In arid and semi-arid ecosystems, dominant tree species create dramatic mosaics of plant islands of fertility and relatively barren plant interspaces that exert immense pressure on ecosystem processes and offers an ideal opportunity to explore the impact of bacterial communities. We evaluated potential links between soil respiration and N mineralization, and community co-occurrence networks and predicted gene function across three tree island microsites (i.e., beneath tree canopies, at the canopy edge, and in interspaces) in a replicated field experiment in thirty-eight woodlands sites in the Great Basin Desert in UT, USA. Additionally, we potentially intensified the effects of tree islands by creating a treatment where whole trees were shredded and the resulting fine woody debris (FWD) was deposited onto the soil surface and measured a suite of characteristics relating to the metabolic functional state of communities (i.e., microbial efficiency as the microbial quotient, C substrate quality, biomass, and dissolved organic C) to improve our interpretation of potential links between function and structure. We found that tree islands were the predominant driver, creating highly complex and connected assemblies of bacterial populations and easily discernable differences in abundance and composition of predicted functional genes. Specifically, communities directly beneath Juniperus and Pinus canopies were comprised of at least 5.2-times more connections between bacterial taxa than present in networks from interspace and edge. Using Phylogenetic Investigation of Communities by Reconstruction of Unobserved States (PICRUSt) to predict the gene expression, differences in the functional potential mirrored shifts in network complexity. Tree island communities expressed 236 genes with many related to the degradation of polyaromatic or polycyclic compounds, while interspace communities expressed only 66 genes associated with the decomposition of more labile C substrates. We observed a robust tree island microsite effect on all ecosystem processes, with soil respiration rates increasing 12% and N mineralization decreasing 29% in canopy than interspace soils demonstrating that a more recalcitrant substrate from a sole C source provided high amounts of low quality of DOC and lead to a decrease in metabolic efficiency, but ultimately selected for a specific community assembly. Alternatively, communities at the edge of canopies, experiencing both tree island and interspace soil conditions generated similar levels of soil respiration as canopy soils regardless of not selecting for a highly connected community and/or specific genes suggesting that a diverse composition of labile and recalcitrant C substrates from multiple sources (e.g., trees, perennial grasses, annual grasses, and forbs) potentially elevates function by promoting the activity of a wide range of taxa. Our results identify that tree islands exert enough pressure to create distinct interactions between bacteria and alter gene expression resulting in changes in ecosystem function, but the link between structure and function is mediated through the diversity and quality of C substrates.

Historical land use and changes in climate have altered fire behavior and severity in fire-prone ecosystems of western North America. A variety of fuels treatments are used to abate fire hazard, restore ecosystem processes, and increase forest resilience. Mechanical fuels treatments are increasingly used to alter forest structure and fuel continuity due to impediments to the use of prescribed fire. An increasingly common fuels treatment is mechanical mastication. Mastication does not remove fuels, but instead rearranges live and dead vertical woody fuels into a compacted layer on the forest floor. While mastication reduces potential fire intensity, these compacted fuels are flammable and capable of causing tree mortality and other negative ecological consequences when they burn in prescribed fires or wildfires. A current knowledge gap is quantitative information about the rate at which masticated fuels decompose and the rate at which vegetation reestablishes within sites previously masticated. Using 25 sites across northern California and southern Oregon, this thesis examines how masticated fuels change over time. Results from this study demonstrate that the majority of mass lost from masticated fuel beds occurred in the 1 and 10-hour woody fuel classes. Because surface fire behavior is driven by these fine fuels, these findings are valuable to the planning and retreatment of masticated fuels treatments and the corresponding fire suppression efforts in masticated sites. In combination with masticated wood surface fuels, shrubs and small trees play an important role in fire behavior, acting as ladder fuels that exacerbate surface fire behavior and threaten to ignite residual trees. A lack of understanding of how woody vegetation recovers following masticated fuel treatments gives rise to questions and challenges regarding treatment longevity. In this study, species with the ability to resprout tended to recover more quickly than obligate seeding species. Residual conifer saplings or trees that establish in masticated fuelbeds also recovered rapidly, reducing the efficacy of fuels treatments. Future implementation of masticated fuels treatments should consider both woody fuel decomposition and the corresponding recovery of shrubs and small trees to maximize treatment longevity. / Master of Science

<p>Worldwide amphibians and reptiles are declining with habitat fragmentation and destruction as the primary cause. Riparian areas are important for the herpetofauna, but as land is converted to agriculture or harvested for timber the areas are diminishing. The aim of this study was to examine amphibian and reptile abundance in relation to distance from water and in relation to habitat characteristics, foremost per cent deciduous trees. The survey was conducted during spring at six different locations, with continuous forest along streams or rivers, outside of Karlstad, Sweden. Animals were searched along four lines parallel to the water and each study area was visited five times. Statistical analyses were made for grass snake (<em>Natrix natrix</em>), common lizard (<em>Lacerta vivipara</em>) and frogs with joined data of common frog (<em>Rana temporaria</em>) and moor frog (<em>R. arvalis</em>). As expected both reptiles were positively correlated with per cent deciduous trees, with the strongest significance for the common lizard. For grass snake there was also a difference between survey periods, which might reflect the importance of weather. Frogs revealed no trends to trees, but there was a significant difference for habitat characteristics like amount woody debris and per cent bare ground. None of the species were correlated with distance from water which was surprising, especially for the frogs which is more dependent on water than the reptiles. Grass snakes hunt in the water, but the common lizard has no such associations to the water, yet the latter did reveal a slight trend towards being more numerous closer to the water. The causes behind lacking correlation to distance from water may be many, but water characteristics seem very important. Many amphibians prefer warm and calm ponds over running water that in general are colder and likely to inhabit more predators. It was assumed that the amphibians breed in the streams or rivers, but it is possible that other water bodies may have served as breeding sites, which mean the starting point was incorrect.</p>

Worldwide amphibians and reptiles are declining with habitat fragmentation and destruction as the primary cause. Riparian areas are important for the herpetofauna, but as land is converted to agriculture or harvested for timber the areas are diminishing. The aim of this study was to examine amphibian and reptile abundance in relation to distance from water and in relation to habitat characteristics, foremost per cent deciduous trees. The survey was conducted during spring at six different locations, with continuous forest along streams or rivers, outside of Karlstad, Sweden. Animals were searched along four lines parallel to the water and each study area was visited five times. Statistical analyses were made for grass snake (Natrix natrix), common lizard (Lacerta vivipara) and frogs with joined data of common frog (Rana temporaria) and moor frog (R. arvalis). As expected both reptiles were positively correlated with per cent deciduous trees, with the strongest significance for the common lizard. For grass snake there was also a difference between survey periods, which might reflect the importance of weather. Frogs revealed no trends to trees, but there was a significant difference for habitat characteristics like amount woody debris and per cent bare ground. None of the species were correlated with distance from water which was surprising, especially for the frogs which is more dependent on water than the reptiles. Grass snakes hunt in the water, but the common lizard has no such associations to the water, yet the latter did reveal a slight trend towards being more numerous closer to the water. The causes behind lacking correlation to distance from water may be many, but water characteristics seem very important. Many amphibians prefer warm and calm ponds over running water that in general are colder and likely to inhabit more predators. It was assumed that the amphibians breed in the streams or rivers, but it is possible that other water bodies may have served as breeding sites, which mean the starting point was incorrect.

In Kentucky, Best Management Practices (BMPs) were developed to protect the integrity of water resources during and after silvicultural operations, but their effectiveness is largely unknown. The study objectives were to (1) quantify the extent to which current BMPs minimized logging-related changes in stream water quality, channel morphology, and the content of woody debris and (2) quantify the extent to which modified BMPs influenced these characteristics. Six watersheds in eastern Kentucky were commercially logged in 2008-2009. In each watershed, one of three treatments was implemented (each replicated once). Treatment 1 (BMP) was based on current Kentucky BMPs. In treatments 2 (BMP+) and 3 (BMP++), current BMPs were modified with additional protective measures. Before the harvest, sampling sites were established in each watershed. Channel morphology and woody debris data were collected at each site in 2006 and again 2014. Data for water chemistry were retrieved from ongoing sampling records. BMP watersheds were compared to one another and to unharvested control watersheds in each year independently. Data within each individual watershed were also compared across years. The results indicate that current BMPs were effective in minimizing changes in the watershed characteristics examined here, and the benefits of modified BMPs were highly variable.

Classical approaches to evaluate the stability of large woody debris (LWD) introduced in streams for habitat restoration or flood management purposes are usually based on inappropriate assumptions and hydraulic equations. Results suggest that the physics of small cylindrical elements located in large channels cannot be transferred to the case of a large roughness elements placed in small channels. The introduction of LWD in a small channel can generate a significant modification of the upstream hydraulic conditions. This modification has direct implications on the stability of the LWD. Experiments were performed in a controlled environment: a small stream section was represented by a low roughness rectangular flume and LWD were modeled with smooth PVC cylinders. Direct force measurements were performed with a load cell and results were used to identify an equation that evaluates the drag force acting on a large cylindrical element place in a rectangular channel. This equation does not depend on a drag coefficient. Water depths were also measured during the experiments and results were used to develop an approach that evaluates the upstream hydraulic impacts of a large cylinder introduced in a rectangular channel. The effect of the variation of the unit discharge (discharge per unit of width), cylinder size, cylinder elevation from the channel bed, and downstream hydraulic conditions, could be related to the upstream hydraulic conditions with relative success. Dimensionless parameters were developed to increase the versatility of the approach. The application of this approach to field cases is expected to require adjustments, mainly because of the roughness of natural environments differs from the smoothness of the controlled environment described in this work.