{"database":"GEO","file_versions":[{"headers":{"Content-Type":["application/json"]},"body":{"files":{"Other":["ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE304nnn/GSE304421/"]},"type":"primary"},"statusCodeValue":200,"statusCode":"OK"}],"scores":null,"additional":{"omics_type":["Other"],"species":["Mus musculus"],"gds_type":[" Expression profiling by high throughput sequencing","Other"],"full_dataset_link":["https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE304421"],"repository":["GEO"],"entry_type":["GSE"],"additional_accession":[]},"is_claimable":false,"name":"Single-cell multiomics reveals a CD4+ TH1 driven response to Pneumocystis in immunocompetent hosts","description":"Understanding immune mechanisms by which Pneumocystis is cleared in immunocompetent hosts can inform strategies for preventing and treating Pneumocystis pneumonia. We used a co-housing exposure model of mouse Pneumocystis (P. murina) infection to characterize the roles of pulmonary immune cell populations in immunocompetent (C57BL/6) mice at single-cell level. CD4+ TH1 cells showed the greatest increase and clonal expansion following P. murina infection, with less pronounced increases in TH17 and TfH cells. We also observed reduced TCR diversity post-P. murina infection, and identified expanded clonotypes with limited overlap between animals, suggesting antigenic variation. Infected mice showed differential expression of pro-inflammatory cytokines IL-21, Cxcl9, Ly6a, co-stimulatory molecule Ox-40 (CD134), and regulatory genes Lag3 and Ctla4, indicating a regulated immune response. Pathway analyses predicted IFN‐γ centered cytokine interactions which presumably enhance killing of P. murina organisms by macrophages. Thus, we demonstrate a predominant CD4+ TH1 cell response in immunocompetent hosts, and delineate expanded TCR clonotypes in Pneumocystis infected mice, providing insights for development of immunomodulatory therapies.","dates":{"publication":"2026/08/31"},"accession":"GSE304421","cross_references":{"GSM":["GSM9150325","GSM9150326","GSM9150323","GSM9150324","GSM9150329","GSM9150327","GSM9150328","GSM9150295","GSM9150296","GSM9150293","GSM9150294","GSM9150332","GSM9150299","GSM9150333","GSM9150297","GSM9150330","GSM9150298","GSM9150331","GSM9150291","GSM9150292","GSM9150290","GSM9150314","GSM9150315","GSM9150279","GSM9150312","GSM9150313","GSM9150318","GSM9150319","GSM9150316","GSM9150317","GSM9150284","GSM9150285","GSM9150282","GSM9150283","GSM9150321","GSM9150288","GSM9150289","GSM9150322","GSM9150286","GSM9150320","GSM9150287","GSM9150280","GSM9150281","GSM9150336","GSM9150337","GSM9150334","GSM9150335","GSM9150338","GSM9150339","GSM9150340","GSM9150343","GSM9150341","GSM9150342","GSM9150248","GSM9150249","GSM9150246","GSM9150247","GSM9150251","GSM9150252","GSM9150250","GSM9150255","GSM9150256","GSM9150253","GSM9150254","GSM9150238","GSM9150239","GSM9150240","GSM9150241","GSM9150244","GSM9150245","GSM9150242","GSM9150243","GSM9150309","GSM9150303","GSM9150304","GSM9150301","GSM9150268","GSM9150269","GSM9150302","GSM9150307","GSM9150308","GSM9150305","GSM9150306","GSM9150273","GSM9150274","GSM9150271","GSM9150272","GSM9150277","GSM9150310","GSM9150278","GSM9150311","GSM9150275","GSM9150276","GSM9150270","GSM9150259","GSM9150257","GSM9150258","GSM9150262","GSM9150263","GSM9150260","GSM9150261","GSM9150266","GSM9150300","GSM9150267","GSM9150264","GSM9150265"],"GPL":["24247"],"GSE":["304421"],"taxon":["Mus musculus"]}}