PCR Assay for Identification of Aspergillus Carbonarius and Aspergillus Japonicus

Black Aspergilli, and in particular Aspergillus carbonarius, are the main causes of contamination of grapes and their by-products by ochratoxin A. A PCR-based method was developed to detect DNA of A. carbonarius and A. japonicus. Two pairs of primers (CARBO1/2 and JAPO1/2) designed from the calmodulin gene, produced PCR products of 371 and 583 bp for A. carbonarius and A. japonicus, respectively. Primer specificity was tested with DNA of 107 strains belonging to Aspergillus section Nigri isolated mostly from grapes in Europe. The sensitivity of primers CARBO1/2 and JAPO1/2 was 12.5 pg when using pure total genomic DNA of the two species. The developed primers provide a powerful tool for detection of the main ochratoxigenic producing Aspergillus species in grapes.     

Black carbon estimation in French calcareous soils using chemo‐thermal oxidation method

We studied the black carbon (BC) content of ca. 405 samples from French topsoil and artificial soil and carbonate mixtures. Our protocol involved three main steps: (i) decarbonation by HCl, (ii) elimination of non‐pyrogenic organic carbon in a furnace at 375 °C, and (iii) quantification of residual carbon by CHN analysis. BC content increased for calcareous soils according to their carbonates content. Subsequent analyses confirmed the existence of a methodological artefact for BC determination only in calcareous soils. Decarbonation changes the thermal properties of organic matter, creating more recalcitrant carbon than in the initial sample. Higher CaCO₃ and organic carbon content results in a more pronounced artefact. The reversal of the first two steps of the chemo‐thermal oxidation method (i.e. thermal oxidation before soil decarbonation) eliminates this artefact. Overall, our results suggest that BC content may have been overestimated in a large number of studies on calcareous soils.     

Segment-based coancestry,additive relationship and genetic variance within and between the Norwegian and the Swedish Fjord horse populations

ABSTRACT

The Fjord horse originates from Norway but forms a global population due to several small populations in foreign countries. There exists no information about the additive relationship and the genetic variance between these subpopulations. By collecting blood samples from Norwegian and Swedish Fjord horses, a sample of 311 Norwegian and 102 Swedish horses gave 485,918 SNPs available for analysis. Their inbreeding coefficients were calculated and compared to the pairwise coancestry and the shared genomic segments. The effective population size was almost similar with the two methods in the Norwegian Fjord horse population (63 and 71), but very different in the Swedish population (269 and 1136) and unprecise due to a much smaller number of observations. The study showed that coancestry from shared genomic segments can be used to estimate additive genetic relationship and genetic variation within and between the global populations of the Fjord horse.     

Near‐Infrared Hyperspectral Imaging of Fusarium‐Damaged Oats (Avena sativa L.)

The feasibility of hyperspectral imaging (HSI) to detect deoxynivalenol (DON) content and Fusarium damage in single oat kernels was investigated. Hyperspectral images of oat kernels from a Fusarium‐inoculated nursery were used after visual classification as asymptomatic, mildly damaged, and severely damaged. Uninoculated kernels were included as controls. The average spectrum from each kernel was paired with the reference DON value for the same kernel, and a calibration model was fitted by partial least squares regression (PLSR). To correct for the skewed distribution of DON values and avoid nonlinearities in the model, the DON values were transformed as DON* = [log(DON)]³. The model was optimized by cross‐validation, and its prediction performance was validated by predicting DON* values for a separate set of validation kernels. The PLSR model and linear discriminant analysis classification were further used on single‐pixel spectra to investigate the spatial distribution of infection in the kernels. There were clear differences between the kernel classes. The first component separated the uninoculated and asymptomatic from the severely damaged kernels. Infected kernels showed higher intensities at 1,925, 2,070, and 2,140 nm, whereas noninfected kernels were dominated by signals at 1,400, 1,626, and 1,850 nm. The DON* values of the validation kernels were estimated by using their average spectra, and the correlation (R) between predicted and measured DON* was 0.8. Our results show that HSI has great potential in detecting Fusarium damage and predicting DON in oats, but it needs more work to develop a model for routine application.