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The basic-helix-loop-helix transcription factor ngn-1/neurogenin activates transcription of multiple terminal selector transcription factors in the Caenorhabditis elegans nervous system

ABSTRACT: The basic-helix-loop-helix transcription factor ngn-1/neurogenin activates transcription of multiple terminal selector transcription factors in the Caenorhabditis elegans nervous system

PROVIDER: PRJNA601008 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR10882545.fastq.gz	Fastqsanger.gz
	SRR10882546.fastq.gz	Fastqsanger.gz
	SRR10882547.fastq.gz	Fastqsanger.gz
	SRR10882548.fastq.gz	Fastqsanger.gz
	SRR10882549.fastq.gz	Fastqsanger.gz

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The basic-helix-loop-helix transcription factor ngn-1/neurogenin activates transcription of multiple terminal selector transcription factors in the Caenorhabditis elegans nervous system

Project description:Proper nervous system development is required for an organism’s survival and function. Defects in neurogenesis have been linked to neurodevelopmental disorders such as schizophrenia and autism spectrum disorders. Understanding the gene regulatory networks that orchestrate neural development, specifically cascades of proneural transcription factors, can better elucidate which genes are most essential in governing early neurogenesis. Neurogenins are a family of such factors that are both sufficient and necessary for the development of neural sub-types in mice, primarily through the regulation of other factors, particularly neurod. The objective of this study was to evaluate previously established regulatory targets of neurogenin (ngn-1) and to identify unknown downstream targets, using the nematode Caenorhabditis elegans as a model for these studies. We find that in C. elegans, neurogenin is required for axon outgrowth, cell fate specification, and epithelial integrity during embryonic development. Using RNA sequencing and comparative transcriptome analysis we found that ngn-1 acts primarily to repress transcription, facilitating proper embryogenesis. We also identified specific candidates for activation by ngn-1, including hlh-34(npas1) and unc-42(prop1), which we further validated using genetic methods. Our results identify novel pathways connecting ngn-1 to known terminal regulators, which maintain cell fate of terminally differentiated neural subtypes, and align neurogenins within the larger context of proneural transcription factors.

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MS23, a master basic helix-loop-helix factor in maize, regulates the birth and maturation of tapetum

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Basic helix-loop-helix transcription factors MYC-MAX and CLOCK-BMAL1 associate with histones for E-box access

Project description:Basic helix-loop-helix transcription factors MYC-MAX and CLOCK-BMAL1 associate with histones for E-box access

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Basic helix-loop-helix transcription factor Tcf21 is downstream target of male sex-determining gene SRY

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Genome-wide features of neuroendocrine regulation in Drosophila by the basic helix-loop-helix transcription factor DIMMED

Project description:Neuroendocrine (NE) cells use large dense core vesicles (LDCVs) to traffic, process, store and secrete neuropeptide hormones through the regulated secretory pathway. The DIMM basic helix-loop-helix transcription factor of Drosophila controls the level of regulated secretory activity in NE cells. To pursue its mechanisms, we have performed two independent genome-wide analyses of DIMM’s activities: (i) in vivo chromatin immunoprecipitation (ChIP) to define genomic sites of DIMM occupancy and (ii) deep sequencing of purified DIMM neurons to characterize their transcriptional profile. By this combined approach, we showed that DIMM binds to conserved E-boxes in enhancers of 212 genes whose expression is enriched in DIMM-expressing NE cells. DIMM binds preferentially to certain E-boxes within first introns of specific gene isoforms. Statistical machine learning revealed that flanking regions of putative DIMM binding sites contribute to its DNA binding specificity. DIMM’s transcriptional repertoire features at least 20 LDCV constituents. In addition, DIMM notably targets the pro-secretory transcription factor, CREB-A, but significantly, DIMM does not target any neuropeptide genes. DIMM therefore prescribes the scale of secretory activity in NE neurons, by a systematic control of the regulated secretory pathway at steps that are both proximal and distal.

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Basic helix-loop-helix transcription factors MYC-MAX and CLOCK-BMAL1 associate with histones for E-box access

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