Search results for " VAR"
showing 10 items of 5758 documents
The gypsy database (GyDB) of mobile genetic elements: release 2.0
2011
This article introduces the second release of the Gypsy Database of Mobile Genetic Elements (GyDB 2.0): a research project devoted to the evolutionary dynamics of viruses and transposable elements based on their phylogenetic classification (per lineage and protein domain). The Gypsy Database (GyDB) is a long-term project that is continuously progressing, and that owing to the high molecular diversity of mobile elements requires to be completed in several stages. GyDB 2.0 has been powered with a wiki to allow other researchers participate in the project. The current database stage and scope are long terminal repeats (LTR) retroelements and relatives. GyDB 2.0 is an update based on the analys…
Northern refugia and recent expansion in the North Sea: The case of the wrasse Symphodus melops (Linnaeus, 1758)
2011
Pleistocene climate changes have imposed extreme conditions to intertidal rocky marine communities, forcing many species to significant range shifts in their geographical distributions. Phylogeographic analyses based on both mitochondrial and nuclear genetic markers provide a useful approach to unravel phylogeographic patterns and processes of species after this time period, to gain general knowledge of how climatic changes affect shifts in species distributions. We analyzed these patterns on the corkwing wrasse (Symphodus melops, Labridae), a rocky shore species inhabiting North Sea waters and temperate northeastern Atlantic Ocean from Norway to Morocco including the Azores, using a fragme…
Stand out from the Crowd: Small-Scale Genetic Structuring in the Endemic Sicilian Pond Turtle
2020
The geographical pattern of genetic diversity was investigated in the endemic Sicilian pond turtle Emys trinacris across its entire distribution range, using 16 microsatellite loci. Overall, 245 specimens of E. trinacris were studied, showing high polymorphic microsatellite loci, with allele numbers ranging from 7 to 30. STRUCTURE and GENELAND analyses showed a noteworthy, geographically based structuring of the studied populations in five well-characterized clusters, supported by a moderate degree of genetic diversity (FST values between 0.075 and 0.160). Possible explanations for the genetic fragmentation observed are provided, where both natural and human-mediated habitat fragmentation o…
Large Spatial Scale of the Phenotype-Environment Color Matching in Two Cryptic Species of African Desert Jerboas (Dipodidae: Jaculus)
2014
We tested the camouflage hypothesis, or the linkage between animal (Saharan rodent) and habitat coloration, on the largest geographical scale yet conducted. We aimed to determine whether phenotypic variation is explained by micro-habitat variation and/or genetic polymorphism to determine 1) the strength of linkage between fur color and local substrate color, and 2) the divergence in fur coloration between two genetic clades, representing cryptic species, throughout the complete range of the African desert jerboas (Jaculus jaculus). We used a combination of museum and field-collected specimens, remote sensing tools, satellite and digital photography and molecular genetic and phylogenetic met…
Adaptation in response to environmental unpredictability
2017
Understanding how organisms adaptively respond to environmental fluctuations is a fundamental question in evolutionary biology. The Mediterranean region typically exhibits levels of environmental unpredictability that vary greatly in habitats over small geographical scales. In cyclically parthenogenetic rotifers, clonal proliferation occurs along with occasional bouts of sex. These bouts contribute to the production of diapausing eggs, which allows survival between growing seasons. Here, we studied two diapause-related traits in rotifers using clones from nine Brachionus plicatilis natural populations that vary in the degree of environmental unpredictability. We tested the hypothesis that …
Genetic Diversity and Structure of Northern Populations of the Declining Coastal Plant Eryngium maritimum
2019
Abstract Genetic diversity among 13 northern populations of the declining coastal plant Eryngium maritimum L. at the northernmost extent of the species distribution range was studied using retro-transposon-based SSAP molecular markers. Diversity indices varied extensively among populations; some showing extremely low diversity whereas other populations exhibited moderate amounts of genetic variation. Differentiation among populations was highly variable as well. Interestingly, differentiation among northern populations was not influenced strongly by geographic distance. Closely situated populations were often more divergent than more distant populations suggesting other factors may be respo…
Temporal fluctuations in seawater pCO2 may be as important as mean differences when determining physiological sensitivity in natural systems
2015
AbstractMost studies assessing the impacts of ocean acidification (OA) on benthic marine invertebrates have used stable mean pH/pCO2 levels to highlight variation in the physiological sensitivities in a range of taxa. However, many marine environments experience natural fluctuations in carbonate chemistry, and to date little attempt has been made to understand the effect of naturally fluctuating seawater pCO2 (pCO2sw) on the physiological capacity of organisms to maintain acid–base homeostasis. Here, for the first time, we exposed two species of sea urchin with different acid–base tolerances, Paracentrotus lividus and Arbacia lixula, to naturally fluctuating pCO2sw conditions at shallow wat…
Quantitative Genetics of the Aging of Reproductive Traits in the Houbara Bustard
2015
International audience; Do all traits within an organism age for the same reason? Evolutionary theories of aging share a common assumption: the strength of natural selection declines with age. A corollary is that additive genetic variance should increase with age. However, not all senescent traits display such increases suggesting that other mechanisms may be at play. Using longitudinal data collected from more than 5400 houbara bustards (Chlamydotis undulata) with an exhaustive recorded pedigree, we investigated the genetics of aging in one female reproductive trait (egg production) and three male reproductive traits (courtship display rate, ejaculate size and sperm viability), that displa…
Blowing in the wind: how many roads can a phytoplanktont walk down? A synthesis on phytoplankton biogeography and spatial processes
2015
The selected theme of the 17th Workshop of the International Association for Phytoplankton Taxonomy and Ecology (IAP), ‘‘Biogeography and Spatial Patterns of Biodiversity of Freshwater Phytoplankton,’’ offered the opportunity to explore one neglected aspect of phytoplankton ecology: the distribution of species in the geographic space. This paper summarizes the outcomes of 20 selected contributions among those presented at the workshop. The articles report the results from studies carried out in five continents (only Oceania is not represented) and on a wide array of aquatic ecosystems (deep and shallow natural lakes, man-made lakes, temporary and permanent ponds, rivers). The topics analyze…
A meta-analysis on the ecological effects of aquaculture on the water column: dissolved nutrients
2007
Environmental effects of aquaculture loadings have often been reviewed descriptively, and thus have not provided quantitative estimates of the overall response in the water column. Meta-analytical reviewing techniques allow the contextualisation of quantitative effects in the domain of current literature. In the present paper, more than 50 peer-reviewed articles were analysed and about 425 study cases used to test whether worldwide cultivations have a differential effect on dissolved nutrient levels. Meta-analysis feasibility depends on obtaining an estimate of the effect size from every study and the most common measure of effect size (Hedges’ d) is the difference between means of controls…