Effects of dietary moisture content of extruded diets on physical feed quality and nutritional response in Atlantic salmon (Salmo salar)

Feeds in modern aquaculture must be of high physical quality to withstand mechanical impacts. However, physical quality of feed has been shown to affect nutritional responses. In this study, different physical feed qualities were created using different drying time. Effects on physical feed quality, feed intake, nutrient digestibility and growth in Atlantic salmon were investigated. Different drying times of four commercial‐like diets resulted in dry matter contents of 95.9%, 94.1%, 92.3% and 90.8%. A fifth diet containing 70% dry matter was made by soaking pellets. Triplicate groups of Atlantic salmon (961 ± 12.1 g ind^?1, mean ± SEM) were first fed ad libitum and thereafter a restricted ration. The diets differed significantly in bulk density, DORIS durability, hardness, water stability after 60 and 120 min, but not in water stability after 240 min. Feed intake and growth were not affected by physical quality of the dry diets, whereas soaking had a positive effect on feed intake. Restricted compared with ad libitum feeding increased nutrient digestibility, but digestibility was not affected by varying drying time among diets. However, soaking resulted in slightly reduced digestibility of starch. Most methods used to analyse physical quality did not correlate with feed intake and growth; only long‐term water stability affected feed intake.     

Use of planted biofilters in integrated recirculating aquaculture‐hydroponics systems in the Mekong Delta,Vietnam

The feasibility of using planted biofilters for purification of recirculated aquaculture water in the Mekong Delta of Vietnam was assessed. The plant trenches were able to clean tilapia aquaculture water and to maintain good water quality in the fish tanks without renewal of the water. NH₄‐N was removed efficiently in the plant trenches, particularly in the trenches with Canna glauca L., probably because of plant uptake and nitrification–denitrification. Plant uptake constituted 6% of N and 7% of P in the input feed. Approximately 1.0 m³ of water was needed per kg of fish produced, and 370, 97 and 2842 g fresh aboveground biomass of Ipomoea aquatica Forssk., Lactuca sativa L. and C. glauca, respectively, were produced. The leafy vegetables provide some extra income besides fish products, whereas C. glauca provides nice flowers and contributes to a significant nutrient removal with annual uptake rates of 725 kg N and 234 kg P ha^?1 year^?1. This research demonstrates that integrated recirculating aquaculture‐hydroponics (aquaponics) systems provide significant water savings and nutrient recycling as compared with traditional fish ponds.     

Proposal for a unified nomenclature for target‐site mutations associated with resistance to fungicides

Evolved resistance to fungicides is a major problem limiting our ability to control agricultural, medical and veterinary pathogens and is frequently associated with substitutions in the amino acid sequence of the target protein. The convention for describing amino acid substitutions is to cite the wild‐type amino acid, the codon number and the new amino acid, using the one‐letter amino acid code. It has frequently been observed that orthologous amino acid mutations have been selected in different species by fungicides from the same mode of action class, but the amino acids have different numbers. These differences in numbering arise from the different lengths of the proteins in each species. The purpose of the present paper is to propose a system for unifying the labelling of amino acids in fungicide target proteins. To do this we have produced alignments between fungicide target proteins of relevant species fitted to a well‐studied ‘archetype’ species. Orthologous amino acids in all species are then assigned numerical ‘labels’ based on the position of the amino acid in the archetype protein. © 2016 The Authors. Pest Management Science published by John Wiley & Sons Ltd on behalf of Society of Chemical Industry.     

Landscape complexity has limited effects on the genetic structure of two arable plant species,Adonis aestivalis and Consolida regalis

The agricultural landscape of central Europe has changed dramatically in recent decades due to intensified cultivation, bringing many of its characteristic species to the brink of extinction. We investigated whether landscape structure affects the genetic structure and diversity of remnant populations of the two arable plant species Adonis aestivalis and Consolida regalis. We used dominant amplified fragment length polymorphism markers (AFLPs) and compared populations from six regions of 5 km² in central Germany. These regions represent two different classes of landscape structural complexity: intensively used, homogeneous landscapes (>95% of area covered by arable land with low extent of field margins) or heterogeneous regions (<60% of area covered by arable land with large extent of field margins). Contrary to expectations, within‐population diversity levels did not significantly differ between homogeneous and heterogeneous landscapes. No significant isolation‐by‐distance was found for either species, regardless of landscape structure, and genetic structures may still mirror more continuous conditions before large‐scale restructuring commenced in Germany's arable landscapes from the 1950s onwards. These results suggest that current landscape complexity, as such, is not as important for local‐level genetic structure for the species studied. Thus, homogenised and intensively used landscapes may also be important for the conservation of arable plant diversity and should not be neglected.     

Modelling above and below ground carbon dynamics in a mixed beech and spruce stand influenced by climate

Tree growth and carbon dynamics are important issues especially in the context of climate change. However, we essentially lack knowledge about the effects on carbon dynamics especially in mixed stands. Thus, the objective of this study was to test the effects of climatic changes on the above and below ground carbon dynamics of a mixed stand of Norway spruce (Picea abies [L.] Karst.) and European beech (Fagus sylvatica L.) by means of scenario simulations. To account for the typical tree interactions in a mixed-species stand a spatial explicit tree growth model based on eco-physiological processes was applied. Three different climate scenarios considering altered precipitation, temperature, and radiation were calculated for an unthinned and a thinned stand. The results showed significant changes of above and belowground biomass over time, especially when temperature and radiation were increased additionally to decreased precipitation. The reduction in biomass increments of Norway spruce were more attenuated above than below ground. In contrast, the results for beech were the opposite: The belowground increments were reduced more. These results suggest a shift in the species contribution to above and belowground biomass under dryer and warmer conditions. Distinct effects were also found when thinned and unthinned stands were compared. A reduced stand density changed the proportions of above and below ground carbon allocation. As a main reason for the changed growth reactions the water balance of trees was identified which lead to changed biomass allocation pattern. This article belongs to the special issue “Growth and defence of Norway spruce and European beech in pure and mixed stands”.     

The potential of high-resolution BAC-FISH in banana breeding

The genetic complexity in the genus Musa has been subject of study in many breeding programs worldwide. Parthenocarpy, female sterility, polyploidy in different cultivars and limited amount of genetic and genomic information make the production of new banana cultivars difficult and time consuming. In addition, it is known that part of the cultivars and related wild species in the genus contain numerous chromosomal rearrangements. In order to produce new cultivars more effectively breeders must better understand the genetic differences of the potential crossing parents for introgression hybridization, but extensive genetic information is lacking. As an alternative to achieve information on genetic collinearity we make use of modern chromosome map technology known as high-resolution fluorescent in situ hybridization (FISH). This article presents the technical aspects and applications of such a technology in Musa species. The technique deals with BAC clone positioning on pachytene chromosomes of Calcutta 4 (Musa acuminata ssp. burmanicoides, A genome group, section Eumusa) and M. velutina (section Rodochlamys). Pollen mother cells digestion with pectolytic enzymes and maceration with acetic acid were optimized for making cell spread preparations appropriate for FISH. As an example of this approach we chose BAC clones that contain markers to known resistance genes and hybridize them for establishing their relative positions on the two species. Technical challenges for adapting existing protocols to the banana cells are presented. We also discuss how this technique can be instrumental for validating collinearity between potential crossing parents and how the method can be helpful in future mapping initiatives, and how this method allows identification of chromosomal rearrangements between related Musa species and cultivars.     

A forest optimisation model including carbon flows: Application to a forest in Norway

We analyse which management to choose in order to increase the carbon benefit from the 1.342 million ha forest area in Hedmark County, Norway, and the cost of doing this compared to traditional profit maximising behaviour. The model used in the analysis is a dynamic forest management optimisation model which includes the main carbon flows and benefits from the forest area: tree growth and mortality, litter accumulation, decomposition of dead wood and harvest residues, soil processes, end-use of wood products, and saved greenhouse gas emissions from using wood products instead of more energy intensive materials and fossil fuels.     

Decomposition of stump and root systems of Norway spruce in Sweden—A modelling approach

The demand for quantifying the biomass of stumps and roots and the carbon stored therein is related to aspects of biodiversity, site productivity, atmospheric carbon cycling issues, and the demand for bioenergy. This, in turn, creates a need to develop high-quality tools for estimating biomass and carbon-equivalents in the ground. The objective of this study was to develop decomposition functions for quantifying the remaining dry weight of the biomass of individual stumps and their associated roots in Norway spruce (Picea abies (L.) Karst.). The negative exponential model was chosen for this purpose, combined with a chronosequence approach, involving 99 stumps and their roots from three sites in Sweden. The results showed a relative decay rate of 4.6% annually for stump and root systems. Based on this rate, the time required for the loss of 50% (t_0.5) and 95% (t_0.95) of the wood is 15 and 64 years, respectively. Although there are many variables that affect decomposition, residual studies indicated that the remaining biomass could be predicted fairly accurately on the basis of the independent variables stump diameter and time.     

Assessing the importance of genotype × environment interaction for root traits in rice using a mapping population III: QTL analysis by mixed models

The phenotypic analysis of field experiments includes information about the experimental design, the randomization structure and a number of putative dependencies of environment and design factors on the trait investigated. In QTL studies, the genetic correlation across environments, which arises when the same set of lines is tested in multiple environments, plays an important role. This paper investigates the effect of model choice on the set and magnitude of detected root QTL in rice. Published studies on QTLs for root traits indicate that different results are obtained if varying genetic populations are used and also if different environmental conditions are included. An experiment was conducted with 168 RILs of the Bala × Azucena mapping population plus parents as checks under four environmental conditions (low light, low nitrogen, drought and a control environment). We propose a model that incorporates all relevant experimental information into a composite interval mapping approach based on a mixed model, which especially considers the correlation of genotypes in different environments. An extensive sequential model selection procedure was applied based on the phenotypic model, using the AIC to determine an appropriate random structure and Type 3 Wald F-tests for selection of fixed effects. In a first step we checked whether any of the fixed effects and random (nested) design effects could be dropped. Secondly, an appropriate covariance structure was chosen for genotype × environment interaction. In a third step Box-Cox transformations were applied based on residual analysis. We compared profiles of composite interval mapping scans with and without the inclusion of genotype × environment interaction and the experimental design information. Some distinct differences in profiles indicate that insufficient modeling of the non-QTL part can lead to an overly optimistic interpretation of QTL main effects in interval mapping. It is concluded that mixed model QTL mapping offers a reasonable way to separate environmental and genetic influences in the evaluation of quantitative genes and especially enables a more realistic assessment of QTL and QTL × environment effects than standard approaches by including all relevant effects.