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Digital Annex for the following thesis: Vila-Viçosa, C. (2023). Natural History, Biogeography and Evolution of the Iberian white oak syngameon (Quercus L. Sect. Quercus). Ph.D. Thesis, Faculdade de Ciências da Universidade do Porto, Portugal Abstract: The genus Quercus L. is one of the most diverse and important group of woody plants, particularly when considering that they are the trees that rule the Northern Hemisphere forests. Oaks have an intricate Biogeography that criss-crosses diverse climatic and edaphic gradients, encompassing a huge ambiguity in terms of species delimitation. Frequently, the taxonomic proposals brought by traditional Linnaean Botany are either insufficient or rather inflate the number of species and nomenclatural assignments, which are further diluted into inconsistent taxonomic ranks, varying from species to subspecies and varieties. The supremacy given to morphological characters that are inherently fragile and plastic, spread across the distribution areas of distinct lineages, may carry ambiguity on the identification and proper species delimitation. From the oaks that are distributed across the Western Palearctic region, the ones that are deciduous or brevi-deciduous present higher levels of ambiguity in terms of species number and their delimitation. This ambiguity is particularly strong in the circummediterranean region and in the transitional areas between the two major biogeographic Regions of the western Palearctic region, the Euro-Siberian and Mediterranean. This degree of uncertainty, which increases towards the Southern European Peninsulas, is amplified by the ease that the different species of oaks tend to hybridize among them. The present work provides a holistic framework that covers multiple areas, from the taxonomic and evolutive study of this genus, to biogeography and molecular characterization. Its major objective was to resolve the species delimitation of the Iberian deciduous and marcescent oaks and putative introgression among them, enhancing the available knowledge about species diversity, which can foster suitable species and forest conservation. A specific objective was to cross-reference the natural history revision and the different taxonomic treatments brought by distinct authors, with personal observations. These data were then incorporated into ecological modelling and molecular characterization, which in the end fed a newly updated taxonomic proposal. In Section A we obtained results from extensive field, herbaria, and literature review, updating the nomenclature of the Portuguese and western Mediterranean oaks. Section B was supported by Section A’s in-depth review and enabled finer species distribution models, nurturing both hindcast (since ca. 20 Kyr) and forecast (2070-2100) exercises of the range dynamics of Mediterranean oaks species. The study of past and future range shifts solved important pending biogeographic questions, especially related to past range-shifts. Such past-range shifts improved our knowledge on species responses to climate dynamics and allowed a better anticipation of future responses of range shifts driven by climate change. Section C encompassed the molecular characterization of Iberian white oak species and their hybrids, whose delimitation is often faltering when one intends to infer about species rank, or hypothesize about the participation of parent taxon in natural hybrid swarms. This work allowed us to solve the phylogenetic backbone of western Palearctic white oaks, suggesting a significant segregation of the Iberian pedunculate oaks and unveiling two subsections inside Section Quercus. These subsections are biogeographically well-segregated and present diverse levels of introgression among species. Results demonstrated the efficiency of RADSeq for rebuilding the reticulate phylogeny of the Eurasian white oaks, showcasing the significance of the Iberian Peninsula as a major hotspot for oak diversity. We implemented a circular approach to these methods, which retro-fed themselves in terms of insight generation, enabling a powerful strategy to solve the evolutionary history of this difficult groups of plants. We estimate that the reticulate historical biogeography of the western Palearctic white oaks deserves further scrutiny by adding vicariant oak populations from northern Africa, the Near East and southern European Peninsulas. Methods should again follow this similar additive and sequential process of adjoining deep Natural History examination, with extensive fieldwork in type populations and genome-wide molecular surveys, in order to solve this group of plants. With the present work, we were able to significantly improve on the depiction of the basic unit of Biodiversity (the Species), in the complex Quercus genus. We provided tools to enable further efforts for the conservation of the Mediterranean oak forests, which overwhelm one of the most important (and one of the most threatened) Biomes for plant conservation at the global scale.

Research Data Table 1 is a table of the georreferenced historical (literature-based) and species surveys occurrence points for Ctenomys magellanicus (Rodentia, Caviomorpha). These points are the raw data for the analyses performed in this work. Research Data Table 2 is the result of fitting 120 models (EDM) with different features combination.

<h3>Project Overview</h3> <p>Jurisdictional boundaries of governmental agencies often do not align with the geographic or social boundaries of the policy issues they are tasked with addressing. This spatial mismatch is especially common in relation to natural resources and the environment. Where it occurs, achievement of policy goals may require coordination across jurisdictions, which can lead to mutual benefits. Yet, governmental agencies may view coordination as costly or as leading to a loss of autonomy. This project examined coordination decisions made by local level governmental agencies in California, as they formed Groundwater Sustainability Agencies (GSAs) and subsequently coordinated development of their first groundwater sustainability plans (GSPs) under California's Sustainable Groundwater Management Act (SGMA). The project addresses the question of how agencies make decisions and manage interactions when under a coordination mandate that allots agencies the discretion to decide how to coordinate. More specifically, it investigates:<ol><li>What factors influence decisions regarding the geographic extent of and parties involved in development of new formal agencies for groundwater management,</li><li>How do concerns about the potential risks of coordination affect the choice of coordination mechanisms,</li><li>How does the structure of agency interactions affect their achievement of the objectives of the coordination mandate, and</li><li>How do agencies make sense of a coordination mandate and how does that sense-making process influence the decisions agencies make when deciding how to respond to the mandate?</li></ol></p> <h3>Data Collection Overview</h3> <p>Data were collected between January 2018 and May 2020. The methods for data collection varied by data type.<ul><li>Secondary data on the physical, social, and institutional characteristics of groundwater basins were collected from California Department of Water Resources datasets, the American Community Survey, and the National Land Use Database.</li><li>Data on GSA formation and copies of GSPs and Coordination Agreements were obtained from the California’s SGMA Portal Website (https://sgma.water.ca.gov/portal/)</li><li>Meeting minutes and other documentation were obtained from the respective websites of local-level agencies that formed GSAs.</li><li>Interviews were conducted with representatives from 67 groundwater sustainability agencies. Interviewees spanned 17 of the 19 basins and 38 of the 44 groundwater sustainability plans produced. Interviewees were identified based on formal GSA contact information and selected based on formal notices to produce a GSP. Recruitment sought to interview representatives from least one GSA from each GSP group.</li><li>Participant observation was undertaken of more than 58 public meetings (in person, virtually, or reviewing recordings).</li></ul></p> <h3>Shared Data Organization</h3> <p>The shared data is organized into three folders. A GIS folder contains 16 relevant data files. An interview transcripts folder contains 52 de-identified transcripts from the interviews that were recorded and transcribed. Some interviewees did not agree to recording and transcription of the interviews, thus data from those interviews are not available. A tabular data folder contains 3 spreadsheet workbooks. These include a spreadsheet documenting coordination concerns at the basin-level; a spreadsheet documenting organizational forms and institutions adopted at the basin-level; and a spreadsheet documenting coordination outcomes at the basin-level. Each spreadsheet includes a copy of the codebook used in analyzing the data. This data project also includes 6 documentation files: a GIS metadata workbook, an interview catalog, an interview consent form, a redaction protocol, this data narrative, and an administrative README file.</p> <h3>Data Overview</h3> <p>The research involved a mixed-methods approach that combines information on agencies; the physical, social, and institutional characteristics of groundwater basins and the agencies located within them; formal filings; agreements; and plans developed by agencies; meeting minutes; interview data; and data from participant observation.</p>

AbstractBACKGROUND: Inappropriate utilisation of biosolids may adversely impact agrosystem productivity. Here, we address the response of wheat (Triticum durum) to different doses (0, 40, 100, 200 and 300 t ha−1) of either municipal solid waste (MSW) compost or sewage sludge in a greenhouse pot experiment. Plant growth, heavy metal uptake, and antioxidant activity were considered.RESULTS: Biomass production of treated plants was significantly enhanced at 40 t ha−1 and 100 t ha−1 of MSW compost (+48% and +78% relative to the control, respectively). At the same doses of sewage sludge, the increase was only 18%. Higher doses of both biosolids restricted significantly the plant growth, in concomitance with the significant accumulation of heavy metals (Ni2+, Pb2+, Cu2+ and Zn2+), especially in leaves. Leaf activities of antioxidant enzymes (ascorbate peroxidase, glutathione reductase, catalase and superoxide dismutase) were unchanged at 40 t ha−1 MSW compost or sewage sludge, but were significantly stimulated at higher doses (200–300 t ha−1), together with higher leaf concentration of reduced glutathione.CONCLUSION: This preliminary study suggests that a MSW supply at moderate doses (100 t ha−1) could be highly beneficial for wheat productivity. Copyright © 2010 Society of Chemical Industry

The Coast to Karoo Transect investigates the abundance and diversity of ants and beetles along an altitudinal gradient in the Cederberg mountains of the Western Cape, South Africa. It is a long term project, initiated in 2002 by Prof. S.L. Chown, Stellenbosch University. Data collection is carried out on a biannual (spring and autumn) basis. To monitor changes in invertebrate assemblages, focusing on ants and beetles.

Over half of the world's forests are disturbed, and the rate at which ecosystem processes recover after disturbance is important for the services these forests can provide. We analyze the drivers' underlying changes in rates of key ecosystem processes (biomass productivity, litter productivity, actual litter decomposition, and potential litter decomposition) during secondary succession after shifting cultivation in wet tropical forest of Mexico.We test the importance of three alternative drivers of ecosystem processes: vegetation biomass (vegetation quantity hypothesis), community‐weighted trait mean (mass ratio hypothesis), and functional diversity (niche complementarity hypothesis) using structural equation modeling. This allows us to infer the relative importance of different mechanisms underlying ecosystem process recovery.Ecosystem process rates changed during succession, and the strongest driver was aboveground biomass for each of the processes. Productivity of aboveground stem biomass and leaf litter as well as actual litter decomposition increased with initial standing vegetation biomass, whereas potential litter decomposition decreased with standing biomass. Additionally, biomass productivity was positively affected by community‐weighted mean of specific leaf area, and potential decomposition was positively affected by functional divergence, and negatively by community‐weighted mean of leaf dry matter content.Our empirical results show that functional diversity and community‐weighted means are of secondary importance for explaining changes in ecosystem process rates during tropical forest succession. Instead, simply, the amount of vegetation in a site is the major driver of changes, perhaps because there is a steep biomass buildup during succession that overrides more subtle effects of community functional properties on ecosystem processes. We recommend future studies in the field of biodiversity and ecosystem functioning to separate the effects of vegetation quality (community‐weighted mean trait values and functional diversity) from those of vegetation quantity (biomass) on ecosystem processes and services.

Green tea catechins mixed with caffeine have been proposed as adjuvants for maintaining or enhancing energy expenditure and for increasing fat oxidation, in the context of prevention and treatment of obesity. These catechins-caffeine mixtures seem to counteract the decrease in metabolic rate that occurs during weight loss. Their effects are of particular importance during weight maintenance after weight loss. Other metabolic targets may be fat absorption and the gut microbiota composition, but these effects still need further investigation in combination with weight loss. Limitations for the effects of green tea catechins are moderating factors such as genetic predisposition related to COMT-activity, habitual caffeine intake, and ingestion combined with dietary protein. In conclusion, a mixture of green tea catechins and caffeine has a beneficial effect on body-weight management, especially by sustained energy expenditure, fat oxidation, and preservation of fat free body-mass, after energy restriction induced body-weight loss, when taking the limitations into account.

In wetlands, a distinct zonation of plant species composition occurs along moisture gradients, due to differential flooding tolerance of the species involved. However, "flooding" comprises two important, distinct stressors (soil oxygen demand [SOD] and partial submergence) that affect plant survival and growth. To investigate how these two flooding stressors affect plant performance, we executed a factorial experiment (water depth x SOD) for six plant species of nutrient-rich and nutrient-poor conditions, occurring along a moisture gradient in Dutch dune slacks. Physiological, growth, and biomass responses to changed oxygen availability were quantified for all species. The responses were consistent with field zonation, but the two stressors affected species differently. Increased SOD increased root oxygen deprivation, as indicated by either raised porosity or increased alcohol dehydrogenase (ADH) activity in roots of flood-intolerant species (Calamagrostis epigejos and Carex arenaria). While SOD affected root functioning, partial submergence tended more to reduce photosynthesis (as shown both by gas exchange and 13C assimilation), leaf dark respiration, 13C partitioning from shoots to roots, and growth of these species. These processes were especially affected if the root oxygen supply was depleted by a combination of flooding and increased SOD. In contrast, the most flood-tolerant species (Juncus subnodulosus and Typha latifolia) were unaffected by any treatment and maintained high internal oxygen concentrations at the shoot : root junction and low root ADH activity in all treatments. For these species, the internal oxygen transport capacity was well in excess of what was needed to maintain aerobic metabolism across all treatments, although there was some evidence for effects of SOD on their nitrogen partitioning (as indicated by 865N values) and photosynthesis. Two species intermediate in flooding tolerance (Carex nigra and Schoenus nigricans) responded more idiosyncratically, with different parameters responding to different treatments. These results show that partial submergence and soil flooding are two very different stressors to which species respond in different ways, and that their effects on physiology, survival, and growth are interactive. Understanding species zonation with water regimes can be improved by a better appreciation of how these factors affect plant metabolism independently and interactively.