: a software to evaluate model performance

The software (Integrated Resources for Evaluating Numerical Estimates) is a data analysis tool designed to provide easy access to statistical techniques for use in model evaluation. Mostly, non-replicated model estimates (E_i) are compared against non-replicated measurements (M_i). The software also allows comparing individual estimates against replicated measurements (or vice versa) and replicated estimates against replicated measurements. The evaluation of model performance is essentially based on the difference E_i−M_i, or on the correlation–regression of E_i vs. M_i (or vice versa). In addition, model evaluation by probability distributions, pattern analysis, or fuzzy-based aggregation statistics is allowed. Graphics are included in most analytical tasks. The results are displayed in separate spreadsheets and can be exported into MS Excel workbooks.     

Analysis of puroindoline a and b sequences from Triticum aestivum cv. `Penawawa' and related diploid taxa

Flanking sequences of the puroindoline a(pinA) and puroindoline b (pinB) genes from Triticum monococcum, T. urartu, Aegilops speltoides and A. tauschii were obtained by inverse PCR. Two accessions from each of these related diploid taxa were sequenced, and the sequences compared to those of the soft hexaploid wheat cultivar `Penawawa'. As expected from the origin of the D-genome in hexaploid wheat, the highest sequence identity was observed for the A. tauschii sequences, whereas the sequences for A.speltoides were the most divergent. The promoter sequences were further analyzed for putative regulatory elements, and the possible significance of several highly conserved sequence motifs is discussed. Western blots of Triton X-114 extracted proteins separated by SDS-PAGE confirmed the accumulation of pinA and pinB gene products in the endosperm of all the germplasm lines studied. The deduced amino acid sequences for the related diploid taxa do not imply any major structural changes as compared to the wild-type T. aestivum puroindolines, and is therefore in agreement with the soft endosperm texture of these species. This revised version was published online in August 2006 with corrections to the Cover Date.     

Environmental correlates of two macro-decapods distribution in Central Italy: Multi-dimensional ecological knowledge as a tool for conservation of endangered species

Using a multi-dimensional ecological design, this study aimed first to analyse whether local environmental conditions can account for the spatial segregation of two Italian native decapods, the crayfish Austropotamobius italicus and the river crab Potamon fluviatile, in Central Italy freshwater ecosystems. Second, we aimed to analyse which environmental variables were more closely associated with the presence/absence of the two decapods in specific sites within their distribution area. Following a factorial design, a total of 32 sites were selected in two neighbouring geographic areas, one occupied by crayfish and one by crabs. Within each distribution area, eight streams where the decapod was present and eight where it was not present were selected. At each site, macro-invertebrate community composition and 16 abiotic variables were recorded and analysed with multi-variate methods. Variations in physical (minimum and maximum temperatures), chemical (calcium, oxygen, nitrate and nitrite) and geomorphological (substrate composition) parameters explained spatial segregation of P. fluviatile and A. italicus in the study area. The occurrence of crayfish reflected variations of chemistry (such as pH, calcium, nitrate and nitrite concentrations), temperature, water depth and substrate composition. On the contrary, the presence of the river crab, within its occurrence zone, was not associated to any biotic and abiotic parameters and was probably affected by anthropogenic pressure and uncontrolled harvesting. These findings provide fundamental ecological data for the maintenance of the two decapod natural populations as well as for the selection of areas and streams adequate for their reintroduction.     

Comparison of different media for the isolation of small ruminant strains of Mycobacterium paratuberculosis

Two different egg based media, with and without the incorporation of sodium pyruvate, were used to isolate M. paratuberculosis from sheep, goat and cattle samples obtained at our laboratory for two years. Both media were adequate for bovine material, with a slightly improved isolation rate for Herrold's egg yolk medium incorporating sodium pyruvate; however, most of the small ruminant strains grew only on L?wenstein-Jensen medium without sodium pyruvate. Those results point out the need to use different media when working with small ruminant samples and provide further evidence for the existence of different varieties of M. paratuberculosis causing paratuberculosis in cattle and in small ruminants.     

A comparison of some methods for detecting potato leaf roll virus in potato tubers in Israel

Summary The results obtained by four methods for detecting PLRV in potato tubers grown in Israel were compared with the results obtained by aphid transmission to test plants. The correlation coefficients for potatoes lifted in July (seed for autumn) and September (seed for spring) were: Igel-Lange test, 0.18 and 0.25; datura grafting with tuber sprouts, 0.71 and 0.63; aphid transmission from sprouts to test plants, 0.89 and 0.81; and visual assessment in the Florida test (for spring seed), Up-to-Date 0.58, Blanka 0.67 and Désirée 0.33. The Igel-Lange test proved unreliable; datura grafting is time consuming and PLRV symptoms were similar to reactions ofDatura stramonium to wounding and to stress. The results of the Florida test were somewhat variable and were obtained too late. The sprout test was deemed the most suitable as it is accurate and the results can be obtained within two months. Contribution No 156-E, 1979 series, Volcani Center.     

Characterization by whole-cell hybridization of bacterial populations associated with shrimp hatchery biofilms

The impact of shrimp larvae development, as well as water and food inputs upon the increase of bacterial populations within the bacterial community of hatchery tank biofilms, was studied. For this study, a total of 68 biofilm samples were collected from concrete tanks at three larvae production times in a commercial shrimp hatchery. Seventeen samples were taken at each larval development stage (Zoea I, Mysis I, postlarvae 1 and postlarvae 16), as well as 37 samples from water, shrimp nauplii and food, introduced into the shrimp hatchery tanks. Culturable and direct bacterial counts were performed and 16S‐rRNA‐targeted oligonucleotide probes were used to quantify the presence of specific bacterial groups. An average of 27–70% of DAPI total cell counts were detected with the EUB338 probe, while the GAM42a probe signal ranged from 1% to 11%. Vibrio‐like bacteria (VLB) counts in TCBS agar ranged from <10 to 10¹ VLB/cm⁻², with a tendency to increase at the last postlarvae stage. The most significant external source of bacteria registered with GAM42a probe and TCBS agar were found in live Artemia nauplii, used as food; nevertheless, biofilms remain with low counts of these groups.