Abscisic Acid Deficiency Antagonizes High-Temperature Inhibition of Disease Resistance through Enhancing Nuclear Accumulation of Resistance Proteins SNC1 and RPS4 in <i>Arabidopsis</i>

Mang, Hyunggon; Qian, Weiqiang; Zhu, Ying; Qian, Jun; Kang, Hong-Gu; Klessig, Daniel F.; Hua, Jian

doi:10.1105/tpc.112.096198

Cited by 109 publications

(125 citation statements)

References 76 publications

(87 reference statements)

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“…When the snc1-1 plants grown at 22°were sprayed with 10 mM of ABA twice a day for 3 days at 3 weeks old, these plants were much larger 2 weeks later than the snc1-1 sprayed only with buffer control ( Figure 3F). This effect is consistent with the earlier finding that ABA application decreased nuclear accumulation of SNC1 proteins (Mang et al 2012). …”

supporting

confidence: 93%

Section: Isolation Of Temperature-insensitive Disease Resistance Mutantsmentioning

confidence: 99%

“…Our prior study on the int102 mutant finds that the TIR-NB-LRR protein SNC1 is the component that confers temperature sensitivity to disease resistance mediated by SNC1 (Zhu et al 2010). Study of another mutant int173 reveals that mutations in the ABA2 (ABA Deficient 2) gene enhanced disease resistance mediated by SNC1 and another R gene RPS4 (Resistance to Pseudomonas Syringae 4) at high temperature (Mang et al 2012).To further investigate the regulation of plant immunity by temperature, we characterized two additional int mutants: int70 and int28. Unlike the snc1-1 plant that is dwarf at 22°but wild type at 28°, the int70 snc1-1 double mutant showed a dwarf phenotype at both 22°and 28°( Figure 1A) and a similar growth phenotype was found in int28 snc1-1.…”

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confidence: 99%

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Gene Discovery Using Mutagen-Induced Polymorphisms and Deep Sequencing: Application to Plant Disease Resistance

Zhu

Mang²,

Sun

et al. 2012

Genetics

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Next-generation sequencing technologies are accelerating gene discovery by combining multiple steps of mapping and cloning used in the traditional map-based approach into one step using DNA sequence polymorphisms existing between two different accessions/strains/backgrounds of the same species. The existing next-generation sequencing method, like the traditional one, requires the use of a segregating population from a cross of a mutant organism in one accession with a wild-type (WT) organism in a different accession. It therefore could potentially be limited by modification of mutant phenotypes in different accessions and/or by the lengthy process required to construct a particular mapping parent in a second accession. Here we present mapping and cloning of an enhancer mutation with next-generation sequencing on bulked segregants in the same accession using sequence polymorphisms induced by a chemical mutagen. This method complements the conventional cloning approach and makes forward genetics more feasible and powerful in molecularly dissecting biological processes in any organisms. The pipeline developed in this study can be used to clone causal genes in background of single mutants or higher order of mutants and in species with or without sequence information on multiple accessions. ISOLATING causal genes is essential for the understanding of biological processes that mutations in these genes affect. When a mutant phenotype is generated by insertion of a tag (such as a transposon or a T-DNA) in the genome, the causal gene can be identified through isolating sequences flanking the tag. When it is a result of nucleotide sequence change, deletion/insertion, or an epimodification of nucleotide, the causal genes can be identified by their chromosomal locations or maps on the basis of molecular markers linked to these mutations. In the latter case, the mutant organism in an accession/strain/background is crossed to a wild-type (WT) organism in a different accession to generate a population where both the causal mutation and the DNA sequence polymorphisms between the two accessions are segregating. By identifying polymorphisms that are tightly associated with the mutant phenotype, a map position (chromosome location) of the mutation can be defined and candidate mutations can be identified through sequencing the mutation region (Lukowitz et al. 2000;Jander et al. 2002;Peters et al. 2003). This method has been widely used in diverse organisms such as Drosophila melanogaster and Caenorhabditis elegans. The past two decades have also seen an explosion of use of such map-based cloning in plants to identify important genes in various processes that range from growth and development to biotic and abiotic responses.Despite being a powerful approach in gene discovery, the classical map-based cloning has several limitations. First, it is dependent on the availability of molecular polymorphisms between genomes of the two accessions. Second, this method is traditionally labor intensive because many mutant plants (often...

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supporting

confidence: 93%

Section: Isolation Of Temperature-insensitive Disease Resistance Mutantsmentioning

confidence: 99%

mentioning

confidence: 99%

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Gene Discovery Using Mutagen-Induced Polymorphisms and Deep Sequencing: Application to Plant Disease Resistance

Zhu

Mang²,

Sun

et al. 2012

Genetics

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“…Subcellular fractionation and fluorescence spectrometry. Enrichment of plant nuclei was performed as previously described 60 . For fluorescence spectrometry, the protein solution of purified CRT1 was adjusted to a concentration of 10 mg ml À 1 .…”

Section: Methodsmentioning

confidence: 99%

CRT1 is a nuclear-translocated MORC endonuclease that participates in multiple levels of plant immunity

et al. 2012

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Arabidopsis thaliana CRT1 (compromised for recognition of Turnip Crinkle Virus) was previously shown to be required for effector-triggered immunity. Sequence analyses previously revealed that CRT1 contains the ATPase and S5 domains characteristic of Microchidia (MORC) proteins; these proteins are associated with DNA modification and repair. Here we show that CRT1 and its closest homologue, CRH1, are also required for pathogen-associated molecular pattern (PAMP)-triggered immunity, basal resistance, nonhost resistance and systemic acquired resistance. Consistent with its role in PAMP-triggered immunity, CRT1 interacted with the PAMP recognition receptor FLS2. Subcellular fractionation and transmission electron microscopy detected a subpopulation of CRT1 in the nucleus, whose levels increased following PAMP treatment or infection with an avirulent pathogen. These results, combined with the demonstration that CRT1 binds DNA, exhibits endonuclease activity, and affects tolerance to the DNA-damaging agent mitomycin C, argue that this prototypic eukaryotic member of the MORC superfamily has important nuclear functions during immune response activation.

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“…Thus, it was proposed that plants prioritize abiotic stress tolerance over the biotic stress response, with ABA as the molecular switch between the two responses to minimize the damage (Lee and Luan, 2012). Recently, however, contrary studies where biotic stress takes precedence have been reported (Kim et al, 2011;Mang et al, 2012;Sánchez-Vallet et al, 2012). Thus, in light of these recent developments, which revealed a rather complicated picture of multiple stress responses, we embarked on the identification of DEGs in abiotic and biotic stress environments separately and performed comparative analysis of the shared stress-responsive genes, which would provide vital clues on the causative factors behind the cross talk resulting in the observed synergistic and antagonistic regulation of known abiotic and biotic stress response pathways.…”

Section: Discussionmentioning

confidence: 99%

Machine Learning Approaches Distinguish Multiple Stress Conditions using Stress-Responsive Genes and Identify Candidate Genes for Broad Resistance in Rice

2013

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Abiotic and biotic stress responses are traditionally thought to be regulated by discrete signaling mechanisms. Recent experimental evidence revealed a more complex picture where these mechanisms are highly entangled and can have synergistic and antagonistic effects on each other. In this study, we identified shared stress-responsive genes between abiotic and biotic stresses in rice (Oryza sativa) by performing meta-analyses of microarray studies. About 70% of the 1,377 common differentially expressed genes showed conserved expression status, and the majority of the rest were down-regulated in abiotic stresses and up-regulated in biotic stresses. Using dimension reduction techniques, principal component analysis, and partial least squares discriminant analysis, we were able to segregate abiotic and biotic stresses into separate entities. The supervised machine learning model, recursive-support vector machine, could classify abiotic and biotic stresses with 100% accuracy using a subset of differentially expressed genes. Furthermore, using a random forests decision tree model, eight out of 10 stress conditions were classified with high accuracy. Comparison of genes contributing most to the accurate classification by partial least squares discriminant analysis, recursive-support vector machine, and random forests revealed 196 common genes with a dynamic range of expression levels in multiple stresses. Functional enrichment and coexpression network analysis revealed the different roles of transcription factors and genes responding to phytohormones or modulating hormone levels in the regulation of stress responses. We envisage the top-ranked genes identified in this study, which highly discriminate abiotic and biotic stresses, as key components to further our understanding of the inherently complex nature of multiple stress responses in plants.

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Abscisic Acid Deficiency Antagonizes High-Temperature Inhibition of Disease Resistance through Enhancing Nuclear Accumulation of Resistance Proteins SNC1 and RPS4 in Arabidopsis

Cited by 109 publications

References 76 publications

Gene Discovery Using Mutagen-Induced Polymorphisms and Deep Sequencing: Application to Plant Disease Resistance

Gene Discovery Using Mutagen-Induced Polymorphisms and Deep Sequencing: Application to Plant Disease Resistance

CRT1 is a nuclear-translocated MORC endonuclease that participates in multiple levels of plant immunity

Machine Learning Approaches Distinguish Multiple Stress Conditions using Stress-Responsive Genes and Identify Candidate Genes for Broad Resistance in Rice

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