Comprehensive characterization of a time-course transcriptional response induced by autotoxins in XXXX using RNA-Seq.

@entity13266 @entity3096 @entity26 @entity4373 @entity1234 @entity9245 @entity1521 @entity9052 @entity224
BACKGROUND: As a valuable medicinal plant, the yield of @entity9052 is seriously affected by autotoxicity, which is a common phenomenon due to continuous cropping. However, the mechanism of autotoxicity in @entity9052 is still unknown. RESULTS: In total, high throughput sequencing of 18 RNA-Seq libraries produced 996,000 000 100-nt reads that were assembled into 72,732 contigs. Compared with control, 3697 and 2828 genes were significantly up- and down-regulated across different tissues and time points, respectively. Gene Ontology enrichment analysis showed that 'enzyme inhibitor activity', 'carboxylesterase activity', 'pectinesterase activity', 'centrosome cycle and duplication' and 'mitotic spindle elongation' were enriched for the up-regulated genes. Transcription factors including AP2s/ERFs, MYBs, and WRKYs were up-regulated in roots after @entity13266 treatment. Moreover, reactive @entity26 species, peroxidases and @entity224 dismutase contigs were up-regulated in roots after @entity13266 treatment. Physiological and biochemical indexes showed that the @entity1521 and @entity1234 content were restored to lower levels at a later stage after @entity13266 treatment. @entity13266 inhibited the root hair development in a dose-dependent manner, and several differential expressed genes potentially involved in hair development were identified. Several key contigs in the @entity3096 and @entity9245 biosynthesis pathways were repressed. Finally, 58,518 @entity4373 ( @entity4373 ) events from 12,950 genes were found after @entity13266 treatment. Interestingly, contigs in the @entity9245 biosynthetic pathway underwent @entity4373 , providing useful information about post-transcriptional regulation in @entity9052 . CONCLUSIONS: This study revealed the stress-response molecular mechanisms in @entity9052 induced by @entity13266 .
