Search results for " model"

paco: implementing Procrustean Approach to Cophylogeny in R

2017

Summary The concordance of evolutionary histories and extant species interactions provides a useful metric for addressing questions of how the structure of ecological communities is influenced by macro-evolutionary processes. We introduce paco (v0.3.1), an R package to perform Procrustean Approach to Cophylogeny. This method assesses the phylogenetic congruence, or evolutionary dependence, of two groups of interacting species using both ecological interaction networks and their phylogenetic history. We demonstrate the functionality of paco through its application to empirical host-parasite and plant-pollinator communities. Although the package is intended to assess the phylogenetic congruen…

Impact of gas emboli and hyperbaric treatment on respiratory function of loggerhead sea turtles (Caretta caretta)

2018

We investigated lung function in bycaught sea turtles with and without gas emboli. Hyperbaric O2 treatment significantly improves lung function. Pulmonary function testing may be a useful diagnostic tool to assess fisheries induced trauma.

Molecular signatures of silencing suppression degeneracy from a complex RNA virus

2021

As genomic architectures become more complex, they begin to accumulate degenerate and redundant elements. However, analyses of the molecular mechanisms underlying these genetic architecture features remain scarce, especially in compact but sufficiently complex genomes. In the present study, we followed a proteomic approach together with a computational network analysis to reveal molecular signatures of protein function degeneracy from a plant virus (as virus-host protein-protein interactions). We employed affinity purification coupled to mass spectrometry to detect several host factors interacting with two proteins of Citrus tristeza virus (p20 and p25) that are known to function as RNA sil…

Hybridization, ecogeographical displacement and the emergence of new lineages – A genotyping‐by‐sequencing and ecological niche and species distribut…

2021

Ecogeographical displacement of homoploid hybrid lineages from their parents is well documented and considered an important mechanism to achieve reproductive isolation. In this study, we investigated the origin of the flowering plant species Sempervivum tectorum in the Massif Central (France) through homoploid hybridization between lineages of the species from the Rhine Gorge area (Germany) and the Pyrenees (France). We used genotyping-by-sequencing genetic data as evidence for the hybrid origin of the Massif Central lineage, and WorldClim climatic data and soil pH and soil temperature data collected by us for ecological niche and species distribution modelling. We could show that the Massi…

Boosting Biomass Quantity and Quality by Improved Mixotrophic Culture of the Diatom Phaeodactylum tricornutum

2021

Diatoms are photoautotrophic unicellular algae and are among the most abundant, adaptable, and diverse marine phytoplankton. They are extremely interesting not only for their ecological role but also as potential feedstocks for sustainable biofuels and high-value commodities such as omega fatty acids, because of their capacity to accumulate lipids. However, the cultivation of microalgae on an industrial scale requires higher cell densities and lipid accumulation than those found in nature to make the process economically viable. One of the known ways to induce lipid accumulation in Phaeodactylum tricornutum is nitrogen deprivation, which comes at the expense of growth inhibition and lower c…

Species’ ecological functionality alters the outcome of fish stocking success predicted by a food-web model

2018

Fish stocking is used worldwide in conservation and management, but its effects on food-web dynamics and ecosystem stability are poorly known. To better understand these effects and predict the outcomes of stocking, we used an empirically validated network model of a well-studied lake ecosystem. We simulate two stocking scenarios with two native fish species valuable for fishing. In the first scenario, we stock planktivorous fish (whitefish) larvae in the ecosystem. This leads to a 1% increase in adult whitefish biomasses and decreases the biomasses of the top predator (perch). In the second scenario, we also stock perch larvae in the ecosystem. This decreases the planktivorous whitefish an…

Detailed information on fruiting phenology provides new insights on wood-inhabiting fungal detection

2017

Abstract Fruiting phenology traits may have a large effect on the detection of fungal species. Detailed studies considering these biologically important traits are, however, surprisingly scarce. We conducted a rigorous fruit body monitoring of wood-inhabiting fungal occurrences over one fruiting season. Taxon-specific longevity of the fruiting was different between different morphological groups. This was mainly due to agaric fruiting being shorter than other groups. Different number and timing of surveys are needed to detect the majority of the fruiting taxa of different wood-inhabiting fungal groups.

2022

Abstract The interest in studying wood-inhabiting fungal communities has grown in recent years. This interest has mainly been motivated by the important roles of wood-inhabiting fungi in ecosystem functioning (e.g. nutrient cycling) and conservation biology (e.g. their sensitivity to forest management). In this paper, I argue that another important, but yet largely unexplored motivation for studying wood-inhabiting fungal communities, is their potential to advance fundamental community ecology. One major advantage of wood-inhabiting fungi as model systems is that they are organized as spatially well-defined metacommunities, thus conforming to the assumptions of many theoretical frameworks. …

Evolutionary population dynamics

2005

The interface between the evolution of life history traits and population dynamics in temporally and spatially variable environments is the topic of this chapter. Thus, the frame for the life history processes is set by spatial and temporal fluctuations in population density. Here, we will focus primarily on modes of reproduction and we are especially interested in whether alternative reproductive strategies can co-exist in a population. We show that spatially structured populations may allow co-existence of various life history strategies that do not easily co-exist in a nonstructured environment. Also, intrinsic and external temporal fluctuations in the environment tend to enhance polymor…

Harvesting‐induced population fluctuations?

2003

It has recently been shown that damped endogenous dynamics is a common feature in Finnish grouse species; In this paper, we demonstrate that time-variant harvesting may turn damped dynamics to quasi-periodic fluctuations. Exploited populations, e.g. grouse, may therefore fluctuate more than expected if we do not manage to keep the harvest fraction constant over time. However, the harvest fraction of Finnish grouse varies with the phase of the cycle. Such a harvesting strategy could potentially change the periodicity of the fluctuations, as can a threshold harvest strategy where a constant fraction is harvested above a density threshold. The two non-linear harvesting strategies investigated …