Segment-based coancestry,additive relationship and genetic variance within and between the Norwegian and the Swedish Fjord horse populations

ABSTRACT

The Fjord horse originates from Norway but forms a global population due to several small populations in foreign countries. There exists no information about the additive relationship and the genetic variance between these subpopulations. By collecting blood samples from Norwegian and Swedish Fjord horses, a sample of 311 Norwegian and 102 Swedish horses gave 485,918 SNPs available for analysis. Their inbreeding coefficients were calculated and compared to the pairwise coancestry and the shared genomic segments. The effective population size was almost similar with the two methods in the Norwegian Fjord horse population (63 and 71), but very different in the Swedish population (269 and 1136) and unprecise due to a much smaller number of observations. The study showed that coancestry from shared genomic segments can be used to estimate additive genetic relationship and genetic variation within and between the global populations of the Fjord horse.     

How are the salmon lice (Lepeophtheirus salmonis Krøyer, 1837) in Atlantic salmon farming affected by different control efforts: A case study of an intensive production area with coordinated production cycles and changing delousing practices in 2013–2018

The aims of the present study were to describe the salmon lice (Lepeophtheirus salmonis Krøyer, 1837) situation in an intensive salmon production area in mid‐Norway and to consider implications of changing practices of how salmon lice infestation can be controlled. The results in this study suggest that there are steps that can be carried out to keep salmon lice under control even during years when the temperature facilitates a quick salmon lice development. The present work indicates that the use of cleaner fish can delay the time it takes adult female lice to reach 0.1 per salmon in the beginning of a production cycle. It suggests that the timing of cleaner fish deployment into salmon cages can influence its effectiveness in controlling salmon lice. It also gives caution to letting salmon lice develop unchecked, even at levels far below the current lice limit, because of the difficulties to control salmon lice when the external infection pressure is too high. This study took place during a rapid change in delousing methods, in an area with coordinated salmon production. Despite its exploratory nature, this study offers insights into the salmon lice fluctuations in relation to efforts aimed at controlling it.     

Digestion of lipids and carbohydrates from microalgae (Chaetoceros muelleri Lemmermann and Isochrysis aff. galbana clone T‐ISO) in juvenile scallops (Pecten maximus L.)

The digestion of laminaran and neutral lipids from the microalgae Chaetoceros muelleri or mixtures of C. muelleri and Isochrysis galbana clone T‐ISO in 4‐mm scallops Pecten maximus were studied. The microalgae were cultivated at fixed low and high growth rate (5% and 60% of μ_max). The cultivation method clearly affected the lipid and carbohydrate contents, as well as their enzyme activity. Chaetoceros muelleri and T‐ISO grown at low growth rate exhibited a considerably higher content of lipids and carbohydrates than those algae grown at high growth rate. The specific activity of laminaranase and neutral lipase was the highest in C. muelleri grown at the low growth rate. Growth rate of scallops was best when they were fed a mono‐species diet of C. muelleri grown at low growth rate. The growth rate of the scallops was positively correlated to the dietary carbohydrate content as well as to the specific activity of neutral lipase and laminaranase in the diet. The capacity to digest carbohydrates (laminaran) might be limiting for the young scallops, and the content of carbohydrates and enzymatic activities of laminaran in the diet should be considered when formulating an optimal diet, both when the diet consist of live microalgae and formulated diets.     

Association mapping and marker development of the candidate genes (1 → 3),(1 → 4)-β-d-Glucan-4-glucanohydrolase and (1 → 4)-β-Xylan-endohydrolase 1 for malting quality in barley

Cell wall degradation is a crucial process within the malting process of barley. Therefore, the haplotype diversity of genes for two cell wall degrading enzymes, (1 → 3),(1 → 4)-β-d-Glucan-4-glucanohydrolase and (1 → 4)-β-Xylan-endohydrolase 1, was investigated and associations to malting quality parameters were performed. The (1 → 3),(1 → 4)-β-d-Glucan-4-glucanohydrolase gene glb2 had two major haplotypes defined by three SNPs and one INDEL, which explained 8.9 and 9.5% of the total variation of malt extract content and viscosity in the spring barley gene pool, respectively. The most significant associations of (1 → 4)-β-Xylan-endohydrolase 1 gene X-1 were found for diastatic power, saccharification VZ45 and soluble nitrogen with 18, 12 and 8% of the total variation explained by SNP3 in the spring barleys. High-throughput markers were developed for both genes which can be used for marker assisted selection.     

Do effects of soil compaction persist after ploughing? Results from 21 long-term field experiments in Sweden

The extent and persistence of the effect of soil compaction in a system with annual ploughing were investigated in 21 long-term field experiments in Sweden with a total of 259 location-years. Crop yield, soil physical properties and plant establishment were determined. All experiments had two common treatments: control (no extra traffic) and compacted (350 Mg km ha⁻¹ of experimental traffic in the autumn prior to ploughing), using a tractor and trailer with traditional wheel equipment and an axle load restricted to 4 Mg. During the rest of the year, both treatments were conventionally and equally tilled. The compaction was repeated each autumn for at least 7 years, and the yield was determined each year until 5 years after the termination of the compaction treatment.

Compaction decreased the porosity and the proportion of large pores and increased the tensile strength of dry aggregates. On clay and loam soils, it decreased the proportion of fine aggregates in the seedbed and the gravimetric soil water content in the seedbed.

The yield in the compacted treatment declined compared with the control during the first 4 years, after which it reached steady state. During this steady state, the compaction treatment caused a yield loss of 11.4%, averaged over 107 location-years. Within 4–5 years after the termination of the compaction treatment, the yield returned to the control level. The average yield loss at individual sites increased with increasing clay content.

Results from additional treatments indicated that yield loss was linearly correlated with the amount of traffic up to 300–400 Mg km ha⁻¹. With greater ground contact pressure or a greater soil water content at time of traffic, there was a greater yield loss.

Soil compaction effects on yield were similar for all spring-sown crops, and the percentage yield loss seemed to be independent of the yield. In a few location-years with winter wheat there was on average no yield decrease.

There were 5.1% less plants in the compacted treatment than in the control. The yield decrease was significantly correlated with the number of plants.

Between years results were highly variable, and no consistent correlations between yield loss and soil water content at the time of traffic or the weather conditions during the growing period were found. Soil compaction affected yield during years with good as well as poor conditions for crop growth.     

Physiological and metabolic properties of a digestion-resistant maltodextrin, classified as type 3 retrograded resistant starch

There is a growing interest in highly fermentable dietary fibers having the potential to reduce risks of disease through the production of short-chain fatty acids (SCFA). Recently a digestion-resistant retrograded maltodextrin (RRM), classified as type 3 resistant starch was developed. Systematic work to determine its molecular and physiological properties was carried out to determine (1) the fraction resistant to digestion in vitro and in vivo, (2) its postconsumption effect on blood glucose in healthy volunteers, and (3) its in vitro fermentation pattern, at different ages, by use of pooled fresh human fecal inoculum. RESULTS: The digestion resistant fraction obtained in vivo from ileostomy patients (59.4%) is similar to that obtained by the AOAC method for measuring retrograded resistant starch (59.7%). The relative glycemic response after consumption of 50 g of RRM was 58.5% compared to glucose set as 100%. When exposed to colonic microbiota, in vitro obtained indigestible fractions behave similarly to those obtained in vivo in ileostomy patients. Fermentation of RRM and production of butyric acid is negligible during the first months of life but develops subsequently during weaning. In adults, RRM fermentation results in a high yield of SCFA, with butyrate representing 21-31 mol % of total SCFA. The high yield of SCFA during colonic fermentation, observed from weaning age on, as well as the potential to help reduce glycemic load may be of benefit to a number of health-related functions in the host. Further study on clear clinical end points is warranted.     

良好的种蛋贮存有助于获得更多的雏鸡

种蛋的孵化率很大程度取决于种鸡群的繁殖力,但是种蛋的贮存也是一个主要决定因素（图1）。防止出现胚胎死亡是种蛋贮存的首要任务,而且这取决于许多影响因素。     

Use of in-growth soil cores in mesh bags for studies of relations between soil compaction and root growth

Using in-growth soil cores in cylindrical mesh bags, the effects of 3 soil compaction treatments on growth of crop roots were studied in a sandy soil. The bags were inserted after crop emergence in holes (70 mm diameter; 60 cm depth) augered in the soil in crop row interspaces. In 1984 (with rapessed), at all sampling dates, root biomass in the inserted cores decreased with increased compaction of the plough layer (0–25 cm) as well as the subsoil (25–60 cm). Root biomass in the subsoil was low. In 1985 (with wheat), the effects of compaction in the subsoil were similar, although root biomass was greater than in 1984. However, in the plough layer there were significant differences in root biomass on only one sampling date. The mesh bag technique should be a useful complement to other field methods in studies of relations between physical soil characteristics or tillage treatments and root growth.     

Oxidative stress drives divergent evolution of the glutathione peroxidase (GPX) gene family in mammals

The molecular basis for adaptations to extreme environments can now be understood by interrogating the ever-increasing number of sequenced genomes. Mammals such as cetaceans, bats, and highland species can protect themselves from oxidative stress, a disruption in the balance of reactive oxygen species, which results in oxidative injury and cell damage. Here, we consider the evolution of the glutathione peroxidase (GPX) family of antioxidant enzymes by interrogating publicly available genome data from 70 mammalian species from all major clades. We identified 8 GPX subclasses ubiquitous to all mammalian groups. Mammalian GPX gene families resolved into the GPX4/7/8 and GPX1/2/3/5/6 groups and are characterized by several instances of gene duplication and loss, indicating a dynamic process of gene birth and death in mammals. Seven of the eight GPX subfamilies (all but GPX7) were under positive selection, with the residues under selection located at or close to active sites or at the dimer interface. We also reveal evidence of a correlation between ecological niches (e.g. high oxidative stress) and the divergent selection and gene copy number of GPX subclasses. Notably, a convergent expansion of GPX1 was observed in several independent lineages of mammals under oxidative stress and may be important for avoiding oxidative damage. Collectively, this study suggests that the GPX gene family has shaped the adaption of mammals to stressful environments.