Evidence map›Paper›PMID 33653700›Full record

ArticleJournal of clinical microbiology2021

Rapid High-Throughput Whole-Genome Sequencing of SARS-CoV-2 by Using One-Step Reverse Transcription-PCR Amplification with an Integrated Microfluidic System and Next-Generation Sequencing.

Tao Li, Hye Kyung Chung, Papa K Pireku, Brett F Beitzel, Mark A Sanborn, Cynthia Y Tang, Richard D Hammer, Detlef Ritter, Xiu-Feng Wan, Irina Maljkovic Berry and 1 more

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

Article in Journal of clinical microbiology, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.

0numbers the graph read from it
0cells of the map it votes in
15citing papers in PubMed
1.3field-weighted citation impact, top 17% 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

15 citing papers in PubMed, 20 citations in OpenAlex.

  1. Prediction models for COVID-19 disease outcomes.Emerging microbes & infections · 2024
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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

11 authors at 3 institutions in 1 country.

Tao LiViral Diseases Branch, Walter Reed Army Institute of Research, Silver Spring, Maryland, USA.
Hye Kyung ChungViral Diseases Branch, Walter Reed Army Institute of Research, Silver Spring, Maryland, USA.
Papa K PirekuViral Diseases Branch, Walter Reed Army Institute of Research, Silver Spring, Maryland, USA.
Brett F BeitzelUS Army Medical Research Institute of Infectious Disease Center for Genome Sciences, Fort Detrick, Maryland, USA.
Mark A SanbornViral Diseases Branch, Walter Reed Army Institute of Research, Silver Spring, Maryland, USA.
Cynthia Y TangMU Center for Influenza and Emerging Infectious Diseases (CIEID), University of Missouri, Columbia, Missouri, USA.
Richard D HammerDepartment of Pathology, School of Medicine, University of Missouri, Columbia, Missouri, USA.
Detlef RitterDepartment of Pathology, School of Medicine, University of Missouri, Columbia, Missouri, USA.
Xiu-Feng WanMU Center for Influenza and Emerging Infectious Diseases (CIEID), University of Missouri, Columbia, Missouri, USA.ORCID 0000-0003-2629-9234
Irina Maljkovic BerryViral Diseases Branch, Walter Reed Army Institute of Research, Silver Spring, Maryland, USA.
Jun HangViral Diseases Branch, Walter Reed Army Institute of Research, Silver Spring, Maryland, USA Jun.hang.civ@mail.mil.ORCID 0000-0002-6597-7045
Walter Reed Army Institute of Research · USUniversity of Missouri · USUnited States Army Medical Research Institute of Infectious Diseases · US

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

The long-lasting global COVID-19 pandemic demands timely genomic investigation of SARS-CoV-2 viruses. Here, we report a simple and efficient workflow for whole-genome sequencing utilizing one-step reverse transcription-PCR (RT-PCR) amplification on a microfluidic platform, followed by MiSeq amplicon sequencing. The method uses Fluidigm integrated fluidic circuit (IFC) and instruments to amplify 48 samples with 39 pairs of primers, including 35 custom-designed primer pairs and four additional primer pairs from the ARTIC network protocol v3. Application of this method on RNA samples from both viral isolates and clinical specimens demonstrates robustness and efficiency in obtaining the full genome sequence of SARS-CoV-2.

Indexed as

Genome, ViralHigh-Throughput Nucleotide SequencingMicrofluidicsWhole Genome SequencingCOVID-19DNA PrimersHumansReverse Transcriptase Polymerase Chain ReactionRNA, ViralSARS-CoV-2DNA PrimersRNA, Viralacute respiratory illnessCOVID-19emerging infectious viral diseasegenomesnext-generation sequencingpandemicSARS-CoV-2

Identifiers

PMID33653700
PMCPMC8091833
OpenAlexW3134443673

What OpenQuestion holds

Textmetadata
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.