WUSCHEL-dependent chromatin regulation in maize inflorescence development at single-cell resolution

IF 10.1 1区生物学 Q1 BIOTECHNOLOGY & APPLIED MICROBIOLOGY

Genome Biology Pub Date : 2025-10-02 DOI:10.1186/s13059-025-03791-4

Sohyun Bang, Xuan Zhang, Jason Gregory, Ziliang Luo, Zongliang Chen, Mark A. A. Minow, Mary Galli, Andrea Gallavotti, Robert J. Schmitz

{"title":"WUSCHEL-dependent chromatin regulation in maize inflorescence development at single-cell resolution","authors":"Sohyun Bang, Xuan Zhang, Jason Gregory, Ziliang Luo, Zongliang Chen, Mark A. A. Minow, Mary Galli, Andrea Gallavotti, Robert J. Schmitz","doi":"10.1186/s13059-025-03791-4","DOIUrl":null,"url":null,"abstract":"WUSCHEL (WUS) is a homeodomain transcription factor vital for stem cell proliferation in plant meristems. In maize, ZmWUS1 is expressed in the inflorescence meristem, including the central zone reservoir of stem cells. ZmWUS1 overexpression in the Barren inflorescence3 (Bif3) mutant perturbs inflorescence development due to stem cell over-proliferation. Single-cell Assay for Transposase Accessible Chromatin sequencing (scATAC-seq) shows that Bif3 alters central zone chromatin accessibility compared to normal inflorescence meristems. The CAATAATGC motif, a known homeodomain recognition site, is enriched within regions with increased chromatin accessibility in Bif3, suggesting ZmWUS1 could function as a transcriptional activator in the central zone. This motif differs from the TGAATGAA motif identified by DNA Affinity Purification sequencing (DAP-seq) of ZmWUS1, which showed low enrichment in the central zone. Conversely, regions with decreased chromatin accessibility in Bif3 are instead adjacent to AUXIN RESPONSE FACTOR genes, suggesting possible reduced auxin signaling in the Bif3 central zone. This study characterized how Bif3 overexpression of ZmWUS1 influences chromatin accessibility in the central zone, reducing auxin signaling, while raising questions about differential ZmWUS1 motif usage in distinct cellular contexts.","PeriodicalId":12611,"journal":{"name":"Genome Biology","volume":"72 1","pages":""},"PeriodicalIF":10.1000,"publicationDate":"2025-10-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"Genome Biology","FirstCategoryId":"99","ListUrlMain":"https://doi.org/10.1186/s13059-025-03791-4","RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q1","JCRName":"BIOTECHNOLOGY & APPLIED MICROBIOLOGY","Score":null,"Total":0}

引用次数: 0

Abstract

WUSCHEL (WUS) is a homeodomain transcription factor vital for stem cell proliferation in plant meristems. In maize, ZmWUS1 is expressed in the inflorescence meristem, including the central zone reservoir of stem cells. ZmWUS1 overexpression in the Barren inflorescence3 (Bif3) mutant perturbs inflorescence development due to stem cell over-proliferation. Single-cell Assay for Transposase Accessible Chromatin sequencing (scATAC-seq) shows that Bif3 alters central zone chromatin accessibility compared to normal inflorescence meristems. The CAATAATGC motif, a known homeodomain recognition site, is enriched within regions with increased chromatin accessibility in Bif3, suggesting ZmWUS1 could function as a transcriptional activator in the central zone. This motif differs from the TGAATGAA motif identified by DNA Affinity Purification sequencing (DAP-seq) of ZmWUS1, which showed low enrichment in the central zone. Conversely, regions with decreased chromatin accessibility in Bif3 are instead adjacent to AUXIN RESPONSE FACTOR genes, suggesting possible reduced auxin signaling in the Bif3 central zone. This study characterized how Bif3 overexpression of ZmWUS1 influences chromatin accessibility in the central zone, reducing auxin signaling, while raising questions about differential ZmWUS1 motif usage in distinct cellular contexts.

查看原文本刊更多论文

单细胞分辨率下玉米花序发育中依赖于wuschell的染色质调控

WUSCHEL （WUS）是一种在植物分生组织中对干细胞增殖至关重要的同源结构域转录因子。在玉米中，ZmWUS1在花序分生组织中表达，包括干细胞的中央区储存库。在不育型花序3 （Bif3）突变体中，ZmWUS1过表达会因干细胞过度增殖而干扰花序发育。转座酶可及染色质测序（scATAC-seq）单细胞分析显示，与正常的花序分生组织相比，Bif3改变了中心区染色质可及性。CAATAATGC基序是一个已知的同源结构域识别位点，在Bif3染色质可及性增加的区域内富集，这表明ZmWUS1可能在中心区域发挥转录激活因子的作用。该基序与ZmWUS1的DNA亲和纯化测序（DAP-seq）鉴定的TGAATGAA基序不同，后者在中心区域富集程度较低。相反，在Bif3中染色质可及性降低的区域与生长素反应因子基因相邻，这表明在Bif3中心区域生长素信号传导可能减少。本研究描述了ZmWUS1的Bif3过表达如何影响中心区域的染色质可及性，减少生长素信号传导，同时提出了关于不同细胞背景下ZmWUS1基序使用差异的问题。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

求助全文

约1分钟内获得全文求助全文

来源期刊

Genome Biology Biochemistry, Genetics and Molecular Biology-Genetics

CiteScore

21.00

自引率

3.30%

发文量

241

审稿时长

2 months

期刊介绍： Genome Biology stands as a premier platform for exceptional research across all domains of biology and biomedicine, explored through a genomic and post-genomic lens. With an impressive impact factor of 12.3 (2022),* the journal secures its position as the 3rd-ranked research journal in the Genetics and Heredity category and the 2nd-ranked research journal in the Biotechnology and Applied Microbiology category by Thomson Reuters. Notably, Genome Biology holds the distinction of being the highest-ranked open-access journal in this category. Our dedicated team of highly trained in-house Editors collaborates closely with our esteemed Editorial Board of international experts, ensuring the journal remains on the forefront of scientific advances and community standards. Regular engagement with researchers at conferences and institute visits underscores our commitment to staying abreast of the latest developments in the field.