Evidence map›Paper›PMID 35044202›Full record

ArticleMicrobiology spectrum2022

Species-Wide Phylogenomics of the Staphylococcus aureus

Vishnu Raghuram, Ashley M Alexander, Hui Qi Loo, Robert A Petit, Joanna B Goldberg, Timothy D Read

Open access · goldAbstract read
In one paragraph

Article in Microbiology spectrum, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
27citing papers in PubMed, 1 pooled it
2.9field-weighted citation impact, top 8% 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

27 citing papers in PubMed, 1 synthesis or guideline pooled it, 34 citations in OpenAlex.

  1. Pooled it
  2. GrowingInfection and immunity · 2026
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  3. Intraspecific diversity ofMicrobiology spectrum · 2026
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  7. Emergence of a methicillin-susceptibleFrontiers in cellular and infection microbiology · 2026
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  12. BacExplorer: an integrated platform forBioinformatics advances · 2025
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  13. Draft genome sequence of aMicrobiology resource announcements · 2024
    Article
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  15. Genomic analysis ofiScience · 2024
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  18. Experimentally evolvedMicrobiology (Reading, England) · 2024
    Article
  19. Review
  20. Average Nucleotide Identity basedbioRxiv : the preprint server for biology · 2024
    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

6 authors at 1 institution in 1 country.

Vishnu RaghuramMicrobiology and Molecular Genetics Program, Graduate Division of Biological and Biomedical Sciences, Laney Graduate School, Emory Universitygrid.189967.8, Atlanta, Georgia, USA.ORCID 0000-0002-7435-6435
Ashley M AlexanderPopulation Biology, Ecology, and Evolution Program, Graduate Division of Biological and Biomedical Sciences, Laney Graduate School, Emory Universitygrid.189967.8, Atlanta, Georgia, USA.ORCID 0000-0003-1630-7798
Hui Qi LooDepartment of Biology, Emory Universitygrid.189967.8, Atlanta, Georgia, USA.ORCID 0000-0002-0390-9047
Robert A PetitDivision of Infectious Diseases, Department of Medicine, Emory Universitygrid.189967.8, Atlanta, Georgia, USA.ORCID 0000-0002-1350-9426
Joanna B GoldbergDivision of Pulmonary, Allergy and Immunology, Cystic Fibrosis, and Sleep, Department of Pediatrics, Emory Universitygrid.189967.8 School of Medicine, Atlanta, Georgia, USA.ORCID 0000-0002-5285-5188
Timothy D ReadDivision of Infectious Diseases, Department of Medicine, Emory Universitygrid.189967.8, Atlanta, Georgia, USA.ORCID 0000-0001-8966-9680
Emory University · US

Funding

Genomics of S. Aureus Colonization after Initial and Recurrent Skin Infections and the Impact of AntibioticsR01AI139188 · NIAID · UNIVERSITY OF PENNSYLVANIA · PI DAVID, MICHAEL ZDENEK · 2018 to 2022
$3.8M
REGULATORY MECHANISMS IN TYPE I DIABETESR01AI048847 · NIAID · CITY OF HOPE/BECKMAN RESEARCH INSTITUTE · PI LIU, CHIH-PIN · 2001 to 2005
$2.0M
Infectious Diseases Across Scales Training ProgramT32AI138952 · NIAID · EMORY UNIVERSITY · PI Jacobus de Roode · 2019 to 2026
$1.8M
Mechanisms of Staphylococcus aureus and Pseudomonas aeruginosa Co-existence in CFR21AI148847 · NIAID · EMORY UNIVERSITY · PI GOLDBERG, JOANNA B · 2020 to 2021
$420k
NIAID NIH HHS R01 AI048847NIAID NIH HHS R01 AI139188NIAID NIH HHS R21 AI148847NIAID NIH HHS T32 AI138952
6 · The paper itself

Abstract

Staphylococcus aureus is a prominent nosocomial pathogen that causes several life-threatening diseases, such as pneumonia and bacteremia. S. aureus modulates the expression of its arsenal of virulence factors through sensing and integrating responses to environmental signals. The

Indexed as

Evolution, MolecularFrameshift MutationGenome, BacterialPhylogenyBacterial ProteinsGene Expression Regulation, BacterialHumansOperonSoftwareStaphylococcal InfectionsStaphylococcus aureusTrans-ActivatorsVirulenceAgr protein, Staphylococcus aureusBacterial ProteinsTrans-Activatorsagrbioinformaticsconvergent evolutiongenomicshemolysismutation ratephylogeneticsquorum sensingStaphylococcus aureus

Identifiers

PMID35044202
PMCPMC8768832
OpenAlexW4205694460

What OpenQuestion holds

Textmetadata
LicenceCC BY
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.