PT  - JOURNAL ARTICLE
AU  - Osman Doluca
AU  - Oktay I Kaplan
AU  - Burak Berber
AU  - Nezih Hekim
TI  - G-quadruplex prediction in <em>E.coli</em> genome reveals a conserved putative G-quadruplex-Hairpin-Duplex switch
AID  - 10.1101/032615
DP  - 2015 Jan 01
TA  - bioRxiv
PG  - 032615
4099  - http://biorxiv.org/content/early/2015/11/23/032615.short
4100  - http://biorxiv.org/content/early/2015/11/23/032615.full
AB  - Many studies show that short non-coding sequences are widely conserved among regulatory elements. More and more conserved sequences are being discovered since the development next generation sequencing technology. The common approach to identify conserved sequences with regulatory roles rely on the topological change such as hairpin formation on the DNA or RNA level. However G-quadruplexes, a non-canonical nucleic acid topology with little established biological role, is rarely considered for conserved regulatory element discovery. Here we present the use of G-quadruplex prediction algorithm to identify putative G-quadruplex-forming and conserved elements in E.coli genome. Phylogenetic analysis of 52 G-quadruplex forming sequences revealed two conserved G-quadruplex motifs with potential regulatory role.