Quantification Of Fungal DNA Research Articles

Quantification of Botrytis cinerea Growth in Arabidopsis thaliana.

Yield losses attributed to plant pathogens pose a serious threat to plant productivity and food security. Botrytis cinerea is one of the most devastating plant pathogens, infecting a wide array of plant species; it has also been established as a model organism to study plant-pathogen interactions. In this context, development of different assays to follow the relative success of B. cinerea infections is required. Here, we describe two methods to quantify B. cinerea development in Arabidopsis thaliana genotypes through measurements of lesion development and quantification of fungal genomic DNA in infected tissues. This provides two independent techniques that are useful in assessing the susceptibility or tolerance of different Arabidopsis genotypes to B. cinerea. Key features Protocol for the propagation of the necrotrophic plant pathogen fungus Botrytis cinerea and spore production. Two methods of Arabidopsis thaliana infection with the pathogen using droplet and spray inoculation. Two readouts, either by measuring lesion size or by the quantification of fungal DNA using quantitative PCR. The two methods are applicable across plant species susceptible the B. cinerea. Graphical overview A simplified overview of the droplet and spray infection methods used for the determination of B. cinerea growth in different Arabidopsis genotypes.

Constitutive Defense Mechanisms Have a Major Role in the Resistance of Woodland Strawberry Leaves Against Botrytis cinerea.

The necrotrophic fungus Botrytis cinerea is a major threat to strawberry cultivation worldwide. By screening different Fragaria vesca genotypes for susceptibility to B. cinerea, we identified two genotypes with different resistance levels, a susceptible genotype F. vesca ssp. vesca Tenno 3 (T3) and a moderately resistant genotype F. vesca ssp. vesca Kreuzkogel 1 (K1). These two genotypes were used to identify the molecular basis for the increased resistance of K1 compared to T3. Fungal DNA quantification and microscopic observation of fungal growth in woodland strawberry leaves confirmed that the growth of B. cinerea was restricted during early stages of infection in K1 compared to T3. Gene expression analysis in both genotypes upon B. cinerea inoculation suggested that the restricted growth of B. cinerea was rather due to the constitutive resistance mechanisms of K1 instead of the induction of defense responses. Furthermore, we observed that the amount of total phenolics, total flavonoids, glucose, galactose, citric acid and ascorbic acid correlated positively with higher resistance, while H2O2 and sucrose correlated negatively. Therefore, we propose that K1 leaves are more resistant against B. cinerea compared to T3 leaves, prior to B. cinerea inoculation, due to a lower amount of innate H2O2, which is attributed to a higher level of antioxidants and antioxidant enzymes in K1. To conclude, this study provides important insights into the resistance mechanisms against B. cinerea, which highly depend on the innate antioxidative profile and specialized metabolites of woodland strawberry leaves.

Comparison of the efficiency of 5 methods for fungal DNA extraction from crop debris and evaluation of its suitability for the amplification of Fusarium graminearum by PCR

Quantification of fungal DNA in crop debris by PCR could contribute to the development of strategies aimed at managing plant diseases. Five protocols were tested for its efficiency in the isolation of Fusarium graminearum DNA from crop debris. A CTAB-based method provided the best results (free of inhibitors) as confirmed by conventional and qPCR.

Host specificity in Sporisorium reilianum is determined by distinct mechanisms in maize and sorghum.

Smut fungi are biotrophic plant pathogens that exhibit a very narrow host range. The smut fungus Sporisorium reilianum exists in two host-adapted formae speciales: S. reilianum f. sp. reilianum (SRS), which causes head smut of sorghum, and S. reilianum f. sp. zeae (SRZ), which induces disease on maize. It is unknown why the two formae speciales cannot form spores on their respective non-favoured hosts. By fungal DNA quantification and fluorescence microscopy of stained plant samples, we followed the colonization behaviour of both SRS and SRZ on sorghum and maize. Both formae speciales were able to penetrate and multiply in the leaves of both hosts. In sorghum, the hyphae of SRS reached the apical meristems, whereas the hyphae of SRZ did not. SRZ strongly induced several defence responses in sorghum, such as the generation of H2 O2 , callose and phytoalexins, whereas the hyphae of SRS did not. In maize, both SRS and SRZ were able to spread through the plant to the apical meristem. Transcriptome analysis of colonized maize leaves revealed more genes induced by SRZ than by SRS, with many of them being involved in defence responses. Amongst the maize genes specifically induced by SRS were 11 pentatricopeptide repeat proteins. Together with the microscopic analysis, these data indicate that SRZ succumbs to plant defence after sorghum penetration, whereas SRS proliferates in a relatively undisturbed manner, but non-efficiently, on maize. This shows that host specificity is determined by distinct mechanisms in sorghum and maize.

Unraveling the Wheat Stem Rust Infection Process on Barley Genotypes Through Relative qPCR and Fluorescence Microscopy.

The infection process of wheat stem rust (Puccinia graminis f. sp. tritici) on barley (Hordeum vulgare) is often observed as a mesothetic infection type at the seedling stages, and cultivars containing the same major resistance genes often show variation in the level of resistance provided against the same pathogen race or isolate. Thus, robust phenotyping data based on quantification of fungal DNA can improve the ability to elucidate host-pathogen interaction, especially at early time points of infection when disease symptoms are not yet evident. Quantitative real-time polymerase chain reaction (qPCR) was used to determine the amount of fungal DNA relative to host DNA in infected tissue, providing new insights about fungal development and host resistance during the infection process in this pathosystem. The stem rust susceptible 'Steptoe', resistant cultivars containing only Rpg1 ('Beacon', 'Morex', and 'Chevron'), and the resistant line Q21861 containing Rpg1 and the rpg4/Rpg5 complex were evaluated using the traditional 0-to-4 rating scale, fluorescence microscopy, and qPCR. Statistical differences (P<0.05) were observed in fungal development as early as 24 h postinoculation using the qPCR assay. Fungal development observed using fluorescence microscopy displayed the same hierarchal ordering observed using the qPCR assay. The fungal development occurring at 24 and 48 h postinoculation was vastly different than what was expected using the traditional disease phenotyping methodology; with Steptoe appearing more resistant than the barley lines harboring the known Rpg1 and rpg4/Rpg5 resistance complex. These data indicate potential early prehaustorial resistance contributions in a cultivar considered susceptible based on infection type. Moreover, the temporal differences in resistance suggest pre- and post-haustorial resistance mechanisms in the barley-wheat stem rust infection process, indicating potential host genotype contributions related to basal defense during the wheat stem rust infection process.

Diagnosis of Ramularia collo-cygni and Rhynchosporium spp. in Barley.

Ramularia leaf spot and Rhynchosporium leaf scald are two of the major diseases of barley crops in cooler temperate countries. The methods below are aimed at the identification and quantification of fungal DNA in leaf samples but can also be used for pathogen detection from seed or DNA extracted from environmental samplers. The methods describe in detail two individual quantitative PCR tests. The successful multiplexing of assays will lead to faster throughput of samples.

Fusarium oxysporum hijacks COI1‐mediated jasmonate signaling to promote disease development in Arabidopsis

Although defense responses mediated by the plant oxylipin jasmonic acid (JA) are often necessary for resistance against pathogens with necrotrophic lifestyles, in this report we demonstrate that jasmonate signaling mediated through COI1 in Arabidopsis thaliana is responsible for susceptibility to wilt disease caused by the root-infecting fungal pathogen Fusarium oxysporum. Despite compromised JA-dependent defense responses, the JA perception mutant coronatine insensitive 1 (coi1), but not JA biosynthesis mutants, exhibited a high level of resistance to wilt disease caused by F. oxysporum. This response was independent from salicylic acid-dependent defenses, as coi1/NahG plants showed similar disease resistance to coi1 plants. Inoculation of reciprocal grafts made between coi1 and wild-type plants revealed that coi1-mediated resistance occurred primarily through the coi1 rootstock tissues. Furthermore, microscopy and quantification of fungal DNA during infection indicated that coi1-mediated resistance was not associated with reduced fungal penetration and colonization until a late stage of infection, when leaf necrosis was highly developed in wild-type plants. In contrast to wild-type leaves, coi1 leaves showed no necrosis following the application of F. oxysporum culture filtrate, and showed reduced expression of senescence-associated genes during disease development, suggesting that coi1 resistance is most likely achieved through the inhibition of F. oxysporum-incited lesion development and plant senescence. Together, our results indicate that F. oxysporum hijacks non-defensive aspects of the JA-signaling pathway to cause wilt-disease symptoms that lead to plant death in Arabidopsis.

Assessing the intensity of Fusarium-damage in wheat: A comparison of selected disease parameters during disease development and the role of fungicides

Disease severity (% of Fusarium-damaged spikelets), disease incidence (% of Fusarium-damaged wheat heads), Fusarium graminearurn DNA (pg per ng total DNA), deoxynivalenol (DON) content (mg DON per kg grain dry mass) and yield (t per ha) were recorded in a field experiment carried out in Northern Germany. Plants (susceptible cultivar Ritmo) were inoculated at anthesis by overhead application of a E graminearum mycelial suspension during a 6.7 mm precipitation event. Fungicides were applied around the time of wheat anthesis to generate different levels of Fusarium-damage. Infected heads were sampled in two-week-intervals post inoculation. Disease incidence increased almost linearly with time, reaching levels of about 80% at four weeks post inoculation. Disease severity increased in a slightly exponential manner with time, reaching levels of about 60% after four weeks. Six weeks after inoculation, Fusarium head blight symptoms could not be distinguished from blighting of wheat heads due to plant senescence anymore. The ratio of F. graminearum DNA and total DNA increased exponentially with time up to four weeks post inoculation. Relationships between fungal DNA and yield or DON were closer when DNA was extracted two weeks post anthesis in comparison with four weeks post anthesis. Hence, quantification of fungal DNA seems to be advantageous for assessing FHB in wheat at early stages of disease development. In the middle of disease development, disease severity allowed the most precise estimation of yield and DON contents. Towards the end of disease development, the DON content was the most useful variable to describe the intensity of Fusarium-damage, because it could be evaluated in senescent plant material. Yield of infected plants increased from about 6.5 to 10 t ha(-1) upon fungicide (Caramba, Folicur, or Input) application at two days before or two days after anthesis. Effects were smaller when fungicides were applied earlier or later. At equal application time, equal disease severity level, and equal fungal DNA concentration, effects of fungicides on yield were not significantly different (P = 0.734) whereas effects on the DON content were (P < 0.001).Folicur applied around the time of wheat anthesis decreased the DON content of the grain from about 14 mg kg(-1) to 9 mg kg(-1) whereas Caramba and Input decreased the DON content to about 5 mg kg(-1).

Detección de Aspergillus spp. mediante PCR en tiempo real en un modelo murino de infección pulmonar

Assessment of a real-time PCR technique for the detection and quantification of fungal DNA in a murine model of pulmonary aspergillosis. Male ICR specific pathogen-free mice were used in the studies. The animals were divided into groups: immunosuppressed and intranasally inoculated with various inoculum sizes (10(6), 10(5), 10(4), and 10(3) conidia/mL) of a clinical isolate of Aspergillus fumigatus. When symptoms of pulmonary aspergillosis were detected, the mice were killed and the lungs removed for culture and real-time PCR determination. The PCR reactions used primers that amplified a region of Aspergillus spp. ribosomal DNA. Survival time per experimental group was calculated and correlation coefficients with inoculum size, colony counts and PCR results were determined. Average survival time was significantly associated with the size of the inoculum. Pulmonary colony count was positive for 90% of the infected mice, but there was no statistical relationship between count values and either survival time or inoculum size. Real-time PCR was positive in 100% of the animals and was significantly associated with survival time and inoculum size (p < 0.01). Real-time PCR is a reliable procedure for the quantification and evaluation pulmonary infection due to A. fumigatus in animal models.

The Canadian Phytopathological Society Annual Meeting, Montréal, Quebec, 2003

The Canadian Phytopathological Society Annual Meeting, Montréal, Quebec, 2003

Quantification of fungal DNA by using fluorescence resonance energy transfer and the light cycler system.

The Light Cycler technique combines rapid in vitro amplification of DNA in glass capillaries with real-time species determination and quantification of DNA load. We have established a quantitative PCR protocol for two clinically important pathogens, Candida albicans and Aspergillus fumigatus. The sensitivity of the assay was comparable to those of previously described PCR protocols (5 CFU/ml). Specific detection of C. albicans and A. fumigatus could be achieved. The assay showed a high reproducibility of 96 to 99%. The assay was linear in a range between 10(1) and 10(4) Aspergillus conidia. As capillaries do not have to be reopened for post-PCR analysis, the risk of carryover contaminations could be minimized. The Light Cycler allowed quantification of the fungal loads in a limited number of clinical specimens from patients with hematological malignancies and histologically proven invasive fungal infections. Five of nine positive samples had fungal loads between 5 and 10 CFU/ml of blood, two of nine positive samples had fungal loads between 10 and 100 CFU/ml of blood, and two of nine samples had fungal loads of more than 100 CFU/ml of blood. All samples were also found to be PCR positive by PCR-enzyme-linked immunosorbent assay analysis.