De novo transcriptome sequencing and comparative analysis to discover genes related to floral development in Cymbidium faberi Rolfe.
De novo transcriptome sequencing and comparative analysis to discover genes related to floral development in Cymbidium faberi Rolfe.
复制标题
从头转录组测序和比较分析发现与蕙兰花发育相关的基因
DOI：
10.1186/s40064-016-3089-1
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发表时间：
2016
期刊：
影响因子：
--
通讯作者：
Guan S
中科院分区：
文献类型：
--
作者：
Sun Y;Wang G;Li Y;Jiang L;Yang Y;Guan S
大花蕙兰是中国传统的兰花，因其左右对称的花朵散发出的芳香而备受赞赏。C.花兰的营养生长期长，花期调控困难。此外，它的花的大小，形状和颜色往往是兰花育种家的目标性状。了解花发育的分子机制。法贝里最终将有利于这种兰花的遗传改良。本研究的目标是鉴定与C.花发育相关的潜在基因和调控网络。faberi的基因组测序、从头组装和计算机分析。C.为了进行这种比较，对蚕豆进行取样。RNA-seq产生了大约189，300个重叠群，这些重叠群被组装成172，959个单基因。此外，共13,484差异表达的unigenes（DEG）之间的营养和花芽被确定。与营养芽相比，花芽中有7683个DEG表达下调，5801个DEG表达上调，其中3430个DEG在花芽中特异性富集，6556个DEG在营养芽中特异性富集。共鉴定出173个与花器官发育、花对称性和开花时间相关的DEG，其中TCP转录因子12个，MADS-box基因34个，开花时间相关基因28个。此外，10个基因的表达水平可能参与花发育和开花时间进行了验证，通过定量实时PCR。这些DEG的鉴定将为深入研究苦碟子花发育的功能遗传学奠定基础。faberi。本文的在线版本（doi：10.1186/s40064-016-3089-1）包含补充材料，可供授权用户使用。
Cymbidium faberi is a traditional orchid flower in China that is highly appreciated for its fragrant aroma from its zygomorphic flowers. One bottleneck of the commercial production of C. faberi is the long vegetative growth phase of the orchid and the difficulty of the regulation of its flowering time. Moreover, its flower size, shape and color are often targeting traits for orchid breeders. Understanding the molecular mechanisms of floral development in C. faberi will ultimately benefit the genetic improvement of this orchid plant. The goal of this study is to identify potential genes and regulatory networks related to the floral development in C. faberi by using transcriptome sequencing, de novo assembly and computational analyses. The vegetative and flower buds of C. faberi were sampled for such comparisons. The RNA-seq yielded about 189,300 contigs that were assembled into 172,959 unigenes. Furthermore, a total of 13,484 differentially expressed unigenes (DEGs) were identified between the vegetative and flower buds. There were 7683 down-regulated and 5801 up-regulated DEGs in the flower buds compared to those in the vegetative buds, among which 3430 and 6556 DEGs were specifically enriched in the flower or vegetative buds, respectively. A total of 173 DEGs orthologous to known genes associated with the floral organ development, floral symmetry and flowering time were identified, including 12 TCP transcription factors, 34 MADS-box genes and 28 flowering time related genes. Furthermore, expression levels of ten genes potentially involved in floral development and flowering time were verified by quantitative real-time PCR. The identified DEGs will facilitate the functional genetic studies for further understanding the flower development of C. faberi. The online version of this article (doi:10.1186/s40064-016-3089-1) contains supplementary material, which is available to authorized users.
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影响因子：
64.8
作者：
Doebley, J;Stec, A;Hubbard, L
通讯作者：
Hubbard, L
DOI：
10.1073/pnas.0602827103
发表时间：
2006-06-13
影响因子：
11.1
作者：
Howarth, Dianella G.;Donoghue, Michael J.
通讯作者：
Donoghue, Michael J.
影响因子：
4.9
作者：
Hsu, HF;Huang, CH;Yang, CH
通讯作者：
Yang, CH
影响因子：
18
作者：
Hsu, Hsing-Fun;Hsu, Wei-Han;Yang, Chang-Hsien
通讯作者：
Yang, Chang-Hsien
影响因子：
3.7
作者：
Chen X;Zhang J;Liu Q;Guo W;Zhao T;Ma Q;Wang G
通讯作者：
Wang G