Developmental Biology and Gene Regulation

Long-Read Sequencing Reveals Increased Isoform Diversity in Key Transcription Factor Effectors of Intercellular Signalling at the Invertebrate-Vertebrate Transition

The paper uses long-read sequencing to compare isoform diversity of key transcription factors in invertebrate and vertebrate species, finding increased diversity in vertebrates.

A developmental timer coordinates organism-wide microRNA transcription

The paper identifies a developmental timer in C. elegans that coordinates microRNA transcription across tissues through a feedback loop between MYRF-1 and LIN-42.

Retinoic acid coordinates the orderly construction of the mammalian body in the anterior-to-posterior sequence

This study shows retinoic acid signaling regulates the anterior-to-posterior transition in mesoderm development by modulating Wnt signaling and T-box factors.

Array-CNCC: precise aggregation and arrayed plating facilitate quantitative phenotyping of human cranial neural crest cells and craniofacial disease modelling

Evolutionary innovation within conserved gene regulatory networks underlying biomineralized skeletons in Bilateria

This study identifies a biphasic regulatory program for shell formation in bivalve molluscs and shows how dynamic chromatin remodeling allows evolutionary innovation within conserved gene regulatory networks.

Sixteen isotropic 3D fluorescence live imaging datasets of Tribolium castaneum gastrulation

The paper presents sixteen isotropic 3D fluorescence live imaging datasets of Tribolium castaneum gastrulation and early germband elongation, providing benchmark data for image processing and analysis.

Vnd and En are expressed in orthogonal stripes and act in a brief competence window to combinatorially specify NB7-1 and its early lineage

The paper identifies Engrailed and Vnd as spatial transcription factors that act combinatorially in a brief competence window to specify the identity of neuroblast 7-1 in Drosophila embryos.

Genetic mutations in GLP-1/Notch pathway reveal distinct mechanisms of Notch signaling in germline stem cell regulation

This study examines the effects of GLP-1/Notch mutations on Notch signaling in C. elegans germline stem cells, revealing position-dependent impacts on transcriptional activation and germline function.

let-7 miRNA and lin-46 mRNA are the two essential targets of the LIN28 RNA-binding protein in developmental timing

The paper identifies let-7 miRNA and lin-46 mRNA as the essential targets of LIN28 in C. elegans, showing they regulate developmental timing through coordinated control.

Conserved Roles of Sp1 in Zebrafish Development and Early Organogenesis

This study characterizes the expression profile and establishes the conserved role of SP1 in specific processes during zebrafish development, which were previously unreported.

Endogenous FGFs drive ERK-dependent cell fate patterning in 2D human gastruloids

This study identifies FGF-dependent ERK signaling as critical for PS-like differentiation in 2D human gastruloids, driven by FGF4/17 and modulated by FGF8.

LimbLab: Pipeline for 3D Analysis and Visualisation of Limb Bud Gene Expression

LimbLab provides a pipeline for 3D analysis and visualization of limb bud gene expression data, improving workflow efficiency and compatibility with existing tools.

Spatiotemporal Regulatory Logics of Mouse Gastrulation

This study constructs a spatiotemporal regulatory framework for mouse gastrulation using multi-omic data and reveals mechanisms of lineage commitment and symmetry breaking.

SWI/SNF ATPase Brahma and Notch signaling collaborate with CBP/p300 to regulate neural stem cell apoptosis in Drosophila larval central nervous system.

The paper investigates how Brahma and Notch signaling collaborate with CBP/p300 to regulate neural stem cell apoptosis in Drosophila CNS through chromatin remodeling and enhancer activation.

Dual Inhibition of MYRF Cleavage by Its JM Region and PAN-1 CCT Gates Developmental Timing in C. elegans

The paper identifies two inhibitory mechanisms regulating MYRF-1 cleavage in C. elegans, showing their role in controlling developmental timing.

An avidity-driven mechanism of extracellular BMP regulation by Twisted gastrulation

The paper identifies and validates binding epitopes in Twisted gastrulation (Tsg) that mediate interaction with Sog/Chordin, revealing an avidity-driven mechanism for BMP gradient formation.

Cell Numbers Contribute to Cell Fate During Ciona Cardiopharyngeal Mesoderm Specification

The paper shows that cell number control via Cdkn1.b in Ciona embryos affects cell fate, leading to heart development failure when cell division is arrested early.

Cell-cycle inhibition preserves robust development but rebalances lineages in mouse gastruloids

This study shows that cell cycle inhibition in mouse gastruloids preserves core developmental processes but alters lineage proportions and differentiation timing.

Lipid-mediated reinforcement of FGF/MAPK signaling enables robust otic placode specification

This study identifies APOD as a lipid mediator that reinforces FGF/MAPK signaling during otic placode specification through a positive feedback loop.

Evidence of autonomous neural specification for both brain and ventral nerve cord tissue in Annelida

The paper demonstrates autonomous neural specification for brain and ventral nerve cord in two annelid species, suggesting conservation of this mechanism within Annelida.

Foxi1 regulates multipotent mucociliary progenitors and ionocyte specification through transcriptional and epigenetic mechanisms

This study identifies novel functions of Foxi1 in regulating mucociliary progenitor cells and ionocyte specification through transcriptional and epigenetic mechanisms in Xenopus laevis.

Geometry-driven asymmetric cell divisions pattern cell cycles and zygotic genome activation in the zebrafish embryo

This study shows that early zebrafish embryo geometry guides asymmetric cell divisions and patterns zygotic genome activation, influencing cell cycle timing and developmental robustness.

Her9 is required for the migration, differentiation, and survival of neural crest cells

This study shows that Her9 is essential for neural crest cell development by regulating their specification, migration, differentiation, and survival in zebrafish.

Synchronization of the segmentation clock using synthetic cell-cell signaling

This study reconstitutes synchronized oscillation in PSM organoids using synthetic cell-cell signaling and identifies the role of ligand-receptor dynamics in synchronization.

Partial coupling of the proliferation and differentiation programs during C. elegans intestine development

The paper shows that cell proliferation and differentiation in C. elegans intestine are partially coupled through reciprocal interactions, with specific factors controlling cell cycle arrest during differentiation.

WDR5 and Myc Cooperate to Regulate Formation of Neural Crest Stem Cells

This study shows that WDR5 and Myc work together to control neural crest stem cell formation through precise stoichiometric and domain-specific mechanisms.

An NKX2-5 homolog is required downstream of BMP signaling to pattern the sensory-adhesive organ of a tunicate larva

The paper identifies NK4 as a transcription factor downstream of BMP signaling that patterns the papillae in Ciona embryos by restricting Foxg expression to three cell clusters.

A dual role for GLI3 signaling in neural crest development

The paper identifies two distinct temporal roles for GLI3 in neural crest development: one in early specification and another in cranial NCC differentiation.

Mon1-Rab7 axis is essential for transport, localization and anchoring of oskar mRNA

The paper identifies Mon1 as a key regulator of oskar mRNA localization and axial patterning in oocytes, showing both cell autonomous and non-cell autonomous roles.

Intrinsic and non-cell autonomous roles for a neurodevelopmental syndrome-linked transcription factor

The paper identifies both cell-autonomous and non-cell-autonomous roles of UNC-3 in C. elegans motor neurons, revealing its impact on neuronal identity and downstream connectivity.