Evidence map›Paper›PMID 31607556›Full record

ArticleCell host & microbe2019

The Prevotella copri Complex Comprises Four Distinct Clades Underrepresented in Westernized Populations.

Adrian Tett, Kun D Huang, Francesco Asnicar, Hannah Fehlner-Peach, Edoardo Pasolli, Nicolai Karcher, Federica Armanini, Paolo Manghi, Kevin Bonham, Moreno Zolfo and 18 more

Abstract read
In one paragraph

Article in Cell host & microbe, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 295 papers, 4 of them syntheses that pooled it.

0numbers the graph read from it
0cells of the map it votes in
295citing papers in PubMed, 4 pooled it
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

295 citing papers in PubMed, 4 syntheses or guidelines pooled it.

  1. Pooled it
  2. Pooled it
  3. Pooled it
  4. Pooled it
  5. Trial
  6. Trial
  7. Trial
  8. Trial
  9. Trial
  10. Article
  11. Bridging the gap:Gut microbes · 2026
    Review
  12. Review
  13. Article
  14. Article
  15. Article
  16. Article
  17. Article
  18. Article
  19. Article
  20. Article

235 more citing papers are in PubMed but not listed here.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

28 authors.

Adrian TettCIBIO Department, University of Trento, 38123 Trento, Italy. Electronic address: adrianjames.tett@unitn.it.
Kun D HuangCIBIO Department, University of Trento, 38123 Trento, Italy; Department of Sustainable Agro-Ecosystems and Bioresources, Fondazione Edmund Mach, 1 38010 S, San Michele all'Adige, Italy.
Francesco AsnicarCIBIO Department, University of Trento, 38123 Trento, Italy.
Hannah Fehlner-PeachKimmel Center for Biology and Medicine of the Skirball Institute, New York University School of Medicine, New York, NY 10016, USA.
Edoardo PasolliCIBIO Department, University of Trento, 38123 Trento, Italy.
Nicolai KarcherCIBIO Department, University of Trento, 38123 Trento, Italy.
Federica ArmaniniCIBIO Department, University of Trento, 38123 Trento, Italy.
Paolo ManghiCIBIO Department, University of Trento, 38123 Trento, Italy.
Kevin BonhamThe Broad Institute of MIT and Harvard, Cambridge, MA 02115, USA; Department of Agricultural Sciences, University of Naples "Federico II", Portici, Italy.
Moreno ZolfoCIBIO Department, University of Trento, 38123 Trento, Italy.
Francesca De FilippisDepartment of Agricultural Sciences, University of Naples "Federico II", Portici, Italy; Task Force on Microbiome Studies, University of Naples "Federico II", Naples, Italy.
Cara MagnaboscoCenter for Computational Biology, Flatiron Institute, New York, NY 10010, USA.
Richard BonneauCenter for Computational Biology, Flatiron Institute, New York, NY 10010, USA; Departments of Biology and Computer Science, New York University, New York, NY 10003, USA.
John LusinguNational Institute for Medical Research, Tanga Centre, Tanzania.
John AmuasiKumasi Centre for Collaborative Research in Tropical Medicine, Kwame Nkrumah University of Science and Technology, Ghana.
Karl ReinhardHardin Hall, School of Natural Resources, University of Nebraska, Lincoln, NE 68583-0987, USA.
Thomas RatteiCUBE - Division of Computational Systems Biology, Department of Microbiology and Ecosystem Science, University of Vienna, Althanstrasse 14, 1090 Vienna, Austria.
Fredrik BoulundCentre for Translational Microbiome Research, Department of Microbiology Tumor and Cell Biology, Karolinska Institutet, 171 65 Solna, Stockholm, Sweden.
Lars EngstrandInstitute for Mummy Studies, EURAC Research, Viale Druso 1, 39100 Bolzano, Italy.
Albert ZinkInstitute for Mummy Studies, EURAC Research, Viale Druso 1, 39100 Bolzano, Italy.
Maria Carmen ColladoInstitute of Agrochemistry and Food Technology, National Research Council (IATA-CSIC), 46980 Paterna, Valencia, Spain.
Dan R LittmanKimmel Center for Biology and Medicine of the Skirball Institute, New York University School of Medicine, New York, NY 10016, USA.
Daniel EibachDepartment of Infectious Disease Epidemiology, Bernhard Nocht Institute for Tropical Medicine, 20359 Hamburg, Germany; German Center for Infection Research, Hamburg-Borstel-Lübeck-Riems, 20359 Hamburg, Germany.
Danilo ErcoliniDepartment of Agricultural Sciences, University of Naples "Federico II", Portici, Italy; Task Force on Microbiome Studies, University of Naples "Federico II", Naples, Italy.
Omar Rota-StabelliDepartment of Sustainable Agro-Ecosystems and Bioresources, Fondazione Edmund Mach, 1 38010 S, San Michele all'Adige, Italy.
Curtis HuttenhowerThe Broad Institute of MIT and Harvard, Cambridge, MA 02115, USA; Biostatistics Department, Harvard T.H. Chan School of Public Health, Boston, MA 02115, USA.
Frank MaixnerInstitute for Mummy Studies, EURAC Research, Viale Druso 1, 39100 Bolzano, Italy.
Nicola SegataCIBIO Department, University of Trento, 38123 Trento, Italy. Electronic address: nicola.segata@unitn.it.

Funding

A comprehensive platform for novel therapy development from the microbiomeR24DK110499 · NIDDK · BROAD INSTITUTE, INC. · PI HUTTENHOWER, CURTIS · 2017 to 2021
$7.7M
NRSA Training CoreTL1TR001447 · NCATS · NEW YORK UNIVERSITY SCHOOL OF MEDICINE · PI MICOLI, KEITH J. · 2015 to 2025
$5.9M
Overcoming bias and unwanted variability in next generation sequencingR01HG005220 · NHGRI · JOHNS HOPKINS UNIVERSITY · PI IRIZARRY, RAFAEL ANGEL · 2010 to 2018
$3.6M
A network model of the gut host-microbe ecosystem in Inflammatory Bowel DiseaseR01DK103358 · NIDDK · NEW YORK UNIVERSITY SCHOOL OF MEDICINE · PI BONNEAU, RICHARD A, LITTMAN, DAN · 2014 to 2018
$3.2M
Characterizing the gut microbial ecosystem for diagnosis and therapy in IBDU54DE023798 · NIDCR · BROAD INSTITUTE, INC. · PI HUTTENHOWER, CURTIS, XAVIER, RAMNIK J · 2013 to 2014
$3.0M
European Research Council 716575Howard Hughes Medical InstituteNCATS NIH HHS TL1 TR001447NHGRI NIH HHS R01 HG005220NIDCR NIH HHS U54 DE023798NIDDK NIH HHS R01 DK103358NIDDK NIH HHS R24 DK110499
6 · The paper itself

Abstract

Prevotella copri is a common human gut microbe that has been both positively and negatively associated with host health. In a cross-continent meta-analysis exploiting >6,500 metagenomes, we obtained >1,000 genomes and explored the genetic and population structure of P. copri. P. copri encompasses four distinct clades (>10% inter-clade genetic divergence) that we propose constitute the P. copri complex, and all clades were confirmed by isolate sequencing. These clades are nearly ubiquitous and co-present in non-Westernized populations. Genomic analysis showed substantial functional diversity in the complex with notable differences in carbohydrate metabolism, suggesting that multi-generational dietary modifications may be driving reduced prevalence in Westernized populations. Analysis of ancient metagenomes highlighted patterns of P. copri presence consistent with modern non-Westernized populations and a clade delineation time pre-dating human migratory waves out of Africa. These findings reveal that P. copri exhibits a high diversity that is underrepresented in Western-lifestyle populations.

Indexed as

DietEthiopiaFecesFossilsGastrointestinal MicrobiomeGenetic VariationGenome, BacterialGhanaHumansPrevotellaTanzaniaancient DNAbacterial pangenomebacterial phylogeneticscomparative microbial genomicsgut microbeshuman microbiomeIcemanmetagenomic assemblymetagenomicsPrevotella copriWesternization

Identifiers

PMID31607556
PMCPMC6854460

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.