Evidence map›Paper›PMID 36778389›Full record

ArticlemedRxiv : the preprint server for health sciences2023

Systems biological assessment of the temporal dynamics of immunity to a viral infection in the first weeks and months of life.

Florian Wimmers, Allison R Burrell, Yupeng Feng, Hong Zheng, Prabhu S Arunachalam, Mengyun Hu, Sara Spranger, Lindsay Nyhoff, Devyani Joshi, Meera Trisal and 24 more

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

Article in medRxiv : the preprint server for health sciences, 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, 2 citations in OpenAlex.

No citing paper in PubMed yet.

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

34 authors at 7 institutions in 2 countries.

Florian WimmersInstitute for Immunity, Transplantation and Infection, Stanford University, Stanford, CA, USA.
Allison R BurrellDepartment of Infectious Diseases, Cincinnati Children's Hospital Medical Center, Cincinnati, OH, USA.
Yupeng FengInstitute for Immunity, Transplantation and Infection, Stanford University, Stanford, CA, USA.
Hong ZhengInstitute for Immunity, Transplantation and Infection, Stanford University, Stanford, CA, USA.
Prabhu S ArunachalamInstitute for Immunity, Transplantation and Infection, Stanford University, Stanford, CA, USA.
Mengyun HuInstitute for Immunity, Transplantation and Infection, Stanford University, Stanford, CA, USA.
Sara SprangerDepartment of Infectious Diseases, Cincinnati Children's Hospital Medical Center, Cincinnati, OH, USA.
Lindsay NyhoffDepartment of Pediatrics, Division of Infectious Disease, Emory University School of Medicine.
Devyani JoshiDepartment of Pediatrics, Division of Infectious Disease, Emory University School of Medicine.
Meera TrisalInstitute for Immunity, Transplantation and Infection, Stanford University, Stanford, CA, USA.
Mayanka AwasthiDivision of Viral Products, Center for Biologics Evaluation and Research, Food and Drug Administration, Silver Spring, Maryland, 20993, USA.
Lorenza BellusciDivision of Viral Products, Center for Biologics Evaluation and Research, Food and Drug Administration, Silver Spring, Maryland, 20993, USA.
Usama AshrafInstitute for Immunity, Transplantation and Infection, Stanford University, Stanford, CA, USA.
Sangeeta KowliInstitute for Immunity, Transplantation and Infection, Stanford University, Stanford, CA, USA.
Katherine C KonvinseDepartment of Pediatrics, Stanford University School of Medicine, Stanford University, Stanford, CA, USA.
Emily YangInstitute for Immunity, Transplantation and Infection, Stanford University, Stanford, CA, USA.
Michael BlancoStanford Genomics Service Center, Department of Genetics, Stanford University School of Medicine, Stanford, CA, USA.
Kathryn PellegriniYerkes National Primate Research Center, Atlanta, GA, USA.
Gregory TharpYerkes National Primate Research Center, Atlanta, GA, USA.
Thomas HaganDepartment of Infectious Diseases, Cincinnati Children's Hospital Medical Center, Cincinnati, OH, USA.
R Sharon ChinthrajahDepartment of Medicine, Sean N. Parker Center for Allergy and Asthma Research, Stanford, CA 94305, USA.
Alba GrifoniCenter for Infectious Disease and Vaccine Research, La Jolla Institute for Immunology (LJI), La Jolla, CA 92037, USA.
Alessandro SetteCenter for Infectious Disease and Vaccine Research, La Jolla Institute for Immunology (LJI), La Jolla, CA 92037, USA.
Kari C NadeauDepartment of Medicine, Sean N. Parker Center for Allergy and Asthma Research, Stanford, CA 94305, USA.
David B HaslamDepartment of Infectious Diseases, Cincinnati Children's Hospital Medical Center, Cincinnati, OH, USA.
Steven E BosingerYerkes National Primate Research Center, Atlanta, GA, USA.
Jens WrammertDepartment of Pediatrics, Division of Infectious Disease, Emory University School of Medicine.
Holden T MaeckerInstitute for Immunity, Transplantation and Infection, Stanford University, Stanford, CA, USA.
Paul J UtzInstitute for Immunity, Transplantation and Infection, Stanford University, Stanford, CA, USA.
Taia T WangInstitute for Immunity, Transplantation and Infection, Stanford University, Stanford, CA, USA.
Surender KhuranaDivision of Viral Products, Center for Biologics Evaluation and Research, Food and Drug Administration, Silver Spring, Maryland, 20993, USA.
Purvesh KhatriInstitute for Immunity, Transplantation and Infection, Stanford University, Stanford, CA, USA.
Mary A StaatDepartment of Infectious Diseases, Cincinnati Children's Hospital Medical Center, Cincinnati, OH, USA.
Bali PulendranInstitute for Immunity, Transplantation and Infection, Stanford University, Stanford, CA, USA.
Stanford University · USCincinnati Children's Hospital Medical Center · USEmory University · USCenter for Biologics Evaluation and Research · USEmory National Primate Research CenterLa Jolla Institute for Immunology · USGerman Cancer Research Center · DE

Funding

Yerkes National Primate Research Center Role of type-I IFN in regulating COVID-19 induced inflammation and pathogenesisP51OD011132 · OD · EMORY UNIVERSITY · PI Joon Sup Lee · 2012 to 2026
$167.0M
NIAID Centers of Excellence for Influenza Research and Response: Universal Influenza Vaccine Research Activities75N93021C00016 · NIAID · ST. JUDE CHILDREN'S RESEARCH HOSPITAL · PI WEBBY, RICHARD · 2021 to 2025
$91.4M
VACCINE INDUCED IMMUNITY IN THE YOUNG AND AGEDU19AI057266 · NIAID · EMORY UNIVERSITY · PI Rafi Ahmed · 2003 to 2026
$81.7M
Impact of the Initial Influenza Exposure on the Quality, Magnitude, Breadth, Potency and Durability of Influenza ImmunityU01AI144673 · NIAID · CINCINNATI CHILDRENS HOSP MED CTR · PI STAAT, MARY A · 2019 to 2025
$36.4M
Systems biological assessment of T cell responses to vaccinationU19AI167903 · NIAID · STANFORD UNIVERSITY · PI BALI PULENDRAN · 2022 to 2026
$13.2M
Giant MagnetoResistive (GMR) Sensors for Measuring Influenza VaccineR01AI125197 · NIAID · STANFORD UNIVERSITY · PI UTZ, PAUL JOSEPH, WANG, SHAN X. · 2016 to 2021
$5.0M
MICROBES, DENDRITIC CELL SUBSETS AND T-CELL IMMUNITYR01AI048638 · NIAID · STANFORD UNIVERSITY · PI PULENDRAN, BALI · 2001 to 2024
$4.5M
Stanford Integrated Cardiovascular/Pulmonary Residency Research Training ProgramR38HL143615 · NHLBI · STANFORD UNIVERSITY · PI Michael Peter Fischbein, Marlene Rabinovitch · 2020 to 2026
$2.2M
Illumina NovaSeq 6000 High Throughput DNA Sequencer for Emory UniversityS10OD026799 · OD · EMORY UNIVERSITY · PI BOSINGER, STEVEN EDWARD · 2019 to 2019
$985k
Ultra high throughput sequencer for sustaining and enhancing multi-scale genomic studiesS10OD025212 · OD · STANFORD UNIVERSITY · PI SNYDER, MICHAEL P. · 2018 to 2018
$600k
30-parameter FACSymphony A3 flow cytometer for Shared Resource LabS10OD026831 · OD · STANFORD UNIVERSITY · PI NOLAN, GARRY P · 2019 to 2019
$510k
Computer ClusterS10OD021763 · OD · STANFORD UNIVERSITY · PI JI, HANLEE P · 2016 to 2016
$481k
NHLBI NIH HHS R38 HL143615NIAID NIH HHS 75N93021C00016NIAID NIH HHS R01 AI048638NIAID NIH HHS R01 AI125197NIAID NIH HHS U01 AI144673NIAID NIH HHS U19 AI057266NIAID NIH HHS U19 AI167903NIH HHS P51 OD011132NIH HHS S10 OD021763NIH HHS S10 OD025212NIH HHS S10 OD026799NIH HHS S10 OD026831
6 · The paper itself

Abstract

The dynamics of innate and adaptive immunity to infection in infants remain obscure. Here, we used a multi-omics approach to perform a longitudinal analysis of immunity to SARS-CoV-2 infection in infants and young children in the first weeks and months of life by analyzing blood samples collected before, during, and after infection with Omicron and Non-Omicron variants. Infection stimulated robust antibody titers that, unlike in adults, were stably maintained for >300 days. Antigen-specific memory B cell (MCB) responses were durable for 150 days but waned thereafter. Somatic hypermutation of V-genes in MCB accumulated progressively over 9 months. The innate response was characterized by upregulation of activation markers on blood innate cells, and a plasma cytokine profile distinct from that seen in adults, with no inflammatory cytokines, but an early and transient accumulation of chemokines (CXCL10, IL8, IL-18R1, CSF-1, CX3CL1), and type I IFN. The latter was strongly correlated with viral load, and expression of interferon-stimulated genes (ISGs) in myeloid cells measured by single-cell transcriptomics. Consistent with this, single-cell ATAC-seq revealed enhanced accessibility of chromatic loci targeted by interferon regulatory factors (IRFs) and reduced accessibility of AP-1 targeted loci, as well as traces of epigenetic imprinting in monocytes, during convalescence. Together, these data provide the first snapshot of immunity to infection during the initial weeks and months of life.

Identifiers

PMID36778389
PMCPMC9915811
OpenAlexW4318700053

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.