title: Reconstruction of phylogenetic relationships in dermatomycete genus Trichophyton Malmsten 1848 based on ribosomal internal transcribed spacer region, partial 28S rRNA and beta-tubulin genes sequences.
abstract: Trichophyton spp. are important causative agents of superficial mycoses. The phylogeny of the genus and accurate strain identification, based on the ribosomal ITS region sequencing, are still under development. The present work is aimed at (i) inferring the genus phylogeny from partial ITS, LSU and BT2 sequences (ii) description of ribosomal ITS region polymorphism in 15 strains of Trichophyton interdigitale. We performed DNA sequence-based species identification and phylogenetic analysis on 48 strains belonging to the genus Trichophyton. Phylogenetic relationships were inferred by maximum likelihood and Bayesian methods on concatenated ITS, LSU and BT2 sequences. Ribosomal ITS region polymorphisms were assessed directly on the alignment. By phylogenetic reconstruction, we reveal major anthropophilic and zoophilic species clusters in the genus Trichophyton. We describe several sequences of the ITS region of T. interdigitale, which do not fit in the traditional polymorphism scheme and propose emendations in this scheme for discrimination between ITS sequence types in T. interdigitale. The new polymorphism scheme will allow inclusion of a wider spectrum of isolates while retaining its explanatory power. This scheme was also found to be partially congruent with NTS typing technique.
authors.affiliation: Kashkin Research Institute of Medical Mycology, I.I. Mechnikov North-Western State Medical University, St. Petersburg, Russia.
authors.forename: Ivan M
authors.initials: IM
authors.lastname: Pchelin
authors.affiliation: Department of Invertebrate Zoology, Faculty of Biology, St. Petersburg State University, St. Petersburg, Russia.
authors.forename: Vasily V
authors.initials: VV
authors.lastname: Zlatogursky
authors.affiliation: Kashkin Research Institute of Medical Mycology, I.I. Mechnikov North-Western State Medical University, St. Petersburg, Russia.
authors.forename: Mariya V
authors.initials: MV
authors.lastname: Rudneva
authors.affiliation: Kashkin Research Institute of Medical Mycology, I.I. Mechnikov North-Western State Medical University, St. Petersburg, Russia.
authors.forename: Galina A
authors.initials: GA
authors.lastname: Chilina
authors.affiliation: Health Research Institute, Infectious and Tropical Diseases Research Center, Ahvaz Jundishapur University of Medical Sciences, Ahvaz, Iran.|Department of Medical Mycology, School of Medicine, Ahvaz Jundishapur University of Medical Sciences, Ahvaz, Iran.
authors.forename: Ali
authors.initials: A
authors.lastname: Rezaei-Matehkolaei
authors.affiliation: Kashkin Research Institute of Medical Mycology, I.I. Mechnikov North-Western State Medical University, St. Petersburg, Russia.
authors.forename: Dmitry M
authors.initials: DM
authors.lastname: Lavnikevich
authors.affiliation: Kashkin Research Institute of Medical Mycology, I.I. Mechnikov North-Western State Medical University, St. Petersburg, Russia.
authors.forename: Natalya V
authors.initials: NV
authors.lastname: Vasilyeva
authors.affiliation: Kashkin Research Institute of Medical Mycology, I.I. Mechnikov North-Western State Medical University, St. Petersburg, Russia.
authors.forename: Anastasia E
authors.initials: AE
authors.lastname: Taraskina
mesh_terms: D001499:Bayes Theorem; D021903:DNA, Ribosomal Spacer / Q000235:genetics*; D020459:Genes, rRNA; D010802:Phylogeny; D011110:Polymorphism, Genetic; D012331:RNA, Fungal / Q000235:genetics; D012339:RNA, Ribosomal, 28S / Q000235:genetics*; D016415:Sequence Alignment; D017422:Sequence Analysis, DNA; D014005:Tinea / Q000382:microbiology; D014249:Trichophyton / Q000145:classification* / Q000235:genetics* / Q000502:physiology; D014404:Tubulin / Q000235:genetics*
chemical_list: D021903:DNA, Ribosomal Spacer; D012331:RNA, Fungal; D012339:RNA, Ribosomal, 28S; D014404:Tubulin
keywords: 28S rRNA; Dermatophyte; Trichophyton; beta-tubulin; internal transcribed spacer; phylogeny