IDEAS home Printed from https://ideas.repec.org/a/nat/nature/v571y2019i7766d10.1038_s41586-019-1338-5.html
   My bibliography  Save this article

Gene expression across mammalian organ development

Author

Listed:
  • Margarida Cardoso-Moreira

    (Center for Molecular Biology of Heidelberg University (ZMBH)
    University of Lausanne)

  • Jean Halbert

    (University of Lausanne)

  • Delphine Valloton

    (University of Lausanne)

  • Britta Velten

    (European Molecular Biology Laboratory)

  • Chunyan Chen

    (Chinese Academy of Sciences
    Institute of Zoology, Chinese Academy of Sciences
    University of Chinese Academy of Sciences)

  • Yi Shao

    (Chinese Academy of Sciences
    Institute of Zoology, Chinese Academy of Sciences
    University of Chinese Academy of Sciences)

  • Angélica Liechti

    (University of Lausanne)

  • Kelly Ascenção

    (University of Lausanne)

  • Coralie Rummel

    (University of Lausanne)

  • Svetlana Ovchinnikova

    (Center for Molecular Biology of Heidelberg University (ZMBH))

  • Pavel V. Mazin

    (Skolkovo Institute of Science and Technology
    Institute for Information Transmission Problems (Kharkevich Institute) RAS
    HSE University)

  • Ioannis Xenarios

    (University of Lausanne)

  • Keith Harshman

    (University of Lausanne)

  • Matthew Mort

    (Cardiff University)

  • David N. Cooper

    (Cardiff University)

  • Carmen Sandi

    (Brain Mind Institute, École Polytechnique Fédérale de Lausanne (EPFL))

  • Michael J. Soares

    (University of Kansas Medical Center
    Children’s Mercy)

  • Paula G. Ferreira

    (Universidade do Porto
    Universidade do Porto)

  • Sandra Afonso

    (Universidade do Porto)

  • Miguel Carneiro

    (Universidade do Porto
    Universidade do Porto)

  • James M. A. Turner

    (The Francis Crick Institute)

  • John L. VandeBerg

    (The University of Texas Rio Grande Valley, Brownsville
    The University of Texas Rio Grande Valley, Brownsville)

  • Amir Fallahshahroudi

    (Linköping University)

  • Per Jensen

    (Linköping University)

  • Rüdiger Behr

    (Leibniz Institute for Primate Research (DPZ)
    Partner Site Göttingen)

  • Steven Lisgo

    (Newcastle University)

  • Susan Lindsay

    (Newcastle University)

  • Philipp Khaitovich

    (Skolkovo Institute of Science and Technology
    Chinese Academy of Sciences
    University of Chinese Academy of Sciences, Chinese Academy of Sciences)

  • Wolfgang Huber

    (European Molecular Biology Laboratory)

  • Julie Baker

    (Stanford University School of Medicine)

  • Simon Anders

    (Center for Molecular Biology of Heidelberg University (ZMBH))

  • Yong E. Zhang

    (Chinese Academy of Sciences
    Institute of Zoology, Chinese Academy of Sciences
    Chinese Academy of Sciences)

  • Henrik Kaessmann

    (Center for Molecular Biology of Heidelberg University (ZMBH))

Abstract

The evolution of gene expression in mammalian organ development remains largely uncharacterized. Here we report the transcriptomes of seven organs (cerebrum, cerebellum, heart, kidney, liver, ovary and testis) across developmental time points from early organogenesis to adulthood for human, rhesus macaque, mouse, rat, rabbit, opossum and chicken. Comparisons of gene expression patterns identified correspondences of developmental stages across species, and differences in the timing of key events during the development of the gonads. We found that the breadth of gene expression and the extent of purifying selection gradually decrease during development, whereas the amount of positive selection and expression of new genes increase. We identified differences in the temporal trajectories of expression of individual genes across species, with brain tissues showing the smallest percentage of trajectory changes, and the liver and testis showing the largest. Our work provides a resource of developmental transcriptomes of seven organs across seven species, and comparative analyses that characterize the development and evolution of mammalian organs.

Suggested Citation

  • Margarida Cardoso-Moreira & Jean Halbert & Delphine Valloton & Britta Velten & Chunyan Chen & Yi Shao & Angélica Liechti & Kelly Ascenção & Coralie Rummel & Svetlana Ovchinnikova & Pavel V. Mazin & Io, 2019. "Gene expression across mammalian organ development," Nature, Nature, vol. 571(7766), pages 505-509, July.
    • Handle: RePEc:nat:nature:v:571:y:2019:i:7766:d:10.1038_s41586-019-1338-5
    DOI: 10.1038/s41586-019-1338-5
    as

    Download full text from publisher

    File URL: https://www.nature.com/articles/s41586-019-1338-5
    File Function: Abstract
    Download Restriction: Access to the full text of the articles in this series is restricted.
    File URL: https://libkey.io/10.1038/s41586-019-1338-5?utm_source=ideas
    LibKey link: if access is restricted and if your library uses this service, LibKey will redirect you to where you can use your library subscription to access this item
    ---><---

    As the access to this document is restricted, you may want to search for a different version of it.

    Citations

    Citations are extracted by the CitEc Project, subscribe to its RSS feed for this item.
    as


    Cited by:

    1. Orshay Gabay & Yoav Shoshan & Eli Kopel & Udi Ben-Zvi & Tomer D. Mann & Noam Bressler & Roni Cohen‐Fultheim & Amos A. Schaffer & Shalom Hillel Roth & Ziv Tzur & Erez Y. Levanon & Eli Eisenberg, 2022. "Landscape of adenosine-to-inosine RNA recoding across human tissues," Nature Communications, Nature, vol. 13(1), pages 1-17, December.
    2. Rudrarup Bhattacharjee & Lachlan A. Jolly & Mark A. Corbett & Ing Chee Wee & Sushma R. Rao & Alison E. Gardner & Tarin Ritchie & Eline J. H. Hugte & Ummi Ciptasari & Sandra Piltz & Jacqueline E. Noll , 2024. "Compromised transcription-mRNA export factor THOC2 causes R-loop accumulation, DNA damage and adverse neurodevelopment," Nature Communications, Nature, vol. 15(1), pages 1-25, December.
    3. Juexin Wang & Jinpu Li & Skyler T. Kramer & Li Su & Yuzhou Chang & Chunhui Xu & Michael T. Eadon & Krzysztof Kiryluk & Qin Ma & Dong Xu, 2023. "Dimension-agnostic and granularity-based spatially variable gene identification using BSP," Nature Communications, Nature, vol. 14(1), pages 1-15, December.
    4. Marion Müller & Rose Eghbalian & Jes-Niels Boeckel & Karen S. Frese & Jan Haas & Elham Kayvanpour & Farbod Sedaghat-Hamedani & Maximilian K. Lackner & Oguz F. Tugrul & Thomas Ruppert & Rewati Tappu & , 2022. "NIMA-related kinase 9 regulates the phosphorylation of the essential myosin light chain in the heart," Nature Communications, Nature, vol. 13(1), pages 1-18, December.
    5. Miguel Angel Brieño-Enríquez & Mariela Faykoo-Martinez & Meagan Goben & Jennifer K. Grenier & Ashley McGrath & Alexandra M. Prado & Jacob Sinopoli & Kate Wagner & Patrick T. Walsh & Samia H. Lopa & Di, 2023. "Postnatal oogenesis leads to an exceptionally large ovarian reserve in naked mole-rats," Nature Communications, Nature, vol. 14(1), pages 1-17, December.
    6. Arashdeep Singh & Arati Rajeevan & Vishaka Gopalan & Piyush Agrawal & Chi-Ping Day & Sridhar Hannenhalli, 2022. "Broad misappropriation of developmental splicing profile by cancer in multiple organs," Nature Communications, Nature, vol. 13(1), pages 1-18, December.
    7. Benjamin Padilla-Morales & Alin P. Acuña-Alonzo & Huseyin Kilili & Atahualpa Castillo-Morales & Karina Díaz-Barba & Kathryn H. Maher & Laurie Fabian & Evangelos Mourkas & Tamás Székely & Martin-Alejan, 2024. "Sexual size dimorphism in mammals is associated with changes in the size of gene families related to brain development," Nature Communications, Nature, vol. 15(1), pages 1-11, December.
    8. Gwénaëlle Bontonou & Bastien Saint-Leandre & Tane Kafle & Tess Baticle & Afrah Hassan & Juan Antonio Sánchez-Alcañiz & J. Roman Arguello, 2024. "Evolution of chemosensory tissues and cells across ecologically diverse Drosophilids," Nature Communications, Nature, vol. 15(1), pages 1-17, December.
    9. David R. Amici & Harun Cingoz & Milad J. Alasady & Sammy Alhayek & Claire M. Phoumyvong & Nidhi Sahni & S. Stephen Yi & Marc L. Mendillo, 2023. "The HAPSTR2 retrogene buffers stress signaling and resilience in mammals," Nature Communications, Nature, vol. 14(1), pages 1-12, December.
    10. Tara N. Yankee & Sungryong Oh & Emma Wentworth Winchester & Andrea Wilderman & Kelsey Robinson & Tia Gordon & Jill A. Rosenfeld & Jennifer VanOudenhove & Daryl A. Scott & Elizabeth J. Leslie & Justin , 2023. "Integrative analysis of transcriptome dynamics during human craniofacial development identifies candidate disease genes," Nature Communications, Nature, vol. 14(1), pages 1-23, December.

    More about this item

    Statistics

    Access and download statistics

    Corrections

    All material on this site has been provided by the respective publishers and authors. You can help correct errors and omissions. When requesting a correction, please mention this item's handle: RePEc:nat:nature:v:571:y:2019:i:7766:d:10.1038_s41586-019-1338-5. See general information about how to correct material in RePEc.

    If you have authored this item and are not yet registered with RePEc, we encourage you to do it here. This allows to link your profile to this item. It also allows you to accept potential citations to this item that we are uncertain about.

    We have no bibliographic references for this item. You can help adding them by using this form .

    If you know of missing items citing this one, you can help us creating those links by adding the relevant references in the same way as above, for each refering item. If you are a registered author of this item, you may also want to check the "citations" tab in your RePEc Author Service profile, as there may be some citations waiting for confirmation.

    For technical questions regarding this item, or to correct its authors, title, abstract, bibliographic or download information, contact: Sonal Shukla or Springer Nature Abstracting and Indexing (email available below). General contact details of provider: http://www.nature.com .

    Please note that corrections may take a couple of weeks to filter through the various RePEc services.

    IDEAS is a RePEc service. RePEc uses bibliographic data supplied by the respective publishers.