Studies relating to Polyunsaturated Fatty Acid (PUFA) Supplementation and Fertility in Cattle

End of project reportReproductive inefficiency has a significant impact on the economic performance of both dairy and beef herds, particularly in seasonal calving systems. Nutrition plays a fundamental role in reproduction. Furthermore, there is emerging evidence that supplemental dietary polyunsaturated fatty acids (PUFA) may increase cow fertility independent of their role as energy substrates. A number of studies have reported enhanced reproductive performance in dairy cows following dietary supplementation with sources of n-3 PUFA. However the possible mechanisms involved have not been identified and there is some inconsistency in the published literature on this topic. The objective of the research reported was to conduct a holistic examination of the effects of dietary long-chain n-3 PUFA supplementation on metabolic and reproductive responses in cattle. Such information is essential for the appropriate formulation of diets to enhance cow reproductive performance and in particular embryo survival

High-fidelity Multidisciplinary Sensitivity Analysis and Design Optimization for Rotorcraft Applications

A multidisciplinary sensitivity analysis of rotorcraft simulations involving tightly coupled high-fidelity computational fluid dynamics and comprehensive analysis solvers is presented and evaluated. A sensitivity-enabled fluid dynamics solver and a nonlinear flexible multibody dynamics solver are coupled to predict aerodynamic loads and structural responses of helicopter rotor blades. A discretely consistent adjoint-based sensitivity analysis available in the fluid dynamics solver provides sensitivities arising from unsteady turbulent flows and unstructured dynamic overset meshes, while a complex-variable approach is used to compute structural sensitivities with respect to aerodynamic loads. The multidisciplinary sensitivity analysis is conducted through integrating the sensitivity components from each discipline of the coupled system. Accuracy of the coupled system is validated by conducting simulations for a benchmark rotorcraft model and comparing solutions with established analyses and experimental data. Sensitivities of lift computed by the multidisciplinary sensitivity analysis are verified by comparison with the sensitivities obtained by complex-variable simulations. Finally the multidisciplinary sensitivity analysis is applied to a constrained gradient-based design optimization for a HART-II rotorcraft configuration

Global gene expression in endometrium of high and low fertility heifers during the mid-luteal phase of the estrous cycle

peer-reviewedBackground In both beef and dairy cattle, the majority of early embryo loss occurs within the first 14 days following insemination. During this time-period, embryos are completely dependent on their maternal uterine environment for development, growth and ultimately survival, therefore an optimum uterine environment is critical to their survival. The objective of this study was to investigate whether differences in endometrial gene expression during the mid-luteal phase of the estrous cycle exist between crossbred beef heifers ranked as either high (HF) or low fertility (LF) (following four rounds of artificial insemination (AI)) using the Affymetrix® 23 K Bovine Gene Chip. Results Conception rates for each of the four rounds of AI were within a normal range: 70–73.3%. Microarray analysis of endometrial tissue collected on day 7 of the estrous cycle detected 419 differentially expressed genes (DEG) between HF (n = 6) and LF (n = 6) animals. The main gene pathways affected were, cellular growth and proliferation, angiogenesis, lipid metabolism, cellular and tissue morphology and development, inflammation and metabolic exchange. DEG included, FST, SLC45A2, MMP19, FADS1 and GALNT6. Conclusions This study highlights, some of the molecular mechanisms potentially controlling uterine endometrial function during the mid-luteal phase of the estrous cycle, which may contribute to uterine endometrial mediated impaired fertility in cattle. Differentially expressed genes are potential candidate genes for the identification of genetic variation influencing cow fertility, which may be incorporated into future breeding programmes.Teagasc Walsh Fellowship Programm

Protein Nutrition and Fertility in Cattle.

End of Project ReportThe objectives of the project were to determine the effects of dietary crude protein intake, on blood concentrations of ammonia and urea and on fertility, and on the possible biological mechanisms involved. Heifers were used in all experiments in order to avoid any confounding effects of lactation and, or, negative energy balance. The results are summarised as follows. • • • • 5 Blood urea and ammonia increased linearly with increases in dietary urea. Fermentable carbohydrate, in the form of molassed sugar beet pulp (MSBP), was more effective than barley in reducing blood urea concentration. Plasma ammonia concentrations were more variable but MSBP was again more effective than barley in reducing these. Embryo survival rate was not affected by either dietary crude protein (CP) or fermentable energy intake irrespective of whether animals were fed a silage diet supplemented with feed grade urea or were grazing pasture with a high crude protein content. Despite generating systemic urea concentrations of up to 25 mmol/L and systemic ammonia concentrations of up to 242 μmol/L no significant relationship between these parameters and embryo survival rate was established. Consistent with these results on embryo survival, elevated blood urea or ammonia had little effect on the biochemical composition of oviduct fluid, the environment of the early developing embryo. It can be concluded that elevations in systemic concentrations of ammonia or urea per se, particularly of the magnitude observed under normal feeding conditions, are unlikely to impair embryo survival in cattle as a consequence of disruptions to the oviductal environment

Patterns of CO2 and radiocarbon across high northern latitudes during International Polar Year 2008

High-resolution in situ CO2 measurements were conducted aboard the NASA DC-8 aircraft during the ARCTAS/POLARCAT field campaign, a component of the wider 2007-2008 International Polar Year activities. Data were recorded during large-scale surveys spanning the North American sub-Arctic to the North Pole from 0.04 to 12 km altitude in spring and summer of 2008. Influences on the observed CO2 concentrations were investigated using coincident CO, black carbon, CH3CN, HCN, O3, C2Cl4, and Δ14CO2 data, and the FLEXPART model. In spring, the CO2 spatial distribution from 55̊N to 90̊N was largely determined by the long-range transport of air masses laden with Asian anthropogenic pollution intermingled with Eurasian fire emissions evidenced by the greater variability in the mid-to-upper troposphere. At the receptor site, the enhancement ratios of CO2 to CO in pollution plumes ranged from 27 to 80 ppmv ppmv-1 with the highest anthropogenic content registered in plumes sampled poleward of 80̊N. In summer, the CO2 signal largely reflected emissions from lightning-ignited wildfires within the boreal forests of northern Saskatchewan juxtaposed with uptake by the terrestrial biosphere. Measurements within fresh fire plumes yielded CO2 to CO emission ratios of 4 to 16 ppmv ppmv-1 and a mean CO2 emission factor of 1698 ± 280 g kg-1 dry matter. From the 14C in CO2 content of 48 whole air samples, mean spring (46.6 ± 4.4%) and summer (51.5 ± 5%) D14CO2 values indicate a 5%seasonal difference. Although the northern midlatitudes were identified as the emissions source regions for the majority of the spring samples, depleted Δ14CO2 values were observed in <1% of the data set. Rather, ARCTAS Δ14CO2 observations (54%) revealed predominately a pattern of positive disequilibrium (1-7%) with respect to background regardless of season owing to both heterotrophic respiration and fire-induced combustion of biomass. Anomalously enriched Δ14CO2 values (101-262%) measured in emissions from Lake Athabasca and Eurasian fires speak to biomass burning as an increasingly important contributor to the mass excess in Δ14CO2 observations in a warming Arctic, representing an additional source of uncertainty in the quantification of fossil fuel CO2

Seasonal variation of the transport of black carbon aerosol from the Asian continent to the Arctic during the ARCTAS aircraft campaign

Extensive measurements of black carbon (BC) aerosol were conducted in and near the North American Arctic during the Arctic Research of the Composition of the Troposphere from Aircraft and Satellites (ARCTAS) aircraft campaign in April and June-July 2008. We identify the pathways and mechanisms of transport of BC to the Arctic from the Asian continent using these data. The concentration, transport efficiency, and measured altitude of BC over the North American Arctic were highly dependent on season and origin of air parcels, e.g., biomass burning (BB) in Russia (Russian BB) and anthropogenic (AN) in East Asia (Asian AN). Russian BB air was mainly measured in the middle troposphere and caused maximum BC concentrations at this altitude in spring. The median BC concentration and transport efficiency of the Russian BB air were 270 ng m -3 (at STP) and 80% in spring and 20 ng m-3 and 4% in summer, respectively. Asian AN air was measured most frequently in the upper troposphere, with median values of 20 ng m-3 and 13% in spring and 5 ng m-3 and 0.8% in summer. These distinct differences are explained by differences in the transport mechanisms and accumulated precipitation along trajectories (APT), which is a measure of wet removal processes during transport. The transport of Russian BB air to the Arctic was nearly isentropic with slow ascent (low APT), while Asian AN air underwent strong uplift associated with warm conveyor belts (high APT). The APT values in summer were much larger than those in spring due to the increase in humidity in summer. These results show that the impact of BC emitted from AN sources in East Asia on the Arctic was very limited in both spring and summer. The BB emissions in Russia in spring are demonstrated to be the most important sources of BC transported to the North American Arctic. Copyright 2011 by the American Geophysical Union

The Effect of Anchor Tenant Loss on Shopping Center Rents

This paper examines the effect that the loss of a shopping center anchor tenant has on the rental rates of the remaining tenants. Using data from smaller and moderately sized centers located in Florida and Georgia, two alternative regression procedures are employed and the results compared. Both estimates suggest similar and substantial effects to the rental rates. The rental rates of non-anchor tenants are estimated to decline approximately 25% in response to the loss of an anchor tenant.

Effects of negative energy balance on liver gene and protein expression during the early postpartum period and its impacts on dairy cow fertility

End of project reportNegative energy balance (NEB) is a severe metabolic affecting high yielding dairy cows early post partum with both concurrent and latent negative effects on cow fertility as well as on milk production and cow health. The seasonal nature of Irish dairy production necessitates high cow fertility and a compact spring calving pattern in order to maximise grass utilisation. Poor dairy cow reproductive performance currently costs the Irish cattle industry in excess of €400 million annually. High milk yields have been associated with lower reproductive efficiency, and it has been suggested that this effect is probably mediated through its effects on the energy balance of the cow during lactation. The modern high genetic merit dairy cow prioritises nutrient supply towards milk production in early lactation and this demand takes precedence over the provision of optimal conditions for reproduction. In this study we used the bovine Affymetrix 23,000 gene microarray, which contains the most comprehensive set of bovine genes to be assembled and provides a means of investigating the modifying influences of energy balance on liver gene expression. Cows in severe negative energy balance (SNEB) in early lactation showed altered hepatic gene expression in metabolic processes as well as a down regulation of the insulin-like growth factor (IGF) system, where insulin like growth factor-1 (IGF-1), growth hormone receptor variant 1A (GHR1A) and insulin-like growth factor binding protein-acid labile subunit (IGFBP-ALS) were down regulated compared to the cows in the moderate negative energy balance MNEB group, consistent with a five-fold reduction in systemic concentrations of IGF1 in the SNEB group.Cows in SNEB showed elevated expression of key genes involved in the inflammatory response such as interleukin-8 (IL-8). There was a down regulation of genes involved in cellular growth in SNEB cows and moreover a negative regulator of cellular proliferation (HGFIN) was up regulated in SNEB cows, which is likely to compromise adaptation and recovery from NEB. The puma method of analysis revealed that 417 genes were differentially regulated by EB (P<0.05), of these genes 190 were up-regulated while 227 were down-regulated, with 405 genes having known biological functions. From Ingenuity Pathway Analysis (IPA), lipid catabolism was found to be the process most affected by differences in EB status

CODEX: A Normalization and Copy Number Variation Detection Method for Whole Exome Sequencing

High-throughput sequencing of DNA coding regions has become a common way of assaying genomic variation in the study of human diseases. Copy number variation (CNV) is an important type of genomic variation, but detecting and characterizing CNV from exome sequencing is challenging due to the high level of biases and artifacts. We propose CODEX, a normalization and CNV calling procedure for whole exome sequencing data. The Poisson latent factor model in CODEX includes terms that specifically remove biases due to GC content, exon capture and amplification efficiency, and latent systemic artifacts. CODEX also includes a Poisson likelihood-based recursive segmentation procedure that explicitly models the count-based exome sequencing data. CODEX is compared to existing methods on a population analysis of HapMap samples from the 1000 Genomes Project, and shown to be more accurate on three microarray-based validation data sets. We further evaluate performance on 222 neuroblastoma samples with matched normals and focus on a well-studied rare somatic CNV within the ATRX gene. We show that the cross-sample normalization procedure of CODEX removes more noise than normalizing the tumor against the matched normal and that the segmentation procedure performs well in detecting CNVs with nested structures