Cross-Kingdom Commonality of a Novel Insertion Signature of RTE-Related Short Retroposons

Genome Biology and Evolution
Eri Nishiyama, Kazuhiko Ohshima

Abstract

In multicellular organisms, such as vertebrates and flowering plants, horizontal transfer (HT) of genetic information is thought to be a rare event. However, recent findings unveiled unexpectedly frequent HT of RTE-clade LINEs. To elucidate the molecular footprints of the genomic integration machinery of RTE-related retroposons, the sequence patterns surrounding the insertion sites of plant Au-like SINE families were analyzed in the genomes of a wide variety of flowering plants. A novel and remarkable finding regarding target site duplications (TSDs) for SINEs was they start with thymine approximately one helical pitch (ten nucleotides) downstream of a thymine stretch. This TSD pattern was found in RTE-clade LINEs, which share the 3'-end sequence of these SINEs, in the genome of leguminous plants. These results demonstrably show that Au-like SINEs were mobilized by the enzymatic machinery of RTE-clade LINEs. Further, we discovered the same TSD pattern in animal SINEs from lizard and mammals, in which the RTE-clade LINEs sharing the 3'-end sequence with these animal SINEs showed a distinct TSD pattern. Moreover, a significant correlation was observed between the first nucleotide of TSDs and microsatellite-like sequences found at...Continue Reading

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Citations

Nov 25, 2020·Genesis : the Journal of Genetics and Development·Marco FambriniClaudio Pugliesi

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Datasets Mentioned

BETA
FJ158974
AB021490
AAWZ01014759

Software Mentioned

Ensembl
Chimera
BLAST
MEME
WebLogo
Python
MODELLER

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