{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,29]],"date-time":"2026-10-29T12:35:12Z","timestamp":1793277312950,"version":"4.5.0"},"reference-count":73,"publisher":"Springer Science and Business Media LLC","issue":"1","license":[{"start":{"date-parts":[[2026,9,5]],"date-time":"2026-09-05T00:00:00Z","timestamp":1788566400000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.springernature.com\/gp\/researchers\/text-and-data-mining"},{"start":{"date-parts":[[2026,9,5]],"date-time":"2026-09-05T00:00:00Z","timestamp":1788566400000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/www.springernature.com\/gp\/researchers\/text-and-data-mining"}],"funder":[{"name":"Key Research and Development Project of Nantong City, China","award":["No. GZ2024003"],"award-info":[{"award-number":["No. GZ2024003"]}]}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["Funct Integr Genomics"],"published-print":{"date-parts":[[2026,12]]},"DOI":"10.1007\/s10142-026-02034-4","type":"journal-article","created":{"date-parts":[[2026,9,5]],"date-time":"2026-09-05T07:02:26Z","timestamp":1788591746000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":1,"title":["Dynamic and non-additive gene regulation shapes maize responses to simultaneous salt and cold stress"],"prefix":"10.1007","volume":"26","author":[{"given":"Jinlei","family":"Han","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yan","family":"Dai","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Chen","family":"Xu","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jialiang","family":"Zhou","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Chenjia","family":"Xu","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Kai","family":"Wang","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Qi","family":"Chen","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"297","published-online":{"date-parts":[[2026,9,5]]},"reference":[{"key":"2034_CR1","doi-asserted-by":"publisher","DOI":"10.1093\/molbev\/msad141","author":"F Almeida-Silva","year":"2023","unstructured":"Almeida-Silva F, Van de Peer Y (2023) Whole-genome duplications and the long-term evolution of gene regulatory networks in angiosperms. Mol Biol Evol. https:\/\/doi.org\/10.1093\/molbev\/msad141","journal-title":"Mol Biol Evol"},{"key":"2034_CR2","doi-asserted-by":"publisher","first-page":"3","DOI":"10.1093\/pcp\/pcz196","volume":"61","author":"V Ambroise","year":"2020","unstructured":"Ambroise V, Legay S, Guerriero G, Hausman JF, Cuypers A, Sergeant K (2020) The roots of plant frost hardiness and tolerance. Plant Cell Physiol 61:3\u201320. https:\/\/doi.org\/10.1093\/pcp\/pcz196","journal-title":"Plant Cell Physiol"},{"key":"2034_CR3","doi-asserted-by":"publisher","first-page":"957","DOI":"10.1093\/jxb\/eru453","volume":"66","author":"MA Asensi-Fabado","year":"2015","unstructured":"Asensi-Fabado MA, Ammon A, Sonnewald U, Munn\u00e9-Bosch S, Voll LM (2015) Tocopherol deficiency reduces sucrose export from salt-stressed potato leaves independently of oxidative stress and symplastic obstruction by callose. J Exp Bot 66:957\u2013971. https:\/\/doi.org\/10.1093\/jxb\/eru453","journal-title":"J Exp Bot"},{"key":"2034_CR4","doi-asserted-by":"publisher","DOI":"10.1038\/s41598-024-54623-7","volume":"14","author":"M Azad","year":"2024","unstructured":"Azad M, Tohidfar M, Ghanbari Moheb Seraj R, Mehralian M, Esmaeilzadeh-Salestani K (2024) Identification of responsive genes to multiple abiotic stresses in rice (Oryza sativa): a meta-analysis of transcriptomics data. Sci Rep 14:5463. https:\/\/doi.org\/10.1038\/s41598-024-54623-7","journal-title":"Sci Rep"},{"key":"2034_CR5","doi-asserted-by":"publisher","first-page":"2834","DOI":"10.1093\/bioinformatics\/btab203","volume":"37","author":"TL Bailey","year":"2021","unstructured":"Bailey TL (2021) STREME: accurate and versatile sequence motif discovery. Bioinformatics 37:2834\u20132840. https:\/\/doi.org\/10.1093\/bioinformatics\/btab203","journal-title":"Bioinformatics"},{"key":"2034_CR6","doi-asserted-by":"publisher","unstructured":"Barah P, B NM, Jayavelu ND, Sowdhamini R, Shameer K, Bones AM (2016) Transcriptional regulatory networks in Arabidopsis thaliana during single and combined stresses. Nucleic Acids Res 44:3147\u20133164. https:\/\/doi.org\/10.1093\/nar\/gkv1463","DOI":"10.1093\/nar\/gkv1463"},{"key":"2034_CR7","doi-asserted-by":"publisher","first-page":"14746","DOI":"10.1073\/pnas.1207726109","volume":"109","author":"JA Birchler","year":"2012","unstructured":"Birchler JA, Veitia RA (2012) Gene balance hypothesis: connecting issues of dosage sensitivity across biological disciplines. Proc Natl Acad Sci U S A 109:14746\u201314753. https:\/\/doi.org\/10.1073\/pnas.1207726109","journal-title":"Proc Natl Acad Sci U S A"},{"key":"2034_CR8","doi-asserted-by":"publisher","DOI":"10.1016\/j.stress.2024.100729","volume":"15","author":"M Bulut","year":"2025","unstructured":"Bulut M, Karakas E, Fernie AR (2025) Metabolic responses to multi-stress: an update. Plant Stress 15:100729. https:\/\/doi.org\/10.1016\/j.stress.2024.100729","journal-title":"Plant Stress"},{"key":"2034_CR9","doi-asserted-by":"publisher","first-page":"1147857","DOI":"10.3389\/fpls.2023.1147857","volume":"14","author":"A Butr\u00f3n","year":"2023","unstructured":"Butr\u00f3n A, Santiago R, Gowda M (2023) Editorial: Model organisms in plant science: Maize. Front Plant Sci 14:1147857. https:\/\/doi.org\/10.3389\/fpls.2023.1147857","journal-title":"Front Plant Sci"},{"key":"2034_CR10","doi-asserted-by":"publisher","DOI":"10.1016\/j.envexpbot.2021.104599","volume":"191","author":"S Chen","year":"2021","unstructured":"Chen S, Xu Z, Adil MF, Zhang G (2021) Cultivar-, stress duration- and leaf age-specific hub genes and co-expression networks responding to waterlogging in barley. Environ Exp Bot 191:104599. https:\/\/doi.org\/10.1016\/j.envexpbot.2021.104599","journal-title":"Environ Exp Bot"},{"key":"2034_CR11","doi-asserted-by":"publisher","first-page":"249","DOI":"10.1111\/tpj.13167","volume":"86","author":"S Coolen","year":"2016","unstructured":"Coolen S, Proietti S, Hickman R, Davila Olivas NH, Huang PP, Van Verk MC et al (2016) Transcriptome dynamics of Arabidopsis during sequential biotic and abiotic stresses. Plant J 86:249\u2013267. https:\/\/doi.org\/10.1111\/tpj.13167","journal-title":"Plant J"},{"key":"2034_CR12","doi-asserted-by":"publisher","DOI":"10.1126\/sciadv.abn7901","volume":"8","author":"Y Ding","year":"2022","unstructured":"Ding Y, Yang H, Wu S, Fu D, Li M, Gong Z et al (2022) CPK28-NLP7 module integrates cold-induced Ca2+ signal and transcriptional reprogramming in Arabidopsis. Sci Adv 8:eabn7901. https:\/\/doi.org\/10.1126\/sciadv.abn7901","journal-title":"Sci Adv"},{"key":"2034_CR13","doi-asserted-by":"publisher","DOI":"10.1016\/j.scitotenv.2023.163226","volume":"880","author":"Y Du","year":"2023","unstructured":"Du Y, Liu X, Zhang L, Zhou W (2023) Drip irrigation in agricultural saline-alkali land controls soil salinity and improves crop yield: evidence from a global meta-analysis. Sci Total Environ 880:163226. https:\/\/doi.org\/10.1016\/j.scitotenv.2023.163226","journal-title":"Sci Total Environ"},{"key":"2034_CR14","doi-asserted-by":"publisher","DOI":"10.1186\/s13059-019-1832-y","volume":"20","author":"DM Emms","year":"2019","unstructured":"Emms DM, Kelly S (2019) OrthoFinder: phylogenetic orthology inference for comparative genomics. Genome Biol 20:238. https:\/\/doi.org\/10.1186\/s13059-019-1832-y","journal-title":"Genome Biol"},{"key":"2034_CR15","doi-asserted-by":"publisher","DOI":"10.3390\/ijms25094777","author":"M Gieniec","year":"2024","unstructured":"Gieniec M, Miszalski Z, Rozp\u0105dek P, J\u0119drzejczyk RJ, Czernicka M, Nosek M (2024) How the ethylene biosynthesis pathway of semi-halophytes is modified with prolonged salinity stress occurrence? Int J Mol Sci. https:\/\/doi.org\/10.3390\/ijms25094777","journal-title":"Int J Mol Sci"},{"key":"2034_CR16","doi-asserted-by":"publisher","first-page":"1017","DOI":"10.1093\/bioinformatics\/btr064","volume":"27","author":"CE Grant","year":"2011","unstructured":"Grant CE, Bailey TL, Noble WS (2011) FIMO: scanning for occurrences of a given motif. Bioinformatics 27:1017\u20131018. https:\/\/doi.org\/10.1093\/bioinformatics\/btr064","journal-title":"Bioinformatics"},{"key":"2034_CR17","doi-asserted-by":"publisher","DOI":"10.1186\/gb-2007-8-2-r24","volume":"8","author":"S Gupta","year":"2007","unstructured":"Gupta S, Stamatoyannopoulos JA, Bailey TL, Noble WS (2007) Quantifying similarity between motifs. Genome Biol 8:R24. https:\/\/doi.org\/10.1186\/gb-2007-8-2-r24","journal-title":"Genome Biol"},{"key":"2034_CR18","doi-asserted-by":"publisher","DOI":"10.1016\/j.ygeno.2024.110981","volume":"117","author":"J Han","year":"2024","unstructured":"Han J, Dai Y, Zhou J, Tian J, Chen Q, Kou X et al (2024) Tissue-specific chromatin accessibility and transcriptional regulation in maize cold stress response. Genomics 117:110981. https:\/\/doi.org\/10.1016\/j.ygeno.2024.110981","journal-title":"Genomics"},{"key":"2034_CR19","doi-asserted-by":"publisher","DOI":"10.1080\/15592324.2025.2479513","volume":"20","author":"X He","year":"2025","unstructured":"He X, Zhu J, Gong X, Zhang D, Li Y, Zhang X et al (2025) Advances in deciphering the mechanisms of salt tolerance in maize. Plant Signal Behav 20:2479513. https:\/\/doi.org\/10.1080\/15592324.2025.2479513","journal-title":"Plant Signal Behav"},{"key":"2034_CR20","doi-asserted-by":"publisher","first-page":"602","DOI":"10.1186\/s12870-022-03972-4","volume":"22","author":"D Hu","year":"2022","unstructured":"Hu D, Li R, Dong S, Zhang J, Zhao B, Ren B et al (2022) Maize (Zea mays L.) responses to salt stress in terms of root anatomy, respiration and antioxidative enzyme activity. BMC Plant Biol 22:602. https:\/\/doi.org\/10.1186\/s12870-022-03972-4","journal-title":"BMC Plant Biol"},{"key":"2034_CR21","doi-asserted-by":"publisher","first-page":"655","DOI":"10.1126\/science.abg5289","volume":"373","author":"MB Hufford","year":"2021","unstructured":"Hufford MB, Seetharam AS, Woodhouse MR, Chougule KM, Ou S, Liu J et al (2021) De novo assembly, annotation, and comparative analysis of 26 diverse maize genomes. Science 373:655\u2013662. https:\/\/doi.org\/10.1126\/science.abg5289","journal-title":"Science"},{"key":"2034_CR22","doi-asserted-by":"publisher","DOI":"10.1038\/s42003-025-08077-w","volume":"8","author":"Z Jiang","year":"2025","unstructured":"Jiang Z, van Zanten M, Sasidharan R (2025) Mechanisms of plant acclimation to multiple abiotic stresses. Commun Biol 8:655. https:\/\/doi.org\/10.1038\/s42003-025-08077-w","journal-title":"Commun Biol"},{"key":"2034_CR23","doi-asserted-by":"publisher","DOI":"10.1038\/s41598-025-97266-y","volume":"15","author":"MS Justamante","year":"2025","unstructured":"Justamante MS, Larriba E, Luque A, Nicol\u00e1s-Albujer M, P\u00e9rez-P\u00e9rez JM (2025) A systematic review to identify target genes that modulate root system architecture in response to abiotic stress. Sci Rep 15:13219. https:\/\/doi.org\/10.1038\/s41598-025-97266-y","journal-title":"Sci Rep"},{"key":"2034_CR24","doi-asserted-by":"publisher","first-page":"922","DOI":"10.1016\/j.tplants.2022.01.008","volume":"27","author":"S Kidokoro","year":"2022","unstructured":"Kidokoro S, Shinozaki K, Yamaguchi-Shinozaki K (2022) Transcriptional regulatory network of plant cold-stress responses. Trends Plant Sci 27:922\u2013935. https:\/\/doi.org\/10.1016\/j.tplants.2022.01.008","journal-title":"Trends Plant Sci"},{"key":"2034_CR25","doi-asserted-by":"publisher","first-page":"907","DOI":"10.1038\/s41587-019-0201-4","volume":"37","author":"D Kim","year":"2019","unstructured":"Kim D, Paggi JM, Park C, Bennett C, Salzberg SL (2019) Graph-based genome alignment and genotyping with HISAT2 and HISAT-genotype. Nat Biotechnol 37:907\u2013915. https:\/\/doi.org\/10.1038\/s41587-019-0201-4","journal-title":"Nat Biotechnol"},{"key":"2034_CR26","doi-asserted-by":"publisher","unstructured":"Kumar L, M EF (2007) Mfuzz: a software package for soft clustering of microarray data. Bioinformation 2:5\u20137. https:\/\/doi.org\/10.6026\/97320630002005","DOI":"10.6026\/97320630002005"},{"key":"2034_CR27","doi-asserted-by":"publisher","first-page":"559","DOI":"10.1186\/1471-2105-9-559","volume":"9","author":"P Langfelder","year":"2008","unstructured":"Langfelder P, Horvath S (2008) WGCNA: an R package for weighted correlation network analysis. BMC Bioinformatics 9:559. https:\/\/doi.org\/10.1186\/1471-2105-9-559","journal-title":"BMC Bioinformatics"},{"key":"2034_CR28","doi-asserted-by":"publisher","first-page":"1018","DOI":"10.1105\/tpc.19.00784","volume":"32","author":"O Lantzouni","year":"2020","unstructured":"Lantzouni O, Alkofer A, Falter-Braun P, Schwechheimer C (2020) Growth-regulating factors interact with DELLAs and regulate growth in cold stress. Plant Cell 32:1018\u20131034. https:\/\/doi.org\/10.1105\/tpc.19.00784","journal-title":"Plant Cell"},{"key":"2034_CR30","doi-asserted-by":"publisher","DOI":"10.3390\/microorganisms12040683","author":"R Li","year":"2024","unstructured":"Li R, Jiao H, Sun B, Song M, Yan G, Bai Z et al (2024) Understanding salinity-driven modulation of microbial interactions: rhizosphere versus edaphic microbiome dynamics. Microorganisms. https:\/\/doi.org\/10.3390\/microorganisms12040683","journal-title":"Microorganisms"},{"key":"2034_CR29","doi-asserted-by":"publisher","first-page":"238","DOI":"10.1186\/s12870-020-02427-y","volume":"20","author":"X Li","year":"2020","unstructured":"Li X, Jia J, Zhao P, Guo X, Chen S, Qi D et al (2020) LcMYB4, an unknown function transcription factor gene from sheepgrass, as a positive regulator of chilling and freezing tolerance in transgenic Arabidopsis. BMC Plant Biol 20:238. https:\/\/doi.org\/10.1186\/s12870-020-02427-y","journal-title":"BMC Plant Biol"},{"key":"2034_CR31","doi-asserted-by":"publisher","first-page":"923","DOI":"10.1093\/bioinformatics\/btt656","volume":"30","author":"Y Liao","year":"2014","unstructured":"Liao Y, Smyth GK, Shi W (2014) FeatureCounts: an efficient general purpose program for assigning sequence reads to genomic features. Bioinformatics 30:923\u2013930. https:\/\/doi.org\/10.1093\/bioinformatics\/btt656","journal-title":"Bioinformatics"},{"key":"2034_CR34","doi-asserted-by":"publisher","DOI":"10.3390\/ijms24097893","author":"H Liu","year":"2023","unstructured":"Liu H, Tang X, Zhang N, Li S, Si H (2023) Role of bZIP transcription factors in plant salt stress. Int J Mol Sci. https:\/\/doi.org\/10.3390\/ijms24097893","journal-title":"Int J Mol Sci"},{"key":"2034_CR33","doi-asserted-by":"publisher","first-page":"1900","DOI":"10.1111\/tpj.16896","volume":"119","author":"L Liu","year":"2024","unstructured":"Liu L, Si L, Zhang L, Guo R, Wang R, Dong H et al (2024) Metabolomics and transcriptomics analysis revealed the response mechanism of alfalfa to combined cold and saline-alkali stress. Plant J 119:1900\u20131919. https:\/\/doi.org\/10.1111\/tpj.16896","journal-title":"Plant J"},{"key":"2034_CR32","doi-asserted-by":"publisher","first-page":"511","DOI":"10.1007\/s00299-019-02376-3","volume":"38","author":"Y Liu","year":"2019","unstructured":"Liu Y, Dang P, Liu L, He C (2019) Cold acclimation by the CBF-COR pathway in a changing climate: lessons from Arabidopsis thaliana. Plant Cell Rep 38:511\u2013519. https:\/\/doi.org\/10.1007\/s00299-019-02376-3","journal-title":"Plant Cell Rep"},{"key":"2034_CR35","doi-asserted-by":"publisher","first-page":"550","DOI":"10.1186\/s13059-014-0550-8","volume":"15","author":"MI Love","year":"2014","unstructured":"Love MI, Huber W, Anders S (2014) Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2. Genome Biol 15:550. https:\/\/doi.org\/10.1186\/s13059-014-0550-8","journal-title":"Genome Biol"},{"key":"2034_CR36","doi-asserted-by":"publisher","DOI":"10.3390\/plants11162082","author":"Y Ma","year":"2022","unstructured":"Ma Y, Tan R, Zhao J (2022) Chilling tolerance in maize: insights into advances-toward physio-biochemical responses\u2019 and QTL\/genes\u2019 identification. Plants. https:\/\/doi.org\/10.3390\/plants11162082","journal-title":"Plants"},{"key":"2034_CR37","doi-asserted-by":"publisher","DOI":"10.1038\/s41598-017-06929-y","volume":"7","author":"Z Miao","year":"2017","unstructured":"Miao Z, Han Z, Zhang T, Chen S, Ma C (2017) A systems approach to a spatio-temporal understanding of the drought stress response in maize. Sci Rep 7:6590. https:\/\/doi.org\/10.1038\/s41598-017-06929-y","journal-title":"Sci Rep"},{"key":"2034_CR38","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pcbi.1009638","volume":"17","author":"F Mottes","year":"2021","unstructured":"Mottes F, Villa C, Osella M, Caselle M (2021) The impact of whole genome duplications on the human gene regulatory networks. PLoS Comput Biol 17:e1009638. https:\/\/doi.org\/10.1371\/journal.pcbi.1009638","journal-title":"PLoS Comput Biol"},{"key":"2034_CR39","doi-asserted-by":"publisher","first-page":"21","DOI":"10.1093\/dnares\/dsy035","volume":"26","author":"DH Oh","year":"2019","unstructured":"Oh DH, Dassanayake M (2019) Landscape of gene transposition-duplication within the Brassicaceae family. DNA Res 26:21\u201336. https:\/\/doi.org\/10.1093\/dnares\/dsy035","journal-title":"DNA Res"},{"key":"2034_CR40","doi-asserted-by":"publisher","first-page":"505","DOI":"10.1105\/tpc.15.00867","volume":"28","author":"C Perea-Resa","year":"2016","unstructured":"Perea-Resa C, Carrasco-L\u00f3pez C, Catal\u00e1 R, Ture\u010dkov\u00e1 V, Novak O, Zhang W et al (2016) The LSM1-7 complex differentially regulates Arabidopsis tolerance to abiotic stress conditions by promoting selective mRNA decapping. Plant Cell 28:505\u2013520. https:\/\/doi.org\/10.1105\/tpc.15.00867","journal-title":"Plant Cell"},{"key":"2034_CR41","doi-asserted-by":"publisher","first-page":"290","DOI":"10.1038\/nbt.3122","volume":"33","author":"M Pertea","year":"2015","unstructured":"Pertea M, Pertea GM, Antonescu CM, Chang TC, Mendell JT, Salzberg SL (2015) StringTie enables improved reconstruction of a transcriptome from RNA-seq reads. Nat Biotechnol 33:290\u2013295. https:\/\/doi.org\/10.1038\/nbt.3122","journal-title":"Nat Biotechnol"},{"key":"2034_CR42","doi-asserted-by":"publisher","first-page":"38","DOI":"10.1186\/s13059-019-1650-2","volume":"20","author":"X Qiao","year":"2019","unstructured":"Qiao X, Li Q, Yin H, Qi K, Li L, Wang R et al (2019) Gene duplication and evolution in recurring polyploidization-diploidization cycles in plants. Genome Biol 20:38. https:\/\/doi.org\/10.1186\/s13059-019-1650-2","journal-title":"Genome Biol"},{"key":"2034_CR43","doi-asserted-by":"publisher","first-page":"1007866","DOI":"10.3389\/fpls.2022.1007866","volume":"13","author":"T Qin","year":"2022","unstructured":"Qin T, Ali K, Wang Y, Dormatey R, Yao P, Bi Z et al (2022) Global transcriptome and coexpression network analyses reveal cultivar-specific molecular signatures associated with different rooting depth responses to drought stress in potato. Front Plant Sci 13:1007866. https:\/\/doi.org\/10.3389\/fpls.2022.1007866","journal-title":"Front Plant Sci"},{"key":"2034_CR44","doi-asserted-by":"publisher","first-page":"841","DOI":"10.1093\/bioinformatics\/btq033","volume":"26","author":"AR Quinlan","year":"2010","unstructured":"Quinlan AR, Hall IM (2010) BEDTools: a flexible suite of utilities for comparing genomic features. Bioinformatics 26:841\u2013842. https:\/\/doi.org\/10.1093\/bioinformatics\/btq033","journal-title":"Bioinformatics"},{"key":"2034_CR45","doi-asserted-by":"publisher","first-page":"1783","DOI":"10.1104\/pp.112.210773","volume":"161","author":"S Rasmussen","year":"2013","unstructured":"Rasmussen S, Barah P, Suarez-Rodriguez MC, Bressendorff S, Friis P, Costantino P et al (2013) Transcriptome responses to combinations of stresses in Arabidopsis. Plant Physiol 161:1783\u20131794. https:\/\/doi.org\/10.1104\/pp.112.210773","journal-title":"Plant Physiol"},{"key":"2034_CR46","doi-asserted-by":"publisher","first-page":"1683","DOI":"10.1104\/pp.103.033431","volume":"134","author":"L Rizhsky","year":"2004","unstructured":"Rizhsky L, Liang H, Shuman J, Shulaev V, Davletova S, Mittler R (2004) When defense pathways collide. The response of Arabidopsis to a combination of drought and heat stress. Plant Physiol 134:1683\u20131696. https:\/\/doi.org\/10.1104\/pp.103.033431","journal-title":"Plant Physiol"},{"key":"2034_CR47","doi-asserted-by":"publisher","DOI":"10.3389\/abp.2024.13585","volume":"71","author":"M Rurek","year":"2024","unstructured":"Rurek M, Smolibowski M (2024) Variability of plant transcriptomic responses under stress acclimation: a review from high throughput studies. Acta Biochim Pol 71:13585. https:\/\/doi.org\/10.3389\/abp.2024.13585","journal-title":"Acta Biochim Pol"},{"key":"2034_CR48","doi-asserted-by":"publisher","first-page":"4778","DOI":"10.1038\/s41467-025-59542-3","volume":"16","author":"R Sanchez-Munoz","year":"2025","unstructured":"Sanchez-Munoz R, Depaepe T, Samalova M, Hejatko J, Zaplana I, Van Der Straeten D (2025) Machine-learning meta-analysis reveals ethylene as a central component of the molecular core in abiotic stress responses in Arabidopsis. Nat Commun 16:4778. https:\/\/doi.org\/10.1038\/s41467-025-59542-3","journal-title":"Nat Commun"},{"key":"2034_CR49","doi-asserted-by":"publisher","first-page":"1873","DOI":"10.1111\/tpj.16612","volume":"117","author":"H Sato","year":"2024","unstructured":"Sato H, Mizoi J, Shinozaki K, Yamaguchi-Shinozaki K (2024) Complex plant responses to drought and heat stress under climate change. Plant J 117:1873\u20131892. https:\/\/doi.org\/10.1111\/tpj.16612","journal-title":"Plant J"},{"key":"2034_CR50","doi-asserted-by":"publisher","first-page":"623","DOI":"10.1016\/j.tplants.2018.04.002","volume":"23","author":"Y Shi","year":"2018","unstructured":"Shi Y, Ding Y, Yang S (2018) Molecular regulation of CBF signaling in cold acclimation. Trends Plant Sci 23:623\u2013637. https:\/\/doi.org\/10.1016\/j.tplants.2018.04.002","journal-title":"Trends Plant Sci"},{"key":"2034_CR51","doi-asserted-by":"publisher","first-page":"1230","DOI":"10.1093\/jxb\/erae452","volume":"76","author":"Y Shi","year":"2025","unstructured":"Shi Y, Ma H, Li T, Guo E, Zhang T, Zhang X et al (2025) Innovative modeling on the effects of low-temperature stress on rice yields. J Exp Bot 76:1230\u20131243. https:\/\/doi.org\/10.1093\/jxb\/erae452","journal-title":"J Exp Bot"},{"key":"2034_CR52","doi-asserted-by":"publisher","DOI":"10.3389\/fpls.2021.730228","volume":"12","author":"RF Song","year":"2021","unstructured":"Song RF, Li TT, Liu WC (2021) Jasmonic acid impairs Arabidopsis seedling salt stress tolerance through MYC2-mediated repression of CAT2 expression. Front Plant Sci 12:730228. https:\/\/doi.org\/10.3389\/fpls.2021.730228","journal-title":"Front Plant Sci"},{"key":"2034_CR53","doi-asserted-by":"publisher","first-page":"279","DOI":"10.1186\/s12870-025-06292-5","volume":"25","author":"Y Song","year":"2025","unstructured":"Song Y, John Martin JJ, Liu X, Li X, Hou M, Zhang R et al (2025) Unraveling the response of secondary metabolites to cold tolerance in oil palm by integration of physiology and metabolomic analyses. BMC Plant Biol 25:279. https:\/\/doi.org\/10.1186\/s12870-025-06292-5","journal-title":"BMC Plant Biol"},{"key":"2034_CR54","doi-asserted-by":"publisher","DOI":"10.1111\/ppl.13633","volume":"174","author":"V Srivastava","year":"2022","unstructured":"Srivastava V, Chowdhary AA, Verma PK, Mehrotra S, Mishra S (2022) Hydrogen sulfide-mediated mitigation and its integrated signaling crosstalk during salinity stress. Physiol Plant 174:e13633. https:\/\/doi.org\/10.1111\/ppl.13633","journal-title":"Physiol Plant"},{"key":"2034_CR55","doi-asserted-by":"publisher","DOI":"10.3390\/ijms222312619","author":"Z Sun","year":"2021","unstructured":"Sun Z, Li S, Chen W, Zhang J, Zhang L, Sun W et al (2021) Plant dehydrins: expression, regulatory networks, and protective roles in plants challenged by abiotic stress. Int J Mol Sci. https:\/\/doi.org\/10.3390\/ijms222312619","journal-title":"Int J Mol Sci"},{"key":"2034_CR56","doi-asserted-by":"publisher","first-page":"32","DOI":"10.1111\/nph.12797","volume":"203","author":"N Suzuki","year":"2014","unstructured":"Suzuki N, Rivero RM, Shulaev V, Blumwald E, Mittler R (2014) Abiotic and biotic stress combinations. New Phytol 203:32\u201343. https:\/\/doi.org\/10.1111\/nph.12797","journal-title":"New Phytol"},{"key":"2034_CR57","doi-asserted-by":"publisher","DOI":"10.3389\/fpls.2023.1096225","volume":"14","author":"JW Tan","year":"2023","unstructured":"Tan JW, Shinde H, Tesfamicael K, Hu Y, Fruzangohar M, Tricker P et al (2023) Global transcriptome and gene co-expression network analyses reveal regulatory and non-additive effects of drought and heat stress in grapevine. Front Plant Sci 14:1096225. https:\/\/doi.org\/10.3389\/fpls.2023.1096225","journal-title":"Front Plant Sci"},{"key":"2034_CR58","doi-asserted-by":"publisher","first-page":"680","DOI":"10.1038\/s41580-022-00479-6","volume":"23","author":"R Waadt","year":"2022","unstructured":"Waadt R, Seller CA, Hsu PK, Takahashi Y, Munemasa S, Schroeder JI (2022) Plant hormone regulation of abiotic stress responses. Nat Rev Mol Cell Biol 23:680\u2013694. https:\/\/doi.org\/10.1038\/s41580-022-00479-6","journal-title":"Nat Rev Mol Cell Biol"},{"key":"2034_CR60","doi-asserted-by":"publisher","DOI":"10.1093\/hr\/uhac227","volume":"10","author":"L Wang","year":"2023","unstructured":"Wang L, Wu B, Chen G, Chen H, Peng Y, Sohail H et al (2023) The essential role of jasmonate signaling in Solanum habrochaites rootstock-mediated cold tolerance in tomato grafts. Hortic Res 10:uhac227. https:\/\/doi.org\/10.1093\/hr\/uhac227","journal-title":"Hortic Res"},{"key":"2034_CR61","doi-asserted-by":"publisher","DOI":"10.1038\/s41467-024-55485-3","volume":"16","author":"T Wang","year":"2025","unstructured":"Wang T, Wang F, Deng S, Wang K, Feng D, Xu F et al (2025) Single-cell transcriptomes reveal spatiotemporal heat stress response in maize roots. Nat Commun 16:177. https:\/\/doi.org\/10.1038\/s41467-024-55485-3","journal-title":"Nat Commun"},{"key":"2034_CR59","doi-asserted-by":"publisher","DOI":"10.1093\/hr\/uhac067","volume":"9","author":"Z Wang","year":"2022","unstructured":"Wang Z, Xue JY, Hu SY, Zhang F, Yu R, Chen D, Van de Peer Y, Jiang J, Song A, Ni L, Hua J, Lu Z, Yu C, Yin Y, Gu C (2022) The genome of Hibiscus hamabo reveals its adaptation to saline and waterlogged habitat. Hortic Res 9:uhac067. https:\/\/doi.org\/10.1093\/hr\/uhac067","journal-title":"Hortic Res"},{"key":"2034_CR62","doi-asserted-by":"publisher","first-page":"417","DOI":"10.1007\/s11033-025-10507-1","volume":"52","author":"AB Wani","year":"2025","unstructured":"Wani AB, Noor W, Pandit A, Husaini AM (2025) Upregulated expression of MYB4, DREB1 and AP37 transcription factors modulates cold stress response in high-altitude Himalayan rice via time-dependent ROS regulation. Mol Biol Rep 52:417. https:\/\/doi.org\/10.1007\/s11033-025-10507-1","journal-title":"Mol Biol Rep"},{"key":"2034_CR63","doi-asserted-by":"publisher","DOI":"10.1111\/tpj.70081","volume":"121","author":"S Wen","year":"2025","unstructured":"Wen S, Jian H, Shang L, Kear PJ, Zhang M, Li Y et al (2025) Comprehensive transcriptional regulatory networks in potato through chromatin accessibility and transcriptome under drought and salt stresses. Plant J 121:e70081. https:\/\/doi.org\/10.1111\/tpj.70081","journal-title":"Plant J"},{"key":"2034_CR64","doi-asserted-by":"publisher","first-page":"923","DOI":"10.1038\/s44318-024-00357-1","volume":"44","author":"Y Wu","year":"2025","unstructured":"Wu Y, Yuan J, Shen L, Li Q, Li Z, Cao H et al (2025) A phosphorylation-regulated NPF transporter determines salt tolerance by mediating chloride uptake in soybean plants. EMBO J 44:923\u2013946. https:\/\/doi.org\/10.1038\/s44318-024-00357-1","journal-title":"EMBO J"},{"key":"2034_CR65","doi-asserted-by":"publisher","first-page":"411","DOI":"10.1016\/j.molp.2020.11.023","volume":"14","author":"J Yan","year":"2021","unstructured":"Yan J, Liu Y, Yang L, He H, Huang Y, Fang L et al (2021) Cell wall \u03b2-1,4-galactan regulated by the BPC1\/BPC2-GALS1 module aggravates salt sensitivity in Arabidopsis thaliana. Mol Plant 14:411\u2013425. https:\/\/doi.org\/10.1016\/j.molp.2020.11.023","journal-title":"Mol Plant"},{"key":"2034_CR66","doi-asserted-by":"publisher","first-page":"284","DOI":"10.1089\/omi.2011.0118","volume":"16","author":"G Yu","year":"2012","unstructured":"Yu G, Wang LG, Han Y, He QY (2012) ClusterProfiler: an R package for comparing biological themes among gene clusters. Omics J Integr Biol 16:284\u2013287. https:\/\/doi.org\/10.1089\/omi.2011.0118","journal-title":"Omics J Integr Biol"},{"key":"2034_CR68","doi-asserted-by":"publisher","first-page":"1321","DOI":"10.1093\/plphys\/kiac311","volume":"190","author":"S Yu","year":"2022","unstructured":"Yu S, Wu J, Sun Y, Zhu H, Sun Q, Zhao P et al (2022) A calmodulin-like protein (CML10) interacts with cytosolic enzymes GSTU8 and FBA6 to regulate cold tolerance. Plant Physiol 190:1321\u20131333. https:\/\/doi.org\/10.1093\/plphys\/kiac311","journal-title":"Plant Physiol"},{"key":"2034_CR67","doi-asserted-by":"publisher","DOI":"10.3389\/fpls.2020.01258","volume":"11","author":"Y Yu","year":"2020","unstructured":"Yu Y, Qian Y, Jiang M, Xu J, Yang J, Zhang T et al (2020) Regulation mechanisms of plant basic leucine zippers to various abiotic stresses. Front Plant Sci 11:1258. https:\/\/doi.org\/10.3389\/fpls.2020.01258","journal-title":"Front Plant Sci"},{"key":"2034_CR69","doi-asserted-by":"publisher","DOI":"10.1093\/plphys\/kiaf126","author":"M Zagor\u0161\u010dak","year":"2025","unstructured":"Zagor\u0161\u010dak M, Abdelhakim L, Rodriguez-Granados NY, \u0160irok\u00e1 J, Ghatak A, Bleker C et al (2025) Integration of multi-omics data and deep phenotyping provides insights into responses to single and combined abiotic stress in potato. Plant Physiol. https:\/\/doi.org\/10.1093\/plphys\/kiaf126","journal-title":"Plant Physiol"},{"key":"2034_CR70","doi-asserted-by":"publisher","first-page":"779","DOI":"10.1016\/j.bbrc.2012.02.101","volume":"419","author":"Z Zhang","year":"2012","unstructured":"Zhang Z, Xiao J, Wu J, Zhang H, Liu G, Wang X et al (2012) ParaAT: a parallel tool for constructing multiple protein-coding DNA alignments. Biochem Biophys Res Commun 419:779\u2013781. https:\/\/doi.org\/10.1016\/j.bbrc.2012.02.101","journal-title":"Biochem Biophys Res Commun"},{"key":"2034_CR71","doi-asserted-by":"publisher","DOI":"10.3389\/fgene.2023.1097381","volume":"14","author":"Z Zhang","year":"2023","unstructured":"Zhang Z, Zhang T, Ma L (2023) Analysis of basic pentacysteine6 transcription factor involved in abiotic stress response in Arabidopsis thaliana. Front Genet 14:1097381. https:\/\/doi.org\/10.3389\/fgene.2023.1097381","journal-title":"Front Genet"},{"key":"2034_CR73","doi-asserted-by":"publisher","first-page":"16","DOI":"10.1016\/j.jgg.2023.08.007","volume":"51","author":"H Zhou","year":"2024","unstructured":"Zhou H, Shi H, Yang Y, Feng X, Chen X, Xiao F et al (2024) Insights into plant salt stress signaling and tolerance. J Genet Genomics 51:16\u201334. https:\/\/doi.org\/10.1016\/j.jgg.2023.08.007","journal-title":"J Genet Genomics"},{"key":"2034_CR72","doi-asserted-by":"publisher","DOI":"10.3389\/fpls.2022.866034","volume":"13","author":"X Zhou","year":"2022","unstructured":"Zhou X, Muhammad I, Lan H, Xia C (2022) Recent advances in the analysis of cold tolerance in maize. Front Plant Sci 13:866034. https:\/\/doi.org\/10.3389\/fpls.2022.866034","journal-title":"Front Plant Sci"}],"container-title":["Functional &amp; Integrative Genomics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1007\/s10142-026-02034-4.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/link.springer.com\/article\/10.1007\/s10142-026-02034-4","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1007\/s10142-026-02034-4.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,9,5]],"date-time":"2026-09-05T19:02:13Z","timestamp":1788634933000},"score":1,"resource":{"primary":{"URL":"https:\/\/link.springer.com\/10.1007\/s10142-026-02034-4"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2026,9,5]]},"references-count":73,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2026,12]]}},"alternative-id":["2034"],"URL":"https:\/\/doi.org\/10.1007\/s10142-026-02034-4","relation":{},"ISSN":["1438-793X","1438-7948"],"issn-type":[{"value":"1438-793X","type":"print"},{"value":"1438-7948","type":"electronic"}],"subject":[],"published":{"date-parts":[[2026,9,5]]},"assertion":[{"value":"1 June 2026","order":1,"name":"received","label":"Received","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"3 August 2026","order":2,"name":"revised","label":"Revised","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"28 August 2026","order":3,"name":"accepted","label":"Accepted","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"5 September 2026","order":4,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"Not applicable.","order":1,"name":"Ethics","label":"Consent for publication","group":{"name":"EthicsHeading","label":"Declarations"}},{"value":"The authors declare that there are no conflicts of interest associated with this work.","order":2,"name":"Ethics","label":"Competing interests","group":{"name":"EthicsHeading","label":"Declarations"}}],"article-number":"251"}}