Analysis of global gene expression profiles to identify differentially expressed genes critical for embryo development in Brassica rapa
Analysis of global gene expression profiles to identify differentially expressed genes critical for embryo development in Brassica rapa
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分析全局基因表达谱，以确定对白菜胚胎发育至关重要的差异表达基因
DOI：
10.1007/s11103-014-0238-1
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发表时间：
2014-09
影响因子：
5.1
通讯作者：
Wang JB
中科院分区：
文献类型：
--
作者：
Zhang Y;Peng LF;Wu Y;Shen YY;Wu XM;Wang JB
胚胎发育是开花植物生命周期中的一个重要发育阶段。为了深入了解控制芜菁胚胎发育的遗传程序，RNA测序技术用于B的转录组谱分析。发育中的胚胎。结果产生了与32，941个基因比对的42，906，229个序列读数。总共，27，760，28，871，28，384和25，653基因分别从球形，心脏，早期子叶和成熟发育阶段的胚胎中鉴定出来，并且阶段之间的分析揭示了阶段特异性基因的子集。接下来，我们研究了9，884个差异表达基因，其中表达变化超过5倍，并且来自三个相邻阶段比较的错误发现率≤ 0.001;在球形和心形胚胎文库之间、心形阶段和早期子叶阶段之间以及早期子叶和成熟阶段之间分别检测到1，514、3，831和6，633个基因。在胚胎发育的早中期，大量与细胞过程、代谢过程、刺激反应和生物学过程相关的基因表达。脂肪酸合成、次生代谢产物合成和光合作用相关基因主要在中期胚中表达。脂肪代谢和贮藏蛋白基因在胚胎发育的中后期高表达。我们还鉴定了911个转录因子基因，这些基因在胚胎发育阶段表现出差异表达。这些结果增加了我们对B胚胎发育过程中复杂分子和细胞事件的理解。并为今后其他油料作物的研究提供了基础。
Embryo development represents a crucial developmental period in the life cycle of flowering plants. To gain insights into the genetic programs that control embryo development in Brassica rapa L., RNA sequencing technology was used to perform transcriptome profiling analysis of B. rapa developing embryos. The results generated 42,906,229 sequence reads aligned with 32,941 genes. In total, 27,760, 28,871, 28,384, and 25,653 genes were identified from embryos at globular, heart, early cotyledon, and mature developmental stages, respectively, and analysis between stages revealed a subset of stage-specific genes. We next investigated 9,884 differentially expressed genes with more than fivefold changes in expression and false discovery rate ≤ 0.001 from three adjacent-stage comparisons; 1,514, 3,831, and 6,633 genes were detected between globular and heart stage embryo libraries, heart stage and early cotyledon stage, and early cotyledon and mature stage, respectively. Large numbers of genes related to cellular process, metabolism process, response to stimulus, and biological process were expressed during the early and middle stages of embryo development. Fatty acid biosynthesis, biosynthesis of secondary metabolites, and photosynthesis-related genes were expressed predominantly in embryos at the middle stage. Genes for lipid metabolism and storage proteins were highly expressed in the middle and late stages of embryo development. We also identified 911 transcription factor genes that show differential expression across embryo developmental stages. These results increase our understanding of the complex molecular and cellular events during embryo development in B. rapa and provide a foundation for future studies on other oilseed crops.
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DOI：
10.1007/s00438-012-0718-4
发表时间：
2012-10
期刊：
Molecular genetics and genomics : MGG
影响因子：
--
作者：
Mun JH;Yu HJ;Shin JY;Oh M;Hwang HJ;Chung H
通讯作者：
Chung H
甘蓝胚胎发生过程中差异表达基因的鉴定。
影响因子：
2.6
作者：
Li WL;Zhao Q;Tao P;Wang JB
通讯作者：
Wang JB
影响因子：
4.4
作者：
Basnet RK;Moreno-Pachon N;Lin K;Bucher J;Visser RG;Maliepaard C;Bonnema G
通讯作者：
Bonnema G
转录谱分析揭示了棉花体细胞胚胎发生过程中去分化和再分化过程中复杂的生长素信号通路和转录调控
影响因子：
5.3
作者：
Yang X;Zhang X;Yuan D;Jin F;Zhang Y;Xu J
通讯作者：
Xu J
使用 RNA-Seq 方法追踪芸苔属合成三基因组异源六倍体的转录组变化
影响因子：
3.7
作者：
Zhao Q;Zou J;Meng J;Mei S;Wang J
通讯作者：
Wang J