Shi Weixiong, Zhang Jing, Huang Shanqing, Fan Qian, Cao Jiao, Zeng Jun, Wu Lingling, Yang Chaoyong
Institute of Molecular Medicine, Shanghai Key Laboratory for Nucleic Acid Chemistry and Nanomedicine, Renji Hospital, Shanghai Jiao Tong University School of Medicine, Shanghai 200127, China.
The MOE Key Laboratory of Spectrochemical Analysis & Instrumentation, Discipline of Intelligent Instrument and Equipment, Department of Chemical Biology, College of Chemistry and Chemical Engineering, Xiamen University, Xiamen 361005, China.
JACS Au. 2024 Apr 15;4(5):1723-1743. doi: 10.1021/jacsau.4c00118. eCollection 2024 May 27.
Gene expression profiling of tissue cells with spatial context is in high demand to reveal cell types, locations, and intercellular or molecular interactions for physiological and pathological studies. With rapid advances in barcoding chemistry and sequencing chemistry, spatially resolved transcriptome (SRT) techniques have emerged to quantify spatial gene expression in tissue samples by correlating transcripts with their spatial locations using diverse strategies. These techniques provide both physical tissue structure and molecular characteristics and are poised to revolutionize many fields, such as developmental biology, neuroscience, oncology, and histopathology. In this context, this Perspective focuses on next-generation sequencing-based SRT methods, particularly highlighting spatial barcoding chemistry. It delves into optically manipulated spatial indexing methods and DNA array-barcoded spatial indexing methods by exploring current advances, challenges, and future development directions in this nascent field.
为了在生理和病理研究中揭示细胞类型、位置以及细胞间或分子间的相互作用，对具有空间背景的组织细胞进行基因表达谱分析的需求很高。随着条形码化学和测序化学的快速发展，空间分辨转录组（SRT）技术应运而生，通过使用多种策略将转录本与其空间位置相关联，来量化组织样本中的空间基因表达。这些技术既提供了物理组织结构又提供了分子特征，有望给发育生物学、神经科学、肿瘤学和组织病理学等许多领域带来变革。在此背景下，本观点聚焦于基于下一代测序的SRT方法，尤其突出空间条形码化学。通过探索这个新兴领域的当前进展、挑战和未来发展方向，深入研究了光学操纵空间索引方法和DNA阵列条形码空间索引方法。
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