Single-nucleotide polymorphism in a local population of Trichophyton rubrum

Pchelin, Ivan M.; Azarov, Daniil; Чилина, Г А; Dmitriev, Kirill; Vasilyeva, N. V.; Тараскина, А. Е.

doi:10.1093/mmy/myx009

Cited by 3 publications

(11 citation statements)

References 14 publications

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“…[62][63][64] In the present study, there seemingly have been no clinical differences between the subpopulations, contrary to what we have claimed earlier. 16 In Urease activity is an ancestral trait, commonly observable in geophilic dermatophytes, 43 and we expected to find it only in basal ST2…”

Section: Discussionmentioning

confidence: 88%

“…For this species, our earlier work seemingly represented the first successful attempt to obtain congruent results by two independent molecular strain typing techniques. 16 46,47 or filamentous ascomycetes with mixed reproduction mode, with 2%-13% of total variability explained by differences between intraspecific groups. 48,49 Intraspecific genetic lines in fungi sometimes demonstrate restricted geographic ranges.…”

Section: Discussionmentioning

confidence: 99%

“…This sample shared 19 isolates with our earlier study. 16 Major part of strains originated from toenail onychomycosis and tinea pedis cases (87%), 6% were from tinea corporis, 4% from tinea cruris and 3% from fingernail onychomycosis.…”

Section: Fungal Isolatesmentioning

confidence: 98%

“…A total of 443 isolates, from 17 to 70 isolates for a country. 16,17,[54][55][56][57][58][59][60][61] The abbreviations above pie charts indicate the sources of variability: SNP, single nucleotide polymorphism of TERG_02941 and TERG_03298 genes; TRS-1, the length of TRS-1 locus of ribosomal non-transcribed spacer; WGS, whole-genome sequences…”

Section: F I G U R Ementioning

confidence: 99%

“…In a previous study, we reported a concordance between ribosomal non-transcribed spacer region (NTS) genotypes and non-synonymous single nucleotide polymorphisms (SNPs) in two protein-coding loci, TERG_02941 and TERG_03298 in T rubrum isolates from a city in North-Western Russia. 16 The two genetic lines were named ST1 and ST2. Also, Zheng et al 17 Europe, Asia and North America.…”

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confidence: 99%

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Genotyping of Russian isolates of fungal pathogen Trichophyton rubrum, based on simple sequence repeat and single nucleotide polymorphism

Pchelin

Mochalov

Azarov

et al. 2020

Mycoses

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Trichophyton rubrum is an ascomycete from the order Onygenales. It is prevalent fungus of medical importance in most countries due to its major contribution to the aetiology of toenail onychomycosis and foot skin mycosis. 1 Trichophyton rubrum sensu stricto is a part of species group, which also includes T violaceum and T soudanense along with several forms, potentially deserving species status. All of these can be differentiated by ribosomal DNA internal transcribed spacer (ITS) region sequences. 2-6 Statistical analysis of genetic

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Section: Discussionmentioning

confidence: 88%

Section: Discussionmentioning

confidence: 99%

Section: Fungal Isolatesmentioning

confidence: 98%

Section: F I G U R Ementioning

confidence: 99%

mentioning

confidence: 99%

See 3 more Smart Citations

Genotyping of Russian isolates of fungal pathogen Trichophyton rubrum, based on simple sequence repeat and single nucleotide polymorphism

Pchelin

Mochalov

Azarov

et al. 2020

Mycoses

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Genotyping of Russian isolates of fungal pathogenTrichophyton rubrum, based on simple sequence repeat and single nucleotide polymorphism

Pchelin

Mochalov

Azarov

et al. 2020

Preprint

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The Trichophyton rubrum species group consists of prevalent causative agents of human skin, nail and hair infections, including T. rubrum sensu stricto and T. violaceum, as well as other less well established or debatable taxa like T. soudanense, T. kuryangei and T. megninii. We aimed to describe genetic lineages in Russian T. rubrum sensu stricto, to find whether these lineages possess specific characteristics and to identify factors, shaping the population structure. We assessed polymorphism of 12 simple sequence repeat (SSR, or microsatellite) loci and TERG_02941 protein-coding gene in 70 T. rubrum isolates and also performed phylogenomic analysis. In both cases, two genetic lineages were found. The analysis of molecular variance (AMOVA) on the basis of SSR typing data indicated that 22-48% of the variability was between groups within T. rubrum. The pattern of phylogenetic changes in polymorphic protein-coding loci and SSR typing results revealed the pressure of strong directional selection, but its sources remained elusive. Our results suggest that Russian population of T. rubrum consists of two cosmopolitan genetic lineages, with no clear connection of population structure with types of infection, places of geographic origin, aldolase gene expression and urease activity.HighlightsRussian population of fungal pathogen Trichophyton rubrum is formed by two global genetic lineagesPopulation structure in T. rubrum can be studied by improved microsatellite typing assay along with SNP typing and whole genome sequencingIn T. rubrum, there is seemingly no association between genetic lineages and types of infection, places of geographic origin, aldolase gene expression and urease activityIn T. rubrum, microevolution is driven by strong directional selection of yet unknown nature

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Metadata analysis of the squalene epoxidase gene in dermatophytes

Ismail¹,

Ahmad²,

Javed³

2021

Int. j. endorsing health sci. res.

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Background: Squalene epoxidase gene is an azole antifungal target enzyme in the ergosterol biosynthesis pathway in fungi-the inhibition of enzyme aggregate squalene, a type of ergosterol derivative depletion that leads to fungal growth inhibition. Squalene epoxidase widely diverges in three fungal groups of dermatophytes Trichophyton, Microsporum and Epidermophyton. Methodology:The study has demonstrated a variety of squalene epoxidase genes in the dermatophyte genome. Squalene epoxidase gene was also studied for possible single nucleotide polymorphism (SNPs) in the Trichophyton group's homologs and found multiple SNP positions that induce non-synonymous mutation and change the sequence of amino acid into protein structure that can change phenylalanine to leucine. Results: Squalene epoxidase is widely present in dermatophytes. Mutation in the squalene epoxidase gene can mislead normal sterol formation in the fungal cell membrane that induces fungal resistance against several drugs, including azoles and polyenes. Squalene epoxidase gene carries 2 -3 transcripts and 2 -3 number of exons. Squalene epoxidase gene has FAD-dependent oxidoreductases and NADP binding domain conserved domains in fungal groups of dermatophytes. Conclusion:This study analyzed the abundance of the squalene epoxidase gene, suggesting that squalene epoxidase gene resistant mutants can occur naturally. Thus squalene epoxidase gene should be extensively studied in order to increase the potential of available antifungals.

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Single-nucleotide polymorphism in a local population of Trichophyton rubrum

Cited by 3 publications

References 14 publications

Genotyping of Russian isolates of fungal pathogen Trichophyton rubrum, based on simple sequence repeat and single nucleotide polymorphism

Genotyping of Russian isolates of fungal pathogen Trichophyton rubrum, based on simple sequence repeat and single nucleotide polymorphism

Genotyping of Russian isolates of fungal pathogenTrichophyton rubrum, based on simple sequence repeat and single nucleotide polymorphism

Metadata analysis of the squalene epoxidase gene in dermatophytes

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