Single-cell transcriptomics of ventral forebrain progenitors identifies Evf2 enhancer lncRNA-enhancer gene guidance through direct RNA binding and RNP recruitment domains

Edward Li, Abhijit Chakraborty, Sara J. Kohtz, Ivelisse Cajigas, Laura Hinojosa-Gonzalez, Fion Shiau, Ryan Bertossi, Robert J. Vassar, Jack A. Kessler, Ferhat Ay, Brian S. Clark () and Jhumku D. Kohtz ()
Additional contact information
Edward Li: Feinberg School of Medicine
Abhijit Chakraborty: La Jolla Institute for Immunology
Sara J. Kohtz: Binghamton University
Ivelisse Cajigas: Feinberg School of Medicine
Laura Hinojosa-Gonzalez: La Jolla Institute for Immunology
Fion Shiau: Washington University School of Medicine
Ryan Bertossi: Feinberg School of Medicine
Robert J. Vassar: Feinberg School of Medicine
Jack A. Kessler: Feinberg School of Medicine
Ferhat Ay: La Jolla Institute for Immunology
Brian S. Clark: Washington University School of Medicine
Jhumku D. Kohtz: Feinberg School of Medicine

Nature Communications, 2025, vol. 16, issue 1, 1-23

Abstract: Abstract During mouse embryonic brain development, the Evf2 ultraconserved enhancer (UCE) lncRNA guides the Dlx5/6UCE to ~129 sites across chr6. However, previous work identified only 4 transcriptionally regulated targets associated with Evf2-Dlx5/6UCE-gene guidance, raising questions about the significance of Evf2-regulated Dlx5/6UCE-gene interactions. Here, single-cell transcriptomics reveal far greater alignment between Evf2-Dlx5/6UCE-gene guidance and transcriptional regulation than previously reported. Evf2 divides chr6 into short-range (

Date: 2025
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DOI: 10.1038/s41467-025-62205-y

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