ArticleThe Journal of experimental medicine2025
A human-mouse atlas of intrarenal myeloid cells identifies conserved disease-associated macrophages in lupus nephritis.
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Article in The Journal of experimental medicine, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.
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12citing papers in PubMed
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Who cites it
12 citing papers in PubMed.
- Spatial Transcriptomics and Mechanisms of Immune Checkpoint Inhibitor-Associated Interstitial Nephritis.Kidney international reports · 2026Article
- Metabolic determinants of autoimmune kidney diseases.Nature reviews. Nephrology · 2026Review
- Multi-level transcriptional control of specific macrophage responses.The EMBO journal · 2026Review
- Screening of diagnostic biomarkers for taurine metabolism-related genes in lupus nephritis and analysis of immune infiltration.International urology and nephrology · 2026Article
- Article
- Article
- Inflammation-Driven Lymphoid Structures: Organization, Function, and Clinical Impact Across Autoimmunity, Cancer, and Checkpoint Toxicity.Immunological reviews · 2026Review
- Spatially Distinct Macrophage Subsets Drive Myofibroblast Heterogeneity and Maladaptive Fibrosis in Lupus Nephritis.bioRxiv : the preprint server for biology · 2026Article
- A population-scale atlas of blood and tissue in lupus nephritis.bioRxiv : the preprint server for biology · 2026Article
- Can we cure autoimmunity?Current opinion in immunology · 2026Review
- Sentinels or saboteurs, the Janus face of cochlear-resident macrophages in hearing loss: spatiotemporal distribution, pathophysiological functions, and translational potential.Journal of neuroinflammation · 2025Review
- Spatial Transcriptomics Identify T Cell-Driven Mechanisms of Kidney Damage in Immune Checkpoint Inhibitor-Associated Acute Interstitial Nephritis.bioRxiv : the preprint server for biology · 2025Article
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Authors and funding
36 authors.
Paul J HooverDivision of Rheumatology, Inflammation and Immunity, Department of Medicine, Brigham and Women's Hospital and Harvard Medical School, Boston, MA, USA.ORCID 0000-0001-5343-429X
Chirag RapariaInstitute of Molecular Medicine, Feinstein Institutes for Medical Research , Manhasset, NY, USA.ORCID 0000-0002-5361-1257
David J LiebThe Broad Institute of MIT and Harvard , Cambridge, MA, USA.ORCID 0000-0001-7459-4719
Yochay TzurRappaport Faculty of Medicine, Technion - Israel Institute of Technology , Haifa, Israel.ORCID 0009-0000-9329-392X
Joyce KangCenter for Data Sciences, Brigham and Women's Hospital , Boston, MA, USA.ORCID 0000-0002-1962-1291
Arnon AraziInstitute of Molecular Medicine, Feinstein Institutes for Medical Research , Manhasset, NY, USA.ORCID 0000-0002-6766-8203
Rollin LeavittThe Broad Institute of MIT and Harvard , Cambridge, MA, USA.ORCID 0009-0002-2751-7045
Rakesh MishraInstitute of Molecular Medicine, Feinstein Institutes for Medical Research , Manhasset, NY, USA.ORCID 0000-0001-7723-4065
Sujal I ShahDepartment of Pathology, Brigham and Women's Hospital, Harvard Medical School, Boston, MA, USA.ORCID 0000-0002-0125-1448
Daimon SimmonsDepartment of Pathology, Brigham and Women's Hospital, Harvard Medical School, Boston, MA, USA.ORCID 0000-0003-1429-4073
Stephen LiThe Broad Institute of MIT and Harvard , Cambridge, MA, USA.ORCID 0000-0001-6367-8861
Michael PetersThe Broad Institute of MIT and Harvard , Cambridge, MA, USA.ORCID 0000-0002-0900-8231
Thomas EisenhaureThe Broad Institute of MIT and Harvard , Cambridge, MA, USA.ORCID 0000-0003-3999-3540
Timothy J Few-CooperRappaport Faculty of Medicine, Technion - Israel Institute of Technology , Haifa, Israel.ORCID 0009-0009-3775-4547
Saisram S GurajalaCenter for Data Sciences, Brigham and Women's Hospital , Boston, MA, USA.ORCID 0009-0003-5105-8667
Abraham SonnyThe Broad Institute of MIT and Harvard , Cambridge, MA, USA.ORCID 0000-0002-2101-9849
Jeffrey B HodginDepartment of Pathology, University of Michigan, Ann Arbor, Ann Arbor, Michigan, USA.ORCID 0000-0003-0534-3048
Celine C BerthierDepartment of Internal Medicine, Division of Nephrology, University of Michigan, Ann Arbor, MI, USA.ORCID 0000-0003-3539-1075
Joel M GuthridgeDepartment of Arthritis and Clinical Immunology, Oklahoma Medical Research Foundation, Oklahoma City, OK, USA.ORCID 0000-0002-9308-237X
Andrea FavaDivision of Rheumatology, Department of Medicine, Johns Hopkins University, Baltimore, MD, USA.ORCID 0000-0001-6738-4836
Robert M ClancyDivision of Rheumatology, Department of Medicine, New York University Grossman School of Medicine, New York, NY, USA.ORCID 0000-0003-1151-0084
Chaim PuttermanDivision of Rheumatology and Department of Microbiology and Immunology, Albert Einstein College of Medicine, Bronx, NY, USA.ORCID 0000-0002-3204-6068
Peter M IzmirlyDivision of Rheumatology, Department of Medicine, New York University Grossman School of Medicine, New York, NY, USA.ORCID 0000-0001-5445-2182
H Michael BelmontDivision of Rheumatology, Department of Medicine, New York University Grossman School of Medicine, New York, NY, USA.ORCID 0000-0003-3389-2976
Kenneth KalunianDivision of Rheumatology, Autoimmunity and Inflammation, University of California, San Diego School of Medicine, San Diego, CA, USA.ORCID 0000-0003-0261-3102
Diane KamenDepartment of Medicine, Medical University of South Carolina, Charleston, SC, USA.ORCID 0000-0002-7698-980X
David WofsyRheumatology Division, Department of Medicine, Russell/Engleman Rheumatology Research Center, University of California San Francisco, San Francisco, CA, USA.ORCID 0000-0001-8350-3428
Jill P BuyonDepartment of Pathology, University of Michigan, Ann Arbor, Ann Arbor, Michigan, USA.ORCID 0000-0002-3852-7129
Judith A JamesProgram in Medical and Population Genetics, Broad Institute of MIT and Harvard , Cambridge, MA, USA.ORCID 0000-0002-9574-7355
Michelle PetriDepartment of Pathology, Brigham and Women's Hospital, Harvard Medical School, Boston, MA, USA.ORCID 0000-0003-1441-5373
Betty DiamondInstitute of Molecular Medicine, Feinstein Institutes for Medical Research , Manhasset, NY, USA.ORCID 0000-0002-3250-3804
Soumya RaychaudhuriDivision of Rheumatology, Inflammation and Immunity, Department of Medicine, Brigham and Women's Hospital and Harvard Medical School, Boston, MA, USA.ORCID 0000-0002-1901-8265
Shai S Shen-OrrRappaport Faculty of Medicine, Technion - Israel Institute of Technology , Haifa, Israel.ORCID 0000-0002-6991-7736
Accelerating Medicines Partnership in RA/SLE network
Nir Hacohen *The Broad Institute of MIT and Harvard , Cambridge, MA, USA.ORCID 0000-0002-2349-2656
Anne Davidson *Institute of Molecular Medicine, Feinstein Institutes for Medical Research , Manhasset, NY, USA.ORCID 0000-0002-4081-6464
Funding
Accelerating Medicines Partnership-Autoimmune and Immunologic Disease Tissue Research Core Admin Supplement: Preclinical Studies in Sjogren'sUC2AR081032 · NIAMS · OKLAHOMA MEDICAL RESEARCH FOUNDATION · PI Joel Marvin Guthridge, JUDITH A JAMES · 2022 to 2026
$30.7MCentral Hub for Kidney Precision MedicineU24DK114886 · NIDDK · UNIVERSITY OF WASHINGTON · PI Jonathan Himmelfarb, Matthias Kretzler · 2022 to 2026
$21.1MKPMP Kidney Mapping and Atlas Project (KMAP)U01DK133090 · NIDDK · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI Jonathan Himmelfarb, Matthias Kretzler · 2022 to 2026
$10.4MIntegrated spatial interrogation of cellular and molecular signatures of human kidney diseaseU01DK114923 · NIDDK · INDIANA UNIVERSITY INDIANAPOLIS · PI Tarek Maurice Ashkar, Pierre C Dagher · 2022 to 2026
$5.4MSingle cell multiomic and spatial atlas of acute and chronic kidney injuryU01DK114933 · NIDDK · WASHINGTON UNIVERSITY · PI Sanjay Jain · 2022 to 2026
$5.0MSpatial Multi-Omics to Profile Metabolic Pathways for Kidney DiseaseU01DK114920 · NIDDK · UNIVERSITY OF TEXAS HLTH SCIENCE CENTER · PI Christopher R Anderton, Kumar Sharma · 2022 to 2026
$3.9MBoston Chronic Kidney Disease Research Biopsy CenterU01DK133092 · NIDDK · BOSTON MEDICAL CENTER · PI Sylvia E Rosas, Sushrut S. Waikar · 2022 to 2026
$3.5MMultimodal Imaging Mass Spectrometry and Spatial Omics for the Human KidneyU01DK133766 · NIDDK · VANDERBILT UNIVERSITY · PI Jeffrey M Spraggins · 2022 to 2026
$3.4MPREcision Medicine through IntErrogation of Rna in the kidnEy (PREMIERE)U01DK114907 · NIDDK · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI Nir Hacohen, Jeffrey Benton Hodgin · 2022 to 2026
$3.2MUniversity of Illinois at Chicago KPMP CKD Recruitment SiteU01DK133081 · NIDDK · UNIVERSITY OF ILLINOIS AT CHICAGO · PI JAMES P. LASH, Ana Catherine Ricardo · 2022 to 2026
$2.7MAKI Matched Phenotype Linked Evaluation with Tissue (AMPLE-Tissue)U01DK114866 · NIDDK · JOHNS HOPKINS UNIVERSITY · PI Chirag R Parikh · 2022 to 2026
$2.6MDissecting the heterogeneity and function of myeloid cells in lupus nephritisR01DK131482 · NIDDK · FEINSTEIN INSTITUTE FOR MEDICAL RESEARCH · PI Anne Davidson · 2023 to 2026
$2.5MAccelerating Medicines Partnership Autoimmune and Immune-Mediated Diseases NetworkDepartment of Defense W81XWH-21-1-0966Lupus Research Alliance 1244415National Institute of Allergy and Infectious Diseases P01AI148102NIAMS NIH HHS UC2 AR081032NIDDK NIH HHS 1R01DK131482-01A1NIDDK NIH HHS R01 DK085241NIDDK NIH HHS R01 DK131482NIDDK NIH HHS U01DK114866NIDDK NIH HHS U01DK114907NIDDK NIH HHS U01DK114908NIDDK NIH HHS U01DK114920NIDDK NIH HHS U01DK114923NIDDK NIH HHS U01DK114933NIDDK NIH HHS U01DK133081NIDDK NIH HHS U01DK133090NIDDK NIH HHS U01DK133091NIDDK NIH HHS U01DK133092NIDDK NIH HHS U01DK133093NIDDK NIH HHS U01DK133095NIDDK NIH HHS U01DK133097NIDDK NIH HHS U01DK133113NIDDK NIH HHS U01DK133766NIDDK NIH HHS U01DK133768NIDDK NIH HHS U24DK114886NIDDK NIH HHS UH3DK114861NIDDK NIH HHS UH3DK114915NIDDK NIH HHS UH3DK114926NIDDK NIH HHS UH3DK114937NIH HHS UC2-AR081023NIH HHS UC2-AR081025NIH HHS UC2-AR081029NIH HHS UC2-AR081031NIH HHS UC2-AR081032NIH HHS UC2-AR081033NIH HHS UC2-AR081034NIH HHS UC2-AR081039NIH HHS UC2-DE032254Rheumatology Research Foundation 15829669Rheumatology Research Foundation 998677
Abstract
Monocytes and macrophages in patients with lupus nephritis exhibit altered behavior compared with healthy kidneys. How to optimally use mouse models to develop treatments targeting these cells is poorly understood. This study compared intrarenal myeloid cells in four mouse models and 155 lupus nephritis patients using single-cell profiling, spatial transcriptomics, and functional studies. Across mouse models, monocyte and macrophage subsets consistently expanded or contracted in disease. A subset of murine classical monocytes expanded in disease; these cells expressed Cd9, Spp1, Ctsd, Cd63, Apoe, and Trem2, genes associated with tissue injury in other organs that play roles in inflammation, lipid metabolism, and tissue repair. Resident macrophages expressed similar genes in clinical disease. In humans, we identified analogous disease-associated monocytes and macrophages that were associated with kidney histological subtypes and disease progression, sharing gene expression and localizing to similar kidney microenvironments as in mice. This cross-species analysis supports the use of mouse functional studies for understanding human lupus nephritis.
Indexed as
KidneyLupus NephritisMacrophagesMyeloid CellsAnimalsDisease Models, AnimalFemaleGene Expression ProfilingHumansMaleMiceMice, Inbred C57BLMonocytesTranscriptome
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