Conserved and species-specific chromatin remodeling and regulatory dynamics during mouse and chicken limb bud development.
Animals
Basic Helix-Loop-Helix Transcription Factors
/ metabolism
Body Patterning
/ genetics
Chick Embryo
Chickens
Chromatin Assembly and Disassembly
Chromatin Immunoprecipitation Sequencing
Computer Simulation
Embryo, Mammalian
Embryonic Development
/ genetics
Gene Expression Regulation, Developmental
Gene Regulatory Networks
Limb Buds
/ embryology
Mice
Nerve Tissue Proteins
/ metabolism
RNA-Seq
Species Specificity
Zinc Finger Protein Gli3
/ metabolism
Journal
Nature communications
ISSN: 2041-1723
Titre abrégé: Nat Commun
Pays: England
ID NLM: 101528555
Informations de publication
Date de publication:
28 09 2021
28 09 2021
Historique:
received:
28
01
2021
accepted:
07
09
2021
entrez:
29
9
2021
pubmed:
30
9
2021
medline:
24
10
2021
Statut:
epublish
Résumé
Chromatin remodeling and genomic alterations impact spatio-temporal regulation of gene expression, which is central to embryonic development. The analysis of mouse and chicken limb development provides important insights into the morphoregulatory mechanisms, however little is known about the regulatory differences underlying their morphological divergence. Here, we identify the underlying shared and species-specific epigenomic and genomic variations. In mouse forelimb buds, we observe striking synchrony between the temporal dynamics of chromatin accessibility and gene expression, while their divergence in chicken wing buds uncovers species-specific regulatory heterochrony. In silico mapping of transcription factor binding sites and computational footprinting establishes the developmental time-restricted transcription factor-DNA interactions. Finally, the construction of target gene networks for HAND2 and GLI3 transcriptional regulators reveals both conserved and species-specific interactions. Our analysis reveals the impact of genome evolution on the regulatory interactions orchestrating vertebrate limb bud morphogenesis and provides a molecular framework for comparative Evo-Devo studies.
Identifiants
pubmed: 34584102
doi: 10.1038/s41467-021-25935-3
pii: 10.1038/s41467-021-25935-3
pmc: PMC8479071
doi:
Substances chimiques
Basic Helix-Loop-Helix Transcription Factors
0
Gli3 protein, mouse
0
Hand2 protein, mouse
0
Nerve Tissue Proteins
0
Zinc Finger Protein Gli3
0
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
5685Informations de copyright
© 2021. The Author(s).
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