Near isogenic lines (NILs) varying for alleles for reduced height (Rht) and photoperiod insensitivity (Ppd-D1a) in a cvar Mercia background (rht (tall), Rht-B1b, Rht-D1b, Rht-B1c, Rht8c+Ppd-D1a, Rht-D1c, Rht12) were compared at a field site in Berkshire, UK, but within different systems (‘organic’, O, in 2005/06, 2006/07 and 2007/08 growing seasons v. ‘conventional’, C, in 2005/06, 2006/07, 2007/08 and 2008/09). In 2007 and 2008, further NILs (rht (tall), Rht-B1b, Rht-D1b, Rht-B1c, Rht-B1b+Rht-D1b, Rht-D1b+Rht-B1c) in both Maris Huntsman and Maris Widgeon backgrounds were added. The contrasting systems allowed NILs to be tested in diverse rotational and agronomic, but commercially relevant, contexts, particularly with regard to the assumed temporal distribution of nitrogen availability, and competition from weeds.

For grain, nitrogen-use efficiency (NUE; grain dry matter (DM) yield/available N; where available N=fertilizer N+soil mineral N), recovery of N in the grain (grain N yield/available N), N utilization efficiency to produce grain (NUtEg; grain DM yield/above-ground crop N yield), N harvest index (grain N yield/above-ground crop N yield) and dry matter harvest index (DMHI; grain DM yield/above-ground crop DM yield) all peaked at final crop heights of 800–950 mm. Maximum NUE occurred at greater crop heights in the organic system than in the conventional system, such that even adding just a semi-dwarfing allele (Rht-D1b) to the shortest background, Mercia, reduced NUE in the organic system. The mechanism of dwarfing (gibberellin sensitive or insensitive) made little difference to the relationship between NUE and its components with crop height.

For above-ground biomass: dwarfing alleles had a greater effect on DM accumulation compared with N accumulation such that all dwarfing alleles could reduce nitrogen utilization efficiency (NUtE; crop DM yield/crop N yield). This was particularly evident at anthesis in the conventional system when there was no significant penalty for severe dwarfism for N accumulation, despite a 3-tonne (t)/ha reduction in biomass compared to the tallest lines. Differences between genotypes for recovery of N in the grain were thus mostly a function of net N uptake after anthesis rather than of remobilized N. This effect was compounded as dwarfing, except when coupled with Ppd-D1a, was associated with delayed anthesis. In the organic experiments there was greater reliance on N accumulated before anthesis, and genotype effects on NUE were confounded with effects on N accumulated by weeds, which was negatively associated with crop height. Optimum height for maximizing wheat NUE and its components, as manipulated by Rht alleles, thus depend on growing system, and crop utilization (i.e. biomass or grain production).

The relationships of normalized water index three (NWI-3) and canopy temperature (CT) with grain yield in north-west Mexico were determined in a set of wheat lines planted in multi-location yield trials. Advanced wheat lines developed by The International Maize and Wheat Improvement Centre (CIMMYT) were included and tested internationally in the trials including the 24th Elite Spring Wheat Yield Trial (ESWYT), the 11th Semi-Arid Wheat Yield Trial (SAWYT) and the 11th High Temperature Wheat Yield Trial (HTWYT). In north-west Mexico, NWI-3, CT and grain yield were determined in three growing seasons (2006, 2007 and 2008) and three environments (well irrigated, water-stressed and high-temperature), while grain yield was measured at international locations in the same advanced lines of the 24th ESWYT, the 11th SAWYT and the 11th HTWYT . The CIMMYT database was used to obtain grain yield from worldwide nurseries. The mean grain yield ranged from 0·8 to 12·7 t/ha for the 24th ESWYT (59 international sites), from 0·6 to 8·2 t/ha for the 11th SAWYT (28 international sites) and from 0·4 to 7·5 t/ha for the 11th HTWYT (26 international sites). NWI-3 and CT for the advanced lines in the three yield trials measured in north-west Mexico in distinct environments showed significant associations with the grain yield from a few international locations (0·12–0·23 of sites). Locations from Central Asia and North Africa had the best associations with NWI-3 and CT. The lack of more associations may be due to either an interaction of other factors (low rainfall and limited irrigations), which affected yield performance, or few of the advanced lines were well adapted to local growing conditions at each testing site, or a combination of these factors. The present results indicate that NWI-3 and CT have limited potential to predict yield performance at international sites.

Starch granule size distribution of wheat is an important characteristic that can affect its chemical composition and functionality. Phosphorus (P) fertilization has been studied extensively; however, little is known about its impact on starch granule size distribution in wheat. In the present study, two high-yield winter wheat cultivars were grown under different P fertilization conditions to evaluate its effect on starch granule size distribution and starch components in wheat grains at maturity. P fertilization resulted in a significant increase in the proportions (both by volume and by surface area) of B-type (<9·9 μm equivalent diameter (e.d.)) starch granules, with a reduction in those of A-type (>9·9 μm e.d.) starch granules. The P fertilization also increased starch content, amylose content and amylopectin content at maturity. However, P fertilization conditions significantly reduced the ratio of amylose to amylopectin, which showed a significant positive relationship with the volume proportion of granules 22·8–42·8 μm e.d. but was negatively related to the volume proportion of granules 2·8–9·9 μm e.d.

A SUGAR model, which was established to predict the partitioning of carbon into sucrose, glucose, fructose and sorbitol in fruit mesocarp of peach cultivars (Prunus persica (L.) Batch) with normal glucose: fructose ratio (G:F) of 0·8–1·5, was evaluated and extended for peach cultivars with a high G:F ratio of 1·5–7·8. The extended model (SUGARb) is more generic and assumes a high G:F ratio to be due to preferential transformation of sorbitol into glucose, preferential utilization of fructose or preferential conversion of fructose into glucose. The simulated seasonal variations in sugars via the SUGARb-model-matched experimental data for three normal and three high G:F cultivars well, and accurately exhibited G:F ratio characteristics. The relative rates of sucrose transformation into glucose and fructose differed according to cultivar but not according to G:F status. Compared with hexosephosphate interconversion, a lower production rate of fructose than glucose from sorbitol, and/or a higher utilization rate of fructose than that of glucose might be preferential alternatives for forming high G:F ratios in the high G:F cultivars studied in the present study, which is discussed in the light of recent results on enzyme activities.

Ammonia (NH3) volatilization from soil-applied manure not only causes environmental pollution but also reduces the fertilization value of the manure. Anaerobic digestion and solid/liquid separation alter the physical and chemical characteristics of slurry, which affect NH3 emissions after application. The present study measured potential laboratory NH3 losses from different manures, untreated pig slurry and the liquid fractions of each untreated and digested slurry, after their application to two different soil types. The experiment was carried out in dynamic chambers using a photoacoustic infrared gas analyser to determine the NH3 concentration in the air stream directly.

The estimated values of nitrogen (N) emitted for surface-applied, untreated pig slurry were 0·26±0·064 mg per mg of applied total ammoniacal nitrogen (TAN). For the liquid fractions of pig slurry and digested pig slurry, results were 0·13±0·064 and 0·16±0·064 mg/mg, respectively. Initial NH3–N emission rates from surface-applied, untreated pig slurry were higher than those measured for either liquid fraction; in the case of the untreated pig slurry, half was emitted in the first 4·9 h of measurement. Silty-loam soil showed a higher N emission than loam soil with surface-applied slurries. This result was probably due to the higher infiltration rate of loam soil, even offsetting the effect of its high soil pH. Immediate manure incorporation into the soil was shown to reduce NH3 emissions by 82%. Results demonstrated that a method combining dynamic chambers with a photoacoustic gas analyser was as reliable as the widely used acid traps method. Moreover, direct measurement with the gas analyser permits an increasing temporal resolution that gave a high-quality description of the NH3 emission dynamic.

The effects of partial rootzone drying (PRD) and rootstock vigour on dry matter accumulation and partitioning among leaves, shoots, fruits, frame and roots of apple trees (Malus domestica Borkh. cvar Pink Lady) were investigated in 2005 near Caltavuturo, in Sicily. In a first field trial, trees on MM.106 rootstock were subjected to: conventional irrigation (CI), maintaining soil moisture above 0·80 of field capacity; PRD irrigation, where alternating sides of the rootzone received 0·50 of the CI irrigation water; and continuous deficit irrigation (DI), where 0·50 of the CI water was equally applied to both sides of the rootzone. In a second trial, trees on M.9 or MM.106 were subjected to CI and PRD irrigation. In trial 1, dry matter accumulation was markedly reduced by DI irrigation and to a lesser extent by PRD; PRD trees partitioned 20% less to leaves, 31% less to fruits and 24% more to woody components than CI trees; DI trees partitioned 14% less to current shoots and 18% more to fruits than CI and had the highest fruit:leaf ratio. In trial 2, there was no interaction between rootstock and irrigation treatments. MM.106 induced greater leaf, shoot, frame and root dry weights (DWs) than M.9, resulting in more vegetative growth and larger trees. PRD reduced leaf, shoot, frame and fruit DWs, while root DWs were similar to CI, and thus PRD trees were 18% smaller than CI trees. Neither rootstock nor irrigation affected dry matter partitioning among organs or root:canopy ratio, whereas PRD trees or trees on MM.106 showed better water use efficiency than CI and M.9, respectively. The results show that PRD trees did not activate drought tolerance strategies in terms of dry matter allocation that could improve acquisition of water resources, regardless of rootstock. PRD irrigation increased above-ground dry matter partitioning towards woody components at the expense of leaves and fruits.

Neural networks (NNs), especially the group method of data handling-type NN (GMDH-type NN), are new tools in modelling growth and production in poultry systems. In the present study, the GMDH-type NN was used to model early egg production (EEP, eggs/bird) in Ross 308 broiler breeders (BBs) from 24 to 29 weeks of age based on their dietary energy and nutrient intake. The selected input variables were intake levels of metabolizable energy (ME; MJ/bird/day), crude protein (CP; g/bird/day), methionine (Met; g/bird/day), and lysine (Lys; g/bird/day). A sensitivity analysis (SA) technique was utilized to evaluate the relative importance of input variables on model output. The GMDH-type NN revealed a high ability in the modelling of EEP based on the input variables investigated. The SA results indicated that the models developed showed most sensitivity to dietary intake of Met, followed by dietary intake of Lys, ME and CP, respectively. The maximum sensitivity of each input variable was considered as the optimum value for maximizing EEP in BB. The suggested optimum values for dietary nutrient intake were as follows: 1·9–2·1 MJ/bird/day for ME, 23 g/bird/day for CP, 0·65–0·8 g/bird/day for Met and 1·4–1·5 g/bird/day for Lys.

The objectives of the present paper were to develop and evaluate empirical equations to predict fractional passage rate (kp) of forages commonly fed to goats using chemical composition of the diet and animal information. Two databases were created. The first (development database) was assembled from four studies that had individual information on animals, diets and faecal marker concentrations over time (up to 120 h post-feeding); it contained 54 data points obtained from Latin square designs. The second (evaluation database) was built using published information gathered from the literature. The evaluation database was comprised of five studies, containing 39 data points on diverse types of diets and animal breeds. The kp was estimated using a time-dependent model based on the Gamma distribution with at least two and up to 12 (rumen)+one (post-rumen) compartments (i.e. G2G1–G12G1) developed from the development database. Statistical analyses were carried out using standard regression analysis and random coefficient model analysis to account for random sources (i.e. study). The evaluation of the developed empirical equation was conducted using regression analysis adjusted for study effects, concordance correlation coefficient and mean square error of prediction. Sensitivity analyses with the developed empirical equation and comparable published equations were performed using Monte Carlo simulations. The G2G1 model consistently had lower sum of squares of errors and greater relative likelihood probabilities than other GnG1 versions. The kp was influenced by several dietary nutrients, including dietary concentration or intake of components such as lignin, neutral detergent fibre (NDF), hemicellulose, crude protein (CP), acid detergent fibre (ADF) and animal body weight (BW). The selected empirical equation, adjusted for study effects, () had an R2 of 0·623 and root of mean square error (RMSE) of 0·0122/h. The evaluation of the adequacy of the selected equation with the evaluation database indicated no systematic bias (slope not different from 1), but a low accuracy (0·33) and a persistent mean bias of 0·0129/h. The sensitivity analysis indicated that the selected empirical equation was most sensitive to changes in dry matter intake (DMI, kg/d), BW(kg) and NDF (g/kg dry matter) with standardized regression coefficients of 0·98, −0·43 and −0·32, respectively. The sensitivity analysis also indicated that the greatest forage kp in goats is likely to be c. 0·0569/h. The comparison with a previously published empirical equation containing data on cattle, sheep and goats, suggested that the distribution of the present empirical equation, adjusted for mean bias, is wider and that kp of goats might be similar to cattle and sheep when fed high amounts of forage under confinement conditions.

The present paper develops a mixture regression model that allows for distributional flexibility in modelling the likelihood of a semi-continuous outcome that takes on zero value with positive probability while continuous on the positive half of the real line. A multivariate extension is also developed that builds on past multivariate models by systematically capturing the relationship between continuous and semi-continuous variables, while allowing for the semi-continuous variable to be characterized by a mixture model. The flexibility associated with this model provides potential applications in many production system studies. The empirical model is shown to provide a more accurate measure of mortality rates in cattle feedlots, both independently and within a system including other performance and health factors.

An agro-economic simulation model was developed to facilitate comparison of the impact of management, market and biological factors on the cost of providing ruminant livestock with feed grown on the farm (home produced feed). Unpredictable year-to-year variation in crop yields and input prices were identified as quantifiable measures of risk affecting feed cost. Stochastic analysis was used to study the impact of yield and input price risk on the variability of feed cost for eight feeds grown in Ireland over a 10-year period. Intensively grazed perennial ryegrass was found to be the lowest cost feed in the current analysis (mean cost €74/1000 Unité Fourragère Viande (UFV)). Yield risk was identified as the greatest single factor affecting feed cost variability. At mean prices and yields, purchased rolled barley was found to be 3% less costly than home-produced spring-sown barley. However, home-produced spring barley was marginally less risky than purchased barley (coefficient of variation (CV) 0·063 v. 0·064). Feed crops incurring the greatest proportion of fixed costs and area-dependent variable costs, including bunker grass silage, were the most sensitive to yield fluctuations. The most energy input-intensive feed crops, such as grass silage, both baled and bunker ensiled, were deemed most susceptible to input price fluctuations. Maize silage was the most risky feed crop (CV 0·195), with potential to be both the cheapest and the most expensive conserved feed.