Transcriptome analysis of photoperiodic flowering in soybean.
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA219510 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR993750.fastq.gz | Fastqsanger.gz | |||
| SRR993751.fastq.gz | Fastqsanger.gz | |||
| SRR993752.fastq.gz | Fastqsanger.gz | |||
| SRR993753.fastq.gz | Fastqsanger.gz | |||
| SRR993754.fastq.gz | Fastqsanger.gz |
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Project description:A great majority of plants synchronize flowering with day length. In rice, the most important environmental cue that triggers flowering is the photoperiod. Here, we show that the s73 mutant, identified in a gamma irradiated Bahia collection, displays early flowering and photoperiodic insensitivity due to a null mutation in the SE5 gene, which encodes an enzyme implicated in phytochrome chromophore biosynthesis. s73 mutant plants showed a number of alterations in the characteristic diurnal expression patterns of master genes involved in photoperiodic control of flowering, resulting in up-regulation of Hd3a, the most important floral integrator. Ehd1, an additional rice floral activator, was also highly expressed in the s73 mutant, suggesting that SE5 represses Ehd1 in wild-type plants. Silencing of Ehd1 in both Bahia and s73 backgrounds implies that SE5 regulates Ehd1 expression. The data also indicate that SE5 confers photoperiodic sensitivity through regulation of Hd1. These results provide direct evidence that phytochromes inhibit flowering affecting both Hd1 and Ehd1 flowering pathways. Four biological replicates from each genotype (s73 mutant and Bahia wt) were labelled with Cy3 and Cy5 alternatively (2+2) following a dye-swap design. In total, 4 microarrays were hybridized. The supplementary file 'GSE16796_stat_analysis.txt' contains the final statistical analysis of study GSE16796.
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Project description:Flowering time is a critical trait to determine regional adaptation and yield of crops including soybean. Evening Complex (EC) components soybean LUX1, LUX2, and ELF3a are critical for flowering and adaptation to lower latitudes. However, the mechanisms of EC in regulating flowering time remain largely unclear in soybean. Here, we identified GmJMJ19 and GmJMJ20 gene paralogs encoding JmjC-domain containing proteins, which co-express and interact with GmLUX2. In vitro and in vivo assays demonstrate that GmJMJ19 and GmJMJ20 bind to histone, but lack histone demethylase activity. Notably, simultaneous mutation of GmJMJ19 and GmJMJ20 causes delayed flowering time. Further transcriptomic, CUT&Tag and ChIP-seq analyses show that GmJMJ19/20 and GmLUX2 primarily co-repress transcription of 168 genes, which are not associated with the alternation of examined histone methylation state. Strikingly, we identify that the direct repression of GmSVP by GmJMJ19/20-GmLUX2 module is independent of the classical EC-E1 pathway. Interestingly, haplotype analyses support the idea that GmJMJ19 might undergo selection during soybean expansion to lower latitude. In summary, our findings reveal a mechanistic insight of GmJMJ19/20-GmLUX2 into flowering time control beyond EC complex in plants and also provide resources for improving soybean adaptability through molecular breeding.
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