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Establishment of signaling interactions with cellular resolution for every cell cycle of embryogenesis

View ORCID ProfileZhongying Zhao, Long Chen, Vincy WS Ho, View ORCID ProfileMing-Kin Wong, Xiaotai Huang, Lu-yan Chan, Kaoru HC Ng, Xiaoliang Ren, Hong Yan
doi: https://doi.org/10.1101/285007
Zhongying Zhao
Hong Kong Baptist University;
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  • For correspondence: zyzhao@hkbu.edu.hk
Long Chen
City University of Hong Kong;
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Vincy WS Ho
Hong Kong Baptist University;
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Ming-Kin Wong
Hong Kong Baptist University;
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Xiaotai Huang
School of Computer Science and Technology, Xidian University, Xi'an, China
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Lu-yan Chan
Hong Kong Baptist University;
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Kaoru HC Ng
Hong Kong Baptist University;
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Xiaoliang Ren
Hong Kong Baptist University;
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Hong Yan
City University of Hong Kong;
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Abstract

Intercellular signaling interaction plays a key role in breaking fate symmetry during animal development. Identification of the signaling interaction at cellular resolution is technically challenging, especially in a developing embryo. Here we develop a platform that allows automated inference and validation of signaling interaction for every cell cycle of C. elegans embryogenesis. This is achieved by generation of a systems-level cell contact map that consists of 1,114 highly confident intercellular contacts by modeling analysis and is validated through cell membrane labeling coupled with cell lineage analysis. We apply the map to identify cell pairs between which a Notch signaling interaction takes place. By generating expression patterns for two ligands and two receptors of Notch signaling pathway with cellular resolution using automated expression profiling technique, we are able to refine existing and identify novel Notch interactions during C. elegans embryogenesis. Targeted cell ablation followed by cell lineage analysis demonstrates the roles of signaling interactions over cell division in breaking fate symmetry. We finally develop a website that allows online access to the cell-cell contact map for mapping of other signaling interaction in the community. The platform can be adapted to establish cellular interaction from any other signaling pathways.

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The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-NC-ND 4.0 International license.
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Posted March 19, 2018.
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Establishment of signaling interactions with cellular resolution for every cell cycle of embryogenesis
Zhongying Zhao, Long Chen, Vincy WS Ho, Ming-Kin Wong, Xiaotai Huang, Lu-yan Chan, Kaoru HC Ng, Xiaoliang Ren, Hong Yan
bioRxiv 285007; doi: https://doi.org/10.1101/285007
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Establishment of signaling interactions with cellular resolution for every cell cycle of embryogenesis
Zhongying Zhao, Long Chen, Vincy WS Ho, Ming-Kin Wong, Xiaotai Huang, Lu-yan Chan, Kaoru HC Ng, Xiaoliang Ren, Hong Yan
bioRxiv 285007; doi: https://doi.org/10.1101/285007

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