De-novo RNA sequencing and metabolite profiling to identify genes involved in anthocyanin biosynthesis in Korean black raspberry (Rubus coreanus Miquel).
De-novo RNA sequencing and metabolite profiling to identify genes involved in anthocyanin biosynthesis in Korean black raspberry (Rubus coreanus Miquel).
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DOI：
10.1371/journal.pone.0088292
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发表时间：
2014
期刊：
影响因子：
3.7
通讯作者：
Kim JY
中科院分区：
文献类型：
--
作者：
Hyun TK;Lee S;Rim Y;Kumar R;Han X;Lee SY;Lee CH;Kim JY
成熟的韩国黑乌藨子（Rubus coreanus Miquel，KB）通常作为新鲜水果食用，而未成熟的KB已被广泛用作传统草药的来源。这种阶段特异性利用的KB已被认为是由于在果实成熟过程中代谢产物的变化，但到目前为止，其果实成熟过程中的分子和生化变化知之甚少。为了从分子水平上分析果实成熟过程中的生化变化，我们首先对KB果实的转录组进行了测序、组装和注释。使用Illumina HiSeq™ 2000对从果实制备的超过4.86Gb的标准化cDNA进行测序，并组装成43，723个单基因。其次，我们已经报道了花色素苷和原花色素的变化是促进水果这些阶段变化的主要因素。此外，F3′H1、DFR 4和LDOX 1的表达上调导致了KB成熟过程中花青素衍生物的积累，表明花青素生物合成基因的表达与花青素积累呈正相关。此外，RcMCHI 2（R. coreanus Miquel查耳酮黄烷酮异构酶2）基因与拟南芥透明种皮5突变体的互补，支持了我们的转录组文库为植物营养和色素改良提供基因资源的可行性。总之，从转录组文库和代谢谱获得的这些数据集将有助于定义这种非模式植物中的基因-代谢物关系。
The Korean black raspberry (Rubus coreanus Miquel, KB) on ripening is usually consumed as fresh fruit, whereas the unripe KB has been widely used as a source of traditional herbal medicine. Such a stage specific utilization of KB has been assumed due to the changing metabolite profile during fruit ripening process, but so far molecular and biochemical changes during its fruit maturation are poorly understood. To analyze biochemical changes during fruit ripening process at molecular level, firstly, we have sequenced, assembled, and annotated the transcriptome of KB fruits. Over 4.86 Gb of normalized cDNA prepared from fruits was sequenced using Illumina HiSeq™ 2000, and assembled into 43,723 unigenes. Secondly, we have reported that alterations in anthocyanins and proanthocyanidins are the major factors facilitating variations in these stages of fruits. In addition, up-regulation of F3′H1, DFR4 and LDOX1 resulted in the accumulation of cyanidin derivatives during the ripening process of KB, indicating the positive relationship between the expression of anthocyanin biosynthetic genes and the anthocyanin accumulation. Furthermore, the ability of RcMCHI2 (R. coreanus Miquel chalcone flavanone isomerase 2) gene to complement Arabidopsis transparent testa 5 mutant supported the feasibility of our transcriptome library to provide the gene resources for improving plant nutrition and pigmentation. Taken together, these datasets obtained from transcriptome library and metabolic profiling would be helpful to define the gene-metabolite relationships in this non-model plant.
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影响因子：
4.4
作者：
Deluc LG;Grimplet J;Wheatley MD;Tillett RL;Quilici DR;Osborne C;Schooley DA;Schlauch KA;Cushman JC;Cramer GR
通讯作者：
Cramer GR
影响因子：
2.3
作者：
Eriksson, T;Hibbs, MS;Donoghue, MJ
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影响因子：
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作者：
Bushakra, J. M.;Stephens, M. J.;Gardiner, S. E.
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Gardiner, S. E.
影响因子：
11.6
作者：
Centeno, Danilo C.;Osorio, Sonia;Fernie, Alisdair R.
通讯作者：
Fernie, Alisdair R.
DOI：
10.1073/pnas.0602319103
发表时间：
2006-05-16
影响因子：
11.1
作者：
Barry, Cornelius S.;Giovannoni, James J.
通讯作者：
Giovannoni, James J.