Live animal assessments of rump fat and muscle score in Angus cows and steers using 3-dimensional imaging.

The objective of this study was to develop a proof of concept for using off-the-shelf Red Green Blue-Depth (RGB-D) Microsoft Kinect cameras to objectively assess P8 rump fat (P8 fat; mm) and muscle score (MS) traits in Angus cows and steers. Data from low and high muscled cattle (156 cows and 79 steers) were collected at multiple locations and time points. The following steps were required for the 3-dimensional (3D) image data and subsequent machine learning techniques to learn the traits: 1) reduce the high dimensionality of the point cloud data by extracting features from the input signals to produce a compact and representative feature vector, 2) perform global optimization of the signatures using machine learning algorithms and a parallel genetic algorithm, and 3) train a sensor model using regression-supervised learning techniques on the ultrasound P8 fat and the classified learning techniques for the assessed MS for each animal in the data set. The correlation of estimating hip height (cm) between visually measured and assessed 3D data from RGB-D cameras on cows and steers was 0.75 and 0.90, respectively. The supervised machine learning and global optimization approach correctly classified MS (mean [SD]) 80 (4.7) and 83% [6.6%] for cows and steers, respectively. Kappa tests of MS were 0.74 and 0.79 in cows and steers, respectively, indicating substantial agreement between visual assessment and the learning approaches of RGB-D camera images. A stratified 10-fold cross-validation for P8 fat did not find any differences in the mean bias ( = 0.62 and = 0.42 for cows and steers, respectively). The root mean square error of P8 fat was 1.54 and 1.00 mm for cows and steers, respectively. Additional data is required to strengthen the capacity of machine learning to estimate measured P8 fat and assessed MS. Data sets for and continental cattle are also required to broaden the use of 3D cameras to assess cattle. The results demonstrate the importance of capturing curvature as a form of representing body shape. A data-driven model from shape to trait has established a proof of concept using optimized machine learning techniques to assess P8 fat and MS in Angus cows and steers.

Impulsive choices in mice lacking imprinted Nesp55.

Genomic imprinting is the process whereby germline epigenetic events lead to parent-of-origin specific monallelic expression of a number of key mammalian genes. The imprinted gene Nesp is expressed from the maternal allele only and encodes for Nesp55 protein. In the brain, Nesp55 is found predominately in discrete areas of the hypothalamus and midbrain. Previously, we have shown that loss of Nesp55 gives rise to alterations in novelty-related behaviour. Here, we extend these findings and demonstrate, using the Nespm/+ mouse model, that loss of Nesp55 leads to impulsive choices as measured by a delayed-reinforcement task, whereby Nespm/+ mice were less willing to wait for a delayed, larger reward, preferring instead to choose an immediate, smaller reward. These effects were highly specific as performance in another component of impulsive behaviour, the ability to stop a response once started as assayed in the stop-signal reaction time task, was equivalent to controls. We also showed changes in the serotonin system, a key neurotransmitter pathway mediating impulsive behaviour. First, we demonstrated that Nesp55 is co-localized with serotonin and then went on to show that in midbrain regions there were reductions in mRNA expression of the serotonin-specific genes Tph2 and Slc6a4, but not the dopamine-specific gene Th in Nespm/+ mice; suggesting an altered serotonergic system could contribute, in part, to the changes in impulsive behaviour. These data provide a novel mode of action for genomic imprinting in the brain and may have implications for pathological conditions characterized by maladaptive response control.

Lower Concentration of n-3 in the Red Blood Cells and Plasma of Lambs when their Dams were Fed a Diet High Compared with Low in n-6 Fatty Acids at Joining.

Feeding ewes a diet high in n-6 in late gestation can affect fatty acid concentrations in the newborn lamb. The effect of feeding ewes a high n-6 diet prior to conception and in early gestation on lamb n-6 and n-3 status has not previously been examined. The aim of the current study was to determine whether the concentration of n-6 was higher and n-3 was lower in lamb red blood cells (RBC) and plasma when Merino dams were fed a diet high in n-6 either pre-conception only or both pre-conception and in early gestation. Dams were fed a diet low (silage) or high (oats/CSM) in n-6 for either 6 weeks pre-mating only or 6 weeks pre-mating and 17 days post-mating. The fatty acid status of lamb RBC and plasma was determined following birth and compared with dam fatty acids around parturition. The concentration of lamb RBC and plasma n-3 was lower (p < 0.05) when dams received the high n-6 compared with low-n-6 diet around mating, independent of the length of time of feeding. The concentration of n-3 in lamb plasma was also higher when lambs were assessed as being likely rather than unlikely to have suckled prior to blood collection. Lamb RBC and plasma n-3 fatty acids were lower when dams were fed the high compared with the low n-6 diet for only a short time around mating. Transfer of fatty acids via the placenta and milk may account for the differences.

The Red Queen theory of recombination hotspots.

Recombination hotspots are small chromosomal regions, where meiotic crossover events happen with high frequency. Recombination is initiated by a double-strand break (DSB) that requires the intervention of the molecular repair mechanism. The DSB repair mechanism may result in the exchange of homologous chromosomes (crossover) and the conversion of the allelic sequence that breaks into the one that does not break (biased gene conversion). Biased gene conversion results in a transmission advantage for the allele that does not break, thus preventing recombination and rendering recombination hotspots transient. How is it possible that recombination hotspots persist over evolutionary time (maintaining the average chromosomal crossover rate) when they are self-destructive? This fundamental question is known as the recombination hotspot paradox and has attracted much attention in recent years. Yet, that attention has not translated into a fully satisfactory answer. No existing model adequately explains all aspects of the recombination hotspot paradox. Here, we formulate an intragenomic conflict model resulting in Red Queen dynamics that fully accounts for all empirical observations regarding the molecular mechanisms of recombination hotspots, the nonrandom targeting of the recombination machinery to hotspots and the evolutionary dynamics of hotspot turnover.

Short-term grazing of lucerne and chicory increases ovulation rate in synchronised Merino ewes.

This study evaluated the ability of short-term grazing of live=green pasture to increase ovulation rate during late summer when annual pasture is generally dead and of low quality. Ovulation rates, measured by the number of corpora lutea, were compared between 4 nutritional treatments: senesced phalaris (Phalaris aquatica), phalaris plus 500g lupin grain per day, lucerne (Medicago sativa) or chicory (Chicorum intybus) pastures. The study used 100 Merino ewes per treatment, divided between 2 replicates. The experiment was repeated in 3 years; February 2006, and January 2007 and 2008. Oestrus was synchronised and the ewes grazed the pastures for 9 days prior to ovulation at times corresponding to days 8-17 of the cycle in 2006, and days 6-14 in 2007 and 2008. The proportion of ewes producing multiple ovulations was higher (P<0.05) in the lucerne and chicory (0.36, 0.38) than the phalaris (0.27), and intermediate in the lupin (0.33) treatment. Regression analysis showed that the proportion of ewes with multiple ovulations increased with the quantity of live herbage (P<0.04). Responses were achieved even at low levels of live herbage with 90% of the maximum proportion of multiples occurring at 350kg DM/ha. It is concluded that providing short-term grazing of live chicory or lucerne to ewes can increase ovulation rates relative to ewes grazing senesced phalaris and to levels similar to those achieved by lupin grain supplementation.

Expected coalescence times and segregating sites in a model of glacial cycles.

The climatic fluctuations of the Quaternary have influenced the distribution of numerous plant and animal species. Several species suffer population reduction and fragmentation, becoming restricted to refugia during glacial periods and expanding again during interglacials. The reduction in population size may reduce the effective population size, mean coalescence time and genetic variation, whereas an increased subdivision may have the opposite effect. To investigate these two opposing forces, we proposed a model in which a panmictic and a structured phase alternate, corresponding to interglacial and glacial periods. From this model, we derived an expression for the expected coalescence time and number of segregating sites for a pair of genes. We observed that increasing the number of demes or the duration of the structured phases causes an increase in coalescence time and expected levels of genetic variation. We compared numerical results with the ones expected for a panmictic population of constant size, and showed that the mean number of segregating sites can be greater in our model even when population size is much smaller in the structured phases. This points to the importance of population structure in the history of species subject to climatic fluctuations, and helps explain the long gene genealogies observed in several organisms.

Inheritance of proportionate dwarfism in Angus cattle.

OBJECTIVE: To determine the mode of inheritance of congenital proportionate dwarfism in Angus and Angus crossbred cattle, initially detected in two commercial beef herds in northern New South Wales. DESIGN: Matings of normal carrier sires to unrelated cows of diverse breeds, and of one carrier sire to his unaffected daughters. An unrelated Piedmontese bull was also mated to unaffected daughters of the carrier sires. PROCEDURE: Two carrier Angus bulls and nine unaffected daughters, all of whom were completely indistinguishable from normal animals, were purchased for controlled breeding studies under known nutritional and disease conditions. Affected and carrier individuals were examined for the presence of obvious chromosomal abnormalities. RESULTS: Angus dwarfism has been successfully reproduced under controlled experimental conditions over successive years using unrelated dams and is undoubtedly heritable. The high frequency of occurrence of affected individuals (23/61 = 0.38 +/- .06) among the progeny of matings of the Angus sires to unrelated females of diverse breeding is not compatible with recessive inheritance, because of the negligible frequency of proportionate dwarfism in the breeds of the dams. Both paternal and maternal transmission of the defect was demonstrated, so that imprinting in the strict sense of a gene that is only expressed when received from the male parent appears not to be involved. Tested individuals showed no evidence of gross chromosomal abnormality. Dominant autosomal inheritance with incomplete penetrance was indicated by the lack of expression of the defective gene in the two Angus sires and in three unaffected daughters who produced dwarf calves from matings to the Piedmontese bull. CONCLUSIONS: The mode of inheritance is that of a single autosomal dominant gene with a penetrance coefficient of 0.75 +/- 0.12, estimated from the observed incidence of 23/61 affected offspring of the two carrier Angus bulls mated to unrelated dams. Simple genetic models involving either (i) an unstable mutant which changes at high frequency to the expressed dominant dwarfing allele during gametogenesis, or (ii) a dominant allele with penetrance determined by an unlinked modifying locus, are shown to be compatible with the experimental data. Both models indicate that penetrance of the dwarfing gene may possibly be higher in matings involving carrier daughters of the two Angus bulls.

Genomic imprinting of two antagonistic loci.

We present a model that considers the coevolution of genomic imprinting at a growth factor locus and an antagonistic growth suppressor locus. With respect to the two loci considered independently, our model makes the familiar predictions that an imprinted growth factor locus will only be expressed from the paternally derived allele and an imprinted growth suppressor locus only from the maternally derived allele. In addition, our coevolutionary model allows us to make predictions regarding the sequence of evolutionary events necessary for generating such a system. We conclude that imprinting at the growth factor locus preceded the evolution of growth suppressor function at the second locus, which in turn preceded imprinting at that locus. We then discuss the consistency of these predictions with currently available comparative data on the insulin-like growth factor 2 insulin-like growth factor 2 receptor system of mammals.

Genomic imprinting, sibling solidairity and the logic of collective action.

Genomic imprinting has been proposed to evolve when a gene's expression has fitness consequences for individuals with different coefficients of matrilineal and patrilineal relatedness, especially in the context of competition between offspring for maternal resources. Previous models have focused on pre-emptive hierarchies, where conflict arises with respect to resource allocation between present and future offspring. Here we present a model in which imprinting arises from scramble competition within litters. The model predicts paternal-specific expression of a gene that increases an offspring's fractional share of resources but reduces the size of the resource pool, and maternal-specific expression of a gene with opposite effects. These predictions parallel the observation in economic models that individuals tend to underprovide public goods, and that the magnitude of this shortfall increases with the number of individuals in the group. Maternally derived alleles are more willing than their paternally derived counterparts to contribute to public goods because they have a smaller effective group size.

Synchronization of estrus and fertility in zebu beef heifers treated with three estrus synchronization protocols.

The effects on estrus and fertility of 3 estrus synchronization protocols were studied in Brahman beef heifers. In Treatment 1 (PGF protocol; n=234), heifers received 7.5 mg, i.m. prostianol on Day 0 and were inseminated after observed estrus until Day 5. Treatment 2 (10-d NOR protocol; n = 220) consisted of norgestomet (NOR; 3 mg, s.c. implant and 3 mg, i.m.) and estradiol valerate (5 mg, i.m.) treatment on Day -10, NOR implant removal and 400 IU, i.m. PMSG on Day 0, and AI after observed estrus through to Day 5. Treatment 3 (14-d NOR+PGF protocol; n = 168) constituted a NOR implant (3 mg, sc) on Day -14, NOR implant removal on Day 0, PGF on Day 16, and AI after observed estrus through to Day 21. All heifers were examined for return to estrus at the next cycle and inseminated after observed estrus. The heifers were then exposed to bulls for at least 21 d. During the period of estrus observation (5 d) after treatment, those heifers treated with the PGF protocol had a lower (P<0.01) rate of estrual response (58%) than heifers treated with the 10-d NOR (87%) or 14-d NOR+PGF (88%) protocol. Heifers treated with the 10-d NOR protocol displayed estrus earlier and had a closer synchrony of estrus than heifers treated with either the PGF or the 14-d NOR+PGF protocol. Heifers treated with the 14-d NOR+PGF protocol had higher (P<0.05) conception and calving rates (51 and 46%) to AI at the induced estrus than heifers treated with the PGF (45 and 27%) or the 10-d NOR (38 and 33%) protocol. Calving rate to 2 rounds of AI was greater (P<0.05) for heifers treated with the 14-d NOR-PGF (50%) protocol than heifers treated with the 10-d NOR (38%) but not the PGF (43%) protocol. Breeding season calving rates were similar among the 3 protocols. The results show that the 14-d NOR+PGF estrus synchronization protocol induced a high incidence of estrus with comparatively high fertility in Brahman heifers.

Development and testing of a bacterial biosensor for toluene-based environmental contaminants.

A bacterial biosensor for benzene, toluene, and similar compounds has been constructed, characterized, and field tested on contaminated water and soil. The biosensor is based on a plasmid incorporating the transcriptional activator xylR from the TOL plasmid of Pseudomonas putida mt-2. The XylR protein binds a subset of toluene-like compounds and activates transcription at its promoter, Pu. A reporter plasmid was constructed by placing the luc gene for firefly luciferase under the control of XylR and Pu. When Escherichia coli cells were transformed with this plasmid vector, luminescence from the cells was induced in the presence of benzene, toluene, xylenes, and similar molecules. Accurate concentration dependencies of luminescence were obtained and exhibited K1/2 values ranging from 39.0 +/- 3.8 microM for 3-xylene to 2,690 +/- 160 microM for 3-methylbenzylalcohol (means +/- standard deviations). The luminescence response was specific for only toluene-like molecules that bind to and activate XylR. The biosensor cells were field tested on deep aquifer water, for which contaminant levels were known, and were able to accurately detect toluene derivative contamination in this water. The biosensor cells were also shown to detect BETX (benzene, toluene, and xylene) contamination in soil samples. These results demonstrate the capability of such a bacterial biosensor to accurately measure environmental contaminants and suggest a potential for its inexpensive application in field-ready assays.

Method of stimulating ovulation rate in Merino ewes may affect conception but not embryo survival.

Efficiency in breeding flocks can be improved by increasing twinning rate. While this can be achieved by several methods that stimulate ovulation rate, there is considerable variation in the number of extra lambs produced by alternative treatments. Variations in ovulation rate following stimulation treatments are well documented, but the subsequent processes of conception and embryo survival leading to extra lambs are not. Differences in lambs produced by four alternative stimulation treatments examined in the following experiments were not significantly affected by embryo survival. The stimulation treatments examined were: improved nutrition for several weeks pre-mating (N); lupins (L) as stubble or standing crop, or fed as grain; grazed tagasaste forage (T); Fecundin immunisation (F). Ovulation rates were measured using laparoscopy and viability of embryos monitored using ultrasound. Ovulation rates in treated groups were increased by up to 0.66 (L), 0.20 (T), 0.10 (N) and 0.36 (F) ova per ewe. Survival of twin ova in pregnant ewes ranged from 81 to 93% across treatments and flocks, but did not differ significantly between treatments within flocks. Proportions of ewes pregnant in the first cycle of mating were depressed by 8-11% in F and L treatments. Conception rates were higher (by 7-16%) in twin rather than single ovulating ewes, and, in one flock, higher (by 15%) following bilateral rather than unilateral twin-ovulations. All stimulation treatments increased numbers of lambs conceived, lupins being the most efficient. Differences between treatments in lambs conceived were dependent on ovulation and conception rates but not embryo survival. Rates of embryo survival that were similar between treatments, but differed between flocks, indicated failure due to maternal factors rather than the embryos themselves. The mechanism(s) responsible could not be determined in these experiments, but genetic differences between flocks are suggested.

Regulation of the kinetics of phosducin phosphorylation in retinal rods.

Phosducin (Pd) is a widely expressed phosphoprotein that regulates G-protein (G) signaling. Unphosphorylated Pd binds to Gbetagamma subunits and blocks their interaction with Galpha. This binding sequesters Gbetagamma and inhibits both receptor-mediated activation of Galpha and direct interactions between Gbetagamma and effector enzymes. When phosphorylated by cAMP-dependent protein kinase, Pd does not affect these functions of Gbetagamma. To further understand the role of Pd in regulating G-protein signaling in retinal rod photoreceptor cells, we have measured the abundance of Pd in rods and examined factors that control the rate of Pd phosphorylation. Pd is expressed at a copy number comparable to that for the rod G-protein, transducin (Gt). The ratio of rhodopsin (Rho) to Pd is 15. 5 +/- 3.5 to 1. The rate of Pd phosphorylation in rod outer segment preparations was dependent on [cAMP]. K1/2 for cAMP was 0.56 +/- 0. 09 microM, and the maximal rate of phosphorylation was approximately 500 pmol PO4 incorporated/min/nmol Rho. In the presence of Gtbetagamma this rate was decreased approximately 50-fold. From these data, one can estimate a t1/2 of approximately 3 min for the rephosphorylation of Pd in rods during the recovery period after a light response. This relatively slow rephosphorylation of the Pd.Gtbetagamma complex may provide a period of molecular memory in which sensitivity to further light stimuli is reduced as a result of sequestration of Gtbetagamma by Pd.

Regulation of phosducin phosphorylation in retinal rods by Ca2+/calmodulin-dependent adenylyl cyclase.

The phosphoprotein phosducin (Pd) regulates many guanine nucleotide binding protein (G protein)-linked signaling pathways. In visual signal transduction, unphosphorylated Pd blocks the interaction of light-activated rhodopsin with its G protein (Gt) by binding to the beta gamma subunits of Gt and preventing their association with the Gt alpha subunit. When Pd is phosphorylated by cAMP-dependent protein kinase, it no longer inhibits Gt subunit interactions. Thus, factors that determine the phosphorylation state of Pd in rod outer segments are important in controlling the number of Gts available for activation by rhodopsin. The cyclic nucleotide dependencies of the rate of Pd phosphorylation by endogenous cAMP-dependent protein kinase suggest that cAMP, and not cGMP, controls Pd phosphorylation. The synthesis of cAMP by adenylyl cyclase in rod outer segment preparations was found to be dependent on Ca2+ and calmodulin. The Ca2+ dependence was within the physiological range of Ca2+ concentrations in rods (K1/2 = 230 +/- 9 nM) and was highly cooperative (n app = 3.6 +/- 0.5). Through its effect on adenylyl cyclase and cAMP-dependent protein kinase, physiologically high Ca2+ (1100 nM) was found to increase the rate of Pd phosphorylation 3-fold compared to the rate of phosphorylation at physiologically low Ca2+ (8 nM). No evidence for Pd phosphorylation by other (Ca2+)-dependent kinases was found. These results suggest that Ca2+ can regulate the light response at the level of Gt activation through its effect on the phosphorylation state of Pd.

Immunological manipulation of ovulation rate for twinning in cattle.

Unlike in sheep, in which immunization against androstenedione causes mild and reasonably controlled increased ovulation rate, in similar studies cattle showed highly variable responses ranging from increased ovulation rate and fertility through to anovulation/anoestrous or superovulation. As a consequence, interest in manipulation of ovulation rate through this approach has declined and is now focused on immunological manipulation of endogenous inhibin following successful studies in sheep. Studies have concentrated on developing a prototype inhibin-based vaccine to be used for twinning in the Australian beef industry. The prototype vaccine (with recombinant ovine inhibin-alpha.3 fusion protein and Montanide:Marcol adjuvant) has proved to be very potent and control of the degree of ovarian stimulation has not been possible. The proportion of cattle with increased ovulation rate after inhibin immunization is affected by timing of booster vaccination within the ovarian cycle, time after vaccination, vaccine formulation and possibly genotype. Physiological studies show that cattle responding to the inhibin vaccine have increased plasma inhibin binding of native bovine inhibin, high plasma FSH concentrations, greater numbers of large (> or = 8 mm) follicles and fewer small (< 5 mm) follicles during the preovulatory wave of follicular development compared with control or non-responding animals. Significant correlations among the response parameters (i.e. inhibin binding, plasma FSH concentrations, number of large follicles and ovulation rate) have been demonstrated. The results indicate that greater understanding of the various processes of folliculogenesis will be necessary to achieve a controlled increase in ovulation rate in cattle.

The phosphorylation state of phosducin determines its ability to block transducin subunit interactions and inhibit transducin binding to activated rhodopsin.

Heterotrimeric GTP-binding proteins (G-proteins) serve many different signal transduction pathways. Phosducin, a 28-kDa phosphoprotein, is expressed in a variety of mammalian cell types and blocks activation of several classes of G-proteins. Phosphorylation of phosducin by cyclic AMP-dependent protein kinase prevents phosducin-mediated inhibition of G-protein GTPase activity (Bauer, P. H., Müller, S., Puzicha, M., Pippig, S., Obermaier, B., Helmreich, E. J. M., and Lohse, M. J. (1992) Nature 358, 73-76). In retinal rods, phosducin inhibits transducin (Gt) activation by binding its beta gamma subunits. While rod phosducin is phosphorylated in the dark and dephosphorylated after illumination (Lee, R.-H., Brown, B. M., and Lolley, R. N. (1984) Biochemistry 23, 1972-1977), the significance of these reactions is still unclear. The data presented here permit a more precise characterization of phosducin function and the consequences of its phosphorylation. Dephosphophosducin blocked binding of the Gt alpha 1 subunit to activated rhodopsin in the presence of stoichiometric amounts of Gt beta gamma, whereas phosphophosducin did not. Surprisingly, the binding affinity of phosphophosducin for Gt beta gamma was not significantly reduced compared with the binding affinity of dephosphophosducin. However, the association of phosducin with Gt beta gamma in a size exclusion column matrix was dependent on the phosphorylation state of phosducin. Moreover, the ability of phosducin to compete with Gt alpha for binding to Gt beta gamma was also dependent on the phosphorylation state of phosducin. No interaction was found between phosducin and Gt alpha. These data indicate that phosducin decreases rod responsiveness by binding to the beta gamma subunits of Gt and preventing their interaction with Gt alpha, thereby inhibiting Gt alpha activation by the activated receptor. Moreover, phosphorylation of phosducin blocks its ability to compete with Gt alpha for binding to Gt beta gamma.

Holoprosencephaly in Border Leicester lambs.

Holoprosencephaly in Border Leicester lambs is described. This defect is characterised by lack of the longitudinal cerebral fissure, fusion of the cerebral hemispheres and a single lateral ventricle. Facial defects are also associated with this condition. Results of a breeding experiment suggest that it is inherited in an autosomal recessive manner. Results from a survey indicate that the condition is widespread in Border Leicester sheep.

Immunization against polyandroalbumin leads to increases in lambing and tailing percentages.

A series of 10 farm trials was conducted in which the lambing performance of ewes immunised against polyandroalbumin was compared with that of untreated ewes in the same flock. The trials show that polyandroalbumin treatment is a reliable method of increasing lambing and tailing percentages in New Zealand flocks. An average of 39 extra lambs born per 100 ewes tupped was achieved on farms where ewes were given two treatments about four weeks apart and rams were introduced 18-26 days after the second dose. On farms where rams were introduced less than 12 days after this booster injection an average of 19 extra lambs born per 100 ewes tupped resulted. On farms where rams were introduced at 18-26 days post booster injection an average of 35 extra lambs were tailed for every 100 ewes tupped. The response for immunization increased in direct relation to the liveweight of the ewes at tupping.