{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,7,13]],"date-time":"2026-07-13T05:04:56Z","timestamp":1783919096155,"version":"3.55.0"},"reference-count":40,"publisher":"Frontiers Media SA","license":[{"start":{"date-parts":[[2026,7,13]],"date-time":"2026-07-13T00:00:00Z","timestamp":1783900800000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"content-domain":{"domain":["frontiersin.org"],"crossmark-restriction":true},"short-container-title":["Front. Plant Sci."],"abstract":"<jats:sec>\n                    <jats:title>Introduction<\/jats:title>\n                    <jats:p>Widespread dicamba use poses challenges of resistance and phytotoxicity. To investigate the temporal molecular response mechanisms of tobacco, this study performed a time-resolved transcriptomic analysis of tobacco seedlings exposed to dicamba.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Methods<\/jats:title>\n                    <jats:p>Samples were collected at 6, 24, and 72 h after treatment.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Results<\/jats:title>\n                    <jats:p>\n                      Results indicated that tobacco exhibits a putative three-phase transcriptional adaptation pattern of \u201cperception-defense-repair\u201d. In the early stage (6h),\n                      <jats:italic>NtIAA<\/jats:italic>\n                      genes were rapidly induced alongside activation of the glutathione system, potentially alleviating oxidative stress; at the mid-stage (24h), enhanced carotenoid synthesis and thylakoid reconstruction appeared to protect photosynthetic structures; at the late stage (72h), the transcriptional response shifted toward systemic repair through secondary metabolism, including phenylpropanoid biosynthesis. Predictive regulatory network analysis suggested that the ERF transcription factor\n                      <jats:italic>Nitab4.5_0000015g0020<\/jats:italic>\n                      may act as a candidate hub, potentially linking auxin signaling and ribosomal protein genes.\n                    <\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Discussion<\/jats:title>\n                    <jats:p>\n                      Taken together, this study provides transcriptomic evidence that the\n                      <jats:italic>NtIAA<\/jats:italic>\n                      family may serve as candidate genes in response to dicamba, offering potential genetic candidates for breeding herbicide-resistant crops.\n                    <\/jats:p>\n                  <\/jats:sec>","DOI":"10.3389\/fpls.2026.1850240","type":"journal-article","created":{"date-parts":[[2026,7,13]],"date-time":"2026-07-13T04:23:54Z","timestamp":1783916634000},"update-policy":"https:\/\/doi.org\/10.3389\/crossmark-policy","source":"Crossref","is-referenced-by-count":0,"title":["Time-resolved transcriptomic analysis suggests candidate hub gene modules and putative regulatory pathways in tobacco under dicamba stress"],"prefix":"10.3389","volume":"17","author":[{"given":"Zhaopeng","family":"Luo","sequence":"first","affiliation":[{"name":"China Tobacco Gene Research Center (CTGRC), Zhengzhou Tobacco Research Institute of China National Tobacco Corporation (CNTC)","place":["Zhengzhou, China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Lifeng","family":"Jin","sequence":"additional","affiliation":[{"name":"China Tobacco Gene Research Center (CTGRC), Zhengzhou Tobacco Research Institute of China National Tobacco Corporation (CNTC)","place":["Zhengzhou, China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Peilin","family":"Li","sequence":"additional","affiliation":[{"name":"International Joint Research Laboratory for Utilization of Plant Functional Components, College of Tobacco Science and Engineering, Zhengzhou University of Light Industry","place":["Zhengzhou, China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Zefeng","family":"Li","sequence":"additional","affiliation":[{"name":"China Tobacco Gene Research Center (CTGRC), Zhengzhou Tobacco Research Institute of China National Tobacco Corporation (CNTC)","place":["Zhengzhou, China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Chaonan","family":"Shi","sequence":"additional","affiliation":[{"name":"International Joint Research Laboratory for Utilization of Plant Functional Components, College of Tobacco Science and Engineering, Zhengzhou University of Light Industry","place":["Zhengzhou, China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Mingzhu","family":"Wu","sequence":"additional","affiliation":[{"name":"China Tobacco Gene Research Center (CTGRC), Zhengzhou Tobacco Research Institute of China National Tobacco Corporation (CNTC)","place":["Zhengzhou, China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Xin","family":"Xu","sequence":"additional","affiliation":[{"name":"China Tobacco Gene Research Center (CTGRC), Zhengzhou Tobacco Research Institute of China National Tobacco Corporation (CNTC)","place":["Zhengzhou, China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Xiaozong","family":"Wu","sequence":"additional","affiliation":[{"name":"International Joint Research Laboratory for Utilization of Plant Functional Components, College of Tobacco Science and Engineering, Zhengzhou University of Light Industry","place":["Zhengzhou, China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Zhong","family":"Wang","sequence":"additional","affiliation":[{"name":"China Tobacco Gene Research Center (CTGRC), Zhengzhou Tobacco Research Institute of China National Tobacco Corporation (CNTC)","place":["Zhengzhou, China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Meng","family":"Li","sequence":"additional","affiliation":[{"name":"International Joint Research Laboratory for Utilization of Plant Functional Components, College of Tobacco Science and Engineering, Zhengzhou University of Light Industry","place":["Zhengzhou, China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jun","family":"Yang","sequence":"additional","affiliation":[{"name":"China Tobacco Gene Research Center (CTGRC), Zhengzhou Tobacco Research Institute of China National Tobacco Corporation (CNTC)","place":["Zhengzhou, China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Chan","family":"Qiao","sequence":"additional","affiliation":[{"name":"Institute of Tobacco Science, Heilongjiang Provincial Tobacco Company of China National Tobacco Corporation (CNTC)","place":["Harbin, China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Feng","family":"Li","sequence":"additional","affiliation":[{"name":"China Tobacco Gene Research Center (CTGRC), Zhengzhou Tobacco Research Institute of China National Tobacco Corporation (CNTC)","place":["Zhengzhou, China"]}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"1965","published-online":{"date-parts":[[2026,7,13]]},"reference":[{"key":"B1","doi-asserted-by":"publisher","first-page":"1185","DOI":"10.1126\/science.1141596","article-title":"Dicamba resistance: enlarging and preserving biotechnology-based weed management strategies","volume":"316","author":"Behrens","year":"2007","journal-title":"Science"},{"key":"B2","doi-asserted-by":"publisher","first-page":"1523","DOI":"10.1094\/MPMI-06-12-0148-TA","article-title":"A draft genome sequence of Nicotiana benthamiana to enhance molecular plant-microbe biology research","volume":"25","author":"Bombarely","year":"2012","journal-title":"MPMI"},{"key":"B3","doi-asserted-by":"publisher","first-page":"240","DOI":"10.1038\/s41586-019-1069-7","article-title":"TMK1-mediated auxin signalling regulates differential growth of the apical hook","volume":"568","author":"Cao","year":"2019","journal-title":"Nature"},{"key":"B4","doi-asserted-by":"publisher","first-page":"1011","DOI":"10.1038\/s41586-025-08669-w","article-title":"TIR1-produced cAMP as a second messenger in transcriptional auxin signalling","volume":"640","author":"Chen","year":"2025","journal-title":"Nature"},{"key":"B5","doi-asserted-by":"publisher","first-page":"i884","DOI":"10.1093\/bioinformatics\/bty560","article-title":"fastp: an ultra-fast all-in-one FASTQ preprocessor","volume":"34","author":"Chen","year":"2018","journal-title":"Bioinformatics"},{"key":"B6","doi-asserted-by":"publisher","first-page":"81","DOI":"10.1038\/s41596-022-00749-9","article-title":"Direct delivery and fast-treated Agrobacterium co-culture (Fast-TrACC) plant transformation methods for Nicotiana benthamiana","volume":"18","author":"Cody","year":"2023","journal-title":"Nat. Protoc."},{"key":"B7","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.2407285121","article-title":"An artificially evolved gene for herbicide-resistant rice breeding","volume":"121","author":"Dong","year":"2024","journal-title":"Proc. Natl. Acad. Sci. U.S.A."},{"key":"B8","doi-asserted-by":"publisher","first-page":"448","DOI":"10.1186\/s12864-017-3791-6","article-title":"A reference genome for Nicotiana tabacum enables map-based cloning of homeologous loci implicated in nitrogen utilization efficiency","volume":"18","author":"Edwards","year":"2017","journal-title":"BMC Genomics"},{"key":"B9","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.2105819119","article-title":"An in-frame deletion mutation in the degron tail of auxin coreceptor IAA2 confers resistance to the herbicide 2,4-D in Sisymbrium orientale","volume":"119","author":"Figueiredo","year":"2022","journal-title":"Proc. Natl. Acad. Sci. U.S.A."},{"key":"B10","doi-asserted-by":"publisher","first-page":"1763","DOI":"10.1111\/nph.70303","article-title":"UV RESISTANCE LOCUS 8 signalling enhances photosynthetic resilience to herbicide-induced damage in Arabidopsis thaliana","volume":"247","author":"Groves","year":"2025","journal-title":"New Phytol."},{"key":"B11","doi-asserted-by":"publisher","first-page":"2676","DOI":"10.1111\/nph.17061","article-title":"Functional analysis of auxin receptor OsTIR1\/OsAFB family members in rice grain yield, tillering, plant height, root system, germination, and auxinic herbicide resistance","volume":"229","author":"Guo","year":"2021","journal-title":"New Phytol."},{"key":"B12","doi-asserted-by":"publisher","first-page":"726","DOI":"10.1016\/j.jmb.2015.11.006","article-title":"BlastKOALA and GhostKOALA: KEGG tools for functional characterization of genome and metagenome sequences","volume":"428","author":"Kanehisa","year":"2016","journal-title":"J. Mol. Biol."},{"key":"B13","doi-asserted-by":"publisher","first-page":"2385","DOI":"10.1111\/tpj.16925","article-title":"The transcription factor ERF110 promotes cold tolerance by directly regulating sugar and sterol biosynthesis in citrus","volume":"119","author":"Khan","year":"2024","journal-title":"Plant J."},{"key":"B14","doi-asserted-by":"publisher","first-page":"907","DOI":"10.1038\/s41587-019-0201-4","article-title":"Graph-based genome alignment and genotyping with HISAT2 and HISAT-genotype","volume":"37","author":"Kim","year":"2019","journal-title":"Nat. Biotechnol."},{"key":"B15","doi-asserted-by":"publisher","DOI":"10.1111\/ppl.70221","article-title":"Unresolved roles of Aux\/IAA proteins in auxin responses","volume":"177","author":"Kubalov\u00e1","year":"2025","journal-title":"Physiol. Plant"},{"key":"B16","doi-asserted-by":"publisher","first-page":"325","DOI":"10.1093\/nar\/30.1.325","article-title":"PlantCARE, a database of plant cis-acting regulatory elements and a portal to tools for in silico analysis of promoter sequences","volume":"30","author":"Lescot","year":"2002","journal-title":"Nucleic Acids Res."},{"key":"B17","doi-asserted-by":"publisher","first-page":"W293","DOI":"10.1093\/nar\/gkab301","article-title":"Interactive Tree Of Life (iTOL) v5: an online tool for phylogenetic tree display and annotation","volume":"49","author":"Letunic","year":"2021","journal-title":"Nucleic Acids Res."},{"key":"B18","doi-asserted-by":"publisher","first-page":"1303","DOI":"10.1111\/jipb.13274","article-title":"Rapid responses: Receptor-like kinases directly regulate the functions of membrane transport proteins in plants","volume":"64","author":"Li","year":"2022","journal-title":"J. Integr. Plant Biol."},{"key":"B19","doi-asserted-by":"publisher","first-page":"2262","DOI":"10.1111\/jipb.13962","article-title":"OsDNR1 as a key regulator of rice resistance to 4-hydroxyphenylpyruvate dioxygenase-inhibiting herbicides","volume":"67","author":"Li","year":"2025","journal-title":"J. Integr. Plant Biol."},{"key":"B20","doi-asserted-by":"publisher","DOI":"10.3390\/ijms26178292","article-title":"Molecular mechanisms of herbicide resistance in rapeseed: current status and future prospects for resistant germplasm development","volume":"26","author":"Liu","year":"2025","journal-title":"Int. J. Mol. Sci."},{"key":"B21","doi-asserted-by":"publisher","DOI":"10.1186\/s13059-014-0550-8","article-title":"Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2","volume":"15","author":"Love","year":"2014","journal-title":"Genome Biol."},{"key":"B22","doi-asserted-by":"publisher","first-page":"2115","DOI":"10.1016\/j.molp.2021.09.002","article-title":"Changing Gly311 to an acidic amino acid in the MATE family protein DTX6 enhances Arabidopsis resistance to the dihydropyridine herbicides","volume":"14","author":"Lv","year":"2021","journal-title":"Mol. Plant"},{"key":"B23","doi-asserted-by":"publisher","DOI":"10.1186\/s12284-025-00845-w","article-title":"Generating broad-spectrum resistance to ALS-inhibiting herbicides in rice by CRISPR\/Cas9-mediated NHEJ","volume":"18","author":"Ouyang","year":"2025","journal-title":"Rice (N Y)."},{"key":"B24","doi-asserted-by":"publisher","DOI":"10.1016\/j.jhazmat.2022.128225","article-title":"CYP81A68 confers metabolic resistance to ALS and ACCase-inhibiting herbicides and its epigenetic regulation in Echinochloa crus-galli","volume":"428","author":"Pan","year":"2022","journal-title":"J. Hazard. Mater."},{"key":"B25","doi-asserted-by":"publisher","first-page":"290","DOI":"10.1038\/nbt.3122","article-title":"StringTie enables improved reconstruction of a transcriptome from RNA-seq reads","volume":"33","author":"Pertea","year":"2015","journal-title":"Nat. Biotechnol."},{"key":"B26","doi-asserted-by":"publisher","DOI":"10.1093\/genetics\/iyae027","article-title":"The arabidopsis information resource in 2024","volume":"227","author":"Reiser","year":"2024","journal-title":"Genetics"},{"key":"B27","doi-asserted-by":"publisher","first-page":"2498","DOI":"10.1101\/gr.1239303","article-title":"Cytoscape: a software environment for integrated models of biomolecular interaction networks","volume":"13","author":"Shannon","year":"2003","journal-title":"Genome Res."},{"key":"B28","doi-asserted-by":"publisher","first-page":"135","DOI":"10.1038\/s41597-024-02965-2","article-title":"Chromosome-level genome assemblies of Nicotiana tabacum, Nicotiana sylvestris, and Nicotiana tomentosiformis","volume":"11","author":"Sierro","year":"2024","journal-title":"Sci. Data"},{"key":"B29","doi-asserted-by":"publisher","first-page":"3022","DOI":"10.1093\/molbev\/msab120","article-title":"MEGA11: molecular evolutionary genetics analysis version 11","volume":"38","author":"Tamura","year":"2021","journal-title":"Mol. Biol. Evol."},{"key":"B30","doi-asserted-by":"publisher","DOI":"10.1002\/advs.202503083","article-title":"Development and breeding of herbicide-resistant sorghum for effective cereal-legume intercropping","volume":"12","author":"Tang","year":"2025","journal-title":"Adv. Sci. (Weinh)."},{"key":"B31","doi-asserted-by":"publisher","first-page":"193","DOI":"10.1093\/dnares\/8.5.193","article-title":"OsIAA1, an Aux\/IAA cDNA from rice, and changes in its expression as influenced by auxin and light","volume":"8","author":"Thakur","year":"2001","journal-title":"DNA Res."},{"key":"B32","doi-asserted-by":"publisher","first-page":"D1104","DOI":"10.1093\/nar\/gkz1020","article-title":"PlantRegMap: charting functional regulatory maps in plants","volume":"48","author":"Tian","year":"2020","journal-title":"Nucleic Acids Res."},{"key":"B33","doi-asserted-by":"publisher","first-page":"W84","DOI":"10.1093\/nar\/gky350","article-title":"PANNZER2: a rapid functional annotation web server","volume":"46","author":"T\u00f6r\u00f6nen","year":"2018","journal-title":"Nucleic Acids Res."},{"key":"B34","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gks596","article-title":"Primer3\u2014new capabilities and interfaces","volume":"40","author":"Untergasser","year":"2012","journal-title":"Nucleic Acids Res."},{"key":"B35","doi-asserted-by":"publisher","first-page":"D384","DOI":"10.1093\/nar\/gkac1096","article-title":"The conserved domain database in 2023","volume":"51","author":"Wang","year":"2023","journal-title":"Nucleic Acids Res."},{"key":"B36","doi-asserted-by":"publisher","first-page":"282","DOI":"10.1007\/s00122-025-05068-7","article-title":"Creation of new rice germplasm with cross-resistance to auxin herbicides picloram and dicamba by genome editing of OsAFB4","volume":"138","author":"Wei","year":"2025","journal-title":"Theor. Appl. Genet."},{"key":"B37","doi-asserted-by":"publisher","first-page":"6133","DOI":"10.1073\/pnas.1700073114","article-title":"Wild tobacco genomes reveal the evolution of nicotine biosynthesis","volume":"114","author":"Xu","year":"2017","journal-title":"Proc. Natl. Acad. Sci. U.S.A."},{"key":"B38","doi-asserted-by":"publisher","first-page":"5621","DOI":"10.1128\/AEM.01201-16","article-title":"A tetrahydrofolate-dependent methyltransferase catalyzing the demethylation of dicamba in Sphingomonas sp. strain Ndbn-20","volume":"82","author":"Yao","year":"2016","journal-title":"Appl. Environ. Microbiol."},{"key":"B39","doi-asserted-by":"publisher","first-page":"229","DOI":"10.1093\/nar\/gkg059","article-title":"The TIGR rice genome annotation resource: annotating the rice genome and creating resources for plant biologists","volume":"31","author":"Yuan","year":"2003","journal-title":"Nucleic Acids Res."},{"key":"B40","doi-asserted-by":"publisher","first-page":"16","DOI":"10.1007\/s44154-024-00184-8","article-title":"Genetic characterization of the AHAS mutant line K4 with resistance to AHAS-inhibitor herbicides in rapeseed (Brassica napus L.)","volume":"5","author":"Zhang","year":"2025","journal-title":"Stress Biol."}],"container-title":["Frontiers in Plant Science"],"original-title":[],"link":[{"URL":"https:\/\/www.frontiersin.org\/articles\/10.3389\/fpls.2026.1850240\/full","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,7,13]],"date-time":"2026-07-13T04:23:55Z","timestamp":1783916635000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.frontiersin.org\/articles\/10.3389\/fpls.2026.1850240\/full"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2026,7,13]]},"references-count":40,"alternative-id":["10.3389\/fpls.2026.1850240"],"URL":"https:\/\/doi.org\/10.3389\/fpls.2026.1850240","relation":{},"ISSN":["1664-462X"],"issn-type":[{"value":"1664-462X","type":"electronic"}],"subject":[],"published":{"date-parts":[[2026,7,13]]},"article-number":"1850240"}}