Nature Methods
Abstract
Complex biological processes such as embryogenesis require precise coordination of cell differentiation programs across both space and time. Using protein-fusion fluorescent reporters and four-dimensional live imaging, we present a protein expression atlas of transcription factors (TFs) mapped onto developmental cell lineages during Caenorhabditis elegans embryogenesis, at single-cell resolution. This atlas reveals a spatiotemporal combinatorial code of TF expression, and a cascade of lineage-specific, tissue-specific and time-specific TFs that specify developmental states. The atlas uncovers regulators of embryogenesis, including an unexpected role of a skin specifier in neurogenesis and the critical function of an uncharacterized TF in convergent muscle differentiation. At the systems level, the atlas provides an opportunity to model cell state–fate relationships, revealing a lineage-dependent state diversity within functionally related cells and a winding trajectory of developmental state progression. Collectively, this single-cell protein atlas represents a valuable resource for elucidating metazoan embryogenesis at the molecular and systems levels.
| 论文编号: | DOI:10.1038/s41592-021-01216-1 |
| 论文题目: | A 4D single-cell protein atlas of transcription factors delineates spatiotemporal patterning during embryogenesis |
| 英文论文题目: | A 4D single-cell protein atlas of transcription factors delineates spatiotemporal patterning during embryogenesis |
| 第一作者: | Xuehua Ma, Zhiguang Zhao, Long Xiao, Weina Xu, Yahui Kou, Yanping Zhang, Gang Wu, Yangyang Wang and Zhuo Du |
| 英文第一作者: | Xuehua Ma, Zhiguang Zhao, Long Xiao, Weina Xu, Yahui Kou, Yanping Zhang, Gang Wu, Yangyang Wang and Zhuo Du |
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| 发表年度: | 2021-07-27 |
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| 摘要: | Complex biological processes such as embryogenesis require precise coordination of cell differentiation programs across both space and time. Using protein-fusion fluorescent reporters and four-dimensional live imaging, we present a protein expression atlas of transcription factors (TFs) mapped onto developmental cell lineages during Caenorhabditis elegans embryogenesis, at single-cell resolution. This atlas reveals a spatiotemporal combinatorial code of TF expression, and a cascade of lineage-specific, tissue-specific and time-specific TFs that specify developmental states. The atlas uncovers regulators of embryogenesis, including an unexpected role of a skin specifier in neurogenesis and the critical function of an uncharacterized TF in convergent muscle differentiation. At the systems level, the atlas provides an opportunity to model cell state–fate relationships, revealing a lineage-dependent state diversity within functionally related cells and a winding trajectory of developmental state progression. Collectively, this single-cell protein atlas represents a valuable resource for elucidating metazoan embryogenesis at the molecular and systems levels. |
| 英文摘要: | Complex biological processes such as embryogenesis require precise coordination of cell differentiation programs across both space and time. Using protein-fusion fluorescent reporters and four-dimensional live imaging, we present a protein expression atlas of transcription factors (TFs) mapped onto developmental cell lineages during Caenorhabditis elegans embryogenesis, at single-cell resolution. This atlas reveals a spatiotemporal combinatorial code of TF expression, and a cascade of lineage-specific, tissue-specific and time-specific TFs that specify developmental states. The atlas uncovers regulators of embryogenesis, including an unexpected role of a skin specifier in neurogenesis and the critical function of an uncharacterized TF in convergent muscle differentiation. At the systems level, the atlas provides an opportunity to model cell state–fate relationships, revealing a lineage-dependent state diversity within functionally related cells and a winding trajectory of developmental state progression. Collectively, this single-cell protein atlas represents a valuable resource for elucidating metazoan embryogenesis at the molecular and systems levels. |
| 刊物名称: | Nature Methods |
| 英文刊物名称: | Nature Methods |
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| 其它备注: | Xuehua Ma, Zhiguang Zhao, Long Xiao, Weina Xu, Yahui Kou, Yanping Zhang, Gang Wu, Yangyang Wang and Zhuo Du. A 4D single-cell protein atlas of transcription factors delineates spatiotemporal patterning during embryogenesis. Nature Methods. DOI:10.1038/s41592-021-01216-1 |
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