479 research outputs found
Maize for silage II. The effect of urea and acid as preservative treament on rumen fermentations and on feeding values of silages
The rumen fermentations and N-balances of rumen fistulated sheep were studied on diets of silages treated with urea and acid preservative. The digestibilities and feeding values of the silages were also calculated. The experiment was performed according to 5 x 5 Latin-square design. The digestibilities were determined by total collection the collection period lasting seven days. The rumen samples were taken on the last two days during the collection periods before and 1.5, 3.0, 4.5 and 6.0 hours after feeding. Besides the silages the animals received mineral mixture and water ad libitum. Urea or acid treatment had no effect (P > 0.05) on the consumption of silage DM. The consumption ranged from 1.7 to 1.9 kg DM/100 kg liveweight. Urea did not have a clear effect on the VFA production in the rumen. It tended, however, to decrease the proportions of C3 and C4—C5 acids in the rumen. Acid preservative decreased the production of VFA and the proportion of C3-acid (P 0.05) were found between the energy values, which varied between 0,12—0.14 f.u./kg of silage. There were no differences in the N-balances of the animals on different diets. The balances were positive on all diets
Changes in the fine-scale genetic structure of Finland through the 20(th) century
Information about individual-level genetic ancestry is central to population genetics, forensics and genomic medicine. So far, studies have typically considered genetic ancestry on a broad continental level, and there is much less understanding of how more detailed genetic ancestry profiles can be generated and how accurate and reliable they are. Here, we assess these questions by developing a framework for individual-level ancestry estimation within a single European country, Finland, and we apply the framework to track changes in the fine-scale genetic structure throughout the 20(th) century. We estimate the genetic ancestry for 18,463 individuals from the National FINRISK Study with respect to up to 10 genetically and geographically motivated Finnish reference groups and illustrate the annual changes in the fine-scale genetic structure over the decades from 1920s to 1980s for 12 geographic regions of Finland. We detected major changes after a sudden, internal migration related to World War II from the region of ceded Karelia to the other parts of the country as well as the effect of urbanization starting from the 1950s. We also show that while the level of genetic heterogeneity in general increases towards the present day, its rate of change has considerable differences between the regions. To our knowledge, this is the first study that estimates annual changes in the fine-scale ancestry profiles within a relatively homogeneous European country and demonstrates how such information captures a detailed spatial and temporal history of a population. We provide an interactive website for the general public to examine our results. Author summary We have inherited our genomes from our parents, who, in turn, inherited their genomes from their parents, etc. Hence, a comparison between genomes of present day individuals reveals genetic population structure due to the varying levels of genetic relatedness among the individuals. We have utilized over 18,000 Finnish samples to characterize the fine-scale genetic population structure in Finland starting from a binary East-West division and ending up with 10 Finnish source populations. Furthermore, we have applied the resulting ancestry information to generate records of how the population structure has evolved each year between 1923 and 1987 in 12 geographical regions of Finland. For example, the war-related evacuation of Karelians from Southeast Finland to other parts of the country show up as a clear, sudden increase in the Evacuated ancestry elsewhere in Finland between 1939 and 1945. Additionally, different regions of Finland show very different levels of genetic mixing in 1900s, from little mixed regions like Ostrobothnia to highly mixed regions like Southwestern Finland. To distribute the results among general public, we provide an interactive website for browsing the municipality and region-level genetic ancestry profiles atPeer reviewe
Genetic support for the causal role of insulin in coronary heart disease
Epidemiological studies have identified several traits associated with CHD, but few of these have been shown to be causal risk factors and thus suitable targets for treatment. Our aim was to evaluate the causal role of a large set of known CHD risk factors using single-nucleotide polymorphisms (SNPs) as instrumental variables.Peer reviewe
Fine-Scale Genetic Structure in Finland
Coupling dense genotype data with new computational methods offers unprecedented opportunities for individual-level ancestry estimation once geographically precisely defined reference data sets become available. We study such a reference data set for Finland containing 2376 such individuals from the FINRISK Study survey of 1997 both of whose parents were born close to each other. This sampling strategy focuses on the population structure present in Finland before the 1950s. By using the recent haplotype-based methods ChromoPainter (CP) and FineSTRUCTURE (FS) we reveal a highly geographically clustered genetic structure in Finland and report its connections to the settlement history as well as to the current dialectal regions of the Finnish language. The main genetic division within Finland shows striking concordance with the 1323 borderline of the treaty of Noteborg. In general, we detect genetic substructure throughout the country, which reflects stronger regional genetic differences in Finland compared to, for example, the UK, which in a similar analysis was dominated by a single unstructured population. We expect that similar population genetic reference data sets will become available for many more populations in the near future with important applications, for example, in forensic genetics and in genetic association studies. With this in mind, we report those extensions of the CP + FS approach that we found most useful in our analyses of the Finnish data.Peer reviewe
Geographic Variation and Bias in the Polygenic Scores of Complex Diseases and Traits in Finland
Polygenic scores (PSs) are becoming a useful tool to identify individuals with high genetic risk for complex diseases, and several projects are currently testing their utility for translational applications. It is also tempting to use PSs to assess whether genetic variation can explain a part of the geographic distribution of a phenotype. However, it is not well known how the population genetic properties of the training and target samples affect the geographic distribution of PSs. Here, we evaluate geographic differences, and related biases, of PSs in Finland in a geographically well-defined sample of 2,376 individuals from the National FINRISK study. First, we detect geographic differences in PSs for coronary artery disease (CAD), rheumatoid arthritis, schizophrenia, waist-hip ratio (WHR), body-mass index (BMI), and height, but not for Crohn disease or ulcerative colitis. Second, we use height as a model trait to thoroughly assess the possible population genetic biases in PSs and apply similar approaches to the other phenotypes. Most importantly, we detect suspiciously large accumulations of geographic differences for CAD, WHR, BMI, and height, suggesting bias arising from the population's genetic structure rather than from a direct genotype-phenotype association. This work demonstrates how sensitive the geographic patterns of current PSs are for small biases even within relatively homogeneous populations and provides simple tools to identify such biases. A thorough understanding of the effects of population genetic structure on PSs is essential for translational applications of PSs.Peer reviewe
Genetic risk factors have a substantial impact on healthy life years
The impact of genetic variation on overall disease burden has not been comprehensively evaluated. We introduce an approach to estimate the effect of genetic risk factors on disability-adjusted life years (DALYs; 'lost healthy life years'). We use genetic information from 735,748 individuals and consider 80 diseases. Rare variants had the highest effect on DALYs at the individual level. Among common variants, rs3798220 (LPA) had the strongest individual-level effect, with 1.18 DALYs from carrying 1 versus 0 copies. Being in the top 10% versus the bottom 90% of a polygenic score for multisite chronic pain had an effect of 3.63 DALYs. Some common variants had a population-level effect comparable to modifiable risk factors such as high sodium intake and low physical activity. Attributable DALYs vary between males and females for some genetic exposures. Genetic risk factors can explain a sizable number of healthy life years lost both at the individual and population level.Peer reviewe
FINEMAP : efficient variable selection using summary data from genome-wide association studies
Motivation: The goal of fine-mapping in genomic regions associated with complex diseases and traits is to identify causal variants that point to molecular mechanisms behind the associations. Recent fine-mapping methods using summary data from genome-wide association studies rely on exhaustive search through all possible causal configurations, which is computationally expensive. Results: We introduce FINEMAP, a software package to efficiently explore a set of the most important causal configurations of the region via a shotgun stochastic search algorithm. We show that FINEMAP produces accurate results in a fraction of processing time of existing approaches and is therefore a promising tool for analyzing growing amounts of data produced in genome-wide association studies and emerging sequencing projects.Peer reviewe
100 years of atmospheric and marine observations at the Finnish Utö Island in the Baltic Sea
The Utö Atmospheric and Marine Research Station introduced in
this paper is located on Utö Island
(59°46.84′ N, 21°22.13′ E) at the outer edge of the Archipelago
Sea, by the Baltic Sea towards the Baltic Proper. Meteorological observations at
the island started in 1881 and vertical profiling of seawater temperature
and salinity in 1900. Since 1980, the number of observations at Utö has
rapidly increased, with a large number of new meteorological, air quality,
aerosol, optical and greenhouse gas parameters, and recently, a
variety of marine observations. In this study, we analyze long-term changes
of atmospheric temperature, cloudiness, sea salinity, temperature and ice
cover. Our main dataset consists of 248 367 atmospheric temperature
observations, 1632Â quality-assured vertical seawater temperature and salinity
profiles and 8565Â ice maps, partly digitized for this project. We also use
North Atlantic Oscillation (NAO), major Baltic inflow (MBI) and Baltic Sea
river runoff data from the literature as reference variables to our data. Our
analysis is based on a statistical method utilizing a dynamic linear model. The
results show an increase in the atmospheric temperature at Utö, but the
increase is significantly smaller than on land areas and has taken place only
since the early 1980s, with a rate of
0.4 °C decade−1 during the last 35 years. We also see an increase in
seawater temperatures, especially on the surface, with an increase of
0.3 °C decade−1 for the last 100 years. In deeper water
layers, the increase is smaller and influenced by vertical mixing, which is modulated
by inflow of saline water from the North Sea and freshwater inflow from
rivers and by wind-driven processes influenced by the local bathymetry. The date
when air temperature in the spring exceeds +5 °C became 5 days
earlier from the period 1951–1980 to the period 1981–2010 and the date when sea
surface water temperature exceeds +4 °C changed to 9 days earlier.
Sea ice cover duration at Utö shows a decrease of approximately 50 %
during the last 35Â years. Based on the combined results, it is possible that
the climate at Utö has changed into a new phase, in which the sea ice
no longer reduces the local temperature increase caused by the global
warming.</p
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Exome sequencing of Finnish isolates enhances rare-variant association power.
Exome-sequencing studies have generally been underpowered to identify deleterious alleles with a large effect on complex traits as such alleles are mostly rare. Because the population of northern and eastern Finland has expanded considerably and in isolation following a series of bottlenecks, individuals of these populations have numerous deleterious alleles at a relatively high frequency. Here, using exome sequencing of nearly 20,000 individuals from these regions, we investigate the role of rare coding variants in clinically relevant quantitative cardiometabolic traits. Exome-wide association studies for 64 quantitative traits identified 26 newly associated deleterious alleles. Of these 26 alleles, 19 are either unique to or more than 20 times more frequent in Finnish individuals than in other Europeans and show geographical clustering comparable to Mendelian disease mutations that are characteristic of the Finnish population. We estimate that sequencing studies of populations without this unique history would require hundreds of thousands to millions of participants to achieve comparable association power
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