{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,24]],"date-time":"2026-10-24T04:33:37Z","timestamp":1792816417308,"version":"4.5.0"},"reference-count":84,"publisher":"Frontiers Media SA","license":[{"start":{"date-parts":[[2026,3,12]],"date-time":"2026-03-12T00:00:00Z","timestamp":1773273600000},"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:p>Iron deficiency is a major constraint in rice cultivation, particularly under direct-seeded rice (DSR) systems, where aerobic soil conditions reduce iron availability in plant-accessible forms. In this study, the experiment was initiated with screening of 116 germplasm lines of two weeks old line under hydroponics iron-deficient and sufficient conditions. Based on morphological and SPAD (Soil Plant Analysis Development) values, two contrasting rice genotypes - RA23 (tolerant) and LalatMas (susceptible) were selected and investigated to determine the molecular basis of iron deficiency response through comparative transcriptome analyses. A substantial number of differentially expressed genes (DEGs) were identified in each genotype, revealing distinct transcriptional reprogramming associated with iron acquisition, transport, and homeostasis. Functional classification and enrichment analyses uncovered genotype-specific regulation of pathways related to iron ion transport, general defense and stimulus-response functions, and ADP-binding activity, indicating the involvement of signaling and regulatory proteins. A subset of candidate genes, including both known iron-responsive regulators and previously uncharacterized proteins, was further prioritized based on differential expression patterns, interaction predictions, structural features and expression profiles. Quantitative real-time PCR validation confirmed the expression patterns of selected DEGs, supporting their relevance in iron stress adaptation. Notably, the greater induction of iron transporters in LalatMas likely reflects its stronger compensatory drive to acquire iron relative to RA23. This study provides the first report of leaf-specific transcriptomic signatures associated with iron deficiency in rice and offers a valuable set of candidate genes for functional analysis and breeding of iron-efficient cultivars optimized for DSR and other nutrient-limited agroecosystems.<\/jats:p>","DOI":"10.3389\/fpls.2026.1764898","type":"journal-article","created":{"date-parts":[[2026,3,12]],"date-time":"2026-03-12T11:27:27Z","timestamp":1773314847000},"update-policy":"https:\/\/doi.org\/10.3389\/crossmark-policy","source":"Crossref","is-referenced-by-count":1,"title":["Comparative transcriptomic insights into iron deficiency response in contrasting rice varieties at the seedling stage reveal distinct response strategies and identify novel candidate genes"],"prefix":"10.3389","volume":"17","author":[{"family":"Ananya","sequence":"first","affiliation":[{"name":"National Centre for Biological Sciences (TIFR)","place":["Bengaluru, Karnataka, India"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Mohd","family":"Fayaz","sequence":"additional","affiliation":[{"name":"National Centre for Biological Sciences (TIFR)","place":["Bengaluru, Karnataka, India"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Siddharth","family":"Panda","sequence":"additional","affiliation":[{"name":"Indian Council of Agricultural Research (ICAR)\u2013Central Rice Research Institute (NRRI)","place":["Cuttack, Odisha, India"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Mahender","family":"Anumalla","sequence":"additional","affiliation":[{"name":"Rice Breeding Innovation Platform, International Rice Research Institute (IRRI)","place":["Los Ba\u00f1os, Laguna, Philippines"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Chandrashekhar B.","family":"A.","sequence":"additional","affiliation":[{"name":"University of Agricultural Sciences, GKVK","place":["Bengaluru, Karnataka, India"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Sanjana B.","family":"Sreenivas","sequence":"additional","affiliation":[{"name":"University of Agricultural Sciences, GKVK","place":["Bengaluru, Karnataka, India"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Siddaraju","family":"R.","sequence":"additional","affiliation":[{"name":"University of Agricultural Sciences, GKVK","place":["Bengaluru, Karnataka, India"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Nethra","family":"N.","sequence":"additional","affiliation":[{"name":"University of Agricultural Sciences, GKVK","place":["Bengaluru, Karnataka, India"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Annamalai","family":"Anandan","sequence":"additional","affiliation":[{"name":"ICAR\u2013National Institute of Seed Science & Technology","place":["Mau, Uttar Pradesh, India"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ramanathan","family":"Sowdhamini","sequence":"additional","affiliation":[{"name":"National Centre for Biological Sciences (TIFR)","place":["Bengaluru, Karnataka, India"]}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"1965","published-online":{"date-parts":[[2026,3,12]]},"reference":[{"key":"B1","doi-asserted-by":"publisher","first-page":"282","DOI":"10.1093\/bioinformatics\/btm554","article-title":"Computing topological parameters of biological networks","volume":"24","author":"Assenov","year":"2008","journal-title":"Bioinformatics"},{"key":"B2","doi-asserted-by":"publisher","first-page":"313","DOI":"10.1080\/00380768.2018.1443754","article-title":"Iron starvation-responsive whole transcriptome analysis in rice roots","volume":"96","author":"Aung","year":"2018","journal-title":"Plant Mol. Biol."},{"key":"B3","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2105-15-293","article-title":"jvenn: an interactive Venn diagram viewer","volume":"15","author":"Bardou","year":"2014","journal-title":"BMC Bioinf."},{"key":"B4","doi-asserted-by":"publisher","first-page":"3003","DOI":"10.1093\/jxb\/erl061","article-title":"Cloning and characterization of deoxymugineic acid synthase from rice","volume":"57","author":"Bashir","year":"2006","journal-title":"J. Exp. Bot."},{"key":"B5","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1074\/jbc.m604133200","article-title":"The road to iron uptake and homeostasis in plants: molecular regulation of iron transport","volume":"362","author":"Bashir","year":"2013","journal-title":"Plant Soil"},{"key":"B6","first-page":"1","article-title":"Iron nutrition, oxidative stress, and plant defence responses","volume":"240","author":"Briat","year":"2015","journal-title":"Plant Sci."},{"key":"B7","doi-asserted-by":"publisher","first-page":"1677","DOI":"10.1093\/jxb\/erf121","article-title":"Cloning an iron-regulated metal transporter from rice","volume":"53","author":"Bughio","year":"2002","journal-title":"J. Exp. Bot."},{"key":"B8","doi-asserted-by":"publisher","first-page":"611","DOI":"10.1373\/clinchem.2008.112797","article-title":"The MIQE guidelines: minimum information for publication of quantitative real-time PCR experiments","volume":"55","author":"Bustin","year":"2009","journal-title":"Clin. Chem."},{"key":"B9","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":"B10","first-page":"1","article-title":"Early transcriptional shifts during seedling establishment reflect defence and developmental signalling","volume":"162","author":"Chen","year":"2021","journal-title":"Plant Physiol. Biochem."},{"key":"B11","doi-asserted-by":"publisher","first-page":"13","DOI":"10.1186\/s13059-016-0881-8","article-title":"A survey of best practices for RNA-seq data analysis","volume":"17","author":"Conesa","year":"2016","journal-title":"Genome Biol."},{"key":"B12","first-page":"1209","article-title":"Iron homeostasis in plants\u2014achievements and future goals","volume":"213","author":"Connorton","year":"2017","journal-title":"Plant Cell Environ."},{"key":"B13","first-page":"1824","article-title":"SPAD chlorophyll meter estimates and their significance for crop physiology","volume":"113","author":"Cortes","year":"2021","journal-title":"Agron. J."},{"key":"B14","doi-asserted-by":"publisher","first-page":"263","DOI":"10.1104\/pp.108.118059","article-title":"Global transcriptome analysis reveals circadian regulation of key pathways in Arabidopsis","volume":"147","author":"Covington","year":"2008","journal-title":"Plant Physiol."},{"key":"B15","first-page":"476","article-title":"Retrograde signals: integrators of interorganellar communication and orchestrators of plant development and stress responses","volume":"26","author":"de Souza","year":"2014","journal-title":"Plant Cell"},{"key":"B505","doi-asserted-by":"publisher","first-page":"236","DOI":"10.1007\/PL00006462","article-title":"The plastid genome of the cryptophyte alga Guillardia theta: Complete sequence and conserved synteny groups confirm its common ancestry with red algae","volume":"48","author":"Douglas","year":"1999","journal-title":"Journal of Molecular Evolution"},{"key":"B16","first-page":"602","article-title":"Conserved plastid envelope stress response proteins in algae and plants","volume":"70","author":"Eugenio","year":"2012","journal-title":"Plant J."},{"key":"B17","doi-asserted-by":"publisher","first-page":"1676","DOI":"10.1080\/01904160802244902","article-title":"Iron\u00a0toxicity in lowland rice","volume":"31","author":"Fageria","year":"2008","journal-title":"J. Plant Nutr."},{"key":"B18","doi-asserted-by":"publisher","first-page":"D279","DOI":"10.1093\/nar\/gkv1344","article-title":"Pfam: the protein families database","volume":"44","author":"Finn","year":"2016","journal-title":"Nucleic Acids Res."},{"key":"B19","doi-asserted-by":"publisher","first-page":"126","DOI":"10.1016\/j.mam.2005.12.003","article-title":"RNA integrity and the effect on real-time qRT\u2013PCR performance","volume":"27","author":"Fleige","year":"2006","journal-title":"Mol. Aspects Med."},{"key":"B20","first-page":"17","article-title":"Proteome map of the Arabidopsis chloroplast envelope membrane","volume":"1","author":"Friso","year":"2010","journal-title":"Front. Plant Sci."},{"key":"B21","doi-asserted-by":"publisher","first-page":"D1178","DOI":"10.1093\/nar\/gkr944","article-title":"Phytozome: a comparative platform for green plant genomics","volume":"40","author":"Goodstein","year":"2012","journal-title":"Nucleic Acids Res."},{"key":"B22","first-page":"26","article-title":"Metal transporters in plants: the role of ZIP family","author":"Guo","year":"2014","journal-title":"Plant Sci."},{"key":"B23","first-page":"1617","article-title":"Auxin-dependent iron homeostasis regulates root system architecture","volume":"9","author":"Hantzis","year":"2018","journal-title":"Nat. Commun."},{"key":"B24","first-page":"4967","article-title":"A conserved bHLH transcription factor controls iron homeostasis in rice","volume":"10","author":"Huang","year":"2019","journal-title":"Nat. Commun."},{"key":"B25","doi-asserted-by":"publisher","first-page":"90","DOI":"10.1109\/MCSE.2007.55","article-title":"Matplotlib: a 2D graphics environment","volume":"9","author":"Hunter","year":"2007","journal-title":"Computing Sci. Eng."},{"key":"B26","doi-asserted-by":"publisher","first-page":"366","DOI":"10.1046\/j.1365-313X.2003.01878.x","article-title":"Three rice nicotianamine synthase genes, OsNAS1, OsNAS2 and OsNAS3, are expressed in cells involved in long-distance transport of iron","volume":"36","author":"Inoue","year":"2003","journal-title":"Plant J."},{"key":"B27","doi-asserted-by":"publisher","first-page":"3470","DOI":"10.1074\/jbc.M806042200","article-title":"Rice OsYSL15 is an iron-regulated iron(III)-deoxymugineic acid transporter","volume":"284","author":"Inoue","year":"2009","journal-title":"J. Biol. Chem."},{"key":"B28","doi-asserted-by":"publisher","first-page":"335","DOI":"10.1111\/j.1365-313X.2005.02624.x","article-title":"Rice plants take up iron as an Fe3+-phytosiderophore and as Fe2+","volume":"45","author":"Ishimaru","year":"2006","journal-title":"Plant J."},{"key":"B29","first-page":"1173","article-title":"Regulatory networks of iron acquisition in plants: functional cross-talk of bHLH proteins","volume":"5","author":"Ivanov","year":"2012","journal-title":"Mol. Plant"},{"key":"B30","doi-asserted-by":"publisher","first-page":"422","DOI":"10.1016\/j.tplants.2009.02.006","article-title":"Homing in on iron homeostasis in plants","volume":"5","author":"Jeong","year":"2009","journal-title":"Nat. Chem. Biol."},{"key":"B31","doi-asserted-by":"publisher","first-page":"20150202","DOI":"10.1098\/rsta.2015.0202","article-title":"Principal component analysis: a review and recent developments","volume":"374","author":"Jolliffe","year":"2016","journal-title":"Philos. Trans. R. Soc. A"},{"key":"B503","doi-asserted-by":"publisher","first-page":"357","DOI":"10.1038\/nmeth.3317","article-title":"HISAT: a fast spliced aligner with low memory requirements","volume":"12","author":"Kim","year":"2015","journal-title":"Nature Methods"},{"key":"B32","doi-asserted-by":"publisher","DOI":"10.1093\/database\/bar030","article-title":"Ensembl BioMarts: a hub for data retrieval across taxonomic space","volume":"2011","author":"Kinsella","year":"2011","journal-title":"Database (Oxford)"},{"key":"B33","doi-asserted-by":"publisher","first-page":"10872","DOI":"10.1038\/s41598-018-28948-z","article-title":"GOATOOLS: a Python library for Gene Ontology analyses","volume":"8","author":"Klopfenstein","year":"2018","journal-title":"Sci. Rep."},{"key":"B34","doi-asserted-by":"publisher","first-page":"131","DOI":"10.1146\/annurev-arplant-042811-105522","article-title":"Iron uptake, translocation, and regulation in higher plants","volume":"63","author":"Kobayashi","year":"2012","journal-title":"Annu. Rev. Plant Biol."},{"key":"B35","doi-asserted-by":"publisher","first-page":"471","DOI":"10.1007\/s11103-019-00917-8","article-title":"Regulation of iron homeostasis by the bHLH transcription factor network in plants","volume":"101","author":"Kobayashi","year":"2019","journal-title":"Plant Mol. Biol."},{"key":"B36","doi-asserted-by":"publisher","first-page":"415","DOI":"10.1111\/j.1365-313X.2004.02117.x","article-title":"OsYSL2 is a phloem-localized transporter of iron\u2013nicotianamine complexes","volume":"39","author":"Koike","year":"2004","journal-title":"Plant J."},{"key":"B37","doi-asserted-by":"publisher","first-page":"W207","DOI":"10.1093\/nar\/gkad364","article-title":"g:Profiler: a web server for functional enrichment analysis and gene list conversion","volume":"51","author":"Kolberg","year":"2023","journal-title":"Nucleic Acids Res."},{"key":"B38","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1186\/1746-4811-9-29","article-title":"The advantages and limitations of trait analysis with GWAS: a review","volume":"9","author":"Korte","year":"2013","journal-title":"Plant Methods"},{"key":"B39","doi-asserted-by":"publisher","first-page":"1","DOI":"10.18637\/jss.v025.i01","article-title":"FactoMineR: an R package for multivariate analysis","volume":"25","author":"L\u00ea","year":"2008","journal-title":"J. Stat. Software"},{"key":"B41","first-page":"778519","article-title":"Iron deficiency leads to chlorosis through impacting chloroplast development and reducing chlorophyll synthesis in plants","volume":"12","author":"Li","year":"2021","journal-title":"Front. Plant Sci."},{"key":"B40","first-page":"15","article-title":"Transcriptome analysis reveals genotype-dependent adaptive responses of rice to phosphate deficiency","volume":"19","author":"Li","year":"2019","journal-title":"BMC Plant Biol."},{"key":"B42","doi-asserted-by":"publisher","first-page":"402","DOI":"10.1006\/meth.2001.1262","article-title":"Analysis of relative gene expression data using real-time quantitative PCR and the 2\u2013\u0394\u0394CT method","volume":"25","author":"Livak","year":"2001","journal-title":"Methods"},{"key":"B502","article-title":"FCRD: Analysis of Factorial Completely Randomized Design","volume-title":"R package version 1.0","author":"Manivannan","year":"2014"},{"key":"B43","volume-title":"Mineral Nutrition of Higher Plants","author":"Marschner","year":"1995"},{"key":"B44","doi-asserted-by":"publisher","first-page":"1131","DOI":"10.1039\/b807210h","article-title":"Regulation and evolution of chlorophyll metabolism","volume":"7","author":"Masuda","year":"2008","journal-title":"Photochemical Photobiological Sci."},{"key":"B45","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pbio.0060225","article-title":"Enhanced fitness conferred by naturally occurring variation in circadian rhythms","volume":"6","author":"Michael","year":"2008","journal-title":"PloS Biol."},{"key":"B46","doi-asserted-by":"publisher","first-page":"69","DOI":"10.21273\/HORTSCI.27.1.69","article-title":"Inherent limitations of nondestructive chlorophyll meters: a comparison of two types of meters","volume":"27","author":"Monje","year":"1992","journal-title":"HortScience"},{"key":"B47","doi-asserted-by":"publisher","first-page":"252","DOI":"10.1038\/ncomms1256","article-title":"Phytosiderophore efflux in grasses mediated by TOM1","volume":"2","author":"Nozoye","year":"2011","journal-title":"Nat. Commun."},{"key":"B48","first-page":"1","article-title":"Metal homeostasis in plants: transport and regulatory mechanisms","volume":"447","author":"Nozoye","year":"2019","journal-title":"Plant Soil"},{"key":"B49","doi-asserted-by":"publisher","first-page":"366","DOI":"10.1111\/j.1365-313X.2007.03149.x","article-title":"OsIRO2 is an essential regulator of Fe-deficiency\u2013induced genes","volume":"51","author":"Ogo","year":"2007","journal-title":"Plant J."},{"key":"B51","doi-asserted-by":"publisher","first-page":"198","DOI":"10.1007\/s10142-024-01478-w","article-title":"Genome-wide association study reveals effect of nsSNPs on candidate genes in rice during iron deficiency","volume":"24","author":"Panda","year":"2024","journal-title":"Funct. Integr. Genomics"},{"key":"B50","doi-asserted-by":"publisher","first-page":"6058","DOI":"10.3390\/ijms22116058","article-title":"Proofing direct-seeded rice with better root plasticity and architecture","volume":"22","author":"Panda","year":"2021","journal-title":"Int. J. Mol. Sci."},{"key":"B52","first-page":"13","article-title":"Adjusting nitrogen fertilizer in relation to crop need: a chlorophyll meter-based approach","volume":"7","author":"Peng","year":"1993","journal-title":"Better Crops Int."},{"key":"B53","doi-asserted-by":"publisher","first-page":"508","DOI":"10.1098\/rstb.2011.0252","article-title":"Morphological evolution in land plants: new designs with old genes","volume":"367","author":"Pires","year":"2012","journal-title":"Philos. Trans. R. Soc. B"},{"key":"B54","first-page":"1451","article-title":"Plastid signalling to the nucleus and beyond: new insights into chloroplast-to-nucleus communication","volume":"8","author":"Pogson","year":"2015","journal-title":"Mol. Plant"},{"key":"B55","doi-asserted-by":"publisher","DOI":"10.3389\/fpls.2014.00189","article-title":"There and back again, or always there? The evolution of plant iron transporters","volume":"5","author":"Ricachenevsky","year":"2014","journal-title":"Front. Plant Sci."},{"key":"B56","doi-asserted-by":"publisher","DOI":"10.1101\/pdb.prot5439","article-title":"Purification of RNA using TRIzol","volume":"2010","author":"Rio","year":"2010","journal-title":"Cold Spring Harbor Protoc."},{"key":"B57","doi-asserted-by":"publisher","first-page":"175","DOI":"10.1104\/pp.80.1.175","article-title":"Mobilization of iron in the rhizosphere of monocotyledonous plants","volume":"80","author":"R\u00f6mheld","year":"1986","journal-title":"Plant Physiol."},{"key":"B58","doi-asserted-by":"publisher","DOI":"10.1111\/plb.70085","article-title":"Differential regulation and interactions of wheat WRKY transcription factor homoeologs in modulating iron deficiency response","author":"Saini","year":"2025","journal-title":"Plant Biol"},{"key":"B59","volume-title":"Molecular Cloning: A Laboratory Manual","author":"Sambrook","year":"2001"},{"key":"B60","doi-asserted-by":"publisher","first-page":"2155","DOI":"10.1105\/tpc.112.096925","article-title":"Nramp5 is a major transporter responsible for manganese and cadmium uptake in rice","volume":"24","author":"Sasaki","year":"2012","journal-title":"Plant Cell"},{"key":"B61","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":"B62","first-page":"6174","article-title":"Comparative transcriptomics of nutrient-stress tolerance in rice","volume":"71","author":"Sharma","year":"2020","journal-title":"J. Exp. Bot."},{"key":"B63","first-page":"1","article-title":"Crop adaptation to climate change through pangenomics","volume":"139","author":"Snowdon","year":"2020","journal-title":"Plant Breed."},{"key":"B64","doi-asserted-by":"publisher","first-page":"W244","DOI":"10.1093\/nar\/gki408","article-title":"The HHpred interactive server for protein homology detection and structure prediction","volume":"33","author":"S\u00f6ding","year":"2005","journal-title":"Nucleic Acids Res."},{"key":"B65","first-page":"43","article-title":"Iron biofortification in rice: an integrated genomics, proteomics, and transcriptomics approach","volume":"5","author":"Sperotto","year":"2014","journal-title":"Front. Plant Sci."},{"key":"B66","doi-asserted-by":"publisher","first-page":"563","DOI":"10.1016\/j.plantsci.2009.08.001","article-title":"Differential regulation of the two rice ferritin genes (OsFER1 and OsFER2)","volume":"177","author":"Stein","year":"2009","journal-title":"Plant Sci."},{"key":"B67","first-page":"15","article-title":"Genome-wide characterization of transporter gene families in rice and their functional diversification","volume":"22","author":"Sun","year":"2021","journal-title":"BMC Genomics"},{"key":"B504","doi-asserted-by":"publisher","first-page":"D638","DOI":"10.1093\/nar\/gkac1000","article-title":"STRING database in 2023: protein\u2013protein association networks and functional enrichment analyses","volume":"51","author":"Szklarczyk","year":"2023","journal-title":"Nucleic Acids Research"},{"key":"B68","doi-asserted-by":"publisher","first-page":"4843","DOI":"10.1093\/jxb\/err136","article-title":"The OsNRAMP1 iron transporter is involved in Cd accumulation","volume":"62","author":"Takahashi","year":"2011","journal-title":"J. Exp. Bot."},{"key":"B501","volume-title":"R: A language and environment for statistical computing","author":"Team","year":"2017"},{"key":"B69","first-page":"2070","article-title":"Integration of metabolomics and transcriptomics to identify metabolic networks underlying stress responses","volume":"151","author":"Usadel","year":"2009","journal-title":"Plant Physiol."},{"key":"B70","first-page":"123","article-title":"Functional genomic approaches in plant stress biology","volume":"50","author":"Wan","year":"2008","journal-title":"J. Integr. Plant Biol."},{"key":"B71","first-page":"315","article-title":"Transcriptional regulation of iron homeostasis in plants","volume":"39","author":"Wang","year":"2020","journal-title":"Plant Cell Rep."},{"key":"B72","doi-asserted-by":"publisher","DOI":"10.21105\/joss.03021","article-title":"seaborn: statistical data visualization","volume":"6","author":"Waskom","year":"2021","journal-title":"J. Open Source Software"},{"key":"B73","first-page":"38","article-title":"Empirical assessment of analysis workflows for differential expression analysis","volume":"20","author":"Williams","year":"2019","journal-title":"Genome Biol."},{"key":"B74","first-page":"125","article-title":"Transcriptomic insights into genotype-dependent nutrient stress responses in rice","volume":"187","author":"Yang","year":"2021","journal-title":"Plant Physiol."},{"key":"B75","volume-title":"Laboratory Manual for Physiological Studies of Rice","author":"Yoshida","year":"1976"},{"key":"B77","doi-asserted-by":"publisher","first-page":"400","DOI":"10.1111\/j.1365-313X.2012.05090.x","article-title":"Vacuolar membrane transporters OsVIT1 and OsVIT2 modulate iron translocation between flag leaves and seeds","volume":"72","author":"Zhang","year":"2012","journal-title":"Plant J."},{"key":"B76","first-page":"76","article-title":"Transcriptome profiling of early seedling development reveals stress-related pathways activated during emergence","volume":"35","author":"Zhang","year":"2017","journal-title":"Plant Mol. Biol. Rep."},{"key":"B78","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1016\/j.cj.2021.06.003","article-title":"Advances in understanding iron nutrition in rice","volume":"10","author":"Zhao","year":"2022","journal-title":"Crop J."},{"key":"B79","doi-asserted-by":"publisher","first-page":"2112","DOI":"10.1093\/pcp\/pcq173","article-title":"Iron translocation and regulation in rice mediated by IRO3","volume":"51","author":"Zheng","year":"2010","journal-title":"Plant Cell Physiol."}],"container-title":["Frontiers in Plant Science"],"original-title":[],"link":[{"URL":"https:\/\/www.frontiersin.org\/articles\/10.3389\/fpls.2026.1764898\/full","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,3,12]],"date-time":"2026-03-12T11:27:35Z","timestamp":1773314855000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.frontiersin.org\/articles\/10.3389\/fpls.2026.1764898\/full"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2026,3,12]]},"references-count":84,"alternative-id":["10.3389\/fpls.2026.1764898"],"URL":"https:\/\/doi.org\/10.3389\/fpls.2026.1764898","relation":{},"ISSN":["1664-462X"],"issn-type":[{"value":"1664-462X","type":"electronic"}],"subject":[],"published":{"date-parts":[[2026,3,12]]},"article-number":"1764898"}}