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Geographic reconstruction of cluster spread identified Harris County as the primary viral source for surrounding areas. The outbreak in the source population was characterized by 1) a smaller proportion of new cases associated with external viral imports and 2) longer persistence times of circulating lineages. Overall, our high-resolution spatiotemporal reconstruction of the epidemic provides essential insights into the local-scale transmission landscape, supporting outbreak-specific, regional response strategies and public health planning.<\/jats:p>","DOI":"10.1073\/pnas.2501435122","type":"journal-article","created":{"date-parts":[[2025,8,7]],"date-time":"2025-08-07T15:35:16Z","timestamp":1754580916000},"update-policy":"https:\/\/doi.org\/10.1073\/pnas.cm10313","source":"Crossref","is-referenced-by-count":2,"title":["Tracing SARS-CoV-2 clusters across local scales using genomic data"],"prefix":"10.1073","volume":"122","author":[{"ORCID":"https:\/\/orcid.org\/0009-0004-5657-8271","authenticated-orcid":false,"given":"Leke","family":"Lyu","sequence":"first","affiliation":[{"name":"Institute of Bioinformatics, University of Georgia","place":["Athens"]},{"name":"Center for the Ecology of Infectious Diseases, University of Georgia","place":["Athens"]},{"name":"Department of Infectious Diseases, 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