PCR-based identification and strain typing of Pichia anomala using the ribosomal intergenic spacer region IGS1

Bhardwaj, Sonia Bhonchal; Sutar, Rajeshwari; Bachhawat, Anand K.; Singhi, Sunit; Chakrabarti, Arunaloke

doi:10.1099/jmm.0.46790-0

Cited by 14 publications

(9 citation statements)

References 24 publications

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“…In most cases, sequences of the internal transcribed spacer (ITS) regions have, to date, not yielded sufficient variation to enable strain differentiation . In contrast, sequences of the intergenic spacer (IGS) have been used to differentiate pathogenic and non-pathogenic strains (Bhardwaj et al 2007). Kalkanci et al (2010) found identical banding patterns for clinical C. pelliculosa isolates when using different random amplified polymorphic DNA (RAPD) primers.…”

Section: Strain Diversitymentioning

confidence: 98%

Past, present and future research directions with Pichia anomala

Passoth

Olstorpe

Schnürer

2010

Antonie van Leeuwenhoek

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The first International Pichia anomala Symposium provided a survey of past, recent and ongoing research on this yeast. The research community working with this yeast has focussed on several areas. Based on molecular data, a revision of the taxonomy is required: the name P. anomala is no longer applicable, as the genus Pichia is polyphyletic. The current debate centres on whether the yeast should be designated as Wickerhamomyces anomalus or if the previous name, Hansenula anomala, should be re-instated. The anti-microbial activities of this yeast received considerable attention during the symposium. H. anomala has been extensively studied as a biopreservation agent in many different post-harvest systems. Several mechanisms account for its anti-microbial activities, including the production of killer proteins and toxic volatile metabolites. Anti-idiotypic antibodies generating an "internal image" of a killer protein have been found to possess therapeutic activity against a broad range of microorganisms. A great diversity of H. anomala strains was reported at the symposium. Strains have been isolated from several food and feed systems and even from the intestine and reproductive organs of a malaria vector (Anopheles stephensi). Feed and food supplemented with certain H. anomala strains show an improved quality due, for example, to the addition of advantageous proteins and phytase activity. However, a number of apparent opportunistic pathogenic strains have also been isolated. Strain differentiation, especially the recognition of potentially pathogenic isolates, is an important challenge for the future commercialisation of this yeast. Future industrial and agricultural application of this yeast also raises questions of the economics of large-scale production, its survival during storage (formulation) and of safety regulations, all of which require further investigation.

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Section: Strain Diversitymentioning

confidence: 98%

Past, present and future research directions with Pichia anomala

Passoth

Olstorpe

Schnürer

2010

Antonie van Leeuwenhoek

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“…lactis from Kluyveromyces marxianus (Nguyen et al , 2000b) or from its closest wild relatives (Naumova et al , 2004). The IGS1 (=NTS1) proved useful for identification and typing of Pichia anomala strains (Sutar et al , 2004; Bhardwaj et al , 2007) and of Trichosporon species (Sugita et al , 2002). The entire IGS region has also been used, after amplification with primers selected inside the RDN25 and RDN18 conserved regions, to identify several basidiomycetous yeasts (Fell & Blatt, 1999; Diaz & Fell, 2000; Diaz et al , 2005).…”

Section: Introductionmentioning

confidence: 99%

Differentiation ofDebaryomyces hanseniiandCandida famataby rRNA gene intergenic spacer fingerprinting and reassessment of phylogenetic relationships amongD. hansenii, C. famata, D. fabryi, C. flareri(=D. subglobosus) andD. prosopidis: description ofD. vietnamensissp. nov. closely related toD. nepalensis

Nguyen

Gaillardin

Neuvéglise³

2009

FEMS Yeast Research

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The intergenic spacer rDNA amplification and AluI fingerprinting (IGSAF) method detected four distinct groups among 170 Debaryomyces hansenii strains: D. hansenii var. hansenii; Candida famata var. famata; D. hansenii var. fabryi and C. famata var. flareri. IGS sequence comparison of representative strains showed that D. hansenii var. hansenii and C. famata var. famata belonged to one species, whereas D. hansenii var. fabryi and C. famata var. flareri belonged to two different ones. This confirmed the following three species recently reinstated: D. hansenii (=C. famata), Debaryomyces fabryi and Debaryomyces subglobosus (=Candida flareri). Accordingly, growth at 37 degrees C may no longer be used to differentiate D. hansenii from D. fabryi. Riboflavin production is more specific for D. fabryi and D. subglobosus strains. IGSAF identified all the other 17 species of the genus Debaryomyces, six of them sharing with D. hansenii an rRNA gene unit harbouring two 5S rRNA genes. The phylogenetic tree established with IGS sequences was congruent with the one based on ACT1, GPD1 and COX2 sequences depicting a distinct D. hansenii clade close to the D. subglobosus, Debaryomyces prosopidis and D. fabryi clade. Description of Debaryomyces vietnamensis sp. nov. (type strain CBS 10535(T), MUCL 51648(T)), closely related to Debaryomyces nepalensis is given.

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“…anomala is sometimes identified from cultures, but peripheral laboratories frequently fail to identify this organism because of the rarity of infection and lack of expertise in its identification [15]. In this case, DNA sequence analysis of fungal rRNA was helpful in identifying P. anomala.…”

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confidence: 88%