Dataset Information

Bayes Forest: a data-intensive generator of morphological tree clones.

ABSTRACT: Detailed and realistic tree form generators have numerous applications in ecology and forestry. For example, the varying morphology of trees contributes differently to formation of landscapes, natural habitats of species, and eco-physiological characteristics of the biosphere. Here, we present an algorithm for generating morphological tree "clones" based on the detailed reconstruction of the laser scanning data, statistical measure of similarity, and a plant growth model with simple stochastic rules. The algorithm is designed to produce tree forms, i.e., morphological clones, similar (and not identical) in respect to tree-level structure, but varying in fine-scale structural detail. Although we opted for certain choices in our algorithm, individual parts may vary depending on the application, making it a general adaptable pipeline. Namely, we showed that a specific multipurpose procedural stochastic growth model can be algorithmically adjusted to produce the morphological clones replicated from the target experimentally measured tree. For this, we developed a statistical measure of similarity (structural distance) between any given pair of trees, which allows for the comprehensive comparing of the tree morphologies by means of empirical distributions describing the geometrical and topological features of a tree. Finally, we developed a programmable interface to manipulate data required by the algorithm. Our algorithm can be used in a variety of applications for exploration of the morphological potential of the growth models (both theoretical and experimental), arising in all sectors of plant science research.

SUBMITTER: Potapov I

PROVIDER: S-EPMC5632294 | biostudies-literature | 2017 Oct

REPOSITORIES: biostudies-literature

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Bayes Forest: a data-intensive generator of morphological tree clones.

Potapov Ilya I Järvenpää Marko M Åkerblom Markku M Raumonen Pasi P Kaasalainen Mikko M

GigaScience 20171001 10

Detailed and realistic tree form generators have numerous applications in ecology and forestry. For example, the varying morphology of trees contributes differently to formation of landscapes, natural habitats of species, and eco-physiological characteristics of the biosphere. Here, we present an algorithm for generating morphological tree "clones" based on the detailed reconstruction of the laser scanning data, statistical measure of similarity, and a plant growth model with simple stochastic r ...[more]

PMID: 29020742

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Project description:Agricultural landscapes are seen as areas of extreme importance for studying and developing strategies which integrate biodiversity conservation and ecosystem services with food production. The main strategies for intensifying agriculture are based on conventional agricultural practices of frequently using inputs for fertilization and correcting soil pH. Some studies show that these practices generate impacts on nearby forest fragments through soil contamination and increasing nutrient content. The objective of this study was to identify the impacts on the functional groups of sciophilous (late successional/shade-tolerant species) and heliophilous (pioneer/sun-loving) species of a tree community of 14 forest fragments near pasture areas and agricultural areas under conventional practices, raising the hypothesis that higher-fertility forest fragments adjacent to intensive agriculture modify the floristic composition of the tree community. Consequently, this study is based on the following questions: i) Do forest fragments within intensive farming environments present differences in floristic composition of species?; ii) Does the soil fertility influence the tree species composition?; iii) Which variables influence species abundance and richness in the forest fragments with different types of use around their environment? The floristic composition of fragments close to agricultural areas are more similar to each other than the composition of fragments close to pasture areas. Furthermore, the General Linear Model (GLM) results show a clear influence of the intensive farming environment on the richness and abundance of the two functional groups in the forest fragments, directly benefiting the abundance of heliophilous species, which are also benefited by the greater declivity and smaller fragment area, while the abundance of sciophytes is negatively correlated with these last two variables. The increase of calcium content is beneficial for the richness of heliophilous species, while the increase in phosphorus content influences a reduction in the richness of sciophyte species, which also strongly respond to the isolation between fragments. The results indicate a dominance trend of pioneer species in fragments with nutritionally enriched soils, providing evidence that the intense adoption of inputs in cultivated areas causes concrete impacts on the diversity of the tree community.

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Dataset Information

Bayes Forest: a data-intensive generator of morphological tree clones.

Publications

Bayes Forest: a data-intensive generator of morphological tree clones.

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