Use of robust multivariate linear mixed models for estimation of genetic parameters for carcass traits in beef cattle

Assumptions of normality of residuals for carcass evaluation may make inferences vulnerable to the presence of outliers, but heavy‐tail densities are viable alternatives to normal distributions and provide robustness against unusual or outlying observations when used to model the densities of residual effects. We compare estimates of genetic parameters by fitting multivariate Normal (MN) or heavy‐tail distributions (multivariate Student's t and multivariate Slash, MSt and MS) for residuals in data of hot carcass weight (HCW), longissimus muscle area (REA) and 12th to 13th rib fat (FAT) traits in beef cattle using 2475 records from 2007 to 2008 from a large commercial operation in Nebraska. Model comparisons using deviance information criteria (DIC) favoured MSt over MS and MN models, respectively. The posterior means (and 95% posterior probability intervals, PPI) of v for the MSt and MS models were 5.89 ± 0.90 (4.35, 7.86) and 2.04 ± 0.18 (1.70, 2.41), respectively. Smaller values of posterior densities of v for MSt and MS models confirm that the assumption of normally distributed residuals is not adequate for the analysis of the data set. Posterior mean (PM) and posterior median (PD) estimates of direct genetic variances were variable with MSt having the highest mean value followed by MS and MN, respectively. Posterior inferences on genetic variance were, however, comparable among the models for FAT. Posterior inference on additive heritabilities for HCW, REA and FAT using MN, MSt and MS models indicated similar and moderate heritability comparable with the literature. Posterior means of genetic correlations for carcass traits were variable but positive except for between REA and FAT, which showed an antagonistic relationship. We have demonstrated that genetic evaluation and selection strategies will be sensitive to the assumed model for residuals.     

Identification, purification and classification of multiple forms of vitellogenin from white perch (Morone americana)

Three forms of female-specific plasma protein (FSPP 1-3) were purified from blood plasma of estrogen-treated white perch (Morone americana) by combining several types of ion-exchange chromatography including a novel, fast flow, strong anion exchanger (POROS media), followed by gel filtration. Native FSPP 1, FSPP 2 and FSPP 3 had molecular masses of 532 kDa, 532 kDa and 426 kDa, respectively. The apparent mass of purified FSPP 1 and FSPP 2 after SDS-PAGE under reducing conditions was ∼ 180 kDa, while FSPP 3 appeared as a major ∼ 148 kDa band. All of the FSPPs resembled one another with respect to amino acid composition but each appeared to be immunologically distinct. In double immunodiffusion using anti-total FSPP (antiserum raised against vitellogenic female plasma pre-absorbed by male plasma), each FSPP formed one precipitin line that crossed those produced by both others. A rabbit antiserum was raised against each FSPP and absorbed with combinations of the other two FSPPs to ensure specificity. Using the antisera, each FSPP was detected by immuno-electrophoresis in plasma from vitellogenic females or estrogen-treated male or immature fish, but no FSPP was detected in normal male plasma. Endoprotease (Asp-N) digests of the FSPPs were subjected to HPLC separation for N-terminal sequencing and mapping of isolated peptides to published vitellogenin (Vg) sequences. Results of these analyses indicate that white perch FSPP 1, FSPP 2, and FSPP 3 can be classified into three Vg groups identified in previous studies: VgA, VgB, and VgC-like protein, respectively. This is the first report, of which we are aware, on isolation of more than two Vg proteins from any species of vertebrate except the chicken. This revised version was published online in July 2006 with corrections to the Cover Date.     

Yield and Performance and Soil Properties of Organically Fertilized Fodder Crops

The aim of this study was to evaluate the effects of experimental amendments on yields of Trifolium subterraneum L., Pisum arvense L., and Lolium multiflorum Lam., and on soil characteristics. A two-year research was carried out comparing anaerobic digestate (AD) and olive-pomace compost (OPC) with mineral fertilizer (Min), commercial organic-mineral fertilizer (Org-min), and unfertilized control (Cont). Anaerobic digestate and OPC were firstly analyzed for their chemical characteristics. The most important parameters were recorded and soil properties were investigated. Anaerobic digestate showed the highest dry weight for ryegrass, the best yield in pea, and good level of dry matter in clover. Good responses were achieved by OPC. Anaerobic digestate increased total soil organic carbon by 14.4, 8.1 and 7.6% than Min, Org-min and Cont, respectively. Olive-pomace compost increased the same parameter by 16.3, 10.0, and 9.5%. The findings indicated the possibility to substitute mineral fertilizers with organic ones without decreasing yields and support soil fertility.     

Molecular cross-sectional survey of gastric habronemosis in horses

Gastric habronemosis of horses caused by Habronema microstoma and Habronema muscae (Nematoda, Spirurida) is characterized by catarrhal gastritis, diarrhoea, progressive weight loss and ulcers. Despite its importance in the equine industry and in clinical practice, knowledge of the epidemiology of this infection is still incomplete as diagnosis in live animals is challenging. A two-step semi-nested PCR assay using ribosomal DNA (rDNA) markers has recently been used for the molecular diagnosis in vivo of gastric habronemosis based on the detection of H. microstoma and/or H. muscae DNA in equine faeces. To evaluate the field efficacy of this assay, a molecular epidemiological survey was carried out on equid gastric habronemosis in central Italy. One hundred and fifty-three individual faecal samples were collected from live native horses and subjected to both coprological examination and the two-step semi-nested PCR. When flotation procedures were performed no horse tested positive for Habronema spp. larvated eggs while 96 animals (61.2%) were positive for other endoparasites (i.e. strongyles, oxyurids, ascarids). Two-step semi-nested PCR detected 86 samples (53.6%) that were positive for H. microstoma and/or H. muscae DNA. H. microstoma prevalences showed statistically significant differences; the highest prevalence was observed in horses infected by other gastrointestinal parasites and concomitantly by H. muscae. No statistical differences were found between the prevalence of Habronema spp. infection and sex, age, breeding management, and antiparasitic treatments. This field survey provided further information on habronemosis and its epidemiology.     

An integrated method for high-resolution definition of new diameter-based fine root sub-classes of <Emphasis Type="Italic">Fagus sylvatica</Emphasis> L.

Key message

Compared to the traditional approach, applying micrometric image analysis to fine root samples of Fagus sylvatica with subsequent data treatment through principal component and cluster analysis yielded specific diameter sizes for fine root sub-classes having better resolution of the corresponding branching orders, and a more coherent relationship with the values of annual production and turnover rate.

Context

Fine root traits are poorly understood, impeding an accurate representation of terrestrial biogeochemical models. Traditionally used, arbitrary diameter thresholds lead to a misestimation of fine root traits such as branching order, environmental relationship, annual production, and turnover rate.

Aims

Here, we present, as modification of the traditional method, an integrated approach to segregate, at high-resolution, fine root populations of Fagus sylvatica into new diameter sub-classes that better correspond with the traits mentioned above.

Methods

Samples, collected with a sequential soil coring method, were subjected to a micrometric image analysis, and resultant data were treated with principal component and cluster analysis.

Results

Results showed that fine roots were distributed into diameter-size sub-classes (0–0.3 mm, 0.3–1 mm, and 1–2 mm) different from those determined by traditional methods (0–0.5 mm, 0.5–1 mm, and 1–2 mm). New sub-classes provided a better resolution of the corresponding branching-orders, and the values of annual production and turnover rate were more coherent with diameter class and soil depth. Moreover, new sub-classes provided a more precise match with soil temperature than traditional methods.

Conclusion

Our method may help to unveil fine root dynamics and development, reduce data analysis time, and make the diameter-based classification more precise and trustworthy even in the case of non-intact samples.

     

Spittlebugs as vectors of <Emphasis Type="Italic">Xylella fastidiosa</Emphasis> in olive orchards in Italy

The recent introduction of Xylella fastidiosa in Europe and its involvement in the Olive Quick Decline Syndrome (OQDS) in Apulia (Salento, Lecce district, South Italy) led us to investigate the biology and transmission ability of the meadow spittlebug, Philaenus spumarius, which was recently demonstrated to transmit X. fastidiosa to periwinkle plants. Four xylem-sap-feeding insect species were found within and bordering olive orchards across Salento during a survey carried out from October 2013 to December 2014: P. spumarius was the most abundant species on non-olive vegetation in olive orchards as well as on olive foliage and was the only species that consistently tested positive for the presence of X. fastidiosa using real-time PCR. P. spumarius, whose nymphs develop within spittle on weeds during the spring, are likely to move from weeds beneath olive trees to olive canopy during the dry period (May to October 2014). The first X. fastidiosa-infective P. spumarius were collected in May from olive canopy: all the individuals previously collected on weeds tested negative for the bacterium. Experiments demonstrated that P. spumarius transmitted X. fastidiosa from infected to uninfected olive plants. Moreover, P. spumarius acquired X. fastidiosa from several host plant species in the field, with the highest acquisition rate from olive, polygala and acacia. Scanning electron microscopy (SEM) revealed bacterial cells resembling X. fastidiosa in the foreguts of adult P. spumarius. The data presented here are essential to plan an effective IPM strategy and limit further spread of the fastidious bacterium.     

Predatory ability of the ant <Emphasis Type="Italic">Crematogaster scutellaris</Emphasis> on the brown marmorated stink bug <Emphasis Type="Italic">Halyomorpha halys</Emphasis>

The pest Halyomorpha halys is a recent example of severe worldwide biological invasion. In Italy, after the first detection in 2012, it has rapidly spread and economic damage has already been reported in commercial fruit orchards, eliciting enormous concern for Italian agricultural production. As a long-term solution, biological control investigations are focusing on the potential of natural antagonists, such as generalist predators, in the invaded areas. Due to their biology, ecology and behavior, ants represent one such generalist predator potentially suitable for inflicting mortality on H. halys. In this research, Crematogaster scutellaris was used as a study model. Specifically, the effect of ant predatory behavior on the survival of all H. halys pre-imaginal stages was tested in the laboratory environment. The results suggest that C. scutellaris has a significant predatory impact on all H. halys pre-imaginal stages except for eggs. The reduction of survivorship is between 95 and 85% for instars 1 and 2 and between 38 and 52% for instars 3, 4 and 5. The different levels of predation success suggest that these ants could act as useful generalist predators when associated with other antagonists and/or other control strategies. Although further field investigations are needed, the potential of ants as biocontrol agents of invasive species in agroecosystems deserves consideration in integrated pest management programs.     

Periodic emission from the gamma-ray binary 1FGL J1018.6-5856

Gamma-ray binaries are stellar systems containing a neutron star or black hole, with gamma-ray emission produced by an interaction between the components. These systems are rare, even though binary evolution models predict dozens in our Galaxy. A search for gamma-ray binaries with the Fermi Large Area Telescope (LAT) shows that 1FGL J1018.6-5856 exhibits intensity and spectral modulation with a 16.6-day period. We identified a variable x-ray counterpart, which shows a sharp maximum coinciding with maximum gamma-ray emission, as well as an O6V((f)) star optical counterpart and a radio counterpart that is also apparently modulated on the orbital period. 1FGL J1018.6-5856 is thus a gamma-ray binary, and its detection suggests the presence of other fainter binaries in the Galaxy.     

Effects of tumour necrosis factor‐alpha and interleukin‐1 beta on in vitro development of bovine secondary follicles

The objective of this study was to determine the effects of TNF‐α and IL‐1β on development and survival of bovine secondary follicle culture in vitro for 18 days. Secondary follicles (~0.2 mm) were isolated from ovarian cortex and individually cultured at 38.5°C, with 5% CO₂ in air, for 18 days, in TCM‐199⁺ alone (cultured control) or supplemented with 10 ng/ml IL‐1β, 10 ng/ml TNF‐α or both TNF‐α and IL‐1β. The effects of these treatments on growth, follicular survival, antrum formation, viability, ultrastructure and mRNA levels for GDF‐9, c‐MOS, H1foo and Cyclin B1 were evaluated. The results showed that addition of TNF‐α to culture medium increased follicular diameter and rate of antrum formation, whereas that of IL‐1β and a mixture of IL‐1β and TNF‐α did not do so. Ultrastructural analysis showed that, among the tested cytokine treatments, follicles cultured in the presence of TNF‐α had the best‐preserved oocytes and granulosa cells. The presence of TNF‐α, IL‐1β or both did not influence the expression of mRNAs analysed. In conclusion, in contrast to IL‐1β, TNF‐α promotes growth of and antrum formation in in vitro cultured bovine secondary follicles, while their ultrastructure and viability were maintained.