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Weisel NM, Joachim SM, Smita S, Callahan D, Elsner RA, Conter LJ, Chikina M, Farber DL, Weisel FJ, Shlomchik MJ. Surface phenotypes of naive and memory B cells in mouse and human tissues. Nat Immunol 2022; 23:135-145. [PMID: 34937918 PMCID: PMC8712407 DOI: 10.1038/s41590-021-01078-x] [Citation(s) in RCA: 37] [Impact Index Per Article: 18.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/30/2021] [Accepted: 10/22/2021] [Indexed: 11/09/2022]
Abstract
Memory B cells (MBCs) protect the body from recurring infections. MBCs differ from their naive counterparts (NBCs) in many ways, but functional and surface marker differences are poorly characterized. In addition, although mice are the prevalent model for human immunology, information is limited concerning the nature of homology in B cell compartments. To address this, we undertook an unbiased, large-scale screening of both human and mouse MBCs for their differential expression of surface markers. By correlating the expression of such markers with extensive panels of known markers in high-dimensional flow cytometry, we comprehensively identified numerous surface proteins that are differentially expressed between MBCs and NBCs. The combination of these markers allows for the identification of MBCs in humans and mice and provides insight into their functional differences. These results will greatly enhance understanding of humoral immunity and can be used to improve immune monitoring.
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Affiliation(s)
- Nadine M. Weisel
- Department of Immunology, University of Pittsburgh, Pittsburgh, PA 15261, USA.,these authors contributed equally
| | - Stephen M. Joachim
- Department of Immunology, University of Pittsburgh, Pittsburgh, PA 15261, USA.,these authors contributed equally
| | - Shuchi Smita
- Department of Immunology, University of Pittsburgh, Pittsburgh, PA 15261, USA.,Department of Computational and Systems Biology, University of Pittsburgh School of Medicine, Pittsburgh, PA 15260, USA
| | - Derrick Callahan
- Department of Immunology, University of Pittsburgh, Pittsburgh, PA 15261, USA
| | - Rebecca A. Elsner
- Department of Immunology, University of Pittsburgh, Pittsburgh, PA 15261, USA
| | - Laura J. Conter
- Department of Immunology, University of Pittsburgh, Pittsburgh, PA 15261, USA
| | - Maria Chikina
- Department of Immunology, University of Pittsburgh, Pittsburgh, PA 15261, USA.,Department of Computational and Systems Biology, University of Pittsburgh School of Medicine, Pittsburgh, PA 15260, USA
| | - Donna L. Farber
- Department of Microbiology and Immunology, Columbia University Medical Center, New York, NY 10032, USA,Department of Surgery, Columbia University Medical Center, New York, NY 10032, USA
| | - Florian J. Weisel
- Department of Immunology, University of Pittsburgh, Pittsburgh, PA 15261, USA.,these authors jointly supervised this work
| | - Mark J. Shlomchik
- Department of Immunology, University of Pittsburgh, Pittsburgh, PA 15261, USA.,these authors jointly supervised this work,Correspondence to:
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Kim E, Weisel FJ, Balmert SC, Khan MS, Huang S, Erdos G, Kenniston TW, Carey CD, Joachim SM, Conter LJ, Weisel NM, Okba NMA, Haagmans BL, Percivalle E, Cassaniti I, Baldanti F, Korkmaz E, Shlomchik MJ, Falo LD, Gambotto A. A single subcutaneous or intranasal immunization with adenovirus-based SARS-CoV-2 vaccine induces robust humoral and cellular immune responses in mice. Eur J Immunol 2021; 51:1774-1784. [PMID: 33772778 PMCID: PMC8250272 DOI: 10.1002/eji.202149167] [Citation(s) in RCA: 17] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/05/2021] [Revised: 02/27/2021] [Accepted: 03/16/2021] [Indexed: 12/13/2022]
Abstract
Optimal vaccines are needed for sustained suppression of SARS-CoV-2 and other novel coronaviruses. Here, we developed a recombinant type 5 adenovirus vector encoding the gene for the SARS-CoV-2 S1 subunit antigen (Ad5.SARS-CoV-2-S1) for COVID-19 immunization and evaluated its immunogenicity in mice. A single immunization with Ad5.SARS-CoV-2-S1 via S.C. injection or I.N delivery induced robust antibody and cellular immune responses. Vaccination elicited significant S1-specific IgG, IgG1, and IgG2a endpoint titers as early as 2 weeks, and the induced antibodies were long lasting. I.N. and S.C. administration of Ad5.SARS-CoV-2-S1 produced S1-specific GC B cells in cervical and axillary LNs, respectively. Moreover, I.N. and S.C. immunization evoked significantly greater antigen-specific T-cell responses compared to unimmunized control groups with indications that S.C. injection was more effective than I.N. delivery in eliciting cellular immune responses. Mice vaccinated by either route demonstrated significantly increased virus-specific neutralization antibodies on weeks 8 and 12 compared to control groups, as well as BM antibody forming cells (AFC), indicative of long-term immunity. Thus, this Ad5-vectored SARS-CoV-2 vaccine candidate showed promising immunogenicity following delivery to mice by S.C. and I.N. routes of administration, supporting the further development of Ad-based vaccines against COVID-19 and other infectious diseases for sustainable global immunization programs.
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Affiliation(s)
- Eun Kim
- Department of SurgeryUniversity of Pittsburgh School of MedicinePittsburghPAUSA
| | - Florian J. Weisel
- Department of ImmunologyUniversity of Pittsburgh School of MedicinePittsburghPAUSA
| | - Stephen C. Balmert
- Department of DermatologyUniversity of Pittsburgh School of MedicinePittsburghPAUSA
| | - Muhammad S. Khan
- Department of SurgeryUniversity of Pittsburgh School of MedicinePittsburghPAUSA
- Department of Infectious Diseases and MicrobiologyUniversity of Pittsburgh Graduate School of Public HealthPittsburghPAUSA
| | - Shaohua Huang
- Department of SurgeryUniversity of Pittsburgh School of MedicinePittsburghPAUSA
| | - Geza Erdos
- Department of DermatologyUniversity of Pittsburgh School of MedicinePittsburghPAUSA
| | - Thomas W. Kenniston
- Department of SurgeryUniversity of Pittsburgh School of MedicinePittsburghPAUSA
| | - Cara Donahue Carey
- Department of DermatologyUniversity of Pittsburgh School of MedicinePittsburghPAUSA
| | - Stephen M. Joachim
- Department of ImmunologyUniversity of Pittsburgh School of MedicinePittsburghPAUSA
| | - Laura J. Conter
- Department of ImmunologyUniversity of Pittsburgh School of MedicinePittsburghPAUSA
| | - Nadine M. Weisel
- Department of ImmunologyUniversity of Pittsburgh School of MedicinePittsburghPAUSA
| | - Nisreen M. A. Okba
- Department of ViroscienceErasmus Medical Center RotterdamRotterdamThe Netherlands
| | - Bart L. Haagmans
- Department of ViroscienceErasmus Medical Center RotterdamRotterdamThe Netherlands
| | - Elena Percivalle
- Molecular Virology UnitMicrobiology and Virology DepartmentIRCCS Policlinico San MatteoPaviaItaly
| | - Irene Cassaniti
- Molecular Virology UnitMicrobiology and Virology DepartmentIRCCS Policlinico San MatteoPaviaItaly
| | - Fausto Baldanti
- Molecular Virology UnitMicrobiology and Virology DepartmentIRCCS Policlinico San MatteoPaviaItaly
- Department of ClinicalSurgicalDiagnostic and Pediatric SciencesUniversity of PaviaPaviaItaly
| | - Emrullah Korkmaz
- Department of DermatologyUniversity of Pittsburgh School of MedicinePittsburghPAUSA
- Department of BioengineeringUniversity of Pittsburgh Swanson School of EngineeringPittsburghPAUSA
| | - Mark J. Shlomchik
- Department of ImmunologyUniversity of Pittsburgh School of MedicinePittsburghPAUSA
| | - Louis D. Falo
- Department of DermatologyUniversity of Pittsburgh School of MedicinePittsburghPAUSA
- Department of BioengineeringUniversity of Pittsburgh Swanson School of EngineeringPittsburghPAUSA
- Clinical and Translational Science InstituteUniversity of PittsburghPittsburghPAUSA
- The McGowan Institute for Regenerative MedicineUniversity of PittsburghPittsburghPAUSA
- UPMC Hillman Cancer CenterPittsburghPAUSA
| | - Andrea Gambotto
- Department of SurgeryUniversity of Pittsburgh School of MedicinePittsburghPAUSA
- Department of Infectious Diseases and MicrobiologyUniversity of Pittsburgh Graduate School of Public HealthPittsburghPAUSA
- UPMC Hillman Cancer CenterPittsburghPAUSA
- Department of MedicineDivision of Infectious DiseaseUniversity of Pittsburgh School of MedicinePittsburghPAUSA
- Department of Microbiology and Molecular Genetics University of Pittsburgh School of MedicinePittsburghPAUSA
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Camiolo MJ, Zhou X, Oriss TB, Yan Q, Gorry M, Horne W, Trudeau JB, Scholl K, Chen W, Kolls JK, Ray P, Weisel FJ, Weisel NM, Aghaeepour N, Nadeau K, Wenzel SE, Ray A. High-dimensional profiling clusters asthma severity by lymphoid and non-lymphoid status. Cell Rep 2021; 35:108974. [PMID: 33852838 PMCID: PMC8133874 DOI: 10.1016/j.celrep.2021.108974] [Citation(s) in RCA: 27] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/15/2020] [Revised: 02/26/2021] [Accepted: 03/19/2021] [Indexed: 12/12/2022] Open
Abstract
Clinical definitions of asthma fail to capture the heterogeneity of immune dysfunction in severe, treatment-refractory disease. Applying mass cytometry and machine learning to bronchoalveolar lavage (BAL) cells, we find that corticosteroid-resistant asthma patients cluster largely into two groups: one enriched in interleukin (IL)-4+ innate immune cells and another dominated by interferon (IFN)-γ+ T cells, including tissue-resident memory cells. In contrast, BAL cells of a healthier population are enriched in IL-10+ macrophages. To better understand cellular mediators of severe asthma, we developed the Immune Cell Linkage through Exploratory Matrices (ICLite) algorithm to perform deconvolution of bulk RNA sequencing of mixed-cell populations. Signatures of mitosis and IL-7 signaling in CD206-FcεRI+CD127+IL-4+ innate cells in one patient group, contrasting with adaptive immune response in T cells in the other, are preserved across technologies. Transcriptional signatures uncovered by ICLite identify T-cell-high and T-cell-poor severe asthma patients in an independent cohort, suggesting broad applicability of our findings.
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Affiliation(s)
- Matthew J Camiolo
- Division of Pulmonary, Allergy, and Critical Care Medicine, Department of Medicine, University of Pittsburgh School of Medicine, Pittsburgh, PA, USA; Center for Systems Immunology, University of Pittsburgh Medical Center, Pittsburgh, PA, USA
| | - Xiaoying Zhou
- Sean N Parker Center for Allergy Research and Division of Pulmonary, Allergy, and Critical Care Medicine, Stanford University, Stanford, CA, USA
| | - Timothy B Oriss
- Division of Pulmonary, Allergy, and Critical Care Medicine, Department of Medicine, University of Pittsburgh School of Medicine, Pittsburgh, PA, USA
| | - Qi Yan
- Division of Pulmonary Medicine, Children's Hospital of Pittsburgh, University of Pittsburgh School of Medicine, Pittsburgh, PA, USA
| | - Michael Gorry
- Division of Pulmonary, Allergy, and Critical Care Medicine, Department of Medicine, University of Pittsburgh School of Medicine, Pittsburgh, PA, USA
| | - William Horne
- Richard King Mellon Foundation Institute for Pediatric Research, Children's Hospital of Pittsburgh, University of Pittsburgh School of Medicine, Pittsburgh, PA, USA
| | - John B Trudeau
- Department of Environmental Medicine and Occupational Health, Graduate School of Public Health, University of Pittsburgh School of Medicine, Pittsburgh, PA, USA
| | - Kathryn Scholl
- Division of Pulmonary, Allergy, and Critical Care Medicine, Department of Medicine, University of Pittsburgh School of Medicine, Pittsburgh, PA, USA
| | - Wei Chen
- Division of Pulmonary Medicine, Children's Hospital of Pittsburgh, University of Pittsburgh School of Medicine, Pittsburgh, PA, USA
| | - Jay K Kolls
- Department of Medicine and Center for Translational Research in Infection and Inflammation Tulane School of Medicine, New Orleans, LA, USA
| | - Prabir Ray
- Division of Pulmonary, Allergy, and Critical Care Medicine, Department of Medicine, University of Pittsburgh School of Medicine, Pittsburgh, PA, USA; Department of Immunology, University of Pittsburgh School of Medicine, Pittsburgh, PA, USA
| | - Florian J Weisel
- Departments of Anesthesiology, Pain, and Peri-operative Medicine and Biomedical Data Sciences, Stanford University, Stanford, CA, USA
| | - Nadine M Weisel
- Department of Immunology, University of Pittsburgh School of Medicine, Pittsburgh, PA, USA
| | - Nima Aghaeepour
- Departments of Anesthesiology, Pain, and Peri-operative Medicine and Biomedical Data Sciences, Stanford University, Stanford, CA, USA
| | - Kari Nadeau
- Sean N Parker Center for Allergy Research and Division of Pulmonary, Allergy, and Critical Care Medicine, Stanford University, Stanford, CA, USA
| | - Sally E Wenzel
- Division of Pulmonary, Allergy, and Critical Care Medicine, Department of Medicine, University of Pittsburgh School of Medicine, Pittsburgh, PA, USA; Department of Environmental Medicine and Occupational Health, Graduate School of Public Health, University of Pittsburgh School of Medicine, Pittsburgh, PA, USA; Department of Immunology, University of Pittsburgh School of Medicine, Pittsburgh, PA, USA
| | - Anuradha Ray
- Division of Pulmonary, Allergy, and Critical Care Medicine, Department of Medicine, University of Pittsburgh School of Medicine, Pittsburgh, PA, USA; Department of Immunology, University of Pittsburgh School of Medicine, Pittsburgh, PA, USA.
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Weisel NM, Weisel FJ, Farber DL, Borghesi LA, Shen Y, Ma W, Luning Prak ET, Shlomchik MJ. Comprehensive analyses of B-cell compartments across the human body reveal novel subsets and a gut-resident memory phenotype. Blood 2020; 136:2774-2785. [PMID: 32750113 PMCID: PMC7731793 DOI: 10.1182/blood.2019002782] [Citation(s) in RCA: 60] [Impact Index Per Article: 15.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/30/2019] [Accepted: 06/22/2020] [Indexed: 11/20/2022] Open
Abstract
Although human B cells have been extensively studied, most reports have used peripheral blood as a source. Here, we used a unique tissue resource derived from healthy organ donors to deeply characterize human B-cell compartments across multiple tissues and donors. These datasets revealed that B cells in the blood are not in homeostasis with compartments in other tissues. We found striking donor-to-donor variability in the frequencies and isotype of CD27+ memory B cells (MBCs). A comprehensive antibody-based screen revealed markers of MBC and allowed identification of novel MBC subsets with distinct functions defined according to surface expression of CD69 and CD45RB. We defined a tissue-resident MBC phenotype that was predominant in the gut but absent in blood. RNA-sequencing of MBC subsets from multiple tissues revealed a tissue-resident MBC gene signature as well as gut- and spleen-specific signatures. Overall, these studies provide novel insights into the nature and function of human B-cell compartments across multiple tissues.
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Affiliation(s)
- Nadine M Weisel
- Department of Immunology, University of Pittsburgh School of Medicine, Pittsburgh, PA
| | - Florian J Weisel
- Department of Immunology, University of Pittsburgh School of Medicine, Pittsburgh, PA
| | - Donna L Farber
- Columbia Center for Translational Immunology
- Department of Microbiology and Immunology
- Department of Surgery, and
| | - Lisa A Borghesi
- Department of Immunology, University of Pittsburgh School of Medicine, Pittsburgh, PA
| | - Yufeng Shen
- Department of Systems Biology, Columbia University Medical Center, New York, NY; and
| | - Wenji Ma
- Department of Systems Biology, Columbia University Medical Center, New York, NY; and
| | - Eline T Luning Prak
- Department of Pathology and Laboratory Medicine, University of Pennsylvania School of Medicine, Philadelphia, PA
| | - Mark J Shlomchik
- Department of Immunology, University of Pittsburgh School of Medicine, Pittsburgh, PA
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