Development of quantitative real-time PCR and digital droplet-PCR assays for rapid and early detection of the spoilage yeasts Saccharomycopsis fibuligera and Wickerhamomyces anomalus in bread.

In the present study, for the first time, high sensitive quantitative polymerase chain reaction (qPCR) and digital droplet polymerase chain reaction (ddPCR) assays were developed to detect and quantify total eumycetes with potential application in several food matrices and to specifically determine the level of contamination by Saccharomycopsis fibuligera and Wickerhamomyces anomalus cells directly in bread. Among the candidate target genes used to develop the assays, car1 gene was chosen to detect the two spoilage yeasts S. fibuligera and W. anomalus. The specificity of the PCR assays was tested using purified genomic DNA from 36 bacterial and fungal strains. The sensitivity of the assays was defined by using tenfold serial dilutions of genomic DNA starting from 106 cfu/mL to 1 cfu/mL of S. fibuligera and W. anomalus. Validation of the assays was achieved by enumeration of S. fibuligera and W. anomalus DNA copies from samples of artificially contaminated bread homogenates detecting up to 10 cfu/mL (0.06 ± 0.01 copies/µL) of W. anomalus by using ddPCR. In conclusion, the developed qPCR and ddPCR assays demonstrate strong performance in the early detection of S. fibuligera and W. anomalus in bread, representing promising tools for applying high-throughput approaches to regularly monitor bread quality.

Genetic diversity and population structure of the amylolytic yeast Saccharomycopsis fibuligera associated with Baijiu fermentation in China.

The amylolytic yeast Saccharomycopsis fibuligera is a predominant species in starters and the early fermentation stage of Chinese liquor (Baijiu). However, the genetic diversity of the species remains largely unknown. Here we sequenced the genomes of 97 S. fibuligera strains from different Chinese Baijiu companies. The genetic diversity and population structure of the strains were analyzed based on 1,133 orthologous genes and the whole genome single nucleotide polymorphisms (SNPs). Four main lineages were recognized. One lineage contains 60 Chinese strains which are exclusively homozygous with relatively small genome sizes (18.55-18.72 Mb) and low sequence diversity. The strains clustered in the other three lineages are heterozygous with larger genomes (21.85-23.72 Mb) and higher sequence diversity. The genomes of the homozygous strains showed nearly 100% coverage with the genome of the reference strain KPH12 and the sub-genome A of the hybrid strain KJJ81 at the above 98% sequence identity level. The genomes of the heterozygous strains showed nearly 80% coverage with both the sub-genome A and the whole genome of KJJ81, suggesting that the Chinese heterozygous strains are also hybrids with nearly 20% genomes from an unidentified source. Eighty-three genes were found to show significant copy number variation between different lineages. However, remarkable lineage specific variations in glucoamylase and α-amylase activities and growth profiles in different carbon sources and under different environmental conditions were not observed, though strains exhibiting relatively high glucoamylase activity were mainly found from the homozygous lineage.

Saccharomycopsis oxydans sp. nov., a new non-fermentative member in the genus Saccharomycopsis isolated from a traditional dairy product of Iran.

A total of 21 yeast isolates were recovered as part of a research project on biodiversity of yeasts in traditional dairy products in Alborz province, Iran. Standard protocols were used to carry out phenotypic, biochemical, physiological characterization and the phylogenetic analysis of combined the D1/D2 domain of the large ribosomal subunit (26S or LSU) and ITS region sequences. Five strains represented a potential new ascomycetous yeast species. Ascospore formation was not observed in these strains, and they did not ferment the examined carbon sources. Phylogenetic analysis placed these isolates in a well-supported sub-clade in the genus Saccharomycopsis. Here, we describe this novel yeast as Saccharomycopsis oxydans sp. nov.

Biosurfactant production by yeasts isolated from hydrocarbon polluted environments.

Thirty-two yeast isolates were retrieved from four soil samples collected from hydrocarbon-polluted locations of Hisar, Haryana, using enrichment culture technique with 1% (v/v) diesel as carbon source. Total nine isolates showing blood agar haemolysis were screened further for biosurfactant production. Yeast isolate, YK32, gave highest 8.4-cm oil displacement which was found to be significantly higher as compared to positive control, 0.2% (w/v) SDS (6.6 cm), followed by 6.2 and 6.0 cm by isolates YK20 and YK21, respectively. Maximum emulsification index was obtained in case of isolates YK20 and YK21 measuring 53.8%, after 6 days of incubation utilizing glucose as carbon source, whereas isolate YK32 was found to be reducing surface tension up to 93 dynes/cm and presented 99.6% degree of hydrophobicity. Olive oil has supported maximum surface tension reduction in isolates YK32 and YK21 equivalent to 53 and 48 dynes/cm and gave 88.3 and 88.5% degree of hydrophobicity, respectively. Diesel was not preferred as carbon source by most of the isolates except YK28 which generated 5.5-cm oil displacement, 25% emulsification index, reduced surface tension to the level of 38 dynes/cm and presented 89% degree of hydrophobicity. Conclusively, isolates YK20, YK21, YK22 and YK32 were marked as promising biosurfactant producers and were subjected to identification. Based on microscopic examination and biochemical peculiarities, isolates YK21 and YK22 might be identified as Candida spp., whereas, isolates YK20 and YK32 might be identified as Saccharomycopsis spp. and Brettanomyces spp., respectively. Interestingly it is the first report indicating Saccharomycopsis spp. and Brettanomyces spp. as a potential biosurfactant producer.

Effects of innovative and conventional sanitizing treatments on the reduction of Saccharomycopsis fibuligera defects on industrial durum wheat bread.

Wickerhamomyces anomalus, Hyphopichia burtonii and Saccharomycopsis fibuligera are spoilage yeasts causing chalk mold defects on sliced bread packaged under modified atmosphere. The first objective of this study, carried out in a bread-making company for two consecutive years, was to genetically identify yeasts isolated from spoiled sliced bread in Modified Atmosphere Packaging (MAP) and to determine the dominant species among identified strains. The second objective was to evaluate the effects of hydrogen peroxide and silver solution 12% (HPS) treatment in the leavening cells and cooling chambers, in comparison with the conventional Ortho-Phenylphenol (OPP) fumigating treatment, on the incidence of chalk defects of the commercialized products. One-hundred percent of the isolated yeasts were identified as S. fibuligera, while H. burtonii and W. anomalus were not detected. Concerning mean water activity (aw) and moisture content values, packaged bread samples were, respectively, included in the range 0.922-0.940 and 33.40-35.39%. S. fibuligera was able to grow in a wide range of temperature (11.5 to 28.5°C) and relative humidity (70.00 to 80.17%) in the processing environments, and product aw<0.94. Compared to OPP, the combined treatment with hydrogen peroxide and silver solution, in association with MAP, reduced to a negligible level yeast contamination of industrial sliced bread. The identification of the spoilage organisms and a comprehensive understanding of the combined effects of aw, pO2/pCO2 inside the packages, environmental conditions and sanitizing treatment on the growth behaviour is essential for future development of adequate preventive process strategies against chalk mold defects.

Identification of three yeast species using the conventional and internal transcribed spacer region sequencing methods as first or second global record from human superficial infections.

During the mycological analysis of skin and nail samples taken from patients with onychomycosis and tineas in Assiut city, it is interesting to report that yeast fungi were the main causal agents being cultured from 45.79% of total cases. In general, 21 species of yeast were isolated. Some of these are reported for the first time from clinical specimens. From the literature available up-to-date around the world, this study reports for the first time Saccharomycopsis fibuligera as the causal agent of four clinical cases: two onychomycoses, one tinea capitis and one tinea amiantacea. Also, it is reported here the second record for Trichosporon dohaense from a case of onychomycosis of a 40-year-old woman (after its original description in 2009 by Taj-Aldeen et al. J Clin Microbiol 47: 1791). Candida galli was also reported for the first time from clinical specimen (tinea unguium) in 2014 by Galán-Sánchez et al. Mycopathol 178: 303, and this study reports the second case of onychomycosis by C. galli. These strains were identified on the basis of their phenotypic, biochemical, physiological and genotypic features. Strains and internal transcribed spacer (ITS) gene sequences of these species are deposited at Assiut University Mycological Center Culture Collection (AUMC) and National Center for Biotechnological Information (NCBI) respectively.

A strain of Meyerozyma guilliermondii isolated from sugarcane juice is able to grow and ferment pentoses in synthetic and bagasse hydrolysate media.

The search for new microbial strains that are able to withstand inhibitors released from hemicellulosic hydrolysis and are also still able to convert sugars in ethanol/xylitol is highly desirable. A yeast strain isolated from sugarcane juice and identified as Meyerozyma guilliermondii was evaluated for the ability to grow and ferment pentoses in synthetic media and in sugarcane bagasse hydrolysate. The yeast grew in xylose, arabinose and glucose at the same rate at an initial medium pH of 5.5. At pH 4.5, the yeast grew more slowly in arabinose. There was no sugar exhaustion within 60 h. At higher xylose concentrations with a higher initial cell concentration, sugar was exhausted within 96 h at pH 4.5. An increase of 350 % in biomass was obtained in detoxified hydrolysates, whereas supplementation with 3 g/L yeast extract increased biomass production by approximately 40 %. Ethanol and xylitol were produced more significantly in supplemented hydrolysates regardless of detoxification. Xylose consumption was enhanced in supplemented hydrolysates and arabinose was consumed only when xylose and glucose were no longer available. Supplementation had a greater impact on ethanol yield and productivity than detoxification; however, the product yields obtained in the present study are still much lower when compared to other yeast species in bagasse hydrolysate. By the other hand, the fermentation of both xylose and arabinose and capability of withstanding inhibitors are important characteristics of the strain assayed.

Two novel Saccharomycopsis species isolated from black olive brines and a tropical plant. Description of Saccharomycopsis olivae f. a., sp. nov. and Saccharomycopsis guyanensis f. a., sp. nov. Reassignment of Candida amapae to Saccharomycopsis amapae f. a., comb. nov., Candida lassenensis to Saccharomycopsis lassenensis f. a., comb. nov. and Arthroascus babjevae to Saccharomycopsis babjevae f. a., comb. nov.

Three yeast strains related to members of the genus Saccharomycopsis were isolated. One strain (CLIB 1310) was isolated from olive brines of fermented black olives in France and two strains (CLIB 1454 and CLIB 1455) were isolated from a plant in French Guiana. Sequence analyses based on the D1/D2 domains of the nuclear large subunit rRNA gene, small-subunit rRNA gene and partial EF-1α gene revealed that the strains represented two novel taxa exhibiting extensive sequence divergence from the previously described species of the genus Saccharomycopsis. Two novel species are described to accommodate these newly isolated strains: Saccharomycopsis olivae sp. nov. (type strain CLIB 1310(T) = CBS 12701(T)) and Saccharomycopsis guyanensis sp. nov. (type strain CLIB 1455(T) = CBS 12914(T) and strain CLIB 1454). Both strains CLIB 1454 and CLIB 1455(T) displayed identical sequences but differed in their ability to metabolize sorbitol and in their morphology on agar medium. Candida amapae, Candida lassensensis and Arthroascus babjevae belonging to the Saccharomycopsis clade, are reassigned to Saccharomycopsis as novel combinations.

Saccharomycopsis fodiens sp. nov., a rare predacious yeast from three distant localities.

Three strains representing a novel yeast species were recovered as part of independent collections from flower-associated nitidulid beetles in Australia, Costa Rica and the Galapagos Islands, Ecuador. Analysis of the D1/D2 domains of the large subunit rRNA gene indicated that the species belongs to the genus Saccharomycopsis, although the formation of ascospores was not observed. The yeast is capable of necrotrophic parasitism by means of infection pegs when mixed with other yeasts or filamentous fungi. Of particular interest is the fact that despite the large distances separating the isolation sites of the three strains, other strains of the species have not been recovered in other samples of flower-associated nitidulids even though these habitats have been sampled extensively. It is suggested that the dispersal of the yeast may be linked to human historical factors. The name Saccharomycopsis fodiens sp. nov. is proposed for the yeast. The type strain is UWOPS 95-697.4(T) (=CBS 8332(T)=NRRL Y-48786(T)).

[A cat with diarrhoea associated with the massive presence of Cyniclomyces guttulatus in the faeces]. / Een geval van diarree geassocieerd met Cyniclomyces guttulatus (brillendoosjesgist) bij de kat.

This is the first report documenting the presence of a high number of Cyniclomyces guttulatus yeasts in the faeces of a cat. The animal was initially presented with acute complaints of vomiting and diarrhoea. The patient responded well to oral salazosul-fapyridine but the stools remained soft and C. guttulatus yeasts were still present. After a course of nystatin (15,000 IU/kg bw q24 PO for 4 days) the stools were normal and no yeasts were found anymore (centrifugation/flotation/zinc sulphate). C. guttulatus occurs naturally in the digestive tract of rabbits, guinea pigs, chinchillas, rats and mice. It is occasionally found in massive numbers in the faeces of dogs with diarrhoea; part of these patients respond well to nystatin treatment. Recent experience indicates that the most effective dosage of nystatin for dogs and cats is 50.000 IU/kg q24 PO for 4 days.

Biological control of Penicillium italicum, P. digitatum and P. expansum by the predacious yeast Saccharomycopsis schoenii on oranges

In this study we evaluated the ability of Saccharomycopsis schoenii Nadson and Krassiln (UWO-PS 80-91) as biocontrol agent against plant pathogenic filamentous fungi P. expansum Link (UFMG 01-2002), P. italicum Wehmer (LCP 61.1199), and P. digitatum (Pers.: Fr.) (LCP 984263, LCP 68175 and LCP 4354). S. schoenii was able to reduce disease severity in oranges inoculated with all fungi. Among the phytopathogens, P. digitatum LCP4354 was the most virulent whereas P. digitatum LCP 68175 was the most susceptible to predation. The yeast was able to survive for 21 days on the fruit surface and did not produce lesions on oranges. Production of antagonistic substances by S. schoenii was not detected using standard techniques. Our results point to the potential use of S. schoenii to control postharvest phytopathogens in fruits.

Este estudo avaliou a capacidade de levedura Saccharomycopsis schoenii Nadson & Krassiln (UWO-PS 80-91) em controlar o crescimento dos fungos fitopatogênicos Penicillium expansum Link (UFMG 01-2002), P. italicum Wehmer (LCP 61.1199), e P. digitatum (Pers.: Fr.) (LCP 984263, LCP 68175 e LCP 4354). S. schoenii reduziu a severidade da doença em laranjas inoculadas com todos os fitopatógenos testados. Entre estes fitopatógenos, P. digitatum LCP4354 apresentou a maior virulência enquanto que P. digitatum LCP 68175 foi o mais suscetível à predação. A levedura foi capaz de permanecer viável, sem produzir lesões na superfície dos frutos por 21 dias. Outra característica desejável observada foi a ausência de produção de substâncias antagonistas. Sendo assim, este trabalho evidência o potencial de utilização da levedura S. schoenii em protocolos de controle biológico de doenças pós-colheita em laranjas.

Gallbladder aspirate from a dog.

A 7-year-old, male, castrated, Labrador Retriever with a history of pancreatitis and inflammatory bowel disease presented for vomiting and anorexia. Serum biochemistry findings were indicative of cholestasis, hepatocellular insult, and decreased hepatic function. Ultrasound examination showed sediment and gas within the gallbladder, and a diagnosis of emphysematous cholecystitis was made. Emergency gallbladder resection was performed. Cytologic examination of bile fluid collected at surgery showed a mixed population of bacteria (bactibilia) together with fungal organisms consistent with Cyniclomyces guttulatus (previously known as Saccharomycopsis guttulatus). Similar fungal organisms were seen on a fecal smear. Bacteria cultured were normal gastrointestinal flora, supporting ascending infection; the fungal organisms were interpreted as incidental. Histopathology of the gallbladder indicated active (suppurative) and chronic (lymphocytic) cholecystitis and sections of liver tissue had evidence of chronic liver disease. A positive liver culture indicated concurrent bacterial hepatitis or cholangiohepatitis. Despite supportive care, the dog continued to decline and was euthanized 30 days later. Necropsy results confirmed end stage liver disease, but an initiating cause was not found. This case highlights the role of bactibilia in the development of acute cholecystitis and the unique cytologic appearance of C guttulatus as an incidental finding in bile fluid.

[Pathogenic fungi with increasing proliferation]. / Grzyby chorobotwórcze o wzrastajacej ekspansywnosci.

This paper compared occurrence and intenseness of growth C. glabrata, S. capsularis and T. beigelii isolated from sputum, material's bronchoscopic, oral cavity, skin and catheters during 10 years observation (1991 - 2000). All investigated fungi from 1997 years have been characteristic very distinct rise expansiveness appeared in more intenseness of growth and growing rate of replace new ontocenoses. Most likely is this consequence successive of decrease immunity of man organism about infections yeast - like fungi.

Infectious agents associated with diarrhoea in commercial rabbits: a field study.

Over a period of 9 months the occurrence of parasites, bacteria and viruses has been examined in diarrhoeic rabbits from 21 commercial rabbitries and related with clinical signs and gross and microscopic lesions. Infectious disease agents have been found in 71.5% of the animals. Escherichia coli (ATEC) were found to be attached to the luminal intestinal border of 40% of the rabbits examined. This was associated with moderate to high mortality, caecal oedema, severe swelling of mesenteric lymph nodes and high numbers of colibacilli attached to the epithelium of ileum, caecum and colon. Rotaviruses were detected in 35.4% of the animals. Disease associated with pure rota infection was usually mild and affected predominantly small intestine. A coronavirus associated with ATEC has been established in one rabbitry and coccidia were present in 18.5% of the animals. Multiple agents were found in 18.5% of the animals.