Genomic prediction for meat and carcass traits in Nellore cattle using a Markov blanket algorithm

This study was carried out to evaluate the advantage of preselecting SNP markers using Markov blanket algorithm regarding the accuracy of genomic prediction for carcass and meat quality traits in Nellore cattle. This study considered 3675, 3680, 3660 and 524 records of rib eye area (REA), back fat thickness (BF), rump fat (RF), and Warner–Bratzler shear force (WBSF), respectively, from the Nellore Brazil Breeding Program. The animals have been genotyped using low-density SNP panel (30 k), and subsequently imputed for arrays with 777 k SNPs. Four Bayesian specifications of genomic regression models, namely Bayes A, Bayes B, Bayes Cπ and Bayesian Ridge Regression methods were compared in terms of prediction accuracy using a five folds cross-validation. Prediction accuracy for REA, BF and RF was all similar using the Bayesian Alphabet models, ranging from 0.75 to 0.95. For WBSF, the predictive ability was higher using Bayes B (0.47) than other methods (0.39 to 0.42). Although the prediction accuracies using Markov blanket of SNP markers were lower than those using all SNPs, for WBSF the relative gain was lower than 13%. With a subset of informative SNPs markers, identified using Markov blanket, probably, is possible to capture a large proportion of the genetic variance for WBSF. The development of low-density and customized arrays using Markov blanket might be cost-effective to perform a genomic selection for this trait, increasing the number of evaluated animals, improving the management decisions based on genomic information and applying genomic selection on a large scale.     

The effect of salinity on corn yield using the CERES-maize model

In most cases, when calculating soil water availability, only thewater content is considered. The effect of salinity on the wiltingpoint is neglected. The objective of this work is to use asimulation model (CERES-maize) in order to predict cornyields as a function of water salinity under severalenvironmental, agrotechnical, and plant characteristics. A modelis presented in which the wilting point is a function of the soilsalt content. At high salinity, the water content at wilting pointis higher than at low salinity, resulting in an insufficient amountof available water and, therefore, a reduced yield. The modelwas used to simulate several theoretical and experimentalsituations for forage corn and grain corn. Simulation resultsshowed that nitrogen fertilization increases the salinity thresholdvalue and the yield sensitivity (rate of yield reduction per unitof salinity). The also showed that forage corn is more sensitiveto salinity than grain corn. If the soil is not leached, a heaviersoil texture has a higher salinity threshold value. On the otherhand, if the soil is leached, the soil texture has no influence onthe salinity threshold value and the yield is less sensitive tosalinity in sandy soils. The determination coefficient (r²= 0.75) indicated that the results of the simulations were in goodagreement with the field data.     

Outbreak of shoot blight and dieback of Eucalyptus spp., caused by Pseudoplagiostoma eucalypti in Brazil

An outbreak of a new and severe disease was observed in Eucalyptus plantations of Bahia state, Brazil. An Ascomycota fungus has been frequently associated with the main symptoms of the disease namely leaf spot, branch cankers, shoot blight, defoliation, and dieback. Based on morphological characteristics, phylogenetic analysis (ITS and TEF-1α genes), and pathogenicity test on Eucalyptus plants, Pseudoplagiostoma eucalypti was identified as the causal agent of the disease. Although P. eucalytpi has been known from in Brazil since 1998, this is the first report of it causing severe disease and die-back on Eucalyptus spp. and we also record new symptoms associated with the pathogen.     

Nutrient Digestibility of Cereal Grain Products and By‐products in Extruded Diets for Nile Tilapia

Apparent digestibility coefficients (ADCs) provide estimates of nutrient availability in feedstuffs and can be used as a tool for selecting ingredients to compound cost‐effective diets for fish. Extrusion process is one factor that could influence ADC values. Thus, a digestibility trial was undertaken to evaluate ADC of protein, energy, and dry matter, and apparent amino acid availability (AAAA) in five cereal grain products/by‐products (corn, wheat middlings, broken rice, rice bran, and sorghum) in compounded diets for Nile tilapia. Chromic oxide was used as an external inert marker. The digestibility values of energy and dry matter in ingredients, in decreasing order, were highest for broken rice (95.34 and 96.45%), sorghum (82.37 and 87.29%), corn (67.34 and 82.21%), rice bran (57.58 and 55.59%), and wheat middlings (48.94 and 45.88%). Protein digestibility value was higher for corn (72.86%) and the lowest value was observed for sorghum (56.77%), while broken rice, wheat middlings, and rice bran presented values ranging from 63.01 to 66.88%. AAAA values were higher for corn (70.05%) and the lowest methionine and cystine availability values were recorded for wheat middlings and broken rice, respectively. Broken rice appears as one of the most indicated ingredient for using in Nile tilapia diets because of its highest values of nutrient digestibility when compared to the other energetic sources. The use of this information should aid more precise and economic diet formulation for Nile tilapia.     

Effects of different natural or prepared diets on growth and survival of juvenile spider crabs, <Emphasis Type="Italic">Maja brachydactyla</Emphasis> (Balss, 1922)

The effects of different diets (natural or pellets) on growth, survival, and moulting interval of juvenile spider crabs, weighing between 0.011–1.56 g and up to 17.6 mm in carapace length, were tested over a period of 90 days. During experiment I, five diets were tested: (1) frozen shrimp—Paleomonetes sp., (2) fresh mussels—Mytilus sp., (3) white fish fillets—Merlucius merlucius, (4) blue fish fillets—Sardina pilchardus, and (5) commercial crustacean pellets. Spider crabs fed fresh mussels grew larger (0.98 ± 0.69 g) and had higher growth rates (4.0 ± 0.7 %BWd⁻¹) compared to the other four diets. The crabs fed shrimp pellet and frozen shrimp grew to intermediate sizes and were smaller than the ones fed fresh mussels, but they were larger than spider crabs fed either blue or white fish fillets (0.46 ± 0.63 and 0.26 ± 0.13 g, respectively) compared to the ones fed white fish fillets (0.12 ± 0.04) and blue fish fillets (0.04 ± 0.02 g). The spider crabs fed blue fish fillets only lasted until day 60 of the experiment, after this day none of the 20 fed this diet were left. During experiment II, two diets were tested: (1) white and blue fish fillets and (2) commercial fish pellet. There were no differences in growth both in weight or carapace length (2.9 ± 1.8 and 2.1 ± 1.5 g in weight, and 18.9 ± 5.0 and 17.7 ± 3.3 mm, respectively) at the end of the experiment. Similarly, there were no differences in growth rates in weight between the two diets (1.2 ± 0.4 and 0.9 ± 0.3 %BWd⁻¹, respectively) or in carapace length (0.4 ± 0.1 and 0.4 ± 0.2 %BWd⁻¹, respectively). Fresh mussel appears to be a very good diet to culture the early stages of this species, while shrimp pellets also deliver acceptable results. On the contrary, frozen shrimp, fish fillets either from blue or white species (much higher lipid content in the blue species), and fish pellets were found to be bad diets for the culture of the early stages of M. brachydactyla.     

Genetic diversity and aggressiveness of Calonectria pteridis in Eucalyptus spp.

Calonectria leaf blight, caused by Calonectria pteridis, is currently one of the main foliar diseases in eucalypt plantations in Brazil. In warm and high rainfall regions, the disease can be a limiting factor for eucalypt production when planting susceptible genotypes. The most effective method for controlling this disease in the field is the use of resistant genotypes, which requires knowledge of the genetic variability and aggressiveness of the pathogen population for effective deployment of plant resistance. This work evaluated the genetic diversity and aggressiveness of C. pteridis populations obtained from infected eucalypt plants in Monte Dourado (Pará state) and Imperatriz (Maranhão state), Brazil. To study the genetic diversity, 16 ISSR primers were tested, five of which amplified polymorphic, reproducible and informative bands. Thirty-one closely related genotypes were identified from 84 isolates studied, indicating that the population has a low genetic diversity. The aggressiveness of seven isolates, selected according to geographic origin and their clustering in the ISSR-based dendogram, was determined by inoculation of a hybrid Eucalyptus grandis × E. urophylla clone under controlled conditions. Disease severity was assessed by both measuring the percentage of plant defoliation and assigning a score according to a diagrammatic scale of symptoms. A high correlation between the two evaluation methods was observed, which revealed significant differences in aggressiveness among the isolates. The diagrammatic scale is recommended for disease evaluation because results are obtained much faster, before the occurrence of severe defoliation. No correlation between clustering in the ISSR-based phylogenetic analysis and aggressiveness was observed.     

Effect of harvesting and drying conditions on chlorophyll levels of soybean (Glycine max L. Merr)

Chlorophyll in soybean represents a downgrading factor for the crops. Five Brazilian cultivars were harvested between R(6) and R(8) stage of development (Fehr & Caviness scale) and dried at 25 degrees and 40 degrees C. The effect of maturity stages and two drying conditions after harvest were studied to achieve reduction of moisture and chlorophylls to acceptable levels. When seeds were dried at 25 degrees C, even harvesting at early stages of development such as R(6), the green pigments were almost degraded, and 16 ppm of chlorophyll were found at maximum, accompanied by loss of moisture. Moisture and chlorophyll declines as seed matures, but at intermediary stages (R(6)-R(7)), chlorophyll degrades first, so the rate of moisture loss should not be used to predict chlorophyll contents. At 40 degrees C, complete degradation of chlorophyll pigments is only achieved when seeds are swathed from R(7) stage up, otherwise the seed quality could be compromised. Slow drying allows almost complete removal of green pigments, even when seeds are swathed a few days before the physiological maturity stage.     

Analysis of organophosphorus pesticides in honeybee by liquid chromatography-atmospheric pressure chemical ionization-mass spectrometry

Pesticides applied in extended agricultural fields may be controlled by means of bioindicators, such as honeybees, in which are the pesticides bioaccumulate. Liquid chromatography-atmospheric pressure chemical ionization-mass spectrometry (LC-APCI-MS) experiments with positive (PI) and negative (NI) ion modes were optimized for the analysis of 22 organophosphorus pesticides in honeybee samples. The extraction required 3 g of sample, which was extracted with acetone. The extract was purified with coagulating solution and reextracted with Cl(2)CH(2). Pesticides studied could be detected by both ionization modes except for parathion, parathion-methyl, and bromophos, which did not give signals in PI mode, and triazophos, which was not detected in NI mode. Fragmentation voltage and vaporizer temperature were optimized to achieve the highest sensitivity. The spectra profile of each pesticide in PI mode showed the [M + H](+) ion as the main signal, whereas in NI mode only fragment ions were shown. The detection limit obtained in selected ion monitoring mode ranged from 1 to 15 microg kg(-1). The average recoveries from spiked honeybees at various concentration levels (0.5-5 mg kg(-1)) exceeded 65% with relative standard deviations of 4-15%. The method was applied to real samples, in which residues of coumaphos and dimethoate were detected.