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Research Article

Stunted childhood growth is associated with decompartmentalization of the gastrointestinal tract and overgrowth of oropharyngeal taxa

Pascale Vonaesch, Evan Morien, Lova Andrianonimiadana, Hugues Sanke, Jean-Robert Mbecko, Kelsey E. Huus, Tanteliniaina Naharimanananirina, Bolmbaye Privat Gondje, Synthia Nazita Nigatoloum, Sonia Sandrine Vondo, Jepthé Estimé Kaleb Kandou, Rindra Randremanana, Maheninasy Rakotondrainipiana, Florent Mazel, Serge Ghislain Djorie, Jean-Chrysostome Gody, B. Brett Finlay, Pierre-Alain Rubbo, Laura Wegener Parfrey, Jean-Marc Collard, Philippe J. Sansonetti, and The Afribiota Investigators
  1. aUnité de Pathogénie Microbienne Moléculaire, Institut Pasteur, 75015 Paris, France;
  2. bUnité INSERM 1202, Institut Pasteur, 75015 Paris, France;
  3. cDepartment of Botany, University of British Columbia, Vancouver, BC V6T 1Z4, Canada;
  4. dDepartment of Zoology, University of British Columbia, Vancouver, BC V6T 1Z4, Canada;
  5. eBiodiversity Research Centre, University of British Columbia, Vancouver, BC V6T 1Z4, Canada;
  6. fUnité de Bactériologie Expérimentale, Institut Pasteur de Madagascar, BP 1274 Ambatofotsikely, 101 Antananarivo, Madagascar;
  7. gLaboratoires d’Analyses Médicales, Institut Pasteur de Bangui, BP 923 Bangui, Central African Republic;
  8. hMichael Smith Laboratories, University of British Columbia, Vancouver, BC V6T 1Z4, Canada;
  9. iCentre Hospitalier Universitaire Joseph Ravoahangy Andrianavalona, BP 4150, 101 Antananarivo, Madagascar;
  10. jComplexe Pédiatrique de Bangui, BP 923 Bangui, Central African Republic;
  11. kUnité d’Epidémiologie, Institut Pasteur de Bangui, BP 923 Bangui, Central African Republic;
  12. lUnité d’Epidémiologie et de Recherche Clinique, Institut Pasteur de Madagascar, BP 1274 Ambatofotsikely, 101 Antananarivo, Madagascar;
  13. mChaire de Microbiologie et de Maladies Infectieuses, Collège de France, 75231 Paris, France

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PNAS September 4, 2018 115 (36) E8489-E8498; first published August 20, 2018; https://doi.org/10.1073/pnas.1806573115
Pascale Vonaesch
aUnité de Pathogénie Microbienne Moléculaire, Institut Pasteur, 75015 Paris, France;
bUnité INSERM 1202, Institut Pasteur, 75015 Paris, France;
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Evan Morien
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;
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Lova Andrianonimiadana
fUnité de Bactériologie Expérimentale, Institut Pasteur de Madagascar, BP 1274 Ambatofotsikely, 101 Antananarivo, Madagascar;
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Hugues Sanke
gLaboratoires d’Analyses Médicales, Institut Pasteur de Bangui, BP 923 Bangui, Central African Republic;
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Jean-Robert Mbecko
gLaboratoires d’Analyses Médicales, Institut Pasteur de Bangui, BP 923 Bangui, Central African Republic;
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Kelsey E. Huus
hMichael Smith Laboratories, University of British Columbia, Vancouver, BC V6T 1Z4, Canada;
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Tanteliniaina Naharimanananirina
iCentre Hospitalier Universitaire Joseph Ravoahangy Andrianavalona, BP 4150, 101 Antananarivo, Madagascar;
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Bolmbaye Privat Gondje
jComplexe Pédiatrique de Bangui, BP 923 Bangui, Central African Republic;
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Synthia Nazita Nigatoloum
jComplexe Pédiatrique de Bangui, BP 923 Bangui, Central African Republic;
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Sonia Sandrine Vondo
jComplexe Pédiatrique de Bangui, BP 923 Bangui, Central African Republic;
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Jepthé Estimé Kaleb Kandou
kUnité d’Epidémiologie, Institut Pasteur de Bangui, BP 923 Bangui, Central African Republic;
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Rindra Randremanana
lUnité d’Epidémiologie et de Recherche Clinique, Institut Pasteur de Madagascar, BP 1274 Ambatofotsikely, 101 Antananarivo, Madagascar;
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Maheninasy Rakotondrainipiana
lUnité d’Epidémiologie et de Recherche Clinique, Institut Pasteur de Madagascar, BP 1274 Ambatofotsikely, 101 Antananarivo, Madagascar;
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Florent Mazel
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;
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Serge Ghislain Djorie
kUnité d’Epidémiologie, Institut Pasteur de Bangui, BP 923 Bangui, Central African Republic;
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Jean-Chrysostome Gody
jComplexe Pédiatrique de Bangui, BP 923 Bangui, Central African Republic;
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B. Brett Finlay
hMichael Smith Laboratories, University of British Columbia, Vancouver, BC V6T 1Z4, Canada;
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Pierre-Alain Rubbo
gLaboratoires d’Analyses Médicales, Institut Pasteur de Bangui, BP 923 Bangui, Central African Republic;
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Laura Wegener Parfrey
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;
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Jean-Marc Collard
fUnité de Bactériologie Expérimentale, Institut Pasteur de Madagascar, BP 1274 Ambatofotsikely, 101 Antananarivo, Madagascar;
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Philippe J. Sansonetti
aUnité de Pathogénie Microbienne Moléculaire, Institut Pasteur, 75015 Paris, France;
bUnité INSERM 1202, Institut Pasteur, 75015 Paris, France;
mChaire de Microbiologie et de Maladies Infectieuses, Collège de France, 75231 Paris, France
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  • For correspondence: philippe.sansonetti@pasteur.fr
  1. 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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Article Information

vol. 115 no. 36 E8489-E8498
DOI: 
https://doi.org/10.1073/pnas.1806573115
PubMed: 
30126990

Published By: 
National Academy of Sciences
Print ISSN: 
0027-8424
Online ISSN: 
1091-6490
History: 
  • Published in issue September 4, 2018.
  • Published first August 20, 2018.

Article Versions

  • Previous version (August 20, 2018 - 11:55).
  • You are viewing the most recent version of this article.
Copyright & Usage: 
© 2018 Published under the PNAS license.

Author Information

  1. Pascale Vonaescha,b,
  2. Evan Morienc,d,e,
  3. Lova Andrianonimiadanaf,
  4. Hugues Sankeg,
  5. Jean-Robert Mbeckog,
  6. Kelsey E. Huush,
  7. Tanteliniaina Naharimanananirinai,
  8. Bolmbaye Privat Gondjej,
  9. Synthia Nazita Nigatoloumj,
  10. Sonia Sandrine Vondoj,
  11. Jepthé Estimé Kaleb Kandouk,
  12. Rindra Randremananal,
  13. Maheninasy Rakotondrainipianal,
  14. Florent Mazelc,d,e,
  15. Serge Ghislain Djoriek,
  16. Jean-Chrysostome Godyj,
  17. B. Brett Finlayh,1,
  18. Pierre-Alain Rubbog,1,
  19. Laura Wegener Parfreyc,d,e,1,
  20. Jean-Marc Collardf,
  21. Philippe J. Sansonettia,b,m,2,
  22. The Afribiota Investigators3
  1. aUnité de Pathogénie Microbienne Moléculaire, Institut Pasteur, 75015 Paris, France;
  2. bUnité INSERM 1202, Institut Pasteur, 75015 Paris, France;
  3. cDepartment of Botany, University of British Columbia, Vancouver, BC V6T 1Z4, Canada;
  4. dDepartment of Zoology, University of British Columbia, Vancouver, BC V6T 1Z4, Canada;
  5. eBiodiversity Research Centre, University of British Columbia, Vancouver, BC V6T 1Z4, Canada;
  6. fUnité de Bactériologie Expérimentale, Institut Pasteur de Madagascar, BP 1274 Ambatofotsikely, 101 Antananarivo, Madagascar;
  7. gLaboratoires d’Analyses Médicales, Institut Pasteur de Bangui, BP 923 Bangui, Central African Republic;
  8. hMichael Smith Laboratories, University of British Columbia, Vancouver, BC V6T 1Z4, Canada;
  9. iCentre Hospitalier Universitaire Joseph Ravoahangy Andrianavalona, BP 4150, 101 Antananarivo, Madagascar;
  10. jComplexe Pédiatrique de Bangui, BP 923 Bangui, Central African Republic;
  11. kUnité d’Epidémiologie, Institut Pasteur de Bangui, BP 923 Bangui, Central African Republic;
  12. lUnité d’Epidémiologie et de Recherche Clinique, Institut Pasteur de Madagascar, BP 1274 Ambatofotsikely, 101 Antananarivo, Madagascar;
  13. mChaire de Microbiologie et de Maladies Infectieuses, Collège de France, 75231 Paris, France
    1. 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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    Article usage

    Article usage: August 2018 to March 2021

    AbstractFullPdf
    Aug 20183417324166
    Sep 20182054213130
    Oct 20182689170
    Nov 201823811998
    Dec 20181484071
    Total 20186125787535
    Jan 20191407159
    Feb 20191665867
    Mar 201948149109
    Apr 20191221490
    May 20193514495
    Jun 20192312276
    Jul 2019419086
    Aug 2019715583
    Sep 201936327110
    Oct 20191118399
    Nov 2019814996
    Dec 201969663
    Total 201949618581033
    Jan 2020718078
    Feb 2020116670
    Mar 2020918273
    Apr 20202171113
    May 2020514679
    Jun 2020218848
    Jul 2020937881
    Aug 20205248103
    Sep 2020220697
    Oct 20201822670
    Nov 20202319783
    Dec 20201416148
    Total 2020972449943
    Jan 20215361105
    Feb 2021919161
    Mar 202105022
    Total 202114602188
    Total673256962699
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    Stunted childhood growth is associated with decompartmentalization of the gastrointestinal tract and overgrowth of oropharyngeal taxa
    Pascale Vonaesch, Evan Morien, Lova Andrianonimiadana, Hugues Sanke, Jean-Robert Mbecko, Kelsey E. Huus, Tanteliniaina Naharimanananirina, Bolmbaye Privat Gondje, Synthia Nazita Nigatoloum, Sonia Sandrine Vondo, Jepthé Estimé Kaleb Kandou, Rindra Randremanana, Maheninasy Rakotondrainipiana, Florent Mazel, Serge Ghislain Djorie, Jean-Chrysostome Gody, B. Brett Finlay, Pierre-Alain Rubbo, Laura Wegener Parfrey, Jean-Marc Collard, Philippe J. Sansonetti, The Afribiota Investigators
    Proceedings of the National Academy of Sciences Sep 2018, 115 (36) E8489-E8498; DOI: 10.1073/pnas.1806573115

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    Stunted childhood growth is associated with decompartmentalization of the gastrointestinal tract and overgrowth of oropharyngeal taxa
    Pascale Vonaesch, Evan Morien, Lova Andrianonimiadana, Hugues Sanke, Jean-Robert Mbecko, Kelsey E. Huus, Tanteliniaina Naharimanananirina, Bolmbaye Privat Gondje, Synthia Nazita Nigatoloum, Sonia Sandrine Vondo, Jepthé Estimé Kaleb Kandou, Rindra Randremanana, Maheninasy Rakotondrainipiana, Florent Mazel, Serge Ghislain Djorie, Jean-Chrysostome Gody, B. Brett Finlay, Pierre-Alain Rubbo, Laura Wegener Parfrey, Jean-Marc Collard, Philippe J. Sansonetti, The Afribiota Investigators
    Proceedings of the National Academy of Sciences Sep 2018, 115 (36) E8489-E8498; DOI: 10.1073/pnas.1806573115
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    Proceedings of the National Academy of Sciences: 115 (36)
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