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

Author:

Nakashima Kenta1,Yuhazu Mashiro1,Mikuriya Shun1,Kasai Megumi1,Abe Jun1,Taneda Akito2,Kanazawa Akira1ORCID

Affiliation:

1. Research Faculty of Agriculture, Hokkaido University, Sapporo 060-8589, Japan

2. Graduate School of Science and Technology, Hirosaki University, Hirosaki, Aomori 036-8561, Japan

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.

Funder

Japan Society for the Promotion of Science

Publisher

Canadian Science Publishing

Subject

Genetics,Molecular Biology,General Medicine,Biotechnology

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