Intra-isolate heterogeneity of the ITS region of rDNA in Pythium helicoides

Kageyama, Koji; Senda, Masako; Asano, Takeshi; Suga, Haruhisa; Ishiguro, K.

doi:10.1016/j.mycres.2007.01.019

Cited by 56 publications

(35 citation statements)

References 30 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…In other eukaryotes intragenomic variation has been observed in organisms as diverse as crayfish (11), ladybird beetles (26), and larches (27), in each case involving ITS heterogeneity. In Xanthophyllomyces and Pythium intragenomic heterogeneity was ascribed to indel variation in the ITS or the ITS and IGS regions (3,17). Interestingly in Neotyphodium lolii variable numbers of 111-and 119-bp repeats were seen in the IGS regions within individual strains (6), very similar to the situation seen in T. violaceum.…”

Section: Discussionmentioning

confidence: 96%

“…Although apparent IGS heterogeneity has been suggested for a few strains of T. rubrum (10,13,14,30), Trichophyton mentagrophytes (19), and Microsporum canis (31), prior to this study it had never been proven by cloning and sequencing of multiple IGSs from a strain derived from a single, mononucleate conidium. Heterogeneity within the rRNA repeats is relatively rare in eukaryotes but has been reported in Fusarium (23), Neotyphodium lolii (a grass endophyte) (6), Xanthophyllomyces dendrorhous (a basidomycete yeast) (3), and Pythium helicoides (17). In other eukaryotes intragenomic variation has been observed in organisms as diverse as crayfish (11), ladybird beetles (26), and larches (27), in each case involving ITS heterogeneity.…”

Section: Discussionmentioning

confidence: 99%

See 1 more Smart Citation

High-Frequency Intragenomic Heterogeneity of the Ribosomal DNA Intergenic Spacer Region in Trichophyton violaceum

Chang¹,

Hsu

Barton

et al. 2008

Eukaryot Cell

View full text Add to dashboard Cite

The intergenic spacer (IGS) of the rRNA genes was analyzed from the dermatophyte Trichophyton violaceum isolated from cases of tinea capitis in Taiwan and Iran. T. violaceum strains were cultured from different colonies, from single conidial colonies derived by dilution plating, and from micromanipulation of single conidia from clinical samples. A ribosomal DNA probe hybridizing to multiple EcoRI fragments was used to compare restriction fragment length polymorphisms in different T. violaceum isolates. The arthroconidia of T. violaceum that form in vivo during infection were shown to contain a single nucleus by 4,6-diamidino-2-phenylindole staining. IGS regions from an isolate cultured from a single conidium were amplified, cloned, and sequenced. The results identified that heterogeneity exists between IGS regions within a single T. violaceum genome due to different copy numbers of a 171-bp tandem repeat. This suggests that the IGS of T. violaceum is partially excluded from the concerted evolution of the rRNA gene locus. The heterogeneous character of the IGS regions in T. violaceum contrasts with the closely related dermatophyte Trichophyton rubrum, posing further questions on the phylogeny and the evolution of dermatophyte fungi.Dermatophytes are a group of fungi specializing in the infection of keratinous tissues such as skin, hair, and nails. Trichophyton violaceum is an anthropophilic dermatophyte (transmitted between humans) and is the major causal agent of tinea capitis (scalp ringworm) in many parts of Africa (2, 21, 29) and Asia (12,18,22).A lack of adequate methods for strain differentiation in T. violaceum has prevented efforts to address epidemiological questions in T. violaceum infections. DNA-based strain typing methods have long been recognized as the best approach to differentiating individual strains of pathogenic fungi, but a strain typing method for T. violaceum has not been described. Molecular strain differentiation making use of polymorphisms in the rRNA gene (rDNA) repeat region of the closely related species Trichophyton rubrum has been reported previously (13,14). In T. rubrum, there are two different types of subrepeat element (TrS1 and TrS2) in the rDNA intergenic spacer (IGS) region. Analysis of variations in the copy number of the two subrepeats was successfully applied in the strain differentiation of T. rubrum. The homogeneous nature of IGS sequences within genomes of any one strain made PCR-based typing amenable. The aim of this study was to identify and characterize subrepeats in the IGS of T. violaceum and to determine whether they would provide a useful method of molecular strain differentiation in this species. The actual outcome of this study was the revelation of a high degree of heterogeneity of repeat sequences in the IGS region of T. violaceum, raising questions about the evolution of rRNA in fungi. MATERIALS AND METHODSCulture and storage of T. violaceum isolates. Thirty-two randomly selected Taiwanese isolates of T. violaceum, isolated from hair samples submitted to the...

show abstract

Section: Discussionmentioning

confidence: 96%

Section: Discussionmentioning

confidence: 99%

High-Frequency Intragenomic Heterogeneity of the Ribosomal DNA Intergenic Spacer Region in Trichophyton violaceum

Chang¹,

Hsu

Barton

et al. 2008

Eukaryot Cell

View full text Add to dashboard Cite

show abstract

“…An increasing number of examples have been recently reported on intragenomic polymorphism in ITS sequences within the same strain of fungal and yeast species (Wang & Yao, 2005;Fell et al, 2007;Kageyama et al, 2007;Jacques et al, 2009;Connell et al, 2010;Saksinchai et al, 2012). Z. sapae sp.…”

Section: Genetic Diversity Sequence Analyses and Species Delineationmentioning

confidence: 99%

Zygosaccharomyces sapae sp. nov., isolated from Italian traditional balsamic vinegar

Solieri

Dakal

Giudici

2013

International Journal of Systematic and Evolutionary Microbiology

View full text Add to dashboard Cite

Fourteen yeast isolates were recovered from two traditional balsamic vinegar (TBV) samples collected in the provinces of Modena and Reggio Emilia, Italy. Microsatellite-primed-PCR (MSP-PCR) was used to de-replicate the isolate collection into two representative strains, ABT301 T and ABT601. Phylogenetic analysis based on the D1/D2 domains of the 26S rRNA gene indicated that these strains represented a distinct species of the genus Zygosaccharomyces, closely related to Zygosaccharomyces rouxii and Zygosaccharomyces mellis. Physiological and morphological tests supported the recognition of a novel taxon of halotolerant, osmotolerant, nonpsychrotolerant and maltose-fermentation-negative yeasts showing a chain or star-shaped pattern of budding cells, which remained attached to each other. Morphological observations offered evidence of ascospore formation. A novel species, Zygosaccharomyces sapae sp. nov., is proposed to accommodate these strains, with strain ABT301 T (5CBS 12607 T 5MUCL 54092 T ) as the type strain. Based on D1/D2 domain phylogenetic analysis, the novel strains shared the highest sequence similarity (100 %) with Zygosaccharomyces sp. strain NCYC 3042, previously isolated from sugar [James, S. A., Bond, C. J., Stratford, M. & Roberts, I. N. (2005). FEMS Yeast Res 5, 747-755]. However, based on phylogenetic (internal transcribed spacers, ITS), PCR fingerprinting and physiological analyses, marked differences were observed between the novel species and strain NCYC 3042, and these results are discussed in more detail.

show abstract

“…The ITS region has also been widely used in fungal taxonomy and it is known to show variation between species e.g., between Phytium ultimum and P. helicoides (Kageyama et al, 2007); Peronospora arborescens and P. cristata (Landa et al, 2007); Colletotrichum gloeosporioides and C. acutatum (Kim J. T. et al, 2008), and within species e.g allowing differentiation of…”

Section: Selection Of Target Dna To Amplifymentioning

confidence: 99%

Molecular Tools for Detection of Plant Pathogenic Fungi and Fungicide Resistance

Capote¹,

Pastrana²,

Aguado³

et al. 2012

Plant Pathology

103

View full text Add to dashboard Cite

Intra-isolate heterogeneity of the ITS region of rDNA in Pythium helicoides

Cited by 56 publications

References 30 publications

High-Frequency Intragenomic Heterogeneity of the Ribosomal DNA Intergenic Spacer Region in Trichophyton violaceum

High-Frequency Intragenomic Heterogeneity of the Ribosomal DNA Intergenic Spacer Region in Trichophyton violaceum

Zygosaccharomyces sapae sp. nov., isolated from Italian traditional balsamic vinegar

Molecular Tools for Detection of Plant Pathogenic Fungi and Fungicide Resistance

Contact Info

Product

Resources

About