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Transcriptome analysis of alternative splicing under ABA exposure in osfkbp20-1b mutant compared to wild-type (ZH11) of rice

ABSTRACT: Transcriptome analysis of alternative splicing under ABA exposure in osfkbp20-1b mutant compared to wild-type (ZH11) of rice

PROVIDER: PRJNA811153 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR18166208_1.fastq.gz	Fastqsanger.gz
	SRR18166208_2.fastq.gz	Fastqsanger.gz
	SRR18166209_1.fastq.gz	Fastqsanger.gz
	SRR18166209_2.fastq.gz	Fastqsanger.gz
	SRR18166210_1.fastq.gz	Fastqsanger.gz

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Transcriptome analysis of alternative splicing under ABA exposure in osfkbp20-1b mutant compared to wild-type (ZH11) of rice

Project description:To investigate whether observed changes in pre-mRNA splicing led to OsFKBP20-1b depletion, we analyzed RNA-seq to identify the quantitative profiling and alternative splicing

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JAZ1 attenuates drought resistance by regulating JA and ABA signaling in rice

Project description:Jasmonates (JA) and abscisic acid (ABA) are phytohormones known to play important roles in plant response and adaptation to various abiotic stresses including salinity, drought, wounding, and cold. JAZ (JASMONATE ZIM-domain) proteins have been reported to play negative roles in JA signaling. However, direct evidence is still lacking that JAZ proteins regulate drought resistance. In this study, OsJAZ1 was investigated for its role in drought resistance in rice. Expression of OsJAZ1 was strongly responsive to JA treatment, and it was slightly responsive to ABA, salicylic acid, and abiotic stresses including drought, salinity, and cold. The OsJAZ1-overexpression rice plants were more sensitive to drought stress treatment than the wild-type rice Zhonghua 11 (ZH11) at both the seedling and reproductive stages, while the jaz1 T-DNA insertion mutant plants showed increased drought tolerance compared to the wild-type plants. The OsJAZ1-overexpression plants were hyposensitive to MeJA and ABA, whereas the jaz1 mutant plants were hypersensitive to MeJA and ABA. In addition, there were significant differences in shoot and root length between the OsJAZ1 transgenic and wild-type plants under the MeJA and ABA treatments. A subcellular localization assay indicated that OsJAZ1 was localized in both the nucleus and cytoplasm. Transcriptome profiling analysis by RNA-seq revealed that the expression levels of many genes in the ABA and JA signaling pathways exhibited significant differences between the OsJAZ1-overexpression plants and wild-type ZH11 under drought stress treatment. Quantitative real-time PCR confirmed the expression profiles of some of the differentially expressed genes, including OsNCED4, OsLEA3, RAB21, OsbHLH006, OsbHLH148, OsDREB1A, OsDREB1B, SNAC1, and OsCCD1. These results together suggest that OsJAZ1 plays a role in regulating the drought resistance of rice partially via the ABA and JA pathways.

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Differentially expressed genes in B-1b compared to B-1a

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Differentially expressed genes in B-1b compared to B-1a

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Transcriptome profile of rice genotypes ZH11 and Oseds1 by inoculation with Xanthomonas oryzae pv. oryzae

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SKIP regulates ABA-mediated alternative splicing and its signaling in Arabidopsis

Project description:Abscisic acid (ABA) plays a key role in plant development and responses to abiotic stress. A wide number of regulatory mechanisms on ABA perception and signaling are known, including transcriptional regulation and post-translational regulations; however, less to know about the post-transcriptional regulations. In this work, we have found that SKIP, a splicing factor in spliceosome, positively regulates ABA signal transduction. Mutation of SKIP, skip-1, confers ABA insensitive phenotype in seed germination, root growth, and ABA-responsive gene expression. Transformation of SKIP genomic DNA to skip-1 is able to recover its defects. SKIP binds to the pre-mRNA of genes in ABA signaling, such as PYL8, to regulate their splicing. The alternative splicing of PYL7, PYL8, ABF2, and ABI5 in ABA pathway is disrupted by skip-1, reducing the mRNA levels of them. The abnormal splicing of PP2Cs activates their transcription by skip-1, suggesting there is a feedback regulation for PP2Cs caused by skip-1. The down-regulation of PYL ABA receptors, ABF2 and ABI5 ABA response transcription factors, and the up-regulation of PP2Cs through alternative splicing reduce the plant responses to ABA in skip-1. SKIP is required for ABA-mediated genome-wide alternative splicing. ABA treatment enhances the novel splicing events in WT genome-widely. The novel alternative splicing events are increased by skip-1 in the absence and present of ABA. Our results first reveal a principle on how a splicing factor affects the ABA signaling.

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scRNAseq demonstrates distinct transcriptional response to IL-1B in mIDH2 cells as compared to wtIDH cells

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