Risk ratio as parameter for the genetic characterization of complex binary traits in cattle. A simulation study under various genetic models using halfsib families

The risk ratio (λ_R) is defined as ‘the recurrence risk for a relative of an affected individual divided by the prevalence in the general population’ and is considered as the most important parameter when designing mapping experiments for diseases in humans. In this paper, the risk ratio was introduced as a parameter to genetically characterize complex binary traits such as mastitis in cattle. Simulations were applied to evaluate the properties of λ_R under different genetic models (monogenic, digenic, polygenic and mixed models) and in dependency of their parameters for a design consisting of unbalanced halfsib families typically found in dairy cattle. Population prevalences of the simulated data ranged from 5 to 40% and λ_R was estimated on a phenotypic level. In the discrete loci models complexity of the traits was introduced through different levels of penetrance and the proportions of phenocopies within each genetic background. The risk ratio and the power to reject the null hypothesis of independent halfsibs (λ_R=1) were influenced by the prevalence in all genetic models chosen. Absolute values for λ_R were higher for lower prevalences, for example, λ_R=2.77 and 1.62 for a pure monogenic recessive model with 5 and 20% prevalence, respectively, whereas the power decreases in the case of lower prevalences. For all the prevalences investigated, higher risk ratios were found for discrete loci models compared with the polygenic models, with higher values for the monogenic relative to the digenic models in general. For the mixed models, λ_R was intermediate between the polygenic and discrete loci models. Genes with dominant relative to recessive inheritance for susceptibility caused higher risk ratios in monogenic and mixed models, for example, λ_R=5.16 and 2.77 for a pure monogenic model with 5% prevalence. In the discrete loci models, λ_R decreased with lower penetrance and a higher proportion of phenocopies. Risk ratios increased with the heritability in the polygenic and in addition with the effect of the major gene in mixed models. Consistent patterns of risk ratios were observed under the analysed genetic models and parameters, which indicate that the risk ratio is a parameter well suited to genetically characterize binary traits in unbalanced halfsib families.     

Inheritance of the resistant reaction of the lettuce cultivar `Grand Rapids' to the southern root-knot nematode Meloidogyne incognita (Kofoid & White) Chitwood

Resistance to the southern root-knot nematode Meloidogyne incognita Chitwood would be an important attribute of lettuce Lactuca sativa L. cultivars adapted to both protected and field cultivation in tropical regions. `Grand Rapids' and a few other cultivars are reported to be resistant to this nematode. In this paper, we studied the inheritance of the resistant reaction of `Grand Rapids' (P₂) in a cross with a standard nematode-susceptible cultivar Regma-71 (P₁). F₁(Regina-71 × Grand Rapids) and F₂ seed were obtained, and inoculated along with the parental cultivars with different races of M. incognita to evaluate nematode resistance. Broad sense heritability estimates for the number of galls and of egg masses per root system, gall size and gall index were generally in the order of 0.5 or higher. Class distributions of these variables over generations P₁, P₂, F₁ and F₂ were in agreement with simulated theoretical distributions based on monogenic inheritance models. F₃ families were obtained from randomly sampled F₂ plants and tested for reaction to the nematode. The frequency ratio of homozygous resistant, segregating and homozygous susceptible F₃ families did not differ from the 1:2:1 ratio expected from monogenic inheritance. M. incognita resistance appears to be under control of a single gene locus. The Grand Rapids allele (for which the symbol Me is proposed) is responsible for the resistant reaction, and shows high (though incomplete) penetrance, variable expressivity and predominantly additive gene action. This revised version was published online in July 2006 with corrections to the Cover Date.     

Association between quantitative bacterial culture of bronchoalveolar lavage fluid and antibiotic requirement in dogs with lower respiratory tract signs

BackgroundHistorically, positive bacterial cultures from the lower respiratory tract (LRT) have been considered clinically relevant when quantitative bacterial cultures of bronchoalveolar lavage fluid (BALF) were >1700 colony forming units (cfu)/mL. However, this threshold might not accurately predict a requirement for antibiotics.ObjectivesTo study whether quantitative BALF bacterial culture results were predictive of antibiotic requirement in dogs with LRT signs.AnimalsThirty‐three client‐owned dogs.MethodsCross‐sectional study. Dogs with positive quantitative bacterial culture of BALF were included. Dogs were divided into 2 groups, depending on whether they had a LRT infection requiring antibiotics (LRTI‐RA) or LRT disease not requiring antibiotics (LRTD‐NRA), based on thoracic imaging features, presence of intracellular bacteria on BALF cytology, and response to treatment. Predictive effect of cfu/mL and BALF total nucleated cell count (TNCC) on antibiotic requirement, adjusting for ongoing or prior antibiotic therapy and age, were studied using logistic regression.ResultsTwenty‐two and 11 dogs were included in the LRTI‐RA and LRTD‐NRA groups, respectively. The cfu/mL was not significantly predictive of antibiotic requirement, independent of ongoing or prior antibiotic treatment and age (LRTI‐RA: median, 10 000 cfu/mL; range, 10‐3 × 10⁸; LRTD‐NRA: median, 10  000 cfu/mL; range, 250‐1.3 × 10⁹; P = .27). The TNCC was not significantly predictive of antibiotic requirement when only dogs with bronchial disease were considered (LRTI‐RA: median, 470 cells/μL; range, 240‐2260; LRTD‐NRA: median, 455 cells/μL; range, 80‐4990; P = .57).Conclusion and Clinical ImportanceThe cfu/mL is an inappropriate measure for determining whether antibiotics are of benefit in dogs with LRT signs.     

Agronomic performance and water-use efficiency of F3 soybean populations grown under contrasting base saturation

Most of the Brazilian soils, especially in Cerrado biome, have high acidity and toxic aluminium, making the application of limestone an indispensable technique to obtain high yield in soybean crop. The hypothesis of this study was that contrasting base saturation provides changes in water-use efficiency (WUE) and agronomic traits of soybean populations. Thus, we evaluated the WUE and agronomic performance of F₃ soybean populations under different base saturation levels. Each experiment was conducted in a randomized complete blocks design with three replicates and 10 F₃ populations (P1, P2, P3, P4, P5, P6, P7, P8, P9 and P10) for two crop seasons. Segregating populations were obtained by bulk method. In the first experiment, F₃ populations were evaluated without correction of base saturation (V = 30%), while in the second experiment, limestone was applied three months before sowing to increase base saturation to 60%. The traits evaluated were as follows: calcium, magnesium and potassium contents, water-use efficiency (WUE), plant height, first pod height, main stem diameter and grain yield. Our findings indicate that WUE and agronomic performance of F₃ soybean populations depends on the saturation condition. We identified the P4 and P9 populations as the most promising for use in breeding programmes aiming at higher tolerance to abiotic stress caused by low base saturation in soil.     

Heterozygote detection for maple syrup urine disease in cattle

SUMMARY The clinical, pathological and biochemical manifestations of maple syrup urine disease (MSUD) are similar in Poll Hereford and Poll Shorthorn X Poll Hereford calves. No significant differences were observed in branched-chain amino acid concentrations in plasma, or of branched-chain keto acid dehydrogenase activity in fibroblasts, between Poll Herefords homozygous normal and heterozygous for the mutation responsible for MSUD. Haemopoietic chimerism resulted in incorrect diagnosis of the MSUD genotype in 30% of non-identical twins when blood DNA was analysed using allele-specific amplification. Hair roots are shown to be a suitable source of target DNA for genotyping Poll Hereford cattle for the MSUD mutation. Twelve of 203 (5.8%) aged Poll Hereford bulls, sampled at saleyards during the last 4 months of 1993, were found to be heterozygous for the mutation. In contrast, the mutant sequence was detected in only 1 of 150 (0.7%) 2- and 3-year-old Poll Hereford bulls offered for sale at 2 stud sales held during 1993, suggesting that the prevalence of the disease may decline over the next few years.     

Progressive ethmoidal haematoma in horses

Progressive ethmoidal haematoma was diagnosed in 12 Thoroughbreds, 1 part- Arab and 1 stock horse. Ages ranged from 3 to 18 years and both males and females were affected. Diagnosis was based on history, clinical signs, endoscopic and radiographic findings, and was confirmed histologically in 10 cases. Eleven (78%) of the lesions were unilateral and 3 (22%) were bilateral. Two horses were euthanased on diagnosis, 4 were treated conservatively. Of the latter, 3 were euthanased 6 to 24 months after diagnosis, due to progression of the lesions, while 1 case resolved completely within 13 months. Eight horses were treated by surgical excision of the lesion. Three died in the post-operative period, 3 were euthanased within 48 months after recurrence of the condition, and 2 had no recurrence within 60 and 72 months, respectively.     

Populations of the cattle tick (Boophilus microplus) on purebred Nellore,Ibage and Nellore × European crossbreds in the Brazilian savanna

Studies on purebred Nellore cattle and their crosses with Fleckvieh, Chianina, Charolais and the Ibagé breed (5/8 Aberdeen Angus, 3/8 Nellore) during 39 months in the field gave mean daily counts for engorging female ticks of 3.3, 25.2, 22.2, 21.0 and 59.7 per animal respectively. Annual fluctuations were similar in all groups; with the exception of the purebred Nellore mean counts are at levels considered dangerous for the stability of enzootic tick fever.