Evidence map›Paper›PMID 21078967›Full record

ArticleProceedings of the National Academy of Sciences of the United States of America2010

Comparative genomics of clinical and environmental Vibrio mimicus.

Nur A Hasan, Christopher J Grim, Bradd J Haley, Jongsik Chun, Munirul Alam, Elisa Taviani, Mozammel Hoq, A Christine Munk, Elizabeth Saunders, Thomas S Brettin and 8 more

Abstract readComparative Study
In one paragraph

Article in Proceedings of the National Academy of Sciences of the United States of America, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 34 papers.

0numbers the graph read from it
0cells of the map it votes in
34citing papers in PubMed
3.1field-weighted citation impact, top 10% 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

34 citing papers in PubMed, 59 citations in OpenAlex.

  1. Article
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  9. Transcriptional landscape ofMicrobial genomics · 2023
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  10. Article
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  13. Article
  14. Novel Cholera Toxin Variant and ToxT Regulon in EnvironmentalApplied and environmental microbiology · 2019
    Article
  15. Article
  16. Review
  17. International journal of environmental research and public health · 2018
    Review
  18. Article
  19. Article
  20. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

18 authors at 7 institutions in 4 countries.

Nur A HasanMaryland Pathogen Research Institute, University of Maryland, College Park, MD 20742, USA.
Christopher J Grim
Bradd J Haley
Jongsik Chun
Munirul Alam
Elisa Taviani
Mozammel Hoq
A Christine Munk
Elizabeth Saunders
Thomas S Brettin
David C Bruce
Jean F Challacombe
J Chris Detter
Cliff S Han
Gary Xie
G Balakrish Nair
Anwar Huq
Rita R Colwell
Los Alamos National Laboratory · USMaryland Medical Research Institute · USInternational Centre for Diarrhoeal Disease Research · BDNational Institute of Cholera and Enteric Diseases · INSeoul National University · KRUniversity of Dhaka · BDUniversity of Maryland, College Park · US

Funding

MULTIVALENT AAV VECTORS FOR HIV-1 GENE THERAPYR01AI040001 · NIAID · CITY OF HOPE NATIONAL MEDICAL CENTER · PI CHATTERJEE, SASWATI · 1996 to 1998
–
NIAID NIH HHS N01 AI040001NIAID NIH HHS N01-AI-30001NIAID NIH HHS N01-AI-40001PHS HHS 1R01A139129-01
6 · The paper itself

Abstract

Whether Vibrio mimicus is a variant of Vibrio cholerae or a separate species has been the subject of taxonomic controversy. A genomic analysis was undertaken to resolve the issue. The genomes of V. mimicus MB451, a clinical isolate, and VM223, an environmental isolate, comprise ca. 4,347,971 and 4,313,453 bp and encode 3,802 and 3,290 ORFs, respectively. As in other vibrios, chromosome I (C-I) predominantly contains genes necessary for growth and viability, whereas chromosome II (C-II) bears genes for adaptation to environmental change. C-I harbors many virulence genes, including some not previously reported in V. mimicus, such as mannose-sensitive hemagglutinin (MSHA), and enterotoxigenic hemolysin (HlyA); C-II encodes a variant of Vibrio pathogenicity island 2 (VPI-2), and Vibrio seventh pandemic island II (VSP-II) cluster of genes. Extensive genomic rearrangement in C-II indicates it is a hot spot for evolution and genesis of speciation for the genus Vibrio. The number of virulence regions discovered in this study (VSP-II, MSHA, HlyA, type IV pilin, PilE, and integron integrase, IntI4) with no notable difference in potential virulence genes between clinical and environmental strains suggests these genes also may play a role in the environment and that pathogenic strains may arise in the environment. Significant genome synteny with prototypic pre-seventh pandemic strains of V. cholerae was observed, and the results of phylogenetic analysis support the hypothesis that, in the course of evolution, V. mimicus and V. cholerae diverged from a common ancestor with a prototypic sixth pandemic genomic backbone.

Indexed as

Chromosomes, BacterialGenes, BacterialGenetic SpeciationGenome, BacterialGenomicsSyntenyVibrio choleraeVibrio mimicus

Identifiers

PMID21078967
PMCPMC3000290
OpenAlexW2073245935

What OpenQuestion holds

Textmetadata
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.