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PubMed1989

Spontaneous acute lymphoblastic leukemia in Sprague-Dawley rats. II. Clinicopathologic observations.

Spontaneous acute lymphoblastic leukemia (ALL-SD) was diagnosed in a breeding colony of isohistogenic Sprague-Dawley rats. Animals younger than one year of age died approximately 1 to 2 weeks after the onset of the disease and represented approximately 17% of the total rat population. Clinically, the affected rats showed mainly spinal cord paralysis and enlargement of mandibular lymph nodes. Gross lesions were characterized by hepatosplenomegaly and enlargement of visceral lymph nodes. Histological examination of affected tissues and cells revealed generalized infiltration of blast cells accompanied by focal hemorrhages and necrosis. According to the FAB classification, it was concluded that ALL-SD corresponds to ALL type L2 in man. Therefore this leukemia of young rats may be an important model system for the study of human leukemia.

Animals↗
PubMed1998

[Classification of Anopheles claviger (Diptera, Culicidae) in north-eastern Italy].

The paper reports the results of a taxonomical study and some reservations on the ecology and bionomics of the Anopheles claviger complex of north-eastern Italy. In 1996 and 1997, 18 samples of larvae and pupae were collected in 15 localities of Friuli-Venezia Giulia and eastern Veneto regions, from sea level up to 200 m a.s.l.; 870 larvae and 114 pupae were examined and identified by morphological criteria. All samples and all individuals were assigned to the species An. claviger s. str. Abnormal setae 1-II were detected in some larvae; significant statistical differences were recorded among some samples for the larval characters setae 1-II, 2-IV and 2-V. The breeding sites were mainly originated by springs, which are abundant in the region. The species showed two generations per year, with overwintering as a larva.

Animals↗
PubMed2002

Risk factors for Campylobacter infection in Norwegian cats and dogs.

Rectal swabs from healthy cats and dogs, and from dogs and cats with clinical diarrhoea were collected approximately every third month from May 2000 to June 2001 from six small-animal practices throughout Norway. A questionnaire was filled in for each animal. Of the 301 healthy cats sampled, 54 (18%) were positive for Campylobacter, compared to 5 out of 31 (16%) cats with diarrhoea. Campylobacter jejuni was isolated from 11 (3%), C. upsaliensis from 42 (13%) and C. coli from 2 (0.6%) of the cats sampled. Isolates from four cats (1%) could not be specified. Of the 529 healthy dogs, 124 (23%) were positive for Campylobacter, compared to 18 of 66 (27%) dogs with diarrhoea. C. jejuni was isolated from 20 (3%) and C. upsaliensis from 117 (20%) of the dogs sampled. Isolates from five dogs (0.8%) could not be specified. Eighteen out of the 20 investigated C. upsaliensis samples were resistant to streptomycin. The clinically healthy animals were included in the analysis to identify factors associated with Campylobacter prevalence. The cat model had low classification ability. The dog-data model indicated increased odds of infection with Campylobacter for dogs </=1 year, and in dogs sampled during the spring. No difference was observed between the prevalence of Campylobacter infections in cats and dogs with diarrhoea and healthy animals.

Animals↗
PubMed1998

Voltage-gated calcium channels in Pleurodeles oocytes: classification, modulation and functional roles.

In unfertilised Pleurodeles oocytes, two distinct types of high voltage-activated Ca2+ channels are expressed: a slowly inactivating Ca2+ channel and a transient one. The first is dihydropyridine-sensitive and is referred to as the L-type Ca2+ channel. The transient channel is highly sensitive to Ni2+. Phosphorylation through protein kinases G and A facilitates and inhibits the L-type Ca2+ channel respectively. The transient type channel is insensitive to stimulation by protein kinases (A and G). The functional expression of L-type and transient Ca2+ channels is modulated by the two maturation seasons. The transient Ca2+ currents are only observed during the resting season, while the L-type current is observed either alone during the breeding season or in association with the transient current during the resting season. Moreover, the current density of the L-type Ca2+ channel is much greater during the breeding season than the resting season. Thus, the wide distribution of L-type Ca2+ channels in Pleurodeles oocytes during the two seasons suggests that the roles of these channels may be important in the regulation of the maturation process.

3-Pyridinecarboxylic acid, 1,4-dihydro-2,6-dimethy↗
PubMed2002

Genetic parameters and responses of linear type, yield traits, and somatic cell scores to divergent selection for predicted transmitting ability for type in Holsteins.

The objective was to examine the direct and correlated responses of linear type, yield traits, and somatic cell scores (SCS) to divergent selection for predicted transmitting ability for type (PTAT) in Holsteins, while maintaining selection for yield traits across lines. For four generations, one-half of the University of Nebraska research Holstein herd was bred to Holstein sires with PTAT > 1.50 and the other half to sires with PTAT < 1.25, with nearly equal predicted transmitting abilities for yield traits for both groups. Estimates of genetic and residual correlations and heritabilities were obtained from REML estimates of (co)variance components. Model for type traits included fixed effect of date cows were classified, effects of age in days at freshening, and stage of lactation at classification. Year-season when cows freshened was fixed effect in model for yield and SCS. Animal genetic and residual effects were random. Final score, milk, fat, and protein yields, and SCS had heritability estimates of 0.38, 0.13,0.22, 0.09, and 0.38, respectively. Heritability estimates for type traits ranged from 0.04 to 0.52. Estimates of genetic correlations of final score with SCS and milk, fat, and protein yields were -0.64, 0.01, -0.18, and 0.06, respectively. Estimates of genetic correlations among linear type traits ranged from -0.77 to 1.00. Means of estimated breeding values for final score, stature, strength, body depth, fore udder attachment, rear udder height and width, udder cleft, udder depth, and front teat placement were significantly different between lines in the third generation. Milk, fat, and protein yields were not significantly different between lines in third generation, whereas SCS was significantly different. Estimate of genetic correlation between final score and SCS suggest that selection on PTAT would result in a change for SCS. In this study, divergent selection on PTAT of sires had a significant effect on udder and body traits, but little or no effect on feet and leg traits.

Animals↗
PubMed2003

Rendement Napole gene effects and a comparison of glycolytic potential and DNA genotyping for classification of Rendement Napole status in Hampshire-sired pigs.

The purpose of the present study was to compare Rendement Napole (RN) classification from glycolytic potential (GP) and DNA techniques, and to study the effect of the RN gene on performance, carcass, muscle quality, and sensory traits. Progeny (N = 118) from the mating of 15 purebred Hampshire sires to York x Landrace females were classified for RN gene status using the GP of the loin and polymerase chain reaction-restriction fragment length polymorphism sequence methodology. Females mated in the study (N = 32) were considered normal (rn+/rn+) based on a loin GP measurement taken on samples collected by live press biopsy. Progeny were randomly selected for harvest within a litter for each sire. Observed mean, standard deviation, and range of progeny loin GP values were 132.2, 30.7, and 70.0 to 193.0 micromol/g, respectively. The GP data were not normally distributed. Peak numbers of observations occurred between 120 and 129 micromol/g and 160 to 169 micromol/g. Pigs with a loin GP of > 150 micromol/g were classified RN-/rn+ based on the observed valley between the peak values, resulting in 37 pigs classified as RN-/rn+ and 81 pigs classified as rn+/rn+. Using DNA procedures, 81 RN-/rn+ and 37 rn+/rn+ pigs were observed. All classification errors occurred when GP values were < or = 150 micromol/g, with 30 of 44 and 14 of 44 classification errors occurring when loin GP values were between 121 and 150 micromol/g and 70 and 120 micromol/g, respectively. Gene effects, based on DNA results, were evaluated using mixed-model procedures with fixed effects of DNA genotype and gender, and random sire and litter effects. No RN genotype differences for growth rate,10th-rib backfat, or loin muscle area were observed. Loins from the RN-/rn+ pigs had significantly (P < 0.05) lower ultimate pH (0.16 units), greater GP (50.3 micromol/g), greater drip loss (0.93%), paler objective color (L*, 1.66 units), paler visual color (0.31 units), and lower firmness (0.61 units) scores. Additionally, loins from RN-/rn+ pigs had significantly (P < 0.05) lower marbling scores (0.68 units) and intramuscular fat content (0.25%) and greater cooking loss (2.51%). Cooked moisture, juiciness score, and mechanical and sensory tenderness measures did not differ between genotypes. The GP-based classification did not correctly classify RN genotype in the present study, emphasizing the importance of the direct DNA analysis for estimation of gene frequency and effects. The DNA-based genotype results clearly indicate the RN- allele has negative effects on muscle quality measures.

Alleles↗
PubMed1997

RAPD analysis of genetic variation in the Australian fan flower, Scaevola.

The use of randomly amplified polymorphic DNA (RAPD) to study genetic variability in Scaevola (family Goodeniaceae), a native Australian species used in ornamental horticulture, is demonstrated. Plants of the genus Scaevola are commonly known as "fan flowers," due to the fan-like shape of the flowers. Nineteen accessions of Scaevola (12 cultivated and 7 wild) were studied using 20 random decamer arbitrary primers. Eight primers gave a distinct reproducible amplification profile of 90 scorable polymorphic fragments, enabling the differentiation of the Scaevola accessions. RAPD amplification of genomic DNA revealed a high genetic variability among the different species of Scaevola studied. Molecular markers were used to calculate the similarity coefficients, which were then used for determining genetic distances between each of the accessions. Based on genetic distances, a dendrogram was constructed. Though the dendrogram is in general agreement with the taxonomy, it also highlights discrepancies in the classification. The RAPD data showed that Scaevola aemula (series Pogogynae) is closer to Scaevola glandulifera of series Globuliferae than to the rest of members of series Pogogynae. In addition, the RAPD banding pattern of white flower S. aemula, one of the commercial cultivars, was identical to that of Scaevola albida, indicating their genetic similarity. Our study showed that there is a large genetic distance between commercial cultivars of Scaevola (Purple Fanfare, Pink Perfection, and Mauve Cluster), indicating considerable genetic variation among them. The use of RAPDs in intra- and inter-specific breeding of Scaevola is also explored.

DNA, Plant↗
PubMed1998

[Treatment of mitral valve insufficiency in dogs with the ACE inhibitor enalapril. A clinical progress study].

The efficacy and safety of the angiotensin converting enzyme inhibitor enalapril in dogs with naturally acquired class III or class IV heart failure was evaluated in this study. Eighteen small-breed dogs with insufficiency of their mitral valves, but without other diseases were included in this study over a period of six months. When necessary due to massive pulmonary edema or high serum potassium concentrations, furosemide was added to the therapy with enalapril. No other drugs, including digitalis, were used in this study. The treatment was followed by anamnesis, clinical examinations, electrocardiography, radiography, echocardiography and laboratory diagnosis. Examinations were performed before treatment and after one week, after six weeks and after six months of treatment. 72% of the dogs improved in NYHA classification until the end of the study (p < 0.05). The incidence of seizures due to syncopes or severe respiratory distress decreased during this study (p < 0.01). For 28% of the dogs this treatment was not successful. In the electrocardiographic, radiographic and laboratory examinations statistically significant changes could not be recorded. The decrease in heart rate did not reach statistical significance. The echocardiographic investigation evaluated a significant decrease in fractional shortening and in the diastolic diameter of the left ventricular wall (p < 0.05 respectively p < 0.01), but no significant change in the diastolic or systolic diameter of the interventricular septum. The average oral dose of enalapril was 0.38 mg/kg body weight b.i.d., the average dose of furosemide was 0.37 mg/kg body weight b.i.d. in the first week of the study and was raised to 0.74 mg/kg body weight b.i.d. until the end of the study. Side effects like diarrhea, vomiting or reduced appetite did not increase during the course of the study. However one dog was excluded from the study because of repeated vomiting after six weeks of treatment. This study shows the beneficial clinical and hemodynamic effects and the security of the therapy with enalapril for dogs with heart failure due to mitral insufficiency.

Angiotensin-Converting Enzyme Inhibitors↗
PubMed2002

Congenital hypotrichosis with anodontia in cattle: a genetic, clinical and histological analysis.

Hypotrichosis, an almost complete lack of teeth and the complete absence of eccrine nasolabial glands, was observed among the progeny of a normal cow of the black and white German Holstein breed. Similar congenital anomalies are known in humans and mice as X-linked anhidrotic ectodermal dysplasia (ED1), leading to the impaired formation of hair, teeth and sweat glands. The pedigree of the four affected male calves in the investigated cattle family indicated that the described phenotype is inherited as a monogenic X-linked recessive trait. We used a diagnostic reverse transcription-polymerase chain reaction (RT-PCR) assay to study the heredity of a previously reported causative large genomic deletion in the bovine ED1 gene. This test allowed the unequivocal classification of disease carriers that were phenotypically normal. As the clinical, pathological and genetic findings in human ED1 show striking similarities to the described phenotype in cattle, this bovine disorder may serve as an animal model for human ED1.

Animals↗
PubMed1999

[Postnatal skeletal and body weight in beagles].

Growth of beagles is described on the basis of body weight and 14 bone measures. Eighteen male and 19 female dogs were investigated at 14 different ages from birth to the 13th month of life. Characteristics of the growth curves were evaluated using the modified Janoschek growth curve. For the classification into dwarfish, low, normal, big and gigantic growth, the growth curves are presented with percentiles. The arithmetic means and standard deviations for both sexes are presented in tables. Additionally, the degrees of maturity at birth (relative proportion of final weight or bone measure), the point of inflection for the growth curve, the times to grow to 50 and 95% of the final measures, and the asymptotic measures are also presented in tables. Sex differences in growth for the body weight and bone measures are discussed. Growth differences between large and small dog breeds are considered. The conclusion is drawn that the feeding of dogs has to be adapted to the growth course.

Aging↗
PubMedDate not supplied

Spontaneous diabetes mellitus in the New Zealand white rabbit: history, classification, and genetic analysis.

A colony of NZW rabbits was developed in which 18 of 126 members exhibited overt symptoms of diabetes mellitus. On the basis of total body weight measurements, obesity does not appear to play a primary role in the development or manifestation of the syndrome. The relatively high frequency of occurrence of spontaneous diabetes mellitus in this colony seems to suggest a unique genetic predisposition of these rabbits, yet analysis of glucose tolerance of colony animals indicates no clear genetic mode of transmittance of the trait. Rather, data suggest a possible interaction of as yet undefined genetic and/or environmental influences as being responsible for the disease state. Regressions of k-value on age indicate an early predetermination of glucose intolerance in the rabbits. In addition to a planned program of breeding, investigations of dietary intake and possible relationships of the diabetic condition to bacterial or viral infections appear to be initial areas indicative of further study.

Animals↗
PubMed1997

Using objective measures of muscle color to predict beef longissimus tenderness.

This research was conducted to determine whether objective measures of muscle color could be used to classify beef carcasses with respect to tenderness. Bos taurus (161 steers) and Bos indicus cross (101 steers, 55 heifers) cattle were fed a high-concentrate diet and slaughtered in seven groups when ultrasound scans indicated approximately 1.1 cm fat thickness. Following low-voltage electrical stimulation and a 24-h chill, all routine carcass data, USDA grade data, and colorimeter readings (luminance, L*; redness, a*; yellowness, b*) of the exposed longissimus muscle were obtained. The longissimus lumborum was sampled for ultimate pH (pHU) measurement, shear force at 1, 4, 7, 14, 21, and 35 d postmortem, and taste panel assessment at 14 d postmortem. The pHU was correlated (P < .05) with L*, a*, and b* values (r = -.48, -.52, and -.60, respectively). Correlations of color measurements with tenderness measurements were higher than correlations of marbling score with tenderness measurements. Of the three color measurements, b* value showed the highest correlation with shear force value (r = -.38) and taste panel tenderness rating (r = .37). A classification system (lowest 25%, middle 50%, highest 25%) based on marbling score resulted in classes of beef that were 9, 3, and 4% tough, respectively. A classification system (darkest/bluest 25%, middle 50%, lightest/yellowest 25%) based on colorimeter readings resulted in classes of beef that were 15, 3, and 0% tough, respectively. Bos taurus cattle had lower shear force values, higher panel tenderness ratings, higher L* values, and lower a* values (P < .05) than Bos indicus cross cattle.

Animals↗
PubMed1996

Transboundary Conservation: An Ecoregional Approach to Protect Neotropical Migratory Birds in South America

/ Future conservation efforts will need to transcend geopolitical boundaries in efforts to protect entire landscapes and ecosystems. Neotropical migratory birds are as a group a useful conservation tool for linking diverse landscapes and people due to their dependence on multiple habitats, sensitivity to habitat changes, and universal public appeal. The conservation of neotropical migrants can therefore function as a powerful hemispheric umbrella for ecosystem protection. Efforts to protect neotropical migratory birds on their nonbreeding grounds have traditionally been focused on Mexico, Central America, and the Caribbean. To assess the importance of South America to neotropical migrants, an ecoregional classification system was used to determine species distributions in the Andean/Southern Cone Region (Bolivia, Colombia, Ecuador, Paraguay, Peru, and Venezuela). The occurrence of migrants in protected areas that are part of The Nature Conservancy's Parks in Peril program was also assessed. Of the 406 neotropical migrant species, nearly one third (132) occur as regular nonbreeding residents in the region and for almost half of these species (53), South America is their main nonbreeding ground. All Parks in Peril sites were found to harbor neotropical migrants. Forty-eight species (36%) have declining long-term North American Breeding Bird Survey population trends and/or high Partners in Flight concern scores and thus are of significant conservation concern. Most importantly, 29 species (22%) of conservation concern use South America as their primary nonbreeding ground, indicating a need for focused conservation action. The nature of the ecoregional approach used in this endeavor makes future prioritization of ecoregions and conservation strategies for neotropical migrants across national boundaries possible. The ability to link diverse landscapes using a common element such as migratory birds allows for unique transboundary partnerships and opportunities for habitat conservation, which support the goal of the Conservancy's new Migratory Bird Initiative.KEY WORDS: Neotropical migratory birds; Transboundary conservation; Ecoregions; Protected areas; South America

Journal Article↗
PubMed2005

Taxonomic relationships among Arachis sect. Arachis species as revealed by AFLP markers.

Cultivated peanut, Arachis hypogaea L., is a tetraploid (2n = 4x = 40) species thought to be of allopolyploid origin. Its closest relatives are the diploid (2n = 2x = 20) annual and perennial species included with it in Arachis sect. Arachis. Species in section Arachis represent an important source of novel alleles for improvement of cultivated peanut. A better understanding of the level of speciation and taxonomic relationships between taxa within section Arachis is a prerequisite to the effective use of this secondary gene pool in peanut breeding programs. The AFLP technique was used to determine intra- and interspecific relationships among and within 108 accessions of 26 species of this section. A total of 1328 fragments were generated with 8 primer combinations. From those, 239 bands ranging in size from 65 to 760 bp were scored as binary data. Genetic distances among accessions ranged from 0 to 0.50. Average distances among diploid species (0.30) were much higher than that detected between tetraploid species (0.05). Cluster analysis using different methods and principal component analysis were performed. The resulting grouping of accessions and species supports previous taxonomic classifications and genome designations. Based on genetic distances and cluster analysis, A-genome accessions KG 30029 (Arachis helodes) and KSSc 36009 (Arachis simpsonii) and B-genome accession KGBSPSc 30076 (A. ipaensis) were the most closely related to both Arachis hypogaea and Arachis monticola. This finding suggests their involvement in the evolution of the tetraploid peanut species.

Arachis↗
PubMed2005

Classification of wheat low-molecular-weight glutenin subunit genes and its chromosome assignment by developing LMW-GS group-specific primers.

On the basis of sequence analysis, 69 known low-molecular-weight glutenin subunit (LMW-GS) genes were experimentally classified into nine groups by the deduced amino acid sequence of the highly conserved N-terminal domain. To clarify the chromosomal locations of these groups, 11 specific primer sets were designed to carry out polymerase chain reactions (PCR) with the genomic DNA of group 1 ditelosomic lines of Chinese Spring, among which nine primer sets proved to be LMW-GS group-specific. Each group of LMW-GS genes was specifically assigned on a single chromosome arm and hence to a specific locus. Therefore, these results provided the possibility to predict the chromosome location of a new LMW-GS gene based on its deduced N-terminal sequence. The validity of the classification was confirmed by the amplifications in 27 diploid wheat and Aegilops accessions. The length polymorphisms of LMW-GS genes of groups 1 and 2, and groups 3 and 4.1 were detected in diploid A-genome and S-genome accessions, respectively. The diploid wheat and Aegilops species could be used as valuable resources of novel allele variations of LMW-GS gene in the improvement of wheat quality. The nine LMW-GS group-specific primer sets could be utilized to select specific allele variations of LMW-GS genes in the marker-assisted breeding.

Breeding↗
PubMed1998

Clinical and anatomical features of lymphosarcoma in 118 cats.

OBJECTIVE: To determine patients' characteristics and anatomical distribution of lesions in cats with lymphosarcoma. DESIGN: Prospective multi-institutional study of naturally occurring feline lymphosarcoma. METHODS: Veterinarians in Sydney were provided with free diagnostic laboratory services for suspect cases of feline lymphosarcoma. Lymphosarcoma was diagnosed based on physical findings, radiographic and/or ultrasonographic images and results of cytological or histopathological examination. When owners were not interested in pursuing an antemortem diagnosis, suspect cases were collected for necropsy. Patients' characteristics and physical findings were recorded. A modified scheme for anatomical classification of lesions was devised including a 'mixed' category for cases which involved two or more anatomical forms. RESULTS: One hundred and eighteen cases were accrued over an 18 month period. The median age was 120 months and range 5 to 212 months. Age distribution was bimodal, with a small peak for cats less than 24 months, and a normal distribution centred on 97 to 120 months. Eighty cats were domestic crossbreds, 22 were Siamese or Oriental cats (including crosses), 6 were Burmese, 5 were purebred longhairs and the remaining 5 were one of a number of purebred shorthaired breeds. In comparison to 1017 consecutive cases admitted to our hospital for conditions other than lymphosarcoma, Siamese/Oriental cats were over-represented amongst lymphosarcoma cases (P = 0.0006). Male cats were also over-represented, accounting for 72 of 118 cases (P = 0.05). Abdominal lymphosarcoma was the most common anatomical form (43 cats), followed by mixed (39), nodal (20), mediastinal (9) and atypical (involving non-lymphoid organs, 7) forms. When analysed for specific organ involvement, 29 (25%) had mediastinal involvement, 71 (60%) had abdominal involvement including 60 (51%) with involvement of the intestinal tract and/or mesenteric lymph nodes and 36 (31%) with bilateral renal involvement, and 47 (40%) had peripheral lymph node involvement. No case of primary lymphoid leukaemia was identified. A noticeable subgroup of cats younger than 24 months had involvement of the anterior mediastinum with or without concurrent enlargement of cervical or axillary lymph nodes; Siamese/Oriental cats were over-represented in this subgroup. Among cases with nodal involvement, lymph nodes of the head and neck were frequently involved, mandibular nodes most commonly, followed by superficial cervical nodes. In seven cases a solitary node was affected. CONCLUSIONS: Compared with similar surveys overseas, our cats were older and male cats were over-represented. There was a notable subgroup of young cats with mediastinal involvement. Siamese/Oriental cats were over-represented in this subgroup as well as in the larger population of cats with lymphosarcoma. Compared with overseas surveys, renal involvement, mixed cases and atypical cases (including nasal lymphosarcoma) were more common. A new subcategory of nodal lymphosarcoma, with involvement restricted to node(s) of head and neck, was identified.

Age Distribution↗
PubMed2001

Microvascular development and growth of uterine tissue during the estrous cycle in mares.

OBJECTIVE: To document uterine growth and microvascular development in the endometrium of uteri with differing degrees of fibrosis as well as uterine growth throughout the estrous cycle of mares. ANIMALS: 30 mares. PROCEDURE: Uterine tissue was obtained during the breeding season from a slaughter facility. Stage of estrous cycle of the mares was assessed on the basis of ovarian structures and plasma progesterone concentrations. Endometrium was characterized by use of light microscopy, and blood vessel walls were marked by histochemical techniques. Microvascular development was evaluated by a computerized image analysis system. Growth of uterine tissue was based on cellular content of DNA and RNA, RNA:DNA, and protein:DNA. RESULTS: Significant differences in vascular density were not observed in the endometrium of uteri obtained from mares euthanatized during the follicular or luteal phase of the estrous cycle, regardless of whether endometrial classification of degree of fibrosis was considered. There was a 3-fold increase in amount of DNA and RNA of endometrial cells in the follicular phase when compared to myometrium. Hypertrophy of endometrial tissue during the luteal phase was reflected by a significant increase in cell protein content and protein:DNA. CONCLUSIONS AND CLINICAL RELEVANCE: Endometrial growth of vascular tissues during the estrous cycle may be coordinated with development of nonvascular tissue. Estrogen and progesterone may play a role in regulation of uterine growth and angiogenesis.

Animals↗
PubMed2026

Scaling linear-model breeding values to the liability scale: an application to pig binary traits.

In commercial pig production, many important traits are recorded as binary phenotypes. For such traits, threshold models offer an appropriate framework but are computationally intensive. Thus, linear models are widely used to obtain genomic estimated breeding values (GEBV); however, these are on the observed scale (phenotypic). This creates the need for a robust method to approximate GEBV from linear models to the liability scale. A recently proposed approximation showed good concordance for low-prevalence traits (<5%) but has not yet been tested for a wider range of prevalence values and for models with more than one random effect. We aimed to evaluate the performance of this approximation for pig binary traits with prevalences ranging from <5% to >86%, in both animal and maternal animal models. Data were available for five fitness traits (FT1-FT5), with up to 233k animals with phenotypes, of which 204k animals were genotyped with a 25k SNP array. Variance component estimates were obtained using threshold models. Classical animal models were used for FT1-FT3, and maternal animal models for FT4 and FT5. Variance components on the observed scale were then obtained by multiplying estimates from a threshold model by the square of the height of the standard normal density evaluated at the threshold. GEBV were predicted using single-step genomic best linear unbiased prediction under both linear and threshold models. The approximation tested involved scaling the GEBV using the height of the ordinate of the standard normal distribution evaluated at the threshold as a scaling factor. The agreement between GEBV from the scaled linear model and the threshold model on the probability scale was evaluated using Pearson and Spearman correlations, mean squared error (MSE), regression parameters, overlapping coefficient (OVL), distribution overlap, and classification accuracy (CACC). Correlations between linear and threshold GEBV ranged from 0.94 (low-prevalence traits) to 0.99 (high-prevalence traits) for the direct GEBV and were 0.99 for the maternal GEBV. MSE were close to zero. The OVL exceeded 0.83 for all traits. CACC ranged from 95.10% to 98.33% for the direct GEBV and from 92.54% to 97.42% for the maternal GEBV. Regardless of model and trait prevalence, this approximation yielded GEBV that are highly consistent with threshold model GEBV, providing a reliable, practical approach for large-scale pig genetic evaluations for binary traits using linear models.

Animals↗