2D morphometric analysis of Arabidopsis thaliana nuclei reveals characteristic profiles of different cell types and accessions.

IF 2.4 4区 生物学 Q3 BIOCHEMISTRY & MOLECULAR BIOLOGY
Chromosome Research Pub Date : 2022-03-01 Epub Date: 2021-10-19 DOI:10.1007/s10577-021-09673-2
Penka Pavlova, Martijn van Zanten, Basten L Snoek, Hans de Jong, Paul Fransz
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引用次数: 6

Abstract

Functional changes of cells upon developmental switches and in response to environmental cues are often reflected in nuclear phenotypes, showing distinctive chromatin states corresponding to transcriptional changes. Such characteristic nuclear shapes have been microscopically monitored and can be quantified after differential staining of euchromatin and heterochromatin domains. Here, we examined several nuclear parameters (size, DNA content, DNA density, chromatin compaction, relative heterochromatin fraction (RHF), and number of chromocenters) in relation to spatial distribution of genes and transposon elements (TEs), using standard 2D fluorescence microscopy. We provide nuclear profiles for different cell types and different accessions of Arabidopsis thaliana. A variable, yet significant, fraction of TEs was found outside chromocenters in all cell types, except for guard cells. The latter cell type features nuclei with the highest level of chromatin compaction, while their chromocenters seem to contain gene-rich regions. The highest number of parameter correlations was found in the accession Cvi, whereas Ler showed only few correlations. This may point at differences in phenotype robustness between accessions. The significantly high association of NOR chromocenters in accessions Ws and Cvi corresponds to their low RHF level.

Abstract Image

Abstract Image

Abstract Image

拟南芥细胞核的二维形态分析揭示了不同细胞类型和接入的特征。
细胞在发育开关和环境提示下的功能变化通常反映在核表型上,显示出与转录变化相对应的独特的染色质状态。这种特征的核形状已经在显微镜下监测,并可以在常染色质和异染色质结构域的差异染色后定量。在这里,我们使用标准的二维荧光显微镜检查了与基因和转座子元件(TEs)的空间分布有关的几个核参数(大小、DNA含量、DNA密度、染色质压实度、相对异染色质分数(RHF)和色中心数量)。我们提供了不同细胞类型和不同加入量的拟南芥的核谱。除了保护细胞外,在所有细胞类型的色中心外都发现了一个可变但重要的te部分。后一种细胞类型的细胞核具有最高水平的染色质压实,而它们的色中心似乎包含基因丰富的区域。其中,Cvi的相关系数最高,而Ler的相关系数较低。这可能表明在不同的品种间表型稳健性存在差异。w和Cvi的NOR色中心的显著高相关性与它们的低RHF水平相对应。
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来源期刊
Chromosome Research
Chromosome Research 生物-生化与分子生物学
CiteScore
4.70
自引率
3.80%
发文量
31
审稿时长
1 months
期刊介绍: Chromosome Research publishes manuscripts from work based on all organisms and encourages submissions in the following areas including, but not limited, to: · Chromosomes and their linkage to diseases; · Chromosome organization within the nucleus; · Chromatin biology (transcription, non-coding RNA, etc); · Chromosome structure, function and mechanics; · Chromosome and DNA repair; · Epigenetic chromosomal functions (centromeres, telomeres, replication, imprinting, dosage compensation, sex determination, chromosome remodeling); · Architectural/epigenomic organization of the genome; · Functional annotation of the genome; · Functional and comparative genomics in plants and animals; · Karyology studies that help resolve difficult taxonomic problems or that provide clues to fundamental mechanisms of genome and karyotype evolution in plants and animals; · Mitosis and Meiosis; · Cancer cytogenomics.
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