Department of Life Sciences, Chromosome Research Institute, Sahmyook University, Seoul, 01795, Republic of Korea.
Genes Genomics. 2019 Sep;41(9):1001-1006. doi: 10.1007/s13258-019-00832-8. Epub 2019 May 27.
A large proportion of eukaryote nuclear genomes is composed of repetitive DNA. Tracing the dynamics of repetitive elements in the genomes of related taxa can reveal important information about their phylogenic relationships as well as traits that have become distinct to a lineage.
Study the genomic abundance and chromosomal location of repetitive DNA in Capsicum annuum L. to understand the repeat dynamics.
We quantified repeated DNA content in the C. annuum genome using the RepeatExplorer pipeline.
About 42% of the C. annuum genome dataset comprised repetitive elements. Of these, 0.011, 0.98, 3.09, and 0.024% represented high and low confidence satellite repeats, putative long-terminal repeats (LTRs), and rDNA sequences, respectively. One novel high confidence 167-bp satellite repeat with a genomic proportion of 0.011%, Ca167TR, was identified. Furthermore, FISH with Ca167TR on metaphase chromosomes of C. annuum revealed signals in the subtelomeric regions of the short and long arms of chromosome 3 and 4, respectively.
Further understanding of the origin and associated functions of Ca167TR and other repeats in Capsicum will give us insights into the genomic relationships and functions of the genome.
真核生物核基因组的很大一部分由重复 DNA 组成。追踪相关分类群基因组中重复元件的动态可以揭示有关其系统发育关系以及已成为特定谱系特征的重要信息。
研究辣椒（Capsicum annuum L.）基因组中重复 DNA 的基因组丰度和染色体位置，以了解重复动态。
我们使用 RepeatExplorer 管道定量了 C. annuum 基因组中的重复 DNA 含量。
约 42%的 C. annuum 基因组数据集由重复元件组成。其中，0.011、0.98、3.09 和 0.024%分别代表高可信度卫星重复、推定长末端重复（LTR）和 rDNA 序列。鉴定出一种新型高可信度 167-bp 卫星重复，基因组比例为 0.011%，命名为 Ca167TR。此外，用 Ca167TR 通过 FISH 在 C. annuum 的中期染色体上进行杂交，在染色体 3 和 4 的短臂和长臂的端粒区分别显示出信号。
进一步了解 Ca167TR 和辣椒中其他重复的起源和相关功能，将使我们深入了解基因组的关系和功能。
