Evidence map›Paper›PMID 23825302›Full record

ArticleScience translational medicine2013

Natural selection in a bangladeshi population from the cholera-endemic ganges river delta.

Elinor K Karlsson, Jason B Harris, Shervin Tabrizi, Atiqur Rahman, Ilya Shlyakhter, Nick Patterson, Colm O'Dushlaine, Stephen F Schaffner, Sameer Gupta, Fahima Chowdhury and 10 more

Open access · greenAbstract read
In one paragraph

Article in Science translational medicine, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 54 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
54citing papers in PubMed, 1 pooled it
7.1field-weighted citation impact, top 3% 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

54 citing papers in PubMed, 1 synthesis or guideline pooled it, 89 citations in OpenAlex.

  1. Pooled it
  2. Trial
  3. Article
  4. Article
  5. Article
  6. Review
  7. Article
  8. Article
  9. Article
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  11. Article
  12. Article
  13. Discovery of a rapidly evolving yeast defense factor,Proceedings of the National Academy of Sciences of the United States of America · 2023
    Article
  14. Review
  15. Diagnosis, Management, and Future Control of Cholera.Clinical microbiology reviews · 2022
    Review
  16. Review
  17. Article
  18. Systemic, Mucosal, and Memory Immune Responses following Cholera.Tropical medicine and infectious disease · 2021
    Review
  19. Article
  20. Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

20 authors at 5 institutions in 2 countries.

Elinor K KarlssonCenter for Systems Biology, Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, MA 02138, USA. elinor@broadinstitute.org
Jason B Harris
Shervin Tabrizi
Atiqur Rahman
Ilya Shlyakhter
Nick Patterson
Colm O'Dushlaine
Stephen F Schaffner
Sameer Gupta
Fahima Chowdhury
Alaullah Sheikh
Ok Sarah Shin
Crystal Ellis
Christine E Becker
Lynda M Stuart
Stephen B Calderwood
Edward T Ryan
Firdausi Qadri
Pardis C Sabeti
Regina C Larocque
Harvard University · USMassachusetts General Hospital · USBroad Institute · USInternational Centre for Diarrhoeal Disease Research · BDCenter for Systems Biology · US

Funding

Immune Responses to Vibrio cholerae infection and vaccination in HaitiR01AI099243 · NIAID · MASSACHUSETTS GENERAL HOSPITAL · PI HARRIS, JASON B, IVERS, LOUISE C. · 2012 to 2022
$7.9M
Protecutive immunity to human cholera in BangladeshU01AI058935 · NIAID · MASSACHUSETTS GENERAL HOSPITAL · PI CALDERWOOD, STEPHEN B., RYAN, EDWARD T. · 2003 to 2014
$7.8M
Training program in vaccine development and public healthD43TW005572 · FIC · MASSACHUSETTS GENERAL HOSPITAL · PI QADRI, FIRDAUSI, RYAN, EDWARD T. · 2000 to 2025
$5.4M
Innate and early B cell responses to V. choleraeR01AI103055 · NIAID · MASSACHUSETTS GENERAL HOSPITAL · PI HARRIS, JASON B · 2014 to 2018
$3.9M
Elucidating Genetic Determinants of Resistance to Lassa Hemorrhagic FeverR01AI114855 · NIAID · BROAD INSTITUTE, INC. · PI SABETI, PARDIS CHRISTINE · 2015 to 2019
$3.8M
Host and Pathogen Evolution in Lassa FeverDP2OD006514 · OD · HARVARD UNIVERSITY · PI SABETI, PARDIS CHRISTINE · 2010 to 2010
$2.5M
The role of the phagosome in innate immune sensingR01AI079198 · NIAID · MASSACHUSETTS GENERAL HOSPITAL · PI STUART, LYNDA · 2008 to 2012
$2.4M
The role of TcpA in cholera immunity and vaccinationK01TW007409 · FIC · MASSACHUSETTS GENERAL HOSPITAL · PI HARRIS, JASON B · 2005 to 2011
$867k
FIC NIH HHS D43 TW005572FIC NIH HHS K01 TW007409NIAID NIH HHS R01 AI079198NIAID NIH HHS R01 AI103055NIAID NIH HHS R01 AI114855NIAID NIH HHS U01 AI058935NIH HHS DP2 OD006514
6 · The paper itself

Abstract

As an ancient disease with high fatality, cholera has likely exerted strong selective pressure on affected human populations. We performed a genome-wide study of natural selection in a population from the Ganges River Delta, the historic geographic epicenter of cholera. We identified 305 candidate selected regions using the composite of multiple signals (CMS) method. The regions were enriched for potassium channel genes involved in cyclic adenosine monophosphate-mediated chloride secretion and for components of the innate immune system involved in nuclear factor κB (NF-κB) signaling. We demonstrate that a number of these strongly selected genes are associated with cholera susceptibility in two separate cohorts. We further identify repeated examples of selection and association in an NF-κB/inflammasome-dependent pathway that is activated in vitro by Vibrio cholerae. Our findings shed light on the genetic basis of cholera resistance in a population from the Ganges River Delta and present a promising approach for identifying genetic factors influencing susceptibility to infectious diseases.

Indexed as

CholeraGenetic Predisposition to DiseaseHumansInflammasomesNF-kappa BRiversSelection, GeneticVibrio choleraeInflammasomesNF-kappa B

Identifiers

PMID23825302
PMCPMC4367964
OpenAlexW2114711435

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.