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Common scab of potatoes (CS) is influenced by plant-microbe-soil interactions, which are locally specific. The study aims to identify any common trends in such interactions across a landscape differentiated by soil pH and CS severity. The 33 sites and 17 cultivars were characterized using soil and periderm nutrient contents and microbial communities. Quantitative PCR and Illumina amplicon sequencing were used to assess abundance of bacteria, actinobacteria and pathogens, and community composition. Comparisons between bulk and tuberosphere soil compartments as well as potato cultivars divided to three categories of CS susceptibility revealed that nitrogen was elevated in tuberosphere soil and N, Mg and Fe were lowered in periderm of resistant cultivars. The susceptible cultivar Agria grown at 7 sites had higher Ca content in tuberosphere soil, while the resistant cultivar Adela grown at 10 sites had higher S, P and Mg contents in its tuberosphere soil and P and Fe in periderm. That suggests further interactions between plants and bacterial community involving nutrient uptake. Diversity of bacteria was positively correlated with CS severity suggesting interactions between the Streptomyces pathogen populations and the local soil community. Overall, pathogen abundance assessed by quantifying the thaxtomin biosynthetic txtB genes were randomly dispersed among the sites without connections to CS severity or soil pH. Thus, the significant differences between bacterial communities of bulk and tuberosphere soils together with cultivar CS susceptibility showed that the susceptible cultivars select bacterial community relatively similar to the bulk soil, while the resistant cultivars promote more distinct communities.

Factors shaping community structure of soil microbiota have been intensively studied; however, the pattern in community composition and structure of soil microbiota at large geographical scales and factors regulating its metabolic activity remains poorly understood. Here, we used a field transplantation experiments to investigate the effects of substrate and climatic conditions on basal soil respiration, microbial biomass C and diversity of soil microbiota by comparing local and transplanted soils along a latitudinal gradient. Soil samples collected in April 2008 at donor site (Sokolov, Czech Republic) in Central Europe were gamma-ray sterilized and transplanted to receptor sites in Europe and the USA in May and early June 2008. Soil samples were taken in June 2009 after one year of exposure and immediately prepared for laboratory analysis. Basal soil respiration in local soils increased from 22 to 42 mg CO2-C kg−1 h−1 with latitude while basal soil respiration in transplanted soils decreased with latitude from 32 to 19 mg CO2-C kg−1 h−1. The microbial biomass C in both transplanted and local soils decreased with latitude. Content of fungal and bacterial phospholipid fatty acids increased nearly twice with latitude in local soils. Shannon diversity index of fungal community decreased from 2.5 to 1.2 along the latitudinal gradient in transplanted soils while local soils increased from 0.9 to 2.4 with latitude. Based on our results, microbial activity is driven mainly by changes of the soil substrate along latitudinal and climatic gradients while microbial biomass is driven more by global climatic factors itself. The diversity of soil microbial communities is mostly affected by latitudinal and climatic factors while community structure is mostly shaped by substrate quality.

American Foulbrood (AFB) is currently one of the most dangerous diseases in honeybees due to its high virulence and worldwide spread. Quick evaluation of the diagnosis of this disease is crucial. Successful eradication in the area indicates a need to test all bee colonies, but this is expensive and time consuming. A new method of detecting Paenibacillus larvae using the RIDA?COUNT test (R-Biopharm AG, Germany) was verified in the present study. The test is based on the principle of the cultivation test with MYPGPn medium, coloration of the bacteria with TTC (2,3,5-triphenyltetra-zoliumchloride) chromophore, and heat treatment of the sample. Using this new method, color-highlighted colonies of P. larvae can be established on the seventh day after inoculating the spores. An identical number of colonies grown with the classic cultivation test on Petri dishes containing MYPGPn medium or RIDA?COUNT-P. larvae (RC-PL) sheets were verified.

Common scab of potatoes is a disease, which is difficult to manage due to complex interactions of the pathogenic bacteria (Streptomyces spp.) with soil, microbial community and potato plants. In Bohemian-Moravian Highlands in the Czech Republic two sites (Vyklantice and Zdirec) were selected for a study of common scab disease suppressivity. At both sites, a field with low disease severity occurs next to one with high severity and the situation was regularly observed over four decades although all four fields undergo a crop rotation. In the four fields, quantities of bacteria, actinobacteria and the gene txtB from the biosynthetic gene cluster of thaxtomin, the main pathogenicity factor of common scab, were analyzed by real-time PCR. Microbial community structure was compared by terminal fragment length polymorphism analysis. Soil and potato periderm were characterized by contents of carbon, nitrogen, phosphorus, sulphur, calcium, magnesium, and iron. Quality of organic matter was assessed by high performance liquid chromatography of soil extracts. The study demonstrated that the suppressive character of the fields is locally specific. At Zdirec, the suppressivity was associated with low txtB gene copies in bulk soil, while at Vyklantice site it was associated with low txtB gene copies in the tuberosphere. The differences were discussed with respect to the effect of abiotic conditions at Zdirec and interaction between potato plant and soil microbial community at Vyklantice. Soil pH, Ca soil content or cation concentrations, although different were not in the range to predict the disease severity. Low severity of common scab was associated with low content of soil C, N, C/N, Ca and Fe suggesting that oligotrophic conditions may be favorable to common scab suppression.