Faculty of Psychology, Serra Hunter Programme, University of Barcelona, Barcelona, Spain
| | - Georges Diatta
- VITROME IRD 257, Campus International de Recherche IRD-UCAD de Hann, Dakar, Senegal
| | - Cheikh Sokhna
- IHU Méditerranée Infection, Marseille, France
- VITROME IRD 257, Campus International de Recherche IRD-UCAD de Hann, Dakar, Senegal
| | - Didier Raoult
- IRD, APHM, MEPHI, Faculté de Médecine et de Pharmacie, Aix Marseille University, Marseille, France
- IHU Méditerranée Infection, Marseille, France
| | - Jean-Marc Rolain
- IRD, APHM, MEPHI, Faculté de Médecine et de Pharmacie, Aix Marseille University, Marseille, France
- IHU Méditerranée Infection, Marseille, France
| | - Sophie Alexandra Baron
- IRD, APHM, MEPHI, Faculté de Médecine et de Pharmacie, Aix Marseille University, Marseille, France
- IHU Méditerranée Infection, Marseille, France
- *Correspondence: Sophie Alexandra Baron,
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22
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Amanzougaghene N, Charlier P, Fenollar F, Raoult D, Mediannikov O. Putative native South Amerindian origin of head lice clade F: evidence from head lice nits infesting human shrunken heads. Sci Rep 2022; 12:4307. [PMID: 35279677 PMCID: PMC8918326 DOI: 10.1038/s41598-022-08176-2] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/28/2021] [Accepted: 02/17/2022] [Indexed: 12/11/2022] Open
Abstract
The head louse, Pediculus humanus capitis, is a strictly obligate human ectoparasite with a long history of association with humans. Here, 17 ancient head lice nits were recovered from six shrunken human heads (known as tsantsas) of individuals from the Shuar/Jivaro tribe, a native Amazonian population from Ecuador, South America. Cytochrome b DNA analysis revealed the presence of three known mitochondrial clades. Clade A was the most frequent (52.94%), followed by F (35.29%), and B (11.76%). Eleven haplotypes were found in 17 samples, and nine of the haplotypes were novel, indicating an unusually high genetic diversity. In conclusion, we confirmed the presence of clades A, B and F in South Amerindian population. Moreover, the description of clade F, together with its previous reports in another Amerindian population from French Guiana, strongly support the hypothesis of a native South American origin for this clade, and probably derived from clade B which was carried to America by an ancestral Eurasian Beringian population. Further support to our conclusion and new insights might come from the analysis of a larger collection of modern and ancient native American lice.
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Affiliation(s)
- Nadia Amanzougaghene
- IHU-Méditerranée Infection, Marseille, France
- Aix Marseille Université, IRD, AP-HM, MEPHI, Marseille, France
| | - Philippe Charlier
- Laboratory «Anthropology, Archaeology, Biology» (LAAB), Université Paris-Saclay, UVSQ, 78180, Montigny-le-Bretonneux, France
- Musée du quai Branly - Jacques Chirac, 222 rue de l'Université, 75007, Paris, France
| | - Florence Fenollar
- IHU-Méditerranée Infection, Marseille, France
- Aix Marseille Université, IRD, AP-HM, SSA, VITROME, Marseille, France
| | - Didier Raoult
- IHU-Méditerranée Infection, Marseille, France
- Aix Marseille Université, IRD, AP-HM, MEPHI, Marseille, France
| | - Oleg Mediannikov
- IHU-Méditerranée Infection, Marseille, France.
- Aix Marseille Université, IRD, AP-HM, MEPHI, Marseille, France.
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23
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Hammoud A, Louni M, Missé D, Cortaredona S, Fenollar F, Mediannikov O. Phylogenetic relationship between the endosymbiont "Candidatus Riesia pediculicola" and its human louse host. Parasit Vectors 2022; 15:73. [PMID: 35248159 PMCID: PMC8898481 DOI: 10.1186/s13071-022-05203-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/10/2021] [Accepted: 02/14/2022] [Indexed: 11/23/2022] Open
Abstract
Background The human louse (Pediculus humanus) is a haematophagous ectoparasite that is intimately related to its host. It has been of great public health concern throughout human history. This louse has been classified into six divergent mitochondrial clades (A, D, B, F, C and E). As with all haematophagous lice, P. humanus directly depends on the presence of a bacterial symbiont, known as “Candidatus Riesia pediculicola”, to complement their unbalanced diet. In this study, we evaluated the codivergence of human lice around the world and their endosymbiotic bacteria. Using molecular approaches, we targeted lice mitochondrial genes from the six diverged clades and Candidatus Riesia pediculicola housekeeping genes. Methods The mitochondrial cytochrome b gene (cytb) of lice was selected for molecular analysis, with the aim to identify louse clade. In parallel, we developed four PCR primer pairs targeting three housekeeping genes of Candidatus Riesia pediculicola: ftsZ, groEL and two regions of the rpoB gene (rpoB-1 and rpoB-2). Results The endosymbiont phylogeny perfectly mirrored the host insect phylogeny using the ftsZ and rpoB-2 genes, in addition to showing a significant co-phylogenetic congruence, suggesting a strict vertical transmission and a host–symbiont co-speciation following the evolutionary course of the human louse. Conclusion Our results unequivocally indicate that louse endosymbionts have experienced a similar co-evolutionary history and that the human louse clade can be determined by their endosymbiotic bacteria. Graphical Abstract ![]()
Supplementary Information The online version contains supplementary material available at 10.1186/s13071-022-05203-z.
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Affiliation(s)
- Alissa Hammoud
- Institut Hospitalo-Universitaire (IHU) Méditerranée Infection, 13005, Marseille, France.,Institut de Recherche pour le Développement (IRD), Assistance Publique-Hôpitaux de Marseille (APHM), Microbes Evolution Phylogeny and Infections (MEPHI), Aix-Marseille University, 13005, Marseille, France
| | - Meriem Louni
- Institut Hospitalo-Universitaire (IHU) Méditerranée Infection, 13005, Marseille, France. .,Institut de Recherche pour le Développement (IRD), Assistance Publique-Hôpitaux de Marseille (APHM), Microbes Evolution Phylogeny and Infections (MEPHI), Aix-Marseille University, 13005, Marseille, France. .,Department of Biology, Faculty of Sciences, M'Hamed Bougara University, 35000, Boumerdès, Algeria.
| | - Dorothée Missé
- IRD, CNRS, MIVEGEC, Université Montpellier, 34394, Montpellier, France
| | - Sébastien Cortaredona
- Institut Hospitalo-Universitaire (IHU) Méditerranée Infection, 13005, Marseille, France.,Institut de Recherche pour le Développement (IRD), Assistance Publique-Hôpitaux de Marseille (APHM), Vectors Infections Tropicales and Mediterranean (VITROME), Aix-Marseille University, 13005, Marseille, France
| | - Florence Fenollar
- Institut Hospitalo-Universitaire (IHU) Méditerranée Infection, 13005, Marseille, France.,Institut de Recherche pour le Développement (IRD), Assistance Publique-Hôpitaux de Marseille (APHM), Vectors Infections Tropicales and Mediterranean (VITROME), Aix-Marseille University, 13005, Marseille, France
| | - Oleg Mediannikov
- Institut Hospitalo-Universitaire (IHU) Méditerranée Infection, 13005, Marseille, France. .,Institut de Recherche pour le Développement (IRD), Assistance Publique-Hôpitaux de Marseille (APHM), Microbes Evolution Phylogeny and Infections (MEPHI), Aix-Marseille University, 13005, Marseille, France.
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24
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Amanzougaghene N, Drali R, Shako JC, Davoust B, Fenollar F, Raoult D, Mediannikov O. High Genetic Diversity and Rickettsia felis in Pediculus humanus Lice Infesting Mbuti (pygmy people), -Democratic Republic of Congo. Front Cell Infect Microbiol 2022; 12:834388. [PMID: 35310843 PMCID: PMC8924665 DOI: 10.3389/fcimb.2022.834388] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/14/2021] [Accepted: 02/08/2022] [Indexed: 11/14/2022] Open
Abstract
Pediculus humanus is an obligate bloodsucking parasite of humans that has two ecotypes, the head louse and the body louse, which share an intimate history of coevolution with their human host. In the present work, we obtained and analysed head and body lice collected from Mbuti pygmies living in the Orientale province of the Democratic Republic of the Congo. Cytochrome b DNA analysis was performed in order to type the six known lice clades (A, D, B, F, C and E). The results revealed the presence of two mitochondrial clades. Clade D was the most frequent (61.7% of 47), followed by clade A (38.3% of 47). Sixteen haplotypes were found in 47 samples, of which thirteen were novel haplotypes, indicating an unusually high genetic diversity that closely mirrors the diversity of their hosts. Moreover, we report for the first time the presence of the DNA of R. felis in three (6.4% of 47) head and body lice belonging to both clades A and D. Additional studies are needed to clarify whether the Pediculus lice can indeed transmit this emerging zoonotic bacterium to their human hosts.
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Affiliation(s)
- Nadia Amanzougaghene
- Aix Marseille Univ Institut de Recherche pour le Développement (IRD), Assistance Publique - Hôpitaux de Marseille (APHM), Microbes, Evolution (MEPHI), Phylogénie et Infection, Marseille, France
- Institut Hospitalo-Universitaire (IHU)-Méditerranée Infection, Marseille, France
| | - Rezak Drali
- Aix Marseille Univ Institut de Recherche pour le Développement (IRD), Assistance Publique - Hôpitaux de Marseille (APHM), Microbes, Evolution (MEPHI), Phylogénie et Infection, Marseille, France
- Institut Hospitalo-Universitaire (IHU)-Méditerranée Infection, Marseille, France
- Plateforme Génomique - Bioinformatique, Institut Pasteur d’Algérie, Rue du Petit Staouéli, Algiers, Algeria
| | | | - Bernard Davoust
- Aix Marseille Univ Institut de Recherche pour le Développement (IRD), Assistance Publique - Hôpitaux de Marseille (APHM), Microbes, Evolution (MEPHI), Phylogénie et Infection, Marseille, France
- Institut Hospitalo-Universitaire (IHU)-Méditerranée Infection, Marseille, France
| | - Florence Fenollar
- Aix Marseille Univ Institut de Recherche pour le Développement (IRD), Assistance Publique - Hôpitaux de Marseille (APHM), Microbes, Evolution (MEPHI), Phylogénie et Infection, Marseille, France
- Aix Marseille Univ, Institut de Recherche pour le Développement (IRD), Assistance Publique - Hôpitaux de Marseille (APHM), Vecteurs – Infections Tropicales et Méditeranéennes (VITROME), Marseille, France
| | - Didier Raoult
- Aix Marseille Univ Institut de Recherche pour le Développement (IRD), Assistance Publique - Hôpitaux de Marseille (APHM), Microbes, Evolution (MEPHI), Phylogénie et Infection, Marseille, France
- Institut Hospitalo-Universitaire (IHU)-Méditerranée Infection, Marseille, France
| | - Oleg Mediannikov
- Aix Marseille Univ Institut de Recherche pour le Développement (IRD), Assistance Publique - Hôpitaux de Marseille (APHM), Microbes, Evolution (MEPHI), Phylogénie et Infection, Marseille, France
- Institut Hospitalo-Universitaire (IHU)-Méditerranée Infection, Marseille, France
- *Correspondence: Oleg Mediannikov,
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Mekhalif F, Zgheib R, Akiana J, Bilen M, Ndombe GM, Fenollar F, Fournier PE, Raoult D, Alibar S, Mediannikov O, Lo CI. Peptostreptococcus faecalis sp. nov., new bacterial species isolated from healthy indigenous Congolese volunteer. Heliyon 2022; 8:e09102. [PMID: 35313487 PMCID: PMC8933677 DOI: 10.1016/j.heliyon.2022.e09102] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/17/2021] [Revised: 12/10/2021] [Accepted: 03/09/2022] [Indexed: 11/19/2022] Open
Affiliation(s)
- Fatima Mekhalif
- Aix Marseille Univ, IRD, AP-HM, MEPHI, Marseille, France
- IHU-Méditerranée Infection, Marseille, France
| | - Rita Zgheib
- IHU-Méditerranée Infection, Marseille, France
- University of Balamand, Faculty of Medicine and Medical Sciences, Amioun, Lebanon
| | - Jean Akiana
- Laboratoire National de Santé Publique, Brazzaville, Congo
| | - Melhem Bilen
- Aix Marseille Univ, IRD, AP-HM, MEPHI, Marseille, France
- University of Balamand, Faculty of Medicine and Medical Sciences, Amioun, Lebanon
| | | | - Florence Fenollar
- IHU-Méditerranée Infection, Marseille, France
- Aix Marseille Univ, IRD, AP-HM, SSA, VITROME, Marseille, France
| | - Pierre-Edouard Fournier
- IHU-Méditerranée Infection, Marseille, France
- Aix Marseille Univ, IRD, AP-HM, SSA, VITROME, Marseille, France
| | - Didier Raoult
- Aix Marseille Univ, IRD, AP-HM, MEPHI, Marseille, France
- IHU-Méditerranée Infection, Marseille, France
| | | | - Oleg Mediannikov
- Aix Marseille Univ, IRD, AP-HM, MEPHI, Marseille, France
- IHU-Méditerranée Infection, Marseille, France
| | - Cheikh Ibrahima Lo
- IHU-Méditerranée Infection, Marseille, France
- Aix Marseille Univ, IRD, AP-HM, SSA, VITROME, Marseille, France
- Corresponding author.
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26
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Abdullah HHAM, Aboelsoued D, Farag TK, Abdel-Shafy S, Abdel Megeed KN, Parola P, Raoult D, Mediannikov O. Molecular characterization of some equine vector-borne diseases and associated arthropods in Egypt. Acta Trop 2022; 227:106274. [PMID: 34954258 DOI: 10.1016/j.actatropica.2021.106274] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/16/2021] [Revised: 12/08/2021] [Accepted: 12/09/2021] [Indexed: 12/20/2022]
Abstract
Equine vector-borne diseases (EVBDs) are emerging and re-emerging diseases, and most of them are zoonotic. This study aimed to investigate EVBDs in equines and associated arthropods (ticks and flies) from Egypt using molecular analyses, in addition to a preliminary characterization of associated ticks and flies by the matrix-assisted laser desorption/ionization time of flight (MALDI-TOF) and molecular techniques. In this study, 335 blood samples were obtained from equines that appeared to be in good health (320 horses and 15 donkeys) in Cairo and Beni Suef provinces, Egypt. From the same animals, 166 arthropods (105 sucking flies and 61 ticks) were collected. Ticks and flies were preliminary characterized by the MALDI-TOF and molecular tools. Quantitative PCR (qPCR) and standard PCR coupled with sequencing were performed on the DNA of equines, ticks, and flies to screen multiple pathogens. The MALDI-TOF and molecular characterization of arthropods revealed that louse fly (Hippobosca equina) and cattle tick (Rhipicephalus annulatus) infesting equines. Anaplasma platys-like (1.6%), Anaplasma marginale (1.6%), Candidatus Ehrlichia rustica (6.6%), a new Ehrlichia sp. (4.9%), and Borrelia theileri (3.3%) were identified in R. annulatus. Anaplasma sp. and Borrelia sp. DNAs were only detected in H. equina by qPCR. A. marginale, Anaplasma ovis, and Theileria ovis recorded the same low infection rate (0.6%) in donkeys, while horses were found to be infected with Theileria equi and a new Theileria sp. Africa with recorded prevalence rates of 1.2% and 2.7%, respectively. In conclusion, different pathogens were first detected such as A. platys-like, Candidatus E. rustica, and a new Ehrlichia sp. in R. annulatus; A. marginale, A. ovis, and T. ovis in donkeys; and a new Theileria sp. "Africa" in horses.
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Affiliation(s)
- Hend H A M Abdullah
- Department of Parasitology and Animal Diseases, Veterinary Research Institute, National Research Centre, Dokki, Giza, Egypt; Aix Marseille Univ, IRD, AP-HM, MEPHI, IHU-Méditerranée Infection, Marseille, France.
| | - Dina Aboelsoued
- Department of Parasitology and Animal Diseases, Veterinary Research Institute, National Research Centre, Dokki, Giza, Egypt
| | - Tarek K Farag
- Department of Parasitology and Animal Diseases, Veterinary Research Institute, National Research Centre, Dokki, Giza, Egypt
| | - Sobhy Abdel-Shafy
- Department of Parasitology and Animal Diseases, Veterinary Research Institute, National Research Centre, Dokki, Giza, Egypt
| | - Kadria N Abdel Megeed
- Department of Parasitology and Animal Diseases, Veterinary Research Institute, National Research Centre, Dokki, Giza, Egypt
| | - Philippe Parola
- Aix Marseille Univ, IRD, AP-HM, SSA, VITROME, IHU-Méditerranée Infection, Marseille, France
| | - Didier Raoult
- Aix Marseille Univ, IRD, AP-HM, MEPHI, IHU-Méditerranée Infection, Marseille, France
| | - Oleg Mediannikov
- Aix Marseille Univ, IRD, AP-HM, MEPHI, IHU-Méditerranée Infection, Marseille, France
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Demoncheaux JP, Medkour H, Louni M, Laugier L, Pasqualini C, Fenollar F, Davoust B, Mediannikov O. Detection of Potential Zoonotic Bartonella Species in African Giant Rats (Cricetomys gambianus) and Fleas from an Urban Area in Senegal. Microorganisms 2022; 10:microorganisms10030489. [PMID: 35336065 PMCID: PMC8953472 DOI: 10.3390/microorganisms10030489] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/17/2021] [Revised: 02/06/2022] [Accepted: 02/15/2022] [Indexed: 11/26/2022] Open
Abstract
Bartonellae are bacteria associated with mammals and their ectoparasites. Rodents often host different species of Bartonella. The aim of this study was to investigate the presence of Bartonella spp. in African giant pouched rats (Cricetomys gambianus) and their ectoparasites in Dakar, Senegal. In 2012, 20 rats were caught, and their fleas were identified. DNA was extracted from 170 selected fleas and qPCR was carried out to detect Bartonella spp. Subsequently, a Bartonella culture was performed from the rat blood samples and the isolated strains (16S rRNA, rpoB, ftsZ and ITS3) were genotyped. A total of 1117 fleas were collected from 19 rats and identified as Xenopsylla cheopis, the tropical rat flea. Bartonella DNA was detected in 148 of 170 selected fleas (87.1%). In addition, Bartonella strains were isolated from the blood of 17 rats (85%). According to Bartonella gene-sequence-based criteria for species definition, the isolated strains were identified as B. massiliensis (four strains) and two potential new species related to the zoonotic B. elizabethae. In this paper, these potentially new species are provisionally called Candidatus Bartonella militaris (11 strains) and Candidatus Bartonella affinis (two strains) until their description has been completed. Cricetomys gambianus and its fleas could constitute a public health risk in Dakar due to the high prevalence of Bartonella infection reported.
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Affiliation(s)
- Jean-Paul Demoncheaux
- Animal Epidemiology Expert Group of the Military Health Service, 37100 Tours, France; (J.-P.D.); (B.D.)
- Military Health Service, French Armed Forces in Senegal, Dakar 18524, Senegal;
| | - Hacene Medkour
- IRD, AP-HM, MEPHI, Aix Marseille University, 13005 Marseille, France; (H.M.); (M.L.)
- IHU Méditerranée Infection, 13005 Marseille, France; (L.L.); (F.F.)
| | - Meriem Louni
- IRD, AP-HM, MEPHI, Aix Marseille University, 13005 Marseille, France; (H.M.); (M.L.)
- IHU Méditerranée Infection, 13005 Marseille, France; (L.L.); (F.F.)
| | - Laurie Laugier
- IHU Méditerranée Infection, 13005 Marseille, France; (L.L.); (F.F.)
- IRD, AP-HM, SSA, VITROME, Aix Marseille University, 13005 Marseille, France
| | | | - Florence Fenollar
- IHU Méditerranée Infection, 13005 Marseille, France; (L.L.); (F.F.)
- IRD, AP-HM, SSA, VITROME, Aix Marseille University, 13005 Marseille, France
| | - Bernard Davoust
- Animal Epidemiology Expert Group of the Military Health Service, 37100 Tours, France; (J.-P.D.); (B.D.)
- IRD, AP-HM, MEPHI, Aix Marseille University, 13005 Marseille, France; (H.M.); (M.L.)
- IHU Méditerranée Infection, 13005 Marseille, France; (L.L.); (F.F.)
| | - Oleg Mediannikov
- IRD, AP-HM, MEPHI, Aix Marseille University, 13005 Marseille, France; (H.M.); (M.L.)
- IHU Méditerranée Infection, 13005 Marseille, France; (L.L.); (F.F.)
- Correspondence:
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Hasnaoui B, Diarra AZ, Berenger JM, Medkour H, Benakhla A, Mediannikov O, Parola P. Use of the proteomic tool MALDI-TOF MS in termite identification. Sci Rep 2022; 12:718. [PMID: 35031655 PMCID: PMC8760289 DOI: 10.1038/s41598-021-04574-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/20/2021] [Accepted: 12/08/2021] [Indexed: 11/17/2022] Open
Abstract
Matrix-assisted laser desorption/ionization mass spectrometry (MALDI-TOF MS) has proved effective for the identification of many arthropods. A total of 432 termite specimens were collected in Mali, Cote d’Ivoire, Togo, Senegal, Switzerland and France. Morphologically, 22 species were identified, including Ancistrotermes cavithorax, Amitermes evuncifer, Cryptotermes brevis, Cubitermes orthognathus, Kalotermes flavicollis, Macrotermes bellicosus, Macrotermes herus, Macrotermes ivorensis, Macrotermes subhyalinus, Microcerotermes parvus, Microtermes sp., Odontotermes latericius, Procubitermes sjostedti, Promirotermes holmgreni, Reticulitermes grassei, Reticulitermes lucifugus, Reticulitermes santonensis, Trinervitermes geminatus, Trinervitermes occidentalis, Trinervitermes togoensis, Trinervitermes sp., Trinervitermes trinervoides and Trinervitermes trinervius. Analysis of MALDI-TOF MS spectra profiles from termites revealed that all were of high quality, with intra-species reproducibility and inter-species specificity. Blind testing of the spectra of 389 termites against our updated database with the spectra of 43 specimens of different termite species revealed that all were correctly identified with log score values (LSVs) ranging from 1.65 to 2.851, mean 2.290 ± 0.225, median 2.299, and 98.4% (383) had LSVs > 1.8. This study is the first on the use of MALDI-TOF for termite identification and shows its importance as a tool for arthropod taxonomy and reinforces the idea that MALDI-TOF MS is a promising tool in the field of entomology.
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Affiliation(s)
- Bouthaina Hasnaoui
- Aix Marseille Univ, IRD, SSA, AP-HM, VITROME, Marseille, France.,IHU-Méditerranée Infection, Marseille, France
| | - Adama Zan Diarra
- Aix Marseille Univ, IRD, SSA, AP-HM, VITROME, Marseille, France.,IHU-Méditerranée Infection, Marseille, France
| | - Jean-Michel Berenger
- Aix Marseille Univ, IRD, SSA, AP-HM, VITROME, Marseille, France.,IHU-Méditerranée Infection, Marseille, France
| | - Hacène Medkour
- IHU-Méditerranée Infection, Marseille, France.,Aix Marseille Univ, IRD, AP-HM, MEPHI, Marseille, France
| | - Ahmed Benakhla
- Département des Sciences Vétérinaire, Université Chadli Bendjdid, 36000, El Tarf, Algeria
| | - Oleg Mediannikov
- IHU-Méditerranée Infection, Marseille, France.,Aix Marseille Univ, IRD, AP-HM, MEPHI, Marseille, France
| | - Philippe Parola
- Aix Marseille Univ, IRD, SSA, AP-HM, VITROME, Marseille, France. .,IHU-Méditerranée Infection, Marseille, France.
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Diouf FS, Ndiaye EHI, Hammoud A, Diamanka A, Bassene H, Ndiaye M, Mediannikov O, Parola P, Raoult D, Sokhna C, Diatta G. Detection of Coxiella burnetii and Borrelia spp. DNA in Cutaneous Samples and in Household Dust in Rural Areas, Senegal. Vector Borne Zoonotic Dis 2021; 21:659-666. [PMID: 34534024 DOI: 10.1089/vbz.2020.2723] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
Abstract
Q fever and tick-borne borreliosis are two zoonotic diseases rarely diagnosed in Senegalese health facilities, particularly in rural areas. Our study aims to better understand the circulation of Coxiella burnetii and Borrelia spp. DNA on human skin and the domestic environment in rural areas. Cutaneous swabs were taken from febrile patients being treated for borreliosis and/or Q fever, the members of patients' households and control households in the Niakhar area. Dust samples were also collected from 90 households where 54 cases of borreliosis and Q fever were reported as well as from the households of members of control populations in Dielmo, Ndiop, and Niakhar. C. burnetii and Borrelia spp. DNA were detected by quantitative PCR in cutaneous swabs and dust samples targeting spacers IS1111_IS30A and Bor 16S gene. Of 1365 persons tested, 76 were shown to carry C. burnetii, 13 Borrelia spp., and 6 were identified as carrying both C. burnetii and Borrelia spp. The prevalence of Borrelia spp. DNA in households was 16.7% in Dielmo, 6.7% in Ndiop, and 23.3% in all other villages in the Niakhar area, and the presence of C. burnetii in the same localities was 10%, 13.3% and 66.7%, respectively. Furthermore, C. burnetii genotyping identified the presence of Multispacer Sequence Typing group 6. These results revealed for the first time the carriage on the skin of C. burnetii and Borrelia spp. DNA in humans and its wide distribution across households. Our findings suggest that many populations are exposed to these diseases, with frequent contaminating cases of infectious origin arising from the domestic environment.
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Affiliation(s)
- Fatou Samba Diouf
- Unité Mixe de Recherche Vecteurs-Infections Tropicales et Méditerranéennes (VITROME), Institut de Recherche pour le Développement (IRD), Campus International de Recherche IRD-UCAD Hann, Dakar, Senegal
| | - El Hadji Ibrahima Ndiaye
- Unité Mixe de Recherche Vecteurs-Infections Tropicales et Méditerranéennes (VITROME), Institut de Recherche pour le Développement (IRD), Campus International de Recherche IRD-UCAD Hann, Dakar, Senegal
| | - Alissa Hammoud
- Aix-Marseille Université, IRD, APHM, MEPHI, Marseille, France.,IHU Méditerranée Infection, Marseille, France
| | - Arfang Diamanka
- Laboratoire de Parasitologie Générale, Département de Biologie Animale, Faculté des Sciences et Techniques (FST), Université Cheikh Anta Diop (UCAD) de Dakar, Dakar, Senegal
| | - Hubert Bassene
- Unité Mixe de Recherche Vecteurs-Infections Tropicales et Méditerranéennes (VITROME), Institut de Recherche pour le Développement (IRD), Campus International de Recherche IRD-UCAD Hann, Dakar, Senegal
| | - Mady Ndiaye
- Laboratoire d'Entomologie, Bactériologie, Rickettsiologie, Virologie, Département de Biologie Animale, FST, UCAD de Dakar, Dakar, Senegal
| | - Oleg Mediannikov
- Aix-Marseille Université, IRD, APHM, MEPHI, Marseille, France.,IHU Méditerranée Infection, Marseille, France
| | - Philippe Parola
- IHU Méditerranée Infection, Marseille, France.,Aix-Marseille Université, IRD, APHM, SSA, VITROME, Marseille, France
| | - Didier Raoult
- Aix-Marseille Université, IRD, APHM, MEPHI, Marseille, France.,IHU Méditerranée Infection, Marseille, France
| | - Cheikh Sokhna
- IHU Méditerranée Infection, Marseille, France.,Aix-Marseille Université, IRD, APHM, SSA, VITROME, Marseille, France
| | - Georges Diatta
- Unité Mixe de Recherche Vecteurs-Infections Tropicales et Méditerranéennes (VITROME), Institut de Recherche pour le Développement (IRD), Campus International de Recherche IRD-UCAD Hann, Dakar, Senegal.,Aix-Marseille Université, IRD, APHM, SSA, VITROME, Marseille, France
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30
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Abdullah HHAM, Amanzougaghene N, Dahmana H, Louni M, Raoult D, Mediannikov O. Multiple vector-borne pathogens of domestic animals in Egypt. PLoS Negl Trop Dis 2021; 15:e0009767. [PMID: 34587171 PMCID: PMC8480906 DOI: 10.1371/journal.pntd.0009767] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/05/2021] [Accepted: 08/26/2021] [Indexed: 11/19/2022] Open
Abstract
Vector Borne Diseases (VBDs) are considered emerging and re-emerging diseases that represent a global burden. The aim of this study was to explore and characterize vector-borne pathogens in different domestic animal hosts in Egypt. A total of 557 blood samples were collected from different animals using a convenience sampling strategy (203 dogs, 149 camels, 88 cattle, 26 buffaloes, 58 sheep and 33 goats). All samples were tested for multiple pathogens using quantitative PCR and standard PCR coupled with sequencing. We identified Theileria annulata and Babesia bigemina in cattle (15.9 and 1.1%, respectively), T. ovis in sheep and buffaloes (8.6 and 7.7%, respectively) and Ba. canis in dogs (0.5%) as well as Anaplasma marginale in cattle, sheep and camels (20.4, 3.4 and 0.7%, respectively) and Coxiella burnetii in sheep and goats (1.7 and 3%; respectively). New genotypes of An. centrale, An. ovis, An. platys-like and Borrelia theileri were found in cattle (1.1,3.4, 3.4 and 3.4%, respectively), An. platys-like in buffaloes (7.7%), An. marginale, An. ovis, An. platys-like and Bo. theileri in sheep (3.4, 1.7, 1.7 and 3.4%, respectively), An. platys, An. platys-like and Setaria digitata in camels (0.7, 5.4 and 0.7%, respectively) and Rickettsia africae-like, An. platys, Dirofilaria repens and Acanthocheilonema reconditum in dogs (1.5, 3.4, 1 and 0.5%, respectively). Co-infections were found in cattle, sheep and dogs (5.7, 1.7, 0.5%, respectively). For the first time, we have demonstrated the presence of several vector-borne zoonoses in the blood of domestic animals in Egypt. Dogs and ruminants seem to play a significant role in the epidemiological cycle of VBDs.
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Affiliation(s)
- Hend H. A. M. Abdullah
- Department of Parasitology and Animal Diseases, Veterinary Research Division, National Research Centre, Dokki, Giza, Egypt
- Aix Marseille Univ, IRD, AP-HM, MEPHI, IHU-Méditerranée Infection, Marseille, France
| | - Nadia Amanzougaghene
- Aix Marseille Univ, IRD, AP-HM, MEPHI, IHU-Méditerranée Infection, Marseille, France
| | - Handi Dahmana
- Aix Marseille Univ, IRD, AP-HM, MEPHI, IHU-Méditerranée Infection, Marseille, France
| | - Meriem Louni
- Aix Marseille Univ, IRD, AP-HM, MEPHI, IHU-Méditerranée Infection, Marseille, France
| | - Didier Raoult
- Aix Marseille Univ, IRD, AP-HM, MEPHI, IHU-Méditerranée Infection, Marseille, France
| | - Oleg Mediannikov
- Aix Marseille Univ, IRD, AP-HM, MEPHI, IHU-Méditerranée Infection, Marseille, France
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Laidoudi Y, Paolo Lia R, Mendoza-Roldan JA, Modrý D, de Broucker CA, Mediannikov O, Davoust B, Otranto D. Dipetalonema graciliformis (Freitas, 1964) from the red-handed tamarins ( Saguinus midas, Linnaeus, 1758) in French Guiana. Parasitology 2021; 148:1353-1359. [PMID: 34100346 PMCID: PMC11010042 DOI: 10.1017/s0031182021000901] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/04/2021] [Revised: 05/28/2021] [Accepted: 05/28/2021] [Indexed: 11/06/2022]
Abstract
Six Dipetalonema species have been reported from Neotropical monkeys, Dipetalonema gracile, Dipetalonema graciliformis and Dipetalonema caudispina being the dominant species found in French Guiana primates. Adult filarioids isolated from the abdominal cavity of tamarins (Saguinus midas) in French Guiana were morphologically and molecularly identified as D. graciliformis. Phylogenetic analysis based on DNA and amino acid sequences of the cox1 gene as well as the concatenated sequences of the cox1 and the 18S genes indicated that D. graciliformis belongs to the clade 4 (ONC4) of Onchocercidae. Blast analysis of the 18S rDNA revealed that D. graciliformis in the studied tamarins is conspecific with the filarioid circulating in howler monkeys (Alouatta macconnelli) in French Guiana, previously referred to as unidentified Onchocercidae species.
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Affiliation(s)
- Younes Laidoudi
- Aix Marseille Univ, IRD, AP-HM, MEPHI, IHU Méditerranée Infection, 19-21 Boulevard Jean Moulin, 13385Marseille, France
- IHU Méditerranée Infection, 19-21 Boulevard Jean Moulin, 13385Marseille, France
- Department of Veterinary Medicine, University of Bari, Bari, Italy
| | | | | | - David Modrý
- Department of Veterinary Sciences, Faculty of Agrobiology, Food and Natural Resources/CINeZ, Czech University of Life Sciences Prague, Prague, Czech Republic
- Biology Centre, Czech Academy of Sciences, České Budějovice, Czech Republic
- Department of Botany and Zoology, Faculty of Science, Masaryk University, Brno, Czech Republic
| | - Charles-Arnaud de Broucker
- French Military Health Service, Animal Epidemiology Expert Group, Tours, France
- Military Health Service, French Armed Forces in French Guiana, Cayenne, France
| | - Oleg Mediannikov
- Aix Marseille Univ, IRD, AP-HM, MEPHI, IHU Méditerranée Infection, 19-21 Boulevard Jean Moulin, 13385Marseille, France
- IHU Méditerranée Infection, 19-21 Boulevard Jean Moulin, 13385Marseille, France
| | - Bernard Davoust
- Aix Marseille Univ, IRD, AP-HM, MEPHI, IHU Méditerranée Infection, 19-21 Boulevard Jean Moulin, 13385Marseille, France
- IHU Méditerranée Infection, 19-21 Boulevard Jean Moulin, 13385Marseille, France
- French Military Health Service, Animal Epidemiology Expert Group, Tours, France
| | - Domenico Otranto
- Department of Veterinary Medicine, University of Bari, Bari, Italy
- Faculty of Veterinary Sciences, Bu-Ali Sina University, Hamedan, Iran
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Younes L, Barré-Cardi H, Bedjaoui S, Ayhan N, Varloud M, Mediannikov O, Otranto D, Davoust B. Dirofilaria immitis and Dirofilaria repens in mosquitoes from Corsica Island, France. Parasit Vectors 2021; 14:427. [PMID: 34446069 PMCID: PMC8390287 DOI: 10.1186/s13071-021-04931-y] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/26/2021] [Accepted: 08/05/2021] [Indexed: 11/10/2022] Open
Abstract
BACKGROUND Dirofilaria immitis and Dirofilaria repens are the main causative agents of heartworm disease and subcutaneous dirofilariasis in domestic and wild canids, respectively. Both pathogens have zoonotic potential and are transmitted by mosquitoes. The present study aimed to determine the transmission period, prevalence and diversity of Dirofilaria spp. vectors from endemic areas of Corsica (France). METHODS A monthly point data model based on average temperature recorded by four meteorological stations during 2017 was used to calculate the Dirofilaria transmission period. From June to September 2017, female mosquitoes (n = 1802) were captured using Biogents® Sentinel 2 traps lured with carbon dioxide and BG-Lure™ or octanol. Mosquitoes were identified to species level, pooled accordingly, and screened using multiplex real-time qPCR to detect D. immitis and D. repens. RESULTS The monthly point data model showed the possible transmission of Dirofilaria spp. from the third week in May to the last week in October in the studied area. Mosquitoes were identified as Ochlerotatus caspius (n = 1432), Aedes albopictus (n = 199), Culex pipiens sensu lato (n = 165) and Aedes vexans (n = 6) and were grouped into 109 pools (from 1 to 27 specimens, mean 11.4 ± 0.7), of which 16 scored positive for Dirofilaria spp. (i.e., n = 13; estimated infection rate [EIR] = 1.1% for D. immitis and n = 3; EIR = 0.2% for D. repens). Specifically, 6 (i.e., EIR = 3.8%) of 15 pools of Ae. albopictus were positive for D. immitis, 2 of 14 of Cx. pipiens s.l. were positive for D. immitis and D. repens, respectively, and 8 of 77 pools of Oc. caspius were positive for D. immitis (i.e., n = 6; EIR = 0.4%) and D. repens (i.e., 2; EIR = 0.1%). The highest mosquito infection rate was recorded in July (EIR = 2.5%), then in June (EIR = 1.3%) and September (EIR = 0.6%). CONCLUSIONS The data suggest that both Dirofilaria species are endemic and occur possibly in sympatry in the studied area in Corsica, highlighting the need to implement preventive chemoprophylaxis and vector control strategies to reduce the risk of these filarioids in dog and human populations.
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Affiliation(s)
- Laidoudi Younes
- Aix Marseille Univ, IRD, AP-HM, MEPHI, Marseille, France.,IHU Méditerranée Infection, Marseille, France.,Department of Veterinary Medicine, University of Bari, Valenzano, Bari, Italy
| | | | - Samia Bedjaoui
- Laboratory of Food Hygiene and Quality Insurance System (HASAQ), Higher National Veterinary School, Issad Abbes, Oued Smar, Algiers, Algeria
| | - Nazli Ayhan
- IHU Méditerranée Infection, Marseille, France.,Aix Marseille Univ, IRD 190, INSERM U1207, Unité des Virus Emergents, Marseille, France
| | - Marie Varloud
- Ceva Santé Animale, 10, Av de la Ballastière, Libourne, France
| | - Oleg Mediannikov
- Aix Marseille Univ, IRD, AP-HM, MEPHI, Marseille, France.,IHU Méditerranée Infection, Marseille, France
| | - Domenico Otranto
- IHU Méditerranée Infection, Marseille, France.,Faculty of Veterinary Sciences, Bu-Ali Sina University, Hamedan, Iran
| | - Bernard Davoust
- Aix Marseille Univ, IRD, AP-HM, MEPHI, Marseille, France. .,IHU Méditerranée Infection, Marseille, France. .,Animal Epidemiology Experts Group of the Military Health Service, Tours, France.
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Medkour H, Amona I, Akiana J, Laidoudi Y, Davoust B, Bitam I, Lafri I, Levasseur A, Diatta G, Sokhna C, Hernandez-Aguilar RA, Barciela A, Gorsane S, Banga-Mboko H, Raoult D, Fenollar F, Mediannikov O. Bacterial Infections in Humans and Nonhuman Primates from Africa: Expanding the Knowledge. Yale J Biol Med 2021; 94:227-248. [PMID: 34211344 PMCID: PMC8223552] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
Abstract
The close phylogenetic relationship between humans and other primates creates exceptionally high potential for pathogen exchange. The surveillance of pathogens in primates plays an important role in anticipating possible outbreaks. In this study, we conducted a molecular investigation of pathogenic bacteria in feces from African nonhuman primates (NHPs). We also investigated the pathogens shared by the human population and gorillas living in the same territory in the Republic of Congo. In total, 93% of NHPs (n=176) and 95% (n=38) of humans were found to carry at least one bacterium. Non-pallidum Treponema spp. (including T. succinifaciens, T. berlinense, and several potential new species) were recovered from stools of 70% of great apes, 88% of monkeys, and 79% of humans. Non-tuberculosis Mycobacterium spp. were also common in almost all NHP species as well as in humans. In addition, Acinetobacter spp., members of the primate gut microbiota, were mainly prevalent in human and gorilla. Pathogenic Leptospira spp. were highly present in humans (82%) and gorillas (66%) stool samples in Congo, but were absent in the other NHPs, therefore suggesting a possible gorillas-humans exchange. Particular attention will be necessary for enteropathogenic bacteria detected in humans such as Helicobacter pylori, Salmonella spp. (including S. typhi/paratyphi), Staphyloccocus aureus, and Tropheryma whipplei, some of which were also present in gorillas in the same territory (S. aureus and T. whipplei). This study enhances our knowledge of pathogenic bacteria that threaten African NHPs and humans by using a non-invasive sampling technique. Contact between humans and NHPs results in an exchange of pathogens. Ongoing surveillance, prevention, and treatment strategies alone will limit the spread of these infectious agents.
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Affiliation(s)
- Hacène Medkour
- IHU Méditerranée Infection, Marseille, France,Aix Marseille Université, IRD, AP-HM, Microbes, MEPHI,
Marseille, France,PADESCA Laboratory, Veterinary Science Institute,
University Constantine, El Khroub, Algeria,To whom all correspondence should be addressed:
DVM Hacène Medkour, IHU Méditerranée Infection, 19-21, Bd Jean Moulin, 13385
Marseille Cedex 05, France; , ORCID
iD: 0000-0002-5208-2576; Dr. Oleg Mediannikov, IHU Méditerranée Infection,
19-21, Bd Jean Moulin, 13385 Marseille Cedex 05, France;
, ORCID iD: https://orcid.org/0000-0001-6039-2008
| | - Inestin Amona
- IHU Méditerranée Infection, Marseille, France,Aix-Marseille Université, IRD, AP-HM, SSA, VITROME,
Marseille, France,Faculté des Sciences et Techniques, Université Marien
NGOUABI, Brazzaville, Republic of the Congo
| | - Jean Akiana
- Laboratoire National de Santé Publique, Brazzaville,
Republic of the Congo
| | - Younes Laidoudi
- IHU Méditerranée Infection, Marseille, France,Aix Marseille Université, IRD, AP-HM, Microbes, MEPHI,
Marseille, France,PADESCA Laboratory, Veterinary Science Institute,
University Constantine, El Khroub, Algeria
| | - Bernard Davoust
- IHU Méditerranée Infection, Marseille, France,Aix Marseille Université, IRD, AP-HM, Microbes, MEPHI,
Marseille, France
| | - Idir Bitam
- Aix-Marseille Université, IRD, AP-HM, SSA, VITROME,
Marseille, France,Superior School of Food Sciences and Food Industries,
Algiers, Algeria
| | - Ismail Lafri
- Aix-Marseille Université, IRD, AP-HM, SSA, VITROME,
Marseille, France,Institute of Veterinary Sciences, University of Blida
1, Blida, Algeria,Laboratory of Biotechnology related to Animal
Reproduction (LBRA), University of Blida 1, Blida, Algeria
| | - Anthony Levasseur
- IHU Méditerranée Infection, Marseille, France,Aix Marseille Université, IRD, AP-HM, Microbes, MEPHI,
Marseille, France
| | - Georges Diatta
- Aix-Marseille Université, IRD, AP-HM, SSA, VITROME,
Marseille, France,IRD VITROME, Dakar, Senegal
| | - Cheikh Sokhna
- IHU Méditerranée Infection, Marseille, France,Aix-Marseille Université, IRD, AP-HM, SSA, VITROME,
Marseille, France,IRD VITROME, Dakar, Senegal
| | - R. Adriana Hernandez-Aguilar
- IRD VITROME, Dakar, Senegal,Department of Social Psychology and Quantitative
Psychology, Faculty of Psychology, University of Barcelona, Barcelona,
Spain
| | - Amanda Barciela
- Jane Goodall Institute Spain and Senegal, Dindefelo
Biological Station, Dindefelo, Kedougou, Senegal
| | - Slim Gorsane
- Direction interarmées du Service de santé des armées
des Forces Françaises stationnées à Djibouti
| | - Henri Banga-Mboko
- Ecole Nationale d’Agronomie et de Foresterie,
Université Marien Ngouabi, Brazzaville, Republic of the Congo
| | - Didier Raoult
- IHU Méditerranée Infection, Marseille, France,Aix Marseille Université, IRD, AP-HM, Microbes, MEPHI,
Marseille, France
| | - Florence Fenollar
- IHU Méditerranée Infection, Marseille, France,Aix-Marseille Université, IRD, AP-HM, SSA, VITROME,
Marseille, France
| | - Oleg Mediannikov
- IHU Méditerranée Infection, Marseille, France,Aix Marseille Université, IRD, AP-HM, Microbes, MEPHI,
Marseille, France,To whom all correspondence should be addressed:
DVM Hacène Medkour, IHU Méditerranée Infection, 19-21, Bd Jean Moulin, 13385
Marseille Cedex 05, France; , ORCID
iD: 0000-0002-5208-2576; Dr. Oleg Mediannikov, IHU Méditerranée Infection,
19-21, Bd Jean Moulin, 13385 Marseille Cedex 05, France;
, ORCID iD: https://orcid.org/0000-0001-6039-2008
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Ouarti B, Hamzaoui BE, Stanko M, Laroche M, Mediannikov O, Parola P, Sekeyová Z. Detection of Rickettsia raoultii in Dermacentor reticulatus and Haemaphysalis inermis ticks in Slovakia. Biologia (Bratisl) 2021. [DOI: 10.1007/s11756-021-00789-8] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
Abstract
AbstractTicks are vector arthropods responsible for the transmission of several pathogenic agents that affect both human and animal health worldwide. In this study our objective was to analyse, using molecular tools, the bacterial community of Dermacentor reticulatus and Haemaphysalis inermis ticks collected in south-eastern Slovakia. Using real-time PCR, we identified the presence of Rickettsia spp. DNA at levels of 14/59 (23.72 %) and 29/173 (16.76 %) in D. reticulatus and H. inermis, respectively. In addition, using standard PCR and sequencing, we identified the presence of Rickettsia raoultii DNA in 13 ticks belonging to the two investigated species. Rickettsia raoultii blast results revealed an average identification percentage of 99.62 %. Following the results of this molecular study there is a possibility that D. reticulatus and H. inermis play a potential role in the transmission of R. raoultii. To prove the possibility of validity of this hypothesis, we suggest performing experimental models in future studies. Our results can serve as preliminary data for future transmission models.
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Davoust B, Watier-Grillot S, Roqueplo C, Raoult D, Mediannikov O. Detection of zoonotic pathogens in animals performed at the University Hospital Institute Méditerranée Infection (Marseille - France). One Health 2021; 12:100210. [PMID: 33437857 PMCID: PMC7786111 DOI: 10.1016/j.onehlt.2020.100210] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/12/2020] [Revised: 12/19/2020] [Accepted: 12/22/2020] [Indexed: 11/28/2022] Open
Abstract
At the University Hospital Institute Méditerranée Infection (IHU, Marseille, France), for almost thirty years, veterinarians have been carrying out epidemiological investigations, together with doctors, on animals living near human cases of zoonoses, on the one hand, and on the other hand, transverse and longitudinal epidemiological surveillance studies on animals which are reservoirs, vectors or sentinels of potentially zoonotic infections,. This article presents the methods adopted and the results obtained from these studies. They have been the subject of 76 peer-reviewed publications relating to wild animals (37 publications) and/or domestic animals (48 publications). These studies were often carried out in the field with veterinarians from the French army's health service (39 publications). They were at the origin of the detection of some thirty zoonotic pathogens in the laboratories of the IHU (64 publications) and/or other French laboratories (18 publications). Our approach is an original embodiment of the "One Health" concept.
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Affiliation(s)
- Bernard Davoust
- Aix Marseille Univ, IRD, AP-HM, MEPHI, Marseille, France
- IHU Méditerranée Infection, Marseille, France
- French military health service, Animal epidemiology expert group, Tours, France
| | - Stéphanie Watier-Grillot
- French military health service, Animal epidemiology expert group, Tours, France
- French army center for epidemiology and public health, Marseille, France
| | - Cédric Roqueplo
- French military health service, Animal epidemiology expert group, Tours, France
| | - Didier Raoult
- Aix Marseille Univ, IRD, AP-HM, MEPHI, Marseille, France
- IHU Méditerranée Infection, Marseille, France
| | - Oleg Mediannikov
- Aix Marseille Univ, IRD, AP-HM, MEPHI, Marseille, France
- IHU Méditerranée Infection, Marseille, France
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Maurin M, Fenollar F, Mediannikov O, Davoust B, Devaux C, Raoult D. Current Status of Putative Animal Sources of SARS-CoV-2 Infection in Humans: Wildlife, Domestic Animals and Pets. Microorganisms 2021; 9:868. [PMID: 33920724 PMCID: PMC8072559 DOI: 10.3390/microorganisms9040868] [Citation(s) in RCA: 25] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/18/2021] [Revised: 04/11/2021] [Accepted: 04/13/2021] [Indexed: 01/08/2023] Open
Abstract
SARS-CoV-2 is currently considered to have emerged from a bat coronavirus reservoir. However, the real natural cycle of this virus remains to be elucidated. Moreover, the COVID-19 pandemic has led to novel opportunities for SARS-CoV-2 transmission between humans and susceptible animal species. In silico and in vitro evaluation of the interactions between the SARS-CoV-2 spike protein and eucaryotic angiotensin-converting enzyme 2 (ACE2) receptor have tentatively predicted susceptibility to SARS-CoV-2 infection of several animal species. Although useful, these data do not always correlate with in vivo data obtained in experimental models or during natural infections. Other host biological properties may intervene such as the body temperature, level of receptor expression, co-receptor, restriction factors, and genetic background. The spread of SARS-CoV-2 also depends on the extent and duration of viral shedding in the infected host as well as population density and behaviour (group living and grooming). Overall, current data indicate that the most at-risk interactions between humans and animals for COVID-19 infection are those involving certain mustelids (such as minks and ferrets), rodents (such as hamsters), lagomorphs (especially rabbits), and felines (including cats). Therefore, special attention should be paid to the risk of SARS-CoV-2 infection associated with pets.
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Affiliation(s)
- Max Maurin
- University Grenoble Alpes, CNRS, Grenoble INP, CHU Grenoble Alpes, TIMC-IMAG, 38000 Grenoble, France;
| | - Florence Fenollar
- IHU-Méditerranée Infection, 13005 Marseille, France; (F.F.); (O.M.); (B.D.); (C.D.)
- IRD, AP-HM, SSA, VITROME, Aix Marseille University, 13005 Marseille, France
| | - Oleg Mediannikov
- IHU-Méditerranée Infection, 13005 Marseille, France; (F.F.); (O.M.); (B.D.); (C.D.)
- IRD, AP-HM, MEPHI, Aix Marseille University, 13005 Marseille, France
| | - Bernard Davoust
- IHU-Méditerranée Infection, 13005 Marseille, France; (F.F.); (O.M.); (B.D.); (C.D.)
- IRD, AP-HM, MEPHI, Aix Marseille University, 13005 Marseille, France
| | - Christian Devaux
- IHU-Méditerranée Infection, 13005 Marseille, France; (F.F.); (O.M.); (B.D.); (C.D.)
- IRD, AP-HM, MEPHI, Aix Marseille University, 13005 Marseille, France
- Centre National de la Recherche Scientifique, 13005 Marseille, France
| | - Didier Raoult
- IHU-Méditerranée Infection, 13005 Marseille, France; (F.F.); (O.M.); (B.D.); (C.D.)
- IRD, AP-HM, MEPHI, Aix Marseille University, 13005 Marseille, France
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Fenollar F, Mediannikov O, Maurin M, Devaux C, Colson P, Levasseur A, Fournier PE, Raoult D. Mink, SARS-CoV-2, and the Human-Animal Interface. Front Microbiol 2021; 12:663815. [PMID: 33868218 PMCID: PMC8047314 DOI: 10.3389/fmicb.2021.663815] [Citation(s) in RCA: 82] [Impact Index Per Article: 27.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/03/2021] [Accepted: 03/12/2021] [Indexed: 01/05/2023] Open
Abstract
Mink are small carnivores of the Mustelidae family. The American mink is the most common and was imported to Europe, Asia, and Latin America for breeding, as its fur is very popular. Denmark, the Netherlands, and China are the biggest producers of mink. Mink farms with a high population density in very small areas and a low level of genetic heterogeneity are places conducive to contagion. The mink’s receptor for SARS-CoV-2 is very similar to that of humans. Experimental models have shown the susceptibility of the ferret, another mustelid, to become infected with SARS-CoV-2 and to transmit it to other ferrets. On April 23, 2020, for the first time, an outbreak of SARS-CoV-2 in a mink farm was reported in the Netherlands. Since then, COVID-19 has reached numerous mink farms in the Netherlands, Denmark, United States, France, Greece, Italy, Spain, Sweden, Poland, Lithuania, and Canada. Not only do mink become infected from each other, but also they are capable of infecting humans, including with virus variants that have mutated in mink. Human infection with variant mink viruses with spike mutations led to the culling in Denmark of all mink in the country. Several animals can be infected with SARS-CoV-2. However, anthropo-zoonotic outbreaks have only been reported in mink farms. The rapid spread of SARS-CoV-2 in mink farms raises questions regarding their potential role at the onset of the pandemic and the impact of mutants on viral fitness, contagiousness, pathogenicity, re-infections with different mutants, immunotherapy, and vaccine efficacy.
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Affiliation(s)
- Florence Fenollar
- IHU-Méditerranée Infection, Marseille, France.,IRD, AP-HM, SSA, VITROME, Aix Marseille University, Marseille, France
| | - Oleg Mediannikov
- IHU-Méditerranée Infection, Marseille, France.,IRD, AP-HM, MEPHI, Aix Marseille University, Marseille, France
| | - Max Maurin
- CNRS, Grenoble INP, CHU Grenoble Alpes, TIMC-IMAG, Université Grenoble Alpes, Grenoble, France
| | - Christian Devaux
- IHU-Méditerranée Infection, Marseille, France.,IRD, AP-HM, MEPHI, Aix Marseille University, Marseille, France
| | - Philippe Colson
- IHU-Méditerranée Infection, Marseille, France.,IRD, AP-HM, MEPHI, Aix Marseille University, Marseille, France
| | - Anthony Levasseur
- IHU-Méditerranée Infection, Marseille, France.,IRD, AP-HM, MEPHI, Aix Marseille University, Marseille, France
| | - Pierre-Edouard Fournier
- IHU-Méditerranée Infection, Marseille, France.,IRD, AP-HM, SSA, VITROME, Aix Marseille University, Marseille, France
| | - Didier Raoult
- IHU-Méditerranée Infection, Marseille, France.,IRD, AP-HM, MEPHI, Aix Marseille University, Marseille, France
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Medkour H, Castaneda S, Amona I, Fenollar F, André C, Belais R, Mungongo P, Muyembé-Tamfum JJ, Levasseur A, Raoult D, Davoust B, Mediannikov O. Potential zoonotic pathogens hosted by endangered bonobos. Sci Rep 2021; 11:6331. [PMID: 33737691 PMCID: PMC7973442 DOI: 10.1038/s41598-021-85849-4] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/16/2020] [Accepted: 03/05/2021] [Indexed: 12/18/2022] Open
Abstract
Few publications, often limited to one specific pathogen, have studied bonobos (Pan paniscus), our closest living relatives, as possible reservoirs of certain human infectious agents. Here, 91 stool samples from semicaptive bonobos and bonobos reintroduced in the wild, in the Democratic Republic of the Congo, were screened for different infectious agents: viruses, bacteria and parasites. We showed the presence of potentially zoonotic viral, bacterial or parasitic agents in stool samples, sometimes coinfecting the same individuals. A high prevalence of Human mastadenoviruses (HAdV-C, HAdV-B, HAdV-E) was observed. Encephalomyocarditis viruses were identified in semicaptive bonobos, although identified genotypes were different from those identified in the previous fatal myocarditis epidemic at the same site in 2009. Non-pallidum Treponema spp. including symbiotic T. succinifaciens, T. berlinense and several potential new species with unknown pathogenicity were identified. We detected DNA of non-tuberculosis Mycobacterium spp., Acinetobacter spp., Salmonella spp. as well as pathogenic Leptospira interrogans. Zoonotic parasites such as Taenia solium and Strongyloides stercoralis were predominantly present in wild bonobos, while Giardia lamblia was found only in bonobos in contact with humans, suggesting a possible exchange. One third of bonobos carried Oesophagostomum spp., particularly zoonotic O. stephanostomum and O. bifurcum-like species, as well as other uncharacterized Nematoda. Trypanosoma theileri has been identified in semicaptive bonobos. Pathogens typically known to be transmitted sexually were not identified. We present here the results of a reasonably-sized screening study detecting DNA/RNA sequence evidence of potentially pathogenic viruses and microorganisms in bonobo based on a noninvasive sampling method (feces) and focused PCR diagnostics.
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Affiliation(s)
- Hacène Medkour
- Aix Marseille Univ, IRD, AP-HM, MEPHI, IHU-Méditerranée Infection, Marseille, France
- IHU-Méditerranée Infection, Marseille, France
| | - Sergei Castaneda
- Aix Marseille Univ, IRD, AP-HM, MEPHI, IHU-Méditerranée Infection, Marseille, France
- IHU-Méditerranée Infection, Marseille, France
| | - Inestin Amona
- IHU-Méditerranée Infection, Marseille, France
- Aix Marseille Univ, IRD, AP-HM, SSA, VITROME, IHU-Méditerranée Infection, Marseille, France
| | - Florence Fenollar
- IHU-Méditerranée Infection, Marseille, France
- Aix Marseille Univ, IRD, AP-HM, SSA, VITROME, IHU-Méditerranée Infection, Marseille, France
| | - Claudine André
- Les Amis des Bonobos du Congo, Kinshasa, Democratic Republic of the Congo
| | - Raphaël Belais
- Les Amis des Bonobos du Congo, Kinshasa, Democratic Republic of the Congo
| | - Paulin Mungongo
- Les Amis des Bonobos du Congo, Kinshasa, Democratic Republic of the Congo
| | | | - Anthony Levasseur
- IHU-Méditerranée Infection, Marseille, France
- Aix Marseille Univ, IRD, AP-HM, SSA, VITROME, IHU-Méditerranée Infection, Marseille, France
| | - Didier Raoult
- Aix Marseille Univ, IRD, AP-HM, MEPHI, IHU-Méditerranée Infection, Marseille, France
- IHU-Méditerranée Infection, Marseille, France
| | - Bernard Davoust
- Aix Marseille Univ, IRD, AP-HM, MEPHI, IHU-Méditerranée Infection, Marseille, France
- IHU-Méditerranée Infection, Marseille, France
| | - Oleg Mediannikov
- Aix Marseille Univ, IRD, AP-HM, MEPHI, IHU-Méditerranée Infection, Marseille, France.
- IHU-Méditerranée Infection, Marseille, France.
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Mangombi JB, N’dilimabaka N, Lekana-Douki JB, Banga O, Maghendji-Nzondo S, Bourgarel M, Leroy E, Fenollar F, Mediannikov O. First investigation of pathogenic bacteria, protozoa and viruses in rodents and shrews in context of forest-savannah-urban areas interface in the city of Franceville (Gabon). PLoS One 2021; 16:e0248244. [PMID: 33684147 PMCID: PMC7939261 DOI: 10.1371/journal.pone.0248244] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/27/2020] [Accepted: 02/23/2021] [Indexed: 12/29/2022] Open
Abstract
Rodents are reservoirs of numerous zoonotic diseases caused by bacteria, protozoans, or viruses. In Gabon, the circulation and maintenance of rodent-borne zoonotic infectious agents are poorly studied and are often limited to one type of pathogen. Among the three existing studies on this topic, two are focused on a zoonotic virus, and the third is focused on rodent Plasmodium. In this study, we searched for a wide range of bacteria, protozoa and viruses in different organs of rodents from the town of Franceville in Gabon. Samples from one hundred and ninety-eight (198) small mammals captured, including two invasive rodent species, five native rodent species and 19 shrews belonging to the Soricidae family, were screened. The investigated pathogens were bacteria from the Rickettsiaceae and Anaplasmataceae families, Mycoplasma spp., Bartonella spp., Borrelia spp., Orientia spp., Occidentia spp., Leptospira spp., Streptobacillus moniliformis, Coxiella burnetii, and Yersinia pestis; parasites from class Kinetoplastida spp. (Leishmania spp., Trypanosoma spp.), Piroplasmidae spp., and Toxoplasma gondii; and viruses from Paramyxoviridae, Hantaviridae, Flaviviridae and Mammarenavirus spp. We identified the following pathogenic bacteria: Anaplasma spp. (8.1%; 16/198), Bartonella spp. (6.6%; 13/198), Coxiella spp. (5.1%; 10/198) and Leptospira spp. (3.5%; 7/198); and protozoans: Piroplasma sp. (1%; 2/198), Toxoplasma gondii (0.5%; 1/198), and Trypanosoma sp. (7%; 14/198). None of the targeted viral genes were detected. These pathogens were found in Gabonese rodents, mainly Lophuromys sp., Lemniscomys striatus and Praomys sp. We also identified new genotypes: Candidatus Bartonella gabonensis and Uncultured Anaplasma spp. This study shows that rodents in Gabon harbor some human pathogenic bacteria and protozoans. It is necessary to determine whether the identified microorganisms are capable of undergoing zoonotic transmission from rodents to humans and if they may be responsible for human cases of febrile disease of unknown etiology in Gabon.
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Affiliation(s)
- Joa Braïthe Mangombi
- Centre Interdisciplinaire de Recherches Médicales de Franceville (CIRMF), Franceville, Gabon
- Aix Marseille Univ, IRD, AP-HM, Microbes, VITROME, Marseille, France
- IHU Méditerranée Infection, Marseille, France
| | - Nadine N’dilimabaka
- Centre Interdisciplinaire de Recherches Médicales de Franceville (CIRMF), Franceville, Gabon
- Département de Biologie, Faculté des sciences, Université des Sciences et Techniques de Masuku (USTM), Franceville, Gabon
| | - Jean-Bernard Lekana-Douki
- Centre Interdisciplinaire de Recherches Médicales de Franceville (CIRMF), Franceville, Gabon
- Département de Parasitologie, Université des Sciences de la Santé (USS), Owendo, Libreville
| | - Octavie Banga
- Centre Interdisciplinaire de Recherches Médicales de Franceville (CIRMF), Franceville, Gabon
| | - Sydney Maghendji-Nzondo
- Département Epidémiologie-Biostatistique et Informatique Médicale (DEBIM), Université des Sciences de la Santé (USS), Owendo, Libreville
| | - Mathieu Bourgarel
- CIRAD, UMR ASTRE, Harare, Zimbabwe
- ASTRE, Univ Montpellier, CIRAD, INRA, Montpellier, France
| | - Eric Leroy
- Centre Interdisciplinaire de Recherches Médicales de Franceville (CIRMF), Franceville, Gabon
- UMR MIVEGEC IRD-CNRS-UM, IRD, Montpellier, France
| | - Florence Fenollar
- Aix Marseille Univ, IRD, AP-HM, Microbes, VITROME, Marseille, France
- IHU Méditerranée Infection, Marseille, France
| | - Oleg Mediannikov
- IHU Méditerranée Infection, Marseille, France
- Aix Marseille Univ, IRD, AP-HM, Microbes, MEPHI, Marseille, France
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Ly TDA, Hoang VT, Goumballa N, Louni M, Canard N, Dao TL, Medkour H, Borg A, Bardy K, Esteves-Vieira V, Filosa V, Davoust B, Mediannikov O, Fournier PE, Raoult D, Gautret P. Variations in respiratory pathogen carriage among a homeless population in a shelter for men in Marseille, France, March-July 2020: cross-sectional 1-day surveys. Eur J Clin Microbiol Infect Dis 2021; 40:1579-1582. [PMID: 33580843 PMCID: PMC7881748 DOI: 10.1007/s10096-020-04127-9] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/17/2020] [Accepted: 12/13/2020] [Indexed: 12/03/2022]
Abstract
We aimed to compare respiratory pathogen carriage by PCR during three different time periods in 2020 in sheltered homeless people in Marseille, France. The overall prevalence of respiratory pathogen carriage in late March–early April (69.9%) was significantly higher than in late April (42.3%) and mid-July (45.1%). Bacterial carriage significantly decreased between late March–early April and late April. SARS-CoV-2 was detected only in late March–early April samples (20.6%). Measures aiming at mitigating SARS-CoV-2 transmission were effective and also impacted bacterial carriage. Seasonal variations of bacterial carriage between winter and summer in this population were not marked.
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Affiliation(s)
- Tran Duc Anh Ly
- IRD, AP-HM, SSA, VITROME, Aix Marseille Univ, Marseille, France.,IHU-Méditerranée Infection, Marseille, France
| | - Van Thuan Hoang
- IRD, AP-HM, SSA, VITROME, Aix Marseille Univ, Marseille, France.,IHU-Méditerranée Infection, Marseille, France.,Family Medicine Department, Thai Binh University of Medicine and Pharmacy, Thai Binh, Vietnam
| | - Ndiaw Goumballa
- IRD, AP-HM, SSA, VITROME, Aix Marseille Univ, Marseille, France.,VITROME, Campus International IRD-UCAD de l'IRD, Dakar, Senegal
| | - Meriem Louni
- IRD, AP-HM, SSA, VITROME, Aix Marseille Univ, Marseille, France.,IHU-Méditerranée Infection, Marseille, France
| | - Naomie Canard
- IRD, AP-HM, SSA, VITROME, Aix Marseille Univ, Marseille, France.,IHU-Méditerranée Infection, Marseille, France
| | - Thi Loi Dao
- IRD, AP-HM, SSA, VITROME, Aix Marseille Univ, Marseille, France.,IHU-Méditerranée Infection, Marseille, France.,Pneumology Department, Thai Binh University of Medicine and Pharmacy, Thai Binh, Vietnam
| | - Hacene Medkour
- IHU-Méditerranée Infection, Marseille, France.,IRD, AP-HM, SSA, MEPHI, Aix Marseille Univ, Marseille, France
| | - Audrey Borg
- IHU-Méditerranée Infection, Marseille, France
| | - Kevin Bardy
- IHU-Méditerranée Infection, Marseille, France
| | | | | | - Bernard Davoust
- IHU-Méditerranée Infection, Marseille, France.,IRD, AP-HM, SSA, MEPHI, Aix Marseille Univ, Marseille, France
| | - Oleg Mediannikov
- IHU-Méditerranée Infection, Marseille, France.,IRD, AP-HM, SSA, MEPHI, Aix Marseille Univ, Marseille, France
| | - Pierre-Edouard Fournier
- IRD, AP-HM, SSA, VITROME, Aix Marseille Univ, Marseille, France.,IHU-Méditerranée Infection, Marseille, France
| | - Didier Raoult
- IRD, AP-HM, SSA, VITROME, Aix Marseille Univ, Marseille, France.,IHU-Méditerranée Infection, Marseille, France.,IRD, AP-HM, SSA, MEPHI, Aix Marseille Univ, Marseille, France
| | - Philippe Gautret
- IRD, AP-HM, SSA, VITROME, Aix Marseille Univ, Marseille, France. .,IHU-Méditerranée Infection, Marseille, France.
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Ly TDA, Nguyen NN, Hoang VT, Goumballa N, Louni M, Canard N, Dao TL, Medkour H, Borg A, Bardy K, Esteves-Vieira V, Filosa V, Davoust B, Mediannikov O, Fournier PE, Raoult D, Gautret P. Screening of SARS-CoV-2 among homeless people, asylum-seekers and other people living in precarious conditions in Marseille, France, March-April 2020. Int J Infect Dis 2021; 105:1-6. [PMID: 33578010 PMCID: PMC7872841 DOI: 10.1016/j.ijid.2021.02.026] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/07/2020] [Accepted: 02/05/2021] [Indexed: 11/25/2022] Open
Abstract
Background Surveillance of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infection among sheltered homeless and other vulnerable people might provide the information needed to prevent its spread within accommodation centres. Methods Data were obtained from 698 participants in different accommodation centres (411 homeless individuals, 77 asylum-seekers, 58 other people living in precarious conditions and 152 employees working in these accommodation centres) who completed questionnaires and had nasal samples collected between 26 March and 17 April 2020. SARS-CoV-2 carriage was assessed by quantitative PCR. Results We found a high acceptance rate (78.9%) for testing. Overall, 49 people (7.0%) were positive for SARS-CoV-2, including 37 homeless individuals (of 411, 9.0%) and 12 employees (of 152, 7.9%). SARS-CoV-2 positivity correlated with symptoms, although 51% of patients who tested positive did not report respiratory symptoms or fever. Among homeless people, being young (18–34 years) (odds ratio 3.83, 95% confidence interval 1.47–10.0, p = 0.006) and being housed in one specific shelter (odds ratio 9.13, 95% confidence interval 4.09–20.37, p < 0.001) were independent factors associated with SARS-CoV-2 positivity (rates of 11.4% and 20.6%, respectively). Discussion Symptom screening alone is insufficient to prevent SARS-CoV-2 transmission in vulnerable sheltered people. Systematic testing should be promoted.
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Affiliation(s)
- Tran Duc Anh Ly
- Aix-Marseille University, IRD, AP-HM, SSA, VITROME, Marseille, France; IHU-Méditerranée Infection, Marseille, France
| | - Nhu Ngoc Nguyen
- Aix-Marseille University, IRD, AP-HM, SSA, VITROME, Marseille, France; IHU-Méditerranée Infection, Marseille, France
| | - Van Thuan Hoang
- Aix-Marseille University, IRD, AP-HM, SSA, VITROME, Marseille, France; IHU-Méditerranée Infection, Marseille, France; Family Medicine Department, Thai Binh University of Medicine and Pharmacy, Viet Nam
| | - Ndiaw Goumballa
- Aix-Marseille University, IRD, AP-HM, SSA, VITROME, Marseille, France; VITROME, Campus International IRD-UCAD de l'IRD, Dakar, Senegal
| | - Meriem Louni
- Aix-Marseille University, IRD, AP-HM, SSA, VITROME, Marseille, France; IHU-Méditerranée Infection, Marseille, France
| | - Naomie Canard
- Aix-Marseille University, IRD, AP-HM, SSA, VITROME, Marseille, France; IHU-Méditerranée Infection, Marseille, France
| | - Thi Loi Dao
- Aix-Marseille University, IRD, AP-HM, SSA, VITROME, Marseille, France; IHU-Méditerranée Infection, Marseille, France; Pneumology Department, Thai Binh University of Medicine and Pharmacy, Viet Nam
| | - Hacene Medkour
- IHU-Méditerranée Infection, Marseille, France; Aix-Marseille University, IRD, AP-HM, SSA, MEPHI, Marseille, France
| | - Audrey Borg
- IHU-Méditerranée Infection, Marseille, France
| | - Kevin Bardy
- IHU-Méditerranée Infection, Marseille, France
| | | | | | - Bernard Davoust
- IHU-Méditerranée Infection, Marseille, France; Aix-Marseille University, IRD, AP-HM, SSA, MEPHI, Marseille, France
| | - Oleg Mediannikov
- IHU-Méditerranée Infection, Marseille, France; Aix-Marseille University, IRD, AP-HM, SSA, MEPHI, Marseille, France
| | - Pierre-Edouard Fournier
- Aix-Marseille University, IRD, AP-HM, SSA, VITROME, Marseille, France; IHU-Méditerranée Infection, Marseille, France
| | - Didier Raoult
- Aix-Marseille University, IRD, AP-HM, SSA, VITROME, Marseille, France; IHU-Méditerranée Infection, Marseille, France; Aix-Marseille University, IRD, AP-HM, SSA, MEPHI, Marseille, France
| | - Philippe Gautret
- Aix-Marseille University, IRD, AP-HM, SSA, VITROME, Marseille, France; IHU-Méditerranée Infection, Marseille, France.
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Medkour H, Laidoudi Y, Dahmana H, Salvi B, Lepidi H, Mediannikov O, Davoust B. Severe pneumonia in a street rat ( Rattus norvegicus) caused by Rodentibacter rarus strain RMC2. Open Vet J 2021; 11:165-173. [PMID: 33898299 PMCID: PMC8057205 DOI: 10.4314/ovj.v11i1.24] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/10/2021] [Accepted: 02/26/2021] [Indexed: 11/17/2022] Open
Abstract
Background Rodents are one of the most dangerous reservoirs and carriers of infectious diseases. Gradually, rats have become predominant in cities, sometimes staying in close vicinity to humans, pets, and other animals. Consequently, they tend to increase the transmission risk of pathogens. Case Description Here, we report an original case of bacterial pneumonia in a street rat (Rattus norvegicus). The rat was found dead on a street in the chief town of Marseille (France) after being run over by a car. The necropsy of the corpse revealed generalized granulomatous pneumonia in almost all the pulmonary lobes. Lung lesions and predominantly multiple fibro-inflammatory areas are presumably the witness of an infectious etiology. Bacterial isolation was carried out from lung tissues. Colonies were identified by MALDI-TOF MS and confirmed by 16S rRNA sequencing. The following bacteria were identified: Staphylococcus cohnii, Bordetella bronchiseptica, Bordetella parapertussi, Corynebacterium glucuronolyticum, Pelistega suis and Rodentibacter rarus. Based on the histopathological diagnosis and the avoidance approach, the most likely etiological agent of pneumonia is therefore R. rarus, a little-known Pasteurellales bacterium that is closely related to Rodentibacter pneumotropicus. Conclusion These data emphasize the severity of R. rarus infection in rodents. Thus, pointing out a potential risk for other animals (dogs, cats, and birds), as well as humans. The health monitoring program for rodents and rabbits pasteurellosis should now include R. rarus. Therefore, the pathological effect of the Rodentibacterspecies and/or strains needs to be better explored.
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Affiliation(s)
- Hacène Medkour
- IRD, AP-HM, MEPHI, Aix Marseille University, Marseille, France
- IHU Méditerranée Infection, Marseille, France
- These authors contributed equally
| | - Younes Laidoudi
- IRD, AP-HM, MEPHI, Aix Marseille University, Marseille, France
- IHU Méditerranée Infection, Marseille, France
- These authors contributed equally
| | - Handi Dahmana
- IRD, AP-HM, MEPHI, Aix Marseille University, Marseille, France
- IHU Méditerranée Infection, Marseille, France
| | | | - Hubert Lepidi
- IRD, AP-HM, MEPHI, Aix Marseille University, Marseille, France
- IHU Méditerranée Infection, Marseille, France
- Laboratoire d’anatomo-pathologie, CHU La Timone, Assistance Publique – Hôpitaux de, Marseille, France
| | - Oleg Mediannikov
- IRD, AP-HM, MEPHI, Aix Marseille University, Marseille, France
- IHU Méditerranée Infection, Marseille, France
| | - Bernard Davoust
- IRD, AP-HM, MEPHI, Aix Marseille University, Marseille, France
- IHU Méditerranée Infection, Marseille, France
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Medkour H, Bitam I, Laidoudi Y, Lafri I, Lounas A, Hamidat HK, Mekroud A, Varloud M, Davoust B, Mediannikov O. Potential of Artesunate in the treatment of visceral leishmaniasis in dogs naturally infected by Leishmania infantum: Efficacy evidence from a randomized field trial. PLoS Negl Trop Dis 2020; 14:e0008947. [PMID: 33338041 PMCID: PMC7781483 DOI: 10.1371/journal.pntd.0008947] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/06/2020] [Revised: 01/04/2021] [Accepted: 11/03/2020] [Indexed: 12/19/2022] Open
Abstract
Leishmaniasis is among the world’s most neglected diseases. Dogs are the main reservoirs/hosts of Leishmania infantum, causative agent of both canine and human visceral leishmaniosis. Canine leishmaniasis (CanL) represents a public health problem as one of the most prevalent zoonotic diseases worldwide. Current therapeutics present drawbacks; thus, there is a need for more effective, safer, and cheaper drugs. The aim of this study was to evaluate and to compare the efficacy of oral administration of artesunate or meglumine antimoniate/allopurinol in dogs with clinical leishmaniasis. Forty-two dogs with naturally occurring clinical leishmaniasis were included in this open-label, simple randomized positive-control clinical field trial with 6 months of follow-up. Dogs received meglumine antimoniate 100 mg/kg/day and allopurinol 30 mg/kg/day for 28 days (control group, n = 26) or artesunate 25 mg/kg/day for 6 days (test group, n = 16). The animals were evaluated for their clinical evolution, parasite load (by qPCR) and humoral response at different time points: 0, 30, 90, and 180 days after treatment. Data analyses showed a significant improvement in both groups in clinical scores, parasitemia and antibody titers after treatment. Compared to the control group, the artesunate group showed significantly lower clinical score (P = 0.0001), lower parasitemia (P = 0.0001) and antibody titers after 6 months of follow-up. Compared to baseline values, a rapid, significant reduction (P < 0.012) in antibody levels, 2.28- versus 3.04-fold for the control versus artesunate groups, respectively, was observed 30 days after treatment. Antibody levels continued to decrease further in the artesunate group, where 58% of cases became seronegative at the 6-month follow-up. All qPCR-positive dogs were negative after treatment with artesunate, while 14.3% remained positive with the appearance of two new cases in the control group. Artesunate was well tolerated, and no side effects were recorded. Treatment failures were similar in both groups with 27.27% (6/22), including 18.18% (4/22) mortality in the control group, versus 26.66% (4/15), including 13.33% (2/15) mortality in the artesunate group. This is the first report showing the potential of artesunate in the treatment of dogs with clinical leishmaniasis. Artesunate showed higher efficacy than the current first-line treatment for CanL without any adverse effects. It could be a good alternative chemotherapy for CanL, and may be considered for further studies in human leishmaniases. Further clinical trials are needed to confirm these findings, to determine if there are relapses after treatment and if dogs remain infective to sandflies, to define the ideal therapeutic dosage and duration of treatment with artesunate. Canine leishmaniasis (CanL) is a fatal, zoonotic vector-borne disease caused by Leishmania infantum, a common pathogen for both humans and dogs. Most CanL therapeutics are toxic, expensive, or ineffective. Artemisinin and derivatives have recently demonstrated potent antileishmanial activity in vitro and in experimental models. In this study, dogs with clinical leishmaniasis were randomly included in one of the treatment groups: meglumine antimoniate/allopurinol (control) or artesunate (alternative). Dogs were followed up for 6 months for their clinical score, parasitemia and Leishmania antibody levels. Both groups showed improved clinical scores, parasitemia and antibody titers after treatment. After six months of follow-up, treatment success was very similar in both groups, and 72.73% (16/22) of the controls versus 73.34% (11/15) in the artesunate group had clinical improvement. All dogs initially seropositive by PCR became negative after artesunate treatment, while 14.3% remained positive with the appearance of new cases in the control group. Antibody titers decreased rapidly (from day 30) from baseline especially in the artesunate group, where 58% of the dogs converted to seronegative after 6 months. Artesunate could be a good alternative for treatment of leishmaniasis. Additional clinical trials are needed to obtain more data on this drug.
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Affiliation(s)
- Hacène Medkour
- IHU-Méditerranée Infection, Marseille, France
- Aix Marseille Univ., IRD, AP-HM, MEPHI, Marseille, France
- PADESCA Laboratory, Veterinary Science Institute, University Constantine 1, El Khroub, Algeria
| | - Idir Bitam
- Aix-Marseille Univ, IRD, AP-HM, SSA, VITROME, Marseille, France
- Superior School of Food Sciences and Food Industries of Algiers, Algeria
| | - Younes Laidoudi
- IHU-Méditerranée Infection, Marseille, France
- Aix Marseille Univ., IRD, AP-HM, MEPHI, Marseille, France
- PADESCA Laboratory, Veterinary Science Institute, University Constantine 1, El Khroub, Algeria
| | - Ismail Lafri
- Aix-Marseille Univ, IRD, AP-HM, SSA, VITROME, Marseille, France
- Institute of Veterinary Sciences, University of Blida 1, Algeria
- Laboratory of Biotechnology related to Animal Reproduction (LBRA), University of Blida, Blida, Algeria
| | - Abdelaziz Lounas
- Institute of Veterinary Sciences, University of Blida 1, Algeria
- Laboratory of Biotechnology related to Animal Reproduction (LBRA), University of Blida, Blida, Algeria
| | - Hamza Karim Hamidat
- Department of Biology, Faculty of Sciences, University of Boumerdes, Algeria
| | - Abdeslam Mekroud
- PADESCA Laboratory, Veterinary Science Institute, University Constantine 1, El Khroub, Algeria
| | | | - Bernard Davoust
- IHU-Méditerranée Infection, Marseille, France
- Aix Marseille Univ., IRD, AP-HM, MEPHI, Marseille, France
| | - Oleg Mediannikov
- IHU-Méditerranée Infection, Marseille, France
- Aix Marseille Univ., IRD, AP-HM, MEPHI, Marseille, France
- * E-mail:
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Ouarti B, Mediannikov O, Righi S, Benakhla A, Raoult D, Parola P. Molecular detection of microorganisms in lice collected from farm animals in Northeastern Algeria. Comp Immunol Microbiol Infect Dis 2020; 74:101569. [PMID: 33181468 DOI: 10.1016/j.cimid.2020.101569] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/05/2020] [Revised: 10/17/2020] [Accepted: 10/20/2020] [Indexed: 12/23/2022]
Affiliation(s)
- Basma Ouarti
- Aix Marseille Univ, IRD, AP-HM, SSA, VITROME, Marseille, France; IHU-Méditerranée Infection, Marseille, France.
| | - Oleg Mediannikov
- Aix Marseille Univ, IRD, AP-HM, SSA, VITROME, Marseille, France; IHU-Méditerranée Infection, Marseille, France.
| | - Souad Righi
- Université Chadli Bendjdid, Département des sciences Vétérinaire, El Tarf, 36000, Algeria.
| | - Ahmed Benakhla
- Université Chadli Bendjdid, Département des sciences Vétérinaire, El Tarf, 36000, Algeria.
| | - Didier Raoult
- IHU-Méditerranée Infection, Marseille, France; Aix Marseille Univ, IRD, AP-HM, MEPHI, Marseille, France.
| | - Philippe Parola
- Aix Marseille Univ, IRD, AP-HM, SSA, VITROME, Marseille, France; IHU-Méditerranée Infection, Marseille, France.
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Descloux E, Mediannikov O, Gourinat AC, Colot J, Chauvet M, Mermoud I, Desoutter D, Cazorla C, Klement-Frutos E, Antonini L, Levasseur A, Bossi V, Davoust B, Merlet A, Goujart MA, Oedin M, Brescia F, Laumond S, Fournier PE, Raoult D. Flying Fox Hemolytic Fever, Description of a New Zoonosis Caused by Candidatus Mycoplasma haemohominis. Clin Infect Dis 2020; 73:e1445-e1453. [PMID: 33119064 DOI: 10.1093/cid/ciaa1648] [Citation(s) in RCA: 21] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/08/2020] [Indexed: 12/22/2022] Open
Abstract
BACKGROUND Hemotropic mycoplasmas, previously classified in the genus Eperythrozoon, have been reported as causing human infections in Brazil, China, Japan, and Spain. METHODS In 2017, we detected DNA from Candidatus Mycoplasma haemohominis in the blood of a Melanesian patient from New Caledonia presenting with febrile splenomegaly, weight loss, life-threatening autoimmune hemolytic anemia, and hemophagocytosis. The full genome of the bacterium was sequenced from a blood isolate. Subsequently, we retrospectively (2011-2017) and prospectively (2018-2019) tested patients who had been hospitalized with a similar clinico-biological picture. In addition, as these patients had been in contact with frugivorous bats (authorized under conditions for hunting and eating in New Caledonia), we investigated the role of these animals and their biting flies by testing them for hemotropic mycoplasmas. RESULTS There were 15 patients found to be infected by this hemotropic mycoplasma. Among them, 4 (27%) died following splenectomy performed either for spontaneous spleen rupture or to cure refractory autoimmune hemolytic anemia. The bacterium was cultivated from the patient's blood. The full genome of the Neocaledonian Candidatus M. haemohominis strain differed from that of a recently identified Japanese strain. Of 40 tested Pteropus bats, 40% were positive; 100% of collected bat flies Cyclopodia horsfieldi (Nycteribiidae, Diptera) were positive. Human, bat, and dipteran strains were highly similar. CONCLUSIONS The bacterium being widely distributed in bats, Candidatus M. haemohominis, should be regarded as a potential cause of severe infections in humans.
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Affiliation(s)
- Elodie Descloux
- Service de Médecine Interne et Infectiologie, Centre Hospitalier Territorial Gaston Bourret, Noumea, Nouvelle Calédonie
| | - Oleg Mediannikov
- Aix Marseille University, Institut pour la recherche et le développement, Assistance Publique-Hôpitaux de Marseille, Microbes, Evolution, Phylogénie et Infection, Institut hospitalo-Universitaire-Méditerranée Infection, Marseille, France.,IHU-Méditerranée Infection, Marseille, France
| | - Ann-Claire Gourinat
- Laboratoire de Microbiologie, Centre Hospitalier Territorial Gaston Bourret, Noumea, Nouvelle Calédonie
| | - Julien Colot
- Laboratoire de Microbiologie, Centre Hospitalier Territorial Gaston Bourret, Noumea, Nouvelle Calédonie.,Laboratoire de Bactériologie, Institut Pasteur, Noumea, Nouvelle Calédonie
| | - Martine Chauvet
- Laboratoire de Microbiologie, Centre Hospitalier Territorial Gaston Bourret, Noumea, Nouvelle Calédonie
| | - Isabelle Mermoud
- Laboratoire de Nouvelle Calédonie, Direction des Affaires Vétérinaires, Alimentaires et Rurales, Noumea, Nouvelle Calédonie
| | - Denise Desoutter
- Laboratoire de Nouvelle Calédonie, Direction des Affaires Vétérinaires, Alimentaires et Rurales, Noumea, Nouvelle Calédonie
| | - Cécile Cazorla
- Service de Médecine Interne et Infectiologie, Centre Hospitalier Territorial Gaston Bourret, Noumea, Nouvelle Calédonie
| | - Elise Klement-Frutos
- Service de Médecine Interne et Infectiologie, Centre Hospitalier Territorial Gaston Bourret, Noumea, Nouvelle Calédonie
| | - Luca Antonini
- Service de Médecine Interne, Centre Hospitalo-universitaire de Caen, Caen, France
| | - Anthony Levasseur
- Aix Marseille University, Institut pour la recherche et le développement, Assistance Publique-Hôpitaux de Marseille, Microbes, Evolution, Phylogénie et Infection, Institut hospitalo-Universitaire-Méditerranée Infection, Marseille, France.,IHU-Méditerranée Infection, Marseille, France
| | - Vincent Bossi
- Aix Marseille University, Institut pour la recherche et le développement, Assistance Publique-Hôpitaux de Marseille, Microbes, Evolution, Phylogénie et Infection, Institut hospitalo-Universitaire-Méditerranée Infection, Marseille, France.,IHU-Méditerranée Infection, Marseille, France
| | - Bernard Davoust
- Aix Marseille University, Institut pour la recherche et le développement, Assistance Publique-Hôpitaux de Marseille, Microbes, Evolution, Phylogénie et Infection, Institut hospitalo-Universitaire-Méditerranée Infection, Marseille, France.,IHU-Méditerranée Infection, Marseille, France
| | - Audrey Merlet
- Service de Médecine Interne et Infectiologie, Centre Hospitalier Territorial Gaston Bourret, Noumea, Nouvelle Calédonie
| | - Marie-Amélie Goujart
- Laboratoire d'Hématologie, Centre Hospitalier Territorial Gaston Bourret, Noumea, Nouvelle Calédonie
| | - Malik Oedin
- Institut Agronomique Néo-Calédonien, Equipe Agriculture Biodiversité et Valorisation (ARBOREAL), Païta, Nouvelle-Calédonie
| | - Fabrice Brescia
- Institut Agronomique Néo-Calédonien, Equipe Agriculture Biodiversité et Valorisation (ARBOREAL), Païta, Nouvelle-Calédonie
| | - Sylvie Laumond
- Service de Santé Publique, Direction des Affaires Sanitaires et Sociales de Nouvelle Calédonie, Noumea, Nouvelle Calédonie
| | - Pierre-Edouard Fournier
- IHU-Méditerranée Infection, Marseille, France.,Aix Marseille Univ, IRD, Assistance Publique-Hôpitaux de Marseille, service de santé des armées, Vecteurs - Infections Tropicales et Méditeranéennes, Institut hospitalo-Universitaire-Méditerranée Infection, Marseille, France
| | - Didier Raoult
- Aix Marseille University, Institut pour la recherche et le développement, Assistance Publique-Hôpitaux de Marseille, Microbes, Evolution, Phylogénie et Infection, Institut hospitalo-Universitaire-Méditerranée Infection, Marseille, France.,IHU-Méditerranée Infection, Marseille, France
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Laidoudi Y, Levasseur A, Medkour H, Maaloum M, Ben Khedher M, Sambou M, Bassene H, Davoust B, Fenollar F, Raoult D, Mediannikov O. An Earliest Endosymbiont, Wolbachia massiliensis sp. nov., Strain PL13 from the Bed Bug ( Cimex hemipterus), Type Strain of a New Supergroup T. Int J Mol Sci 2020; 21:E8064. [PMID: 33138055 PMCID: PMC7662661 DOI: 10.3390/ijms21218064] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/05/2020] [Revised: 10/19/2020] [Accepted: 10/23/2020] [Indexed: 02/06/2023] Open
Abstract
The symbiotic Wolbachia are the most sophisticated mutualistic bacterium among all insect-associated microbiota. Wolbachia-insect relationship fluctuates from the simple facultative/parasitic to an obligate nutritional-mutualistic association as it was the case of the bedbug-Wolbachia from Cimexlectularius. Understanding this association may help in the control of associated arthropods. Genomic data have proven to be reliable tools in resolving some aspects of these symbiotic associations. Although, Wolbachia appear to be fastidious or uncultivated bacteria which strongly limited their study. Here we proposed Drosophila S2 cell line for the isolation and culture model to study Wolbachia strains. We therefore isolated and characterized a novel Wolbachia strain associated with the bedbug Cimexhemipterus, designated as wChem strain PL13, and proposed Wolbachiamassiliensis sp. nov. strain wChem-PL13 a type strain of this new species from new supergroup T. Phylogenetically, T-supergroup was close to F and S-supergroups from insects and D-supergroup from filarial nematodes. We determined the 1,291,339-bp genome of wChem-PL13, which was the smallest insect-associated Wolbachia genomes. Overall, the wChem genome shared 50% of protein coding genes with the other insect-associated facultative Wolbachia strains. These findings highlight the diversity of Wolbachia genotypes as well as the Wolbachia-host relationship among Cimicinae subfamily. The wChem provides folate and riboflavin vitamins on which the host depends, while the bacteria had a limited translation mechanism suggesting its strong dependence to its hosts. However, the clear-cut distinction between mutualism and parasitism of the wChem in C. hemipterus cannot be yet ruled out.
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Affiliation(s)
- Younes Laidoudi
- Aix Marseille Univ, IRD, AP-HM, MEPHI, 13385 Marseille, France; (Y.L.); (A.L.); (H.M.); (M.B.K.); (B.D.); (D.R.)
- IHU Méditerranée Infection, 13385 Marseille, France;
| | - Anthony Levasseur
- Aix Marseille Univ, IRD, AP-HM, MEPHI, 13385 Marseille, France; (Y.L.); (A.L.); (H.M.); (M.B.K.); (B.D.); (D.R.)
- IHU Méditerranée Infection, 13385 Marseille, France;
| | - Hacène Medkour
- Aix Marseille Univ, IRD, AP-HM, MEPHI, 13385 Marseille, France; (Y.L.); (A.L.); (H.M.); (M.B.K.); (B.D.); (D.R.)
- IHU Méditerranée Infection, 13385 Marseille, France;
| | - Mossaab Maaloum
- Laboratory of Biology and Health, Faculty of Sciences Ben M’sik, Hassan II University, Sidi Othmane, Casablanca 7955, Morocco;
| | - Mariem Ben Khedher
- Aix Marseille Univ, IRD, AP-HM, MEPHI, 13385 Marseille, France; (Y.L.); (A.L.); (H.M.); (M.B.K.); (B.D.); (D.R.)
- IHU Méditerranée Infection, 13385 Marseille, France;
| | - Masse Sambou
- Aix Marseille Univ, IRD, AP-HM, SSA, VITROME, Marseille, France, 13385 Marseille, France; (M.S.); (H.B.)
- Campus Commun UCAD-IRD of Hann, Dakar 10200, Senegal
| | - Hubert Bassene
- Aix Marseille Univ, IRD, AP-HM, SSA, VITROME, Marseille, France, 13385 Marseille, France; (M.S.); (H.B.)
- Campus Commun UCAD-IRD of Hann, Dakar 10200, Senegal
| | - Bernard Davoust
- Aix Marseille Univ, IRD, AP-HM, MEPHI, 13385 Marseille, France; (Y.L.); (A.L.); (H.M.); (M.B.K.); (B.D.); (D.R.)
- IHU Méditerranée Infection, 13385 Marseille, France;
| | - Florence Fenollar
- IHU Méditerranée Infection, 13385 Marseille, France;
- Aix Marseille Univ, IRD, AP-HM, SSA, VITROME, Marseille, France, 13385 Marseille, France; (M.S.); (H.B.)
| | - Didier Raoult
- Aix Marseille Univ, IRD, AP-HM, MEPHI, 13385 Marseille, France; (Y.L.); (A.L.); (H.M.); (M.B.K.); (B.D.); (D.R.)
- IHU Méditerranée Infection, 13385 Marseille, France;
| | - Oleg Mediannikov
- Aix Marseille Univ, IRD, AP-HM, MEPHI, 13385 Marseille, France; (Y.L.); (A.L.); (H.M.); (M.B.K.); (B.D.); (D.R.)
- IHU Méditerranée Infection, 13385 Marseille, France;
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Afouda P, Dubourg G, Levasseur A, Fournier PE, Delerce J, Mediannikov O, Diene SM, Nahon D, Bourlès D, Rolain JM, Raoult D. Culturing Ancient Bacteria Carrying Resistance Genes from Permafrost and Comparative Genomics with Modern Isolates. Microorganisms 2020; 8:E1522. [PMID: 33023015 PMCID: PMC7600834 DOI: 10.3390/microorganisms8101522] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/29/2020] [Revised: 10/01/2020] [Accepted: 10/01/2020] [Indexed: 11/18/2022] Open
Abstract
Long considered to be a consequence of human antibiotics use by deduction, antibiotic resistance mechanisms appear to be in fact a much older phenomenon as antibiotic resistance genes have previously been detected from millions of year-old permafrost samples. As these specimens guarantee the viability of archaic bacteria, we herein propose to apply the culturomics approach to recover the bacterial content of a Siberian permafrost sample dated, using the in situ-produced cosmogenic nuclide chlorine36 (36Cl), at 2.7 million years to study the dynamics of bacterial evolution in an evolutionary perspective. As a result, we cultured and sequenced the genomes of 28 ancient bacterial species including one new species. To perform genome comparison between permafrost strains and modern isolates we selected 7 of these species (i.e., Achromobacter insolitus, Bacillus idriensis, Brevundimonas aurantiaca, Janibacter melonis, Kocuria rhizophila, Microbacterium hydrocarbonoxydans and Paracoccus yeei). We observed a high level of variability in genomic content with a percentage of shared genes in the core genomes ranging from 21.23% to 55.59%. In addition, the Single Nucleotide Polymorphism (SNP) comparison between permafrost and modern strains for the same species did not allow a dating of ancient strains based on genomic content. There were no significant differences in antibiotic resistance profiles between modern and ancient isolates of each species. Acquired resistance to antibiotics was phenotypically detected in all gram-negative bacterial species recovered from permafrost, with a significant number of genes coding for antibiotic resistance detected. Taken together, these findings confirm previously obtained data that antibiotic resistance predates humanity as most of antimicrobial agents are natural weapons used in inter-microbial conflicts within the biosphere.
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Affiliation(s)
- Pamela Afouda
- Aix Marseille Université, IRD, AP-HM, MEPHI, 13005 Marseille, France; (P.A.); (G.D.); (A.L.); (J.D.); (O.M.); (S.M.D.); (J.-M.R.)
- IHU Méditerranée Infection, 13005 Marseille, France;
| | - Grégory Dubourg
- Aix Marseille Université, IRD, AP-HM, MEPHI, 13005 Marseille, France; (P.A.); (G.D.); (A.L.); (J.D.); (O.M.); (S.M.D.); (J.-M.R.)
- IHU Méditerranée Infection, 13005 Marseille, France;
| | - Anthony Levasseur
- Aix Marseille Université, IRD, AP-HM, MEPHI, 13005 Marseille, France; (P.A.); (G.D.); (A.L.); (J.D.); (O.M.); (S.M.D.); (J.-M.R.)
- IHU Méditerranée Infection, 13005 Marseille, France;
| | - Pierre-Edouard Fournier
- IHU Méditerranée Infection, 13005 Marseille, France;
- UMR VITROME, SSA, Aix-Marseille Université, IRD, AP-HM, IHU-Méditerranée-Infection, 13005 Marseille, France
| | - Jeremy Delerce
- Aix Marseille Université, IRD, AP-HM, MEPHI, 13005 Marseille, France; (P.A.); (G.D.); (A.L.); (J.D.); (O.M.); (S.M.D.); (J.-M.R.)
| | - Oleg Mediannikov
- Aix Marseille Université, IRD, AP-HM, MEPHI, 13005 Marseille, France; (P.A.); (G.D.); (A.L.); (J.D.); (O.M.); (S.M.D.); (J.-M.R.)
| | - Seydina M. Diene
- Aix Marseille Université, IRD, AP-HM, MEPHI, 13005 Marseille, France; (P.A.); (G.D.); (A.L.); (J.D.); (O.M.); (S.M.D.); (J.-M.R.)
- IHU Méditerranée Infection, 13005 Marseille, France;
| | - Daniel Nahon
- Aix-Marseille University, CNRS, IRD, INRAE, Coll France, UM 34 CEREGE, Technopôle de l’Environnement Arbois-Méditerranée, BP80, 13545 Aix-en-Provence, France; (D.N.); (D.B.)
| | - Didier Bourlès
- Aix-Marseille University, CNRS, IRD, INRAE, Coll France, UM 34 CEREGE, Technopôle de l’Environnement Arbois-Méditerranée, BP80, 13545 Aix-en-Provence, France; (D.N.); (D.B.)
| | - Jean-Marc Rolain
- Aix Marseille Université, IRD, AP-HM, MEPHI, 13005 Marseille, France; (P.A.); (G.D.); (A.L.); (J.D.); (O.M.); (S.M.D.); (J.-M.R.)
- IHU Méditerranée Infection, 13005 Marseille, France;
| | - Didier Raoult
- Aix Marseille Université, IRD, AP-HM, MEPHI, 13005 Marseille, France; (P.A.); (G.D.); (A.L.); (J.D.); (O.M.); (S.M.D.); (J.-M.R.)
- IHU Méditerranée Infection, 13005 Marseille, France;
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Abstract
BACKGROUND Species of the Tabanidae are potent vectors of human and animal diseases, but they have not been thoroughly investigated to date. In Senegal (West Africa), little information is available on these dipterans. Our objective in this study was to investigate Senegalese tabanids and their diversity by using molecular and proteomics approaches, as well as their associated pathogens. METHODS A total of 171 female tabanids were collected, including 143 from Casamance and 28 from Niokolo-Koba. The samples were identified morphologically by PCR sequencing and by MALDI-TOF MS, and PCR analysis was employed for pathogen detection and blood-meal characterization. RESULTS The morphological identification revealed four species concordantly with the molecular identification: Atylotus fuscipes (79.5%), Tabanus guineensis (16.4%), Chrysops distinctipennis (3.5%) and Tabanus taeniola (0.6%) (not identified by PCR). The molecular investigation of pathogens revealed the presence of Trypanosoma theileri (6.6%), Leishmania donovani (6.6%), Setaria digitata (1.5%), Rickettsia spp. (5.1%) and Anaplasmataceae bacteria (0.7%) in A. fuscipes. Tabanus guineensis was positive for L. donovani (35.7%), S. digitata (3.6%) and Anaplasmataceae (17.8%). Leishmania donovani has been detected in 50% of C. distinctipennis specimens and the only T. taeniola specimen. No Piroplasmida, Mansonella spp. or Coxeilla burnetii DNA was detected. In addition to humans (96.43%), Chlorocebus sabeus, a non-human primate, has been identified as a host of (3.57%) analysed tabanids. MALDI-TOF MS enabled us to correctly identify all tabanid species that had good quality spectra and to create a database for future identification. CONCLUSIONS Tabanids in Senegal could be vectors of several pathogens threatening animal and public health. To fully characterize these dipterans, it is therefore necessary that researchers in entomology and infectiology employ molecular characterization and mass spectrometric techniques such as MALDI-TOF MS to analyse these dipterans in Senegal and West Africa.
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Affiliation(s)
- Mohamed Lamine Keita
- IHU Méditerranée Infection - Microbes, Evolution, Phylogeny and Infection (MEФI), Marseille, France
- UMR Aix-Marseille University, IRD, APHM -19-21, Bd Jean Moulin, 13385, Marseille Cedex 05, France
| | - Hacène Medkour
- IHU Méditerranée Infection - Microbes, Evolution, Phylogeny and Infection (MEФI), Marseille, France
- UMR Aix-Marseille University, IRD, APHM -19-21, Bd Jean Moulin, 13385, Marseille Cedex 05, France
| | - Masse Sambou
- IHU Méditerranée Infection - Vecteurs - Infections Tropicales et Méditerranéennes (VITROME), Marseille, France
- Vectors-Tropical and Mediterranean Infections (VITROME), Campus International, UCAD-IRD, Dakar, Sénégal
| | - Handi Dahmana
- IHU Méditerranée Infection - Microbes, Evolution, Phylogeny and Infection (MEФI), Marseille, France
- UMR Aix-Marseille University, IRD, APHM -19-21, Bd Jean Moulin, 13385, Marseille Cedex 05, France
| | - Oleg Mediannikov
- IHU Méditerranée Infection - Microbes, Evolution, Phylogeny and Infection (MEФI), Marseille, France.
- UMR Aix-Marseille University, IRD, APHM -19-21, Bd Jean Moulin, 13385, Marseille Cedex 05, France.
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Boumbanda-Koyo CS, Mediannikov O, Amanzougaghene N, Oyegue-Liabagui SL, Imboumi-Limoukou RK, Raoult D, Lekana-Douki JB, Fenollar F. Molecular identification of head lice collected in Franceville (Gabon) and their associated bacteria. Parasit Vectors 2020; 13:410. [PMID: 32782016 PMCID: PMC7422577 DOI: 10.1186/s13071-020-04293-x] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/02/2020] [Accepted: 08/06/2020] [Indexed: 02/08/2023] Open
Abstract
BACKGROUND Pediculus humanus, which includes two ecotypes (body and head lice), is an obligate bloodsucking parasite that co-evolved with their human hosts over thousands of years, thus providing a valuable source of information to reconstruct the human migration. Pediculosis due to head lice occurred each year throughout the world and several pathogenic bacteria, which are usually associated with body lice, are increasingly detected in them. In Gabon, where this pediculosis is still widespread, there is a lack of data on genetic diversity of head lice and their associated bacteria. METHODS This study aimed to investigate the phylogeny of head lice collected in Gabon and their associated bacteria, using molecular tools. Between 26 March and 11 April 2018, 691 head lice were collected from 86 women in Franceville. We studied the genetic diversity of these lice based on the cytochrome b gene, then we screened them for DNA of Bartonella quintana, Borrelia spp., Acinetobacter spp., Yersinia pestis, Rickettsia spp., R. prowazekii, Anaplasma spp. and C. burnetii, using real time or standard PCR and sequencing. RESULTS Overall 74.6% of studied lice belonged to Clade A, 25.3% to Clade C and 0.1% to Clade E. The phylogenetic analysis of 344 head lice yielded 45 variable positions defining 13 different haplotypes from which 8 were novel. Bacterial screening revealed the presence of Borrelia spp. DNA in 3 (0.4%) of 691 head lice belonging to Clade A and infesting one individual. This Borrelia is close to B. theileri (GenBank: MN621894). Acinetobacter spp. DNA has been detected in 39 (25%) of the 156 screened lice; of these 13 (8.3%) corresponded to A. baumannii. Acinetobacter nosocomialis (n = 2) and A. pittii (n = 1) were also recorded. CONCLUSIONS To of our knowledge, this study is the first to investigate the genetic diversity of head lice from Gabon. It appears that Clade C is the second most important clade in Gabon, after Clade A which is known to have a global distribution. The detection of Borrelia spp. DNA in these lice highlight the potential circulation of these bacteria in Gabon.
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Affiliation(s)
- Celia Scherelle Boumbanda-Koyo
- Aix Marseille Univ, IRD, AP-HM, SSA, VITROME, Marseille, France.,IHU-Méditerranée Infection, Marseille, France.,Unité d'Evolution, Epidémiologie et Résistances Parasitaires (UNEEREP), Centre International de Recherches Médicales de Franceville (CIRMF), B.P. 769, Franceville, Gabon.,Ecole Doctorale Régionale en Infectiologie Tropicale d'Afrique Centrale, B.P. 876, Franceville, Gabon
| | - Oleg Mediannikov
- IHU-Méditerranée Infection, Marseille, France. .,Aix Marseille Univ, IRD, AP-HM, MEPHI, Marseille, France.
| | - Nadia Amanzougaghene
- IHU-Méditerranée Infection, Marseille, France.,Aix Marseille Univ, IRD, AP-HM, MEPHI, Marseille, France
| | | | - Roméo Karl Imboumi-Limoukou
- Unité d'Evolution, Epidémiologie et Résistances Parasitaires (UNEEREP), Centre International de Recherches Médicales de Franceville (CIRMF), B.P. 769, Franceville, Gabon
| | - Didier Raoult
- IHU-Méditerranée Infection, Marseille, France.,Aix Marseille Univ, IRD, AP-HM, MEPHI, Marseille, France
| | - Jean Bernard Lekana-Douki
- Unité d'Evolution, Epidémiologie et Résistances Parasitaires (UNEEREP), Centre International de Recherches Médicales de Franceville (CIRMF), B.P. 769, Franceville, Gabon.,Ecole Doctorale Régionale en Infectiologie Tropicale d'Afrique Centrale, B.P. 876, Franceville, Gabon.,Département de Parasitologie-Mycologie et Médecine Tropicale, Faculté de Médecine, Université des Sciences de la Santé (USS), B.P. 4009, Libreville, Gabon
| | - Florence Fenollar
- Aix Marseille Univ, IRD, AP-HM, SSA, VITROME, Marseille, France.,IHU-Méditerranée Infection, Marseille, France
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Laidoudi Y, Medkour H, Levasseur A, Davoust B, Mediannikov O. New Molecular Data on Filaria and its Wolbachia from Red Howler Monkeys ( Alouatta macconnelli) in French Guiana-A Preliminary Study. Pathogens 2020; 9:pathogens9080626. [PMID: 32752052 PMCID: PMC7460519 DOI: 10.3390/pathogens9080626] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/10/2020] [Revised: 07/28/2020] [Accepted: 07/29/2020] [Indexed: 11/16/2022] Open
Abstract
Previous studies have reported filarial parasites of the genus Dipetalonema and Mansonella from French Guiana monkeys, based on morphological taxonomy. In this study, we screened blood samples from nine howler monkeys (Alouatta macconnelli) for the presence of filaria and Wolbachia DNA. The infection rates were 88.9% for filaria and 55.6% for wolbachiae. The molecular characterization, based on the 18S gene of filariids, revealed that A. macconnelli are infected with at least three species (Mansonella sp., Brugia sp. and an unidentified Onchocercidae species.). Since the 18S and cox1 generic primers are not very effective at resolving co-infections, we developed ITS genus-specific PCRs for Mansonella and Brugia genus. The results revealed coinfections in 75% of positives. The presence of Mansonella sp. and Brugia sp. was also confirmed by the 16S phylogenetic analysis of their associated Wolbachia. Mansonella sp., which close to the species from the subgenus Tetrapetalonema encountered in New World Monkeys, while Brugia sp. was identical to the strain circulating in French Guiana dogs. We propose a novel ITS1Brugia genus-specific qPCR. We applied it to screen for Brugia infection in howler monkeys and 66.7% were found to be positive. Our finding highlights the need for further studies to clarify the species diversity of neotropics monkeys by combining molecular and morphological features. The novel Brugia genus-specific qPCR assays could be an effective tool for the surveillance and characterization of this potential zoonosis.
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Affiliation(s)
- Younes Laidoudi
- IRD, AP-HM, Microbes, Evolution, Phylogeny and Infection (MEPHI), IHU Méditerranée Infection, 19–21, Bd Jean Moulin, 13005 Marseille, France; (Y.L.); (H.M.); (A.L.); (B.D.)
- Aix Marseille Univ, 19–21, Bd Jean Moulin, 13005 Marseille, France
| | - Hacène Medkour
- IRD, AP-HM, Microbes, Evolution, Phylogeny and Infection (MEPHI), IHU Méditerranée Infection, 19–21, Bd Jean Moulin, 13005 Marseille, France; (Y.L.); (H.M.); (A.L.); (B.D.)
- Aix Marseille Univ, 19–21, Bd Jean Moulin, 13005 Marseille, France
| | - Anthony Levasseur
- IRD, AP-HM, Microbes, Evolution, Phylogeny and Infection (MEPHI), IHU Méditerranée Infection, 19–21, Bd Jean Moulin, 13005 Marseille, France; (Y.L.); (H.M.); (A.L.); (B.D.)
- Aix Marseille Univ, 19–21, Bd Jean Moulin, 13005 Marseille, France
| | - Bernard Davoust
- IRD, AP-HM, Microbes, Evolution, Phylogeny and Infection (MEPHI), IHU Méditerranée Infection, 19–21, Bd Jean Moulin, 13005 Marseille, France; (Y.L.); (H.M.); (A.L.); (B.D.)
- Aix Marseille Univ, 19–21, Bd Jean Moulin, 13005 Marseille, France
| | - Oleg Mediannikov
- IRD, AP-HM, Microbes, Evolution, Phylogeny and Infection (MEPHI), IHU Méditerranée Infection, 19–21, Bd Jean Moulin, 13005 Marseille, France; (Y.L.); (H.M.); (A.L.); (B.D.)
- Aix Marseille Univ, 19–21, Bd Jean Moulin, 13005 Marseille, France
- Correspondence: ; Tel.: +3304-1373-24-01
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