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Contributed by Philippe J. Sansonetti, July 16, 2018 (sent for review April 16, 2018; reviewed by Dusko Ehrlich and François Leulier)
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- Published in issue September 4, 2018.
- Published first August 20, 2018.
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Author Information
- Pascale Vonaescha,b,
- Evan Morienc,d,e,
- Lova Andrianonimiadanaf,
- Hugues Sankeg,
- Jean-Robert Mbeckog,
- Kelsey E. Huush,
- Tanteliniaina Naharimanananirinai,
- Bolmbaye Privat Gondjej,
- Synthia Nazita Nigatoloumj,
- Sonia Sandrine Vondoj,
- Jepthé Estimé Kaleb Kandouk,
- Rindra Randremananal,
- Maheninasy Rakotondrainipianal,
- Florent Mazelc,d,e,
- Serge Ghislain Djoriek,
- Jean-Chrysostome Godyj,
- B. Brett Finlayh,1,
- Pierre-Alain Rubbog,1,
- Laura Wegener Parfreyc,d,e,1,
- Jean-Marc Collardf,
- Philippe J. Sansonettia,b,m,2,
- The Afribiota Investigators3
- aUnité de Pathogénie Microbienne Moléculaire, Institut Pasteur, 75015 Paris, France;
- bUnité INSERM 1202, Institut Pasteur, 75015 Paris, France;
- cDepartment of Botany, University of British Columbia, Vancouver, BC V6T 1Z4, Canada;
- dDepartment of Zoology, University of British Columbia, Vancouver, BC V6T 1Z4, Canada;
- eBiodiversity Research Centre, University of British Columbia, Vancouver, BC V6T 1Z4, Canada;
- fUnité de Bactériologie Expérimentale, Institut Pasteur de Madagascar, BP 1274 Ambatofotsikely, 101 Antananarivo, Madagascar;
- gLaboratoires d’Analyses Médicales, Institut Pasteur de Bangui, BP 923 Bangui, Central African Republic;
- hMichael Smith Laboratories, University of British Columbia, Vancouver, BC V6T 1Z4, Canada;
- iCentre Hospitalier Universitaire Joseph Ravoahangy Andrianavalona, BP 4150, 101 Antananarivo, Madagascar;
- jComplexe Pédiatrique de Bangui, BP 923 Bangui, Central African Republic;
- kUnité d’Epidémiologie, Institut Pasteur de Bangui, BP 923 Bangui, Central African Republic;
- lUnité d’Epidémiologie et de Recherche Clinique, Institut Pasteur de Madagascar, BP 1274 Ambatofotsikely, 101 Antananarivo, Madagascar;
- mChaire de Microbiologie et de Maladies Infectieuses, Collège de France, 75231 Paris, France
Contributed by Philippe J. Sansonetti, July 16, 2018 (sent for review April 16, 2018; reviewed by Dusko Ehrlich and François Leulier)
Footnotes
↵1B.B.F., P.-A.R., and L.W.P. contributed equally to this work.
- ↵2To whom correspondence should be addressed. Email: philippe.sansonetti{at}pasteur.fr.
↵3A complete list of The Afribiota Investigators can be found in the SI Appendix.
Author contributions: P.V. and P.J.S. designed research; P.V., L.A., H.S., J.-R.M., F.M., and The Afribiota Investigators performed research; T.N., B.P.G., S.N.N., S.S.V., J.E.K.K., R.R., M.R., S.G.D., J.-C.G., B.B.F., and P.-A.R. supervised analyses and sample acquisition; P.V. cocoordinated the study; K.E.H. contributed her expertise on microbiota analysis; T.N., B.P.G., S.N.N., and S.S.V. performed duodenal aspirations; J.E.K.K. coordinated sample acquisition in the Central African Republic; R.R. supervised clinical aspects of the study in Madagascar; M.R. coordinated sample acquisition in Madagascar; S.G.D. supervised sample acquisition in the Central African Republic; J.-C.G. supervised clinical aspects of the study in the Central African Republic; B.B.F. provided his expertise on microbiota analysis; P.V. and P.-A.R. cosupervised small intestinal bacterial overgrowth (SIBO) analysis in the Central African Republic; L.W.P. supervised bioinformatic and biostatistic data analysis; J.-M.C. supervised SIBO analysis in Madagascar; P.J.S. cocoordinated the study and supervised the work of the first author; P.V., E.M., and L.W.P. analyzed data; and P.V., K.E.H., J.-M.C., and P.J.S. wrote the paper.
Reviewers: D.E., Institut National de la Recherche Agronomique; and F.L., Centre National de la Recherche Scientifique.
The authors declare no conflict of interest.
Data deposition: Sequence reads have been deposited in the European Nucleotide Archive, https://www.ebi.ac.uk/ena/ [accession nos. PRJEB27868 and ERP110005 (ERS2620873–ERS2621413)].
This article contains supporting information online at www.pnas.org/lookup/suppl/doi:10.1073/pnas.1806573115/-/DCSupplemental.
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