<?xml-model href='http://www.tei-c.org/release/xml/tei/custom/schema/relaxng/tei_all.rng' schematypens='http://relaxng.org/ns/structure/1.0'?><TEI xmlns="http://www.tei-c.org/ns/1.0">
	<teiHeader>
		<fileDesc>
			<titleStmt><title level='a'>A single-cell rice atlas integrates multi-species data to reveal cis-regulatory evolution</title></titleStmt>
			<publicationStmt>
				<publisher>Springer Nature</publisher>
				<date>10/01/2025</date>
			</publicationStmt>
			<sourceDesc>
				<bibl> 
					<idno type="par_id">10687615</idno>
					<idno type="doi">10.1038/s41477-025-02106-6</idno>
					<title level='j'>Nature Plants</title>
<idno>2055-0278</idno>
<biblScope unit="volume">11</biblScope>
<biblScope unit="issue">10</biblScope>					

					<author>Haidong Yan</author><author>John P Mendieta</author><author>Xuan Zhang</author><author>Ziliang Luo</author><author>Alexandre P Marand</author><author>Yan Liang</author><author>Mark_A A Minow</author><author>Yun Zhong</author><author>Yarong Jin</author><author>Hosung Jang</author><author>Xiang Li</author><author>Xinxin Zhang</author><author>Thomas Roulé</author><author>Doris Wagner</author><author>Xiaoyu Tu</author><author>Yonghong Wang</author><author>Daiquan Jiang</author><author>Silin Zhong</author><author>Linkai Huang</author><author>Susan R Wessler</author><author>Robert J Schmitz</author>
				</bibl>
			</sourceDesc>
		</fileDesc>
		<profileDesc>
			<abstract><ab><![CDATA[<title>Abstract</title> <p><italic>Cis</italic>-regulatory elements (CREs) are essential for regulating gene expression, yet their evolutionary dynamics in plants remain elusive. Here we constructed a single-cell chromatin accessibility atlas for<italic>Oryza sativa</italic>from 103,911 nuclei representing 126 cell states across nine organs. Comparative genomics between<italic>O. sativa</italic>and 57,552 nuclei from four additional grass species (<italic>Zea mays</italic>,<italic>Sorghum bicolor</italic>,<italic>Panicum miliaceum</italic>and<italic>Urochloa fusca</italic>) revealed that chromatin accessibility conservation varies with cell-type specificity. Epidermal accessible chromatin regions in the leaf were less conserved compared to other cell types, indicating accelerated regulatory evolution in the L1-derived epidermal layer of<italic>O. sativa</italic>relative to other species. Conserved accessible chromatin regions overlapping the repressive histone modification H3K27me3 were identified as potentially silencer-like CREs, as deleting these regions led to up-regulation of gene expression. This study provides a comprehensive epigenomic resource for the rice community, demonstrating the utility of a comparative genomics approach that highlights the dynamics of plant cell-type-specific CRE evolution.</p>]]></ab></abstract>
		</profileDesc>
	</teiHeader>
	<text><body><div/></body></text>
</TEI>
