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Gene regulatory dynamics during craniofacial development in a carnivorous marsupial

ABSTRACT: Gene regulatory dynamics during craniofacial development in a carnivorous marsupial

PROVIDER: PRJNA780946 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR16959800_1.fastq.gz	Fastqsanger.gz
	SRR16959800_2.fastq.gz	Fastqsanger.gz
	SRR16959795_1.fastq.gz	Fastqsanger.gz
	SRR16959795_2.fastq.gz	Fastqsanger.gz
	SRR16959796_1.fastq.gz	Fastqsanger.gz

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Gene regulatory dynamics during craniofacial development in a carnivorous marsupial

Project description:Marsupials and placental mammals exhibit significant differences in reproductive and life history strategies. Marsupials are born highly underdeveloped after an extremely short period of gestation, leading to prioritization of the development of structures critical for post-birth survival in the pouch. Critically, they must undergo accelerated development of the oro-facial region compared to placentals. Previously we described the accelerated development of the oro-facial region in the carnivorous Australian marsupial, the fat-tailed dunnart Sminthopsis crassicaudata that has one of the shortest gestations of any mammal. By combining genome comparisons of the mouse and dunnart with functional data for the enhancer-associated chromatin modifications, H3K4me3 and H3K27ac, we investigated divergence of craniofacial regulatory landscapes between these species. While genes involved in regulating facial development were largely conserved in mouse and dunnart, the regulatory landscape varied significantly. Additionally, a subset of dunnart-specific enhancers were associated with genes highly expressed only in dunnart relating to cranial neural crest proliferation, embryonic myogenesis and epidermis development. Comparative RNA-seq analyses of facial tissue revealed dunnart-specific expression of genes involved in the development of the mechanosensory system. Accelerated development of the dunnart sensory system likely relates to the sensory cues received by the nasal-oral region during the postnatal journey to the pouch. Together these data suggest that accelerated development in the dunnart can be driven by dunnart-specific enhancer activity. Our study highlights the power of marsupial-placental comparative genomics for understanding the role of enhancers in driving temporal shifts in development.

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Project description:The shape of the human face is largely genetically determined, but the genetic drivers of craniofacial morphology remain poorly understood. In particular, little is known about the contributions of gene regulatory sequences active in the developing face to craniofacial morphology. Here we used a combination of epigenomic profiling, in vivo characterization of more than 200 craniofacial candidate enhancer sequences in transgenic mice, and targeted deletion experiments to examine the role of distant-acting enhancers in craniofacial development. We identified complex regulatory landscapes with thousands of enhancers genome-wide that drive a remarkable spatial complexity of in vivo expression patterns. The ChIP-seq experiments in this entry was the basis for the genome-wide analysis of craniofacial enhancers and served as the source for substantialin vivo characterization via transgenic reporter mice and for enhancer knockout experiments. p300 ChIP-seq experiment on mouse embryonic tissue (e11.5)

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The TET-Sall4-BMP regulatory axis controls craniofacial cartilage development

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