Advancements in mapping 3D genome architecture.
Advancements in mapping 3D genome architecture.
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DOI：
10.1016/j.ymeth.2019.06.002
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发表时间：
2020-01
期刊：
影响因子：
4.8
通讯作者：
D. J. McKay;Alexis V. Stutzman;Jill M. Dowen
中科院分区：
文献类型：
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作者：
D. J. McKay;Alexis V. Stutzman;Jill M. Dowen
几十年来，基于显微镜的技术揭示了核组织的重要方面，特别是关于核体。此外，使用荧光原位杂交标记特定的RNA或DNA序列有助于研究特定基因座的定位和理解群体中单个细胞的变异性。最近，应用高通量测序方法绘制细胞中DNA分子的物理组织图，彻底改变了基因组组织的研究。利用高分辨率序列信息进行全基因组测量的能力极大地促进了我们对染色质结构的理解。尽管他们的权力，这些测序为基础的染色体构象捕获（3C）检测有显着的局限性，我们将进一步讨论。在这里，我们回顾我们目前的理解3D基因组组织和3C技术，告知这方面的知识。然后，我们将讨论两种新方法，称为SPRITE和Trac-looping，以及它们如何允许更深入地研究塑造3D基因组的生物过程。
For many decades, microscopy-based techniques revealed important aspects of nuclear organization, specifically with regard to nuclear bodies. Additionally, the labeling of specific RNA or DNA sequences using fluorescence in situ hybridization has been instrumental for studying the localization of specific loci and understanding variability across individual cells of a population. More recently, application of high-throughput sequencing approaches to map the physical organization of DNA molecules in cells has revolutionized the study of genome organization. The ability to generate genome-wide measurements with high-resolution sequence information has greatly advanced our understanding of chromatin architecture. Despite their power, these sequencing-based Chromosome Conformation Capture (3C) assays have significant limitations, which we will discuss further.Here we review our current understanding of 3D genome organization and the 3C technologies that have informed this knowledge. Then we discuss two new methods, termed SPRITE and Trac-looping, and how they allow for deeper investigation of the biological processes that shape the 3D genome.