Differentiation articles within Nature

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  • Article
    | Open Access

    After loss of MSL2, a class of dosage-sensitive genes transitions from biallelic to monoallelic expression, whereby one allele remains active, retaining active histone modifications and transcription factor binding, and the other allele is silenced, exhibiting loss of promoter–enhancer contacts and the acquisition of DNA methylation.

    • Yidan Sun
    • , Meike Wiese
    •  & Asifa Akhtar

  • Article
    | Open Access

    Spatiotemporal regulation of wound healing in mice and humans occurs via retinoic acid and hypoxia signalling, which regulate the differentiation of CD201+ fibroblast progenitors into proinflammatory and myofibroblast states.

    • Donovan Correa-Gallegos
    • , Haifeng Ye
    •  & Yuval Rinkevich

  • Article
    | Open Access

    The culture of genetically unmodified human naive embryonic stem cells in specific growth conditions gives rise to structures that recapitulate those of post-implantation human embryos up to 13–14 days after fertilization.

    • Bernardo Oldak
    • , Emilie Wildschutz
    •  & Jacob H. Hanna

  • Article
    | Open Access

    This study highlights the role of mitochondrial complex I-dependent NAD+ regeneration in directing lung epithelial cell fate during postnatal alveolar development by preventing pathological integrated stress response induction.

    • SeungHye Han
    • , Minho Lee
    •  & Navdeep S. Chandel

  • Article |

    An in vitro system that recapitulates temporal characteristics of embryonic development demonstrates that the different rates of mouse and human embryonic development stem from differences in metabolic rates and—further downstream—the global rate of protein synthesis.

    • Margarete Diaz-Cuadros
    • , Teemu P. Miettinen
    •  & Olivier Pourquié

  • Article
    | Open Access

    This study provides a comprehensive spatiotemporal map of human and mouse gonadal differentiation, using a combination of single-cell and spatial transcriptomics, chromatin accessibility assays and fluorescent microscopy, which can guide in vitro gonadogenesis.

    • Luz Garcia-Alonso
    • , Valentina Lorenzi
    •  & Roser Vento-Tormo

  • Article |

    Spatial transcriptomics and single-cell profiling identify previously uncharacterized cell types of human terminal and respiratory bronchioles, and show that cell differentiation and lineage trajectories are distinct from those in the mouse lung.

    • Preetish Kadur Lakshminarasimha Murthy
    • , Vishwaraj Sontake
    •  & Purushothama Rao Tata

  • Article |

    In the eye lens of zebrafish and mice, the phospholipases Plaat1 and PLAAT3, respectively, are essential for macroautophagy-independent organelle degradation that produces an organelle-free zone and achieves optimal transparency.

    • Hideaki Morishita
    • , Tomoya Eguchi
    •  & Noboru Mizushima

  • Article |

    Arterial development relies on the timely and MYC-dependent suppression of endothelial metabolism and the cell cycle in pre-arterial endothelial cells through Notch signalling.

    • Wen Luo
    • , Irene Garcia-Gonzalez
    •  & Rui Benedito

  • Article |

    The authors show that metabolic activity leads to an increase in the intracellular pH of neuromesodermal precursors, and that this increase in pH, by allowing post-translational modification of β-catenin, is required for the activation of WNT signalling and mesodermal fate acquisition.

    • Masayuki Oginuma
    • , Yukiko Harima
    •  & Olivier Pourquié

  • Article |

    Human presomitic mesoderm cells derived in vitro demonstrate oscillations of the segmentation clock, thus providing a window into an otherwise inaccessible stage of human development.

    • Margarete Diaz-Cuadros
    • , Daniel E. Wagner
    •  & Olivier Pourquié

  • Article |

    Single-cell mapping of chromatin accessibility, DNA methylation and RNA expression during gastrulation in mouse embryos shows characteristic epigenetic changes that accompany formation of the primary germ layers.

    • Ricard Argelaguet
    • , Stephen J. Clark
    •  & Wolf Reik

  • Article |

    ERK reversibly regulates embryonic stem cell transcription via selective redistribution of co-factors and RNA polymerase from pluripotency to early differentiation enhancers, while leaving transcription factors bound to their enhancers, thus preserving plasticity.

    • William B. Hamilton
    • , Yaron Mosesson
    •  & Joshua M. Brickman

  • Article |

    The transcriptional landscape of cell populations of the mouse bone marrow microenvironment, mapped at single-cell resolution, reveals cellular heterogeneity in this niche as well as substantial transcriptional remodelling under stress conditions.

    • Anastasia N. Tikhonova
    • , Igor Dolgalev
    •  & Iannis Aifantis

  • Letter |

    Ikzf2, which encodes the transcription factor Helios, is identified as a crucial regulator of gene expression in maturing cochlear outer hair cells, and overexpression of Ikzf2 in inner hair cells induces prestin expression and electromotility.

    • Lauren Chessum
    • , Maggie S. Matern
    •  & Ronna Hertzano

  • Letter |

    RNA velocity, estimated in single cells by comparison of spliced and unspliced mRNA, is a good indicator of transcriptome dynamics and will provide a useful tool for analysis of developmental lineage.

    • Gioele La Manno
    • , Ruslan Soldatov
    •  & Peter V. Kharchenko

  • Article |

    Single-cell transcriptomics, fate assays and a computational theory enable prediction of cell fates during haematopoiesis, discovery of regulators of erythropoiesis and reveal coupling between the erythroid, basophil and mast cell fates.

    • Betsabeh Khoramian Tusi
    • , Samuel L. Wolock
    •  & Merav Socolovsky

  • Letter |

    The zebrafish cloche gene is required for the formation of most endothelial and haematopoietic cells, however, it has been difficult to isolate; this study reveals that cloche encodes a PAS-domain-containing bHLH transcription factor, and a mammalian orthologue can partially rescue cloche mutants, indicating a possible conserved role in mammals.

    • Sven Reischauer
    • , Oliver A. Stone
    •  & Didier Y. R. Stainier

  • Article |

    How sex-specific neuronal circuits are generated during development is poorly understood; here, sensory neurons are identified in the round worm Caenorhabditis elegans, which initially connect in both male- and hermaphrodite-specific patterns, but a specific subset of these connections is pruned by each sex upon sexual maturation to produce sex-specific connectivity patterns and dimorphic behaviours.

    • Meital Oren-Suissa
    • , Emily A. Bayer
    •  & Oliver Hobert

  • Letter |

    In mouse embryonic stem cells converted to an epiblast fate in vitro—a state in which the cells can also gain germ cell fate if exposed to the signalling molecule BMP4—the sole expression of the transcription factor NANOG is shown to be sufficient to induce germ cell fate, in the absence of BMP4.

    • Kazuhiro Murakami
    • , Ufuk Günesdogan
    •  & M. Azim Surani

  • Letter |

    It is generally thought that the quiescence of tissue is not actively maintained, but rather a state reflecting the absence of proliferative signal; here the authors find that quiescence is actively maintained by paracrine hedgehog signalling provided by the epithelium in the mouse adult lung, and that hedgehog is dynamically regulated during injury repair and resolution for proper restoration of tissue homeostasis after injury.

    • Tien Peng
    • , David B. Frank
    •  & Edward E. Morrisey

  • Letter |

    Using advanced microscopy techniques, the process of centriole amplification in multiciliated cells is explored, and the daughter centriole identified as the primary nucleation site of more than 90% of the new centrioles, contesting existing de novo theories of centriolar amplification and highlighting a new centrosome asymmetry.

    • Adel Al Jord
    • , Anne-Iris Lemaître
    •  & Alice Meunier

  • Letter |

    Gain-of-function mutations in isocitrate dehydrogenase (IDH) are among the most common genetic alterations in intrahepatic cholangiocarcinoma (IHCC), a deadly cancer of the liver bile ducts; now mutant IDH is shown to block liver cell differentiation through the suppression of HNF-4α, a master regulator of hepatocyte identity and quiescence, leading to expansion of liver progenitor cells primed for progression to IHCC.

    • Supriya K. Saha
    • , Christine A. Parachoniak
    •  & Nabeel Bardeesy

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