Practical application of genomic selection in a doubled-haploid winter wheat breeding program

Crop improvement is a long-term, expensive institutional endeavor. Genomic selection (GS), which uses single nucleotide polymorphism (SNP) information to estimate genomic breeding values, has proven efficient to increasing genetic gain by accelerating the breeding process in animal breeding programs. As for crop improvement, with few exceptions, GS applicability remains in the evaluation of algorithm performance. In this study, we examined factors related to GS applicability in line development stage for grain yield using a hard red winter wheat (Triticum aestivum L.) doubled-haploid population. The performance of GS was evaluated in two consecutive years to predict grain yield. In general, the semi-parametric reproducing kernel Hilbert space prediction algorithm outperformed parametric genomic best linear unbiased prediction. For both parametric and semi-parametric algorithms, an upward bias in predictability was apparent in within-year cross-validation, suggesting the prerequisite of cross-year validation for a more reliable prediction. Adjusting the training population’s phenotype for genotype by environment effect had a positive impact on GS model’s predictive ability. Possibly due to marker redundancy, a selected subset of SNPs at an absolute pairwise correlation coefficient threshold value of 0.4 produced comparable results and reduced the computational burden of considering the full SNP set. Finally, in the context of an ongoing breeding and selection effort, the present study has provided a measure of confidence based on the deviation of line selection from GS results, supporting the implementation of GS in wheat variety development.     

Ostracism of an Albino Individual by a Group of Pigmented Catfish

Physiological and behavioural constraints hinder albino individuals. Albino animals are rare in the wild; this trait is associated with easy detection by predators, non-native or damaged environments, and exclusively aphotic environments in total darkness. The social aspect of albinism is reported only for human beings, and the effect is distinguishable in time and space when social benefits, are used to a limited the extent. Thus far, the social consequences of albinism for animals remain unknown. We used socially established groups of the pigmented catfish, (Silurus glanis), to observe space and temporal distance detachment of albino specimens in laboratory conditions. The albino fish were separated at larger distances from the group than pigmented individuals with the same social status determined by familiarity, and this asymmetry also varied in time. Albinism-related ostracism results in a solitary existence, usually followed by enhanced predation risk. The motivation for an individual’s exclusion from a group appears to be the avoidance of the predation risk that increases not only for an odd individual but also for conspecifics within a group. Our findings indicate a role for albinism in behavioural processes related to sociality in a group of conspecifics.     

Main determinants of rodent population fluctuations in managed Central European temperate lowland forests

Whilst studies have shown that climatic (North Atlantic Oscillation (NAO)) and biotic (acorn production) factors influence rodent populations, mechanisms driving temporal and spatial fluctuation of rodent populations are understudied. This study evaluates relationships between the influence of environmental factors (biotic and abiotic) and phenotypic characteristics across two rodent feeding guilds (granivorous and non-granivorous species) represented by four species of rodents in Central Europe. We hypothesise that the relationship between acorn density and population growth rate are indirectly affected by climatic factors (winter NAO) and that these effects differ amongst herbivorous and granivorous species. In addition, we also tested whether effects of weather and competition on individual phenotype characteristic vary amongst mast and non-mast years. Rodent populations were estimated by catching individuals in snap traps during the growing season (from March to November) over a period of 9 years at three sites. The results of the generalised linear model provide evidence that acorn production best explained the population fluctuations. We therefore conclude that the between-year population fluctuations in rodent abundance were governed by density dependence and initiated primarily by acorn mast years. Auto-regressive models also revealed direct density dependence in combination with the direct effects of mast years. Therefore, strong intraspecific competition for food is likely in years following mast years. Our results also showed that abundance of non-granivorous species is mainly influenced by local weather conditions which could regulate food quality and abundance. On the other hand, population dynamics of granivorous species are caused directly by acorn density and indirectly by climatic condition influencing acorn production.     

Optimized syntheses of Fmoc azido amino acids for the preparation of azidopeptides

The rise of CuI‐catalyzed click chemistry has initiated an increased demand for azido and alkyne derivatives of amino acid as precursors for the synthesis of clicked peptides. However, the use of azido and alkyne amino acids in peptide chemistry is complicated by their high cost. For this reason, we investigated the possibility of the in‐house preparation of a set of five Fmoc azido amino acids: β‐azido l ‐alanine and d ‐alanine, γ‐azido l ‐homoalanine, δ‐azido l ‐ornithine and ω‐azido l ‐lysine. We investigated several reaction pathways described in the literature, suggested several improvements and proposed several alternative routes for the synthesis of these compounds in high purity. Here, we demonstrate that multigram quantities of these Fmoc azido amino acids can be prepared within a week or two and at user‐friendly costs. We also incorporated these azido amino acids into several model tripeptides, and we observed the formation of a new elimination product of the azido moiety upon conditions of prolonged couplings with 2‐(1H‐benzotriazol‐1‐yl)‐1,1,3,3‐tetramethyluronium hexafluorophosphate/DIPEA. We hope that our detailed synthetic protocols will inspire some peptide chemists to prepare these Fmoc azido acids in their laboratories and will assist them in avoiding the too extensive costs of azidopeptide syntheses. Experimental procedures and/or analytical data for compounds 3 – 5 , 20 , 25 , 26 , 30 and 43 – 47 are provided in the supporting information. © 2017 The Authors Journal of Peptide Science published by European Peptide Society and John Wiley & Sons Ltd.     

Can habitat characteristics shape vertebral morphology in dolphins? An example of two phylogenetically related species from southern South America

Fast swimming pelagic cetacean species have osteological characteristics that promote a more stable spine in comparison to that of coastal species. The Peale's dolphin (Lagenorhynchus australis) and the hourglass dolphin (Lagenorhynchus cruciger) have a close phylogenetic relationship and are found in coastal and pelagic waters in the Southern Hemisphere, respectively. The aim of this work was to study the relationship between the vertebral column's morphology and its flexibility, across these species of contrasting habitats. Vertebral counts and multiple measurements of each vertebra were used to infer intervertebral flexibility. Bivariate plots and discriminant multivariate analyses were employed to compare each functional region along the vertebral column. Both species displayed a regionalization of the column into three stable regions and two flexible areas, which statistically differ in the proportion of the skeleton occupied in each species. While the Peale's dolphin has rounder vertebrae, associated with higher flexibility, the hourglass dolphin has disk‐shaped vertebrae and strongly inclined processes related to high stability. Although the species are closely related phylogenetically, vertebral morphology is influenced by a diverse set of ecological and behavioral factors, reflecting a high degree of vertebral plasticity within the genus.     

Isolation and partial characterization of ovine lentivirus in Czech Republic

The first isolation and partial characterization of ovine lentivirus in Czech Republic is described. The virus was isolated in a tissue culture system derived from plexus choroideus from sheep. The new isolate was compared with prototypic K1514 Maedi-Visna strain; these two viruses shared antigenic determinants as determined by serological testing. Both viral strains reacted in a PCR reaction with primers situated in thegag andpol gene. Based on similarities of growth characteristics, antigenic determinants and primer binding sites it can be concluded that the isolate OPM is an ovine lentivirus and is at least partly related to the prototypic Maedi-Visna strain K1514.     

Hunting among Moka Bubis in Bioko: dynamics of faunal exploitation at the village level

Hunting by Bubi villages around Moka, Bioko, and their impact on the local prey fauna was studied during July–August, 1992. Questionnaires were sent to 45 known hunters in the region in order to find out their techniques and hunting procedures. Hunting trips were also followed (a total of 204 km covered) and counts of animals brought to the villages from 103 recorded trips were also made. There were two main hunting methods employed: trapping and shooting. Most commonly used was snare trapping. At least five different types were used during the study. Guns were less commonly employed. Both techniques are efficient and productive but prey caught by each method differed. Most animals caught by snares were large rodents (Atherurus africanus, Cricetomys emini) and small antelopes (Cephalophus monticola) whereas those shot were usually antelopes (C. monticola and C. ogilbyi), monkeys (Cercopithecus spp.) and, when accompanied by dogs, drills (Mandrillus leucophaeus). The effects of hunting in the region is acute especially since they incur upon the proclaimed protected areas in the south of the island. Hunting trips are gradually being lengthened and areas which were originally unaffected by this activity are now part of the villages' hunting zones.