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Classifying the Topology of AHL-Driven Quorum Sensing Circuits in Proteobacterial Genomes
Faculty of Information Technology, PázmányPéter Catholic University, Práter u. 50/a, Budapest 1083, Hungary
International Centre for Genetic Engineering and Biotechnology (ICGEB), Padriciano 99, Trieste 32149, Italy
The Capes Foundation, Ministry of Education of Brazil, Cx postal 250, Brasilia, DF 70.040-020, Brazil
Biological Research Center, Temesvári krt 62, Szeged 6726, Hungary
* Authors to whom correspondence should be addressed.
Received: 1 February 2012; in revised form: 24 March 2012 / Accepted: 26 April 2012 / Published: 27 April 2012
Abstract: Virulence and adaptability of many Gram-negative bacterial species are associated with an N-acylhomoserine lactone (AHL) gene regulation mechanism called quorum sensing (QS). The arrangement of quorum sensing genes is variable throughout bacterial genomes, although there are unifying themes that are common among the various topological arrangements. A bioinformatics survey of 1,403 complete bacterial genomes revealed characteristic gene topologies in 152 genomes that could be classified into 16 topological groups. We developed a concise notation for the patterns and show that the sequences of LuxR regulators and LuxI autoinducer synthase proteins cluster according to the topological patterns. The annotated topologies are deposited online with links to sequences and genome annotations at http://bacteria.itk.ppke.hu/QStopologies/.
Keywords: quorum sensing; N-AHL; topology; proteobacteria; bacteria
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Gelencsér, Z.; Choudhary, K.S.; Coutinho, B.G.; Hudaiberdiev, S.; Galbáts, B.; Venturi, V.; Pongor, S. Classifying the Topology of AHL-Driven Quorum Sensing Circuits in Proteobacterial Genomes. Sensors 2012, 12, 5432-5444.
Gelencsér Z, Choudhary KS, Coutinho BG, Hudaiberdiev S, Galbáts B, Venturi V, Pongor S. Classifying the Topology of AHL-Driven Quorum Sensing Circuits in Proteobacterial Genomes. Sensors. 2012; 12(5):5432-5444.
Gelencsér, Zsolt; Choudhary, Kumari Sonal; Coutinho, Bruna Goncalves; Hudaiberdiev, Sanjarbek; Galbáts, Borisz; Venturi, Vittorio; Pongor, Sándor. 2012. "Classifying the Topology of AHL-Driven Quorum Sensing Circuits in Proteobacterial Genomes." Sensors 12, no. 5: 5432-5444.