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04 09, 2022;14 (4):

Longitudinal Survey of Coronavirus Circulation and Diversity in Insectivorous Bat Colonies in Zimbabwe.

Vimbiso Chidoti, Hélène De Nys, Valérie Pinarello, Getrude Mashura, Dorothée Missé, Laure Guerrini, Davies Pfukenyi, Julien Cappelle, Ngoni Chiweshe, Ahidjo Ayouba, Gift Matope, Martine Peeters, Elizabeth Gori, Mathieu Bourgarel, Florian Liégeois
Author Information
  1. Vimbiso Chidoti: Faculty of Veterinary Science, University of Zimbabwe, Harare P.O. Box MP 167, Zimbabwe.
  2. Hélène De Nys: ASTRE, CIRAD, INRAE, University of Montpellier, 34980 Montpellier, France. ORCID
  3. Valérie Pinarello: Faculty of Veterinary Science, University of Zimbabwe, Harare P.O. Box MP 167, Zimbabwe.
  4. Getrude Mashura: Faculty of Veterinary Science, University of Zimbabwe, Harare P.O. Box MP 167, Zimbabwe.
  5. Dorothée Missé: MIVEGEC, University of Montpellier, IRD, CNRS, 34394 Montpellier, France. ORCID
  6. Laure Guerrini: ASTRE, CIRAD, INRAE, University of Montpellier, 34980 Montpellier, France.
  7. Davies Pfukenyi: Faculty of Veterinary Science, University of Zimbabwe, Harare P.O. Box MP 167, Zimbabwe.
  8. Julien Cappelle: ASTRE, CIRAD, INRAE, University of Montpellier, 34980 Montpellier, France. ORCID
  9. Ngoni Chiweshe: CIRAD, UMR ASTRE, Harare, Zimbabwe.
  10. Ahidjo Ayouba: TransVIHMI, University of Montpellier, IRD, Inserm, 34394 Montpellier, France. ORCID
  11. Gift Matope: Faculty of Veterinary Science, University of Zimbabwe, Harare P.O. Box MP 167, Zimbabwe.
  12. Martine Peeters: TransVIHMI, University of Montpellier, IRD, Inserm, 34394 Montpellier, France.
  13. Elizabeth Gori: Faculty of Veterinary Science, University of Zimbabwe, Harare P.O. Box MP 167, Zimbabwe. ORCID
  14. Mathieu Bourgarel: ASTRE, CIRAD, INRAE, University of Montpellier, 34980 Montpellier, France. ORCID
  15. Florian Liégeois: Faculty of Veterinary Science, University of Zimbabwe, Harare P.O. Box MP 167, Zimbabwe. ORCID
PMID: 35458511 DOI: 10.3390/v14040781

Abstract

BACKGROUND: Studies have linked bats to outbreaks of viral diseases in human populations such as SARS-CoV-1 and MERS-CoV and the ongoing SARS-CoV-2 pandemic.
METHODS: We carried out a longitudinal survey from August 2020 to July 2021 at two sites in Zimbabwe with bat-human interactions: Magweto cave and Chirundu farm. A total of 1732 and 1866 individual bat fecal samples were collected, respectively. Coronaviruses and bat species were amplified using PCR systems.
RESULTS: Analysis of the coronavirus sequences revealed a high genetic diversity, and we identified different sub-viral groups in the and genus. The established sub-viral groups fell within the described sub-genera: , , , and and for sub-genera: , and . Our results showed an overall proportion for CoV positive PCR tests of 23.7% at Chirundu site and 16.5% and 38.9% at Magweto site for insectivorous bats and , respectively.
CONCLUSIONS: The higher risk of bat coronavirus exposure for humans was found in December to March in relation to higher viral shedding peaks of coronaviruses in the parturition, lactation and weaning months of the bat populations at both sites. We also highlight the need to further document viral infectious risk in human/domestic animal populations surrounding bat habitats in Zimbabwe.

Keywords

Zimbabwe bat coronavirus (Bt CoVs) genetic diversity human–bat interaction reproductive phenology

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MeSH Term

Alphacoronavirus
Animals
COVID-19
Chiroptera
Evolution, Molecular
Female
Genome, Viral
Phylogeny
SARS-CoV-2
Zimbabwe
Journal Article Research Support, Non-U.S. Gov't
Article has an altmetric score of 10

Word Cloud

Created with Highcharts 10.0.0batZimbabweviralpopulationscoronavirusbatssitesMagwetoChirundurespectivelyPCRgeneticdiversitysub-viralgroupssub-genera:sitehigherriskBACKGROUND:StudieslinkedoutbreaksdiseaseshumanSARS-CoV-1MERS-CoVongoingSARS-CoV-2pandemicMETHODS:carriedlongitudinalsurveyAugust2020July2021twobat-humaninteractions:cavefarmtotal17321866individualfecalsamplescollectedCoronavirusesspeciesamplifiedusingsystemsRESULTS:AnalysissequencesrevealedhighidentifieddifferentgenusestablishedfellwithindescribedresultsshowedoverallproportionCoVpositivetests237%165%389%insectivorousCONCLUSIONS:exposurehumansfoundDecemberMarchrelationsheddingpeakscoronavirusesparturitionlactationweaningmonthsalsohighlightneeddocumentinfectioushuman/domesticanimalsurroundinghabitatsLongitudinalSurveyCoronavirusCirculationDiversityInsectivorousBatColoniesBtCoVshuman–batinteractionreproductivephenology

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