Evidence map›Paper›PMID 22355642›Full record

ArticleScientific reports2011

Genome-wide essential gene identification in Streptococcus sanguinis.

Ping Xu, Xiuchun Ge, Lei Chen, Xiaojing Wang, Yuetan Dou, Jerry Z Xu, Jenishkumar R Patel, Victoria Stone, My Trinh, Karra Evans and 3 more

Open access · goldAbstract readValidation Study
In one paragraph

Article in Scientific reports, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 90 papers.

0numbers the graph read from it
0cells of the map it votes in
90citing papers in PubMed
8.8field-weighted citation impact, top 2% 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

90 citing papers in PubMed, 142 citations in OpenAlex.

  1. Specific host translation perturbations promote TnbioRxiv : the preprint server for biology · 2026
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  3. A genome-widebioRxiv : the preprint server for biology · 2026
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  4. Frontiers in bioinformatics · 2026
    Review
  5. Article
  6. Article
  7. Analysis of essential genes inJournal of bacteriology · 2025
    Article
  8. Identifying essential genes inJournal of bacteriology · 2025
    Article
  9. Analysis of Essential Genes inbioRxiv : the preprint server for biology · 2025
    Article
  10. Article
  11. Article
  12. Dpr-mediated HJournal of bacteriology · 2024
    Article
  13. An energy coupling factor transporter ofbioRxiv : the preprint server for biology · 2024
    Article
  14. Article
  15. Article
  16. Article
  17. Review
  18. Article
  19. Article
  20. Article

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

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

13 authors at 1 institution in 1 country.

Ping XuPhilips Institute of Oral and Craniofacial Molecular Biology, Virginia Commonwealth University, Richmond, Virginia, USA. pxu@vcu.edu
Xiuchun Ge
Lei Chen
Xiaojing Wang
Yuetan Dou
Jerry Z Xu
Jenishkumar R Patel
Victoria Stone
My Trinh
Karra Evans
Todd Kitten
Danail Bonchev
Gregory A Buck
Virginia Commonwealth University · US

Funding

Regulation Of Fitness And Virulence In Oral StreptococciR01DE018138 · NIDCR · VIRGINIA COMMONWEALTH UNIVERSITY · PI XU, PING · 2008 to 2012
$1.7M
NIDCR NIH HHS R01 DE018138NIDCR NIH HHS R01DE018138
6 · The paper itself

Abstract

A clear perception of gene essentiality in bacterial pathogens is pivotal for identifying drug targets to combat emergence of new pathogens and antibiotic-resistant bacteria, for synthetic biology, and for understanding the origins of life. We have constructed a comprehensive set of deletion mutants and systematically identified a clearly defined set of essential genes for Streptococcus sanguinis. Our results were confirmed by growing S. sanguinis in minimal medium and by double-knockout of paralogous or isozyme genes. Careful examination revealed that these essential genes were associated with only three basic categories of biological functions: maintenance of the cell envelope, energy production, and processing of genetic information. Our finding was subsequently validated in two other pathogenic streptococcal species, Streptococcus pneumoniae and Streptococcus mutans and in two other gram-positive pathogens, Bacillus subtilis and Staphylococcus aureus. Our analysis has thus led to a simplified model that permits reliable prediction of gene essentiality.

Indexed as

Genome, BacterialBacillus subtilisGenes, EssentialMetabolic Networks and PathwaysModels, GeneticMutationSpecies SpecificityStaphylococcus aureusStreptococcus mutansStreptococcus pneumoniaeStreptococcus sanguis

Identifiers

PMID22355642
PMCPMC3216606
OpenAlexW2048208102

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC-SA
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.