PROGRESS ON IMPROVING AGRICULTURAL NITROGEN USE EFFICIENCY: UK-CHINA VIRTUAL JOINT CENTERS ON NITROGEN AGRONOM

● Virtual joint centers on N agronomy were established between UK and China. ● Key themes were improving NUE for fertilizers, utilizing livestock manures, and soil health. ● Improved management practices and technologies were identified and assessed. ● Fertilizer emissions and improved manure management are key targets for mitigation. Two virtual joint centers for nitrogen agronomy were established between the UK and China to facilitate collaborative research aimed at improving nitrogen use efficiency (NUE) in agricultural production systems and reducing losses of reactive N to the environment. Major focus areas were improving fertilizer NUE, use of livestock manures, soil health, and policy development and knowledge exchange. Improvements to fertilizer NUE included attention to application rate in the context of yield potential and economic considerations and the potential of improved practices including enhanced efficiency fertilizers, plastic film mulching and cropping design. Improved utilization of livestock manures requires knowledge of the available nutrient content, appropriate manure processing technologies and integrated nutrient management practices. Soil carbon, acidification and biodiversity were considered as important aspects of soil health. Both centers identified a range of potential actions that could be taken to improve N management, and the research conducted has highlighted the importance of developing a systems-level approach to assessing improvement in the overall efficiency of N management and avoiding unintended secondary effects from individual interventions. Within this context, the management of fertilizer emissions and livestock manure at the farm and regional scales appear to be particularly important targets for mitigation.     

Comparison of fecal culture and F57 real-time polymerase chain reaction for the detection of Mycobacterium avium subspecies paratuberculosis in Swiss cattle herds with a history of paratuberculosis

Background

Bovine paratuberculosis is an incurable chronic granulomatous enteritis caused by Mycobacterium avium subspecies paratuberculosis (MAP). The prevalence of MAP in the Swiss cattle population is hard to estimate, since only a few cases of clinical paratuberculosis are reported to the Swiss Federal Food Safety and Veterinary Office each year.Fecal samples from 1,339 cattle (855 animals from 12 dairy herds, 484 animals from 11 suckling cow herds, all herds with a history of sporadic paratuberculosis) were investigated by culture and real-time polymerase chain reaction (PCR) for shedding of MAP.

Results

By culture, MAP was detected in 62 of 445 fecal pools (13.9%), whereas PCR detected MAP in 9 of 445 pools (2.0%). All 186 samples of the 62 culture-positive pools were reanalyzed individually. By culture, MAP was grown from 59 individual samples (31.7%), whereas PCR detected MAP in 12 individual samples (6.5%), all of which came from animals showing symptoms of paratuberculosis during the study. Overall, MAP was detected in 10 out of 12 dairy herds (83.3%) and in 8 out of 11 suckling cow herds (72.7%).

Conclusions

There is a serious clinically inapparent MAP reservoir in the Swiss cattle population. PCR cannot replace culture to identify individual MAP shedders but is suitable to identify MAP-infected herds, given that the amount of MAP shed in feces is increasing in diseased animals or in animals in the phase of transition to clinical disease.     

Zero-inflated models for identifying disease risk factors when case detection is imperfect: Application to highly pathogenic avian influenza H5N1 in Thailand

Logistic regression models integrating disease presence/absence data are widely used to identify risk factors for a given disease. However, when data arise from imperfect surveillance systems, the interpretation of results is confusing since explanatory variables can be related either to the occurrence of the disease or to the efficiency of the surveillance system. As an alternative, we present spatial and non-spatial zero-inflated Poisson (ZIP) regressions for modelling the number of highly pathogenic avian influenza (HPAI) H5N1 outbreaks that were reported at subdistrict level in Thailand during the second epidemic wave (July 3rd 2004 to May 5th 2005). The spatial ZIP model fitted the data more effectively than its non-spatial version. This model clarified the role of the different variables: for example, results suggested that human population density was not associated with the disease occurrence but was rather associated with the number of reported outbreaks given disease occurrence. In addition, these models allowed estimating that 902 (95% CI 881–922) subdistricts suffered at least one HPAI H5N1 outbreak in Thailand although only 779 were reported to veterinary authorities, leading to a general surveillance sensitivity of 86.4% (95% CI 84.5–88.4). Finally, the outputs of the spatial ZIP model revealed the spatial distribution of the probability that a subdistrict could have been a false negative. The methodology presented here can easily be adapted to other animal health contexts.     

Photoperiod and temperature affects seasonal ovarian gene expression of p450 aromatase and gonadotropin receptors in Atlantic Salmon (Salmo salar L.) broodstock

Photoperiod and temperature modulated the seasonal pattern of ovarian gene expression of P450 aromatase, Follicle-Stimulating Hormone receptor and Luteinizing Hormone receptor in Atlantic salmon broodstock.     

Perceived damage and areas of needed research for wildlife pests of California agriculture

Many wildlife species cause extensive damage to a variety of agricultural commodities in California, with estimates of damage in the hundreds of millions annually. Given the limited availability of resources to solve all human–wildlife conflicts, we should focus management efforts on issues that provide the greatest benefit to agricultural commodities in California. This survey provides quantitative data on research needs to better guide future efforts in developing more effective, practical and appropriate methods for managing these species. We found that ground squirrels, pocket gophers, birds, wild pigs, coyotes and voles were the most common agricultural wildlife pest species in California. The damage caused by these species could be quite high, but varied by agricultural commodity. For most species, common forms of damage included loss of crop production and direct death of the plant, although livestock depredation was the greatest concern for coyotes. Control methods used most frequently and those deemed most effective varied by pest species, although greater advancements in control methods were listed as a top research priority for all species. Collectively, the use of toxicants, biocontrol and trapping were the most preferred methods for control, but this varied by species. In general, integrated pest management practices were used to control wildlife pests, with a special preference for those approaches that were efficacious and quick and inexpensive to apply. This information and survey design should be useful in establishing research and management priorities for wildlife pest species in California and other similar regions.     

Effects of large woody debris removal on physical characteristics of a sand-bed river

1. Removal of large woody debris (LWD) is one of the most widely practised stream alterations, particularly in sand-bed rivers of the south-eastern USA. Selective removal of LWD has been proposed as an alternative to orthodox non-selective clearing in order to conserve ecological resources, but methods for comparing hydraulic and environmental effects of selective and non-selective removal have not been developed. Conservation of stream habitats requires quantification of LWD removal impacts on physical habitat. 2. Physical characteristics of straightened, sand-bed reaches of the South Fork Obion River in western Tennessee, USA that were rich in LWD were compared with those in similar reaches where debris had recently been removed using selective removal guidelines. 3. The mean volume of LWD per unit water volume was 0.0545 in the uncleared reaches, but nearly 60% lower (0.0225) in the cleared reach. 4. A simple technique for predicting hydraulic roughness in channels with varying amounts of LWD was developed. Hydraulic roughness, as measured by the Darcy-Weisbach friction factor, was about 400% greater in uncleared reaches at base flow but declined to a level about 35% greater than for the cleared reaches at higher flows. Predicted friction factors were within 35% of measured friction factors at higher flows. 5. Physical habitat diversity in this channelized sand-bed stream was strongly related to the density of LWD. Flow conditions in the uncleared reaches were more heterogeneous than in the cleared reach, especially at low flow. At low flow, uncleared reaches tended to be shallower, have lower velocities, slightly finer bed material, and more heterogeneous conditions overall. Shannon indices based on depth and velocity were an average of 48% higher in uncleared reaches. 6. Bed sediments underneath and immediately adjacent to LWD formations were finer and contained more organic matter than sediments distant from LWD. However, when all bed samples were considered, organic content was positively correlated with median grain size.     

Genetic improvement of farmed tilapias: Biochemical characterization of strain differences in Nile tilapia

Four African wild strains (Egypt, Ghana, Senegal and Kenya) and four established Asian farmed strains of Nile tilapia, Oreochromis niloticus (popularly known in the Philippines as Taiwan, Thailand, Singapore and Israel) were analysed electrophoretically at 30 protein loci to estimate genetic differences among the strains. All strains shared alleles at 14 monomorphic and 16 variable loci. Among the African strains, characteristic allele frequency differences were observed at AAT-1 ^* 46 for Ghana and Senegal, ADH ^* 83 for Kenya, ADH ^* 120 for Senegal, G3PDH-2 ^* 300 for Egypt, IDDH ^* 67 for Senegal, sMDH-1 ^* 120 for Kenya and SOD ^* 150 for Senegal. Genetic distance values among the strains revealed a clustering of the farmed strains with Egypt and Ghana O. niloticus, a slight separation of the Senegal strain and a larger separation of the Kenya strain. This profile may reflect the origins of the few founder populations of this species previously introduced to Asia. It also confirms the wider genetic divergence of the Kenya strain (O. niloticus vulcani) from the others studied here, which are all O. n. niloticus. Observed heterozygosities of the strains ranged from 0.026 to 0.071, with the African wild strains the lower values (mean Ho = 0.036) and the farmed strains the higher ones (mean Ho = 0.056). The implications of these results to the ongoing tilapia genetic improvement programme in the Philippines are discussed.     

Effects of temperature change rate on nitrogen effluxes of Macrobrachium rosenbergii (DeMan)

Ammonia-N (NH4⁺ + NH³) and total nitrogen (TN) efflux rates of Macrobrachium rosenbergii were measured during stepwise temperature changes (26 °C → 22 °C → 18 °C → 22 °C → 26 °C) at different rates. Sudden temperature reductions did not affect efflux rates, but sudden temperature rises evoked rapid and high increases in the efflux rates. A direct relationship between ammonia-N excretion and water temperature was observed when gradual temperature changes were effected over a 5 h period. When the animals were acclimated to a new temperature for 72 h, no clear effects of temperature on the efflux rates were found. Sudden temperature changes resulted in an increased proportion of ammonia-N in the total nitrogen excreted. It is suggested that temperature changes during the shipment of M. rosenbergii should be avoided or made gradually.