Winter hardiness of wheat is a complex trait involving a system of structural, regulatory and developmental genes, which interact in a complex pathway. The objective of the present work was to study the relationship among the main traits determining the level of adaptation and the possibility for target manipulation of breeding material by using molecular markers and phenological parameters. Wheat cultivars from different ecoclimatic environments of Europe were included for analysis. Gene-specific assay showed that photoperiod sensitivity of the studied cultivars was determined by polymorphism in the Ppd-D1 allele. The study established the relationship among winter hardiness, LT50 (the temperature at which 50% of plants are killed), photoperiod sensitivity, vernalization duration and earliness per se genes in the environment of Lithuania. The cultivars from Northern and Western Europe exhibited stronger requirement for vernalization and photoperiod. Although the group of cultivars from the southern latitudes were characterized by earliness, they possessed a stronger level of LT50. The level of LT50 was found to be the most crucial component of winter hardiness, the other traits served as supplementary components.

A liquid chromatography mass spectrometry method for determination of clothianidin in brown rice, straw, rice hull, paddy water and paddy sediment was developed and residue levels were determined in the different components. The limit of quantification was set at 0·01 mg/kg for the matrices studied. Clothianidin degradation in straw, paddy water and soil was studied, and clothianidin residues in brown rice, straw, hull and paddy soil were determined. Concurrent recoveries were between 85·6 and 92·5%, with relative standard deviations ranging from 1·3 to 6·8% at three fortification levels between 0·01 and 5·0 mg/kg. The half-lives in straw, paddy water and paddy sediment were found to be 1·9–4·9, 4·1–5·0 and 4·9–6·3 days, respectively. The maximum residues in brown rice, straw, hull and paddy soil samples were 0·38, 1·88, 1·38 and 0·14 mg/kg, respectively.

Perennial ryegrass and white clover (WC) have been shown to form compatible mixtures for pasture production under temperate climates. The inclusion of WC has the potential to enhance the performance of grass swards, but the extent of the improvement under contrasting grazing management strategies is unclear. Grazing rotation and fertilizer nitrogen (N) use have been identified as two major factors that can influence the performance of grass–clover swards. The objective of the current study was to examine the effect of differing grazing rotation lengths and the level of N application on the dry matter (DM) yield performance of grass–clover and grass-only swards as well as on WC productivity and persistency under animal grazing. Swards were managed by N application and grazing rotation length: High-N swards were managed on a 21-day grazing rotation (Man 1) and low-N swards were managed on a 30-day grazing rotation (Man 2). The four treatments were: 250 kg N/ha without WC (HN−C), 250 kg N/ha with WC (HN+C), 100 kg N/ha N without WC (LN−C) and 100 kg N/ha with WC (LN+C). There was a significant management × WC interaction over the 3 years for annual DM yield. The LN−C swards produced lower DM yield (−1917 kg DM/ha) than the swards of the other three treatments (11 167 kg DM/ha). Management had a significant effect on annual DM yield with Man 1 swards yielding 801 kg DM/ha more than Man 2 swards (10 288 kg DM/ha). The inclusion of WC yielded significantly more annual DM yield (+1009 kg DM/ha) than grass-only swards. Notably, LN+C produced the same annual total DM yield as swards under High N and a 21-day grazing rotation. Total WC DM yield and proportion across the year was altered significantly by management. Higher N fertilized swards at shorter grazing intervals had a lower WC DM yield (−1544 kg DM/ha) and proportion (−0·13). Dry matter yield of WC with low N application can be similar to that at high N levels if rotation length is used as a mechanism to determine grazing timing. Variations in WC productivity into the final year of the experiment indicate that persistence of significant contributions to DM yield by WC under low N at longer grazing intervals remains unclear after 3 years.

The production of winter wheat (Triticum aestivum L.) is affected by crop population structures and field microclimates. This 3-year study assessed the effect of different precision planting patterns and irrigation conditions on relative humidity (RH), air and soil temperature within the canopy, intercepted photosynthetically active radiation (iPAR), evapotranspiration (ET), water productivity (WP) and grain yields. Field experiments were conducted from 2011 to 2014 on a two-factor split-plot design with three replicates. The experiments involved three precision planting patterns (single row, alternating single and twin rows [hereafter ‘single–twin’] and twin row) and three irrigation treatments (0 mm (I0), 90 mm (I90) and 180 mm (I180)). Planting patterns and irrigation treatments exerted a significant effect on RH, air and soil temperature, iPAR, ET, WP and grain yield. The lowest RH and iPAR levels were detected in the single row pattern. When the irrigation treatment was identical, the highest soil and air temperatures were detected in the single row pattern, followed by the single–twin row and twin row patterns. Compared with the single row, the single–twin and twin row patterns increased ET by 0·3 and 1·4, WP by 4·7 and 5·7% and yields by 6·0 and 7·9%, respectively. Compared with I0, the I90 and I180 irrigation treatments increased ET by 0·3 and 1·4%, and WP by 4·7 and 5·7%, respectively. The grain yields of the twin row pattern were 5·8 and 1·7% higher than those of the single row and single–twin row patterns, respectively. Compared with I0, I90 increased yield by 19·3%. The twin row pattern improved crop structure and farmland microclimate by increasing RH and iPAR, and reducing soil and air temperatures, thus increasing grain yield. These results indicated that a twin row pattern effectively improved grain yield at I0. On the basis of iPAR, WP and grain yield, it was concluded that a twin row pattern combined with an I90 irrigation treatment provided optimal cropping conditions for the North China plain.

Agricultural practices are likely to lower nitrogen (N) fertilization inputs for economic and ecological limitation reasons. The objective of the current study was to assess genotypic variation in nitrogen use efficiency (NUE) and related parameters of spring wheat (Triticum aestivum L.) as well as the relative grain yield performance under sandy soil conditions. A sub-set of 16 spring wheat genotypes was studied over 2 years at five N levels (0, 70, 140, 210 and 280 kg N/ha). Results indicated significant differences among genotypes and N levels for grain yield and yield components as well as NUE. Genotypes with high NUE exhibited higher plant biomass, grain and straw N concentration and grain yield than those with medium and low NUE. Utilization efficiency (grain-NUtE) was more important than uptake efficiency (total NUpE) in association with grain yield. Nitrogen supply was found to have a substantial effect on genotype; Line 6052 as well as Shandawel 1, Gemmiza 10, Gemmiza 12, Line 6078 and Line 6083 showed higher net assimilation rate, more productive tillers, increased number of spikes per unit area and grains per spike, extensive N concentration in grain and straw, heavier grains, higher biological yield and consequently maximized grain yield. The relative importance of NUE-associated parameters such as nitrogen agronomic efficiency, nitrogen physiological efficiency and apparent nitrogen recovery as potential targets in breeding programmes for increased NUE genotypes is also mentioned.

Cassava root rot (CRR) disease associated with a complex of soil pathogens has caused great yield losses in the crop. The objective of the current work was to obtain insights about the genetic architecture of CRR resistance caused by Fusarium (dry root rot – DRR), Phytophthora (soft root rot – SRR) and Botryosphaeriaceae (black root rot – BRR) species, using genome-wide association studies (GWAS). Phenotyping data of 263 accessions (artificial inoculation) and 14 094 single-nucleotide polymorphisms (SNP) (missing data <0·10 and minor allele frequency >0·05) were used. The severity of CRR in peel and pulp was variable among accessions, but the pathogens that caused DRR were more aggressive. Broad-sense heritability ($h_g^2 $) was of medium magnitude for all groups of resistances for pathogens, with variation from 0·16 ± 0·019 (Fspp Pulp) to 0·31 ± 0·028 (Fspp Peel). The kinship matrix was used to correct for stratification as well as for clustering the accessions. Overall, this analysis showed that there was no relationship between agronomic traits and resistance to CRR and the four clusters obtained from kinship matrix. The GWAS identified 38 significant SNPs, of which eight and 22 are related to the severity of DRR in the pulp and peel, respectively. The other eight SNPs were associated with SRR-peel (1), SRR-pulp (1), BRR-peel (3) and BRR-pulp (3). Half of the SNPs associated with CRR resistance have functional annotations related to defence and response to pathogen attack as well as general cellular processes. The current study revealed that resistance to CRR is controlled by multiple loci with small effects, and significant SNPs can be used to identify putative genes that control these traits.

As demand for animal products, such as meat and milk, increases, and concern over environmental impact grows, mechanistic models can be useful tools to better represent and understand ruminant systems and evaluate mitigation options to reduce greenhouse gas emissions without compromising productivity. The objectives of the present study were to describe the representation of processes for growth and enteric methane (CH4) production in AusBeef, a whole-animal, dynamic, mechanistic model for beef production; evaluate AusBeef for its ability to predict daily methane production (DMP, g/day), gross energy intake (GEI, MJ/day) and methane yield (MJ CH4/MJ GEI) using an independent data set; and to compare AusBeef estimates to those from the empirical equations featured in the current National Academies of Sciences, Engineering and Medicine (NASEM, 2016) beef cattle requirements for growth and the Ruminant Nutrition System (RNS), a dynamic, mechanistic model of Tedeschi & Fox, 2016. AusBeef incorporates a unique fermentation stoichiometry that represents four microbial groups: protozoa, amylolytic bacteria, cellulolytic bacteria and lactate-utilizing bacteria. AusBeef also accounts for the effects of ruminal pH on microbial degradation of feed particles. Methane emissions are calculated from net ruminal hydrogen balance, which is defined as the difference between inputs from fermentation and outputs due to microbial use and biohydrogenation. AusBeef performed similarly to the NASEM empirical model in terms of prediction accuracy and error decomposition, and with less root mean square predicted error (RMSPE) than the RNS mechanistic model when expressed as a percentage of the observed mean (RMSPE, %), and the majority of error was non-systematic. For DMP, RMSPE for AusBeef, NASEM and RNS were 24·0, 19·8 and 50·0 g/day for the full data set (n = 35); 25·6, 18·2 and 56·2 g/day for forage diets (n = 19); and 21·8, 21·5 and 41·5 g/day for mixed diets (n = 16), respectively. Concordance correlation coefficients (CCC) were highest for GEI, with all models having CCC > 0·66, and higher CCC for forage diets than mixed, while CCC were lowest for MY, particularly forage diets. Systematic error increased for all models on forage diets, largely due to an increase in error due to mean bias, and while all models performed well for mixed diets, further refinements are required to improve the prediction of CH4 on forage diets.

The present study evaluated the behaviour of the AusBeef model for beef production as part of a 2 × 2 study simulating performance on forage-based and concentrate-based diets from Oceania and North America for four methane (CH4)-relevant outputs of interest. Three sensitivity analysis methods, one local and two global, were conducted. Different patterns of sensitivity were observed between forage-based and concentrate-based diets, but patterns were consistent within diet types. For the local analysis, 36, 196, 47 and 8 out of 305 model parameters had normalized sensitivities of 0, >0, >0·01 and >0·1 across all diets and outputs, respectively. No parameters had a normalized local sensitivity >1 across all diets and outputs. However, daily CH4 production had the greatest number of parameters with normalized local sensitivities >1 for each individual diet. Parameters that were highly sensitive for global and local analyses across the range of diets and outputs examined included terms involved in microbial growth, volatile fatty acid (VFA) yields, maximum absorption rates and their inhibition due to pH effects and particle exit rates. Global sensitivity analysis I showed the high sensitivity of forage-based diets to lipid entering the rumen, which may be a result of the use of a feedlot-optimized model to represent high-forage diets and warrants further investigation. Global sensitivity analysis II showed that when all parameter values were simultaneously varied within ±10% of initial value, >96% of output values were within ±20% of the baseline, which decreased to >50% when parameter value boundaries were expanded to ±25% of their original values, giving a range for robustness of model outputs with regards to potential different ‘true’ parameter values. There were output-specific differences in sensitivity, where outputs that had greater maximum local sensitivities displayed greater degrees of non-linear interaction in global sensitivity analysis I and less variance in output values for global sensitivity analysis II. For outputs with less interaction, such as the acetate : propionate ratio and microbial protein production, the single most sensitive term in global sensitivity analysis I contributed more to the overall total-order sensitivity than for outputs with more interaction, with an average of 49, 33, 15 and 14% of total-order sensitivity for microbial protein production, acetate : propionate ratio, CH4 production and energy from absorbed VFAs, respectively. Future studies should include data collection for highly sensitive parameters reported in the present study to improve overall model accuracy.

The current experiment was conducted to evaluate the effects of different dietary protein levels and rumen-protected folic acid (RPFA) supplementation on ruminal fermentation, microbial enzyme activity, bacterial populations and urinary excretion of purine derivatives (PD) in growing beef steers. Low-protein (LP) or high-protein (HP) diets were fed to eight ruminally cannulated first-generation cross-bred (Blonde d'Aquitaine × Simmental) beef steers with or without RPFA supplementation. Steers were fed a total mixed ration, and dietary concentrate to maize silage ratio was 50 : 50 (dry matter (DM) basis). No interaction between dietary crude protein (CP) levels and RPFA supplementation was observed during the experiment. Ruminal pH was unaffected by RPFA supplementation, but decreased with increasing dietary CP levels. Ruminal total volatile fatty acid concentration increased with increasing dietary CP levels or RPFA supplementation. Molar proportion of acetate increased with RPFA supplementation, but tended to decrease with increasing dietary CP levels. The proportion of propionate decreased with RPFA supplementation, but was unaffected by dietary CP levels. As a result, the acetate to propionate ratio increased with RPFA supplementation, but tended to be lower for the HP diets than the LP diets. Ammonia-nitrogen content decreased with RPFA supplementation, but increased with increasing dietary CP levels. In situ ruminal degradability of maize straw and concentrate increased with increasing dietary CP levels or RPFA supplementation. Microbial enzyme (carboxymethyl-cellulase, cellobiase, xylanase, pectinase, α-amylase and protease) activity, bacterial populations (Ruminococcus albus, Ruminococcus flavefaciens, Butyrivibrio fibrisolvens, Prevotella ruminicola, Fibrobacter succinogenes and Ruminobacter amylophilus) and urinary PD excretion increased with increasing dietary CP levels or RPFA supplementation. The current study showed that increasing dietary CP levels from 109·1 to 130·7 g/kg DM or supplementing 75 mg RPFA improved ruminal fermentation and microbial protein synthesis by increasing bacterial population and microbial enzyme activity.

Heat stress (HS) is among the major limiting factors to growth of broilers. Heat stress also results in changes in the characteristics of the carcass, such as an increase in fat deposition. The molecular mechanisms responsible for fat deposition in broilers as a response to HS remain unknown. The current study aimed to describe the molecular mechanisms associated with the effects of high temperature and feed restriction due to chronic heat exposure at 32 °C, and to describe the resulting changes in the growth performance and carcass characteristics of the broilers at 21 and 42 days of age. In the current study, 441 male Cobb-500® broilers were subjected to three treatments that differed in rearing temperature and feeding regime: chronic HS fed ad libitum (HS/AL), thermoneutral environment fed ad libitum (TN/AL) and TN and pair-feeding on the feed intake (FI) of the heat-exposed group (TN/PF). HS increased fat content in the breast and wings and decreased fat content in the legs, but did not influence abdominal fat. These effects occurred regardless of reducing consumption induced by HS. Furthermore, HS, independently of reduced FI, increased liver sterol-regulatory element-binding protein-1 (SREBP-1) mRNA in both ages and growth hormone receptor (GHR) mRNA at 42days, whereas feed restriction reduced GHR mRNA only at 21days. In conclusion, increased fat content in the breast and wings was accompanied by a higher gene expression of GHR and SREBP-1, suggesting the involvement of both genes in the control of fat deposition in broilers exposed to HS.