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在非模型植物作物中进行DAP-seq实验的标准化协议和生物信息管道

Chen Zhang¹, Chiara Foresti², Luis Orduña¹

¹Institute for Integrative Systems Biology (I2SysBio), Universitat de València-CSIC, Paterna, Valencia, Spain.

Methods in molecular biology (Clifton, N.J.)

|January 10, 2026

概括

DNA亲和力净化测序 (DAP-seq) 映射了作物中的转录因子结合部位,有助于作物改善. 这种方法提供了对基因调节和细胞功能的洞察,以增强农业特征.

科学领域:

基因组学就是基因组学.
分子生物学分子生物学
植物科学植物科学

背景情况:

囊胞体,包括调节性基因组位置,对于细胞的身份和功能至关重要.
了解cistrome数据揭示了植物生长,发育和环境反应中的分子机制.
识别转录因子结合部位是剖析基因调节网络和改善作物特征的关键.

研究的目的:

在作物中提出DNA亲和力净化测序 (DAP-seq) 的详细方案.
为DAP-seq数据分析建立一个标准化的管道.
为了能够有效和可扩展地识别各种作物物种中的转录因子结合特征.

主要方法:

用植物基因组DNA进行DNA亲和力净化测序 (DAP-seq),用于体外绘制转录因子结合部位的地图.
净化DNA片段的高通量测序,以确定潜在的结合部位.
标准化生物信息学管道用于原始测序数据处理,峰值调用和动机发现.

主要成果:

DAP-seq提供了一个更快,更具成本效益的替代Chip-seq用于cistrome映射.
该方法已经成功地应用于各种作物,产生了广泛的cistrome数据集.
开发的管道促进了对转录因子结合部位的公正识别.

结论:

DAP-seq是一个强大的工具,用于阐明作物生物学和基因调节区域.
标准化的DAP-seq协议和分析管道提高了作物物种的可扩展性和效率.
这种方法有助于确定改善作物的目标,包括水果质量和承受压力的目标.

关键词:

细胞组 (cistrome) 是一个细胞组.农作物农作物农作物这就是DAP-seqq.基因调节基因调节转录因子转录因子

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相关概念视频

RNA-seq

RNA-seq

RNA sequencing, or RNA-Seq, is a high-throughput sequencing technology used to study the transcriptome of a cell. Transcriptomics helps to interpret the functional elements of a genome and identify the molecular constituents of an organism. Additionally, it also helps in understanding the development of an organism and the occurrence of diseases.
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while microarray-based...