Synthetic developmental biology: New tools to deconstruct and rebuild developmental systems

HM McNamara, B Ramm, JE Toettcher - Seminars in cell & developmental …, 2023 - Elsevier
Technological advances have driven many recent advances in developmental biology. Light
sheet imaging can reveal single-cell dynamics in living three-dimensional tissues, whereas …

Putting in the Erk: Growth factor signaling and mesoderm morphogenesis

SE McFann, SY Shvartsman, JE Toettcher - Current topics in …, 2022 - Elsevier
It has long been known that FGF signaling contributes to mesoderm formation, a germ layer
found in triploblasts that is composed of highly migratory cells that give rise to muscles and …

[HTML][HTML] Optogenetic control of the Bicoid morphogen reveals fast and slow modes of gap gene regulation

AP Singh, P Wu, S Ryabichko, J Raimundo, M Swan… - Cell reports, 2022 - cell.com
Developmental patterning networks are regulated by multiple inputs and feedback
connections that rapidly reshape gene expression, limiting the information that can be …

Optogenetic modulation of guanine nucleotide exchange factors of Ras superfamily proteins directly controls cell shape and movement

DS Pal, Y Lin, H Zhan, T Banerjee, J Kuhn… - Frontiers in Cell and …, 2023 - frontiersin.org
In this article, we provide detailed protocols on using optogenetic dimerizers to acutely
perturb activities of guanine nucleotide exchange factors (GEFs) specific to Ras, Rac or Rho …

Optogenetic dissection of transcriptional repression in a multicellular organism

J Zhao, NC Lammers, S Alamos, YJ Kim… - Nature …, 2024 - nature.com
Transcriptional control is fundamental to cellular function. However, despite knowing that
transcription factors can repress or activate specific genes, how these functions are …

Precise modulation of embryonic development through optogenetics

H Fan, C Barnes, H Hwang, K Zhang, J Yang - genesis, 2022 - Wiley Online Library
The past decade has witnessed enormous progress in optogenetics, which uses photo‐
sensitive proteins to control signal transduction in live cells and animals. The ever …

Optogenetic application to investigating cell behavior and neurological disease

D Zhu, HJ Johnson, J Chen… - Frontiers in Cellular …, 2022 - frontiersin.org
Cells reside in a dynamic microenvironment that presents them with regulatory signals that
vary in time, space, and amplitude. The cell, in turn, interprets these signals and accordingly …

Dynamics of an incoherent feedforward loop drive ERK-dependent pattern formation in the early Drosophila embryo

EK Ho, HR Oatman, SE McFann, L Yang… - …, 2023 - journals.biologists.com
Positional information in development often manifests as stripes of gene expression, but
how stripes form remains incompletely understood. Here, we use optogenetics and live-cell …

From complex datasets to predictive models of embryonic development

S Dutta, AL Patel, SE Keenan… - Nature Computational …, 2021 - nature.com
Modern studies of embryogenesis are increasingly quantitative, powered by rapid advances
in imaging, sequencing and genome manipulation technologies. Deriving mechanistic …

Optogenetic manipulation of nuclear Dorsal reveals temporal requirements and consequences for transcription

VL Pimmett, J McGehee, A Trullo, M Douaihy… - bioRxiv, 2024 - biorxiv.org
Morphogen gradients convey essential spatial information during tissue patterning. While
both concentration and timing of morphogen exposure are crucial, how cells interpret these …