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The mechanisms through which dividing and differentiating cells perceive, integrate, and respond to stress are not well understood. To explore this knowledge gap, we assessed Asian rice (\n                    <jats:italic>Oryza sativa<\/jats:italic>\n                    ) seedling responses to drought and salinity stress by performing single\u2010nucleus transcriptome analyses on developing leaves and by assaying ion distribution using ICP\u2010MS and CoroNa Green staining. With a dataset of &gt;\u2009125\u2009000 high\u2010quality nuclei, we identified transcriptome signatures of developmental trajectories for each of the major tissue systems, from their origin as dividing cells in the shoot apical meristem to mature cells in epidermal, mesophyll, and vascular tissues. We explored the extensive heterogeneity between cell types with respect to their responses to stress by developing an ensemble\u2010based Perturbation Index and a tool for visualizing pseudobulk expression data and characterizing regulatory modules for different stress responses. Transcriptionally, moderate stress perturbs cells early in development and induces regulatory networks that inhibit cell division, whereas mild stressors primarily disrupt gene expression in differentiated tissues. Overall, these results indicate that leaf development occurring in salt and drought stress conditions is the product of a complex interplay of developmental, environmental, and cell\u2010type contexts.\n                  <\/jats:p>","DOI":"10.1111\/nph.71378","type":"journal-article","created":{"date-parts":[[2026,7,3]],"date-time":"2026-07-03T02:57:33Z","timestamp":1783047453000},"page":"1376-1395","update-policy":"https:\/\/doi.org\/10.1002\/crossmark_policy","source":"Crossref","is-referenced-by-count":1,"title":["Drought and salinity stress remodel Asian rice (\n                    <i>Oryza sativa<\/i>\n                    ) leaf development through cell\u2010type\u2010specific regulatory programs"],"prefix":"10.1111","volume":"252","author":[{"ORCID":"https:\/\/orcid.org\/0000-0003-0233-4154","authenticated-orcid":false,"given":"Sean M.","family":"Robertson","sequence":"first","affiliation":[{"name":"Department of Biological Sciences University of Manitoba  Winnipeg MB R3T 2N2 Canada"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0009-0002-4241-6357","authenticated-orcid":false,"given":"Obaid","family":"Maqsood","sequence":"additional","affiliation":[{"name":"Department of Biological Sciences University of Manitoba  Winnipeg MB R3T 2N2 Canada"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-8553-7653","authenticated-orcid":false,"given":"Chi","family":"Dang","sequence":"additional","affiliation":[{"name":"Department of Biological Sciences University of Manitoba  Winnipeg MB R3T 2N2 Canada"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-9315-0520","authenticated-orcid":false,"given":"Asher","family":"Pasha","sequence":"additional","affiliation":[{"name":"Department of Cell &amp; Systems Biology\/Centre for the Analysis of Genome Evolution and Function University of Toronto  Toronto ON M5S 3G5 Canada"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-9531-4437","authenticated-orcid":false,"given":"Claudio","family":"Stasolla","sequence":"additional","affiliation":[{"name":"Department of Plant Science University of Manitoba  Winnipeg MB R3T 2N2 Canada"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-5551-7232","authenticated-orcid":false,"given":"Nicholas J.","family":"Provart","sequence":"additional","affiliation":[{"name":"Department of Cell &amp; Systems Biology\/Centre for the Analysis of Genome Evolution and Function University of Toronto  Toronto ON M5S 3G5 Canada"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-9762-7069","authenticated-orcid":false,"given":"Olivia","family":"Wilkins","sequence":"additional","affiliation":[{"name":"Department of Biological Sciences University of Manitoba  Winnipeg MB R3T 2N2 Canada"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"311","published-online":{"date-parts":[[2026,7,2]]},"reference":[{"key":"e_1_2_10_2_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.ydbio.2008.04.040"},{"key":"e_1_2_10_3_1","doi-asserted-by":"publisher","DOI":"10.7717\/peerj.4473"},{"key":"e_1_2_10_4_1","unstructured":"AlexaA RahnenfuhrerJ.2010.topGO: enrichment analysis for gene ontology. 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