Search results for "extension"
showing 10 items of 534 documents
The role of the Strait of Gibraltar in shaping the genetic structure of the Mediterranean Grenadier, Coryphaenoides mediterraneus, between the Atlant…
2017
24 pages, 4 figures, 4 tables, supplementary information https://dx.doi.org/10.1371/journal.pone.0174988.-- Data Availability: The mtDNA COI sequences can be accessed at BOLD systems through the sample ID: ME-9911; ME-11972; ME-13727; GLF011. New mtDNA COI sequences can be accessed at GenBank by the accession numbers KY345206 - KY345398. GenBank accession numbers for close related species of C. mediterraneus are: Coryphaenoides striaturus - KX656427.1, KX656428.1; Coryphaenoides murray - KX656411.1, KX656410.1; Coryphaenoides carapinus - KX656382.1, KX656381.1; Coryphaenoides brevibarbis - KX656377.1, KX656376.1, KX656375.1. An alignment in fasta with all the haplotypes and respective frequ…
Survey of five major grapevine viruses infecting Blatina and Žilavka cultivars in Bosnia and Herzegovina
2021
The sanitary status of grapevines has not yet been considered sufficiently in vineyards throughout Bosnia and Herzegovina (BiH). An extensive survey of five major grapevine viruses in the country was carried out in 2019. A total of 630 samples from the two dominant autochthonous cultivars, named Žilavka and Blatina, were tested by DAS-ELISA for the presence of grapevine leafroll-associated viruses (GLRaV-1 and 3), grapevine fleck virus (GFkV), grapevine fanleaf virus (GFLV) and Arabis mosaic virus (ArMV). Eighty-eight % of the samples were positive for at least one virus, and all five viruses were detected, thought with different incidence, i.e. GLRaV-3 (84%), GFLV (43%), GLRaV-1 (14%), GFk…
Predicting the invasion of the acoustic niche: Potential distribution and call transmission efficiency of a newly introduced frog in Cuba
2021
8 pages; International audience; Leptodactylus fragilis is a recently introduced frog in Cuba, where it may impact local populations of amphibians in different ways. Here, we combined two methods to predict the invasion of the acoustic niche of Cuban amphibians by L. fragilis. We first use species distribution models to predict the spread and establishment of L. fragilis in Cuba. We then performed sound propagation experiments to evaluate the potential invasion of the acoustic niche in predicted suitable areas for the presence of L. fragilis. This species could have a successful establishment, spreading mainly in open areas, where its advertisement calls propagate efficiently, with low atte…
Extending Joint Models in Community Ecology : A Response to Beissinger et al.
2016
The joint modelling of many variables in community ecology is a new and technically challenging area with many opportunities for future developments. The possibility of extending joint models to deal with imperfect detection has been highlighted by Beissinger et al. as an important problem worthy of further investigation [1]. We agree, and previously pointed to this potential extension as an outstanding question [2], alongside models that can estimate phylogenetic repulsion or attraction, nonlinearity in the response to latent variables, and spatial or temporal correlation, because further developments in all these directions are needed.
Crowd-Averse Robust Mean-Field Games: Approximation via State Space Extension
2016
We consider a population of dynamic agents, also referred to as players. The state of each player evolves according to a linear stochastic differential equation driven by a Brownian motion and under the influence of a control and an adversarial disturbance. Every player minimizes a cost functional which involves quadratic terms on state and control plus a cross-coupling mean-field term measuring the congestion resulting from the collective behavior, which motivates the term “crowd-averse.” Motivations for this model are analyzed and discussed in three main contexts: a stock market application, a production engineering example, and a dynamic demand management problem in power systems. For th…
High-throughput sequencing for 1-methyladenosine (m1A) mapping in RNA
2016
Abstract Detection and mapping of modified nucleotides in RNAs is a difficult and laborious task. Several physico-chemical approaches based on differential properties of modified nucleotides can be used, however, most of these methods do not allow high-throughput analysis. Here we describe in details a method for mapping of rather common 1-methyladenosine (m1A) residues using high-throughput next generation sequencing (NGS). Since m1A residues block primer extension during reverse transcription (RT), the accumulation of abortive products as well as the nucleotide misincorporation can be detected in the sequencing data. The described library preparation protocol allows to capture both types …
Use of Medaka Fish as Vertebrate Model to Study the Effect of Cocoa Polyphenols in the Resistance to Oxidative Stress and Life Span Extension.
2018
Oxidative stress (OS) can induce cell apoptosis and thus plays an important role in aging. Antioxidant foods protect tissues from OS and contribute to a healthier lifestyle. In this study, we described the used of medaka embryos (Oryzias latipes) to study the putative antioxidant capacity of dietary cocoa extract in vertebrates. A polyphenol-enriched cocoa extract regulated the expression of several genes implicated in OS, thereby protecting fish embryos from induced OS. The cocoa extract activated superoxide dismutase enzyme activity in embryos and adult fish tissues, suggesting a common mechanism for protection during embryonic development and adulthood. Furthermore, long-term feeding of …
Early Commissural Diencephalic Neurons Control Habenular Axon Extension and Targeting.
2016
Summary Most neuronal populations form on both the left and right sides of the brain. Their efferent axons appear to grow synchronously along similar pathways on each side, although the neurons or their environment often differ between the two hemispheres [1–4]. How this coordination is controlled has received little attention. Frequently, neurons establish interhemispheric connections, which can function to integrate information between brain hemispheres (e.g., [5]). Such commissures form very early, suggesting their potential developmental role in coordinating ipsilateral axon navigation during embryonic development [4]. To address the temporal-spatial control of bilateral axon growth, we…
Integrative analysis of structural variations using short-reads and linked-reads yields highly specific and sensitive predictions.
2020
Genetic diseases are driven by aberrations of the human genome. Identification of such aberrations including structural variations (SVs) is key to our understanding. Conventional short-reads whole genome sequencing (cWGS) can identify SVs to base-pair resolution, but utilizes only short-range information and suffers from high false discovery rate (FDR). Linked-reads sequencing (10XWGS) utilizes long-range information by linkage of short-reads originating from the same large DNA molecule. This can mitigate alignment-based artefacts especially in repetitive regions and should enable better prediction of SVs. However, an unbiased evaluation of this technology is not available. In this study, w…
Genetic Diversity of O-Antigens in Hafnia alvei and the Development of a Suspension Array for Serotype Detection.
2016
Hafnia alvei is a facultative and rod-shaped gram-negative bacterium that belongs to the Enterobacteriaceae family. Although it has been more than 50 years since the genus was identified, very little is known about variations among Hafnia species. Diversity in O-antigens (O-polysaccharide, OPS) is thought to be a major factor in bacterial adaptation to different hosts and situations and variability in the environment. Antigenic variation is also an important factor in pathogenicity that has been used to define clones within a number of species. The genes that are required to synthesize OPS are always clustered within the bacterial chromosome. A serotyping scheme including 39 O-serotypes has…