Unraveling transcriptional subnetworks of Arabidopsis ground tissue

解开拟南芥地面组织的转录子网络

• 批准号: 7750979
• 负责人: Jalean Joyanne Petricka
• 金额: $ 5.01万
• 依托单位: DUKE UNIVERSITY
• 依托单位国家: 美国
• 财政年份: 2009
• 资助国家: 美国
• 起止时间: 2009-09-01 至 2011-08-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/7750979
• 关键词: Animal Model; Arabidopsis; Architecture; Biological Assay; Biological Process; C2H2 Zinc Finger; Cell Line; Cell Separation; Cell division; Cells; Cells Plant Tissue; Chromatin; Complex; Data; Data Set; Development; Enhancers; Fluorescence-Activated Cell Sorting; Future; Genes; Genome; Goals; Human; Image; Instruction; Knock-out; Knowledge; Malignant Neoplasms; Methodology; Methods; Microscope; Molecular Genetics; Monitor; Mouse-ear Cress; Organism; Pathway interactions; Pattern; Phenotype; Physiology; Plant Model; Plant Roots; Plants; Precipitation; RNA; Research; Resolution; Resources; Role; Signal Transduction; Slide; Specific qualifier value; Stress; System; Systems Biology; Techniques; Technology; Time; TimeLine; Tissues; Training; Work; biological adaptation to stress; career; cell transformation; cell type; cellular development; chromatin immunoprecipitation; human disease; mutant; novel; plant growth/development; positional cloning; programs; public health relevance; research study; response; skills; spatiotemporal; tissue processing; tool; transcription factor

DESCRIPTION (provided by applicant): The objectives for this training period are to: 1) develop and apply experimental and computational skills to whole genome technologies to investigate asymmetric cell division, 2) identify and describe transcriptional programs utilizing high resolution, global expression data and new techniques, 3) gain an understanding of the biological function of transcriptional programs in the cells of plant ground tissue assisted by a novel high-throughput method. To accomplish these objectives I plan to utilize the model plant Arabidopsis thaliana as a system to study the transcriptional circuitry underlying cellular instruction and response within ground tissue. To reach the first objective I will be trained in the Benfey lab to perform and analyze microarrays as well as chromatin immunoprecipitation followed microarray (ChlP-chip) to obtain comprehensive transcriptional targets of an uncharacterized transcription factor (TF) with a demonstrated role in asymmetric cell division in the Arabidopsis root. To achieve the second objective I will use robust spatiotemporal co-expression clusters of a high-resolution, cell-type specific data set generated from Fluorescence Activated Cell Sorting (FACS) technology pioneered in the lab. I will be trained to perform chromatin immunoprecipitation followed by quantitative PCR (ChlP-qPCR) to identify direct targets of ground tissue specific TFs within these clusters. To attain the third objective I will develop genetic and molecular resources of genes within the transcriptional subnetworks of the previous objectives. Facilitated by the 'rootarray', a high-throughput confocal imaging platform of the Benfey lab, I will assay phenotypes and characterize the biological functions of the transcription factors and their targets in the cellular specification, development, and stress responses of the ground tissue. The skills and resources I will obtain from this proposal will provide the training and tools required for my career and future research in systems biology on the transcriptional circuitry underlying plant cell and tissue development and function. Public Health Relevance: Asymmetric cell division, mechanisms of cellular development and response, and transcriptional networks functioning in the tissue studied in this proposal are common to all eukaryotic organisms. As these mechanisms have been found to be involved in cancer and human disease, knowledge of the informational pathways in model organisms that instruct specific cells to carry out tissue function and response is thus broadly applicable and relevant to those of humans.

描述（由申请人提供）：本培训期的目标是：1）开发和应用实验和计算技能，以调查不对称细胞分裂，2）使用高分辨率，全球表达数据和新技术，识别和描述转录方案，3）获得了对工厂地面组织辅助良好方法的转录过程的理解。为了实现这些目标，我计划利用模型植物拟南芥作为一个系统，以研究地面组织内细胞教学和反应的转录电路。为了达到第一个目标，我将在本菲实验室接受培训，以执行和分析微阵列以及染色质免疫沉淀遵循微阵列（CHLP-CHIP），以获得未表征转录因子（TF）的全面转录靶标，其在拟南芥根部的非对称细胞分裂中表现出了作用。为了实现第二个目标，我将使用稳健的时空共表达簇，该群集是由实验室中荧光激活的细胞分选（FACS）技术产生的高分辨率，细胞类型特异性数据集。我将接受培训以执行染色质免疫沉淀，然后进行定量PCR（CHLP-QPCR），以识别这些簇中地面组织特异性TF的直接靶标。为了实现第三个目标，我将在先前目标的转录子网中发展基因的遗传和分子资源。由Benfey实验室的高通量共核成像平台“ rootarray”促进，我将分析表型，并表征转录因子的生物学功能及其靶标在细胞规范，发育和压力反应中的生物学功能。我将从该提案中获得的技能和资源将提供我职业生物学的职业和未来研究所需的培训和工具，该研究对植物细胞和组织开发和功能的转录电路的转录电路。 公共卫生相关性：不对称的细胞分裂，细胞发育和反应的机制以及该提案中研究的组织中起作用的转录网络对于所有真核生物来说都是共同的。由于已经发现这些机制与癌症和人类疾病有关，因此在模型生物体中了解了指导特定细胞进行组织功能和反应的信息途径的知识，因此与人类的知识非常适用且与人类的反应有关。