Evidence map›Paper›PMID 27455337›Full record

ArticleBiosensors2016

PCR-Independent Detection of Bacterial Species-Specific 16S rRNA at 10 fM by a Pore-Blockage Sensor.

Leyla Esfandiari, Siqing Wang, Siqi Wang, Anisha Banda, Michael Lorenzini, Gayane Kocharyan, Harold G Monbouquette, Jacob J Schmidt

Open access · goldAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Biosensors, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing papers in PubMed
0.3field-weighted citation impact, top 36% 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

1 citing paper in PubMed, 9 citations in OpenAlex.

  1. Nanoparticle-blockage-enabled rapid and reversible nanopore gating with tunable memory.Proceedings of the National Academy of Sciences of the United States of America · 2022
    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

8 authors at 1 institution in 1 country.

Leyla EsfandiariDepartment of Bioengineering, University of California, Los Angeles, CA 90095, USA. esfandla@ucmail.uc.edu.
Siqing WangDepartment of Chemistry and Biochemistry, University of California, Los Angeles, CA 90095, USA. wangsiqing19940@ucla.edu.
Siqi WangDepartment of Chemical and Biomolecular Engineering, University of California, Los Angeles, CA 90095, USA. wangsiqi940103@ucla.edu.
Anisha BandaDepartment of Bioengineering, University of California, Los Angeles, CA 90095, USA. anisha.banda@gmail.com.
Michael LorenziniDepartment of Bioengineering, University of California, Los Angeles, CA 90095, USA. mhlorenzini@gmail.com.
Gayane KocharyanDepartment of Bioengineering, University of California, Los Angeles, CA 90095, USA. gaiakocharyan@gmail.com.
Harold G MonbouquetteDepartment of Chemical and Biomolecular Engineering, University of California, Los Angeles, CA 90095, USA. hmonbouq@ucla.edu.
Jacob J SchmidtDepartment of Bioengineering, University of California, Los Angeles, CA 90095, USA. schmidt@seas.ucla.edu.
University of California, Los Angeles · US

Funding

PCR-independent Reagent-Free Nucleic Acid DetectionR21HG006157 · NHGRI · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI MONBOUQUETTE, HAROLD GEORGE · 2011 to 2012
$380k
NHGRI NIH HHS R21 HG006157
6 · The paper itself

Abstract

A PCR-free, optics-free device is used for the detection of Escherichia coli (E. coli) 16S rRNA at 10 fM, which corresponds to ~100-1000 colony forming units/mL (CFU/mL) depending on cellular rRNA levels. The development of a rapid, sensitive, and cost-effective nucleic acid detection platform is sought for the detection of pathogenic microbes in food, water and body fluids. Since 16S rRNA sequences are species specific and are present at high copy number in viable cells, these nucleic acids offer an attractive target for microbial pathogen detection schemes. Here, target 16S rRNA of E. coli at 10 fM concentration was detected against a total RNA background using a conceptually simple approach based on electromechanical signal transduction, whereby a step change reduction in ionic current through a pore indicates blockage by an electrophoretically mobilized bead-peptide nucleic acid probe conjugate hybridized to target nucleic acid. We investigated the concentration detection limit for bacterial species-specific 16S rRNA at 1 pM to 1 fM and found a limit of detection of 10 fM for our device, which is consistent with our previous finding with single-stranded DNA of similar length. In addition, no false positive responses were obtained with control RNA and no false negatives with target 16S rRNA present down to the limit of detection (LOD) of 10 fM. Thus, this detection scheme shows promise for integration into portable, low-cost systems for rapid detection of pathogenic microbes in food, water and body fluids.

Indexed as

Biosensing TechniquesPolymerase Chain ReactionRNA, BacterialRNA, Ribosomal, 16SEscherichia coliMicrospheresNucleic Acid HybridizationSensitivity and SpecificityRNA, BacterialRNA, Ribosomal, 16S16S rRNAE. coli detectionnucleic acid detectionpeptide nucleic acid (PNA)

Identifiers

PMID27455337
PMCPMC5039656
OpenAlexW2479032295

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.