Patterns of sequence conservation at termini of long terminal repeat (LRT) retrotransposons and DNA transposons in the human genome: Lessons from phage Mu

Insuk Lee; Rasika M. Harshley

doi:10.1093/nar/gkg499

Patterns of sequence conservation at termini of long terminal repeat (LRT) retrotransposons and DNA transposons in the human genome: Lessons from phage Mu

Insuk Lee, Rasika M. Harshley

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9 Citations (Scopus)

Abstract

Long terminal repeat (LTR) retrotransposons and DNA transposons are transposable elements (TEs) that perform cleavage and transfer at precise DNA positions. Here, we present statistical analyses of sequences found at the termini of precise TEs in the human genome. The results show that the terminal di- and trinucleotides of these TEs are highly conserved. 5′TG...CA3′ occurs most frequently at the termini of LTR retrotransposons, while 5′CAG...CTG3′ occurs most frequently in DNA transposons. Interestingly, these sequences are the most flexible base pair steps in DNA. Both the sequence preference and the degree of conservation of each position within the human LTR dinucleotide termini are remarkably similar to those experimentally demonstrated in transposable phage Mu. We discuss the significance of these observations and their implication for the function of terminal residues in the transposition of precise TEs.

Original language	English
Pages (from-to)	4531-4540
Number of pages	10
Journal	Nucleic acids research
Volume	31
Issue number	15
DOIs	https://doi.org/10.1093/nar/gkg499
Publication status	Published - 2003 Aug 1

Bibliographical note

Funding Information:
We thank Edward Marcotte for comments on the manuscript and Jef Boeke for helpful discussions. This work was supported by a grant from the National Institutes of Health (GM33247). Partial support was provided by the Robert Welch Foundation (F-1531).

All Science Journal Classification (ASJC) codes

Genetics

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title = "Patterns of sequence conservation at termini of long terminal repeat (LRT) retrotransposons and DNA transposons in the human genome: Lessons from phage Mu",

abstract = "Long terminal repeat (LTR) retrotransposons and DNA transposons are transposable elements (TEs) that perform cleavage and transfer at precise DNA positions. Here, we present statistical analyses of sequences found at the termini of precise TEs in the human genome. The results show that the terminal di- and trinucleotides of these TEs are highly conserved. 5′TG...CA3′ occurs most frequently at the termini of LTR retrotransposons, while 5′CAG...CTG3′ occurs most frequently in DNA transposons. Interestingly, these sequences are the most flexible base pair steps in DNA. Both the sequence preference and the degree of conservation of each position within the human LTR dinucleotide termini are remarkably similar to those experimentally demonstrated in transposable phage Mu. We discuss the significance of these observations and their implication for the function of terminal residues in the transposition of precise TEs.",

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note = "Funding Information: We thank Edward Marcotte for comments on the manuscript and Jef Boeke for helpful discussions. This work was supported by a grant from the National Institutes of Health (GM33247). Partial support was provided by the Robert Welch Foundation (F-1531).",

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AU - Harshley, Rasika M.

N1 - Funding Information: We thank Edward Marcotte for comments on the manuscript and Jef Boeke for helpful discussions. This work was supported by a grant from the National Institutes of Health (GM33247). Partial support was provided by the Robert Welch Foundation (F-1531).

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N2 - Long terminal repeat (LTR) retrotransposons and DNA transposons are transposable elements (TEs) that perform cleavage and transfer at precise DNA positions. Here, we present statistical analyses of sequences found at the termini of precise TEs in the human genome. The results show that the terminal di- and trinucleotides of these TEs are highly conserved. 5′TG...CA3′ occurs most frequently at the termini of LTR retrotransposons, while 5′CAG...CTG3′ occurs most frequently in DNA transposons. Interestingly, these sequences are the most flexible base pair steps in DNA. Both the sequence preference and the degree of conservation of each position within the human LTR dinucleotide termini are remarkably similar to those experimentally demonstrated in transposable phage Mu. We discuss the significance of these observations and their implication for the function of terminal residues in the transposition of precise TEs.

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Patterns of sequence conservation at termini of long terminal repeat (LRT) retrotransposons and DNA transposons in the human genome: Lessons from phage Mu

Abstract

Bibliographical note

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