28 research outputs found

    The OpenMolcas Web: A Community-Driven Approach to Advancing Computational Chemistry

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    The developments of the open-source OpenMolcas chemistry software environment since spring 2020 are described, with a focus on novel functionalities accessible in the stable branch of the package or via interfaces with other packages. These developments span a wide range of topics in computational chemistry and are presented in thematic sections: electronic structure theory, electronic spectroscopy simulations, analytic gradients and molecular structure optimizations, ab initio molecular dynamics, and other new features. This report offers an overview of the chemical phenomena and processes OpenMolcas can address, while showing that OpenMolcas is an attractive platform for state-of-the-art atomistic computer simulations

    Belowground morphology and population dynamics of two forest understory herbs of contrasting growth form

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    Forest understory herbs exhibit a large range of variation in morphology and life history. Here we expand the reported range of variation by describing the belowground structures of two very different species, Xerophyllum tenax and Chimaphila umbellata. We excavated individuals in forests of the Cascade Mountains, Pacific Northwest, USA. Xerophyllum tenax has short rhizomes, but an extensive root system that is exceptionally large among forest understory species. The roots reach 4 m in length and may occupy an area 50 times that of the aboveground canopy. In contrast, Chimaphila umbellata has very small roots, but an extensive rhizome system. The largest plant we excavated had 57 m of connected rhizomes and still had a seedling source. Both species have long-lived individuals but differ in response to disturbance. Based on monitoring of 151 permanent 1 m2 plots in an old-growth forest, X. tenax increased only minimally in density over 40 years following tephra deposition from the 1980 eruption of Mount St. Helens, whereas density of C. umbellata increased substantially. The very different morphology of these two species highlights the large range of variation found among forest herbs, which needs to be considered when examining the forest understory.The accepted manuscript in pdf format is listed with the files at the bottom of this page. The presentation of the authors' names and (or) special characters in the title of the manuscript may differ slightly between what is listed on this page and what is listed in the pdf file of the accepted manuscript; that in the pdf file of the accepted manuscript is what was submitted by the author

    Secondary disturbance following a deposit of volcanic tephra: A 30 year record from old-growth forest understory

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    Forest disturbance is usually described by effects on trees, and small disturbances to forest understory are seldom studied. Nevertheless, effective analyses of succession need to consider both stand-replacing and subsequent “secondary” disturbances in both canopy and understory. We estimated characteristics of 13 types of secondary disturbance in old-growth forest understory, and of canopy cover, after the 1980 tephra (aerially transported volcanic ejecta) deposition from Mount St. Helens, Washington. We sampled 100 1-m2 plots at each of four sites for vegetation change and types of disturbance at ten times from 1980-2010; we sampled tree canopy above each plot in 1980 and 2016. The number of canopy gaps increased 23 % and mean gap dimension 68 % during 36 years, mostly from loss of Abies amabilis. Secondary disturbance in understory affected 1.4 % of stand area per year. The areas affected by soil disturbance and effects of woody litter were similar. Erosion, greater in deep than in shallow tephra, peaked in 1981, whereas most litter-caused disturbances increased after 2000. Less frequent litter-based disturbances covered greater area. Our results differ from conclusions about non-volcanic understory disturbances. Secondary disturbances are variable, need more study, and are likely to affect many other systems.The accepted manuscript in pdf format is listed with the files at the bottom of this page. The presentation of the authors' names and (or) special characters in the title of the manuscript may differ slightly between what is listed on this page and what is listed in the pdf file of the accepted manuscript; that in the pdf file of the accepted manuscript is what was submitted by the author

    Data from: Understory succession after burial by tephra from Mount St. Helens

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    1. Successional change following disturbance is a fundamental ecological process that remains central to understanding patterns in plant ecology. Although succession has been studied for well over a century, understanding of the patterns and processes of change is still inadequate, partly because of the dearth of long-term studies. 2. Here, we use, as a model system, a volcanic disturbance that is widespread and of global relevance. We examine succession in old-growth conifer forest understories following burial by tephra (aerially transported volcanic ejecta) in the 1980 eruption of Mount St. Helens. Using four sites with different initial conditions and amounts of disturbance (tephra burial), we sampled plant communities at years 1, 20 and 36 since the eruption using permanent plots representing two treatments: undisturbed tephra and control plots from which tephra was experimentally removed. By using this long-term data, we were able to gauge change through time and differences between tephra-disturbed and control plots. 3. In tephra-impacted plots, cover reached pre-eruption levels by year 36 except for bryophytes at three sites and shrubs at one site. Cover in control plots also increased significantly for all growth forms except bryophytes, remaining above that on tephra plots at the same site in most situations. Sites generally increased in species richness first, and then gradually increased in evenness and Shannon’s diversity; after 36 years, differences between control and tephra-impacted plots remained at only one site. Community composition was stable in one site and shifted gradually through time at the two other sites, and differences between plot types persisted at one site. Communities change over 36 years could relate to various endogenic and abiotic factors. 4. Synthesis: These data suggest that, while recovery to the pre-disturbance status occurs in some cases, recovery is site-specific. Understory communities can be dynamic, even in old-growth forests, and may still be responding to disturbance over three decades later. Long-term experimental studies are key to understanding succession patterns and generalizations about the importance of initial conditions, disturbance intensity, and the complexity of interactions that determine vegetation change
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