{"database":"biostudies-literature","file_versions":[],"scores":null,"additional":{"submitter":["Shestopalov IA"],"funding":["NICHD NIH HHS","NIGMS NIH HHS","NIH HHS"],"pagination":["270-6"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/S-EPMC3288381"],"repository":["biostudies-literature"],"omics_type":["Unknown"],"volume":["8(3)"],"pubmed_abstract":["Transcription factors have diverse roles during embryonic development, combinatorially controlling cellular states in a spatially and temporally defined manner. Resolving the dynamic transcriptional profiles that underlie these patterning processes is essential for understanding embryogenesis at the molecular level. Here we show how temporal, tissue-specific changes in embryonic transcription factor function can be discerned by integrating caged morpholino oligonucleotides with photoactivatable fluorophores, fluorescence-activated cell sorting and microarray technologies. As a proof of principle, we have dynamically profiled No tail a (Ntla)-dependent genes at different stages of axial mesoderm development in zebrafish, discovering discrete sets of transcripts that are coincident with either notochord cell fate commitment or differentiation. Our studies reveal new regulators of notochord development and the sequential activation of distinct transcriptomes within a cell lineage by a single transcriptional factor and demonstrate how optically controlled chemical tools can dissect developmental processes with spatiotemporal precision."],"journal":["Nature chemical biology"],"pubmed_title":["Spatiotemporal resolution of the Ntla transcriptome in axial mesoderm development."],"pmcid":["PMC3288381"],"funding_grant_id":["R01 GM087292","DP1 OD003792","R01 GM072600","R01 GM087292-03","DP1 OD003792-01","DP1 HD075622","R01 GM072600-05"],"pubmed_authors":["Shestopalov IA","Pitt CL","Chen JK"],"additional_accession":[]},"is_claimable":false,"name":"Spatiotemporal resolution of the Ntla transcriptome in axial mesoderm development.","description":"Transcription factors have diverse roles during embryonic development, combinatorially controlling cellular states in a spatially and temporally defined manner. Resolving the dynamic transcriptional profiles that underlie these patterning processes is essential for understanding embryogenesis at the molecular level. Here we show how temporal, tissue-specific changes in embryonic transcription factor function can be discerned by integrating caged morpholino oligonucleotides with photoactivatable fluorophores, fluorescence-activated cell sorting and microarray technologies. As a proof of principle, we have dynamically profiled No tail a (Ntla)-dependent genes at different stages of axial mesoderm development in zebrafish, discovering discrete sets of transcripts that are coincident with either notochord cell fate commitment or differentiation. Our studies reveal new regulators of notochord development and the sequential activation of distinct transcriptomes within a cell lineage by a single transcriptional factor and demonstrate how optically controlled chemical tools can dissect developmental processes with spatiotemporal precision.","dates":{"release":"2012-01-01T00:00:00Z","publication":"2012 Jan","modification":"2020-11-19T12:24:24Z","creation":"2019-03-27T00:49:32Z"},"accession":"S-EPMC3288381","cross_references":{"pubmed":["22286130"],"doi":["10.1038/nchembio.772"]}}