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.     

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.     

Resistance of 57 greenhouse-grown accessions of Lycopersicon esculentum and three cultivars to Tuta absoluta (Meyrick) (Lepidoptera: Gelechiidae)

The aim of this study was to evaluate resistance to Tuta absoluta (Meyrick) (Lepidoptera: Gelechiidae) by antixenosis on 57 Lycopersicon esculentum Mill. accessions from the Horticultural Germplasm Bank (HGB) of Universidade Federal de Viçosa and by the three commercial cultivars (Santa Clara, Moneymaker and TOM-601) under greenhouse conditions. A randomized complete block design was used with three replications. Infestations with T. absoluta adults were performed weekly and the following characteristics were evaluated: number of small, large and total mines/leaf and % of leaves mined at days 60, 75 and 90 after planting. Low infestation occurred at days 60 and 75 but at day 90, infestation was sufficient to evaluate insect damage. Based on these data it was concluded that only accessions HGB-674 and HGB-1497 appeared to be the most promising. In addition, to determine possible chemical causes of resistance, hexane extracts were analyzed at day 90 by gas chromatography/mass spectrometry and the major peaks identified by a mass spectral database using similarity index. Nine hydrocarbons, viz., hexadecane, heptadecane, eicosane, tricosane, 2-methyltricosane, tetracosane, hexacosane, octacosane and triacontane were identified in the hexane extracts in many samples. Tricosane, tetracosane and hexacosane presented significant correlations with the leaves mined. Only tricosane presented a negative correlation with the number of small mines (r = −0.28), total number of mines (r = −0.27) and % of leaves mined (r = −0.22). However, tetracosane and hexacosane presented significant positive correlations (r = 0.25 and 0.24, respectively) with the % of leaves mined.     

Forage legumes in grass pastures in tropical Brazil and likely impacts on greenhouse gas emissions: A review

Beef cattle producers seldom use fertilizers for their pastures in tropical regions of Brazil. Slowly, this is changing but because of the need for repeated applications, N fertilizer is rarely applied. The introduction of a forage legume is an appropriate solution for this problem, but until recently adoption has been very low as the legumes generally have not persisted in the sward. We report research on how grazing management can affect the persistence of stoloniferous legumes in pastures of Brachiaria spp. and the problems of establishing and maintaining crown-forming legumes such as Stylosanthes spp. With suitable management, milk or bovine carcass yields can be equal or greater from mixed than from grass-alone pastures fertilized with 120 or 150 kg Nha^-1 year⁻¹. In addition to savings in CO₂ emissions from fossil fuels for the production and distribution of N fertilizers, nitrous oxide emissions from cattle excreta and legume residues are lower than those from N-fertilized brachiaria grass monocultures. Other studies indicate that enteric methane emissions from cattle may be mitigated when forage legumes are included in their diet. The use of forage legumes in mixed pastures for tropical regions is emerging as a feasible strategy to keep meat and milk production at acceptable levels with reduced greenhouse gas emission rates.     

A new standard area diagram set for assessment of severity of soybean rust improves accuracy of estimates and optimizes resource use

Soybean rust (SBR), caused by Phakopsora pachyrhizi, is the most important yield-damaging fungal disease of soybean due to severe reduction in healthy leaf area and acceleration of leaf fall. In experimental research, SBR severity is estimated visually aided/trained by a standard area diagram (SAD) developed and validated during the mid-2000s (Old SAD). In this study, we propose a new SAD set for SBR with six true-colour diagrams following linear increments (c. 15% increments) amended with four additional diagrams at low (<10%) severities, totalling 10 diagrams (0.2%, 1%, 3%, 5%, 10%, 25%, 40%, 55%, 70%, and 84%). For evaluation, 37 raters were split into two groups. Each assessed severity in a 50-image sample (0.25%–84%), first unaided and then using either the Old SAD or the New SAD. Accuracy, precision, and reliability of estimates improved significantly relative to unaided estimates only when aided by the New SAD (accuracy >0.95). Low precision (<0.78) and a trend of underestimation with an increase in severity were the main issues with the Old SAD, which did not differ from unaided estimates. Simulation to evaluate the impact of the errors by different methods on hypothesis tests, showed that the new SAD was more powerful for detecting the smallest difference in mean control (e.g., 70% vs. 65% disease reduction) than the Old SAD; the latter required a 2-fold increase in sample size to achieve the same power. There is a need to improve some SADs, taking advantage of new knowledge and technology to increase accuracy of the estimates, and to optimize both resource use efficiency and management decisions.     

Extrinsic and intrinsic factors influence daily activity of a Mediterranean cyprinid

Factors shaping individual behavior remain poorly understood for European cyprinids. We examined the effects of extrinsic (temperature and year) and intrinsic factors (body size and shoal size) on the daily activity of chub Squalius torgalensis, a critically endangered cyprinid found in the Torgal stream, Portugal. We quantified chub behaviors while snorkeling, using instantaneous sampling of focal individuals, in spring 2009 and 2010. We used Principal Component Analysis to describe individual behavior and assessed competing models relating individual behavior to explanatory variables using Akaike's Information Criterion. Year had a strong influence on chub behavior, with individuals spending more time drift foraging and orienting in 2009, whereas in 2010 they spent more time benthic foraging and cruising. Shoal size did not influence behaviors in 2009, but in 2010 individuals in small shoals foraged benthically and searched with greater frequency than those in large shoals. Individuals increased cruising and decreased searching as they grew in length, but the opposite trend was observed as temperature increased. Our results indicate that both extrinsic and intrinsic factors influence daily activity of chub, with individual behaviors varying between years, and depending upon shoal size, body size and temperature. This suggests that chub display high levels of individual behavioral flexibility, which may be important for fish inhabiting harsh and highly variable Mediterranean streams. Conservation efforts for this species will benefit by integrating behavioral information into management strategies.     

Positive intraoperative cultures and canine total hip replacement: risk factors,periprosthetic infection,and surgical success

The results of closing intraoperative cultures from 27 canine total hip replacements (THR) were reviewed. The relationship between these culture results and presurgical and surgical factors, and the short- and long-term success of THR were assessed. Eleven out of 27 cases had a positive culture, but none of these 11 cases were diagnosed with periprosthetic infection at follow-up examination. The duration of the clinical signs of hip disease prior to THR was significantly greater for those cases with a positive culture (P=0.034). The incidence of positive cultures was not related to surgical success.