Genome-wide atlas of transcription during maize development
Genome-wide atlas of transcription during maize development
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DOI：
10.1111/j.1365-313x.2011.04527.x
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发表时间：
2011-05-01
期刊：
影响因子：
7.2
通讯作者：
Kaeppler, Shawn M.
中科院分区：
文献类型：
--
作者：
Sekhon, Rajandeep S.;Lin, Haining;Kaeppler, Shawn M.
P>玉米是重要的模式物种，也是人类和动物饮食的主要组成部分。由于最近全球对开发基于植物生物质的碳中性液体燃料的兴趣，它也已成为生物能源研究的潜在原料和模型系统。为了了解潜在的基因组序列如何产生特定的植物表型，有关基因的时间和空间转录模式的信息至关重要。在这里，我们展示了跨越发育阶段和植物器官的全球转录谱的综合图谱。我们使用包含 80 301 个探针组的 NimbleGen 微阵列来分析代表自交系 B73 的 11 个主要器官系统的 60 个不同组织中的转录模式。在代表过滤后的 B73 基因模型的 30 892 个探针组中，91.4% 在至少一种组织中表达。有趣的是，44.5% 的探针组在所有组织中表达，表明植物器官之间的基因表达存在显着重叠。基于全局基因表达谱的玉米组织聚类导致了生物学相关组织群的形成。我们利用该数据集来检查木质素生物合成途径中编码酶的基因的表达，发现不同基因家族的扩展伴随着旁系同源物的不同的、组织特异性的转录模式。该综合表达图谱代表了玉米基因发现和功能表征的宝贵资源。
P>Maize is an important model species and a major constituent of human and animal diets. It has also emerged as a potential feedstock and model system for bioenergy research due to recent worldwide interest in developing plant biomass-based, carbon-neutral liquid fuels. To understand how the underlying genome sequence results in specific plant phenotypes, information on the temporal and spatial transcription patterns of genes is crucial. Here we present a comprehensive atlas of global transcription profiles across developmental stages and plant organs. We used a NimbleGen microarray containing 80 301 probe sets to profile transcription patterns in 60 distinct tissues representing 11 major organ systems of inbred line B73. Of the 30 892 probe sets representing the filtered B73 gene models, 91.4% were expressed in at least one tissue. Interestingly, 44.5% of the probe sets were expressed in all tissues, indicating a substantial overlap of gene expression among plant organs. Clustering of maize tissues based on global gene expression profiles resulted in formation of groups of biologically related tissues. We utilized this dataset to examine the expression of genes that encode enzymes in the lignin biosynthetic pathway, and found that expansion of distinct gene families was accompanied by divergent, tissue-specific transcription patterns of the paralogs. This comprehensive expression atlas represents a valuable resource for gene discovery and functional characterization in maize.