ENAapplication/xmlftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/058/SRR28927658/SRR28927658_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/016/SRR28927616/SRR28927616_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/020/SRR28927620/SRR28927620_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/098/SRR28927598/SRR28927598_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/017/SRR28927617/SRR28927617_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/044/SRR28927644/SRR28927644_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/027/SRR28927627/SRR28927627_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/010/SRR28927610/SRR28927610_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/003/SRR28927603/SRR28927603_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/004/SRR28927604/SRR28927604_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/057/SRR28927657/SRR28927657_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/019/SRR28927619/SRR28927619_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/028/SRR28927628/SRR28927628_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/034/SRR28927634/SRR28927634_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/033/SRR28927633/SRR28927633_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/022/SRR28927622/SRR28927622_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/056/SRR28927656/SRR28927656_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/018/SRR28927618/SRR28927618_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/046/SRR28927646/SRR28927646_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/023/SRR28927623/SRR28927623_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/032/SRR28927632/SRR28927632_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/001/SRR28927601/SRR28927601_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/008/SRR28927608/SRR28927608_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/025/SRR28927625/SRR28927625_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/031/SRR28927631/SRR28927631_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/053/SRR28927653/SRR28927653_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/047/SRR28927647/SRR28927647_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/049/SRR28927649/SRR28927649_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/055/SRR28927655/SRR28927655_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/061/SRR28927661/SRR28927661_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/024/SRR28927624/SRR28927624_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/052/SRR28927652/SRR28927652_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/000/SRR28927600/SRR28927600_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/040/SRR28927640/SRR28927640_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/012/SRR28927612/SRR28927612_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/030/SRR28927630/SRR28927630_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/042/SRR28927642/SRR28927642_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/054/SRR28927654/SRR28927654_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/009/SRR28927609/SRR28927609_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/007/SRR28927607/SRR28927607_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/048/SRR28927648/SRR28927648_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/054/SRR28927654/SRR28927654_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/051/SRR28927651/SRR28927651_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/036/SRR28927636/SRR28927636_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/042/SRR28927642/SRR28927642_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/048/SRR28927648/SRR28927648_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/036/SRR28927636/SRR28927636_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/051/SRR28927651/SRR28927651_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/060/SRR28927660/SRR28927660_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/057/SRR28927657/SRR28927657_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/045/SRR28927645/SRR28927645_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/039/SRR28927639/SRR28927639_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/027/SRR28927627/SRR28927627_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/033/SRR28927633/SRR28927633_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/099/SRR28927599/SRR28927599_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/024/SRR28927624/SRR28927624_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/009/SRR28927609/SRR28927609_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/021/SRR28927621/SRR28927621_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/015/SRR28927615/SRR28927615_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/012/SRR28927612/SRR28927612_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/018/SRR28927618/SRR28927618_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/003/SRR28927603/SRR28927603_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/006/SRR28927606/SRR28927606_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/000/SRR28927600/SRR28927600_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/004/SRR28927604/SRR28927604_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/050/SRR28927650/SRR28927650_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/032/SRR28927632/SRR28927632_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/060/SRR28927660/SRR28927660_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/056/SRR28927656/SRR28927656_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/005/SRR28927605/SRR28927605_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/029/SRR28927629/SRR28927629_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/028/SRR28927628/SRR28927628_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/015/SRR28927615/SRR28927615_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/021/SRR28927621/SRR28927621_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/061/SRR28927661/SRR28927661_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/016/SRR28927616/SRR28927616_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/022/SRR28927622/SRR28927622_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/045/SRR28927645/SRR28927645_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/098/SRR28927598/SRR28927598_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/046/SRR28927646/SRR28927646_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/099/SRR28927599/SRR28927599_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/039/SRR28927639/SRR28927639_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/030/SRR28927630/SRR28927630_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/034/SRR28927634/SRR28927634_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/044/SRR28927644/SRR28927644_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/006/SRR28927606/SRR28927606_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/007/SRR28927607/SRR28927607_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/035/SRR28927635/SRR28927635_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/010/SRR28927610/SRR28927610_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/011/SRR28927611/SRR28927611_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/020/SRR28927620/SRR28927620_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/019/SRR28927619/SRR28927619_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/013/SRR28927613/SRR28927613_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/059/SRR28927659/SRR28927659_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/043/SRR28927643/SRR28927643_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/037/SRR28927637/SRR28927637_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/041/SRR28927641/SRR28927641_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/058/SRR28927658/SRR28927658_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/008/SRR28927608/SRR28927608_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/038/SRR28927638/SRR28927638_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/001/SRR28927601/SRR28927601_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/013/SRR28927613/SRR28927613_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/014/SRR28927614/SRR28927614_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/026/SRR28927626/SRR28927626_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/053/SRR28927653/SRR28927653_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/049/SRR28927649/SRR28927649_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/055/SRR28927655/SRR28927655_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/002/SRR28927602/SRR28927602_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/031/SRR28927631/SRR28927631_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/025/SRR28927625/SRR28927625_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/043/SRR28927643/SRR28927643_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/037/SRR28927637/SRR28927637_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/040/SRR28927640/SRR28927640_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/052/SRR28927652/SRR28927652_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/014/SRR28927614/SRR28927614_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/038/SRR28927638/SRR28927638_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/026/SRR28927626/SRR28927626_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/047/SRR28927647/SRR28927647_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/050/SRR28927650/SRR28927650_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/059/SRR28927659/SRR28927659_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/023/SRR28927623/SRR28927623_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/017/SRR28927617/SRR28927617_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/011/SRR28927611/SRR28927611_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/041/SRR28927641/SRR28927641_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/029/SRR28927629/SRR28927629_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/035/SRR28927635/SRR28927635_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/002/SRR28927602/SRR28927602_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR289/005/SRR28927605/SRR28927605_1.fastq.gzprimaryOK200GenomicsLab of Oral & Craniofacial Innovation, Innovation & Technology Research, ADA Science & Research Institutehttps://www.ebi.ac.uk/ena/browser/view/PRJNA1108695Homo sapiensxref:PubMed:38876998Periodontitis affects billions of people worldwide. To address relationships of periodontal niche cell types and microbes in periodontitis, we generated an integrated single-cell RNA sequencing (scRNAseq) atlas of human periodontium (34-sample, 105918-cell), including sulcular and junctional keratinocytes (SK/JKs). SK/JKs displayed altered differentiation states and were enriched for effector cytokines in periodontitis. Single-cell, metagenomics revealed 37 bacterial species with cell-specific tropism. Fluorescence in situ hybridization detected intracellular 16S and mRNA signals of multiple species and correlated with SK/JK proinflammatory phenotypes in situ. Cell-cell communication analysis predicted keratinocyte-specific innate and adaptive immune interactions. Highly multiplexed immunofluorescence (33-antibody) revealed peri-epithelial immune foci, with innate cells often spatially constrained around JKs. Spatial phenotyping revealed immunosuppressed JK-microniches and SK-localized tertiary lymphoid structures in periodontitis. Here, we demonstrate impacts on and predicted interactomics of SK and JK cells in health and periodontitis, which requires further investigation to support precision periodontal interventions in states of chronic inflammation. Overall design: Cells from human gingiva with induced gingivitis were dissociated, isolated using fluorescence-activated cell sorting (FACS), processed and sequenced using scRNAseq.ENAfalseSingle-Cell and Spatially Resolved Interactomics of Tooth-Associated Keratinocytes in PeriodontitisSingle-Cell and Spatially Resolved Interactomics of Tooth-Associated Keratinocytes in Periodontitis2025-09-242024-06-09PRJNA1108695GSE266897960638876998