Autophagy involves massive degradation of intracellular components and functions as a conserved system that helps cells to adapt to adverse conditions. In mammals, hypoxia rapidly stimulates autophagy as a cell survival response. Here, we examine the function of autophagy in the regulation of the plant response to submergence, an abiotic stress that leads to hypoxia and anaerobic respiration in plant cells. In Arabidopsis thaliana, submergence induces the transcription of autophagy-related (ATG) genes and the formation of autophagosomes. Consistent with this, the autophagy-defective (atg) mutants are hypersensitive to submergence stress and treatment with ethanol, the end product of anaerobic respiration. Upon submergence, the atg mutants have increased levels of transcripts of anaerobic respiration genes (alcohol dehydrogenase 1, ADH1 and pyruvate decarboxylase 1, PDC1), but reduced levels of transcripts of other hypoxia- and ethylene-responsive genes. Both submergence and ethanol treatments induce the accumulation of reactive oxygen species (ROS) in the rosettes of atg mutants more than in the wild type. Moreover, the production of ROS by the nicotinamide adenine dinucleotide phosphate (NADPH) oxidases is necessary for plant tolerance to submergence and ethanol, submergence-induced expression of ADH1 and PDC1, and activation of autophagy. The submergence- and ethanol-sensitive phenotypes in the atg mutants depend on a complete salicylic acid (SA) signaling pathway. Together, our findings demonstrate that submergence-induced autophagy functions in the hypoxia response in Arabidopsis by modulating SA-mediated cellular homeostasis.

Submergence induces hypoxia in plants; exposure to oxygen following submergence, termed reoxygenation, produces a burst of reactive oxygen species. The mechanisms of hypoxia sensing and signaling in plants have been well studied, but how plants respond to reoxygenation remains unclear. Here, we show that reoxygenation in Arabidopsis () involves rapid accumulation of jasmonates (JAs) and increased transcript levels of JA biosynthesis genes. Application of exogenous methyl jasmonate improved tolerance to reoxygenation in wild-type Arabidopsis; also, mutants deficient in JA biosynthesis and signaling were very sensitive to reoxygenation. Moreover, overexpression of the transcription factor gene enhanced tolerance to posthypoxic stress, and knockout mutants showed increased sensitivity to reoxygenation, indicating that MYC2 functions as a key regulator in the JA-mediated reoxygenation response. MYC2 transcriptionally activates members of the () and () gene families, which encode rate-limiting enzymes in the ascorbate and glutathione synthesis pathways. Overexpression of and in the mutant suppressed the posthypoxic hypersensitive phenotype. The JA-inducible accumulation of antioxidants may alleviate oxidative damage caused by reoxygenation, improving plant survival after submergence. Taken together, our findings demonstrate that JA signaling interacts with the antioxidant pathway to regulate reoxygenation responses in Arabidopsis.

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Jasmonate (JA) regulates plant development, mediates defense responses, and induces anthocyanin biosynthesis as well. Previously, we isolated the psc1 mutant that partially suppressed coi1 insensitivity to JA, and found that brassinosteroid (BR) was involved in JA signaling and negatively regulated JA inhibition of root growth in Arabidopsis. In this study it was shown that JA-induced anthocyanin accumulation was reduced in BR mutants or in wild type treated with brassinazole, an inhibitor of BR biosynthesis, whereas it was induced by an application of exogenous BR. It was also shown that the 'late' anthocyanin biosynthesis genes including DFR, LDOX, and UF3GT, were induced slightly by JA in the BR mutants relative to wild type. Furthermore, the expression level of JA-induced Myb/bHLH transcription factors such as PAP1, PAP2, and GL3, which are components of the WD-repeat/Myb/bHLH transcriptional complexes that mediate the 'late' anthocyanin biosynthesis genes, was lower in the BR mutants than that in wild type. These results suggested that BR affects JA-induced anthocyanin accumulation by regulating the 'late' anthocyanin biosynthesis genes and this regulation might be mediated by the WD-repeat/Myb/bHLH transcriptional complexes.

To investigate whether brassinosteroids (BR) affects cytokinin (CK)-induced anthocyanin biosynthesis, seedlings of the Arabidopsis dwarf4 (dwf4) mutants including partially suppressing coi1 (psc1) and dwf4-102, which are defective in the BR biosynthesis, and the brassinosteroid-insensitive 1-4 (bri1-4) mutant defective in BR signalling were used for the analysis of CK-induced anthocyanin accumulation and the expression of anthocyanin biosynthetic genes and WD-repeat/Myb/bHLH transcription factors. The results show that the CK-induced anthocyanin accumulation was remarkably reduced in dwf4 and bri1-4 mutants, but distinctly increased in the wild type (WT) treated with BR. Moreover, the CK-induced expressions of the late anthocyanin biosynthetic genes including dihydroflavonol reductase, leucoanthocyanidin dioxygenase, and UDP-glucose: flavonoid-3-O-glucosyl transferase were significantly reduced in bri1-4 and dwf4-102 mutants compared to WT. In addition, the expressions of transcription factors production of anthocyanin pigment 1 (PAP1), glabra 3 (GL3), and enhancer of glabra 3 (EGL3) were induced by CK in WT but not in the bri1-4 and dwf4-102 mutants. These results indicate that BR enhanced the CK-induced anthocyanin biosynthesis by up-regulating the late anthocyanin biosynthetic genes and this regulation might be mediated by the transcription factors PAP1, GL3, and EGL3.