Evidence map›Paper›PMID 26940863›Full record

ArticleBMC genomics2016

Complete genome of Staphylococcus aureus Tager 104 provides evidence of its relation to modern systemic hospital-acquired strains.

Richard W Davis, Andrew D Brannen, Mohammad J Hossain, Scott Monsma, Paul E Bock, Matthias Nahrendorf, David Mead, Michael Lodes, Mark R Liles, Peter Panizzi

Open access · goldAbstract read
In one paragraph

Article in BMC genomics, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.

0numbers the graph read from it
0cells of the map it votes in
4citing papers in PubMed
0.4field-weighted citation impact, top 34% 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

4 citing papers in PubMed, 7 citations in OpenAlex.

  1. Review
  2. Article
  3. Frontiers in microbiology · 2021
    Article
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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

10 authors at 5 institutions in 1 country.

Richard W DavisDepartment of Drug Discovery and Development, Harrison School of Pharmacy, Auburn University, 4306 Walker Building, Auburn, AL, 36849, USA. davisri@auburn.edu.
Andrew D BrannenDepartment of Drug Discovery and Development, Harrison School of Pharmacy, Auburn University, 4306 Walker Building, Auburn, AL, 36849, USA. adb0009@auburn.edu.
Mohammad J HossainDepartment of Biological Sciences, Auburn University, 101 Rouse Life Science Building, Auburn, AL, 36849, USA. mjh0007@auburn.edu.
Scott MonsmaLucigen Corporation, 2905 Parmenter St, Middleton, WI, 53562, USA. smonsma@lucigen.com.
Paul E BockDepartment of Pathology, Microbiology, and Immunology, Vanderbilt University Medical Center, Nashville, TN, 37232, USA. paul.bock@vanderbilt.edu.
Matthias NahrendorfCenter for Systems Biology, Massachusetts General Hospital and Harvard Medical School, Simches Research Building, 185 Cambridge St., Boston, MA, 02114, USA. mnahrendorf@mgh.harvard.edu.
David MeadLucigen Corporation, 2905 Parmenter St, Middleton, WI, 53562, USA. dmead@lucigen.com.
Michael LodesLucigen Corporation, 2905 Parmenter St, Middleton, WI, 53562, USA. mlodes@lucigen.com.
Mark R LilesDepartment of Biological Sciences, Auburn University, 101 Rouse Life Science Building, Auburn, AL, 36849, USA. lilesma@auburn.edu.
Peter PanizziDepartment of Drug Discovery and Development, Harrison School of Pharmacy, Auburn University, 4306 Walker Building, Auburn, AL, 36849, USA. panizzi@auburn.edu.
Lucigen Corporation · USWalker (United States) · USAuburn University · USHarvard University · USVanderbilt University Medical Center · US

Funding

Random Shear Shuttle BAC Libraries for Antimicrobial Discovery from Soil MetagenoR44AI085840 · NIAID · LUCIGEN CORPORATION · PI LI, XING-CONG, LILES, MARK R · 2012 to 2014
$2.6M
Mechanism of Staphylocoagulase-activated Blood ClottingR01HL071544 · NHLBI · VANDERBILT UNIVERSITY MEDICAL CENTER · PI BOCK, PAUL E, VERHAMME, INGRID M · 2003 to 2016
$1.8M
Pathogen specific imaging of endocarditisR01HL114477 · NHLBI · MASSACHUSETTS GENERAL HOSPITAL · PI NAHRENDORF, MATTHIAS, PANIZZI, PETER ROLF · 2013 to 2016
$1.7M
Pathobiology of Staphyloccocus areus EndocarditisR00HL094533 · NHLBI · AUBURN UNIVERSITY AT AUBURN · PI PANIZZI, PETER ROLF · 2011 to 2013
$719k
NHLBI NIH HHS R00 HL094533NHLBI NIH HHS R00HL094533NHLBI NIH HHS R01 HL071544NHLBI NIH HHS R01 HL114477NHLBI NIH HHS R01HL114477NIAID NIH HHS 2R44AI085840-02NIAID NIH HHS R44 AI085840
6 · The paper itself

Abstract

backgroundStaphylococcus aureus (S. aureus) infections range in severity due to expression of certain virulence factors encoded on mobile genetic elements (MGE). As such, characterization of these MGE, as well as single nucleotide polymorphisms, is of high clinical and microbiological importance. To understand the evolution of these dangerous pathogens, it is paramount to define reference strains that may predate MGE acquisition. One such candidate is S. aureus Tager 104, a previously uncharacterized strain isolated from a patient with impetigo in 1947.

resultsWe show here that S. aureus Tager 104 can survive in the bloodstream and infect naïve organs. We also demonstrate a procedure to construct and validate the assembly of S. aureus genomes, using Tager 104 as a proof-of-concept. In so doing, we bridged confounding gap regions that limited our initial attempts to close this 2.82 Mb genome, through integration of data from Illumina Nextera paired-end, PacBio RS, and Lucigen NxSeq mate-pair libraries. Furthermore, we provide independent confirmation of our segmental arrangement of the Tager 104 genome by the sole use of Lucigen NxSeq libraries filled by paired-end MiSeq reads and alignment with SPAdes software. Genomic analysis of Tager 104 revealed limited MGE, and a νSaβ island configuration that is reminiscent of other hospital acquired S. aureus genomes.

conclusionsTager 104 represents an early-branching ancestor of certain hospital-acquired strains. Combined with its earlier isolation date and limited content of MGE, Tager 104 can serve as a viable reference for future comparative genome studies.

Indexed as

Evolution, MolecularGenome, BacterialAnimalsBacterial Typing TechniquesCross InfectionFemaleGene LibraryHumansMice, Inbred C57BLMicrobial Sensitivity TestsMultilocus Sequence TypingPhylogenyProteomeSequence AlignmentSoftwareStaphylococcal InfectionsProteome

Identifiers

PMID26940863
PMCPMC4778325
OpenAlexW2291338166

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.