Evidence map›Paper›PMID 33758899›Full record

ArticlemedRxiv : the preprint server for health sciences2021

Transmission, infectivity, and antibody neutralization of an emerging SARS-CoV-2 variant in California carrying a L452R spike protein mutation.

Xianding Deng, Miguel A Garcia-Knight, Mir M Khalid, Venice Servellita, Candace Wang, Mary Kate Morris, Alicia Sotomayor-González, Dustin R Glasner, Kevin R Reyes, Amelia S Gliwa and 36 more

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

Article in medRxiv : the preprint server for health sciences, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.

0numbers the graph read from it
0cells of the map it votes in
6citing 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

6 citing papers in PubMed, 247 citations in OpenAlex.

  1. Article
  2. Article
  3. Article
  4. Article
  5. Article
  6. Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

46 authors at 6 institutions in 1 country.

Xianding DengDepartment of Laboratory Medicine, University of California San Francisco, California, USA.
Miguel A Garcia-KnightDepartment of Microbiology and Immunology, University of California San Francisco, California, USA.
Mir M KhalidDepartment of Medicine, University of California San Francisco, California, USA.
Venice ServellitaDepartment of Laboratory Medicine, University of California San Francisco, California, USA.
Candace WangDepartment of Laboratory Medicine, University of California San Francisco, California, USA.
Mary Kate MorrisCalifornia Department of Public Health, Richmond, California, USA.
Alicia Sotomayor-GonzálezDepartment of Laboratory Medicine, University of California San Francisco, California, USA.
Dustin R GlasnerDepartment of Laboratory Medicine, University of California San Francisco, California, USA.
Kevin R ReyesDepartment of Laboratory Medicine, University of California San Francisco, California, USA.
Amelia S GliwaDepartment of Laboratory Medicine, University of California San Francisco, California, USA.
Nikitha P ReddyDepartment of Laboratory Medicine, University of California San Francisco, California, USA.
Claudia Sanchez San MartinDepartment of Laboratory Medicine, University of California San Francisco, California, USA.
Scot FedermanLaboratory for Genomics Research, University of California San Francisco, California, USA.
Jing ChengDepartment of Medicine, University of California San Francisco, California, USA.
Joanna BalcerekDepartment of Laboratory Medicine, University of California San Francisco, California, USA.
Jordan TaylorDepartment of Laboratory Medicine, University of California San Francisco, California, USA.
Jessica A StreithorstDepartment of Laboratory Medicine, University of California San Francisco, California, USA.
Steve MillerDepartment of Laboratory Medicine, University of California San Francisco, California, USA.
G Renuka KumarDepartment of Medicine, University of California San Francisco, California, USA.
Bharath SreekumarDepartment of Medicine, University of California San Francisco, California, USA.
Pei-Yi ChenDepartment of Medicine, University of California San Francisco, California, USA.
Ursula Schulze-GahmenDepartment of Medicine, University of California San Francisco, California, USA.
Taha Y TahaDepartment of Medicine, University of California San Francisco, California, USA.
Jennifer HayashiDepartment of Medicine, University of California San Francisco, California, USA.
Camille R SimoneauDepartment of Medicine, University of California San Francisco, California, USA.
Sarah McMahonDepartment of Medicine, University of California San Francisco, California, USA.
Peter V LidskyDepartment of Microbiology and Immunology, University of California San Francisco, California, USA.
Yinghong XiaoDepartment of Microbiology and Immunology, University of California San Francisco, California, USA.
Peera HemarajataLos Angeles County Department of Public Health, Los Angeles, California, USA.
Nicole M GreenLos Angeles County Department of Public Health, Los Angeles, California, USA.
Alex EspinosaCalifornia Department of Public Health, Richmond, California, USA.
Chantha KathCalifornia Department of Public Health, Richmond, California, USA.
Monica HawCalifornia Department of Public Health, Richmond, California, USA.
John BellCalifornia Department of Public Health, Richmond, California, USA.
Jill K HackerCalifornia Department of Public Health, Richmond, California, USA.
Carl HansonCalifornia Department of Public Health, Richmond, California, USA.
Debra A WadfordCalifornia Department of Public Health, Richmond, California, USA.
Carlos AnayaMonterey County Department of Public Health, Monterey, California, USA.
Donna FergusonMonterey County Department of Public Health, Monterey, California, USA.
Liana F LareauDepartment of Bioengineering, University of California Berkeley, Berkeley, California, USA.
Phillip A FrankinoInnovative Genomics Institute, University of California Berkeley, Berkeley, California, USA.
Haridha ShivramInnovative Genomics Institute, University of California Berkeley, Berkeley, California, USA.
Stacia K WymanInnovative Genomics Institute, University of California Berkeley, Berkeley, California, USA.
Melanie OttDepartment of Medicine, University of California San Francisco, California, USA.
Raul AndinoDepartment of Microbiology and Immunology, University of California San Francisco, California, USA.
Charles Y ChiuDepartment of Laboratory Medicine, University of California San Francisco, California, USA.
University of California, San Francisco · USGladstone Institutes · USCalifornia Department of Public Health · USInnovative Genomics Institute · USLos Angeles County Department of Public Health · USMonterey County Health Department · US

Funding

A new model of accelerated immune aging in HIV-infected drug usersDP1DA038043 · NIDA · J. DAVID GLADSTONE INSTITUTES · PI OTT, MELANIE MARIA · 2014 to 2019
$4.8M
Identification of diagnostic and prognostic host biomarkers of Zika virus infection by transcriptome profilingR21AI129455 · NIAID · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI CHIU, CHARLES YEN · 2017 to 2018
$436k
NIAID NIH HHS R21 AI129455NIDA NIH HHS DP1 DA038043
6 · The paper itself

Abstract

We identified a novel SARS-CoV-2 variant by viral whole-genome sequencing of 2,172 nasal/nasopharyngeal swab samples from 44 counties in California. Named B.1.427/B.1.429 to denote its 2 lineages, the variant emerged around May 2020 and increased from 0% to >50% of sequenced cases from September 1, 2020 to January 29, 2021, exhibiting an 18.6-24% increase in transmissibility relative to wild-type circulating strains. The variant carries 3 mutations in the spike protein, including an L452R substitution. Our analyses revealed 2-fold increased B.1.427/B.1.429 viral shedding in vivo and increased L452R pseudovirus infection of cell cultures and lung organoids, albeit decreased relative to pseudoviruses carrying the N501Y mutation found in the B.1.1.7, B.1.351, and P.1 variants. Antibody neutralization assays showed 4.0 to 6.7-fold and 2.0-fold decreases in neutralizing titers from convalescent patients and vaccine recipients, respectively. The increased prevalence of a more transmissible variant in California associated with decreased antibody neutralization warrants further investigation.

Identifiers

PMID33758899
PMCPMC7987058
OpenAlexW3135330127

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC-ND
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.