染色体特征,转录组和组织中的蛋白质的多重空间映射
Pengfei Guo1, Liran Mao2,3,4, Yufan Chen5
1Department of Pathology and Laboratory Medicine, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA. pengfei.guo@pennmedicine.upenn.edu.
Nature methods
|January 27, 2025
概括
空间多omics分析显示了细胞的复杂性. 新的空间-Mux-seq技术同时分析了五个分子层,提供了对小鼠胚胎和大脑中的组织身份和时空关系的全面视图.
科学领域:
- 分子生物学分子生物学
- 基因组学就是基因组学.
- 神经科学是一个神经科学.
背景情况:
- 细胞表型由分子层的等级管理,包括基因组,表观基因组,转录基因组,蛋白质组和代谢组.
- 现有的空间奥米克斯方法通常仅限于一种或两个模式,为组织中的细胞身份提供了一个不完整的图片.
研究的目的:
- 引入空间-Mux-seq,一种新的多式联络空间技术.
- 为了在组织和细胞分辨率上实现五种分子模式的同时分析.
- 在复杂的生物系统中全面地绘制细胞异质性和时空关系.
主要方法:
- 空间-Mux-seq的开发和应用,一个多式模式的空间技术.
- 同时对两个基因组修饰,染色质可访问性,整个转录组和蛋白质面板进行分析.
- 用于小鼠胚胎和小鼠大脑的应用,用于生成详细的多式联络组织图.
主要成果:
- 空间-Mux-seq识别了比单模态方法更多的细胞类型和状态.
- 在神经元分化过程中发现了表观遗传修饰,基因表达和蛋白质水平之间的时空关系.
- 揭示了一个带有动态空间表观遗传信号的放射性质.
结论:
- 多模式空间奥米克提供了对组织和细胞异质性的更完整的理解.
- 空间-Mux-seq通过整合多个分子层来推进复杂生物系统的表征.
- 这项技术为探索发展和疾病的时空动态开辟了新的途径.
相关概念视频
Position-effect Variegation
In 1928, a German botanist Emil Heitz observed the moss nuclei with a DNA binding dye. He observed that while some chromatin regions decondense and spread out in the interphase nucleus, others do not. He termed them euchromatin and heterochromatin, respectively. He proposed that the heterochromatin regions reflect a functionally inactive state of the genome. It was later confirmed that heterochromatin is transcriptionally repressed, and euchromatin is transcriptionally active chromatin.
Euchromatin
The extent of chromatin compaction can be studied by staining chromatin using specific DNA binding dyes. Under the microscope, the dense-compacted regions take up more dye, appearing darker, while the less-compact areas take up less dye and appear lighter. Based on the compaction level, chromatins are classified into two primary forms – euchromatin and heterochromatin.
Euchromatin is the less dense region of the chromatin and stains lighter. Euchromatin contains histone H3 extensively...
Euchromatin is the less dense region of the chromatin and stains lighter. Euchromatin contains histone H3 extensively...
Chromatin Position Affects Gene Expression
Chromatin is the massive complex of DNA and proteins packaged inside the nucleus. The complexity of chromatin folding and how it is packaged inside the nucleus greatly influences access to genetic information. Generally, the nucleus' periphery is considered transcriptionally repressive, while the cell's interior is considered a transcriptionally active area.
Topologically Associated Domains (TADs)
The 3-dimensional positioning of chromatin in the nucleus influences the timing and level of...
Topologically Associated Domains (TADs)
The 3-dimensional positioning of chromatin in the nucleus influences the timing and level of...
Reporter Genes
Reporter genes are a type of protein-coding gene that are often tagged to a gene of interest. Once inside a target cell, reporter genes usually produce visually identifiable characteristics like fluorescence and luminescence when expressed along with the gene of interest. Thus, reporter genes “report” the presence or absence of genes of interest in an organism, determine the gene expression pattern, or track the physical location of a DNA segment or protein in the cell.
Commonly used reporter...
Commonly used reporter...
Ribosome Profiling
Ribosome profiling or ribo-sequencing is a deep sequencing technique that produces a snapshot of active translation in a cell. It selectively sequences the mRNAs protected by ribosomes to get an insight into a cell’s translation landscape at any given point in time.
Applications of ribosome profiling
Ribosome profiling has many applications, including in vivo monitoring of translation inside a particular organ or tissue type and quantifying new protein synthesis levels.
The technique helps...
Applications of ribosome profiling
Ribosome profiling has many applications, including in vivo monitoring of translation inside a particular organ or tissue type and quantifying new protein synthesis levels.
The technique helps...
Euchromatin
The extent of chromatin compaction can be studied by staining chromatin using specific DNA binding dyes. Under the microscope, the dense-compacted regions take up more dye, appearing darker, while the less-compact areas take up less dye and appear lighter. Based on the compaction level, chromatins are classified into two primary forms – euchromatin and heterochromatin.
Euchromatin is the less dense region of the chromatin and stains lighter. Euchromatin contains histone H3 extensively...
Euchromatin is the less dense region of the chromatin and stains lighter. Euchromatin contains histone H3 extensively...


