Cell Type-Specific Survey of Epigenetic Modifications by Tandem Chromatin Immunoprecipitation Sequencing

Abstract The nervous system of higher eukaryotes is composed of numerous types of neurons and glia that together orchestrate complex neuronal responses. However, this complex pool of cells typically poses analytical challenges in investigating gene expression profiles and their epigenetic basis for...

Descripción completa

Guardado en:

Detalles Bibliográficos
Autores principales:	Mari Mito, Mitsutaka Kadota, Kaori Tanaka, Yasuhide Furuta, Kuniya Abe, Shintaro Iwasaki, Shinichi Nakagawa
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2018
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/b817dfc4416a44bf93684049f0cb2b37
Etiquetas:	Agregar Etiqueta Sin Etiquetas, Sea el primero en etiquetar este registro!

id	oai:doaj.org-article:b817dfc4416a44bf93684049f0cb2b37
record_format	dspace
spelling	oai:doaj.org-article:b817dfc4416a44bf93684049f0cb2b372021-12-02T15:08:12ZCell Type-Specific Survey of Epigenetic Modifications by Tandem Chromatin Immunoprecipitation Sequencing10.1038/s41598-018-19494-92045-2322https://doaj.org/article/b817dfc4416a44bf93684049f0cb2b372018-01-01T00:00:00Zhttps://doi.org/10.1038/s41598-018-19494-9https://doaj.org/toc/2045-2322Abstract The nervous system of higher eukaryotes is composed of numerous types of neurons and glia that together orchestrate complex neuronal responses. However, this complex pool of cells typically poses analytical challenges in investigating gene expression profiles and their epigenetic basis for specific cell types. Here, we developed a novel method that enables cell type-specific analyses of epigenetic modifications using tandem chromatin immunoprecipitation sequencing (tChIP-Seq). FLAG-tagged histone H2B, a constitutive chromatin component, was first expressed in Camk2a-positive pyramidal cortical neurons and used to purify chromatin in a cell type-specific manner. Subsequent chromatin immunoprecipitation using antibodies against H3K4me3—a chromatin modification mainly associated with active promoters—allowed us to survey the histone modifications in Camk2a-positive neurons. Indeed, tChIP-Seq identified hundreds of H3K4me3 modifications in promoter regions located upstream of genes associated with neuronal functions and genes with unknown functions in cortical neurons. tChIP-Seq provides a versatile approach to investigating the epigenetic modifications of particular cell types in vivo.Mari MitoMitsutaka KadotaKaori TanakaYasuhide FurutaKuniya AbeShintaro IwasakiShinichi NakagawaNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 8, Iss 1, Pp 1-14 (2018)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Mari Mito Mitsutaka Kadota Kaori Tanaka Yasuhide Furuta Kuniya Abe Shintaro Iwasaki Shinichi Nakagawa Cell Type-Specific Survey of Epigenetic Modifications by Tandem Chromatin Immunoprecipitation Sequencing
description	Abstract The nervous system of higher eukaryotes is composed of numerous types of neurons and glia that together orchestrate complex neuronal responses. However, this complex pool of cells typically poses analytical challenges in investigating gene expression profiles and their epigenetic basis for specific cell types. Here, we developed a novel method that enables cell type-specific analyses of epigenetic modifications using tandem chromatin immunoprecipitation sequencing (tChIP-Seq). FLAG-tagged histone H2B, a constitutive chromatin component, was first expressed in Camk2a-positive pyramidal cortical neurons and used to purify chromatin in a cell type-specific manner. Subsequent chromatin immunoprecipitation using antibodies against H3K4me3—a chromatin modification mainly associated with active promoters—allowed us to survey the histone modifications in Camk2a-positive neurons. Indeed, tChIP-Seq identified hundreds of H3K4me3 modifications in promoter regions located upstream of genes associated with neuronal functions and genes with unknown functions in cortical neurons. tChIP-Seq provides a versatile approach to investigating the epigenetic modifications of particular cell types in vivo.
format	article
author	Mari Mito Mitsutaka Kadota Kaori Tanaka Yasuhide Furuta Kuniya Abe Shintaro Iwasaki Shinichi Nakagawa
author_facet	Mari Mito Mitsutaka Kadota Kaori Tanaka Yasuhide Furuta Kuniya Abe Shintaro Iwasaki Shinichi Nakagawa
author_sort	Mari Mito
title	Cell Type-Specific Survey of Epigenetic Modifications by Tandem Chromatin Immunoprecipitation Sequencing
title_short	Cell Type-Specific Survey of Epigenetic Modifications by Tandem Chromatin Immunoprecipitation Sequencing
title_full	Cell Type-Specific Survey of Epigenetic Modifications by Tandem Chromatin Immunoprecipitation Sequencing
title_fullStr	Cell Type-Specific Survey of Epigenetic Modifications by Tandem Chromatin Immunoprecipitation Sequencing
title_full_unstemmed	Cell Type-Specific Survey of Epigenetic Modifications by Tandem Chromatin Immunoprecipitation Sequencing
title_sort	cell type-specific survey of epigenetic modifications by tandem chromatin immunoprecipitation sequencing
publisher	Nature Portfolio
publishDate	2018
url	https://doaj.org/article/b817dfc4416a44bf93684049f0cb2b37
work_keys_str_mv	AT marimito celltypespecificsurveyofepigeneticmodificationsbytandemchromatinimmunoprecipitationsequencing AT mitsutakakadota celltypespecificsurveyofepigeneticmodificationsbytandemchromatinimmunoprecipitationsequencing AT kaoritanaka celltypespecificsurveyofepigeneticmodificationsbytandemchromatinimmunoprecipitationsequencing AT yasuhidefuruta celltypespecificsurveyofepigeneticmodificationsbytandemchromatinimmunoprecipitationsequencing AT kuniyaabe celltypespecificsurveyofepigeneticmodificationsbytandemchromatinimmunoprecipitationsequencing AT shintaroiwasaki celltypespecificsurveyofepigeneticmodificationsbytandemchromatinimmunoprecipitationsequencing AT shinichinakagawa celltypespecificsurveyofepigeneticmodificationsbytandemchromatinimmunoprecipitationsequencing
_version_	1718388275071156224

Cell Type-Specific Survey of Epigenetic Modifications by Tandem Chromatin Immunoprecipitation Sequencing

Ejemplares similares