Universität zu Köln

Frerichs, Anneke, Engelhorn, Julia, Altmueller, Janine, Gutierrez-Marcos, Jose ORCID: 0000-0002-5441-9080 and Werr, Wolfgang (2019). Specific chromatin changes mark lateral organ founder cells in the Arabidopsis inflorescence meristem. J. Exp. Bot., 70 (15). S. 3867 - 3880. OXFORD: OXFORD UNIV PRESS. ISSN 1460-2431

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Abstract

Fluorescence-activated cell sorting (FACS) and assay for transposase-accessible chromatin with high-throughput sequencing (ATAC-seq) were combined to analyse the chromatin state of lateral organ founder cells (LOFCs) in the peripheral zone of the Arabidopsis apetala1-1 cauliflower-1 double mutant inflorescence meristem. On a genome-wide level, we observed a striking correlation between transposase hypersensitive sites (THSs) detected by ATAC-seq and DNase I hypersensitive sites (DHSs). The mostly expanded DHSs were often substructured into several individual THSs, which correlated with phylogenetically conserved DNA sequences or enhancer elements. Comparing chromatin accessibility with available RNA-seq data, THS change configuration was reflected by gene activation or repression and chromatin regions acquired or lost transposase accessibility in direct correlation with gene expression levels in LOFCs. This was most pronounced immediately upstream of the transcription start, where genome-wide THSs were abundant in a complementary pattern to established H3K4me3 activation or H3K27me3 repression marks. At this resolution, the combined application of FACS/ATAC-seq is widely applicable to detect chromatin changes during cell-type specification and facilitates the detection of regulatory elements in plant promoters.

Item Type:	Journal Article
Creators:	Creators Email ORCID ORCID Put Code Frerichs, Anneke UNSPECIFIED UNSPECIFIED UNSPECIFIED Engelhorn, Julia UNSPECIFIED UNSPECIFIED UNSPECIFIED Altmueller, Janine UNSPECIFIED UNSPECIFIED UNSPECIFIED Gutierrez-Marcos, Jose UNSPECIFIED orcid.org/0000-0002-5441-9080 UNSPECIFIED Werr, Wolfgang UNSPECIFIED UNSPECIFIED UNSPECIFIED
URN:	urn:nbn:de:hbz:38-145161
DOI:	10.1093/jxb/erz181
Journal or Publication Title:	J. Exp. Bot.
Volume:	70
Number:	15
Page Range:	S. 3867 - 3880
Date:	2019
Publisher:	OXFORD UNIV PRESS
Place of Publication:	OXFORD
ISSN:	1460-2431
Language:	English
Faculty:	Unspecified
Divisions:	Unspecified
Subjects:	no entry
Uncontrolled Keywords:	Keywords Language GENE-EXPRESSION MAP; DORNROSCHEN-LIKE; DORNRA-SCHEN; TRANSCRIPTION; BINDING; INITIATION; CYTOSCAPE; ELEMENT; DOMAIN; LEAFY Multiple languages Plant Sciences Multiple languages
Refereed:	Yes
URI:	http://kups.ub.uni-koeln.de/id/eprint/14516