Evidence map›Paper›PMID 35215963›Full record

ArticleViruses2022

Characterization of the First SARS-CoV-2 Isolates from Aotearoa New Zealand as Part of a Rapid Response to the COVID-19 Pandemic.

Rhodri Harfoot, Blair Lawley, Leonor C Hernández, Joanna Kuang, Jenny Grant, Jackson M Treece, Sharon LeQueux, Robert Day, Susan Jack, Jo-Ann L Stanton and 3 more

Open access · goldAbstract read
In one paragraph

Article in Viruses, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 7 papers.

0numbers the graph read from it
0cells of the map it votes in
7citing papers in PubMed
1.0field-weighted citation impact, top 24% 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

7 citing papers in PubMed, 10 citations in OpenAlex.

  1. Article
  2. Synthetic host defense peptide inhibits SARS-CoV-2 replicationAntimicrobial agents and chemotherapy · 2025
    Article
  3. Article
  4. Article
  5. 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

13 authors at 2 institutions in 1 country.

Rhodri HarfootDepartment of Microbiology & Immunology, School of Biomedical Sciences, University of Otago, Dunedin 9016, New Zealand.
Blair LawleyDepartment of Microbiology & Immunology, School of Biomedical Sciences, University of Otago, Dunedin 9016, New Zealand.
Leonor C HernándezDepartment of Microbiology & Immunology, School of Biomedical Sciences, University of Otago, Dunedin 9016, New Zealand.
Joanna KuangDepartment of Microbiology & Immunology, School of Biomedical Sciences, University of Otago, Dunedin 9016, New Zealand.
Jenny GrantSouthern Community Laboratories, Dunedin Hospital, Dunedin 9016, New Zealand.
Jackson M TreeceDepartment of Anatomy, School of Biomedical Sciences, University of Otago, Dunedin 9016, New Zealand.ORCID 0000-0003-1152-7214
Sharon LeQueuxOtago Micro and Nanoscale Imaging, University of Otago, Dunedin 9016, New Zealand.
Robert DayDepartment of Biochemistry, School of Biomedical Sciences, University of Otago, Dunedin 9016, New Zealand.
Susan JackPublic Health South, Dunedin 9016, New Zealand.
Jo-Ann L StantonDepartment of Anatomy, School of Biomedical Sciences, University of Otago, Dunedin 9016, New Zealand.ORCID 0000-0001-8139-4694
Mihnea BostinaDepartment of Microbiology & Immunology, School of Biomedical Sciences, University of Otago, Dunedin 9016, New Zealand.ORCID 0000-0003-3621-3772
James E UssherDepartment of Microbiology & Immunology, School of Biomedical Sciences, University of Otago, Dunedin 9016, New Zealand.ORCID 0000-0001-9222-7680
Miguel E Quiñones-MateuDepartment of Microbiology & Immunology, School of Biomedical Sciences, University of Otago, Dunedin 9016, New Zealand.ORCID 0000-0001-9170-5601
University of Otago · NZDunedin Public Hospital · NZ

Funding

COVID-19 Innovation Acceleration Fund, Ministry of Business, Innovation & Employment (MBIE), New Zealand n/aMinistry of Health, New Zealand n/aWebster Family Chair in Viral Pathogenesis, University of Otago n/a
6 · The paper itself

Abstract

SARS-CoV-2, the virus responsible for the COVID-19 pandemic, has wreaked havoc across the globe for the last two years. More than 300 million cases and over 5 million deaths later, we continue battling the first real pandemic of the 21st century. SARS-CoV-2 spread quickly, reaching most countries within the first half of 2020, and New Zealand was not an exception. Here, we describe the first isolation and characterization of SARS-CoV-2 variants during the initial virus outbreak in New Zealand. Patient-derived nasopharyngeal samples were used to inoculate Vero cells and, three to four days later, a cytopathic effect was observed in seven viral cultures. Viral growth kinetics was characterized using Vero and VeroE6/TMPRSS2 cells. The identity of the viruses was verified by RT-qPCR, Western blot, indirect immunofluorescence assays, and electron microscopy. Whole-genome sequences were analyzed using two different yet complementary deep sequencing platforms (MiSeq/Illumina and Ion PGM™/Ion Torrent™), classifying the viruses as SARS-CoV-2 B.55, B.31, B.1, or B.1.369 based on the Pango Lineage nomenclature. All seven SARS-CoV-2 isolates were susceptible to remdesivir (EC

Indexed as

Genome, ViralAdolescentAdultAgedAnimalsAntibodies, MonoclonalAntiviral AgentsChlorocebus aethiopsCohort StudiesCOVID-19Cytopathogenic Effect, ViralHumansMiddle AgedNew ZealandSARS-CoV-2Vero CellsAntibodies, MonoclonalAntiviral AgentsantiviralCOVID-19New ZealandSARS-CoV-2virus isolatewhole-genome sequencing

Identifiers

PMID35215963
PMCPMC8877023
OpenAlexW4214604919

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.