Identification of genomic loci associated with crown rust resistance in perennial ryegrass (Lolium perenne L.) divergently selected populations

The inheritance of crown rust resistance in perennial ryegrass is complex with both major and minor quantitative trait loci (QTL) being detected on all seven linkage groups. However, QTL mapping populations have only few segregating alleles, limiting the transferability of results to other materials. In this study, a synthetic population was developed from four crown rust resistant and susceptible parents as starting material for a divergent selection experiment of crown rust resistance to be closer to practice in plant breeding programs, and to identify genome regions relevant across a broader range of genotypes. Following three cycles of directional selection, perennial ryegrass populations were produced with a two-fold difference in average rust resistance. Divergently selected populations were genotyped at 7 resistance gene analog-derived expressed sequence tag (RGA-derived EST) as well as 15 simple sequence repeat (SSR) loci. A test for selective neutrality (Waples test), which tests the hypothesis of genetic drift versus selection, identified significant differences in allele frequencies for 7 loci (32%). The selection effect was bidirectional with the same loci showing significant response in both positively and negatively selected populations. A region under selection represented by markers LpSSR006 and EST13 on linkage group (LG) 4 was further confirmed by colocation with two separate QTL for crown rust resistance in a VrnA, a two-way pseudo-testcross mapping population. This suggests suitability of alleles identified for introgression into perennial ryegrass germplasm, where quantitative resistance to crown rust is desired

Genetic structuring in Atlantic haddock contrasts with current management regimes

The advent of novel genetic methods has made it possible to investigate population structure and connectivity in mobile marine fish species: knowledge of which is essential to ensure a sustainable fishery. Haddock (Melanogrammus aeglefinus) is a highly exploited marine teleost distributed along the coast and continental shelf on both sides of the North Atlantic Ocean. However, little is known about its population structure. Here, we present the first study using single-nucleotide polymorphism (SNP) markers to assess the genetic population structure of haddock at multiple geographic scales, from the trans-Atlantic to the local (fjord) level. Genotyping 138 SNP loci in 1329 individuals from 19 locations across the North Atlantic revealed three main genetic clusters, consisting of a Northwest Atlantic cluster, a Northeast Arctic cluster, and a Northeast Atlantic cluster. We also observed a genetically distinct fjord population and a pattern of isolation by distance in the Northeast Atlantic. Our results contrast with the current management regime for this species in the Northeast Atlantic, as we found structure within some management areas. The study adds to the growing recognition of population structuring in marine organisms in general, and fishes in particular, and is of clear relevance for the management of haddock in the Northeast Atlantic.publishedVersionPaid open acces

Screen for Footprints of Selection during Domestication/Captive Breeding of Atlantic Salmon

Copyright © 2012 Anti Vasemagi et al. This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.peer-reviewedDomesticated animals provide a unique opportunity to identify genomic targets of artificial selection to the captive environment. Here, we screened three independent domesticated/captive Atlantic salmon (Salmo salar) strains and their wild progenitor populations in an effort to detect potential signals of domestication selection by typing of 261 SNPs and 70 microsatellite loci. By combining information from four different neutrality tests, in total ten genomic regions showed signs of directional selection based on multiple sources of evidence. Most of the identified candidate regions were rather small ranging from zero to a few centimorgans (cM) in the female Atlantic salmon linkage map. We also evaluated how adaptation from standing variation affects adjacent SNP and microsatellite variation along the chromosomes and, by using forward simulations with strong selection, we were able to generate genetic differentiation patterns comparable to the observed data. This study highlights the significance of standing genetic variation during the early stages of adaptation and represents a useful step towards identifying functional variants involved in domestication of Atlantic salmon

Screen for footprints of selection during domestication/captive breeding of Atlantic salmon

Domesticated animals provide a unique opportunity to identify genomic targets of artificial selection to the captive environment. Here, we screened three independent domesticated/captive Atlantic salmon (Salmo salar) strains and their wild progenitor populations in an effort to detect potential signals of domestication selection by typing of 261 SNPs and 70 microsatellite loci. By combining information from four different neutrality tests, in total ten genomic regions showed signs of directional selection based on multiple sources of evidence. Most of the identified candidate regions were rather small ranging from zero to a few centimorgans (cM) in the female Atlantic salmon linkage map. We also evaluated how adaptation from standing variation affects adjacent SNP and microsatellite variation along the chromosomes and, by using forward simulations with strong selection, we were able to generate genetic differentiation patterns comparable to the observed data. This study highlights the significance of standing genetic variation during the early stages of adaptation and represents a useful step towards identifying functional variants involved in domestication of Atlantic salmon

Risk assessment of the predatory mite Stratiolaelaps scimitus for biological control of varroa mites in beehives : Scientific opinion of the panel on plant health of the Norwegian scientific committee for food and environment

Source at https://vkm.no/.publishedVersio

Environmental risk assessment of genetically modified sterile VIRGIN® Atlantic salmon for use in research trials in aquaculture sea-cages

One of the substantial environmental challenges posed by the aquaculture industry is the escape of farmed Atlantic salmon (Salmo salar), which can mate with wild Atlantic salmon and alter the genetic composition of the wild populations. One potential solution to mitigate this issue is the cultivation of sterile salmon in aquaculture. Atlantic salmon can be made sterile by pressure or temperature treatment of newly fertilized eggs to produce triploids, which are functionally sterile due to their unpaired chromosomes. However, these triploids often perform poorly on commercial fish farms and the production of triploid salmon in Norway is put on hold due to welfare issues of the fish. In this application, the Institute of Marine Research (IMR), Bergen, seeks to rear genetically modified sterile Atlantic salmon (VIRGIN® salmon) in a marine aquaculture environment from the post-smolt stage until harvest. The research trials are to take place in small, open sea cages (net pens) at the IMR Matre Aquaculture Research Station from autumn 2023 until February 2025. The Norwegian Environment Agency has asked VKM to assess the environmental risks associated with this field trial according to the Gene Technology Act and using risk assessment guidance from the European Food Safety Authority, EFSA.Environmental risk assessment of genetically modified sterile VIRGIN® Atlantic salmon for use in research trials in aquaculture sea-cagespublishedVersionpublishedVersio

Assessment of risk and risk-reducing measures related to the introduction and dispersal of the invasive alien carpet tunicate Didemnum vexillum in Norway

Didemnum vexillum is colonial sea squirt, a marine species which originates from the northwest Pacific; it was first recorded in Norway in November 2020. Didemnum vexillum is an alien species, meaning that it is a species that has been transferred from its original region to other regions of the world through human activity, and it had not previously been recorded in Norwegian waters. The species is regarded as having great invasive potential and having strong negative ecological effects on biodiversity. It is also considered to pose a risk to marine industries such as shipping and aquaculture, with possible major negative economic impacts.Assessment of risk and risk-reducing measures related to the introduction and dispersal of the invasive alien carpet tunicate Didemnum vexillum in NorwaypublishedVersio

Environmental risk assessment of genetically modified sterile VIRGIN® Atlantic salmon for use in research trials in aquaculture sea-cages

One of the substantial environmental challenges posed by the aquaculture industry is the escape of farmed Atlantic salmon (Salmo salar), which can mate with wild Atlantic salmon and alter the genetic composition of the wild populations. One potential solution to mitigate this issue is the cultivation of sterile salmon in aquaculture. Atlantic salmon can be made sterile by pressure or temperature treatment of newly fertilized eggs to produce triploids, which are functionally sterile due to their unpaired chromosomes. However, these triploids often perform poorly on commercial fish farms and the production of triploid salmon in Norway is put on hold due to welfare issues of the fish. In this application, the Institute of Marine Research (IMR), Bergen, seeks to rear genetically modified sterile Atlantic salmon (VIRGIN® salmon) in a marine aquaculture environment from the post-smolt stage until harvest. The research trials are to take place in small, open sea cages (net pens) at the IMR Matre Aquaculture Research Station from autumn 2023 until February 2025. The Norwegian Environment Agency has asked VKM to assess the environmental risks associated with this field trial according to the Gene Technology Act and using risk assessment guidance from the European Food Safety Authority, EFSA.Environmental risk assessment of genetically modified sterile VIRGIN® Atlantic salmon for use in research trials in aquaculture sea-cagespublishedVersionpublishedVersio

Environmental risk assessment of genetically modified sterile VIRGIN® Atlantic salmon for use in research trials in aquaculture sea-cages

One of the substantial environmental challenges posed by the aquaculture industry is the escape of farmed Atlantic salmon (Salmo salar), which can mate with wild Atlantic salmon and alter the genetic composition of the wild populations. One potential solution to mitigate this issue is the cultivation of sterile salmon in aquaculture. Atlantic salmon can be made sterile by pressure or temperature treatment of newly fertilized eggs to produce triploids, which are functionally sterile due to their unpaired chromosomes. However, these triploids often perform poorly on commercial fish farms and the production of triploid salmon in Norway is put on hold due to welfare issues of the fish. In this application, the Institute of Marine Research (IMR), Bergen, seeks to rear genetically modified sterile Atlantic salmon (VIRGIN® salmon) in a marine aquaculture environment from the post-smolt stage until harvest. The research trials are to take place in small, open sea cages (net pens) at the IMR Matre Aquaculture Research Station from autumn 2023 until February 2025. The Norwegian Environment Agency has asked VKM to assess the environmental risks associated with this field trial according to the Gene Technology Act and using risk assessment guidance from the European Food Safety Authority, EFSA.Environmental risk assessment of genetically modified sterile VIRGIN® Atlantic salmon for use in research trials in aquaculture sea-cagespublishedVersio