Now showing items 1-20 of 1704

    • A Functional Land Management conceptual framework under soil drainage and land use scenarios

      Coyle, Cait; Creamer, Rachel E.; Schulte, Rogier P.; O'Sullivan, Lilian; Jordan, Phil; Institute of Technology, Sligo (Elsevier, 2015-11-15)
      Agricultural soils offer multiple soil functions, which contribute to a range of ecosystem services, and the demand for the primary production function is expected to increase with a growing world population. Other key functions on agricultural land have been identified as water purification, carbon sequestration, habitat biodiversity and nutrient cycling, which all need to be considered for sustainable intensification. All soils perform all functions simultaneously, but the variation in the capacity of soils to supply these functions is reviewed in terms of defined land use types (arable, bio-energy, broadleaf forest, coniferous forest, managed grassland, other grassland and Natura 2000) and extended to include the influence of soil drainage characteristics (well, moderately/imperfect, poor and peat). This latter consideration is particularly important in the European Atlantic pedo-climatic zone; the spatial scale of this review. This review develops a conceptual framework on the multi-functional capacity of soils, termed Functional Land Management, to facilitate the effective design and assessment of agri-environmental policies. A final functional soil matrix is presented as an approach to show the consequential changes to the capacity of the five soil functions associated with land use change on soils with contrasting drainage characteristics. Where policy prioritises the enhancement of particular functions, the matrix indicates the potential trade-offs for individual functions or the overall impact on the multi-functional capacity of soil. The conceptual framework is also applied by land use area in a case study, using the Republic of Ireland as an example, to show how the principle of multi-functional land use planning can be readily implemented.
    • A mechanistic model for electricity consumption on dairy farms: Definition, validation, and demonstration

      Upton, John; Murphy, Michael D.; Shalloo, Laurence; Groot Koerkamp, Peter W.G.; De Boer, Imke J.M.; INTERREG IVB North-West Europe (Elsevier, 2014-06-07)
      Our objective was to define and demonstrate a mechanistic model that enables dairy farmers to explore the impact of a technical or managerial innovation on electricity consumption, associated CO2 emissions, and electricity costs. We, therefore, (1) defined a model for electricity consumption on dairy farms (MECD) capable of simulating total electricity consumption along with related CO2 emissions and electricity costs on dairy farms on a monthly basis; (2) validated the MECD using empirical data of 1 yr on commercial spring calving, grass-based dairy farms with 45, 88, and 195 milking cows; and (3) demonstrated the functionality of the model by applying 2 electricity tariffs to the electricity consumption data and examining the effect on total dairy farm electricity costs. The MECD was developed using a mechanistic modeling approach and required the key inputs of milk production, cow number, and details relating to the milk-cooling system, milking machine system, water-heating system, lighting systems, water pump systems, and the winter housing facilities as well as details relating to the management of the farm (e.g., season of calving). Model validation showed an overall relative prediction error (RPE) of less than 10% for total electricity consumption. More than 87% of the mean square prediction error of total electricity consumption was accounted for by random variation. The RPE values of the milk-cooling systems, water-heating systems, and milking machine systems were less than 20%. The RPE values for automatic scraper systems, lighting systems, and water pump systems varied from 18 to 113%, indicating a poor prediction for these metrics. However, automatic scrapers, lighting, and water pumps made up only 14% of total electricity consumption across all farms, reducing the overall impact of these poor predictions. Demonstration of the model showed that total farm electricity costs increased by between 29 and 38% by moving from a day and night tariff to a flat tariff.
    • A national methodology to quantify the diet of grazing dairy cows

      O'Brien, Donal; Moran, Brian; Shalloo, Laurence (Elsevier, 2018-07-04)
      The unique rumen of dairy cows allows them to digest fibrous forages and feedstuffs. Surprisingly, to date few attempts have been made to develop national methods to gain an understanding on the make-up of a dairy cow's diet, despite the importance of milk production. Consumer interest is growing in purchasing milk based on the composition of the cows' diet and the time they spend grazing. The goal of this research was to develop such a methodology using the national farm survey of Ireland as a data source. The analysis was completed for a 3-yr period from 2013 to 2015 on a nationally representative sample of 275 to 318 dairy farms. Trained auditors carried out economic surveys on farms 3 to 4 times per annum. The auditors collected important additional information necessary to estimate the diet of cows including the length of the grazing season, monthly concentrate feeding, type of forage(s) conserved, and milk production. Annual cow intakes were calculated to meet net energy requirements for production, maintenance, activity, pregnancy, growth, and live weight change using survey data and published literature. Our analysis showed that the average annual cow feed intake on a fresh matter basis ranged from 22.7 t in 2013 to 24.8 t in 2015 and from 4.8 to 5 t on a dry matter basis for the same period. Forage, particularly pasture, was the largest component of the Irish cow diet, typically accounting for 96% of the diet on a fresh matter basis and 82% of dry matter intake over the 3 yr. Within the cows' forage diet, grazed pasture was the dominant component and on average contributed 74 to 77% to the average annual cow fresh matter diet over the period. The proportion of pasture in the annual cow diet as fed was also identified as a good indicator of the time cows spend grazing (e.g., coefficient of determination = 0.85). Monthly, forage was typically the main component of the cow diet, but the average contribution of concentrate was substantial for the early spring months of January and February (30 to 35% of dry matter intake). Grazed pasture was the dominant source of forage from March to October and usually contributed 95 to 97% of the diet as fed in the summer period. Overall, the national farm survey from 2013 to 2015 shows that Irish dairy farms are very reliant on forage, particularly pasture, regardless of whether it is reported on a dry matter basis or as fed. There is potential to replicate this methodology in any regions or nations where representative farm surveys are conducted.
    • An observational study using blood gas analysis to assess neonatal calf diarrhea and subsequent recovery with a European Commission-compliant oral electrolyte solution

      Sayers, Riona; Kennedy, Aideen E.; Krump, Lea; Sayers, Gearoid; Kennedy, Emer; Epsilion Ltd.; IV20151256 (American Dairy Science Association, 2016-04-06)
      An observational study was conducted on dairy calves (51 healthy, 31 with neonatal diarrhea) during outbreaks of diarrhea on 4 dairy farms. Clinical assessment scores (CAS) were assigned to each healthy and diarrheic calf [from 0 (healthy) to 4 (marked illness)]. Blood gas analysis [pH, base excess (BE), Na+, K+, Ca2+, Cl−, glucose, total hemoglobin, standard HCO3−, strong ion difference (SID), and anion gap (AG)] was completed for each calf. Repeated measurements were taken in healthy animals, and pre- and postintervention measurements were taken for diarrheic calves. The mean CAS of diarrheic calves was 1.7, with 51, 30, 17, and 2% of calves scoring 1, 2, 3, and 4, respectively. The mean value for blood pH, BE, AG, and SID was 7.26, −4.93 mM, 16.3 mM, and 38.59 mM, respectively. Calves were administered an oral rehydration and buffering solution (ORBS; Vitalife for Calves, Epsilion Ltd., Cork, Ireland) and reassessed. The mean CAS decreased to 0.38 (65% of calves scored 0 and 35% scored 1) at 6 to 18 h posttreatment and to 0.03 (98% of calves scored 0 and 2% scored 1) within 24 to 48 h. Significant increases in mean value for pH, BE, HCO3−, Na+, and SID, and significant decreases in AG, K+, Ca2+, and total hemoglobin were recorded posttreatment. The correlation estimates indicated that pH, HCO3−, and BE were strongly correlated with CAS, with values exceeding 0.60 in all cases. Administration of an ORBS with a high SID and bicarbonate buffer demonstrated rapid recovery from a diarrheic episode in dairy calves.
    • Assessing the role of artificially drained agricultural land for climate change mitigation in Ireland

      Paul, Carsten; Fealy, Reamonn; Fenton, Owen; Lanigan, Gary; O’Sullivan, Lilian; Schulte, Rogier P.; Irish Dairy Research Fund; Teagasc Greenhouse Gas Working Group; Department of Agriculture, Food and the Marine (Elsevier, 2017-12-19)
      In 2014 temperate zone emission factor revisions were published in the IPCC Wetlands Supplement. Default values for direct CO2 emissions of artificially drained organic soils were increased by a factor of 1.6 for cropland sites and by factors ranging from 14 to 24 for grassland sites. This highlights the role of drained organic soils as emission hotspots and makes their rewetting more attractive as climate change mitigation measures. Drainage emissions of humic soils are lower on a per hectare basis and not covered by IPCC default values. However, drainage of great areas can turn them into nationally relevant emission sources. National policy making that recognizes the importance of preserving organic and humic soils’ carbon stock requires data that is not readily available. Taking Ireland as a case study, this article demonstrates how a dataset of policy relevant information can be generated. Total area of histic and humic soils drained for agriculture, resulting greenhouse gas emissions and climate change mitigation potential were assessed. For emissions from histic soils, calculations were based on IPCC emission factors, for humic soils, a modified version of the ECOSSE model was used. Results indicated 370,000 ha of histic and 426,000 ha of humic soils under drained agricultural land use in Ireland (8% and 9% of total farmed area). Calculated annual drainage emissions were 8.7 Tg CO2e from histic and 1.8 Tg CO2e from humic soils (equal to 56% of Ireland’s agricultural emissions in 2014, excluding emissions from land use). If half the area of drained histic soils was rewetted, annual saving would amount to 3.2 Tg CO2e. If on half of the deep drained, nutrient rich grasslands drainage spacing was decreased to control the average water table at −25 cm or higher, annual savings would amount to 0.4 Tg CO2e.
    • Association between somatic cell count during the first lactation and the cumulative milk yield of cows in Irish dairy herds

      McCoy, Finola; Archer, Simon; Wapenaar, Wendela; Green, Martin J.; Teagasc Walsh Fellowship Programme (Elsevier, 2014-01-30)
      Reduced potential milk yield is an important component of mastitis costs in dairy cows. The first aim of this study was to assess associations between somatic cell count (SCC) during the first lactation, and cumulative milk yield over the first lactation and subsequent lifetime of cows in Irish dairy herds. The second aim was to assess the association between SCC at 5 to 30 d in milk during parity 1 (SCC1), and SCC over the entire first lactation for cows in Irish dairy herds. The data set studied included records from 51,483 cows in 5,900 herds. Somatic cell count throughout the first lactation was summarized using the geometric mean and variance of SCC. Data were analyzed using linear models that included random effects to account for the lack of independence between observations, and herd-level variation in coefficients. Models were developed in a Bayesian framework and parameters were estimated from 10,000 Markov chain Monte Carlo simulations. The final models were a good fit to the data. A 1-unit increase in mean natural logarithm SCC over the first lactation was associated with a median decrease in first lactation and lifetime milk yield of 135 and 1,663 kg, respectively. A 1-unit increase in the variance of natural logarithm SCC over the first lactation was associated with a median decrease in lifetime milk yield of 719 kg. To demonstrate the context of lifetime milk yield results, microsimulation was used to model the trajectory of individual cows and evaluate the expected outcomes for particular changes in herd-level geometric mean SCC over the first lactation. A 75% certainty of savings of at least €199/heifer in the herd was detected if herd-level geometric mean SCC over the first lactation was reduced from ≥120,000 to ≤72,000 cells/mL. The association between SCC1 and SCC over the remainder of the first lactation was highly herd dependent, indicating that control measures for heifer mastitis should be preferentially targeted on an individual-herd basis toward either the pre- and peripartum period, or the lactating period, to optimize the lifetime milk yield of dairy cows.
    • Association between somatic cell count early in the first lactation and the longevity of Irish dairy cows

      Archer, Simon; McCoy, Finola; Wapenaar, Wendela; Green, Martin J.; Teagasc Walsh Fellowship Programme (Elsevier, 2013-03-21)
      Reduced longevity of cows is an important component of mastitis costs, and increased somatic cell count (SCC) early in the first lactation has been reported to increase culling risk throughout the first lactation. Generally, cows must survive beyond the first lactation to break even on their rearing costs. The aim of this research was to assess the association between SCC of primiparous cows at 5 to 30 days in milk (SCC1), and survival over a 5-y period for cows in Irish dairy herds. The data set used for model development was based on 147,458 test day records from 7,537 cows in 812 herds. Cows were censored at their last recording if identified at a later date in other herds or if recorded at the last available test date for their herd, otherwise, date of disposal was taken to be at the last test date for each cow. Survival time was calculated as the number of days between the dates of first calving and the last recording, which was split into 50-d intervals. Data were analyzed in discrete time logistic survival models that accounted for clustering of 50-d intervals within cows, and cows within herds. Models were fitted in a Bayesian framework using Markov chain Monte Carlo simulations. Model fit was assessed by comparison of posterior predictions to the observed disposal risk for cows aggregated by parameters in the model. Model usefulness was assessed by cross validation in a separate data set, which contained 144,113 records from 7,353 cows in 808 herds, and posterior predictions were compared with the observed disposal risk for cows aggregated by parameters of biological importance. Disposal odds increased by a factor of 5% per unit increase in ln SCC1. Despite this, posterior predictive distributions revealed that the probability of reducing replacement costs by >€10 per heifer calved, through decreasing the herd level prevalence of cows with SCC1 ≥400,000 cells/mL (from an initial prevalence of ≥20 to <10%) only exceeded 50% for less than 1 in 5 Irish herds. These results indicate that the effect of a reduction in the prevalence of cows with SCC1 ≥400,000 cells/mL on replacement costs alone for most Irish dairy herds is small, and future research should investigate other potential losses, such as the effect of SCC1 on lifetime milk yield.
    • Association between somatic cell count early in the first lactation and the lifetime milk yield of cows in Irish dairy herds

      Archer, Simon; McCoy, Finola; Wapenaar, Wendela; Green, Martin J.; Teagasc Walsh Fellowship Programme (Elsevier, 2013-03-14)
      Change in lifetime milk yield is an important component of the cost of diseases in dairy cows. Knowledge of the likelihood and scale of potential savings through disease prevention measures is important to evaluate how much expenditure on control measures is rational. The aim of this study was to assess the association between somatic cell count (SCC) at 5 to 30 d in milk during parity 1 (SCC1), and lifetime milk yield for cows in Irish dairy herds. The data set studied included records from 53,652 cows in 5,922 Irish herds. This was split into 2 samples of 2,500 and 3,422 herds at random. Linear models with lifetime milk yield and first-lactation milk yield as the outcomes and random effects to account for variation between herds were fitted to the data for the first sample of herds; data for the second sample were used for cross-validation. The models were developed in a Bayesian framework to include all uncertainty in posterior predictions and parameters were estimated from 10,000 Markov chain Monte Carlo simulations. The final model was a good fit to the data and appeared generalizable to other Irish herds. A unit increase in the natural logarithm of SCC1 was associated with a median decrease in lifetime milk yield of 864 kg, and a median decrease in first-lactation milk yield of 105 kg. To clarify the meaning of the results in context, microsimulation was used to model the trajectory of individual cows, and evaluate the expected outcomes for particular changes in the herd-level prevalence of cows with SCC1 ≥400,000 cells/mL. Differences in mean lifetime milk yield associated with these changes were multiplied by an estimated gross margin for each cow to give the potential difference in milk revenue. Results were presented as probabilities of savings; for example, a 75% probability of savings of at least €97 or €115/heifer calved into the herd existed if the prevalence of cows with SCC1 ≥400,000 cells/mL was reduced from ≥20 to <10 or <5%, respectively, and at least €71/heifer calved into the herd if the prevalence of cows with SCC1 ≥400,000 cells/mL was reduced from ≥10 to <5%. The results indicate large differences in lifetime milk yield, depending on SCC early in the first lactation and the findings can be used to assess where specific interventions to control heifer mastitis prepartum are likely to be cost effective.
    • Association of season and herd size with somatic cell count for cows in Irish, English, and Welsh dairy herds

      Archer, Simon; McCoy, Finola; Wapenaar, Wendela; Green, Martin J.; Teagasc Walsh Fellowship Programme (Elsevier, 2013-01-12)
      The aims of this study were to describe associations of time of year, and herd size with cow somatic cell count (SCC) for Irish, English, and Welsh dairy herds. Random samples of 497 and 493 Irish herds, and two samples of 200 English and Welsh (UK) herds were selected. Random effects models for the natural logarithm of individual cow test day SCC were developed using data from herds in one sub-dataset from each country. Data from the second sub-datasets were used for cross validation. Baseline model results showed that geometric mean cow SCC (GSCC) in Irish herds was highest from February to August, and ranged from 111,000 cells/mL in May to 61,000 cells/mL in October. For cows in UK herds, GSCC ranged from 84,000 cells/mL in February and June, to 66,000 cells/mL in October. The results highlight the importance of monitoring cow SCC during spring and summer despite low bulk milk SCC at this time for Irish herds. GSCC was lowest in Irish herds of up to 130 cows (63,000 cells/mL), and increased for larger herds, reaching 68,000 cells/mL in herds of up to 300 cows. GSCC in UK herds was lowest for herds of 130–180 cows (60,000 cells/mL) and increased to 63,000 cells/mL in herds of 30 cows, and 68,000 cells/mL in herds of 300 cows. Importantly, these results suggest expansion may be associated with increased cow SCC, highlighting the importance of appropriate management, to benefit from potential economies of scale, in terms of udder health.
    • Associations between paratuberculosis ELISA results and test-day records of cows enrolled in the Irish Johne's Disease Control Program

      Botaro, Bruno G.; Ruelle, Elodie; More, Simon J; Strain, Sam; Graham, David A.; O'Flaherty, Joe; Shalloo, Laurence; Department of Agriculture, Food and the Marine (Elsevier, 2017-07-12)
      The effect of the Mycobacterium avium ssp. paratuberculosis (MAP) ELISA status on test-day milk performance of cows from Irish herds enrolled in the pilot national voluntary Johne's disease control program during 2013 to 2015 was estimated. A data set comprising 92,854 cows and 592,623 complete test-day records distributed across 1,700 herds was used in this study. The resulting ELISA outcome (negative, inconclusive, and positive) of each cow within each year of the program was used to allocate the cow into different scenarios representing the MAP status. At MAPscenario1, all cows testing ELISA nonnegative (i.e., inconclusive and positive) were assigned a MAP-positive status; at MAPscenario2 only cows testing ELISA-positive were assigned a MAP-positive status; at MAPscenario3 only cows testing ELISA nonnegative (inconclusive or positive) and gathered exclusively from herds where at least 2 further ELISA nonnegative (inconclusive or positive) cows were found were assigned a MAP-positive status; at MAPscenario4 only cows testing ELISA-positive that were gathered exclusively from herds where at least 2 further ELISA-positive cows were found were assigned a MAP-positive status. Milk outputs based on test-day records were standardized for fat and protein contents (SMY) and the effect of MAP ELISA status on the SMY was estimated by a linear mixed effects model structure. The SMY mean difference recorded at test day between cows with a MAP-positive status and those with a MAP-negative status within MAPscenario1 was estimated at −0.182 kg/test day; the mean difference was −0.297 kg/test day for MAPscenario2; for MAPscenario3 mean difference between MAP-positive status and MAP test-negative cows was −0.209 kg/test day, and for MAPscenario4, the difference was −0.326 kg/test day.
    • A sub-field scale critical source area index for legacy phosphorus management using high resolution data

      Thomas, Ian A.; Mellander, Per-Erik; Murphy, Paul; Fenton, Owen; Shine, Oliver; Djodjic, Faruk; Dunlop, Paul; Jordan, Phil; Teagasc Walsh Fellowship Programme; Department of Agriculture, Food and the Marine; et al. (Elsevier, 2016-09-25)
      Diffuse phosphorus (P) mitigation in agricultural catchments should be targeted at critical source areas (CSAs) that consider source and transport factors. However, development of CSA identification needs to consider the mobilisation potential of legacy soil P sources at the field scale, and the control of (micro)topography on runoff generation and hydrological connectivity at the sub-field scale. To address these limitations, a ‘next generation’ sub-field scale CSA index is presented, which predicts the risk of dissolved P losses in runoff from legacy soil P. The GIS-based CSA Index integrates two factors; mobile soil P concentrations (water extractable P; WEP) and a hydrologically sensitive area (HSA) index. The HSA Index identifies runoff-generating-areas using high resolution LiDAR Digital Elevation Models (DEMs), a soil topographic index (STI) and information on flow sinks and effects on hydrological connectivity. The CSA Index was developed using four intensively monitored agricultural catchments (7.5–11 km2) in Ireland with contrasting agri-environmental conditions. Field scale soil WEP concentrations were estimated using catchment and land use specific relationships with Morgan P concentrations. In-stream total reactive P (TRP) concentrations and discharge were measured sub-hourly at catchment outlet bankside analysers and gauging stations during winter closed periods for fertiliser spreading in 2009–14, and hydrograph/loadograph separation methods were used to estimate TRP loads and proportions from quickflow (surface runoff). A strong relationship between TRP concentrations in quickflow and soil WEP concentrations (r2 = 0.73) was used to predict dissolved P concentrations in runoff at the field scale, which were then multiplied by the HSA Index to generate sub-field scale CSA Index maps. Evaluation of the tool showed a very strong relationship between the total CSA Index value within the HSA and the total TRP load in quickflow (r2 = 0.86). Using a CSA Index threshold value of ≥0.5, the CSA approach identified 1.1–5.6% of catchment areas at highest risk of legacy soil P transfers, compared with 4.0–26.5% of catchment areas based on an existing approach that uses above agronomic optimum soil P status. The tool could be used to aid cost-effective targeting of sub-field scale mitigation measures and best management practices at delivery points of CSA pathways to reduce dissolved P losses from legacy P stores and support sustainable agricultural production.
    • Soil bacterial community structure and functional responses across a long-term mineral phosphorus (Pi) fertilisation gradient differ in grazed and cut grasslands

      Randall, Kate; Brennan, Fiona; Clipson, Nicholas; Creamer, Rachel; Griffiths, Bryan; Storey, Sean; Doyle, Evelyn; Programme for Research in Third-Level Institutions; European Regional Development Fund (Elsevier, 2019-03-06)
      Grasslands form a significant proportion of land used across the globe and future management is important. The objective of this study was to compare the long-term impact of inorganic phosphorus (Pi) fertilisation rates (P0, P15 and P30 ha−1 yr−1) under two grass management trials (grazed vs. cut and removed) on soil physicochemical properties, microbial biomass, phosphomonoesterase activity, bacterial community structure and abundance of a phosphorus (P) mineralising gene (phoD). Under grazing, microbial biomass and soil phosphorus concentrations (total and Pi) generally increased with Pi fertilisation rate, accompanied by significant differences in bacterial community structure between unfertilised (P0) and P30 soil. At the cut and removed site, although Pi was significantly greater in P30 soil, P concentrations (total and Pi) did not increase to the same extent as for grazing, with microbial biomass and bacterial community structures unresponsive to Pi fertilisation. Despite differences in soil P concentrations (total and Pi) and microbial biomass between sites, the abundance of bacterial phoD increased with increasing soil Pi across both sites, while phosphomonoesterase activity decreased. Amplicon sequencing revealed Acidobacteria were the dominant bacterial phylum across both grasslands, but significant differences in relative abundances of bacterial genera were detected at the grazed site only. The bacterial genera Gp6 and Gp16 increased significantly with Pi fertilisation under grazing. Conversely, Bradyrhizobium as well as unclassified genus-type groups belonging to Actinobacteria and Acidimicrobiales significantly decreased with Pi fertilisation, suggesting potential roles in P mobilisation when soil Pi concentrations are low. This study highlights the importance of long-term Pi fertilisation rates and aboveground vegetation removal in shaping soil bacterial community structure and microbial biomass, which in turn may impact soil fertility and plant productivity within agricultural soils.
    • Bovine whey peptides transit the intestinal barrier to reduce oxidative stress in muscle cells

      Corrochano, Alberto R.; Ferraretto, Anita; Arranz, Elena; Stuknytė, Milda; Bottani, Michela; O'Connor, Paula M.; Kelly, Phil M.; De Noni, Ivano; Buckin, Vitaly; Giblin, Linda; et al. (Elsevier, 2019-03-06)
      Health benefits are routinely attributed to whey proteins, their hydrolysates and peptides based on in vitro chemical and cellular assays. The objective of this study was to track the fate of whey proteins through the upper gastrointestinal tract, their uptake across the intestinal barrier and then assess the physiological impact to downstream target cells. Simulated gastrointestinal digestion (SGID) released a selection of whey peptides some of which were transported across a Caco-2/HT-29 intestinal barrier, inhibited free radical formation in muscle and liver cells. In addition, SGID of β-lactoglobulin resulted in the highest concentration of free amino acids (176 nM) arriving on the basolateral side of the co-culture with notable levels of branched chain and sulphur-containing amino acids. In vitro results indicate that consumption of whey proteins will deliver bioactive peptides to target cells.
    • Symposium review: Intramammary infections—Major pathogens and strain-associated complexity

      Keane, Orla M (Elsevier, 2019-03-01)
      Intramammary infection (IMI) is one of the most costly diseases to the dairy industry. It is primarily due to bacterial infection and the major intramammary pathogens include Escherichia coli, Streptococcus uberis, and Staphylococcus aureus. The severity and outcome of IMI is dependent on several host factors including innate host resistance, energy balance, immune status, parity, and stage of lactation. Additionally, the infecting organism can influence the host immune response and progression of disease. It is increasingly recognized that not only the infecting pathogen species, but also the strain, can affect the transmission, severity, and outcome of IMI. For each of 3 major IMI-associated pathogens, S. aureus, Strep. uberis, and E. coli, specific strains have been identified that are adapted to the intramammary environment. Strain-dependent variation in the host immune response to infection has also been reported. The diversity of strains associated with IMI must be considered if vaccines effective against the full repertoire of mammary pathogenic strains are to be developed. Although important advances have been made recently in understanding the molecular mechanism underpinning strain-specific virulence, further research is required to fully elucidate the cellular and molecular pathogenesis of mammary adapted strains and the role of the strain in influencing the pathophysiology of infection. Improved understanding of molecular pathogenesis of strains associated with bovine IMI will contribute to the development of new control strategies, therapies, and vaccines. The development of enabling technologies such as pathogenomics, transcriptomics, and proteomics can facilitate system-level studies of strain-specific molecular pathogenesis and the identification of key mediators of host-pathogen interactions.
    • Effect of a combination phytase and carbohydrolase enzyme supplement on growth performance and bone mineralization of pigs from six weeks to slaughter at 105 kg

      Lawlor, Peadar G; Cozannet, Pierre; Ryan, Willie F.; Lynch, P.B. (Elsevier, 2019-03-07)
      An experiment was conducted to assess the effect of a combination of carbohydrolase (from Talaromyces Versatilis) and 6-phytase (from Schizosaccharomyces Pombe) multi enzyme complex (mec; Rovabio Max®, Adisseo, France) on the growth and bone mineralization of pigs fed maize-wheat-soybean meal diets. Pigs (n = 384) were selected at 28 days of age, penned in same gender pairs and fed a common acclimatization diet meeting animal requirements for 14 days. Four experimental diets were formulated for each of 4 growth stages from 42 days of age to slaughter at 147 days: 1) Positive control (PC), formulated to meet nutritional requirements; 2) Negative control 1 (NC1; DE × 0.985, CP × 0.985, −1.0 g Ca/kg and −1.2 g dig P/kg), 3) Negative control 2 (NC2; DE × 0.975, CP × 0.975, −1.0 g Ca/kg and −1.2 g dig P/kg) and 4) Negative control 3 (NC3; DE × 0.975, CP × 0.975, −1.5 g Ca /kg and −1.7 g dig P/kg). Negative control diets were also supplemented with mec resulting in 7 experimental treatments. Feed disappearance, wastage and individual pig live weight (LW) were recorded at the beginning and end of each growth phase. Reducing in dietary constituents (CP, DE, P and Ca) compared to PC reduced LW (P < 0.001), average daily feed intake (ADFI; P < 0.01), and average daily gain (ADG; P < 0.001) throughout the trial. Addition of mec to NC diets increased LW (P < 0.001), ADFI (P < 0.001) and ADG (P < 0.001) up to slaughter and improved feed conversion ratio (FCR; P < 0.001) to day 112 of the trial. There were increases in area bone mineral density (aBMD) of the foot from day 77 onwards (P < 0.01) and metacarpal aBMD (P < 0.01) from day 112 onwards when mec was added to NC diets although no effect (P > 0.05) on metacarpal Ca or P percentages was found. It was concluded that supplementing carbohydrolase and phytase to low nutrient density diets can return the growth and FCR of the pigs as well as metacarpal and foot aBMD to the levels reached by pigs fed diets meeting nutrient recommendations.
    • Beneficial modulation of the gut microbiota

      Cotter, Paul D. (Elsevier, 2016-03-29)
      As the scientific community continues to develop an ever-greater understanding of the composition and function of the human gut microbiota, and the role of specific microbial populations in health and disease, attention has turned to the tools that are at our disposal with respect to altering these microbes in a beneficial way. The options available include the use of diet, probiotics/prebiotics, antimicrobials and, potentially, exercise. Here, our recent investigations of the relationship between protein, bacteriocin producing probiotics and exercise and the gut microbiota and, in turn, health will be described.
    • Characterization of plant-derived lactococci on the basis of their volatile compounds profile when grown in milk

      Alemayehu, Debebe; Hannon, John A.; McAuliffe, Olivia; Ross, R Paul; Irish Dairy Levy Research Trust (Elsevier, 2013-12-03)
      A total of twelve strains of lactococci were isolated from grass and vegetables (baby corn and fresh green peas). Ten of the isolates were classified as Lactococcus lactis subsp. lactis and two as Lactococcus lactis subsp. cremoris based on 16S rDNA sequencing. Most of the plant-derived strains were capable of metabolising a wide range of carbohydrates in that they fermented D-mannitol, amygdalin, potassium gluconate, l-arabinose, d-xylose, sucrose and gentibiose. None of the dairy control strains (i.e. L. lactis subsp. cremoris HP, L. lactis subsp. lactis IL1403 and Lactococcus lactis 303) were able to utilize any of these carbohydrates. The technological potential of the isolates as flavour-producing lactococci was evaluated by analysing their growth in milk and their ability to produce volatile compounds using solid phase micro-extraction of the headspace coupled to gas chromatography–mass spectrometry (SPME GC–MS). Principal component analysis (PCA) of the volatile compounds clearly separated the dairy strains from the plant derived strains, with higher levels of most flavour rich compounds. The flavour compounds produced by the plant isolates among others included; fatty acids such as 2- and 3-methylbutanoic acids, and hexanoic acid, several esters (e.g. butyl acetate and ethyl butanoate) and ketones (e.g. acetoin, diacetyl and 2-heptanone), all of which have been associated with desirable and more mature flavours in cheese. As such the production of a larger number of volatile compounds is a distinguishing feature of plant-derived lactococci and might be a desirable trait for the production of dairy products with enhanced flavour and/or aroma.
    • RNA-seq analysis of bovine adipose tissue in heifers fed diets differing in energy and protein content

      Wærp, Hilde K. L.; Waters, Sinead M.; McCabe, Matthew S.; Cormican, Paul; Salte, Ragnar; The Research Council of Norway; TINE SA Norwegian dairies; Felleskjøpet agricultural cooperative; Animalia AS; 199448 (Public Library of Science, 2018-09-20)
      Adipose tissue is no longer considered a mere energy reserve, but a metabolically and hormonally active organ strongly associated with the regulation of whole-body metabolism. Knowledge of adipose metabolic regulatory function is of great importance in cattle management, as it affects the efficiency and manner with which an animal converts feedstuff to milk, meat and fat. However, the molecular mechanisms regulating metabolism in bovine adipose tissue are still not fully elucidated. The emergence of next-generation sequencing technologies has facilitated the analysis of metabolic function and regulation at the global gene expression level. The aim of this study was to investigate the effect of diets differing in protein and energy density level on gene expression in adipose tissue of growing replacement dairy heifers using next-generation RNA sequencing (RNAseq). Norwegian Red heifers were fed either a high- or low-protein concentrate (HP/LP) and a high- or low-energy roughage (HE/LE) diet from 3 months of age until confirmed pregnancy to give four treatments (viz, HPHE, HPLE, LPHE, LPLE) with different growth profiles. Subcutaneous adipose tissue sampled at 12 months of age was analyzed for gene expression differences using RNAseq. The largest difference in gene expression was found between LPHE and LPLE heifers, for which 1092 genes were significantly differentially expressed, representing an up-regulation of mitochondrial function, lipid, carbohydrate and amino acid metabolism as well as changes in the antioxidant system in adipose tissue of LPHE heifers. Differences between HPHE and HPLE heifers were much smaller, and dominated by genes representing NAD biosynthesis, as was the significantly differentially expressed genes (DEG) common to both HE-LE contrasts. Differences between HP and LP groups within each energy treatment were minimal. This study emphasizes the importance of transcriptional regulation of adipose tissue energy metabolism, and identifies candidate genes for further studies on early-stage obesity and glucose load in dairy cattle.
    • Mushroom Virus X (MVX) prevention

      Gaze, Richard; Grogan, Helen (Teagasc (Agriculture and Food Development Authority), IrelandHorticultural Development Council, 2007)
      This factsheet is a summary of the most important information currently available. Its objective is to provide guidance to the recognition, prevention and control of the disease.
    • Identification and control of dry bubble disease of mushrooms

      Gaze, Richard; Grogan, Helen (Teagasc (Agriculture and Food Development Authority), IrelandHorticultural Development Council, 2008)
      This factsheet is a summary of the most important information currently available on Dry bubble disease of mushrooms (Verticillium fungicola). Its objective is to provide guidance to the recognition, prevention and control of the disease.