Frequency of cytosine methylation in the adjacent regions of soybean retrotransposon SORE-1 depends on chromosomal location.

IF 2.3 3区 生物学 Q3 BIOTECHNOLOGY & APPLIED MICROBIOLOGY
Genome Pub Date : 2024-01-01 Epub Date: 2023-09-25 DOI:10.1139/gen-2023-0044
Kenta Nakashima, Mashiro Yuhazu, Shun Mikuriya, Megumi Kasai, Jun Abe, Akito Taneda, Akira Kanazawa
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引用次数: 0

Abstract

Mobilization of transposable elements (TEs) is suppressed by epigenetic mechanisms involving cytosine methylation. However, few studies have focused on clarifying relationships between epigenetic influences of TEs on the adjacent DNA regions and time after insertion of TEs into the genome and/or their chromosomal location. Here we addressed these issues using soybean retrotransposon SORE-1. We analyzed SORE-1, inserted in exon 1 of the GmphyA2 gene, one of the newest insertions in this family so far identified. Cytosine methylation was detected in this element but was barely present in the adjacent regions. These results were correlated, respectively, with the presence and absence of the production of short interfering RNAs. Cytosine methylation profiles of 74 SORE-1 elements in the Williams 82 reference genome indicated that methylation frequency in the adjacent regions of SORE-1 was profoundly higher in pericentromeric regions than in euchromatic chromosome arms and was only weakly correlated with the length of time after insertion into the genome. Notably, the higher level of methylation in the 5' adjacent regions of SORE-1 coincided with the presence of repetitive elements in pericentromeric regions. Together, these results suggest that epigenetic influence of SORE-1 on the adjacent regions is influenced by its location on the chromosome.

大豆反转录转座子SORE-1相邻区域胞嘧啶甲基化的频率取决于染色体位置。
转座元件(TE)的动员受到涉及胞嘧啶甲基化的表观遗传学机制的抑制。然而,很少有研究关注于阐明TE对相邻DNA区域的表观遗传学影响与将TE插入基因组和/或其染色体位置后的时间之间的关系。在这里,我们使用大豆反转录转座子SORE-1解决了这些问题。我们分析了插入GmphyA2基因外显子1的SORE-1,这是迄今为止该家族中最新的插入物之一。在该元件中检测到胞嘧啶甲基化,但在相邻区域几乎不存在。这些结果分别与是否产生短干扰RNA相关。Williams 82参考基因组中74个SORE-1元件的胞嘧啶甲基化谱表明,SORE-1相邻区域的甲基化频率在着丝粒周围区域远高于常染色体臂,并且与插入基因组后的时间长度仅弱相关。值得注意的是,SORE-1的5'相邻区域中较高水平的甲基化与端粒周围区域中重复元件的存在相一致。总之,这些结果表明SORE-1对相邻区域的表观遗传学影响受到其在染色体上的位置的影响。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
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来源期刊
Genome
Genome 生物-生物工程与应用微生物
CiteScore
5.30
自引率
3.20%
发文量
42
审稿时长
6-12 weeks
期刊介绍: Genome is a monthly journal, established in 1959, that publishes original research articles, reviews, mini-reviews, current opinions, and commentaries. Areas of interest include general genetics and genomics, cytogenetics, molecular and evolutionary genetics, developmental genetics, population genetics, phylogenomics, molecular identification, as well as emerging areas such as ecological, comparative, and functional genomics.
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