This study has been performed as a pilot study for a project regarding the meridional migration of the Intertropical Convergence Zone (ITCZ) and its relationship with lightning activity in the Eastern Tropical Pacific (ETP). Objectives of this study were to analyze and improve lightning data to be used for such a study and to decide on a method and proper time scale of data analysis and ITCZ index development for this study. Exploratory data analysis has been practiced with World Wide Lightning Location Network (WWLLN) data and ITCZ index data. Results suggest that the most beneficial time-scale to be used for the above study is 15 days and that ITCZ estimations can be obtained via the use of precipitation index and cloud top temperature. Lightning data originated from atmospheric systems not associated with the ITCZ has been analyzed. This report proposes that Uppsala University should become part of the World Wide Lightning Location Network, enabling further work regarding this and similar projects.

In the Eastern Tropical Pacific (ETP), the operation mode of purse-seine fishing can be divided into dolphin sets and non-dolphin sets. Dolphin sets can catch more yellowfin tuna, but cause a lot of dolphin deaths. On the contrary, non-dolphin sets can catch more skipjack tuna, but discard a lot of tuna. Therefore, the choice of the operation mode to the ETP purse-seine fishery is very influential. If the fishermen use more dolphin sets, they are able to catch high quantity and more valuable yellowfin tuna. Conversely, if the fishermen use more non-dolphin sets, they will not hurt dolphins. But the tuna fish caught by this operation mode is smaller in size and the discarding rate is extremely high which will affect the overall profits of the fishermen. The research will investigate how the fishermen make the choice of the operation mode in the dilemma between dolphin sets which cause dolphins-bycatch and non-dolphin sets which result in tuna-discarding, In addition, if managers can ban dolphin sets or non-dolphin sets to maximize the profit of the fishermen and maintain the ecological balance between tuna and dolphins.

Understanding gene flow, diversity, and dispersal patterns is important for predicting effects of natural events and anthropogenic activities on dolphin populations. With the very recent exceptions of false killer whales (Pseudorca crassidens), spinner dolphins (Stenella longirostris), and common bottlenose dolphins (Tursiops truncatus), Hawaiian odontocete species are managed as single stocks within the U.S. Hawaiian Exclusive Economic Zone. These exceptions are a result of recent studies that have indicated that some species have populations that show fidelity to individual islands or groups of islands, resulting in genetic differentiation, often with management implications. The first part of my study (following the introductory chapter) focused on population structure of pantropical spotted dolphins (Stenella attenuata) near the Hawaiian Islands. Because of the level of human interaction, pantropical spotted dolphin populations need to be defined accurately to be managed in a way that will avoid local population losses, especially given that the commercial and recreational troll fisheries near the islands "fish on dolphins" to catch tuna. I analyzed genetic samples for mtDNA and microsatellite loci from four island regions: Hawai'i, the 4-islands area, O'ahu, and Kaua'i/Ni'ihau. My results support genetic differentiation among the regions of Hawai'i, the 4-islands area, and O'ahu and suggest that pantropical spotted dolphins near Kaua'i/Ni'ihau are likely transient and in very low numbers. There was no strong evidence to support sex-biased dispersal or group fidelity. Possibly, differentiation is mediated by behavior adapted to differing habitat types. From a management perspective, spinner and bottlenose dolphin populations near the Hawaiian Islands have been split into separate stocks for management based on levels of genetic differentiation similar to those found for pantropical spotted dolphins. These precedents suggest that comparable action should be taken to split pantropical spotted dolphin stocks near the Hawaiian Islands. Most population studies rely heavily upon fixation indicies like FST to determine whether populations are genetically differentiated. When FST values are low but significantly different from zero, it can be difficult to interpret the biological significance of these values. As part of my study, I suggest that one way to evaluate whether small FST values indicate significant differentiation is to compare FST values with other populations considered to be separate based on factors such as extreme distance or morphological differences. I examined pantropical spotted dolphins from the coastal and offshore Eastern Tropical Pacificm (ETP), Hawaiian Islands, and China/Taiwan to examine the utility of comparing FST values across separate populations. Among Hawaiian Island regions, FST values are significantly different from zero but small. The comparison of these FST values with more distant populations in the ETP and China/Taiwan indicated that differences among Hawaiian Island regions were similar in magnitude to those found between the offshore and coastal ETP sub-species, but smaller than between the Hawaiian Island regions and the other regions examined. This suggests a level of reproductive isolation among the Hawaiian Islands regions that is comparable to that of offshore and coastal ETP populations, and supports the value of fixation index comparisons in evaluating differentiation among putative populations. My results suggest that assigning specific numerical baseline FST values may not always be biologically meaningful but that determining whether related populations with geographic or other separation show a preponderance of similar, lower, or higher fixation index values can help evaluate whether genetic differences among sympatric or parapatric groups warrants designating them as separate populations for management. Lastly, I explore whether the fast evolving mtDNA control region may be more suited to phylogenetic comparisons among the Stenella than slower evolving gene regions and whether the small number of haplotypes generally used in phylogenetic analyses is adequate for defining relationships among dolphins. Usually, slow evolving regions, such as gene regions, are used in phylogenetic analyses because species and genera have been isolated long enough for variation to have accumulated in such regions but not so long that many reversals (i.e. a mutational change in sequence that later changes back to the original sequence) have occured. The mtDNA control region is typically used for population genetic comparisons rather than phylogenetic comparisons because it is considered to be a fast evolving region. Historically, dolphin phylogeny has been examined using gene regions, which have resulted in ambiguous and unexpected relationships. However, the lack of variation in the mtDNA control region for pantropical spotted dolphin populations and the fact that recent studies have found that the mtDNA control region in cetaceans evolves at about one quarter the rate of other mammals, raises the question as to whether this region would be better suited to phylogenetic studies for the Stenella (and potentially other dolphin species). In comparing 346 haplotypes from five species of Stenella world-wide, I found that the mtDNA control region is probably not a good region to use for phylogenetic analyses, and that even faster evolving regions might perform better. The differences in the mtDNA control region were not sufficient to distinguish clear relationships among the Stenella. I also found that when subsets of haplotypes chosen at random were compared, the results differed among comparisons, suggesting that there is value in using more than the usual one or two haplotypes when making phylogentic comparisons. Given the recent increases in sequence availability (e.g. GenBank) and computing power, researchers should strongly consider using many haplotypes from a variety of populations in their phylogenetic comparisons.

Corals are experiencing a worldwide decline in abundance and diversity. Reasons for this include anthropogenic impacts and associated changes to environmental conditions, including global climate change. Increasing atmospheric CO2 levels lead to a coordinated increase in sea surface temperatures and decrease in oceanic pH. Warming events associated with El Niño-Southern Oscillation (ENSO) amplify the impacts of steadily increasing temperatures. For example, coral communities in the Galápagos Islands experienced mortality rates of up to 95-99% during severe ENSO warming in 1982-1983. Persisting through such extreme conditions imposes additional challenges to survival in already marginal environments for coral growth and development that occur in the eastern tropical Pacific. This study quantifies via photoquadrats population changes in mean live coral cover, density, and colony size over a 7-year period (2004-2011) in a small community of the nodular coral Psammocora stellata located at Xarifa Island in the Galápagos Islands. The physical characteristics of this shallow (1-3 m depth) habitat include shading by tall basalt cliffs and strong water flushing action that may contribute to the persistence of this species at this atypical locality through mitigation of anomalously warm and cold conditions. Coral cover is high for this region, and significantly increased from 39.7% in 2004 to 58.3% in 2011 (p=0.006, Tukey HSD), an overall increase of 47%. Fluctuations in coral cover were associated with anomalous temperatures (up to +3.5° and -4.6° C compared to daily means). Negative temperature anomalies in 2007 were associated with a non-significant decrease in coral cover (55.3% in 2007 to 49.5% in 2009), and coral cover rebounded in 2011 to 58.3%. From 2004 to 2011 colony density increased significantly, from 258±62 to 612±245 colonies m-2 (p2 (pin situ, documenting values that ranged from 16.8° - 28.9° C. The persistence of the Psammocora community through both strong and moderate ENSO events demonstrates the resistance and resilience of the species to these temperature anomalies. Adding to the understanding of this species and its interactions with the surrounding physical processes will aid in the development and improvement of management strategies.

<div>Understanding what sea turtles are feeding on and where they are feeding is key to understand their overall biology and will aid in understanding what type of management actions are necessary in order to conserve and protect these endangered species. Here I set out to (1) examine the population-level isotopic profiles of three sea turtle species in the Eastern Tropical Pacific; (2) determine differences in their foraging strategies; (3) attempt to gain insights about their pre-nesting origins; and (4) determine whether body size would influence the isotopic values of an individual turtle.</div><div>Stable isotope analysis (δ¹³C and δ¹⁵N values) was conducted on tissue samples from 52 sea turtles nesting on Playa Cabuyal, Costa Rica; 28 Pacific green (<i>Chelonia mydas</i>), 20 olive ridley (<i>Lepidochelys olivacea</i>), and 4 leatherback (<i>Dermochelys coriacea</i>). Nine satellite transmitters were also deployed on a separate population of post-nesting Pacific green turtles from Playa Cabuyal.</div><div>Based on isotopic profiles, green turtles in the Eastern Tropical Pacific were found to be feeding at a higher trophic level when compared to green turtles in other regions and this was supported by their increased δ¹⁵N values (16 ± 0.8 ‰). Rather than shifting to herbivory as adults, green turtles foraging in the eastern Pacific are potentially remaining omnivorous. Tracking data further confirmed that green turtles are coastal migrators and are probably inhabiting areas with high δ¹⁵N values within this region. Olive ridley turtles are exhibiting similar behavior to olive ridley turtles elsewhere due to minimal variance in their isotopic profiles (δ¹³C = -15.1 ± 0.7 ‰, δ¹⁵N =14.2 ± 0.8 ‰) and their known nomadic behavior. Although a small sample size, leatherback turtles showed a shift in their foraging habitats suggesting they are also feeding inshore in addition to their pelagic behavior due to their increased δ¹³C values (-15.5 ± 0.4 ‰). Further, as body size increased in olive ridley’s, the δ¹⁵N values significantly decreased suggesting that larger turtles prefer deeper pelagic waters with less enriched N isotope concentrations. However, in order to rule out possible external factors influencing this relationship, knowing where the turtle is originating from is crucial. This project provides data for developing isoscapes in the Eastern Tropical Pacific to aid in understanding the spatial distribution of sea turtles and their foraging grounds and the impact that foraging area may have on overall biology of these species. This information can be used to prioritize high use foraging habitats and determine the most effective management practices for protecting these species and the prey and habitat on which they rely.</div>