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Distinct gene expression dynamics in developing and regenerating limbs

View ORCID ProfileChiara Sinigaglia, Alba Almazán, View ORCID ProfileMarie Sémon, Benjamin Gillet, View ORCID ProfileSandrine Hughes, View ORCID ProfileEric Edsinger, View ORCID ProfileMichalis Averof, View ORCID ProfileMathilde Paris
doi: https://doi.org/10.1101/2021.06.14.448408
Chiara Sinigaglia
1Institut de Génomique Fonctionnelle de Lyon (IGFL), École Normale Supérieure de Lyon, 32 avenue Tony Garnier, 69007 Lyon, France
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  • For correspondence: mathilde.paris@ens-lyon.fr
Alba Almazán
1Institut de Génomique Fonctionnelle de Lyon (IGFL), École Normale Supérieure de Lyon, 32 avenue Tony Garnier, 69007 Lyon, France
2Centre National de la Recherche Scientifique (CNRS), France
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Marie Sémon
3Laboratoire de Biologie et Modélisation de la Cellule, École Normale Supérieure de Lyon, 46 allée d’Italie, 69364 Lyon, France
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Benjamin Gillet
1Institut de Génomique Fonctionnelle de Lyon (IGFL), École Normale Supérieure de Lyon, 32 avenue Tony Garnier, 69007 Lyon, France
2Centre National de la Recherche Scientifique (CNRS), France
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Sandrine Hughes
1Institut de Génomique Fonctionnelle de Lyon (IGFL), École Normale Supérieure de Lyon, 32 avenue Tony Garnier, 69007 Lyon, France
2Centre National de la Recherche Scientifique (CNRS), France
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Eric Edsinger
4Salk Institute for Biological Studies, 10010 N Torrey Pines Road, La Jolla CA 92037, USA
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Michalis Averof
1Institut de Génomique Fonctionnelle de Lyon (IGFL), École Normale Supérieure de Lyon, 32 avenue Tony Garnier, 69007 Lyon, France
2Centre National de la Recherche Scientifique (CNRS), France
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  • For correspondence: mathilde.paris@ens-lyon.fr
Mathilde Paris
1Institut de Génomique Fonctionnelle de Lyon (IGFL), École Normale Supérieure de Lyon, 32 avenue Tony Garnier, 69007 Lyon, France
2Centre National de la Recherche Scientifique (CNRS), France
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  • For correspondence: mathilde.paris@ens-lyon.fr
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ABSTRACT

Regenerating animals have the ability to reproduce organs that were originally generated in the embryo and subsequently lost due to injury. Understanding whether the process of regeneration mirrors development is an open question in most regenerative species. Here we take a transcriptomics approach to examine to what extent leg regeneration shows the same temporal patterns of gene expression as leg development in the embryo, in the crustacean Parhyale hawaiensis. We find that leg development in the embryo shows stereotypic temporal patterns of gene expression. In contrast, global patterns of gene expression during leg regeneration show a high degree of variation, related to the physiology of individual animals. A major driver of this variation is the molting cycle. After dissecting the transcriptional signals of individual physiology from regeneration, we obtain temporal signals that mark distinct phases of leg regeneration. Comparing the transcriptional dynamics of development and regeneration we find that, although both processes use largely the same genes, the temporal patterns in which these gene sets are deployed are different and cannot be systematically aligned.

HIGHLIGHTS

  • Single-limb data on transcriptional dynamics of leg development and regeneration

  • Developing embryonic legs show stereotypic transcriptional profiles

  • Regenerating leg transcriptomes show a high degree on individual variation

  • Regenerating leg transcriptomes are influenced by adult physiology, especially molting

  • Regenerating leg transcriptomes reveal distinct phases of leg regeneration

  • Leg development and regeneration use overlapping sets of genes in different temporal patterns

Competing Interest Statement

The authors have declared no competing interest.

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-NC-ND 4.0 International license.
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Posted June 14, 2021.
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Distinct gene expression dynamics in developing and regenerating limbs
Chiara Sinigaglia, Alba Almazán, Marie Sémon, Benjamin Gillet, Sandrine Hughes, Eric Edsinger, Michalis Averof, Mathilde Paris
bioRxiv 2021.06.14.448408; doi: https://doi.org/10.1101/2021.06.14.448408
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Distinct gene expression dynamics in developing and regenerating limbs
Chiara Sinigaglia, Alba Almazán, Marie Sémon, Benjamin Gillet, Sandrine Hughes, Eric Edsinger, Michalis Averof, Mathilde Paris
bioRxiv 2021.06.14.448408; doi: https://doi.org/10.1101/2021.06.14.448408

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