TA-periodic ("601"-like) centromeric nucleosomes of A. thaliana

Journal of Biomolecular Structure & Dynamics
Reshma Nibhani, Edward N Trifonov

Abstract

The bulk of strong nucleosomes (SNs, with visibly periodic DNA sequences) is described by consensus pattern of 5 or 6 base runs of purines alternating with similar runs of pyrimidines - RR/YY SNs. Yet, the strongest known nucleosome positioning sequence, the 601 clone of Lowary and Widom, is rather periodic repetition of TA dinucleotides following one another every 10 bases. We located "601"-like TA-periodic sequences in the genome of A. thaliana. Several families of such sequences are discovered repeating almost exclusively in centromeres. Thus, while A. thaliana SNs of RR/YY type have strong affinity to pericentromeric regions, as it has been previously found, the SNs of TA periodic type concentrate rather in centromeres.

References

Jul 25, 1988·Nucleic Acids Research·C R SimoensD Inzé
Jun 1, 2010·Nature·Ramakrishna K ChodavarapuMatteo Pellegrini
Dec 15, 2010·Journal of Biomolecular Structure & Dynamics·Alexandra E RapoportE N Trifonov
Nov 26, 2013·Journal of Biomolecular Structure & Dynamics·Bilal SalihEdward N Trifonov
Nov 28, 2013·Journal of Biomolecular Structure & Dynamics·Bilal Salih, Edward N Trifonov
Mar 8, 2014·Journal of Biomolecular Structure & Dynamics·Bilal Salih, Edward N Trifonov
Jul 8, 2014·Journal of Biomolecular Structure & Dynamics·Bilal F SalihEdward N Trifonov
Sep 5, 2014·Journal of Biomolecular Structure & Dynamics·Reshma Nibhani, Edward N Trifonov
Dec 30, 2014·Biopolymers·Edward N Trifonov, Reshma Nibhani

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Citations

Sep 29, 2015·Briefings in Bioinformatics·Vladimir B Teif

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