Transcriptome profiling of low temperature-treated cassava apical shoots showed dynamic responses of tropical plant to cold stress.
Transcriptome profiling of low temperature-treated cassava apical shoots showed dynamic responses of tropical plant to cold stress.
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DOI：
10.1186/1471-2164-13-64
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发表时间：
2012-02-10
期刊：
影响因子：
4.4
通讯作者：
Zhang P
中科院分区：
文献类型：
--
作者：
An D;Yang J;Zhang P
木薯是一种重要的热带块根作物，适应广泛的环境刺激，如干旱和酸性土壤。然而，它是一个非常冷敏感的热带物种。到目前为止，有有限的信息有关的基因调控和信号通路的冷胁迫反应木薯。微阵列技术的发展促进了在一定条件下的全局转录谱的研究。使用代表20，840个基因的60-mer寡核苷酸微阵列在7°C下冷处理0、4和9小时的木薯顶芽中进行转录组分析。共鉴定出508个转录本为早期冷响应基因，其中319个序列与拟南芥蛋白比对时具有功能描述。基因本体注释分析确定了许多与冷相关的类别，包括“对非生物和生物刺激的响应”、“对胁迫的响应”、“转录因子活性”和“叶绿体”。发现了具有广泛生物学功能的各种胁迫相关基因，例如信号转导组分（例如，MAP激酶4），转录因子（TF，例如，RAP 2.11）和活性氧（ROS）清除酶（例如，过氧化氢酶2），以及光合作用相关基因（例如，PsaL）。17个主要的TF家族，包括许多研究充分的成员（例如，AP 2-EREBP）也参与了对冷胁迫的早期反应。同时，KEGG途径分析揭示了许多重要的途径，如“植物激素信号转导”和“淀粉和蔗糖代谢”。此外，通过实时荧光定量RT-PCR验证了32个基因在低温等非生物胁迫条件下的表达变化。重要的是，大多数测试的胁迫响应基因主要表达在成熟叶片，茎形成层，须根，而不是顶芽和幼叶。作为对冷胁迫的响应，木薯中ROS清除基因的转录和酶活性的增加以及总可溶性糖（包括蔗糖和葡萄糖）的积累也被检测到。这种动态表达变化反映了木薯冷胁迫反应中网络的整合调控和转录组调控。这些参与信号感知和生理反应的生物学过程可能有助于揭示热带植物抗寒性的分子机制，并为遗传改良提供有用的候选基因。
Cassava is an important tropical root crop adapted to a wide range of environmental stimuli such as drought and acid soils. Nevertheless, it is an extremely cold-sensitive tropical species. Thus far, there is limited information about gene regulation and signalling pathways related to the cold stress response in cassava. The development of microarray technology has accelerated the study of global transcription profiling under certain conditions. A 60-mer oligonucleotide microarray representing 20,840 genes was used to perform transcriptome profiling in apical shoots of cassava subjected to cold at 7°C for 0, 4 and 9 h. A total of 508 transcripts were identified as early cold-responsive genes in which 319 sequences had functional descriptions when aligned with Arabidopsis proteins. Gene ontology annotation analysis identified many cold-relevant categories, including 'Response to abiotic and biotic stimulus', 'Response to stress', 'Transcription factor activity', and 'Chloroplast'. Various stress-associated genes with a wide range of biological functions were found, such as signal transduction components (e.g., MAP kinase 4), transcription factors (TFs, e.g., RAP2.11), and reactive oxygen species (ROS) scavenging enzymes (e.g., catalase 2), as well as photosynthesis-related genes (e.g., PsaL). Seventeen major TF families including many well-studied members (e.g., AP2-EREBP) were also involved in the early response to cold stress. Meanwhile, KEGG pathway analysis uncovered many important pathways, such as 'Plant hormone signal transduction' and 'Starch and sucrose metabolism'. Furthermore, the expression changes of 32 genes under cold and other abiotic stress conditions were validated by real-time RT-PCR. Importantly, most of the tested stress-responsive genes were primarily expressed in mature leaves, stem cambia, and fibrous roots rather than apical buds and young leaves. As a response to cold stress in cassava, an increase in transcripts and enzyme activities of ROS scavenging genes and the accumulation of total soluble sugars (including sucrose and glucose) were also detected. The dynamic expression changes reflect the integrative controlling and transcriptome regulation of the networks in the cold stress response of cassava. The biological processes involved in the signal perception and physiological response might shed light on the molecular mechanisms related to cold tolerance in tropical plants and provide useful candidate genes for genetic improvement.
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影响因子：
7.4
作者：
DUNCAN, DR;WIDHOLM, JM
通讯作者：
WIDHOLM, JM
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