Single cell dual-omic atlas of the human developing retina

Zhen Zuo, Xuesen Cheng, Salma Ferdous, Jianming Shao, Jin Li, Yourong Bao, Jean Li, Jiaxiong Lu, Antonio Jacobo Lopez, Juliette Wohlschlegel, Aric Prieve, Mervyn G. Thomas, Thomas A. Reh, Yumei Li, Ala Moshiri and Rui Chen ()
Additional contact information
Zhen Zuo: Baylor College of Medicine
Xuesen Cheng: Baylor College of Medicine
Salma Ferdous: Baylor College of Medicine
Jianming Shao: Baylor College of Medicine
Jin Li: Baylor College of Medicine
Yourong Bao: Baylor College of Medicine
Jean Li: Baylor College of Medicine
Jiaxiong Lu: Baylor College of Medicine
Antonio Jacobo Lopez: Sacramento
Juliette Wohlschlegel: Seattle
Aric Prieve: Seattle
Mervyn G. Thomas: The University of Leicester
Thomas A. Reh: Seattle
Yumei Li: Baylor College of Medicine
Ala Moshiri: Sacramento
Rui Chen: Baylor College of Medicine

Nature Communications, 2024, vol. 15, issue 1, 1-21

Abstract: Abstract The development of the retina is under tight temporal and spatial control. To gain insights into the molecular basis of this process, we generate a single-nuclei dual-omic atlas of the human developing retina with approximately 220,000 nuclei from 14 human embryos and fetuses aged between 8 and 23-weeks post-conception with matched macular and peripheral tissues. This atlas captures all major cell classes in the retina, along with a large proportion of progenitors and cell-type-specific precursors. Cell trajectory analysis reveals a transition from continuous progression in early progenitors to a hierarchical development during the later stages of cell type specification. Both known and unrecorded candidate transcription factors, along with gene regulatory networks that drive the transitions of various cell fates, are identified. Comparisons between the macular and peripheral retinae indicate a largely consistent yet distinct developmental pattern. This atlas offers unparalleled resolution into the transcriptional and chromatin accessibility landscapes during development, providing an invaluable resource for deeper insights into retinal development and associated diseases.

Date: 2024
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DOI: 10.1038/s41467-024-50853-5

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