{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,5,12]],"date-time":"2026-05-12T19:49:55Z","timestamp":1778615395569,"version":"3.51.4"},"reference-count":78,"publisher":"MDPI AG","issue":"21","license":[{"start":{"date-parts":[[2024,10,25]],"date-time":"2024-10-25T00:00:00Z","timestamp":1729814400000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"USDA-ARS","award":["5030-21220-007-000D"],"award-info":[{"award-number":["5030-21220-007-000D"]}]},{"name":"USDA-ARS","award":["0500-00093-001-00-D"],"award-info":[{"award-number":["0500-00093-001-00-D"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["IJMS"],"abstract":"<jats:p>Genes involved in iron deficiency responses have been well characterized in Arabidopsis thaliana, but their roles in crop species have not been well explored. Reliance on model species may fail to identify novel iron stress mechanisms present within crop species, likely selected by hundreds of years of selection. Fiskeby III (PI 438471) is a soybean line from Sweden that demonstrates high levels of resilience to numerous stresses. Earlier Fiskeby III studies have identified a suite of genes responding to iron deficiency stress in Fiskeby III that are also associated with Arabidopsis iron deficiency responses. We were interested in determining how canonical iron genes function in Fiskeby III under normal and iron stress conditions. To investigate this, we used virus-induced gene silencing to knock down gene expression of three iron deficiency response genes (FER-like iron deficiency induced transcription factor (FIT), elongated hypocotyl 5 (HY5) and popeye (PYE)) in Fiskeby III. Analyses of RNAseq data generated from silenced plants in iron-sufficient and -deficient conditions found silencing FIT and HY5 altered general stress responses but did not impact iron deficiency tolerance, confirming Fiskeby III utilizes novel mechanisms to tolerate iron deficiency stress.<\/jats:p>","DOI":"10.3390\/ijms252111480","type":"journal-article","created":{"date-parts":[[2024,10,25]],"date-time":"2024-10-25T10:50:08Z","timestamp":1729853408000},"page":"11480","update-policy":"https:\/\/doi.org\/10.3390\/mdpi_crossmark_policy","source":"Crossref","is-referenced-by-count":1,"title":["Investigating the Role of Known Arabidopsis Iron Genes in a Stress Resilient Soybean Line"],"prefix":"10.3390","volume":"25","author":[{"ORCID":"https:\/\/orcid.org\/0000-0003-2403-8946","authenticated-orcid":false,"given":"Jamie A.","family":"O\u2019Rourke","sequence":"first","affiliation":[{"name":"Agricultural Research Service, Corn Insects, and Crop Genetics Research Unit, United States Department of Agriculture, Ames, IA 50010, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-9842-7701","authenticated-orcid":false,"given":"Michelle A.","family":"Graham","sequence":"additional","affiliation":[{"name":"Agricultural Research Service, Corn Insects, and Crop Genetics Research Unit, United States Department of Agriculture, Ames, IA 50010, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"1968","published-online":{"date-parts":[[2024,10,25]]},"reference":[{"key":"ref_1","unstructured":"Marschner, H. (1995). Mineral Nutrition of Higher Plants, Academic Press Limited."},{"key":"ref_2","doi-asserted-by":"crossref","first-page":"11","DOI":"10.1111\/nph.16005","article-title":"Iron acquisition strategies in land plants: Not so different after all","volume":"224","author":"Grillet","year":"2019","journal-title":"New Phytol."},{"key":"ref_3","doi-asserted-by":"crossref","unstructured":"Li, M., Watanabe, S., Gao, F., and Dubos, C. (2023). Iron nutrition in plants: Towards a new paradigm. Plants, 12.","DOI":"10.3390\/plants12020384"},{"key":"ref_4","doi-asserted-by":"crossref","first-page":"213","DOI":"10.1111\/pce.12147","article-title":"Replication protein A subunit 3 and the iron efficiency response in soybean","volume":"37","author":"Atwood","year":"2014","journal-title":"Plant Cell Environ."},{"key":"ref_5","doi-asserted-by":"crossref","first-page":"100012","DOI":"10.1016\/j.stress.2021.100012","article-title":"Characterizing short and long term iron stress responses in iron deficiency tolerant and susceptible soybean (Glycine max L. Merr)","volume":"2","author":"Atencio","year":"2021","journal-title":"Plant Stress"},{"key":"ref_6","doi-asserted-by":"crossref","unstructured":"Moran Lauter, A.N., Peiffer, G.A., Yin, T., Whitham, S.A., Cook, D., Shoemaker, R.C., and Graham, M.A. (2014). Identification of candidate genes involved in early iron deficiency chlorosis signaling in soybean (Glycine max) roots and leaves. BMC Genom., 15.","DOI":"10.1186\/1471-2164-15-702"},{"key":"ref_7","doi-asserted-by":"crossref","unstructured":"Moran Lauter, A.N., Rutter, L., Cook, D., O\u2019Rourke, J.A., and Graham, M.A. (2020). Examining short-term responses to a long-term problem: RNA-seq analyses of iron deficiency chlorosis tolerant soybean. Int. J. Mol. Sci., 21.","DOI":"10.3390\/ijms21103591"},{"key":"ref_8","doi-asserted-by":"crossref","unstructured":"Kohlhase, D.R., McCabe, C.E., Singh, A.K., O\u2019Rourke, J.A., and Graham, M.A. (2021). Comparing Early Transcriptomic Responses of 18 Soybean (Glycine max) Genotypes to Iron Stress. Int. J. Mol. Sci., 22.","DOI":"10.3390\/ijms222111643"},{"key":"ref_9","doi-asserted-by":"crossref","unstructured":"O\u2019Rourke, J., and Graham, M.A. (2021). Gene expression responses to sequential nutrient deficiency stresses in soybean. Int. J. Mol. Sci., 22.","DOI":"10.3390\/ijms22031252"},{"key":"ref_10","doi-asserted-by":"crossref","first-page":"321","DOI":"10.1007\/s10142-019-00709-9","article-title":"Dynamic gene expression changes in response to micronutrient, macronutrient, and multiple stress exposure in soybean","volume":"20","author":"McCabe","year":"2020","journal-title":"Funct. Integr. Genom."},{"key":"ref_11","doi-asserted-by":"crossref","unstructured":"Assefa, T., Zhang, J., Chowda-Reddy, R.V., Lauter, A.N.M., Singh, A., O\u2019Rourke, J.A., Graham, M.A., and Singh, A.K. (2020). Deconstrcting the genetic architecture of iron deficiency chlorosis in soybean using genome-wide approaches. BMC Plant Biol., 20.","DOI":"10.1186\/s12870-020-2237-5"},{"key":"ref_12","doi-asserted-by":"crossref","first-page":"254","DOI":"10.2135\/cropsci1998.0011183X003800010043x","article-title":"Field and nutrient solution tests measure similar mechanisms controlling iron deficiency chlorosis in soybean","volume":"38","author":"Lin","year":"1998","journal-title":"Crop Sci."},{"key":"ref_13","doi-asserted-by":"crossref","first-page":"219","DOI":"10.1023\/A:1009637320805","article-title":"Mapping genetic loci for iron deficiency chlorosis in soybean","volume":"3","author":"Lin","year":"1997","journal-title":"Mol. Breed."},{"key":"ref_14","doi-asserted-by":"crossref","first-page":"190007","DOI":"10.3835\/plantgenome2019.01.0007","article-title":"Identification and fine-mapping of a soybean quantitative trait locus on chromosome 5 confering tolerance to iron deficiency chlorosis","volume":"12","author":"Merry","year":"2019","journal-title":"Plant Genome"},{"key":"ref_15","doi-asserted-by":"crossref","unstructured":"O\u2019Rourke, J.A., and Graham, M.A. (2022). Coupling VIGS with short and long-term stress exposure to understand the Fiskeby III iron deficiency stress response. Int. J. Mol. Sci., 24.","DOI":"10.3390\/ijms24010647"},{"key":"ref_16","doi-asserted-by":"crossref","unstructured":"O\u2019Rourke, J.A., Morrisey, M.J., Merry, R., Espina, M.J., Lorenz, A.J., Stupar, R.M., and Graham, M.A. (2021). Mining Fiskeby III and Mandarin (Ottawa) Expression Profiles to Understand Iron Stress Tolerant Responses in Soybean. Int. J. Mol. Sci., 22.","DOI":"10.3390\/ijms222011032"},{"key":"ref_17","doi-asserted-by":"crossref","first-page":"260","DOI":"10.1016\/j.plaphy.2007.03.006","article-title":"FIT, the FER-like iron deficiency induced transcription factor in Arabidopsis","volume":"45","author":"Bauer","year":"2007","journal-title":"Plant Physiol. Biochem."},{"key":"ref_18","doi-asserted-by":"crossref","first-page":"385","DOI":"10.1038\/cr.2008.26","article-title":"FIT interacts with AtbHLH38 and AtbHLH39 in regulating iron uptake gene expression for iron homeostasis in Arabidopsis","volume":"18","author":"Yuan","year":"2008","journal-title":"Cell Res."},{"key":"ref_19","doi-asserted-by":"crossref","first-page":"1694","DOI":"10.1093\/jxb\/eraa012","article-title":"FIT, a regulatory hub for iron deficiency and stress signaling in roots, and FIT-dependent and independent gene signatures","volume":"71","author":"Schwartz","year":"2020","journal-title":"J. Exp. Bot."},{"key":"ref_20","doi-asserted-by":"crossref","first-page":"1698","DOI":"10.1111\/pce.13321","article-title":"A FIT binding protein is involved in modulating iron and zinc homeostasis in Arabidopsis","volume":"41","author":"Chen","year":"2018","journal-title":"Plant Cell Environ."},{"key":"ref_21","doi-asserted-by":"crossref","first-page":"3400","DOI":"10.1105\/tpc.104.024315","article-title":"The essential basic helix-loop-helix protein FIT1 is required for the iron deficiency response","volume":"16","author":"Colangelo","year":"2004","journal-title":"Plant Cell"},{"key":"ref_22","doi-asserted-by":"crossref","first-page":"e44843","DOI":"10.1371\/journal.pone.0044843","article-title":"Arabidopsis bHLH100 and bHLH101 control iron homeostasis via a FIT-independent pathway","volume":"7","author":"Sivitz","year":"2012","journal-title":"PLoS ONE"},{"key":"ref_23","doi-asserted-by":"crossref","first-page":"2219","DOI":"10.1105\/tpc.110.074096","article-title":"The bHLH transcription factor POPEYE regulates response to iron deficiency in Arabidopsis roots","volume":"22","author":"Long","year":"2010","journal-title":"Plant Cell"},{"key":"ref_24","doi-asserted-by":"crossref","first-page":"2754","DOI":"10.1093\/jxb\/erad057","article-title":"The transcription factor POPEYE negatively regulates the expression of bHLH 1b genes to maintain iron homeostasis","volume":"74","author":"Liang","year":"2023","journal-title":"J. Exp. Bot."},{"key":"ref_25","doi-asserted-by":"crossref","first-page":"e2024918118","DOI":"10.1073\/pnas.2024918118","article-title":"Photoprotection during iron deficiency is mediated by the bHLH transcription factors PYE and ILR3","volume":"118","author":"Akmakjian","year":"2021","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"ref_26","doi-asserted-by":"crossref","first-page":"217","DOI":"10.1038\/nrg2049","article-title":"Light regulated transcriptional networks in higher plants","volume":"8","author":"Jiao","year":"2007","journal-title":"Nat. Rev. Genet."},{"key":"ref_27","doi-asserted-by":"crossref","first-page":"1353","DOI":"10.1016\/j.molp.2016.07.002","article-title":"The multifacetted roles of HY5 in plant growth and development","volume":"9","author":"Gangappa","year":"2016","journal-title":"Mol. Plant"},{"key":"ref_28","doi-asserted-by":"crossref","first-page":"640","DOI":"10.1016\/j.cub.2015.12.066","article-title":"Shoot-to-root mobile transcription factor HY5 coordinates plant carbon and nitrogen acquisition","volume":"26","author":"Chen","year":"2016","journal-title":"Curr. Biol."},{"key":"ref_29","doi-asserted-by":"crossref","first-page":"332","DOI":"10.1111\/j.1365-313X.2004.02052.x","article-title":"The Arabidopsis transcription factor HY5 integrates light and hormone signaling pathways","volume":"38","author":"Cluis","year":"2004","journal-title":"Plant J."},{"key":"ref_30","doi-asserted-by":"crossref","first-page":"1267","DOI":"10.1111\/tpj.16191","article-title":"Elongated Hypocotyl 5 regulates BRUTUS and affects iron acquisition and homeostasis in Arabidopsis thaliana","volume":"114","author":"Mankotia","year":"2023","journal-title":"Plant J."},{"key":"ref_31","doi-asserted-by":"crossref","first-page":"1929","DOI":"10.1111\/nph.19516","article-title":"HY5: A key regulator for light mediated nutrient uptake and utilization by plants","volume":"241","author":"Mankotia","year":"2024","journal-title":"New Phytol."},{"key":"ref_32","doi-asserted-by":"crossref","unstructured":"Mankotia, S., Dubey, A., Jakhar, P., Shikha, D., Koolath, V., Kumar, A., and Satbhai, S.B. (2024). Elongated Hypocotyl 5 (HY5) and Popeye (PYE) regulate intercellular iron transport in plants. Plant Cell Environ.","DOI":"10.1111\/pce.15090"},{"key":"ref_33","doi-asserted-by":"crossref","first-page":"441","DOI":"10.1104\/pp.113.224162","article-title":"The PYL4 A194T mutant uncovers a key role of PYR1-LIKE4\/PROTEIN PHOSPHATASE 2CA interaction for abscisic acid signaling and plant drought resistance","volume":"163","author":"Pizzio","year":"2013","journal-title":"Plant Physiol"},{"key":"ref_34","doi-asserted-by":"crossref","unstructured":"Du, M., Lu, D., and Liu, X. (2023). The Arabidopsis ubiquitin ligases ATL32 and ATL6 regulate plant response to salt stress in an ABA-independent manner. Biochem. Biophys. Res. Commun., 685.","DOI":"10.1016\/j.bbrc.2023.149156"},{"key":"ref_35","doi-asserted-by":"crossref","unstructured":"Gupta, N., Kanojia, A., Katiyar, A., and Mudgil, Y. (2021). Molecular characterization of NDL1-AGB1 mediated salt stress signaling: Further exploration of the role of NDL1 interacting partners. Cells, 10.","DOI":"10.3390\/cells10092261"},{"key":"ref_36","doi-asserted-by":"crossref","unstructured":"Hu, S.-P., Li, J.-J., Dhar, N., Li, J.-P., Chen, J.-Y., Jian, W., Dai, X.-F., and Yang, X.-Y. (2021). Lysin motif (LysM) proteins: Interlinking manipulation of plant immunity and fungi. Int. J. Mol. Sci., 22.","DOI":"10.3390\/ijms22063114"},{"key":"ref_37","doi-asserted-by":"crossref","first-page":"34","DOI":"10.1111\/tpj.14610","article-title":"Intertwined metal homeostasis, oxidative and biotic stress responses in the Arabidopsis frd3 mutant","volume":"102","author":"Scheepers","year":"2019","journal-title":"Plant J."},{"key":"ref_38","doi-asserted-by":"crossref","first-page":"215","DOI":"10.1111\/tpj.15286","article-title":"Ferroportin 3 is a dual-targeted mitochondrial\/chloroplast iron exporter necessary for iron homeostasis in Arabidopsis","volume":"107","author":"Kim","year":"2021","journal-title":"Plant J."},{"key":"ref_39","doi-asserted-by":"crossref","first-page":"3605","DOI":"10.1007\/s11033-010-0472-9","article-title":"Overexpression of AtFRO6 in transgenic tobacco enhances ferric chelate reductase activity in leaves and increases tolerance to iron-deficiency chlorosis","volume":"38","author":"Li","year":"2010","journal-title":"Mol. Biol. Rep."},{"key":"ref_40","doi-asserted-by":"crossref","unstructured":"Kohlhase, D.R., O\u2019rourke, J.A., and Graham, M.A. (2024). GmGLU1 and GmRR4 contribute to iron deficiency tolerance in soybean. Front. Plant Sci., 15.","DOI":"10.3389\/fpls.2024.1295952"},{"key":"ref_41","doi-asserted-by":"crossref","unstructured":"Santos, C.S., Ozgur, R., Uzilday, B., Turkan, I., Roriz, M., Rangel, A.O., Carvalho, S.M., and Vasconcelos, M.W. (2019). Understanding the role of the antioxidant system and the tetrapyrrole cycle in iron deficiency chlorosis. Plants, 8.","DOI":"10.3390\/plants8090348"},{"key":"ref_42","doi-asserted-by":"crossref","first-page":"192","DOI":"10.1016\/j.freeradbiomed.2022.02.034","article-title":"Heme oxygenase-nitric oxide cross-talk-mediated iron homeostasis in plants under oxidative stress","volume":"182","author":"Singh","year":"2022","journal-title":"Free Radic. Biol. Med."},{"key":"ref_43","doi-asserted-by":"crossref","unstructured":"Sun, C., Wu, T., Zhai, L., Li, D., Zhang, X., Xu, X., Ma, H., Wang, Y., and Han, Z. (2016). Reactive oxygen species function to mediate the Fe deficiency response in an Fe-efficient apple genotype: An early response mechanism for enhancing reactive oxygen prodyction. Front. Plant Sci., 7.","DOI":"10.3389\/fpls.2016.01726"},{"key":"ref_44","doi-asserted-by":"crossref","first-page":"421","DOI":"10.1007\/s12229-020-09231-1","article-title":"Oxidative stress and antioxidant metabolism under adverse environmental conditions: A review","volume":"87","author":"Gul","year":"2021","journal-title":"Bot. Rev."},{"key":"ref_45","doi-asserted-by":"crossref","first-page":"161","DOI":"10.1007\/s11104-023-06143-y","article-title":"Predicting iron deficiency and oxidative stress in Glycine max through Fourier transform infrared spectroscopy in a time-course experiment","volume":"496","author":"Santos","year":"2024","journal-title":"Plant Soil"},{"key":"ref_46","doi-asserted-by":"crossref","first-page":"3169","DOI":"10.1093\/jxb\/ert153","article-title":"Glutathione and ascorbic acid protect Arabidopsis plants against detrimental effects of iron deficiency","volume":"64","author":"Bartoli","year":"2013","journal-title":"J. Exp. Bot."},{"key":"ref_47","doi-asserted-by":"crossref","first-page":"1372","DOI":"10.1093\/nar\/gkh299","article-title":"Detection of functional DNA motifs via statistical over-representation","volume":"32","author":"Frith","year":"2004","journal-title":"Nucleic Acids Res."},{"key":"ref_48","doi-asserted-by":"crossref","first-page":"435","DOI":"10.1093\/jxb\/ery385","article-title":"Arabidopsis ADF5 promotes stomatal closure by regulating actin cytoskeleton remodeling in response to ABA and drought stress","volume":"70","author":"Qian","year":"2018","journal-title":"J. Exp. Bot."},{"key":"ref_49","doi-asserted-by":"crossref","first-page":"100549","DOI":"10.1016\/j.mcpro.2023.100549","article-title":"The proteome and phosphoproteome uncovers candidate proteins associated with vacuolar phosphate signal multiplied by vacuolar phosphate transporter 1 (VPT1) in Arabidopsis","volume":"22","author":"Zhang","year":"2023","journal-title":"Mol. Cell. Proteom."},{"key":"ref_50","doi-asserted-by":"crossref","first-page":"775","DOI":"10.1093\/jxb\/erv495","article-title":"TCP2 positively regulates HY5\/HYH and photomorphogenesis in Arabidopsis","volume":"67","author":"He","year":"2016","journal-title":"J. Exp. Bot."},{"key":"ref_51","doi-asserted-by":"crossref","first-page":"983","DOI":"10.1080\/00380768.2004.10408564","article-title":"Iron deficiency of soybean in the north central U.S. and associated soil properties","volume":"50","author":"Hansen","year":"2004","journal-title":"Soil Sci. Plant Nutr."},{"key":"ref_52","doi-asserted-by":"crossref","first-page":"36","DOI":"10.1002\/csc2.20661","article-title":"Iron deficiency in soybean","volume":"62","author":"Merry","year":"2021","journal-title":"Crop Sci."},{"key":"ref_53","doi-asserted-by":"crossref","first-page":"503","DOI":"10.1093\/mp\/sss089","article-title":"Requirement and functional redundancy of Ib subgroup bHLH proteins for iron deficiency responses and uptake in Arabidopsis thaliana","volume":"6","author":"Wang","year":"2013","journal-title":"Mol. Plant"},{"key":"ref_54","doi-asserted-by":"crossref","first-page":"426","DOI":"10.1186\/s12864-015-1637-7","article-title":"RNA-seq analysis reveals genetic response and tolerance mechanisms to ozone exposure in soybean","volume":"16","author":"Whaley","year":"2015","journal-title":"BMC Genom."},{"key":"ref_55","doi-asserted-by":"crossref","first-page":"161","DOI":"10.1007\/s11104-008-9667-4","article-title":"Leaf structural changes associated iwth iron deficiency chlorosis in field grown pear and peach: Physiological implications","volume":"311","author":"Eichert","year":"2008","journal-title":"Plant Soil"},{"key":"ref_56","doi-asserted-by":"crossref","first-page":"965","DOI":"10.1007\/s00709-020-01483-3","article-title":"Involvement of active MKK9-MAPK3\/MAPK6 in increasing respiration in salt treated Arabidopsis callus","volume":"257","author":"Liu","year":"2020","journal-title":"Protoplasma"},{"key":"ref_57","doi-asserted-by":"crossref","first-page":"110190","DOI":"10.1016\/j.plantsci.2019.110190","article-title":"Phosphatidic acid promotes the activation and plasma membrane localization of MKK7 and MKK9 in response to salt stress","volume":"287","author":"Shen","year":"2019","journal-title":"Plant Sci."},{"key":"ref_58","doi-asserted-by":"crossref","first-page":"28451","DOI":"10.1038\/srep28451","article-title":"Critical role of COI1-dependent jasmonate pathway in AAL toxin induced PCD in tomato revealed by comparative proteomics","volume":"6","author":"Zhang","year":"2016","journal-title":"Sci. Rep."},{"key":"ref_59","doi-asserted-by":"crossref","first-page":"482","DOI":"10.1093\/mp\/ssn013","article-title":"Kunitz trypsin inhibitor: An antagonisti of cell death triggered by photpathogens and fumonisin B1 in Arabidopsis","volume":"1","author":"Li","year":"2008","journal-title":"Mol. Plant"},{"key":"ref_60","doi-asserted-by":"crossref","first-page":"1127","DOI":"10.1111\/pce.12905","article-title":"A ROP2-RIC1 pathway fine-tunes microtubule reorganization for salt tolerance in Arabidopsis","volume":"40","author":"Li","year":"2018","journal-title":"Plant Cell Environ."},{"key":"ref_61","doi-asserted-by":"crossref","first-page":"941","DOI":"10.1016\/j.plaphy.2008.06.011","article-title":"Plant pathogenesis-related (PR) proteins: A focus on PR peptides","volume":"46","author":"Sels","year":"2008","journal-title":"Plant Physiol. Biochem."},{"key":"ref_62","doi-asserted-by":"crossref","unstructured":"Jing, W., Uddin, S., Chakraborty, R., Van Anh, D.T., Macoy, D.M., Park, S.O., Ryu, G.R., Kim, Y.H., Cha, J., and Kim, W.-Y. (2020). Molecular characterization of HEXOKINASE1 in plant innate immunity. Appl. Biol. Chem., 63.","DOI":"10.1186\/s13765-020-00560-8"},{"key":"ref_63","doi-asserted-by":"crossref","first-page":"2933","DOI":"10.1093\/jxb\/erp190","article-title":"Unravelling the regulatory mechanisms that modulate the MEP pathway in higher plants","volume":"60","author":"Cordoba","year":"2009","journal-title":"J. Exp. Bot."},{"key":"ref_64","doi-asserted-by":"crossref","first-page":"2055","DOI":"10.1093\/jxb\/erp073","article-title":"Complete blockage of the mevalonate pathway results in male gametophyte lethality","volume":"60","author":"Suzuki","year":"2009","journal-title":"J. Exp. Bot."},{"key":"ref_65","doi-asserted-by":"crossref","unstructured":"Oliva, M., Guy, A., Galili, G., Dor, E., Schweitzer, R., Amir, R., and Hacham, Y. (2021). Enhanced production of aromatic amino acids in tobacco plants leads to increased phenylpropanoid metabolites and tolerance to stresses. Front. Plant Sci., 11.","DOI":"10.3389\/fpls.2020.604349"},{"key":"ref_66","doi-asserted-by":"crossref","first-page":"1630","DOI":"10.1111\/pce.13518","article-title":"The role of amino acid metabolism during abiotic stress release","volume":"42","author":"Heinemann","year":"2019","journal-title":"Plant Cell Environ."},{"key":"ref_67","doi-asserted-by":"crossref","first-page":"263","DOI":"10.1002\/cppb.20012","article-title":"Virus-Induced Gene Silencing and Transient Gene Expression in Soybean (Glycine max) Using Bean Pod Mottle Virus Infectious Clones","volume":"1","author":"Whitham","year":"2016","journal-title":"Curr. Protoc. Plant Biol."},{"key":"ref_68","doi-asserted-by":"crossref","first-page":"194","DOI":"10.1094\/MPMI-08-10-0187","article-title":"Functional analysis of the Asian soybean rust resistance pathway mediated by Rpp2","volume":"24","author":"Pandey","year":"2011","journal-title":"Mol. Plant-Microbe Interact."},{"key":"ref_69","doi-asserted-by":"crossref","first-page":"2063","DOI":"10.1080\/01904169209364459","article-title":"Detailed method to screen dicot cultivars for resistance to Fe-chlorosis using FeDTPA and bicarbonate in nutrient solutions","volume":"15","author":"Chaney","year":"1992","journal-title":"J. Plant Nutr."},{"key":"ref_70","unstructured":"Andrews, S. (2010). FastQC: A Quality Control Tool for High Throughput Sequence Data, Babraham Bioinformatics."},{"key":"ref_71","doi-asserted-by":"crossref","first-page":"2114","DOI":"10.1093\/bioinformatics\/btu170","article-title":"Trimmomatic: A flexible trimmer for Illunina sequence data","volume":"30","author":"Bolger","year":"2014","journal-title":"Bioinformatics"},{"key":"ref_72","doi-asserted-by":"crossref","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":"Nat. Methods"},{"key":"ref_73","doi-asserted-by":"crossref","first-page":"1338","DOI":"10.12688\/f1000research.15931.1","article-title":"FastQ Screen: A tool for multi-genome mapping nd quality control (version 0.14.1)","volume":"7","author":"Wingett","year":"2018","journal-title":"F1000Research"},{"key":"ref_74","doi-asserted-by":"crossref","first-page":"2078","DOI":"10.1093\/bioinformatics\/btp352","article-title":"The sequence alignment\/map format and SAMtools","volume":"25","author":"Li","year":"2009","journal-title":"Bioinformatics"},{"key":"ref_75","unstructured":"RStudio Team (2015). RStudio: Integrated Development for R, RStudio Inc."},{"key":"ref_76","first-page":"1438","article-title":"From reads to genes to pathways: Differential expression analysis of RNA-seq experiments using Rsubread and the edgeR quasi-likelihood pipeline","volume":"5","author":"Chen","year":"2016","journal-title":"F1000Research"},{"key":"ref_77","doi-asserted-by":"crossref","first-page":"139","DOI":"10.1093\/bioinformatics\/btp616","article-title":"edgeR: A Bioconductor package for differential expression analysis of digital gene expression data","volume":"26","author":"Robinson","year":"2010","journal-title":"Bioinformatics"},{"key":"ref_78","doi-asserted-by":"crossref","first-page":"D165","DOI":"10.1093\/nar\/gkab1113","article-title":"JASPAR 2022: The 9th release of the open-access database of transcription factor binding profiles","volume":"50","author":"Rauluseviciute","year":"2022","journal-title":"Nucleic Acids Res."}],"container-title":["International Journal of Molecular Sciences"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/www.mdpi.com\/1422-0067\/25\/21\/11480\/pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2025,10,10]],"date-time":"2025-10-10T16:20:41Z","timestamp":1760113241000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.mdpi.com\/1422-0067\/25\/21\/11480"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2024,10,25]]},"references-count":78,"journal-issue":{"issue":"21","published-online":{"date-parts":[[2024,11]]}},"alternative-id":["ijms252111480"],"URL":"https:\/\/doi.org\/10.3390\/ijms252111480","relation":{},"ISSN":["1422-0067"],"issn-type":[{"value":"1422-0067","type":"electronic"}],"subject":[],"published":{"date-parts":[[2024,10,25]]}}}