Genetic relationships between anther and stigma traits revealed by QTL analysis in two rice advanced-generation backcross populations

Anther and stigma size are critical floral traits that influence outcrossing in rice (Oryza sativa), a crop that is predominantly self-fertilizing. The efficiency of hybrid rice seed production depends on efficient outcrossing ability of parental lines, which is promoted by increased anther and stigma size. Phenotypic correlations between anther and stigma traits have been observed in many studies; however, evidence for this relationship is unclear and the genetic basis remains to be elucidated. To examine this relationship and to identify quantitative trait loci (QTLs) for increased anther and stigma size, we developed two advanced backcross QTL mapping populations derived from a cross between a Thai elite indica crop variety (SPR1) and an accession of common wild rice (O. rufipogon Griff.), which is predominantly outcrossing. One mapping population was selected for increased anther size while the other was selected for increased stigma size. We mapped QTLs for anther size and stigma size in both populations. Bulked segregant analysis was used to identify molecular markers associated with the selected traits. A total of 16 significant QTLs associated with anther and stigma traits were identified across the two populations, and these were located in five genomic regions on four chromosomes. Whereas three of these regions have been previously reported, two of them are newly identified and should be further explored for improving outcrossing ability in rice. The co-localization of QTL for anther and stigma traits strongly suggests some degree of shared developmental basis for these traits.     

Long-time 3D CFD modeling of sedimentation with dredging in a hydropower reservoir

Purpose

The purpose of the current study was to present a 3D computational fluid dynamics (CFD) model that can be used to predict long-term (11 years) bed changes in a reservoir due to sedimentation and dredging and that can be done with a reasonable computational time (18 h) on a desktop computer.

Materials and methods

The numerical model solved the Navier-Stokes equations on a 3D non-orthogonal unstructured grid to find the water velocities and turbulence. The convection-diffusion equation for suspended sediment transport was solved to find the sediment deposition pattern. Bed changes were computed and used to adjust the grid over time. Thereby, bed elevations over time were computed. The effect of dredging was also included in the model, and how this affected the bed elevation changes. The main feature of the numerical model enabling a reasonable computational time was implicit numerical methods giving the possibility to use long time steps.

Results and discussion

The results were compared with annually measured bed elevation changes in the reservoir over 11 years. This gave 11 figures of bed elevation changes, due to the combined effect of sedimentation and dredging. Comparing the annually computed and measured bed changes, there was a fair agreement for most of the years. The main deposition patterns were reproduced. The amount of sediments removed in three dredging campaigns were also computed numerically and compared with the measured values. Parameter tests were done for the grid size, fall velocity of the sediments, cohesion, and sediment transport formula. The deviation between computed and measured dredged sediment volumes was less than 16% for all these four parameters/formulas.

Conclusions

The 3D CFD numerical model was able to compute water flow, sediment transport, and bed elevation changes in a hydropower reservoir over a time period of 11 years. Field measurements showed reasonable agreement with the computed bed elevation changes. The results were most sensitive to the sediment particle fall velocity and cohesion of the bed material.

     

Ecosystem C and N dynamics affected by a modified spring barley trait with increased nitrogen use - a simulation case study

To what extent might a crop with increased plant N uptake efficiency and/or N demand increase plant biomass and soil carbon storage, decrease N leaching, and reduce the need for N fertilisation? This was assessed for a fertilised sandy loam site in central Sweden cultivated with spring barley for a four year period using a process based crop and soil simulation model (SOILN) calibrated to fit observations of field experiments with non-modified crops. Crop properties were changed in accordance with previous model applications to other crops with higher N uptake and utilisation efficiencies, to resemble potential effects of breeding. For the modified crops a doubling of daily uptake efficiency of soil mineral N and/or increase of radiation use efficiency by 30%, increased plant biomass by 3%–30%, decreased N leaching by 1%–30% and increased soil organic carbon (SOC) content by 1–12?g?C?m^?2 year^?1. The larger changes were mainly due to increased uptake efficiency. Fertilisation of the modified spring barley crop could be reduced while still producing the same plant biomass as the non-modified crop. The plant biomass to N leaching ratio of the modified crops increased. The simulated changes in plant biomass and SOC were sensitive to weather conditions suggesting that in situ experiments would need to cover a large range of weather conditions to evaluate the performance of new crop traits under climatic variability. The study suggests a strong need that field experiments are accompanied with model applications, when exploring the potential of the modified crops under variable conditions.     

Production and markets of modified wood in Russia

Understanding the state of market for modified wood as well as the forces that affect its future development will be essential for those seeking to enter the Russian market. Information on modified wood from websites of companies, research and development organisations, woodworking-oriented magazines and forums, and official Russian statistics were explored, and finally verified by personal contacts with experts. A number of modification methods have been either researched, developed or pre-commercialised during the past 15 years, but only few of them have been adopted by users. Mostly, the modification methods have been copied, further developed and commercialised from variations of thermal modification originally introduced in Western Europe. Modified wood products are still considered premium goods among Russian consumers. Political initiatives aim at increasing the share of wood in construction and renovation but also at import minimisation, which reduces the penetration of foreign producers into the markets. There are approximately 20 producers of thermally modified timber (TMT) with an overall annual capacity of 60,000–65,000 m³. The current annual market for TMT is estimated to be approximately €35–40 million. In contrast to the European mainstream end uses of TMT, there is also a market for massive and glued thermally modified logs in Russia.     

Genetic relationships of boxwood (<Emphasis Type="Italic">Buxus</Emphasis> L.) accessions based on genic simple sequence repeat markers

Boxwoods (Buxus L., Buxaceae) are popular woody landscape shrubs grown for their diverse forms and broad-leaved evergreen foliage. We used genic simple sequence repeat (genic-SSR) markers to assess genetic diversity and relatedness of 275 accessions from the National Boxwood Collection at the U.S. National Arboretum. Flow cytometry was conducted to determine the relative ploidy of each accession. Genic-SSR loci were highly variable among the accessions, detecting an average of 6.7 alleles per locus based on 17 primer pairs. Data were analyzed with a distance matrix based on Jaccard’s similarity index, followed by Unweighted Pair Group Method with Arithmetic Mean clustering. Two major clusters were identified, with four subclusters consisting of individual accessions from B. balearica Lam., B. bodinieri Lévl., B. harlandii Hance, B. microphylla Siebold et Zuccarini, B. sempervirens L., B. sinica (Rehd. et Wils.) M. Cheng, and their putative interspecific hybrids. The accessions generally clustered by cultivar, provenance, or species. Clustering within each group typically reflected breeding pedigrees, when known, and the clusters were supported by bootstrap results. This information will be used for breeding programs and collection management, and for identifying possible sources of disease tolerance for boxwood blight and other diseases and pests.     

Evaluation of the antibacterial residue surveillance programme in Danish pigs using Bayesian methods

Residues of pharmacological active substances or their metabolites might be found in food products from food-producing animals. Maximum Residue Limits for pharmacological active substances in foodstuffs of animal origin are established to assure high food safety standards. Each year, more than 20,000 samples are analysed for the presence of antibacterial residues in Danish pigs. This corresponds to 0.1% of the size of the slaughter pig population and more than 1% of the sows slaughtered. In this study, a Bayesian model was used to evaluate the Danish surveillance system accuracy and to investigate the impact of a potential risk-based sampling approach to the residue surveillance programme in Danish slaughter pigs. Danish surveillance data from 2005 to 2009 and limited knowledge about true prevalence and test sensitivity and specificity were included in the model. According to the model, the true antibacterial residue prevalence in Danish pigs is very low in both sows (～0.20%) and slaughter pigs (～0.01%). Despite data constraints, the results suggest that the current screening test used in Denmark presents high sensitivity (85-99%) and very high specificity (>99%) for the most relevant antibacterial classes used in Danish pigs. If high-risk slaughter pigs could be identified by taking into account antibacterial use or meat inspection risk factors, a potential risk-based sampling approach to antibacterial residue surveillance in slaughter pigs would allow reducing the sample size substantially, while increasing or maintaining the probability of detection. Hence, the antibacterial residue surveillance programme in Danish pigs would be more cost-effective than today.