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Master of Science / Department of Biology / Keith B. Gido / Recognizing habitat needs of fishes across space and time is increasingly important for managing altered stream networks, such as in the Colorado River basin. Recent work on warm-water fishes suggest they might benefit from access to tributaries and their confluences. Fish movements or distributions within tributaries relative to distance from mainstem confluences in two streams with different network types (linear versus dendritic) were investigated in the San Juan River basin, USA. Upstream distance from the San Juan River resulted in species declines (Chaco Wash, linear network) or turnover (McElmo Creek, dendritic network). McElmo Creek movement patterns were likely attributed to spring spawning migrations of flannelmouth sucker (Catostomus latipinnis), spawning aggregations of razorback sucker (Xyrauchen texanus), foraging or refuge seeking by Colorado pikeminnow (Ptychocheilus lucius), and monsoon-related movements for channel catfish (Ictalurus punctatus) and razorback sucker. Razorback sucker and Colorado pikeminnow dominated movements at Chaco Wash, suggesting this backwater-like tributary supplied thermal or current refuge, foraging habitat, or both. Within McElmo Creek, a second study explored the importance of confluences by characterizing habitat use and movements of fishes at the junction of McElmo and Yellow Jacket creeks. Native fish dominated the confluence community composition. The reach downstream of the confluence had consistently higher abundances, species richness, and more frequent detections of tagged fishes relative to upstream reaches. Movement behaviors inferred by detection frequency of tagged fish among reaches surrounding the confluence differed among species. Small flannelmouth sucker (< 300 mm) and roundtail chub (Gila robusta) were commonly detected in Yellow Jacket Creek whereas large flannelmouth sucker (> 300 mm), bluehead sucker (C. discobolus), and channel catfish used McElmo Creek reaches. Monsoons increased McElmo Creek discharge which triggered upstream movements of channel catfish and displaced large flannelmouth sucker and bluehead sucker. Monsoons increased movements between McElmo and Yellow Jacket creeks by roundtail chub, small flannelmouth sucker, and black bullhead (Ameiurus melas). Combined, these two field studies emphasized using links between patterns and processes of tributary fish communities. Conservation, rehabilitation, and maintenance of connectivity and habitat heterogeneity at confluence zones likely can be a localized management strategy with expansive ecosystem effects.

Humans are modifying the global landscape at an unprecedented scale and pace. As a result, species are declining and going extinct at an alarming rate. Here, I investigate two main aspects of species’ declines: what factors are contributing to their declines and how effective our conservation efforts have been. I assessed one of the main mechanisms for protecting species by looking at the Endangered Species Act (ESA) in the United States. I examined three separate indicators of species declines for different groups of species: range contractions in Canadian imperilled species, declines in abundance in global amphibian populations and increases in temporal variability in abundance in North American breeding birds. I found that change in recovery status of ESA listed species was only very weakly related to the number of years listed, number of years with a recovery plan, and funding. These tools combined explained very little of the variation in recovery status among species. Either these tools are not very effective in promoting species’ recovery, or species recovery data are so poor that it is impossible to tell whether the tools are effective or not. I examined patterns of species’ declines in three different groups in relation to a number of anthropogenic variables. I found high losses of Canadian imperiled bird, mammal, amphibian and reptile species in regions with high proportions of agricultural land cover. However, losses of imperiled species are significantly more strongly related to the proportion of the region treated with agricultural pesticides. This is consistent with the hypothesis that agricultural pesticide use, or something strongly collinear with it (perhaps intensive agriculture more generally), has contributed significantly to the decline of imperiled species in Canada. Global increases in UV radiation do not appear to be a major cause of amphibian population declines. At individual sites, temporal changes in amphibian abundance are not predictably related to changes in UV intensity. Variability in species’ abundance of North American breeding birds, after accounting for mean abundance, is not systematically higher in areas of high human-dominated land cover or climate change. Rather, it appears that areas with a high proportion of human-dominated cover come to have a higher proportion of highly abundant, and thus more variable, species.

Landscape management has altered the population dynamics of many species residing in old growth ecosystems. As a result, fragmentations in residual old oak habitats in Sweden have led to the decline of endangered and long-lived polypores including the bright orange Hapalopilus croceus. Since little is known about this species, the aim was to investigate its growth, mating, and population biology using molecular and ecological methods. Specifically, what its growth patterns are, what its mating type is, and whether there is genetic variation among sampled populations in Sweden and the Baltic area. Fruiting body samples were collected from 34 localities in Sweden and 6 localities in neighboring Baltic States. Heterokaryotic mycelia were then cultivated from these samples and the genomes sequenced. 42 single-spore isolates from SLU's culture bank were also revived and cultured. These homokaryons were then crossed to determine mating type. Mating type was examined using morphological observations and calculated via mating matrix. To examine growth rate and establishment, H. croceus mycelia were grown in comparison to Fomitopsis pinicola mycelia. To explore the population biology, the potential for gene flow was analyzed among Swedish and Baltic isolates. As a result, H. croceus was found to be slow growing, exhibit a tetra polar mating type, and with limited genetic variation in the Baltic Sea area. Its slow growth could provide a possible insight into colonization strategy, whereas its multiallelic mating system could possibly increase outcrossing in the future. Minimal genetic variation could result from previous connectivity between oaks, where the fungus may have outbred readily and colonized more hosts, maintaining a more uniform genetic structure. However, recent habitat alteration has not been analyzed for this species, nor has community interaction among other fungi and fruiting dynamics. Thus, further examination of these factors would help expand this study and possibly provide conservation and management guidelines for future projects.

Unionoid mussels are globally threatened and their conservation requires species-specific knowledge on their ecology and parasite-host interaction. Unio crassus is one of Europe’s most threatened unionoid species and has a temporary obligate parasitic life stage (glochidia) on fish. A lack of suitable hosts is probably a major limitation for mussel recruitment, but host species composition, suitability and availability in time and space have yet to be fully explored. This thesis examines different aspects of the host fish species, including their composition, suitability and ecological importance, in relation to U. crassus, using both field and laboratory studies. The effects of mussel and host density on mussel reproductive potential were considered, as were aspects of evolutionary adaptations between mussels and fish and how climate change may affect their interaction. The results show that U. crassus is a host generalist, parasitizing a variety of fish species. Host suitability and density, which varied among fish species and rivers, affected the level of glochidia encapsulation, hence mussel reproductive potential, more so than the density of mussels taking part in reproduction. Ecologically important hosts included both highly suitable primary hosts, and less suitable hosts that were highly abundant. Whether or not U. crassus has specific adaptations to its hosts to enhance juvenile transformation remains unclear. No distinct pattern of local adaptation was found, nor was there an effect of host fish presence on the timing of glochidia release by adult mussels. Instead, temperature played a major role, with results suggesting that changes in spring water temperature regimes can cause temporal and spatial mismatches in the mussel-host interaction. This thesis indicates that investigations of local mussel-host interactions help in identifying mechanisms important for unionoid conservation management and prioritization. / Många sötvattenmusslor har en komplex livscykel där larverna (glochidier) under sin utveckling till frilevande musslor parasiterar på gälarna hos lämpliga värdfiskar. Flera av våra musslor, såsom den tjockskaliga målarmusslan (Unio crassus), är globalt hotade och för att kunna bevara och förvalta dessa arter på bästa sätt behöver vi lära oss mer om deras ekologi och samspelet mellan musslan och dess värdfiskar. Avsaknaden av värdfiskar innebär förmodligen en stor begränsning för rekryteringen av juvenila musslor, men det finns trots detta en begränsad kunskap om hur artsammansättningen i fisksamhället och dess tillgänglighet påverkar musselpopulationer.  Min avhandling undersöker olika aspekter av interaktioner mellan U. crassus och dess värdfiskar, som hur värdfisksamhällen och fiskarters värdlämplighet påverkar musslans reproduktionspotential. Jag har även studerat hur tätheter av olika fiskarter och vuxna musslor påverkar rekryteringen, eventuella evolutionära anpassningar samt om en förhöjd temperatur skulle kunna påverka interaktionen mellan U. crassus och dess värdfiskar. Resultaten visar att U. crassus är en generalist som parasiterar på en mängd olika fiskarter. Jag fann dock en stor variation i dominerande fiskarter och lämpliga värdar mellan olika åar, vilket påverkade reproduktionspotentialen hos musslorna mer än vad tätheten vuxna musslor som deltog i reproduktionen gjorde. Som ekologiskt viktiga värdar fanns således både särskilt lämpliga, primära värdarter, men också mindre lämpliga arter som förekom i höga tätheter. Ingen tydlig lokal anpassning kunde observeras, och fiskens närvaro påverkade inte tidpunkten för när de vuxna musslorna släppte sina glochidielarver. Däremot fann jag att temperaturen spelade en viktig roll för musslans reproduktion, där ökad temperatur föreslås ha negativa effekter på interaktionen mellan musslan och dess värdfiskar. Avhandlingen visar på vikten av att studera interaktioner mellan den tjockskaliga målarmusslan och dess värdar på lokal skala för att bättre kunna identifiera och prioritera viktiga naturvårdsåtgärder. / UnioCrassusforLIFE (European LIFE+ project: LIFE10 NAT/SE/000046)

Stonecats (Noturus flavus, Rafinesque 1818) are designated as a Vermont state-listed endangered species because their known distribution is limited to two systems, the LaPlatte and Missisquoi rivers. The restricted distribution and lack of knowledge on abundance in either river is cause for concern in the continued survival of these populations. Based on the capture numbers and large size range of individuals, we predicted that the population in the LaPlatte River, which provides quality benthic habitat, is stable. However, the Missisquoi River population has the potential for increased intermittent mortalities from two sources, lampricide (3-trifluoromethyl-4-nitrophenol) treatment every four years and dewatering during drought conditions. In 2012, 2013, and 2014 we captured, PIT tagged (> 90 mm total length), and VIE marked all Stonecats collected using backpack electrofishing and minnow traps in the LaPlatte and Missisquoi rivers. A total of 1252 were PIT tagged in the LaPlatte River and 125 in the Missisquoi River. First we estimated survival and seniority of Stonecats in the LaPlatte River, using the Pradel model in Program Mark, and derived an average annual lambda of 0.9826. The population estimates from the LaPlatte River were modeled in a population viability analysis (PVA). Few Stonecats were captured in the Missisquoi River, so we used the PVA model to estimate the extinction rates with increased intermittent mortalities on 4-, 6-, and 8-year cycles to predict the long-term viability of the population. With an initial number of 2000 individuals, the population became extinct 100% of the time with an increase in mortality of 0.1 on a 4-year cycle. Our results indicate that the LaPlatte River population is stable, but the Missisquoi River population, in the area affected by lampricide, is not. These results are informative for developing future management scenarios, however, our approach has uncertainty that can only be addressed through obtaining more data on the Missisquoi River population.

Enneacanthus chaetodon, the blackbanded sunfish, has become increasingly rare throughout its distribution in the Eastern United States. In Virginia, E. chaetodon maintains an endangered status and individuals persist in six populations. Mitochondrial DNA (mtDNA) and microsatellite data were assessed to determine the genetic characters and gene diversity of the Virginia populations. The results of these analyses were then compared to five additional populations; four from New Jersey and one from North Carolina that were known to have relatively good fitness and were not impacted severely by habitat alteration. The results of this study are relevant to selection of proper management techniques and strategies for this species. Mitochondrial DNA analyses detected no variation in the Virginia populations but significant (P F > 0.2) of inbreeding. The New Jersey and North Carolina populations demonstrated lower amounts of inbreeding than populations in Virginia. New Jersey displayed a significant (P < 0.05) amount of subdivision among populations compared to Virginia. Hypothesis testing supported the contention that the regions are significantly different from one another and that Virginia populations may have gone through one or more population bottlenecks in the past, explaining the low levels of diversity observed and significantly high inbreeding coefficients. Captive breeding programs could be implemented as a management measure to increase population numbers and restore fish into areas where they have been known to inhabit in the recent past. From a proper management perspective, habitat protection and maintenance are more important than supplementation to population survival. Success of either approach with Virginia populations would provide a useful model for managing small populations of blackbanded sunfish in other regions.This project was supported by a grant from the Virginia Department of Game and Inland Fisheries (VDGIF), grant #ED0817BB.

The name and the central topic of this thesis is "Criminal Liability in Environmental Protection" and it is divided into two main parts. Firstly, it is an analysis and a description of a valid legal regulatory framework of criminal liability in environmental matters within the Czech legal system with a full description of each of the offences against environment under the new Criminal Code, Act N. 40/2009 Coll., as amended. The focus of the second part is on the international illegal trade in wildlife and the problems of enforcement. First chapter of this part is dedicated to the Convention on International Trade in Endangered Species of Wild Fauna and Flora. In the second chapter I focus primarily on the problems of enforcement, which remain even though wildlife crime (and environmental crime in general) seems to benefit from an increasing profile amongst agencies tasked with its control. The last chapter of this part aims to explain the term "Situational Crime Prevention".

This thesis deals with geographical distribution and taxonomy of Steccherinum genus in the Czech Republic. Members of this genus are corticioid fungi of Meruliaceae family, characterized by odontioid hymenophore, small spores and encrusted pseudocystidia. Presence of nine species was confirmed in Czech Republic on the basis of herbarium specimen revision and study of my own collections. Analysis of ITS and LSU nrDNA gene regions was used to create phylogenetic trees. These trees show relations in Steccherinum genus and related species. Selected traits in specimens of S. ochraceum s. l. (number of spines, their length, spore size and pseudocystidia size) were measured. This was followed by investigation of morphological variability in individual specimens and in relationship to ecological conditions (substrate and elevation). Morphology of selected individuals was compared with molecular data afterwards. Two clades were defined in S. ochraceum s. l. - existing differences between them are presumably caused by intraspecific genetic variability. S. rhois could not be separated as individual species on the basis of phylogenetic analysis. Dependence of fruiting body morphology on ecological conditions wasn't supported by results. Maps of geographic distribution of individual species of Steccherinum genus are...

The purpose of the thesis is to describe international, EU and Czech wildlife trade laws by identifying the regulatory measures established at these levels of law and examining them from the perspective of each. It further seeks to analyze how CITES obligations governing these measures are incorporated into the EU and Czech legislation and investigate whether they are likely implemented inadequately or, conversely, more strictly. Additionally, it points out some of the potential problems of the current legal framework as well. The thesis is composed of six chapters. Chapter one explains the goals of environmental policy in the area of nature conservation and biodiversity protection related to wildlife trade and reasons for the very existence of its regulation. Chapter two is concerned with general aspects of wildlife trade law such as its objective, purpose, principles and role within environmental law. Chapter three outlines the main and also some other relevant sources of law. Chapter four determines the principal regulatory measures which are contained within the legal regime in order to enable it to achieve its objectives. The fifth chapter then focuses on two groups of legal means designed to ensure the compliance of CITES parties and to enforce the provisions of EU and Czech wildlife trade legislation...