Study : Abscisic acid transcriptional response of the maize epigenetic mutant, mop1-1
Identification
Name
Abscisic acid transcriptional response of the maize epigenetic mutant, mop1-1
Identifier
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Description
MOP1-dependent and ABA-responsive pathways act within complex, connected transcriptional regulatory networks to mediate tissue-specific growth and responses to abiotic stress in maize Purpose: To identify genome-wide ABA-induced, MOP1-dependent and independent transcriptional responses Methods: mRNA profiles of Mop1 wildtype and mop1-1 mutant V3 stage maize seedlings were subjected to ABA and MS treatments for 8 hours. The trimmed sequence reads were analyzed at the gene level using HISAT2, stringite, and edgeR. Results: we mapped ~23 million, 150 bp, paired-end sequence reads per sample to the B73 version 4 maize genome and identified 3,242 genes in four pairwise-comparisons to be differentially expressed genes (DEGs) with a fold change ≥2 and FDR <0.05, 1,561 DEGs were found to be unique to one genotype/treatment comparison. Conclusions: Our study represents the first analysis of ABA in maize seedlings in the RdDM (mop1-1) mutant, with biological replicates, and generated by RNA-seq technology. We identified common targets of MOP1 and ABA transcriptional regulation. Overall design: RNA-seq and Sequence Capture Bisulfite-seq was preformed on homozgyous Mop1 wildtype and mop1-1 mutant V3 seedling shoots with and without exogenous 50 µM ABA treatment for 7 (SeqCap) or 8 hours (RNA-seq).
Data files
- SRR9200712
- SRR9200711
- SRR9200721
- SRR9200714
- SRR9200713
- SRR9200720
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- SRR9200717
- SRR9200716
- SRR9200715
- SRR9623753
- SRR9623752
- SRR9623751
- SRR9623750
- SRR9623749
- SRR9623748
- ERZ1376467
- ERZ1376456
- ERZ1376471
- ERZ1376462
- ERZ1376464
- ERZ1376466
- ERZ1376457
- ERZ1376460
- ERZ1376461
- ERZ1376463
- ERZ1375161
Genotype
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