Evidence map›Paper›PMID 37397999›Full record

ArticlebioRxiv : the preprint server for biology2023

Comparison of genomic diversity between single and pooled

Vishnu Raghuram, Jessica J Gunoskey, Katrina S Hofstetter, Natasia F Jacko, Margot J Shumaker, Yi-Juan Hu, Timothy D Read, Michael Z David

Abstract readPreprint
PubMed Full text at PMC Publisher
In one paragraph

Article in bioRxiv : the preprint server for biology, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

0numbers the graph read from it
0cells of the map it votes in
0citing papers in PubMed
–field-weighted citation impact
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

0 citing papers in PubMed.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

8 authors.

Vishnu RaghuramMicrobiology and Molecular Genetics Program, Graduate Division of Biological and Biomedical Sciences, Laney Graduate School, Emory University, Atlanta, Georgia, USA.
Jessica J GunoskeyDivision of Infectious Diseases, Department of Medicine, University of Pennsylvania, Philadelphia, PA, USA.
Katrina S HofstetterDivision of Infectious Diseases, Department of Medicine, Emory University, Atlanta, Georgia, USA.
Natasia F JackoDivision of Infectious Diseases, Department of Medicine, University of Pennsylvania, Philadelphia, PA, USA.
Margot J ShumakerDivision of Infectious Diseases, Department of Medicine, University of Pennsylvania, Philadelphia, PA, USA.
Yi-Juan HuDepartment of Biostatistics and Bioinformatics, Emory University, Atlanta, Georgia, USA.
Timothy D ReadDivision of Infectious Diseases, Department of Medicine, Emory University, Atlanta, Georgia, USA.
Michael Z DavidDivision of Infectious Diseases, Department of Medicine, University of Pennsylvania, Philadelphia, PA, USA.

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
Staphylococcus aureus SPREAD (S. aureus Study of Prevalence Resistance and Environmental Dissemination)R01AI158452 · NIAID · UNIVERSITY OF PENNSYLVANIA · PI Michael Zdenek David · 2022 to 2026
$3.5M
NIAID NIH HHS R01 AI139188NIAID NIH HHS R01 AI158452
6 · The paper itself

Abstract

The most common approach to sampling the bacterial populations within an infected or colonised host is to sequence genomes from a single colony obtained from a culture plate. However, it is recognized that this method does not capture the genetic diversity in the population. An alternative is to sequence a mixture containing multiple colonies ("pool-seq"), but this has the disadvantage that it is a non-homogeneous sample, making it difficult to perform specific experiments. We compared differences in measures of genetic diversity between eight single-colony isolates (singles) and pool-seq on a set of 2286

Indexed as

adaptationasymptomatic carriagegenetic diversityStaphylococcus aureuswhole genome sequencing

Identifiers

PMID37397999
PMCPMC10312683

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC-ND
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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.