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Alteration of metabolism and hormone homeostasis leads to the formation of tumor\u2010like galls in the roots of affected plants. Host plant energy metabolism, defense, and developmental processes are under strong temporal control and the very same processes are affected by clubroot. For the first time, this study uses time\u2010resolved transcriptome analyses to explore how\n                    <jats:styled-content style=\"fixed-case\">\n                      <jats:italic>P. brassicae<\/jats:italic>\n                    <\/jats:styled-content>\n                    affects\n                    <jats:styled-content style=\"fixed-case\">\n                      <jats:italic>Arabidopsis thaliana<\/jats:italic>\n                    <\/jats:styled-content>\n                    in the night during intermediate (14\u2009days after inoculation; DAI) and late (21 DAI) infection. Day\u2013night differences in gene expression were more pronounced in younger rather than older plants in our differential gene expression (DGE) analysis. Consequently, intermediate phases of infection showed more day\u2013night differences than later ones. Clustering of differentially expressed genes (DEGs) in functional categories highlighted how some of the typical processes known to be disrupted by clubroot infection are more significantly affected in the night and also uncovered some disrupted exclusively in the night. RNA modification stood out as the most unambiguously upregulated process in infected\n                    <jats:italic>Arabidopsis<\/jats:italic>\n                    roots in the night. Analysis of the interaction between clubroot infection and diel oscillations in gene expression detected modifications in the rhythmicity of central circadian clock components during the infection. We discuss our findings in the context of manipulation of plant defense and metabolism, identifying targets for experimental validation and highlighting potential new lines of investigation of our time\u2010resolved datasets to better understand the interaction between\n                    <jats:styled-content style=\"fixed-case\">\n                      <jats:italic>P. brassicae<\/jats:italic>\n                    <\/jats:styled-content>\n                    and its host.\n                  <\/jats:p>","DOI":"10.1002\/pld3.70176","type":"journal-article","created":{"date-parts":[[2026,6,9]],"date-time":"2026-06-09T05:05:28Z","timestamp":1780981528000},"update-policy":"https:\/\/doi.org\/10.1002\/crossmark_policy","source":"Crossref","is-referenced-by-count":0,"title":["Under the Cover of Darkness: A Transcriptomic Exploration of Clubroot During the Night"],"prefix":"10.1002","volume":"10","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-9525-5975","authenticated-orcid":false,"given":"Andrea","family":"Garvetto","sequence":"first","affiliation":[{"name":"Department of Microbiology Universit\u00e4t Innsbruck  Innsbruck Tirol Austria"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Susann","family":"Auer","sequence":"additional","affiliation":[{"name":"Faculty of Biology Technische Universit\u00e4t Dresden  Dresden Germany"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Freia","family":"Benade","sequence":"additional","affiliation":[{"name":"Faculty of Biology Technische Universit\u00e4t Dresden  Dresden Germany"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Michaela","family":"Hittorf","sequence":"additional","affiliation":[{"name":"Department of Microbiology Universit\u00e4t Innsbruck  Innsbruck Tirol Austria"},{"name":"Department of Botany Universit\u00e4t Innsbruck  Innsbruck Tirol Austria"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-9403-5153","authenticated-orcid":false,"given":"Jutta","family":"Ludwig\u2010M\u00fcller","sequence":"additional","affiliation":[{"name":"Faculty of Biology Technische Universit\u00e4t Dresden  Dresden Germany"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Sigrid","family":"Neuhauser","sequence":"additional","affiliation":[{"name":"Department of Microbiology Universit\u00e4t Innsbruck  Innsbruck Tirol Austria"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"311","published-online":{"date-parts":[[2026,6,8]]},"reference":[{"key":"e_1_2_11_2_1","doi-asserted-by":"publisher","DOI":"10.1071\/FP11026"},{"key":"e_1_2_11_3_1","unstructured":"Andrews S.2010. \u201cFastQC: A Quality Control Tool for High Throughput Sequence Data.\u201dhttp:\/\/www.bioinformatics.babraham.ac.uk\/projects\/fastqc\/."},{"key":"e_1_2_11_4_1","doi-asserted-by":"publisher","DOI":"10.1146\/annurev\u2010arplant\u2010050213\u2010040159"},{"key":"e_1_2_11_5_1","doi-asserted-by":"publisher","DOI":"10.1111\/mpp.13123"},{"key":"e_1_2_11_6_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.celrep.2016.12.063"},{"key":"e_1_2_11_7_1","doi-asserted-by":"publisher","DOI":"10.3389\/fpls.2022.886700"},{"key":"e_1_2_11_8_1","unstructured":"Chen H.2022. \u201cVennDiagram: Generate High\u2010Resolution Venn and Euler Plots\u201d."},{"key":"e_1_2_11_9_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.postharvbio.2005.12.017"},{"key":"e_1_2_11_10_1","doi-asserted-by":"publisher","DOI":"10.1111\/mpp.13095"},{"key":"e_1_2_11_11_1","doi-asserted-by":"publisher","DOI":"10.1186\/s12870\u2010019\u20101902\u2010z"},{"key":"e_1_2_11_12_1","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.1015452108"},{"key":"e_1_2_11_13_1","doi-asserted-by":"publisher","DOI":"10.1093\/plphys\/kiac236"},{"key":"e_1_2_11_14_1","first-page":"29","article-title":"The Occurrence of Free and Bound Cytokinins in Plasmodia of \n                     Plasmodiophora brassicae\n                   Isolated From Tissue Cultures of Clubroots","volume":"213","author":"Dekhuijzen H. 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