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Multi-genetic marker approach and spatio-temporal analysis suggest there is a single panmictic population of swordfish Xiphias gladius in the Indian Ocean









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    Genome-Wide Association Scan Suggests Basis for Microtia in Awassi Sheep 2016
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    Microtia, the underdevelopment of the pinna, the structural part of the outer ear, has been observed in many species,including humans, mice, dogs and various livestock. Microtia is relatively prevalent in sheep, observed in multiple breeds including some entire populations, but its genetic basis has not been described. The Awassi sheep, a breed native to Southwest Asia, carries this phenotype and was targeted for molecular characterization via a genome-wide association study . DNA samples wer e collected from sheep flocks in Jordan, within the native range of the Awassi. Samples from eight affected and twelve normal individuals were genotyped with the Illumina OvineSNP50 ® chip. Haplotype-based analyses failed to identify any major runs of homozygosity associated with the trait. In contrast, a single-locus genome-wide association analysis revealed a solitary statistically significant association (P= 0.012, genome wide) with a single-nucleotide polymorphism at base-pair 34,647,4 99 on OAR23. This marker is adjacent to the gene encoding transcription factor GATA-6, which has been shown to play a critical role in many developmental processes, including chondrogenesis. The lack of extended homozygosity in this region suggests a fairly ancient mutation, and the time of occurrence was estimated to be approximately 860 generations ago. This result suggests that many of the sheep breeds showing this phenotype may share the causative mutation, especially within the sub- group of fat-tailed, wool sheep.
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    Genome-based Biotechnologies in Aquaculture 2017
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    Genome technologies have been developed to study genome structure, organization, expression and function, and to select and modify genomes of interest to increase benefits to humans. Of these genome technologies, DNA marker technologies have been intensely used to map the genome to understand genome structure and organization. These DNA marker technologies include restriction fragment length polymorphism markers; mitochondrial DNA markers; DNA barcoding; random amplified polymorphic DNA markers; amplified fragment length polymorphism markers; microsatellite markers; single nucleotide polymorphism (SNP) markers; and restriction site-associated DNA sequencing markers (SNP markers per se). Although these marker systems have been used at various levels for various purposes, the microsatellite markers and SNP markers are currently the most important. Various genome mapping technologies have been developed, including both genetic mapping and physical mapping methods. Genetic mapping is based on recombination during meiosis, while physical mapping is based on fingerprints of DNA segments. Although several variations of physical mapping methods are available, such as radiation hybrid mapping and optical mapping, the most popular physical mapping method is the bacterial artificial chromosome based fingerprinting.
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    Exploratory analysis of the relationship between swordfish capture and environmental features in the southwest Indian Ocean 2013
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    Oceanic circulation plays a major in the distribution of nutrients and oceanic structures such as fronts and eddies may become hotspots of biological activity through concentration and enrichment processes. Oceanic structures generally attract forage fish and cephalopods and may therefore be targeted by marine top-predators. The link between swordfish (Xiphias gladius) captures and environmental structures is poorly documented in the southwest Indian Ocean despite the growing need of the local f ishery from Reunion Island for such information. In this study we used a set of temporal (date, moon phase), geographic (longitude, latitude, distance to coast, bathymetry) and environmental covariates (sea surface temperature, chlorophyll-a concentration, sea level anomalies, index of convergence) to explain variations in swordfish catch per unit of effort (CPUE) throughout 2012. Univariate alyses show strong seasol and latitudil patterns in swordfish occurence. We also found that higher swordf ish CPUE are associated with shelf-break areas and sea mounts, as well as dymic environmental structures, even though these relationships explain only a small fraction of swordfish CPUE variations. Chlorophyll-a fronts and dymic convergent structures as identified by finite-size Lyapunov exponents might attract swordfish.

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