Fat or lean? The quantitative genetic basis for selection strategies of muscle and body composition traits in breeding schemes of rainbow trout (Oncorhynchus mykiss)

Quantitative genetic analyses of fish composition have been strongly biased towards lipid deposition, rather than protein deposition. This is partly at odds with desires of the modern aquaculture industry, to improve the efficiency of lean growth. Using a quantitative genetic approach, we examined the selection potential in both protein and lipid components of wet weight growth in rainbow trout over a two-year growth period. Two diet treatments were applied to test the hypothesis that an experimental, high protein, low lipid diet (HP) would enhance selection potential compared to the current modern, normal protein, high lipid diet (NP). We found that lipid traits (lipid body weight, percent muscle and body lipid; h² = 0.40) were more heritable than corresponding protein traits (protein body weight, percent muscle and body protein; h² = 0.18), indicating a higher selection potential for lipid traits. The results revealed further that breeding for improved lipid composition over the whole growth period is easier than for protein composition. This was shown by the high favourable genetic correlations between differently aged fish for lipid traits. In contrast, the respective correlations for protein traits were low or even negative. Similarly, the genetic correlations between muscle and body composition were higher for lipid than for protein, enhancing selection efforts to change lipid traits. Heritabilities increased with age, implying that selection practiced on old (> 800 g) rather than young (< 60 g) fish should be more effective in achieving a compositional response. Although the diet had a significant effect on the composition traits, there was no general trend for diet differences in heritabilities of either protein or lipid traits. Thus, the hypothesis of increased selection potential on HP diet was not supported. In conclusion, lipid traits are both more variable and exhibit more favourable genetic architecture for selection compared to protein traits.     

Development of a molecular test to determine the vitality status of Norway spruce (Picea abies) seedlings during frozen storage

In boreal forest regions, a great portion of forest tree seedlings are stored indoors in late autumn to prevent seedlings from outdoor winter damage. For seedlings to be able to survive in storage it is crucial that they store well and can cope with the dark and cold storage environment. The aim of this study was to search for genes that can determine the vitality status of Norway spruce (Picea abies (L.) Karst.) seedlings during frozen storage. Furthermore, the sensitivity of the ColdNSure? test, a gene activity test that predicts storability was assessed. The storability of seedlings was tested biweekly by evaluating damage with the gene activity test and the electrolyte leakage test after freezing seedlings to ?25?°C (the SEL_diff-25 method). In parallel, seedlings were frozen stored at ?3?°C. According to both methods, seedlings were considered storable from week 41. This also corresponded to the post storage results determined at the end of the storage period. In order to identify vitality indicators, Next Generation Sequencing (NGS) was performed on bud samples collected during storage. Comparing physiological post storage data to gene analysis data revealed numerous vitality related genes. To validate the results, a second trial was performed. In this trial, gene activity was better in predicting seedling storability than the conventional freezing test; this indicates a high sensitivity level of this molecular assay. For multiple indicators a clear switch between damaged and vital seedlings was observed. A collection of indicators will be used in the future development of a commercial vitality test.     

Whole-genome shotgun sequencing of mitochondria from ancient hair shafts

Although the application of sequencing-by-synthesis techniques to DNA extracted from bones has revolutionized the study of ancient DNA, it has been plagued by large fractions of contaminating environmental DNA. The genetic analyses of hair shafts could be a solution: We present 10 previously unexamined Siberian mammoth (Mammuthus primigenius) mitochondrial genomes, sequenced with up to 48-fold coverage. The observed levels of damage-derived sequencing errors were lower than those observed in previously published frozen bone samples, even though one of the specimens was >50,000 14C years old and another had been stored for 200 years at room temperature. The method therefore sets the stage for molecular-genetic analysis of museum collections.