Genome-wide histone modification profiling of inner cell mass and trophectoderm of bovine blastocysts by RAT-ChIP.

Chromatin immunoprecipitation coupled with next-generation sequencing (ChIP-seq) has revolutionized our understanding of chromatin-related biological processes. The method, however, requires thousands of cells and has therefore limited applications in situations where cell numbers are limited. Here...

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Main Authors:	Tõnis Org, Kati Hensen, Rita Kreevan, Elina Mark, Olav Sarv, Reidar Andreson, Ülle Jaakma, Andres Salumets, Ants Kurg
Format:	Article
Language:	English
Published:	Public Library of Science (PLoS) 2019-01-01
Series:	PLoS ONE
Online Access:	https://doi.org/10.1371/journal.pone.0225801

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spelling	doaj-c06c968f555845d0bbef1e545ed2d3c72021-03-03T21:16:44ZengPublic Library of Science (PLoS)PLoS ONE1932-62032019-01-011411e022580110.1371/journal.pone.0225801Genome-wide histone modification profiling of inner cell mass and trophectoderm of bovine blastocysts by RAT-ChIP.Tõnis OrgKati HensenRita KreevanElina MarkOlav SarvReidar AndresonÜlle JaakmaAndres SalumetsAnts KurgChromatin immunoprecipitation coupled with next-generation sequencing (ChIP-seq) has revolutionized our understanding of chromatin-related biological processes. The method, however, requires thousands of cells and has therefore limited applications in situations where cell numbers are limited. Here we describe a novel method called Restriction Assisted Tagmentation Chromatin Immunoprecipitation (RAT-ChIP) that enables global histone modification profiling from as few as 100 cells. The method is simple, cost-effective and takes a single day to complete. We demonstrate the sensitivity of the method by deriving the first genome-wide maps of histone H3K4me3 and H3K27me3 modifications of inner cell mass and trophectoderm of bovine blastocyst stage embryos.https://doi.org/10.1371/journal.pone.0225801
collection	DOAJ
language	English
format	Article
sources	DOAJ
author	Tõnis Org Kati Hensen Rita Kreevan Elina Mark Olav Sarv Reidar Andreson Ülle Jaakma Andres Salumets Ants Kurg
spellingShingle	Tõnis Org Kati Hensen Rita Kreevan Elina Mark Olav Sarv Reidar Andreson Ülle Jaakma Andres Salumets Ants Kurg Genome-wide histone modification profiling of inner cell mass and trophectoderm of bovine blastocysts by RAT-ChIP. PLoS ONE
author_facet	Tõnis Org Kati Hensen Rita Kreevan Elina Mark Olav Sarv Reidar Andreson Ülle Jaakma Andres Salumets Ants Kurg
author_sort	Tõnis Org
title	Genome-wide histone modification profiling of inner cell mass and trophectoderm of bovine blastocysts by RAT-ChIP.
title_short	Genome-wide histone modification profiling of inner cell mass and trophectoderm of bovine blastocysts by RAT-ChIP.
title_full	Genome-wide histone modification profiling of inner cell mass and trophectoderm of bovine blastocysts by RAT-ChIP.
title_fullStr	Genome-wide histone modification profiling of inner cell mass and trophectoderm of bovine blastocysts by RAT-ChIP.
title_full_unstemmed	Genome-wide histone modification profiling of inner cell mass and trophectoderm of bovine blastocysts by RAT-ChIP.
title_sort	genome-wide histone modification profiling of inner cell mass and trophectoderm of bovine blastocysts by rat-chip.
publisher	Public Library of Science (PLoS)
series	PLoS ONE
issn	1932-6203
publishDate	2019-01-01
description	Chromatin immunoprecipitation coupled with next-generation sequencing (ChIP-seq) has revolutionized our understanding of chromatin-related biological processes. The method, however, requires thousands of cells and has therefore limited applications in situations where cell numbers are limited. Here we describe a novel method called Restriction Assisted Tagmentation Chromatin Immunoprecipitation (RAT-ChIP) that enables global histone modification profiling from as few as 100 cells. The method is simple, cost-effective and takes a single day to complete. We demonstrate the sensitivity of the method by deriving the first genome-wide maps of histone H3K4me3 and H3K27me3 modifications of inner cell mass and trophectoderm of bovine blastocyst stage embryos.
url	https://doi.org/10.1371/journal.pone.0225801
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Genome-wide histone modification profiling of inner cell mass and trophectoderm of bovine blastocysts by RAT-ChIP.

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