Evidence map›Paper›PMID 21813488›Full record

ArticleGenome biology and evolution2011

A very early-branching Staphylococcus aureus lineage lacking the carotenoid pigment staphyloxanthin.

Deborah C Holt, Matthew T G Holden, Steven Y C Tong, Santiago Castillo-Ramirez, Louise Clarke, Michael A Quail, Bart J Currie, Julian Parkhill, Stephen D Bentley, Edward J Feil and 1 more

Open access · goldAbstract read
In one paragraph

Article in Genome biology and evolution, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 95 papers.

0numbers the graph read from it
0cells of the map it votes in
95citing papers in PubMed
13.6field-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

95 citing papers in PubMed, 166 citations in OpenAlex.

  1. Accurately IdentifyingDiagnostics (Basel, Switzerland) · 2026
    Article
  2. Article
  3. Article
  4. Prosthetic Joint Infection Caused byInfection and drug resistance · 2026
    Article
  5. Clarifying the Dual Role ofFoods (Basel, Switzerland) · 2025
    Review
  6. TheJournal of clinical microbiology · 2025
    Review
  7. Article
  8. Unmasking Methicillin-resistantFrontiers in microbiology · 2025
    Article
  9. Article
  10. Successful treatment ofIJID regions · 2024
    Article
  11. Article
  12. Article
  13. Characterisation of PVL-PositiveAntibiotics (Basel, Switzerland) · 2024
    Article
  14. Role of Antigenic Stimulation in Cutaneous T-Cell Lymphomas.The Journal of investigative dermatology · 2024
    Review
  15. Article
  16. Clonal Complexes Distribution ofAntibiotics (Basel, Switzerland) · 2023
    Article
  17. Article
  18. Observational
  19. Article
  20. Article

35 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

11 authors at 4 institutions in 2 countries.

Deborah C HoltMenzies School of Health Research, Charles Darwin University, Darwin, Northern Territory, Australia.
Matthew T G Holden
Steven Y C Tong
Santiago Castillo-Ramirez
Louise Clarke
Michael A Quail
Bart J Currie
Julian Parkhill
Stephen D Bentley
Edward J Feil
Philip M Giffard
Wellcome Sanger Institute · GBCharles Darwin University · AUMenzies School of Health Research · AUUniversity of Bath · GB

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Here we discuss the evolution of the northern Australian Staphylococcus aureus isolate MSHR1132 genome. MSHR1132 belongs to the divergent clonal complex 75 lineage. The average nucleotide divergence between orthologous genes in MSHR1132 and typical S. aureus is approximately sevenfold greater than the maximum divergence observed in this species to date. MSHR1132 has a small accessory genome, which includes the well-characterized genomic islands, νSAα and νSaβ, suggesting that these elements were acquired well before the expansion of the typical S. aureus population. Other mobile elements show mosaic structure (the prophage ϕSa3) or evidence of recent acquisition from a typical S. aureus lineage (SCCmec, ICE6013 and plasmid pMSHR1132). There are two differences in gene repertoire compared with typical S. aureus that may be significant clues as to the genetic basis underlying the successful emergence of S. aureus as a pathogen. First, MSHR1132 lacks the genes for production of staphyloxanthin, the carotenoid pigment that confers upon S. aureus its characteristic golden color and protects against oxidative stress. The lack of pigment was demonstrated in 126 of 126 CC75 isolates. Second, a mobile clustered regularly interspaced short palindromic repeat (CRISPR) element is inserted into orfX of MSHR1132. Although common in other staphylococcal species, these elements are very rare within S. aureus and may impact accessory genome acquisition. The CRISPR spacer sequences reveal a history of attempted invasion by known S. aureus mobile elements. There is a case for the creation of a new taxon to accommodate this and related isolates.

Indexed as

Base SequenceChromosomes, BacterialEvolution, MolecularGenome, BacterialInterspersed Repetitive SequencesInverted Repeat SequencesMolecular Sequence DataPhylogenySelection, GeneticStaphylococcus aureusXanthophyllsstaphyloxanthinXanthophylls

Identifiers

PMID21813488
PMCPMC3175761
OpenAlexW2142813640

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC
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.