title: Exploration of Deinococcus-Thermus molecular diversity by novel group-specific PCR primers.
abstract: The deeply branching Deinococcus-Thermus lineage is recognized as one of the most extremophilic phylum of bacteria. In previous studies, the presence of Deinococcus-related bacteria in the hot arid Tunisian desert of Tataouine was demonstrated through combined molecular and culture-based approaches. Similarly, Thermus-related bacteria have been detected in Tunisian geothermal springs. The present work was conducted to explore the molecular diversity within the Deinococcus-Thermus phylum in these extreme environments. A set of specific primers was designed in silico on the basis of 16S rRNA gene sequences, validated for the specific detection of reference strains, and used for the polymerase chain reaction (PCR) amplification of metagenomic DNA retrieved from the Tataouine desert sand and Tunisian hot spring water samples. These analyses have revealed the presence of previously undescribed Deinococcus-Thermus bacterial sequences within these extreme environments. The primers designed in this study thus represent a powerful tool for the rapid detection of Deinococcus-Thermus in environmental samples and could also be applicable to clarify the biogeography of the Deinococcus-Thermus phylum.
authors.affiliation: CEA, DSV, IBEB, SBVME, LIPM, F-13108, Saint-Paul-lez-Durance, France; CNRS, UMR 7265, F-13108, Saint-Paul-lez-Durance, France; Université d'Aix-Marseille, F-13108, Saint-Paul-lez-Durance, France; IRSN, PRP-ENV, SERIS, L2BT, F-13115, Saint Paul-lez-Durance, France.
authors.forename: Nicolas
authors.initials: N
authors.lastname: Theodorakopoulos
authors.forename: Dipankar
authors.initials: D
authors.lastname: Bachar
authors.forename: Richard
authors.initials: R
authors.lastname: Christen
authors.forename: Karine
authors.initials: K
authors.lastname: Alain
authors.forename: Virginie
authors.initials: V
authors.lastname: Chapon
mesh_terms: D017931:DNA Primers / Q000737:chemistry*; D004269:DNA, Bacterial / Q000145:classification / Q000235:genetics*; D034301:Deinococcus / Q000145:classification / Q000235:genetics* / Q000302:isolation & purification; D014644:Genetic Variation; D006358:Hot Temperature; D010802:Phylogeny; D016133:Polymerase Chain Reaction; D012336:RNA, Ribosomal, 16S / Q000145:classification / Q000235:genetics*; D012680:Sensitivity and Specificity; D013824:Thermus / Q000145:classification / Q000235:genetics* / Q000302:isolation & purification; D014416:Tunisia
chemical_list: D017931:DNA Primers; D004269:DNA, Bacterial; D012336:RNA, Ribosomal, 16S
keywords: Deinococcus-Thermus; group-specific primers; molecular diversity