Evidence map›Paper›PMID 34647971›Full record

ArticleThe Journal of experimental medicine2021

Identification of conserved SARS-CoV-2 spike epitopes that expand public cTfh clonotypes in mild COVID-19 patients.

Xiuyuan Lu, Yuki Hosono, Masamichi Nagae, Shigenari Ishizuka, Eri Ishikawa, Daisuke Motooka, Yuki Ozaki, Nicolas Sax, Yuichi Maeda, Yasuhiro Kato and 20 more

Open access · bronzeAbstract read
In one paragraph

Article in The Journal of experimental medicine, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
27citing papers in PubMed, 1 pooled it
2.3field-weighted citation impact, top 9% 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

27 citing papers in PubMed, 1 synthesis or guideline pooled it, 44 citations in OpenAlex.

  1. Resolving SARS-CoV-2 CD4Cell reports. Medicine · 2022
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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

30 authors at 6 institutions in 1 country.

Xiuyuan LuLaboratory of Molecular Immunology, Immunology Frontier Research Center, Osaka University, Suita, Japan.ORCID 0000-0002-0784-2871
Yuki HosonoLaboratory of Molecular Immunology, Immunology Frontier Research Center, Osaka University, Suita, Japan.ORCID 0000-0001-9993-6789
Masamichi NagaeLaboratory of Molecular Immunology, Immunology Frontier Research Center, Osaka University, Suita, Japan.ORCID 0000-0002-5470-3807
Shigenari IshizukaLaboratory of Molecular Immunology, Immunology Frontier Research Center, Osaka University, Suita, Japan.ORCID 0000-0003-1832-0881
Eri IshikawaLaboratory of Molecular Immunology, Immunology Frontier Research Center, Osaka University, Suita, Japan.ORCID 0000-0002-4922-6751
Daisuke MotookaDepartment of Infection Metagenomics, Genome Information Research Center, Research Institute for Microbial Diseases, Osaka University, Suita, Japan.ORCID 0000-0002-4616-9608
Yuki OzakiDepartment of Infection Metagenomics, Genome Information Research Center, Research Institute for Microbial Diseases, Osaka University, Suita, Japan.ORCID 0000-0003-1185-5410
Nicolas SaxKOTAI Biotechnologies, Inc., Suita, Japan.ORCID 0000-0003-3241-4737
Yuichi MaedaDepartment of Respiratory Medicine and Clinical Immunology, Graduate School of Medicine, Osaka University, Suita, Japan.ORCID 0000-0002-6831-8205
Yasuhiro KatoDepartment of Respiratory Medicine and Clinical Immunology, Graduate School of Medicine, Osaka University, Suita, Japan.ORCID 0000-0002-4050-2350
Takayoshi MoritaDepartment of Respiratory Medicine and Clinical Immunology, Graduate School of Medicine, Osaka University, Suita, Japan.ORCID 0000-0002-7111-9506
Ryo ShinnakasuLaboratory of Lymphocyte Differentiation, Immunology Frontier Research Center, Osaka University, Suita, Japan.ORCID 0000-0002-5369-3424
Takeshi InoueLaboratory of Lymphocyte Differentiation, Immunology Frontier Research Center, Osaka University, Suita, Japan.ORCID 0000-0002-9972-6105
Taishi OnoderaResearch Center for Drug and Vaccine Development, National Institute of Infectious Diseases, Tokyo, Japan.ORCID 0000-0002-7079-3339
Takayuki MatsumuraResearch Center for Drug and Vaccine Development, National Institute of Infectious Diseases, Tokyo, Japan.ORCID 0000-0003-1760-3484
Masaharu ShinkaiTokyo Shinagawa Hospital, Tokyo, Japan.ORCID 0000-0002-4012-2518
Takashi SatoTokyo Shinagawa Hospital, Tokyo, Japan.ORCID 0000-0002-2676-3781
Shota NakamuraDepartment of Infection Metagenomics, Genome Information Research Center, Research Institute for Microbial Diseases, Osaka University, Suita, Japan.ORCID 0000-0003-2058-5942
Shunsuke MoriDepartment of Immunochemistry, Research Institute for Microbial Diseases, Osaka University, Suita, Japan.ORCID 0000-0003-0014-9676
Teru KandaDivision of Microbiology, Faculty of Medicine, Tohoku Medical and Pharmaceutical University, Sendai, Japan.ORCID 0000-0002-1391-3349
Emi E NakayamaDepartment of Viral Infections, Research Institute for Microbial Diseases, Osaka University, Suita, Japan.ORCID 0000-0002-0477-0980
Tatsuo ShiodaDepartment of Viral Infections, Research Institute for Microbial Diseases, Osaka University, Suita, Japan.ORCID 0000-0002-3439-8331
Tomohiro KurosakiLaboratory of Lymphocyte Differentiation, Immunology Frontier Research Center, Osaka University, Suita, Japan.ORCID 0000-0002-6352-304X
Kiyoshi TakedaLaboratory of Immune Regulation, Department of Microbiology and Immunology, Graduate School of Medicine, Osaka University, Suita, Japan.ORCID 0000-0002-1778-6332
Atsushi KumanogohDepartment of Respiratory Medicine and Clinical Immunology, Graduate School of Medicine, Osaka University, Suita, Japan.ORCID 0000-0003-4749-7117
Hisashi AraseDepartment of Immunochemistry, Research Institute for Microbial Diseases, Osaka University, Suita, Japan.ORCID 0000-0002-1153-3166
Hironori NakagamiDepartment of Health Development and Medicine, Graduate School of Medicine, Osaka University, Suita, Japan.ORCID 0000-0003-4494-3601
Kazuo YamashitaKOTAI Biotechnologies, Inc., Suita, Japan.ORCID 0000-0002-0085-2057
Yoshimasa TakahashiResearch Center for Drug and Vaccine Development, National Institute of Infectious Diseases, Tokyo, Japan.ORCID 0000-0001-6342-4087
Sho YamasakiLaboratory of Molecular Immunology, Immunology Frontier Research Center, Osaka University, Suita, Japan.ORCID 0000-0002-5184-6917
The University of Osaka · JPNational Institute of Infectious Diseases · JPNew Tokyo Hospital · JPKyushu University · JPRIKEN Center for Integrative Medical Sciences · JPTohoku Medical and Pharmaceutical University · JP

Funding

AnGesDaicelFunPepJapan Agency for Medical Research and Development 20fk0108265Japan Society for the Promotion of Science JP18H05279Kansai Economic FederationMitsubishi Foundation
6 · The paper itself

Abstract

Adaptive immunity is a fundamental component in controlling COVID-19. In this process, follicular helper T (Tfh) cells are a subset of CD4+ T cells that mediate the production of protective antibodies; however, the SARS-CoV-2 epitopes activating Tfh cells are not well characterized. Here, we identified and crystallized TCRs of public circulating Tfh (cTfh) clonotypes that are expanded in patients who have recovered from mild symptoms. These public clonotypes recognized the SARS-CoV-2 spike (S) epitopes conserved across emerging variants. The epitope of the most prevalent cTfh clonotype, S864-882, was presented by multiple HLAs and activated T cells in most healthy donors, suggesting that this S region is a universal T cell epitope useful for booster antigen. SARS-CoV-2-specific public cTfh clonotypes also cross-reacted with specific commensal bacteria. In this study, we identified conserved SARS-CoV-2 S epitopes that activate public cTfh clonotypes associated with mild symptoms.

Indexed as

AdultAntibodies, ViralCOVID-19Epitopes, T-LymphocyteFemaleHLA AntigensHumansLymphocyte ActivationMaleSARS-CoV-2Spike Glycoprotein, CoronavirusT-Lymphocytes, Helper-InducerAntibodies, ViralEpitopes, T-LymphocyteHLA AntigensSpike Glycoprotein, Coronavirusspike protein, SARS-CoV-2

Identifiers

PMID34647971
PMCPMC8641254
OpenAlexW3206309360

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC-SA
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.