Jones JDG, Dangl JL. The plant immune system. Nature. 2006;444:323–9.
Article
CAS
PubMed
Google Scholar
Doughari J. An overview of plant immunity. J Plant Pathol Microbiol. 2015;6:1–11.
Google Scholar
Boller T, Felix G. A renaissance of elicitors: perception of microbe-associated molecular patterns and danger signals by pattern-recognition receptors. Annu Rev Plant Biol. 2009;60:379–406.
Article
CAS
PubMed
Google Scholar
Macho AP, Zipfel C. Plant PRRs and the activation of innate immune signaling. Mol Cell. 2014;54:263–72.
Article
CAS
PubMed
Google Scholar
Cui H, Tsuda K, Parker JE. Effector-triggered immunity: from pathogen perception to robust defense. Annu Rev Plant Biol. 2015;66:487–511.
Article
CAS
PubMed
Google Scholar
Li Y, Zhang Q, Zhang J, Wu L, Qi Y, Zhou J-M. Identification of MicroRNAs involved in pathogen-associated molecular pattern-triggered plant innate immunity. Plant Physiol. 2010;152:2222–31.
Article
CAS
PubMed
PubMed Central
Google Scholar
Navarro L, Dunoyer P, Jay F, Arnold B, Dharmasiri N, Estelle M, et al. A plant miRNA contributes to antibacterial resistance by repressing Auxin signaling. Science. 2006;312:436–9.
Article
CAS
PubMed
Google Scholar
Shivaprasad PV, Chen H-M, Patel K, Bond DM, Santos BACM, Baulcombe DC. A MicroRNA superfamily regulates nucleotide binding site-Leucine-rich repeats and other mRNAs. Plant Cell. 2012;24:859–74.
Article
CAS
PubMed
PubMed Central
Google Scholar
Boccara M, Sarazin A, Thiébeauld O, Jay F, Voinnet O, Navarro L, et al. The Arabidopsis miR472-RDR6 silencing pathway modulates PAMP- and effector-triggered immunity through the post-transcriptional control of disease resistance genes. PLoS Pathog. 2014;10:e1003883.
Article
PubMed
PubMed Central
CAS
Google Scholar
Liu J, Cheng X, Liu D, Xu W, Wise R, Shen Q-H. The miR9863 family regulates distinct Mla alleles in barley to attenuate NLR receptor-triggered disease resistance and cell-death signaling. PLoS Genet. 2014;10:e1004755.
Article
PubMed
PubMed Central
CAS
Google Scholar
Li F, Pignatta D, Bendix C, Brunkard JO, Cohn MM, Tung J, et al. MicroRNA regulation of plant innate immune receptors. Proc Natl Acad Sci U S A. 2012;109:1790–5.
Article
CAS
PubMed
PubMed Central
Google Scholar
Jones-Rhoades M, Bartel D, Bartel B. MicroRNAs and their regulatory roles in plants. Annu Rev Plant Biol. 2006;57:19–53.
Article
CAS
PubMed
Google Scholar
de Lima JC, Loss-Morais G, Margis R. MicroRNAs play critical roles during plant development and in response to abiotic stresses. Genet Mol Biol. 2012;35:1069–77.
Article
PubMed
PubMed Central
Google Scholar
Li C, Zhang B. MicroRNAs in control of plant development. J Cell Physiol. 2016;231:303–13.
Article
CAS
PubMed
Google Scholar
Baldrich P, San SB. MicroRNAs in Rice innate immunity. Rice. 2016;9:1–6.
Article
Google Scholar
Chen X. A MicroRNA as a translational repressor of APETALA2 in Arabidopsis flower development. Science. 2004;303:2022–5.
Article
CAS
PubMed
Google Scholar
Paul S, Datta SK, Datta K. miRNA regulation of nutrient homeostasis in plants. Front Plant Sci. 2015;6:232.
Article
PubMed
PubMed Central
Google Scholar
Chiou T-J, Aung K, Lin S-I, Wu C-C, Chiang S-F, Su C-L. Regulation of phosphate homeostasis by MicroRNA in Arabidopsis. Plant Cell. 2006;18:412–21.
Article
CAS
PubMed
PubMed Central
Google Scholar
Liang G, Yang F, Yu D. MicroRNA395 mediates regulation of sulfate accumulation and allocation in Arabidopsis thaliana. Plant J. 2010;62:1046–57.
CAS
PubMed
Google Scholar
Abadía J. Leaf responses to Fe deficiency: a review. J Plant Nutr. 1992;15:1699–713.
Article
Google Scholar
Naranjo-Arcos MA, Bauer P. Iron Nutrition, Oxidative Stress, and Pathogen Defense. In: Erkekoglu P, Kocer-Gumusel B, editors. Nutritional Deficiency. Rijeka: InTechOpen; 2016. p. 63–98.
Dangol S, Chen Y, Hwang BK, Jwa N-S. Iron- and reactive oxygen species-dependent Ferroptotic cell death in Rice-Magnaporthe oryzae interactions. Plant Cell. 2019;31:189–209.
Article
CAS
PubMed
Google Scholar
Torres MA. ROS in biotic interactions. Physiol Plant. 2010;138:414–29.
Article
CAS
PubMed
Google Scholar
Huang H, Ullah F, Zhou D-X, Yi M, Zhao Y. Mechanisms of ROS regulation of plant development and stress responses. Front Plant Sci. 2019;10:800.
Article
PubMed
PubMed Central
Google Scholar
Marcec MJ, Gilroy S, Poovaiah BW, Tanaka K. Mutual interplay of Ca2+ and ROS signaling in plant immune response. Plant Sci. 2019;283:343–54.
Article
CAS
PubMed
Google Scholar
Waters BM, McInturf SA, Stein RJ. Rosette iron deficiency transcript and microRNA profiling reveals links between copper and iron homeostasis in Arabidopsis thaliana. J Exp Bot. 2012;63:5903–18.
Article
CAS
PubMed
PubMed Central
Google Scholar
Kong WW, Yang ZM. Identification of iron-deficiency responsive microRNA genes and cis-elements in Arabidopsis. Plant Physiol Biochem. 2010;48:153–9.
Article
CAS
PubMed
Google Scholar
Valdés-López O, Yang SS, Aparicio-Fabre R, Graham PH, Reyes JL, Vance CP, et al. MicroRNA expression profile in common bean (Phaseolus vulgaris) under nutrient deficiency stresses and manganese toxicity. New Phytol. 2010;187:805–18.
Article
PubMed
CAS
Google Scholar
Agarwal S, Mangrauthia SK, Sarla N. Expression profiling of iron deficiency responsive microRNAs and gene targets in rice seedlings of Madhukar x Swarna recombinant inbred lines with contrasting levels of iron in seeds. Plant Soil. 2015;396:137–50.
Article
CAS
Google Scholar
Paul S, Gayen D, Datta SK, Datta K. Analysis of high iron rice lines reveals new miRNAs that target iron transporters in roots. J Exp Bot. 2016;67:5811–24.
Article
CAS
PubMed
PubMed Central
Google Scholar
Yu J, Hu S, Wang J, Wong GK-S, Li S, Liu B, et al. A draft sequence of the Rice genome (Oryza sativa L. ssp. indica). Science. 2002;296:79–92.
Article
CAS
PubMed
Google Scholar
Goff SA, Ricke D, Lan T-H, Presting G, Wang R, Dunn M, et al. A draft sequence of the Rice genome (Oryza sativa L. ssp. japonica). Science. 2002;296:92–100.
Article
CAS
PubMed
Google Scholar
Wilson RA, Talbot NJ. Under pressure: investigating the biology of plant infection by Magnaporthe oryzae. Nat Rev Microbiol. 2009;7:185–95.
Article
CAS
PubMed
Google Scholar
Miura K, Ikeda M, Matsubara A, Song X-J, Ito M, Asano K, et al. OsSPL14 promotes panicle branching and higher grain productivity in rice. Nat Genet. 2010;42:545–9.
Article
CAS
PubMed
Google Scholar
Wang S, Wu K, Yuan Q, Liu X, Liu Z, Lin X, et al. Control of grain size, shape and quality by OsSPL16 in rice. Nat Genet. 2012;44:950–4.
Article
CAS
PubMed
Google Scholar
Zhang Y-C, Yu Y, Wang C-Y, Li Z-Y, Liu Q, Xu J, et al. Overexpression of microRNA OsmiR397 improves rice yield by increasing grain size and promoting panicle branching. Nat Biotechnol. 2013;31:848–52.
Article
CAS
PubMed
Google Scholar
Fang Y, Xie K, Xiong L. Conserved miR164-targeted NAC genes negatively regulate drought resistance in rice. J Exp Bot. 2014;65:2119–35.
Article
CAS
PubMed
PubMed Central
Google Scholar
Yang W, Fan T, Hu X, Cheng T, Zhang M. Overexpressing Osa-miR171c decreases salt stress tolerance in rice. J Plant Biol. 2017;60:485–92.
Article
CAS
Google Scholar
Wang S, Sun X, Hoshino Y, Yu Y, Jia B, Sun Z, et al. MicroRNA319 positively regulates cold tolerance by targeting OsPCF6 and OsTCP21 in Rice (Oryza sativa L.). PLoS One. 2014;9:e91357.
Article
PubMed
PubMed Central
CAS
Google Scholar
Baldrich P, Campo S, Wu M-T, Liu T-T, Hsing Y-IC, Segundo BS. MicroRNA-mediated regulation of gene expression in the response of rice plants to fungal elicitors. RNA Biol. 2015;12:847–63.
Article
PubMed
PubMed Central
Google Scholar
Campo S, Peris-Peris C, Siré C, Moreno AB, Donaire L, Zytnicki M, et al. Identification of a novel microRNA (miRNA) from rice that targets an alternatively spliced transcript of the Nramp6 (Natural resistance-associated macrophage protein 6) gene involved in pathogen resistance. New Phytol. 2013;199:212–27.
Article
CAS
PubMed
Google Scholar
Li Y, Lu Y-G, Shi Y, Wu L, Xu Y-J, Huang F, et al. Multiple rice microRNAs are involved in immunity against the blast fungus Magnaporthe oryzae. Plant Physiol. 2014;164:1077–92.
Article
CAS
PubMed
Google Scholar
Li Z-Y, Xia J, Chen Z, Yu Y, Li Q-F, Zhang Y-C, et al. Large-scale rewiring of innate immunity circuitry and microRNA regulation during initial rice blast infection. Sci Rep. 2016;6:25493.
Article
CAS
PubMed
PubMed Central
Google Scholar
Zhang X, Bao Y, Shan D, Wang Z, Song X, Wang Z, et al. Magnaporthe oryzae induces the expression of a MicroRNA to suppress the immune response in Rice. Plant Physiol. 2018;177:352–68.
Article
CAS
PubMed
PubMed Central
Google Scholar
Salvador-Guirao R, Hsing Y-I, San SB. The Polycistronic miR166k-166h positively regulates Rice immunity via post-transcriptional control of EIN2. Front Plant Sci. 2018;9:337.
Article
PubMed
PubMed Central
Google Scholar
Li Y, Zhao S-L, Li J-L, Hu X-H, Wang H, Cao X-L, et al. Osa-miR169 negatively regulates Rice immunity against the blast fungus Magnaporthe oryzae. Front Plant Sci. 2017;8:2.
PubMed
PubMed Central
Google Scholar
Wang Z, Xia Y, Lin S, Wang Y, Guo B, Song X, et al. Osa-miR164a targets OsNAC60 and negatively regulates rice immunity against the blast fungus Magnaporthe oryzae. Plant J. 2018;95:584–97.
Article
CAS
Google Scholar
Peris-Peris C, Serra-Cardona A, Campo S, Ariño J. Two NRAMP6 isoforms function as iron and manganese transporters and contribute to disease resistance in rice. Mol Plant-Microbe Interact. 2017;30:385–98.
Article
CAS
PubMed
Google Scholar
Hsing YI, Chern CG, Fan MJ, Lu PC, Chen KT, Lo SF, et al. A rice gene activation/knockout mutant resource for high throughput functional genomics. Plant Mol Biol. 2007;63:351–64.
Article
CAS
PubMed
Google Scholar
Wu H-P, Wei F-J, Wu C-C, Lo S-F, Chen L-J, Fan M-J, et al. Large-scale phenomics analysis of a T-DNA tagged mutant population. Gigascience. 2017;6:1–7.
Article
CAS
PubMed
PubMed Central
Google Scholar
Lo S-F, Fan M-J, Hsing Y-I, Chen L-J, Chen S, Wen I-C, et al. Genetic resources offer efficient tools for rice functional genomics research. Plant Cell Environ. 2016;39:998–1013.
Article
CAS
PubMed
Google Scholar
Agrawal GK, Rakwal R, Jwa NS, Agrawal VP. Signalling molecules and blast pathogen attack activates rice OsPR1a and OsPR1b genes: a model illustrating components participating during defence/stress response. Plant Physiol Biochem. 2001;39:1095–103.
Article
CAS
Google Scholar
Wei T, Ou B, Li J, Zhao Y, Guo D, Zhu Y, et al. Transcriptional profiling of Rice early response to Magnaporthe oryzae identified OsWRKYs as important regulators in Rice blast resistance. PLoS One. 2013;8:e59720.
Article
CAS
PubMed
PubMed Central
Google Scholar
Shimono M, Koga H, Akagi A, Hayashi N, Goto S, Sawada M, et al. Rice WRKY45 plays important roles in fungal and bacterial disease resistance. Mol Plant Pathol. 2012;13:83–94.
Article
CAS
PubMed
Google Scholar
Kaneda T, Taga Y, Takai R, Iwano M, Matsui H, Takayama S, et al. The transcription factor OsNAC4 is a key positive regulator of plant hypersensitive cell death. EMBO J. 2009;28:926–36.
Article
CAS
PubMed
PubMed Central
Google Scholar
Miyamoto K, Shimizu T, Mochizuki S, Nishizawa Y, Minami E, Nojiri H, et al. Stress-induced expression of the transcription factor RERJ1 is tightly regulated in response to jasmonic acid accumulation in rice. Protoplasma. 2013;250:241–9.
Article
CAS
PubMed
Google Scholar
Inoue H, Higuchi K, Takahashi M, Nakanishi H, Mori S, Nishizawa NK. Three rice nicotianamine synthase genes, OsNAS1, OsNAS2, and OsNAS3 are expressed in cells involved in long-distance transport of iron and differentially regulated by iron. Plant J. 2003;36:366–81.
Article
CAS
PubMed
Google Scholar
Ali S, Ganai BA, Kamili AN, Bhat AA, Mir ZA, Bhat JA, et al. Pathogenesis-related proteins and peptides as promising tools for engineering plants with multiple stress tolerance. Microbiol Res. 2018;212–213:29–37.
Article
PubMed
CAS
Google Scholar
Galeotti F, Barile E, Curir P, Dolci M, Lanzotti V. Flavonoids from carnation (Dianthus caryophyllus) and their antifungal activity. Phytochem Lett. 2008;1:44–8.
Article
CAS
Google Scholar
Miedes E, Vanholme R, Boerjan W, Molina A. The role of the secondary cell wall in plant resistance to pathogens. Front Plant Sci. 2014;5:358.
Article
PubMed
PubMed Central
Google Scholar
Kawahara Y, Oono Y, Kanamori H, Matsumoto T, Itoh T, Minami E, et al. Simultaneous RNA-Seq analysis of a mixed Transcriptome of Rice and blast fungus interaction. PLoS One. 2012;7:e49423.
Article
CAS
PubMed
PubMed Central
Google Scholar
Wang Y, Kwon SJ, Wu J, Choi J, Lee Y-H, Agrawal GK, et al. Transcriptome analysis of early responsive genes in Rice during Magnaporthe oryzae infection. Plant Pathol J. 2014;30:343–54.
Article
PubMed
PubMed Central
Google Scholar
Huang L-F, Lin K-H, He S-L, Chen J-L, Jiang J-Z, Chen B-H, et al. Multiple patterns of regulation and overexpression of a Ribonuclease-like pathogenesis-related protein gene, OsPR10a, Conferring Disease Resistance in Rice and Arabidopsis. PLoS One. 2016;11:e0156414.
Article
PubMed
PubMed Central
CAS
Google Scholar
Pereira MP, Santos C, Gomes A, Vasconcelos MW. Cultivar variability of iron uptake mechanisms in rice (Oryza sativa L.). Plant Physiol Biochem. 2014;85:21–30.
Article
CAS
PubMed
Google Scholar
Kobayashi T, Nishizawa NK. Iron uptake, translocation, and regulation in higher plants. Annu Rev Plant Biol. 2012;63:131–52.
Article
CAS
PubMed
Google Scholar
Ahuja I, Kissen R, Bones AM. Phytoalexins in defense against pathogens. Trends Plant Sci. 2012;17:73–90.
Article
CAS
PubMed
Google Scholar
Hasegawa M, Mitsuhara I, Seo S, Imai T, Koga J, Okada K, et al. Phytoalexin accumulation in the interaction between Rice and the blast fungus. Mol Plant-Microbe Interact. 2010;23:1000–11.
Article
CAS
PubMed
Google Scholar
Umemura K, Ogawa N, Shimura M, Koga J, Usami H, Kono T. Possible role of Phytocassane, Rice Phytoalexin, in disease resistance of Rice against the blast fungus Magnaporthe grisea. Biosci Biotechnol Biochem. 2003;67:899–902.
Article
CAS
PubMed
Google Scholar
Dillon VM, Overton J, Grayer RJ, Harborne JB. Differences in phytoalexin response among rice cultivars of different resistance to blast. Phytochemistry. 1997;44:599–603.
Article
CAS
Google Scholar
Hood MI, Skaar EP. Nutritional immunity: transition metals at the pathogen-host interface. Nat Rev Microbiol. 2012;10:525–37.
Article
CAS
PubMed
Google Scholar
Pereira EG, Oliva MA, Rosado-Souza L, Mendes GC, Colares DS, Stopato CH, et al. Iron excess affects rice photosynthesis through stomatal and non-stomatal limitations. Plant Sci. 2013;201–202:81–92.
Article
PubMed
CAS
Google Scholar
Liu G, Greenshields DL, Sammynaiken R, Hirji RN, Selvaraj G, Wei Y. Targeted alterations in iron homeostasis underlie plant defense responses. J Cell Sci. 2007;120:596.
Article
CAS
PubMed
Google Scholar
Aznar A, Patrit O, Berger A, Dellagi A. Alterations of iron distribution in Arabidopsis tissues infected by Dickeya dadantii. Mol Plant Pathol. 2015;16:521–8.
Article
CAS
PubMed
PubMed Central
Google Scholar
Ricachenevsky FK, Sperotto RA. There and back again, or always there? The evolution of rice combined strategy for Fe uptake. Front Plant Sci. 2014;5:189.
Article
PubMed
PubMed Central
Google Scholar
Conrath U, Beckers GJM, Langenbach CJG, Jaskiewicz MR. Priming for enhanced defense. Annu Rev Phytopathol. 2015;53:97–119.
Article
CAS
PubMed
Google Scholar
Selitrennikoff CP. Antifungal proteins. Appl Environ Microbiol. 2001;67:2883–94.
Article
CAS
PubMed
PubMed Central
Google Scholar
Almagro L, Gómez Ros LV, Belchi-Navarro S, Bru R, Ros Barceló A, Pedreño MA. Class III peroxidases in plant defence reactions. J Exp Bot. 2009;60:377–90.
Article
CAS
PubMed
Google Scholar
Cho M-H, Lee S-W. Phenolic Phytoalexins in Rice: biological functions and biosynthesis. Int J Mol Sci. 2015;16:29120.
Article
CAS
PubMed
PubMed Central
Google Scholar
Dixon RA, Achnine L, Kota P, Liu C-J, Reddy MSS, Wang L. The phenylpropanoid pathway and plant defence-a genomics perspective. Mol Plant Pathol. 2002;3:371–90.
Article
CAS
PubMed
Google Scholar
Camargo-Ramírez R, Val-Torregrosa B, San SB. MiR858-mediated regulation of flavonoid-specific MYB transcription factor genes controls resistance to pathogen infection in Arabidopsis. Plant Cell Physiol. 2018;59:190–204.
Article
PubMed
CAS
Google Scholar
Murray MG, Thompson WF. Rapid isolation of high molecular weight plant DNA. Nucleic Acids Res. 1980;8:4321–6.
Article
CAS
PubMed
PubMed Central
Google Scholar
Yang L, Ding J, Zhang C, Jia J, Weng H, Liu W, et al. Estimating the copy number of transgenes in transformed rice by real-time quantitative PCR. Plant Cell Rep. 2005;23:759–63.
Article
CAS
PubMed
Google Scholar
Roschzttardtz H, Conejero G, Curie C, Mari S. Identification of the endodermal vacuole as the Iron storage compartment in the Arabidopsis embryo. Plant Physiol. 2009;151:1329–38.
Article
CAS
PubMed
PubMed Central
Google Scholar
Sesma A, Osbourn AE. The rice leaf blast pathogen undergoes developmental processes typical of root-infecting fungi. Nature. 2004;431:582.
Article
CAS
PubMed
Google Scholar
Coca M, Bortolotti C, Rufat M, Peñas G, Eritja R, Tharreau D, et al. Transgenic rice plants expressing the antifungal AFP protein from Aspergillus giganteus show enhanced resistance to the rice blast gungus Magnaporthe grisea. Plant Mol Biol. 2004;54:245–59.
Article
CAS
PubMed
Google Scholar
Lamari L. Assess 2.0: image analysis software for plant disease quantification. St. Paul, MN: APS Press; 2008.
Book
Google Scholar
Bolger AM, Lohse M, Usadel B. Trimmomatic: a flexible trimmer for Illumina sequence data. Bioinformatics. 2014;30:2114–20.
Article
CAS
PubMed
PubMed Central
Google Scholar
Dobin A, Davis CA, Schlesinger F, Drenkow J, Zaleski C, Jha S, et al. STAR: ultrafast universal RNA-seq aligner. Bioinformatics. 2013;29:15–21.
Article
CAS
PubMed
Google Scholar
Liao Y, Smyth GK, Shi W. FeatureCounts: an efficient general purpose program for assigning sequence reads to genomic features. Bioinformatics. 2014;30:923–30.
Article
CAS
PubMed
Google Scholar
Rau A, Gallopin M, Celeux G, Jaffrézic F. Data-based filtering for replicated high-throughput transcriptome sequencing experiments. Bioinformatics. 2013;29:2146–52.
Article
CAS
PubMed
PubMed Central
Google Scholar
Robinson MD, McCarthy DJ, Smyth GK. edgeR: a bioconductor package for differential expression analysis of digital gene expression data. Bioinformatics. 2009;26:139–40.
Article
PubMed
PubMed Central
CAS
Google Scholar
Du Z, Zhou X, Ling Y, Zhang ZH, Su Z. AgriGO: a GO analysis toolkit for the agricultural community. Nucleic Acids Res. 2010;38:W64–70.
Article
CAS
PubMed
PubMed Central
Google Scholar
Supek F, Bosnjak M, Skunca N, Smuc T. REVIGO summarizes and visualizes long lists of gene ontology terms. PLoS One. 2011;6:1–9.
Article
CAS
Google Scholar
Miyamoto K, Fujita M, Shenton MR, Akashi S, Sugawara C, Sakai A, et al. Evolutionary trajectory of phytoalexin biosynthetic gene clusters in rice. Plant J. 2016;87:293–304.
Article
CAS
PubMed
Google Scholar