Evolution and conservation of polycomb repressive complex 1 core components and putative associated factors in the green lineage
Evolution and conservation of polycomb repressive complex 1 core components and putative associated factors in the green lineage
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DOI：
10.1186/s12864-019-5905-9
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发表时间：
2019-06-28
期刊：
影响因子：
4.4
通讯作者：
Ruan, Ying
中科院分区：
文献类型：
--
作者：
Huang, Yong;Jiang, Ling;Ruan, Ying
背景聚梳组(Polycomb group，PcG)蛋白在动植物发育和应激反应中发挥重要作用。多梳抑制复合体1(Prc1)和prc2是基因表达的关键表观遗传调控因子，几乎参与了所有发育阶段。Prc1催化H_2A单泛素化，导致转录沉默或激活。利用生物信息学技术对绿色谱系中的PRC1组分进行了鉴定，并对其进化和保护进行了分析。环指蛋白1(RING1)、B淋巴瘤Mo-MLV插入区1同源基因(BMI1)、异染色质蛋白1(LHP1)和胚胎花样蛋白1(EMF1)是PRC1的核心成分，春化1(VRN1)、VP1/ABI3样1/2/3(VAL1/2/3)、Alfin样1-7(AL1-7)、生长抑制因子1/2(ING1/2)、短日早抽苔(EBS)/短寿命(SHL)是与PRC1相关的因子例如RING1和BMI1的RING和WD40相关的泛素样域(RAWUL)，LHP1的染色质组织修饰符(Chromo)和染色质阴影(ChSh)结构域，VRN1的一个或两个B3DNA结合结构域(S)，VAL1/2/3的B3和ZF-CW结构域，AL1-7的Alfin和植物同源域(PhD)结构域，ING1/2的ING和PhD结构域，eBS/SHL的溴相邻同源(BAT)和PhD结构域。在EMF1中发现了6个新基序：PRC1核心成分RING1和BMI1及其相关因子VAL1/2/3、AL1-7、ING1/2和EBS/SHL存在于藻类和高等植物中，而LHP1仅存在于高等植物中。EMF1和VRN1只存在于真胚珠中。在植物进化过程中，PRC1组分经历了复制。大多数植物携带同源核心成分LHP1、相关因子EMF1以及RING1、BMI1、VRN1、AL1-7、ING1/2/3和EBS/SHL中的几个同源物。卷心菜、棉花、杨树、橙子和玉米通常比其他物种表现出更多的基因拷贝。结论PRC1核心成分RING1和BMI1及其相关因子VAL1/2/3、AL1-7、ING1/2和EBS/SHL起源于藻类。核心成分LHP1来自苔藓，相关因子EMF1和VRN1来自双子叶植物。在进化过程中，PRC1组件具有功能冗余性和多样性。
BackgroundPolycomb group (PcG) proteins play important roles in animal and plant development and stress response. Polycomb repressive complex 1 (PRC1) and PRC2 are the key epigenetic regulators of gene expression, and are involved in almost all developmental stages. PRC1 catalyzes H2A monoubiquitination resulting in transcriptional silencing or activation. The PRC1 components in the green lineage were identified and evolution and conservation was analyzed by bioinformatics techniques. RING Finger Protein 1 (RING1), B lymphoma Mo-MLV insertion region 1 homolog (BMI1), Like Heterochromatin Protein 1 (LHP1) and Embryonic Flower 1 (EMF1) are the PRC1 core components and Vernalization 1 (VRN1), VP1/ABI3-Like 1/2/3 (VAL1/2/3), Alfin-like 1-7 (AL1-7), Inhibitor of growth 1/2 (ING1/2), and Early Bolting in Short Days (EBS) / Short Life (SHL) are the associated factors.ResultsEach PRC1 subunit possesses special domain organizations, such as RING and the ring finger and WD40-associated ubiquitin-like (RAWUL) domains for RING1 and BMI1, chromatin organization modifier (CHROMO) and chromo shadow (ChSh) domains for LHP1, one or two B3 DNA binding domain(s) for VRN1, B3 and zf-CW domains for VAL1/2/3, Alfin and Plant HomeoDomain (PHD) domains for AL1-7, ING and PHD domains for ING1/2, Bromoadjacent homology (BAT) and PHD domains for EBS/SHL. Six new motifs are uncovered in EMF1.The PRC1 core components RING1 and BMI1, and the associated factors VAL1/2/3, AL1-7, ING1/2, and EBS/SHL exist from alga to higher plants, whereas LHP1 only occurs in higher plants. EMF1 and VRN1 are present only in eudicots. PRC1 components undergo duplication in the plant evolution. Most of plants carry the homologous core component LHP1, the associated factor EMF1, and several homologs in RING1, BMI1, VRN1, AL1-7, ING1/2/3, and EBS/SHL. Cabbage, cotton, poplar, orange and maize often exhibit more gene copies than other species. Domain organization analysis shows that duplicated gene functions may be of diverse.ConclusionsThe PRC1 core components RING1 and BMI1, and the associated factors VAL1/2/3, AL1-7, ING1/2, and EBS/SHL originate from algae. The core component LHP1 is from moss and the associated factors EMF1 and VRN1 are from dicotyledon. PRC1 components are of functional redundancy and diversity in evolution.