A multiple-phenotype imputation procedure as a method for prediction of cheese-making efficiency in Spanish Assaf sheep

Sheep milk is mainly intended to manufacture a wide variety of high-quality cheeses. The ovine cheese industry would benefit from an improvement, through genetic selection, of traits related to the milk coagulation properties (MCPs) and cheese yield-related traits, broadly denoted as “cheese-making traits.” Considering that routine measurements of these traits needed for genetic selection are expensive and time-consuming, this study aimed to evaluate the accuracy of a cheese-making phenotype imputation method based on the information from official milk control records combined with the pH of the milk. For this study, we analyzed records of milk production traits, milk composition traits, and measurements of cheese-making traits available from a total of 1,145 dairy ewes of the Spanish Assaf sheep breed. Cheese-making traits included five related to the MCPs and two cheese yield-related traits. The milk and cheese-making phenotypes were adjusted for significant effects based on a general linear model. The adjusted phenotypes were used to define a multiple-phenotype imputation procedure for the cheese-making traits based on multivariate normality and Markov chain Monte Carlo sampling. Five of the seven cheese-making traits considered in this study achieved a prediction accuracy of 0.60 computed as the correlation between the adjusted phenotypes and the imputed phenotypes. Particularly the logarithm of curd-firming time since rennet addition (logK₂₀) (0.68), which has been previously suggested as a potential candidate trait to improve the cheese ability in this breed, and the logarithm of the ratio between the rennet clotting time and the curd firmness at 60 min (logRCT/A60) (0.65), which has been defined by other studies as an indicator trait of milk coagulation efficiency. This study represents a first step toward the possible use of the phenotype imputation of cheese-making traits to develop a practical methodology for the dairy sheep industry to impute cheese-making traits only based on the analysis of a milk sample without the need of pedigree information. This information could be also used in future planning of specific breeding programs considering the importance of the cheese-making efficiency in dairy sheep and highlights the potential of phenotype imputation to leverage sample size on expensive, hard-to-measure phenotypes.     

YELLOW PASSION FRUIT PLANT NUTRITIONAL DIAGNOSIS AT DIFFERENT PHENOLOGICAL STAGES BY THE DIAGNOSIS AND RECOMMENDATION INTEGRATED SYSTEM METHOD

This work was performed in the Rio de Janeiro State, Brazil, with the objective to evaluate the nutritional status of yellow passion fruit plants along different phenological stages, using the DRIS method. Fifty-four passion fruit cultivated areas with an annual yield productivity ranging from 6.95 to 33.8 t ha^?1 year^?1 and average productivity of 16.9 t ha^?1 year^?1 were selected in the region. The contents of nitrogen (N), phosphorus (P), potassium (K), calcium (Ca), magnesium (Mg), sulfur (S), chlorine (Cl), iron (Fe), zinc (Zn), manganese (Mn), and boron (B) were evaluated. The reference standards were established (mean and variation coefficient) for the values of the nutrient concentration ratios, two by two, on samples from high yield productivity plantations and analyzed by the DRIS index of nutrients for the medium and low yield productivity areas. The established standards differed according with the phenological stage of the culture. In a general way, the mean content of the evaluated nutrients did not differed between the two productivity levels into each phonological stage. There was a difference for the Nutritional Limitation Order between different phenological stages of yellow passion fruit plants. The most negative DRIS indexes and the highest absolute values for the Average Nutritional Balance on yellow passion fruit plants in the region, were found for potassium in May, phosphorus in October and iron in January.     

Antigenotoxicity and Antioxidant Activity of Acerola Fruit (Malpighia glabra L.) at Two Stages of Ripeness

Genotoxic and antigenotoxic effects of acerola fruit at two stages of ripeness were investigated using mice blood cells. The results show that no ripeness stage of acerola extracts presented any genotoxic potential to damage DNA (Comet assay) or cytotoxicity (MTT assay). When antigenotoxic activity was analyzed, unripe fruit presented higher DNA protection than ripe fruit (red color) extract. The antioxidant capacity of substances also showed that unripe samples inhibit the free radical DPPH more significantly than the ripe ones. The results about determination of compounds made using HPLC showed that unripe acerola presents higher levels of vitamin C as compared to ripe acerola. Thus, vitamin C and the complex mixture of nutrients of Malpighia glabra L., and especially its ripeness stages, influenced the interaction of the fruit extract with the DNA. Acerola is usually consumed when ripe (red fruit), although it is the green fruit (unripe) that has higher potential as beneficial to DNA, protecting it against oxidative stress.     

Direct assessment of living cell mechanical responses during deformation inside microchannel restrictions

The deformation of suspended cells inside microchannel restrictions mimics passive cell transportation in the blood circulation system of the body. The cells traverse or get stuck in narrow vessels, as, e.g., during the metastasis of tumor cells. In this work, the mechanical responses of suspended pancreatic cancer cells as they move through and deform inside microchannel restrictions are assessed with a cantilever-based polydimethylsiloxane (PDMS) force sensor. Incorporated into a flow cell chip, the PDMS cantilever is integrated into the boundary wall of a narrow microrestriction. Upon being forced to enter the restriction by an applied flow, the cell exerts pressure on the cantilever, which then bends. By assuming a uniformly loaded cantilever, the total force and pressure on the cantilever can be calculated using elastic beam theory. This technique has the advantage of presenting an absolute and direct measure, which is independent of the applied flow and frictional processes at the channel-cell interface; in contrast to, e.g., measuring cell mechanics indirectly via cell sliding velocities. Furthermore, a high number of cells can be examined in a short time compared to other single cell mechanical testing devices.     

Nanoparticles in the management of brown eye spot in coffee

European Journal of Plant Pathology - Brown eye spot (Cercospora coffeicola) is one of the main diseases of coffee (Coffea arabica L.) and represents a serious phytosanitary problem for the crop....     

Trichoderma as a biological agent of Fusarium oxysporum species complex and Vigna unguiculata growth promoter

European Journal of Plant Pathology - This study aimed to evaluate the potential antagonistic role of Trichoderma in the control of Fusarium isolates belonging to the Fusarium oxysporum species...     

Genetic diversity via REML-BLUP of ex situ conserved macauba [Acrocomia aculeata (Jacq.) Lodd. ex Mart.] ecotypes

Genetic Resources and Crop Evolution - Macauba [Acrocomia aculeata (Jacq.) Lodd. ex Mart.], a palm tree native to Brazil, has a high potential as an alternative source for vegetal oil production....     

Puroindoline-a and puroindoline-b interact with the Saccharomyces cerevisiae plasma membrane through different amino acids present in their tryptophan-rich domain

Puroindolines are two small, basic cysteine-rich proteins isolated from Triticum aestivum seeds and characterized by a tryptophan-rich domain. They form the molecular basis of wheat grain hardness and display antimicrobial activity that may contribute to plant defence. Their antimicrobial activity is presumed to be due to their hydrophobic tryptophan-rich domain. However, little is known about their mode of action and there is no in vivo evidence that the binding of puroindolines to membranes is mediated by their tryptophan-rich domain. In this study, using a yeast complementation assay, we showed that puroindolines interact with the Saccharomyces cerevisiae plasma membrane. By site-directed mutagenesis of their tryptophan-rich domain, we determined that two tryptophan residues (W41 and W44) are mandatory for interaction of puroindoline-a with the yeast membrane whereas interaction of puroindoline-b depends on lysine residues. These results highlight that other residues than tryptophan play a critical role in the interaction of puroindolines with membranes, and probably their affinity for lipids and antimicrobial activities.     

Modelling the long-term impacts of selective logging on genetic diversity and demographic structure of four tropical tree species in the Amazon forest

In the last three decades, Amazon tropical forests have experienced high rates of deforestation, both by clearing for agriculture and by logging. In this study, we use computer simulations to examine the potential effects of forest logging on genetic diversity and demographic recovery (basal area development) of four neotropical tree species over a time frame reflecting multiple logging events. The study species, Bagassa guianensis Aubl., Hymenaea courbaril L., Manilkara huberi (Ducke) Chevalier, and Symphonia globulifera L.f., are all taxa which are commonly exploited for timber in the Brazilian Amazon. The simulations were parameterized using empirical data from field studies in the Tapajós National Forest, Pará State, Brazil, including genotypes at microsatellite loci, demography, ecology and growth for each species. Eight scenarios, combining two different cutting cycles and two minimum cutting diameters, were examined for each of the four species. The scenarios represent the actual forest practices used in Brazil and French Guiana (cutting diameter 45 and 60 cm, and cutting cycle of 30 and 65 years, respectively). Logging scenarios were applied for six cutting cycles, and final genetic and demographic data were compared to baseline data from corresponding control scenarios. At the end of the simulated period the basal area was strongly reduced under all conditions in B. guianensis, H. courbaril, and M. huberi. In only two scenarios was a species able to recover its basal area following logging (S. globulifera with both 45- and 60-cm cutting diameters under a 65-year cutting cycle). In the logging scenarios, all species showed a loss of alleles and genotypes and an increased genetic distance (calculated between each population at the start and the end of the simulations). These effects were higher under the most intensive logging cycles (30 years, 45 cm). However, effective number of alleles, expected and observed heterozygosities, and the fixation index were little affected by the logging simulations. Over all, we conclude that, even under very optimistic conditions for growth and recruitment, current logging practices are not sustainable in terms of basal area. Our simulations show that different species respond differently to logging, both demographically and genetically. No single set of logging parameters can be applied to the forest as a whole. Rather, forest management practices must be species-specific, taking into account not only growth parameters but also ecological and reproductive variables, in order to move toward long-term forest sustainability.     

Variations in growth, survival and carbon isotope composition (delta(13)C) among Pinus pinaster populations of different geographic origins

To evaluate differences in growth and adaptability of maritime pine (Pinus pinaster Ait.), we studied growth, polycyclism, needle tissue carbon isotope composition (delta(13)C) as an estimate of water-use efficiency (WUE) and survival of seven populations at 10 years of age growing in a performance trial at a provenance test site in Escaroupim, Portugal. Six populations were from relatively high rainfall sites in Portugal and southwestern France (Atlantic group), and one population was from a more arid Mediterranean site in Spain. There were significant differences between some populations in total height, diameter at breast height, delta(13)C of bulk needle tissue, polycyclism and survival. A population from central Portugal (Leiria, on the Atlantic coast) was the tallest and had the lowest delta(13)C. Overall, the variation in delta(13)C was better explained by the mean minimum temperatures of the coldest month than by annual precipitation at the place of origin. Analyses of the relationships between delta(13)C and growth or survival revealed a distinct pattern for the Mediterranean population, with low delta(13)C (and WUE) associated with the lowest growth potential and reduced survival. There were significant negative correlations between delta(13)C and height or survival in the Atlantic group. Variation in polycyclism was correlated with annual precipitation at the place of origin. Some Atlantic populations maintained a high growth potential while experiencing moderate water stress. A detailed knowledge of the relationships between growth, survival and delta(13)C in contrasting environments will enhance our ability to select populations for forestry or conservation.