组蛋白变体H2A.Z标记常染色质中活跃基因和非活跃基因的5'端。
Histone variant H2A.Z marks the 5' ends of both active and inactive genes in euchromatin.
作者信息
Raisner Ryan M, Hartley Paul D, Meneghini Marc D, Bao Marie Z, Liu Chih Long, Schreiber Stuart L, Rando Oliver J, Madhani Hiten D
机构信息
Department of Biochemistry and Biophysics, University of California, 600 16th Street, San Francisco, California 94143, USA.
出版信息
Cell. 2005 Oct 21;123(2):233-48. doi: 10.1016/j.cell.2005.10.002.
Abstract
In S. cerevisiae, histone variant H2A.Z is deposited in euchromatin at the flanks of silent heterochromatin to prevent its ectopic spread. We show that H2A.Z nucleosomes are found at promoter regions of nearly all genes in euchromatin. They generally occur as two positioned nucleosomes that flank a nucleosome-free region (NFR) that contains the transcription start site. Astonishingly, enrichment at 5' ends is observed not only at actively transcribed genes but also at inactive loci. Mutagenesis of a typical promoter revealed a 22 bp segment of DNA sufficient to program formation of a NFR flanked by two H2A.Z nucleosomes. This segment contains a binding site of the Myb-related protein Reb1 and an adjacent dT:dA tract. Efficient deposition of H2A.Z is further promoted by a specific pattern of histone H3 and H4 tail acetylation and the bromodomain protein Bdf1, a component of the Swr1 remodeling complex that deposits H2A.Z.
摘要
在酿酒酵母中，组蛋白变体H2A.Z沉积在常染色质中沉默异染色质的侧翼，以防止其异位扩散。我们发现，H2A.Z核小体存在于常染色质中几乎所有基因的启动子区域。它们通常以两个定位核小体的形式出现，位于包含转录起始位点的无核小体区域（NFR）两侧。令人惊讶的是，不仅在活跃转录的基因中，而且在非活性位点的5'端也观察到富集。对一个典型启动子的诱变揭示了一段22 bp的DNA片段，足以编程形成一个由两个H2A.Z核小体侧翼的NFR。该片段包含Myb相关蛋白Reb1的结合位点和相邻的dT:dA序列。组蛋白H3和H4尾部乙酰化的特定模式以及溴结构域蛋白Bdf1（一种沉积H2A.Z的Swr1重塑复合物的成分）进一步促进了H2A.Z的有效沉积。
相似文献
1
Histone variant H2A.Z marks the 5' ends of both active and inactive genes in euchromatin.组蛋白变体H2A.Z标记常染色质中活跃基因和非活跃基因的5'端。
Cell. 2005 Oct 21;123(2):233-48. doi: 10.1016/j.cell.2005.10.002.
2
A protein complex containing the conserved Swi2/Snf2-related ATPase Swr1p deposits histone variant H2A.Z into euchromatin.一种包含保守的Swi2/Snf2相关ATP酶Swr1p的蛋白质复合物将组蛋白变体H2A.Z沉积到常染色质中。
PLoS Biol. 2004 May;2(5):E131. doi: 10.1371/journal.pbio.0020131. Epub 2004 Mar 23.
3
Histone H2A.Z regulats transcription and is partially redundant with nucleosome remodeling complexes.组蛋白H2A.Z调控转录，并且与核小体重塑复合体部分功能冗余。
Cell. 2000 Oct 27;103(3):411-22. doi: 10.1016/s0092-8674(00)00133-1.
4
Conserved histone variant H2A.Z protects euchromatin from the ectopic spread of silent heterochromatin.保守的组蛋白变体H2A.Z保护常染色质免受沉默异染色质的异位扩散。
Cell. 2003 Mar 7;112(5):725-36. doi: 10.1016/s0092-8674(03)00123-5.
5
Variant histone H2A.Z is globally localized to the promoters of inactive yeast genes and regulates nucleosome positioning.变体组蛋白H2A.Z在全基因组范围内定位于无活性酵母基因的启动子区域，并调控核小体定位。
PLoS Biol. 2005 Dec;3(12):e384. doi: 10.1371/journal.pbio.0030384. Epub 2005 Nov 1.
6
NuA4-dependent acetylation of nucleosomal histones H4 and H2A directly stimulates incorporation of H2A.Z by the SWR1 complex.NuA4 依赖性核小体组蛋白 H4 和 H2A 的乙酰化直接刺激 SWR1 复合物掺入 H2A.Z。
J Biol Chem. 2010 May 21;285(21):15966-77. doi: 10.1074/jbc.M110.117069. Epub 2010 Mar 23.
7
Yeast heterochromatin regulators Sir2 and Sir3 act directly at euchromatic DNA replication origins.酵母异染色质调节因子 Sir2 和 Sir3 直接作用于常染色质复制起点。
PLoS Genet. 2018 May 24;14(5):e1007418. doi: 10.1371/journal.pgen.1007418. eCollection 2018 May.
8
Mechanisms that specify promoter nucleosome location and identity.确定启动子核小体位置和特性的机制。
Cell. 2009 May 1;137(3):445-58. doi: 10.1016/j.cell.2009.02.043.
9
Patterning chromatin: form and function for H2A.Z variant nucleosomes.染色质的模式形成：H2A.Z变体核小体的形式与功能
Curr Opin Genet Dev. 2006 Apr;16(2):119-24. doi: 10.1016/j.gde.2006.02.005. Epub 2006 Feb 28.
10
Maintenance of heterochromatin boundary and nucleosome composition at promoters by the Asf1 histone chaperone and SWR1-C chromatin remodeler in Saccharomyces cerevisiae.酿酒酵母中Asf1组蛋白伴侣和SWR1-C染色质重塑因子对启动子处异染色质边界和核小体组成的维持作用
Genetics. 2014 May;197(1):133-45. doi: 10.1534/genetics.114.162909. Epub 2014 Feb 27.
引用本文的文献
1
Divergent Mechanisms of H2AZ.1 and H2AZ.2 in PRC1-Mediated H2A Ubiquitination.PRC1介导的H2A泛素化过程中H2AZ.1和H2AZ.2的不同机制
Cells. 2025 Jul 23;14(15):1133. doi: 10.3390/cells14151133.
2
Bromodomain proteins IBD1 and IBD2 link histone acetylation to SWR1- and INO80-mediated H2A.Z regulation in Tetrahymena.溴结构域蛋白IBD1和IBD2将组蛋白乙酰化与四膜虫中SWR1和INO80介导的H2A.Z调控联系起来。
Epigenetics Chromatin. 2025 Aug 6;18(1):51. doi: 10.1186/s13072-025-00614-5.
3
R-loops shape chromatin architecture to promote balanced lineage allocation during differentiation.R环塑造染色质结构以促进分化过程中的平衡谱系分配。
bioRxiv. 2025 Jun 25:2025.06.23.661125. doi: 10.1101/2025.06.23.661125.
4
Histone variants: key regulators of inflammation in cell dedifferentiation and transdifferentiation.组蛋白变体：细胞去分化和转分化过程中炎症的关键调节因子。
Front Immunol. 2025 Jun 27;16:1619100. doi: 10.3389/fimmu.2025.1619100. eCollection 2025.
5
H3K4me3 binding ALFIN-LIKE proteins recruit SWR1 for gene-body deposition of H2A.Z.与H3K4me3结合的类ALFIN蛋白招募SWR1以进行H2A.Z在基因体上的沉积。
Genome Biol. 2025 May 21;26(1):137. doi: 10.1186/s13059-025-03605-7.
6
H2A.Z deposition by the SWR complex is stimulated by polyadenine DNA sequences in nucleosomes.核小体中的多聚腺嘌呤DNA序列可刺激SWR复合物介导的H2A.Z沉积。
PLoS Biol. 2025 May 12;23(5):e3003059. doi: 10.1371/journal.pbio.3003059. eCollection 2025 May.
7
HSV-1 infection induces a downstream shift of the +1 nucleosome.单纯疱疹病毒1型感染会导致+1核小体发生下游移位。
J Virol. 2025 Apr 15;99(4):e0208624. doi: 10.1128/jvi.02086-24. Epub 2025 Mar 25.
8
Characterizing the regulatory effects of H2A.Z and SWR1-C on gene expression during hydroxyurea exposure in Saccharomyces cerevisiae.表征酿酒酵母在羟基脲暴露期间H2A.Z和SWR1-C对基因表达的调控作用。
PLoS Genet. 2025 Jan 21;21(1):e1011566. doi: 10.1371/journal.pgen.1011566. eCollection 2025 Jan.
9
Molecular basis of global promoter sensing and nucleosome capture by the SWR1 chromatin remodeler.SWR1 染色质重塑因子通过全局启动子感应和核小体捕获的分子基础。
Cell. 2024 Nov 27;187(24):6849-6864.e18. doi: 10.1016/j.cell.2024.09.007. Epub 2024 Oct 1.
10
Structural and Biochemical Characterization of the Nucleosome Containing Variants H3.3 and H2A.Z.包含变体H3.3和H2A.Z的核小体的结构与生化特性
Epigenomes. 2024 May 27;8(2):21. doi: 10.3390/epigenomes8020021.
本文引用的文献
1
Exploration of the function and organization of the yeast early secretory pathway through an epistatic miniarray profile.通过上位性微阵列分析探索酵母早期分泌途径的功能与组织
Cell. 2005 Nov 4;123(3):507-19. doi: 10.1016/j.cell.2005.08.031.
2
Genome-wide map of nucleosome acetylation and methylation in yeast.酵母中核小体乙酰化和甲基化的全基因组图谱。
Cell. 2005 Aug 26;122(4):517-27. doi: 10.1016/j.cell.2005.06.026.
3
Single-nucleosome mapping of histone modifications in S. cerevisiae.酿酒酵母中组蛋白修饰的单核小体图谱分析。
PLoS Biol. 2005 Oct;3(10):e328. doi: 10.1371/journal.pbio.0030328. Epub 2005 Aug 30.
4
Genome-scale identification of nucleosome positions in S. cerevisiae.酿酒酵母中核小体位置的全基因组规模鉴定。
Science. 2005 Jul 22;309(5734):626-30. doi: 10.1126/science.1112178. Epub 2005 Jun 16.
5
Intrinsic histone-DNA interactions and low nucleosome density are important for preferential accessibility of promoter regions in yeast.内在的组蛋白与DNA相互作用以及低核小体密度对于酵母中启动子区域的优先可及性很重要。
Mol Cell. 2005 Jun 10;18(6):735-48. doi: 10.1016/j.molcel.2005.05.003.
6
Fast and systematic genome-wide discovery of conserved regulatory elements using a non-alignment based approach.使用基于非比对的方法快速系统地在全基因组范围内发现保守调控元件。
Genome Biol. 2005;6(2):R18. doi: 10.1186/gb-2005-6-2-r18. Epub 2005 Jan 26.
7
The yeast Rat1 exonuclease promotes transcription termination by RNA polymerase II.酵母Rat1核酸外切酶可促进RNA聚合酶II介导的转录终止。
Nature. 2004 Nov 25;432(7016):517-22. doi: 10.1038/nature03041.
8
Global nucleosome occupancy in yeast.酵母中的全基因组核小体占据情况。
Genome Biol. 2004;5(9):R62. doi: 10.1186/gb-2004-5-9-r62. Epub 2004 Aug 20.
9
Methylation of H3 lysine 4 at euchromatin promotes Sir3p association with heterochromatin.常染色质中H3赖氨酸4的甲基化促进Sir3p与异染色质的结合。
J Biol Chem. 2004 Nov 12;279(46):47506-12. doi: 10.1074/jbc.M407949200. Epub 2004 Jul 27.
10
Evidence for nucleosome depletion at active regulatory regions genome-wide.全基因组范围内活性调控区域核小体缺失的证据。
Nat Genet. 2004 Aug;36(8):900-5. doi: 10.1038/ng1400. Epub 2004 Jul 11.
Zotero 插件