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Adaptive immune responses unfold within complex tissue microenvironments that shape clonal selection, effector fate, and long-term immune resilience. I will discuss new spatial transcriptomic technologies we’ve developed which capture the state, receptor sequence, and location of lymphocytes directly in situ. These approaches reveal how T and B cell diversity is organized across germinal centers, inflamed tissues, and aging thymus. By integrating clonal and spatial information, we can map how immune interactions and tissue cues drive adaptation, regeneration, and decline, offering a framework for decoding adaptive immunity across health, aging, and disease.
