Identification of the central intermediate in the extra-embryonic to embryonic endoderm transition through single-cell transcriptomics

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Identification of the central intermediate in the extra-embryonic to embryonic endoderm transition through single-cell transcriptomics. / Rothová, Michaela Mrugala; Nielsen, Alexander Valentin; Proks, Martin; Wong, Yan Fung; Riveiro, Alba Redo; Linneberg-Agerholm, Madeleine; David, Eyal; Amit, Ido; Trusina, Ala; Brickman, Joshua Mark.

I: Nature Cell Biology, Bind 24, Nr. 6, 2022, s. 833-844.

Publikation: Bidrag til tidsskrift › Tidsskriftartikel › fagfællebedømt

Harvard

Rothová, MM, Nielsen, AV, Proks, M, Wong, YF, Riveiro, AR, Linneberg-Agerholm, M, David, E, Amit, I, Trusina, A & Brickman, JM 2022, 'Identification of the central intermediate in the extra-embryonic to embryonic endoderm transition through single-cell transcriptomics', Nature Cell Biology, bind 24, nr. 6, s. 833-844. https://doi.org/10.1038/s41556-022-00923-x

APA

Rothová, M. M., Nielsen, A. V., Proks, M., Wong, Y. F., Riveiro, A. R., Linneberg-Agerholm, M., David, E., Amit, I., Trusina, A., & Brickman, J. M. (2022). Identification of the central intermediate in the extra-embryonic to embryonic endoderm transition through single-cell transcriptomics. Nature Cell Biology, 24(6), 833-844. https://doi.org/10.1038/s41556-022-00923-x

Vancouver

Rothová MM, Nielsen AV, Proks M, Wong YF, Riveiro AR, Linneberg-Agerholm M o.a. Identification of the central intermediate in the extra-embryonic to embryonic endoderm transition through single-cell transcriptomics. Nature Cell Biology. 2022;24(6):833-844. https://doi.org/10.1038/s41556-022-00923-x

Author

Rothová, Michaela Mrugala ; Nielsen, Alexander Valentin ; Proks, Martin ; Wong, Yan Fung ; Riveiro, Alba Redo ; Linneberg-Agerholm, Madeleine ; David, Eyal ; Amit, Ido ; Trusina, Ala ; Brickman, Joshua Mark. / Identification of the central intermediate in the extra-embryonic to embryonic endoderm transition through single-cell transcriptomics. I: Nature Cell Biology. 2022 ; Bind 24, Nr. 6. s. 833-844.

Bibtex

@article{20caa9aa7eba44ad9bac696fee3ab861,

title = "Identification of the central intermediate in the extra-embryonic to embryonic endoderm transition through single-cell transcriptomics",

abstract = "High-resolution maps of embryonic development suggest that acquisition of cell identity is not limited to canonical germ layers but proceeds via alternative routes. Despite evidence that visceral organs are formed via embryonic and extra-embryonic trajectories, the production of organ-specific cell types in vitro focuses on the embryonic one. Here we resolve these differentiation routes using massively parallel single-cell RNA sequencing to generate datasets from FOXA2Venus reporter mouse embryos and embryonic stem cell differentiation towards endoderm. To relate cell types in these datasets, we develop a single-parameter computational approach and identify an intermediate en route from extra-embryonic identity to embryonic endoderm, which we localize spatially in embryos at embryonic day 7.5. While there is little evidence for this cell type in embryonic stem cell differentiation, by following the extra-embryonic trajectory starting with na{\"i}ve extra-embryonic endoderm stem cells we can generate embryonic gut spheroids. Exploiting developmental plasticity therefore offers alternatives to pluripotent cells and opens alternative avenues for in vitro differentiation.",

author = "Rothov{\'a}, {Michaela Mrugala} and Nielsen, {Alexander Valentin} and Martin Proks and Wong, {Yan Fung} and Riveiro, {Alba Redo} and Madeleine Linneberg-Agerholm and Eyal David and Ido Amit and Ala Trusina and Brickman, {Joshua Mark}",

note = "Publisher Copyright: {\textcopyright} 2022, The Author(s), under exclusive licence to Springer Nature Limited.",

year = "2022",

doi = "10.1038/s41556-022-00923-x",

language = "English",

volume = "24",

pages = "833--844",

journal = "Nature Cell Biology",

issn = "1465-7392",

publisher = "nature publishing group",

number = "6",

}

RIS

TY - JOUR

T1 - Identification of the central intermediate in the extra-embryonic to embryonic endoderm transition through single-cell transcriptomics

AU - Rothová, Michaela Mrugala

AU - Nielsen, Alexander Valentin

AU - Proks, Martin

AU - Wong, Yan Fung

AU - Riveiro, Alba Redo

AU - Linneberg-Agerholm, Madeleine

AU - David, Eyal

AU - Amit, Ido

AU - Trusina, Ala

AU - Brickman, Joshua Mark

PY - 2022

Y1 - 2022

N2 - High-resolution maps of embryonic development suggest that acquisition of cell identity is not limited to canonical germ layers but proceeds via alternative routes. Despite evidence that visceral organs are formed via embryonic and extra-embryonic trajectories, the production of organ-specific cell types in vitro focuses on the embryonic one. Here we resolve these differentiation routes using massively parallel single-cell RNA sequencing to generate datasets from FOXA2Venus reporter mouse embryos and embryonic stem cell differentiation towards endoderm. To relate cell types in these datasets, we develop a single-parameter computational approach and identify an intermediate en route from extra-embryonic identity to embryonic endoderm, which we localize spatially in embryos at embryonic day 7.5. While there is little evidence for this cell type in embryonic stem cell differentiation, by following the extra-embryonic trajectory starting with naïve extra-embryonic endoderm stem cells we can generate embryonic gut spheroids. Exploiting developmental plasticity therefore offers alternatives to pluripotent cells and opens alternative avenues for in vitro differentiation.

AB - High-resolution maps of embryonic development suggest that acquisition of cell identity is not limited to canonical germ layers but proceeds via alternative routes. Despite evidence that visceral organs are formed via embryonic and extra-embryonic trajectories, the production of organ-specific cell types in vitro focuses on the embryonic one. Here we resolve these differentiation routes using massively parallel single-cell RNA sequencing to generate datasets from FOXA2Venus reporter mouse embryos and embryonic stem cell differentiation towards endoderm. To relate cell types in these datasets, we develop a single-parameter computational approach and identify an intermediate en route from extra-embryonic identity to embryonic endoderm, which we localize spatially in embryos at embryonic day 7.5. While there is little evidence for this cell type in embryonic stem cell differentiation, by following the extra-embryonic trajectory starting with naïve extra-embryonic endoderm stem cells we can generate embryonic gut spheroids. Exploiting developmental plasticity therefore offers alternatives to pluripotent cells and opens alternative avenues for in vitro differentiation.

U2 - 10.1038/s41556-022-00923-x

DO - 10.1038/s41556-022-00923-x

M3 - Journal article

C2 - 35681011

AN - SCOPUS:85131161702

VL - 24

SP - 833

EP - 844

JO - Nature Cell Biology

JF - Nature Cell Biology

SN - 1465-7392

IS - 6

ER -

ID: 311118955

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