Resistance of wheat pathogen Zymoseptoria tritici to DMI and QoI fungicides in the Nordic-Baltic region - a status

Septoria tritici blotch (STB) caused by the ascomycete Zymoseptoria tritici (Z. tritici) is currently the most prevalent foliar disease in wheat in the Nordic-Baltic region. Fungicide availability in this region differs greatly and is generally more limited than in other European regions. Monitoring of fungicide sensitivity is an essential tool to survey changes in fungal populations in order to react and be able to adapt recommendations for fungicide use. In this study the authors give an overview of the current situation of 14α-demethylation inhibitor (DMI) and quinone outside inhibitor (QoI) sensitivity of Z. tritici from Scandinavia and the Baltic countries. A total of 985 isolates from the Nordic-Baltic region were investigated for EC₅₀ of DMI epoxiconazole and prothioconazole. Fungicide sensitivity remains at a high level with values ranging from 0.07 to 0.48 mg L^?1 for epoxiconazole and 1.17 to 9.47 mg L^?1 for prothioconazole. Point mutation I381V in the DMI target gene CYP51 was dominant throughout the region, but mutations D134G, V136A/C and S524T were also detected in the population in 2014. Screening for inserts in the CYP51 promoter region revealed that a ~ 1000 bp insert is predominant in the entire region. Only a single isolate was found in Denmark, harbouring the 120 bp insert, known to reduce fungicide sensitivity. Two Danish isolates which had elevated resistance levels were associated with an enhanced efflux. Significant differences were found across the area for the presence of G143A, conferring QoI resistance. As there is only limited access to results from this area, these findings can serve as reference for future fungicide sensitivity investigations and for evaluation of changes in the Northern European Z. tritici population.     

Non‐target site SDHI resistance is present as standing genetic variation in field populations of Zymoseptoria tritici

BACKGROUND

A new generation of more active succinate dehydrogenase (Sdh) inhibitors (SDHIs) is currently widely used to control Septoria leaf blotch in northwest Europe. Detailed studies were conducted on Zymoseptoria tritici field isolates with reduced sensitivity to fluopyram and isofetamid; SDHIs which have only just or not been introduced for cereal disease control, respectively.

RESULTS

Strong cross‐resistance between fluopyram and isofetamid, but not with other SDHIs, was confirmed through sensitivity tests using laboratory mutants and field isolates with and without Sdh mutations. The sensitivity profiles of most field isolates resistant to fluopyram and isofetamid were very similar to a lab mutant carrying SdhC‐A84V, but no alterations were found in SdhB, C and D. Inhibition of mitochondrial Sdh enzyme activity and control efficacy in planta for those isolates was severely impaired by fluopyram and isofetamid, but not by bixafen. Isolates with similar phenotypes were not only detected in northwest Europe but also in New Zealand before the widely use of SDHIs.

CONCLUSION

This is the first report of SDHI‐specific non‐target site resistance in Z. tritici. Monitoring studies show that this resistance mechanism is present and can be selected from standing genetic variation in field populations. © 2017 The Authors. Pest Management Science published by John Wiley & Sons Ltd on behalf of Society of Chemical Industry.     

Monitoring of Brazilian wheat blast field populations reveals resistance to QoI,DMI, and SDHI fungicides

Wheat blast is one of the most important and devastating fungal diseases of wheat in South America, South-east Asia, and now in southern Africa. The disease can reduce grain yield by up to 70% and is best controlled using integrated disease management strategies. The difficulty in disease management is compounded by the lack of durable host resistance and the ineffectiveness of fungicide sprays. New succinate dehydrogenase inhibitor (SDHI) fungicides were recently introduced for the management of wheat diseases. Brazilian field populations of the wheat blast pathogen Pyricularia oryzae Triticum lineage (PoTl) sampled from different geographical regions in 2012 and 2018 were shown to be resistant to both QoI (strobilurin) and DMI (azole) fungicides. The main objective of the current study was to determine the SDHI baseline sensitivity in these populations. Moderate levels of SDHI resistance were detected in five out of the six field populations sampled in 2012 and in most of the strains isolated in 2018. No association was found between target site mutations in the sdhB, sdhC, and sdhD genes and the levels of SDHI resistance, indicating that a pre-existing resistance mechanism not associated with target site mutations is probably present in Brazilian wheat blast populations.     

Multiplex qPCR assay for simultaneous quantification of CYP51-S524T and SdhC-H152R substitutions in European populations of Zymoseptoria tritici

Demethylation inhibitor (DMI) and succinate dehydrogenase inhibitor (SDHI) fungicides are currently relied upon for the control of septoria tritici blotch (STB) in European wheat fields. However, multiple mutations have occurred over time in the genes encoding the targeted proteins that have led to a practical loss of fungicide efficacies. Among the different amino acid substitutions in Zymoseptoria tritici associated with resistance to these fungicides, S524T in CYP51 (DMI target) and H152R in SdhC (SDHI target) are regarded as conferring the highest resistance factors to DMI and SDHI, respectively. To facilitate further studies on the monitoring and selection of these substitutions in Z. tritici populations, a multiplex allele-specific quantitative PCR (qPCR) assay allowing for estimation of both allele frequencies in bulk DNA matrices was developed. The assay was then used on complex DNA samples originating from a spore trap network set up in Belgium, Denmark, Sweden, and Ireland in 2017 and 2018, as well as on leaf samples with symptoms. The S524T allele was present in all field samples and its proportion was significantly higher in Ireland than in Belgium, whereas the proportion of H152R was only sporadically present in both countries. The frequency of S524T varied greatly in the airborne inoculum of all four countries; however, the H152R allele was never detected in the airborne inoculum. The method developed in this study can be readily adopted by other laboratories and used for multiple applications including resistance monitoring in field populations of Z. tritici.     

Characterization of DMI,QoI and SDHI fungicides sensitivity of Ramularia collo-cygni isolates in Argentina

Journal of Plant Diseases and Protection - Ramularia leaf spot (RLS) caused by the fungus Ramularia collo-cygni (Rcc) has become a threat to barley production in Argentina. All barley varieties are...     

Optimised expression and spectral analysis of the target enzyme CYP51 from Penicillium digitatum with possible new DMI fungicides

BACKGROUND: Sterol 14α‐demethylase (CYP51), a key target of azole (DMI) fungicides, can be expressed in both prokaryotes and eukaryotes. Green mould of citrus, caused by Penicillium digitatum (Pers.) Sacc., is a serious post‐harvest disease. To develop specific and more effective fungicides against this disease, the characteristics of the interaction between sterol 14α‐demethylase from P. digitatum (PdCYP51) and possible new fungicides were analysed. The cyp51 gene of P. digitatum was cloned and expressed under different conditions in Escherichia coli (Mig.) Cast. & Chalm., and the binding spectra of PdCYP51 were explored by the addition of two commercial azoles and four new nitrogen compounds. RESULTS: The yield of soluble protein (PdCYP51) was largest when expressed in Rosetta (DE3) induced by 0.5 mM IPTG for 8 h at 30 °C. Compound B (7‐methoxy‐2H‐benzo[b][1,4]thiazine‐3‐amine) showed the strongest binding activity of the four new nitrogen compounds, with a K_d value of 0.268 µM . The K_d values of the six compounds were significantly correlated with their EC₅₀ values. CONCLUSION: The spectral analysis and bioassay results could be used to screen the new chemical entities effectively. Compound B, selected by virtual screening from a commercial chemical library, is a candidate for a new DMI fungicide. These results provide a theoretical basis and new ideas for efficient design and development of new antifungal agents. Copyright © 2010 Society of Chemical Industry     

Sensitivity of Mycosphaerella graminicola (anamorph: Septoria tritici) to DMI fungicides across Europe and impact on field performance

Since the occurrence and spread of resistance to quinone outside inhibitors (QoI) in Mycosphaerella graminicola in the early 2000s in Europe, demethylation inhibitors (DMIs) form the backbone for control of Septoria leaf blotch. European monitoring studies, carried out by various research institutes and DMI manufacturers, have shown a shift of the European M. graminicola population towards increased ED₅₀ values for DMI fungicides. Populations of M. graminicola consist of very heterogeneous isolates within a region, and even within a field, in terms of DMI sensitivity. Sensitivity to DMIs is influenced by the haplotype of CYP51, the target of DMIs. New CYP51‐haplotypes have emerged and the frequency of less sensitive haplotypes in Europe has increased in recent years. Studies with efflux transporter inhibitors showed that not only CYP51, but also enhanced efflux, may play a role in the DMI sensitivity response. Sensitivity studies with 5 DMIs registered for Septoria leaf blotch control indicated that sensitivity of isolates to the 5 DMIs is heterogeneous and the overall correlation of sensitivity to the different DMIs is poor. A key requirement for sustainable control and resistance management of Septoria leaf blotch is therefore the continued availability of different DMIs.     

Sensitivity towards DMI fungicides and haplotypic diversity of their CYP51 target in the Mycosphaerella graminicola population of Flanders

Journal of Plant Diseases and Protection - Septoria leaf blotch, caused by the fungus Mycosphaerella graminicola, is the most important wheat disease in Northwestern Europe, and is currently...     

Emergence and early evolution of fungicide resistance in North American populations of Zymoseptoria tritici

Although fungicide resistance in crop pathogens is a global threat to food production, surprisingly little is known about the evolutionary processes associated with the emergence and spread of fungicide resistance. Early stages in the evolution of fungicide resistance were evaluated using the wheat pathogen Zymoseptoria tritici, taking advantage of an isolate collection spanning 20 years in Oregon, USA, and including two sites with differing intensity of fungicide use. Sequences of the mitochondrial cytb protein conferring single‐mutation resistance to QoI fungicides and the nuclear CYP51 gene implicated in multiple‐mutation resistance to azole fungicides were analysed. Mutations associated with resistance to both fungicides were absent in the 1992 isolates, but frequent in the 2012 collection, with higher frequencies of resistance alleles found at the field site with more intensive fungicide use. Results suggest that the QoI resistance evolved independently in several lineages, and resulted in significant mitochondrial genome bottlenecks. In contrast, the CYP51 gene showed signatures of diversifying selection and intragenic recombination among three phylogenetic clades. The findings support a recent emergence of resistance to the two fungicide classes in Oregon, facilitated by selection for mutations in the associated resistance genes.     

Sensitivities to DMI fungicides in populations of Podosphaera fusca in south central Spain

BACKGROUND: Cucurbit powdery mildew elicited by Podosphaera fusca (Fr.) U Braun & N Shishkoff limits crop production in Spain. Disease control is largely dependent on fungicides such as sterol demethylation inhibitors (DMIs). Fungicide resistance is an increasing problem in this pathogen. To overcome such risk, it is necessary to design rational control programmes based upon knowledge of field resistance. The aim of this study was to investigate the state of DMI sensitivity of Spanish P. fusca populations and provide tools for improved disease management. RESULTS: Using a leaf‐disc assay, sensitivity to fenarimol, myclobutanil and triadimenol of 50 isolates of P. fusca was analysed to determine discriminatory concentrations between sensitive and resistant isolates. As no clearly different groups of isolates could be identified, discriminatory concentrations were established on the basis of maximum fungicide field application rate, 100 mg L^?1 for the three fungicides tested. Subsequently, a survey of DMI resistance was carried out in different provinces located in the south central area of Spain during the cucurbit growing seasons in 2002, 2003 and 2004. Examination of a collection of 250 isolates revealed that 23% were resistant to fenarimol and 7% to triadimenol, the provinces of Almería, Badajoz and Murcia being the locations with the highest frequencies of resistance. By contrast, no resistance to myclobutanil was found. CONCLUSION: Results show that fenarimol and, to a lesser extent, triadimenol have become less efficient for controlling cucurbit powdery mildew in Spain. These are important observations that should lead to reconsideration of the current disease management programmes. Copyright © 2010 Society of Chemical Industry     

Population structure and frequency differences of CYP51 mutations in <Emphasis Type="Italic">Zymoseptoria tritici</Emphasis> populations in the Nordic and Baltic regions

Septoria tritici blotch caused by the fungus Zymoseptoria tritici (formerly Mycosphaerella graminicola) is one of the most yield-reducing diseases worldwide. Effective disease management involves the use of resistant cultivars and application of fungicides. In this study, the population structure and genetic diversity of 183 Z. tritici isolates from Denmark, Sweden, Finland and the Baltic countries were analysed by molecular markers. In population structure analysis, isolates from Denmark and Sweden were grouped together, whereas isolates from the Baltics and Finland were grouped together. Analysis of genetic diversity and ?-values confirmed the division of Nordic and Baltic regions. Danish isolates sampled from different regions and different varieties were not genetically different. However, significant genetic differences were detected between isolates sampled from different years in Denmark and for isolates sampled from specific cultivars in different years. Additionally, the frequency of several known point mutations in the gene cyp51, conferring decreased sensitivity to DMI fungicides, was investigated. Several of the examined mutations were detected at a lower frequency in Baltic isolates compared to Danish and Swedish isolates. Analysis of the Danish population revealed a significant increase in specific mutations over the years. Lastly, some mutations were significantly more frequent in isolates derived from certain varieties. By using different resistance sources in breeding programmes and application of a wide range of fungicides, a sustainable and efficient disease management can be obtained.     

The impact of wheat cultivar mixtures on virulence dynamics in Zymoseptoria tritici populations persists after interseason sexual reproduction

This study follows on from a previous study showing that binary mixtures of wheat cultivars affect the evolution of Zymoseptoria tritici populations within a field epidemic from the beginning (t1) to the end (t2) of a growing season. Here, we focused on the impact of interseason sexual reproduction on this evolution. We studied mixtures of susceptible and resistant cultivars (carrying Stb16q, a recently broken-down resistance gene) in proportions of 0.25, 0.5 and 0.75, and their pure stands. We determined the virulence status of 1440 ascospore-derived strains collected from each cultivar residue by phenotyping on seedlings. Virulence frequencies in the ascospore-derived population were lower in mixtures than in pure stands of the resistant cultivar, especially in the susceptible cultivar residues, as at t2, revealing that the impact of mixtures persisted until the next epidemic season (t3). Surprisingly, after sexual reproduction the avirulence frequencies on the resistant cultivar residues increased in mixtures where the proportion of the susceptible cultivar was higher. Our findings highlight two epidemiological processes: selection within the pathogen population between t1 and t2 driven by asexual cross-contamination between cultivars (previous study) and sexual crosses between avirulent and virulent strains between t2 and t3 driven by changes in the probabilities of physical encounters (this study). Mixtures therefore appear to be a promising strategy for the deployment of qualitative resistances, not only to limit the intensity of Septoria tritici blotch epidemics, but also to reduce the erosion of resistances by managing evolution of the pathogen population at a pluriannual scale.     

Comparative pathogenicity of sexual and asexual spores of Zymoseptoria tritici (septoria tritici blotch) on wheat leaves

Zymoseptoria tritici ascospores and pycnidiospores are considered the main forms of primary and secondary inoculum, respectively, in septoria tritici blotch epidemics. The pathogenicity of the two types of spores of the same genotypic origin were compared through a two‐stage inoculation procedure in controlled conditions. Adult wheat leaves were inoculated with ascospores collected from field sources, yielding 119 lesions; pycnidiospores collected from 12 lesions resulting from these ascospore infections were then used for inoculation. Lesion development was assessed for 5 weeks; latent period, lesion size, and pycnidium density were estimated for different isolates. The latent period was calculated as the maximum likely time elapsed between inoculation and either the appearance of the majority of the sporulating lesions (leaf scale) or the appearance of the first pycnidia (lesion scale). The latent period was significantly longer (c. 60 degree‐days, i.e. 3–4 days) after infection with ascospores than with pycnidiospores. No difference was established for lesion size and density of pycnidia. A comparison with other ascomycete fungi suggested that the difference in latent period might be related to the volume of spores and their ability to cause infection. Fungal growth before the appearance of lesions may be slower after inoculation with an ascospore than with a pycnidiospore. The mean latent period during the very beginning of epidemics, when first lesions are mainly caused by ascospores, may be longer than during spring, when secondary infections are caused by pycnidiospores. Disease models would be improved if these differences were considered.     

Sensitivity of Lasiodiplodia theobromae from Brazilian papaya orchards to MBC and DMI fungicides

Stem rot caused by Lasiodiplodia theobromae is an important postharvest disease of papaya in Brazil, responsible for reducing the quality and quantity of fruits. Fungicide use is one of the main disease management measures. However, there are no estimates available of pathogen sensitivity to commonly employed fungicides. Therefore, the EC₅₀ from 120 isolates of L. theobromae from northeastern Brazil, representative of six populations of the pathogen, was estimated in vitro for fungicides of the methyl benzimidazole carbamates—MBC (benomyl and thiabendazole) and demethylation-inhibiting—DMI (imazalil, prochloraz, tebuconazole) groups. Mycelial growth on fungicide-free media and virulence on papaya fruits of the MBC-sensitive and non-sensitive isolates were compared. For MBCs, 8.4% of isolates were non-sensitive to fungicides. For the remaining 91.6%, the mean EC₅₀ ranged from 0.002 to 0.13 μg ml⁻¹ and 0.36 to 1.27 μg ml⁻¹ for benomyl and thiabendazole, respectively. For DMIs, the mean EC₅₀ range for imazalil was 0.001 to 2.27 μg ml⁻¹, 0.04 to 1.75 μg ml⁻¹ for prochloraz, and 0.14 to 4.05 μg ml⁻¹ for tebuconazole. The EC₅₀ values of non-sensitive isolates were significantly (P≤0.05) higher those for the sensitive isolates for each of the DMI fungicides. Differences (P≤0.05) were found in the levels of sensitivity to DMI fungicides among the isolate populations associated with orchards. The populations from two orchards were less sensitive to DMIs. No solid evidence was found for fitness costs relating to MBC non-sensitive isolates because mycelial growth in fungicide-free media and virulence on papaya fruits were similar to those of sensitive isolates.