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A de novo transcriptome analysis revealed that photomorphogenic genes are required for carotenoid synthesis in the dark-grown carrot taproot.
Molecular Genetics and Genomics ( IF 3.1 ) Pub Date : 2020-07-12 , DOI: 10.1007/s00438-020-01707-4
Daniela Arias 1 , Jonathan Maldonado 2 , Herman Silva 2 , Claudia Stange 1
Affiliation  

Carotenoids are terpenoid pigments synthesized by all photosynthetic and some non-photosynthetic organisms. In plants, these lipophilic compounds are involved in photosynthesis, photoprotection, and phytohormone synthesis. In plants, carotenoid biosynthesis is induced by several environmental factors such as light including photoreceptors, such as phytochromes (PHYs) and negatively regulated by phytochrome interacting factors (PIFs). Daucus carota (carrot) is one of the few plant species that synthesize and accumulate carotenoids in the storage root that grows in darkness. Contrary to other plants, light inhibits secondary root growth and carotenoid accumulation suggesting the existence of new mechanisms repressed by light that regulate both processes. To identify genes induced by dark and repressed by light that regulate carotenoid synthesis and carrot root development, in this work an RNA-Seq analysis was performed from dark- and light-grown carrot roots. Using this high-throughput sequencing methodology, a de novo transcriptome model with 63,164 contigs was obtained, from which 18,488 were differentially expressed (DEG) between the two experimental conditions. Interestingly, light-regulated genes are preferably expressed in dark-grown roots. Enrichment analysis of GO terms with DEGs genes, validation of the transcriptome model and DEG analysis through qPCR allow us to hypothesize that genes involved in photomorphogenesis and light perception such as PHYA, PHYB, PIF3, PAR1, CRY2, FYH3, FAR1 and COP1 participate in the synthesis of carotenoids and carrot storage root development.



中文翻译:

从头转录组分析显示,在黑暗生长的胡萝卜主根中,类胡萝卜素合成需要光形态发生基因。

类胡萝卜素是由所有光合生物和一些非光合生物合成的萜类色素。在植物中,这些亲脂性化合物参与光合作用,光保护和植物激素的合成。在植物中,类胡萝卜素的生物合成是由几种环境因素诱导的,例如光,包括光感受器(例如植物色素),并受到植物色素相互作用因子(PIF)的负调控。胡萝卜(胡萝卜)是少数在黑暗中生长的贮藏根中合成和积累类胡萝卜素的植物之一。与其他植物相反,光抑制次级根的生长和类胡萝卜素的积累,表明存在受光抑制的调节这两个过程的新机制。为了鉴定由黑暗诱导和受光抑制的基因,它们调节类胡萝卜素的合成和胡萝卜根的发育,在这项工作中,从黑暗和光生的胡萝卜根中进行了RNA-Seq分析。使用这种高通量测序方法,获得了具有63,164个重叠群的从头转录组模型,从中可以在两个实验条件之间差异表达(DEG)18488个。有趣的是,光调节基因优选在深色生长的根中表达。PHYA,PHYB,PIF3,PAR1,CRY2,FYH3,FAR1COP1参与类胡萝卜素的合成和胡萝卜贮藏根的发育。

更新日期:2020-07-13
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