Evidence map›Paper›PMID 32094926›Full record

ArticleNature medicine2020

Viable bacterial colonization is highly limited in the human intestine in utero.

E Rackaityte, J Halkias, E M Fukui, V F Mendoza, C Hayzelden, E D Crawford, K E Fujimura, T D Burt, S V Lynch

Open access · greenAbstract read
In one paragraph

Article in Nature medicine, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 165 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
165citing papers in PubMed, 1 pooled it
27.1field-weighted citation impact, top 1% of its field
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

165 citing papers in PubMed, 1 synthesis or guideline pooled it, 308 citations in OpenAlex.

  1. Pooled it
  2. Trial
  3. Review
  4. Article
  5. Review
  6. Article
  7. Review
  8. Review
  9. Review
  10. Review
  11. Review
  12. Article
  13. Review
  14. Review
  15. Review
  16. Review
  17. Article
  18. Review
  19. Review
  20. Review

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

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

9 authors at 3 institutions in 1 country.

E RackaityteDivision of Gastroenterology, Department of Medicine, University of California, San Francisco, San Francisco, CA, USA.ORCID http://orcid.org/0000-0003-3889-8082
J HalkiasDivision of Neonatology, Department of Pediatrics, University of California, San Francisco, San Francisco, CA, USA.ORCID http://orcid.org/0000-0003-0721-8961
E M FukuiDivision of Gastroenterology, Department of Medicine, University of California, San Francisco, San Francisco, CA, USA.
V F MendozaDivision of Neonatology, Department of Pediatrics, University of California, San Francisco, San Francisco, CA, USA.
C HayzeldenCollege of Science and Engineering, San Francisco State University, San Francisco, CA, USA.
E D CrawfordChan Zuckerberg Biohub, San Francisco, CA, USA.ORCID http://orcid.org/0000-0003-4182-2337
K E FujimuraDivision of Gastroenterology, Department of Medicine, University of California, San Francisco, San Francisco, CA, USA.
T D BurtDuke University School of Medicine, Durham, NC, USA.ORCID http://orcid.org/0000-0001-7933-529X
S V LynchDivision of Gastroenterology, Department of Medicine, University of California, San Francisco, San Francisco, CA, USA. susan.lynch@ucsf.edu.ORCID http://orcid.org/0000-0001-5695-7336
University of California, San Francisco · USDuke University · USSan Francisco State University · US

Funding

Inner City Asthma consortium 3 (ICAC3)UM1AI114271 · NIAID · UNIVERSITY OF WISCONSIN-MADISON · PI GERN, JAMES E., JACKSON, DANIEL J · 2014 to 2021
$79.4M
Research BaseP30DK063720 · NIDDK · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI GERMAN, MICHAEL S · 2003 to 2019
$21.8M
Intrauterine sex steroids and human fetal T cell developmentK08AI128007 · NIAID · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI HALKIAS, JOANNA · 2017 to 2021
$1.1M
Defining Transition from Fetal to Adult T Cell Predominance in the Human FetusK08HD067295 · NICHD · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI BURT, TREVOR DEON · 2011 to 2015
$628k
BD FACSAria Fusion Cell SorterS10OD021822 · OD · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI LEE, MICHAEL R. · 2016 to 2016
$573k
Determining the impact of in utero microbial colonization on immune tolerance developmentF31AI136336 · NIAID · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI RACKAITYTE, ELZE · 2018 to 2020
$114k
NIAID NIH HHS F31 AI136336NIAID NIH HHS K08 AI128007NIAID NIH HHS UM1 AI114271NICHD NIH HHS K08 HD067295NIDDK NIH HHS P30 DK063720NIH HHS S10 OD021822
6 · The paper itself

Abstract

Mucosal immunity develops in the human fetal intestine by 11-14 weeks of gestation, yet whether viable microbes exist in utero and interact with the intestinal immune system is unknown. Bacteria-like morphology was identified in pockets of human fetal meconium at mid-gestation by scanning electron microscopy (n = 4), and a sparse bacterial signal was detected by 16S rRNA sequencing (n = 40 of 50) compared to environmental controls (n = 87). Eighteen taxa were enriched in fetal meconium, with Micrococcaceae (n = 9) and Lactobacillus (n = 6) the most abundant. Fetal intestines dominated by Micrococcaceae exhibited distinct patterns of T cell composition and epithelial transcription. Fetal Micrococcus luteus, isolated only in the presence of monocytes, grew on placental hormones, remained viable within antigen presenting cells, limited inflammation ex vivo and possessed genomic features linked with survival in the fetus. Thus, viable bacteria are highly limited in the fetal intestine at mid-gestation, although strains with immunomodulatory capacity are detected in subsets of specimens.

Indexed as

Gastrointestinal MicrobiomeMicrobial ViabilityAutopsyBacteriaBacterial Typing TechniquesFemaleFetusGestational AgeHumansInfant, NewbornIntestinal MucosaIntestinesLactobacillusMeconiumMicrococcaceaePregnancyRNA, Ribosomal, 16S

Identifiers

PMID32094926
PMCPMC8110246
OpenAlexW3006904068

What OpenQuestion holds

Textmetadata
LicenceTDM
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.