General model-based decomposition framework for polarimetric SAR images

2017 Spring.Includes bibliographical references.Polarimetric synthetic aperture radars emit a signal and measure the magnitude, phase, and polarization of the return. Polarimetric decompositions are used to extract physically meaningful attributes of the scatterers. Of these, model-based decompositions intend to model the measured data with canonical scatter-types. Many advances have been made to this field of model-based decomposition and this work is surveyed by the first portion of this dissertation. A general model-based decomposition framework (GMBDF) is established that can decompose polarimetric data with different scatter-types and evaluate how well those scatter-types model the data by comparing a residual term. The GMBDF solves for all the scatter-type parameters simultaneously that are within a given decomposition by minimizing the residual term. A decomposition with a lower residual term contains better scatter-type models for the given data. An example is worked through that compares two decompositions with different surface scatter-type models. As an application of the polarimetric decomposition analysis, a novel terrain classification algorithm of polSAR images is proposed. In the algorithm, the results of state-of-the-art polarimetric decompositions are processed for an image. Pixels are then selected to represent different terrain classes. Distributions of the parameters of these selected pixels are determined for each class. Each pixel in the image is given a score according to how well its parameters fit the parameter distributions of each class. Based on this score, the pixel is either assigned to a predefined terrain class or labeled unclassified

The GenTree Dendroecological Collection, tree-ring and wood density data from seven tree species across Europe

The dataset presented here was collected by the GenTree project (EU-Horizon 2020), which aims to improve the use of forest genetic resources across Europe by better understanding how trees adapt to their local environment. This dataset of individual tree-core characteristics including ring-width series and whole-core wood density was collected for seven ecologically and economically important European tree species: silver birch (Betula pendula), European beech (Fagus sylvatica), Norway spruce (Picea abies), European black poplar (Populus nigra), maritime pine (Pinus pinaster), Scots pine (Pinus sylvestris), and sessile oak (Quercus petraea). Tree-ring width measurements were obtained from 3600 trees in 142 populations and whole-core wood density was measured for 3098 trees in 125 populations. This dataset covers most of the geographical and climatic range occupied by the selected species. The potential use of it will be highly valuable for assessing ecological and evolutionary responses to environmental conditions as well as for model development and parameterization, to predict adaptability under climate change scenarios

The Second ICES/NASCO Workshop on Salmon Mortality at Sea (WKSalmon2; outputs from 2022 meeting) The Second ICES/NASCO Workshop on Salmon Mortality at Sea (WKSalmon2; outputs from 2022 meeting)

ICES, in consultation with the North Atlantic Salmon Conservation Organisation (NASCO), convened a series of workshops to explore how to use biological and environmental data in models to advance the conservation of wild Atlantic salmon (<em>Salmo salar</em> L.) at sea. This workshop set out to consider multiple candidate hypotheses contributing to changes in the temporal patterns of abundance, and agree the priority research questions. No agreement on the development of a set of priority marine mortality hypotheses was reached. This resulted from the recognition of the hierarchical nature of ecosystem controls, and important complexities introduced by evolutionary diversity. An integrated ecological-evolutionary framework was proposed for the evaluation of hypotheses, and to identify key points in space and time. There was an agreed need for the continuation of cooperative initiatives to examine drivers of marine growth change using standardised approaches, and in the evolutionary delineation of stock units. These were seen as productive pathways to significantly enhance understanding of the marine factors impacting species abundance. The workshop recognised that options for developing and testing hypotheses remain constrained by the availability and quality of data, and identified ways to mobilise existing knowledge resources on key aspects of salmon ocean ecology. These focused on the synthesis of physical ocean data and model outputs, involving ocean basin-wide evaluations of available energy from surveys of lower trophic levels, and updating of population-specific biological information. The workshop agreed on the need for a specific call for data from pelagic commercial fisheries, given the broad scale of this activity and potential overlap with salmon migrations. There was also the recognition that Atlantic salmon should be included in the ICES Working Group on Bycatch of Protected Species (WGBYC) Protected, Endangered and Threatened Species list. Much of the work required to mobilise useful data sources was recognised as being outside the scope of existing ICES data calls, or the constituted core work of ICES Working Group on North Atlantic Salmon (WGNAS). Recommendations for the third workshop are for 1. More detailed consideration of how to access the work needed for data mobilisation, and 2. The identification of well-defined, achievable outcomes

The GenTree Platform: growth traits and tree-level environmental data in 12 European forest tree species

Background: Progress in the field of evolutionary forest ecology has been hampered by the huge challenge of phenotyping trees across their ranges in their natural environments, and the limitation in high-resolution environmental information. Findings: The GenTree Platform contains phenotypic and environmental data from 4,959 trees from 12 ecologically and economically important European forest tree species: Abies alba Mill. (silver fir), Betula pendula Roth. (silver birch), Fagus sylvatica L. (European beech), Picea abies (L.) H. Karst (Norway spruce), Pinus cembra L. (Swiss stone pine), Pinus halepensis Mill. (Aleppo pine), Pinus nigra Arnold (European black pine), Pinus pinaster Aiton (maritime pine), Pinus sylvestris L. (Scots pine), Populus nigra L. (European black poplar), Taxus baccata L. (English yew), and Quercus petraea (Matt.) Liebl. (sessile oak). Phenotypic (height, diameter at breast height, crown size, bark thickness, biomass, straightness, forking, branch angle, fructification), regeneration, environmental in situ measurements (soil depth, vegetation cover, competition indices), and environmental modeling data extracted by using bilinear interpolation accounting for surrounding conditions of each tree (precipitation, temperature, insolation, drought indices) were obtained from trees in 194 sites covering the species’ geographic ranges and reflecting local environmental gradients. Conclusion: The GenTree Platform is a new resource for investigating ecological and evolutionary processes in forest trees. The coherent phenotyping and environmental characterization across 12 species in their European ranges allow for a wide range of analyses from forest ecologists, conservationists, and macro-ecologists. Also, the data here presented can be linked to the GenTree Dendroecological collection, the GenTree Leaf Trait collection, and the GenTree Genomic collection presented elsewhere, which together build the largest evolutionary forest ecology data collection available

Between but not within species variation in the distribution of fitness effects

New mutations provide the raw material for evolution and adaptation. The distribution of fitness effects (DFE) describes the spectrum of effects of new mutations that can occur along a genome, and is therefore of vital interest in evolutionary biology. Recent work has uncovered striking similarities in the DFE between closely related species, prompting us to ask whether there is variation in the DFE among populations of the same species, or among species with different degrees of divergence, i.e., whether there is variation in the DFE at different levels of evolution. Using exome capture data from six tree species sampled across Europe we characterised the DFE for multiple species, and for each species, multiple populations, and investigated the factors potentially influencing the DFE, such as demography, population divergence and genetic background. We find statistical support for there being variation in the DFE at the species level, even among relatively closely related species. However, we find very little difference at the population level, suggesting that differences in the DFE are primarily driven by deep features of species biology, and that evolutionarily recent events, such as demographic changes and local adaptation, have little impact

A História da Alimentação: balizas historiográficas

Os M. pretenderam traçar um quadro da História da Alimentação, não como um novo ramo epistemológico da disciplina, mas como um campo em desenvolvimento de práticas e atividades especializadas, incluindo pesquisa, formação, publicações, associações, encontros acadêmicos, etc. Um breve relato das condições em que tal campo se assentou faz-se preceder de um panorama dos estudos de alimentação e temas correia tos, em geral, segundo cinco abardagens Ia biológica, a econômica, a social, a cultural e a filosófica!, assim como da identificação das contribuições mais relevantes da Antropologia, Arqueologia, Sociologia e Geografia. A fim de comentar a multiforme e volumosa bibliografia histórica, foi ela organizada segundo critérios morfológicos. A seguir, alguns tópicos importantes mereceram tratamento à parte: a fome, o alimento e o domínio religioso, as descobertas européias e a difusão mundial de alimentos, gosto e gastronomia. O artigo se encerra com um rápido balanço crítico da historiografia brasileira sobre o tema

Gene sequence variation data for the publication "Synchronous effective population size changes and genetic stability of forest trees through glacial cycles"

This dataset contains the gene sequence variation data (vcf files and their tbi index files) of seven forest tree species used in the manuscript "Synchronous effective population size changes and genetic stability of forest trees through glacial cycles". For each species, between 411 and 651 genotyped trees are included, sampled across Europe in at least 20 locations. Several versions are provided. Species included: Pinus sylvestris, Picea abies, Fagus sylvatica, Populus nigra, Quercus petraea, Pinus pinaster, Betula pendul

The GenTree Dendroecological Collection, tree-ring and wood density data from seven tree species across Europe

The dataset presented here was collected by the GenTree project (EU-Horizon 2020), which aims to improve the use of forest genetic resources across Europe by better understanding how trees adapt to their local environment. This dataset of individual tree-core characteristics including ring-width series and whole-core wood density was collected for seven ecologically and economically important European tree species: silver birch (Betula pendula), European beech (Fagus sylvatica), Norway spruce (Picea abies), European black poplar (Populus nigra), maritime pine (Pinus pinaster), Scots pine (Pinus sylvestris), and sessile oak (Quercus petraea). Tree-ring width measurements were obtained from 3600 trees in 142 populations and whole-core wood density was measured for 3098 trees in 125 populations. This dataset covers most of the geographical and climatic range occupied by the selected species. The potential use of it will be highly valuable for assessing ecological and evolutionary responses to environmental conditions as well as for model development and parameterization, to predict adaptability under climate change scenarios.publishedVersio