The existing observations and model simulations indicate that mesoscale eddies and the Eastern Boundary Current (EBC) have a significant role in the complex circulation of the Red Sea. However, a full understanding of the processes that contribute to the physics and biological responses of the central Red Sea (CRS) has been limited due to the lack of sustained in-situ observations. In this dissertation study, in-situ observations extending over a thirty-three month period from spring 2013 through winter 2015 include an intensive ship-based and glider monitoring program to understand the key dynamic features of the CRS circulation. Nine glider missions and five ship-based surveys provide concrete resolution of both spatial and temporal variability in the CRS. The quasicontinuous glider observations resolve the influence of distinct water masses with a different origin that is present in the study area. Our results show that mesoscale eddies and the an intrusion of Gulf of Aden water governs the physical and biochemical characteristics of the CRS during the winter to summer transition period in 2013. During this period, an anticyclonic eddy appears to redirect the northward flow along the eastern boundary. Ship-based observations in fall 2013 indicate that the EBC can periodically transport patches of less salty and warmer water containing higher chlorophyll concentrations from south into the CRS. During spring 2014, ship observations show the presence of a cyclonic/anticyclonic eddy pair. The cyclonic eddy contribute an upward nutrient flux, resulting in an increase integrated chlorophyll concentration within the eddy. Higher chlorophyll and CDOM concentrations and lower N:P ratios characterized the inflow of lower salinity Gulf of Aden water from the south. To understand better how the mesoscale eddy activity, stratification, and the EBC modulate the nutrient availability and planktonic food web architecture in Red Sea two addition hydrographic surveys with plankton sampling were conducted in fall 2014 and spring 2015. The seasonal availability of Gulf of Aden water, stratification and eddies exerted a demonstrable effect on the plankton community by modulating the availability and utilization of allochthonous vs. autochthonous macronutrients by phytoplankton. Strong stratification, higher temperatures and depletion of nutrients by phytoplankton, subjected the plankton community to an overall nitrogen and phosphorus deficit in fall. To evaluate the role of the winter mixing, mesoscale eddies, and EBC within CRS during the winter to spring period, a sustained glider study (~91 days) was initiated from December 2014 to March 2015. Glider observations show the seasonal contrasts and transitions from strong summer stratification to winter mixing, with a corresponding transition from a well defined deep chlorophyll maximum to phytoplankton population intrusions of lower salinity water from the Gulf of Aden contributed to both the physical and biochemical variability within the region. Both GASW and GAIW can be entrained and diverted across the basin by larger eddies. Eddies play a role in the mixing between warmer, fresher water from the Gulf of Aden, and cooler, saltier water from the northern Red Sea.

Marine deoxygenated areas are expanding, and more hypoxic zones emerge globally. Climate change induced warming and stratification can extrapolate the biological oxygen demand, more predominantly at coastal areas and reefs with dense vegetation and high metabolic activity. The diurnal oxygen fluctuation can reach a critically low oxygen level at nighttime, exposing aquatic organisms to severe hypoxia that could interfere with viable ecosystem functions. Little is known about the impact of hypoxia on marine primary producers macroalgae, mainly the physiological adaptation of the Red Sea macroalgae under climate change scenarios is understudied. Here we investigate hypoxia thresholds at night time for conspicuous Red Sea macroalgae species calcareous Halimeda opuntia and Padina boryana and noncalcifying brown algae Sargassum latifolium. We utilized a computer-based gas system to expose the samples to different oxygen treatments (normoxia, hypoxia, and severe hypoxia) that mimic in situ water chemistry at 32 °C. We monitored algal physiological response during 12 hours of exposure to different oxygen levels in the dark by measuring photochemical efficiency, respiration rates, and cellular viability. For the duration of our experiments (12h), we did not detect lethal thresholds. In all tested species, severe hypoxia significantly decreased photochemical efficiency, and hypoxia had a limited impact on photochemical efficiency. However, both low oxygen treatments significantly decreased respiration rates and induced changes in cellular activity. We concluded a sublethal O$_2$ thresholds SLC$_{(50)}$ of 1.2 ±0.1, 1.5 ±0.1, and 1.7 ±0.1 mg O$_2$ L$^{−1}$ ±SD for H. opuntia, P. boryana, and S. latifolium responses, respectively. We also found that during 12 hours of treatments, the median time to observe a 50% reduction in photochemical efficiency under severe hypoxia treatment relative to control was 6.3 ±1.4, 3.5 ±1.0, and 0.8 ±1.3 hours ±SD for H. opuntia, P. boryana, and S. latifolium responses, respectively. This study is the first assessment of Red Sea macroalgae response to hypoxia and the first dark nighttime algal adaptation of its kind for our proposed species. Further investigation is needed to assess daytime recovery, recurring dark hypoxia, and synergic or sequential effects of other environmental stressors on hypoxia thresholds.

Despite high temperature and salinity conditions that challenge reef growth in other oceans, the Red Sea maintains amongst the most biodiverse and productive coral reefs worldwide. It is therefore an important region for the exploration of coral reef functioning, and expected to contribute valuable insights towards the understanding of coral reefs in challenging environments. This dissertation assessed the baseline variability of in situ abiotic conditions (temperature, dissolved oxygen, pH, and total alkalinity, among others) in the central Red Sea and highlights these environmental regimes in a global context. Further, focus was directed on biotic factors (biofilm community dynamics, calcification and bioerosion), which underlie reef growth processes and are crucial for maintaining coral reef functioning and ecosystem services. Using full-year data from an environmental cross-shelf gradient, the dynamic interplay of abiotic and biotic factors was investigated. In situ observations demonstrate that central Red Sea coral reefs were highly variable on spatial, seasonal, and diel scales, and exhibited comparably high temperature, high salinity, and low dissolved oxygen levels, which on the one hand reflect future ocean predictions. Under these conditions epilithic bacterial and algal assemblages were mainly driven by variables (i.e., temperature, salinity, dissolved oxygen) which are predicted to change strongly in the progression of global climate change, implying an influential bottom up effect on reef-building communities. On the other hand, measured alkalinity and other carbonate chemistry value were close to the estimates of preindustrial global ocean surface water and thus in favor of reef growth processes. Despite this beneficial carbonate chemistry, calcification and carbonate budgets in the reefs were not higher than in other coral reef regions. In this regard, seasonal calcification patterns suggest that summer temperatures may be exceeding the optima of calcifiers. As a possible interpretation of the here observed environmental regimes, it can be concluded that the central Red Sea may be less sensitive to ocean acidification, but is already impacted by ocean warming. Importantly, this dissertation provides valuable present-day baseline data of the natural variability of relevant abiotic drivers together with benthic community and reef growth dynamics. These data will be important for future comparative studies and efforts to quantify the impact of future environmental change in the region.

The exceptional environment of the Red Sea has lead to high rates of endemism and biodiversity. Located at the periphery of the world’s coral reefs distribution, its relatively young reefs offer an ideal opportunity to study biogeography and underlying evolutionary and ecological triggers. Here, I provide baseline information on putative seasonal recruitment patterns of reef fishes along a cross shelf gradient at an inshore, mid-shelf, and shelf-edge reef in the central Saudi Arabian Red Sea. I propose a basic comparative model to resolve biogeographic patterns in endemic and cosmopolitan reef fishes. Therefore, I chose the genetically, biologically, and ecologically similar coral-dwelling damselfishes Dascyllus aruanus and D. marginatus as a model species-group. As a first step, basic information on the distribution, population structure, and genetic diversity is evaluated within and outside the Red Sea along most of their global distribution. Second, pelagic larval durations (PLDs) within the Red Sea environmental gradient are explored. For the aforementioned, PLDs of the only other Red Sea Dascyllus, D. trimaculatus, are included for a more comprehensive comparison. Third, to further assess ongoing pathways of connectivity and geneflow related to larval behavior and dispersal in Red Sea reef fishes, the genetic composition and kinship of a single recruitment cohort of D. aruanus arriving together at one single reef is quantified using single nuclear polymorphisms (SNPs). Genetic diversity and relatedness of the recruits are compared to that of the standing population at the settlement reef, providing insight into putative dispersal strategies and behavior of coral reef fish larvae. As a fourth component to study traits shaping biogeography, the ecology and adaptive potential of the cosmopolitan D. aruanus is described by studying morphometric-geometrics of the body structure in relation to the stomach content and prey type from specimen along the cross-shelf of the central Red Sea and at a site outside the Red Sea, in Madagascar, and approach whether foraging strategies change depending on geographic location and environment, and if differences in diet are followed by phenotypic plasticity. Jointly, results suggest that biological responses and putative adaptive strategies are correlated with different biogeographic ranges and habitat preferences.

Photoautotrophic organisms have been highlighted as carbon capture and conversion platforms for sustainable production of agricultural and chemicals in KSA. Previously two cyanobacterial strains, Geitlerinema spp. CT7801 and CT7802, were isolated from an industrial brine outfall site in the Eastern Province of the Kingdom of Saudi Arabia. Initial characterization of their growth characteristics showed growth at high temperature (38 ºC) and high salinity ( > 60 PSU), making them potentially good candidates for industrial applications. In this study, quantitative growth assays were performed using standardized methods developed for the analysis of Red Sea photosynthetic microorganisms supported by microscopic observations, optimal growth media preference assays, CO2 concentration effect, photoperiod effect, mixotrophic and heterotrophic growth tests. Data was recorded for absorbance (600 and 750 nm wave lenght), dry cell weight (DCW), colorimetric observations, and chlorophyll a content. Both CT7801 and CT7802 exhibited a clear preference for Walne's Red Sea medium. An analysis on media composition highlights B and Fe as growth enhancers, as well as a base requirement of seawater. Tests on the effect of supplied concentration of CO2 showed that air enhanced with 1 % v/v CO2 allows approximately 2-fold increase in DCW for Geitlerinema spp. CT7802. Photoperiod tests showed that continuous light is disadvantageous for phototrophic growth of Geitlerinema spp. CT7801 and CT7802. Results for mixotrophic and heterotrophic growth of Geitlerinema spp. CT7801 and CT7802 revealed their ability to metabolize glycerol. Analysis on the complete genome of CT7802 identified three key enzymes, glycerol kinase, glycerol-3-phosphate dehydrogenase and triosephosphate isomerase, which may catalyze the glycerol metabolic pathway in the strain. Utilization of glycerol, a residue of the biodiesel industry, might provide a sustainable alternative for growth of Geitlerinema sp. CT7802.

Life in oceans originated about 3.5 billion years ago where microbes were the only life form for two thirds of the planet’s existence. Apart from being abundant and diverse, marine microbes are involved in nearly all biogeochemical processes and are vital to sustain all life forms. With the overgrowing number of data arising from culture-independent studies, it became necessary to improve culturing techniques in order to obtain pure cultures of the environmentally significant bacteria to back up the findings and test hypotheses. Particularly in the ultra-oligotrophic Red Sea, the ubiquitous SAR11 bacteria has been reported to account for more than half of the surface bacterioplankton community. It is therefore highly likely that SAR11, and other microbial life that exists have developed special adaptations that enabled them to thrive successfully. Advances in conventional culturing have made it possible for abundant, unculturable marine bacteria to be grown in the lab. In this study, we analyzed the effectiveness of the media LNHM and AMS1 in isolating marine bacteria from the Red Sea, particularly members of the SAR11 clade. SAR11 strains obtained from this study AMS1, and belonged to subgroup 1a and phylotype 1a.3. We also obtained other interesting strains which should be followed up with in the future. In the long run, results from this study will enhance our knowledge of the pelagic ecosystem and allow the impacts of rising temperatures on marine life to be understood.

One contemporary issue experienced worldwide is the climate change due to the combustion of fossil fuels. Microbial Electrochemical Systems pose as an alternative for energy generation. In this technology, microorganisms are primarily responsible for electricity production. To improve the performance it is reasonable to think that bacteria from diverse environments, such as the brine pools of the Red Sea, can be utilized in these systems. Samples from three brine pools: Atlantis II, Valdivia, and Kebrit Deeps, were analyzed using Microbial Electrochemical Cells, with a poised potential at +0.2 V (vs. Ag/AgCl) and acetate as electron donor, to evaluate the exoelectrogenic activity by the present microorganisms. Only samples from Valdivia Deep were able to produce a noticeable current of 6 A/m2. This result, along with acetate consumption and changes on the redox activity measured with cyclic voltammetry, provides arguments to con rm the presence of exoelectrogenic bacteria in this environment. Further characterization using microscopy and molecular biology techniques is required, to obtain the most amount of information about these microorganisms and their potential use in bioelectrochemical technologies.

Studying recent volcanic and tectonic events in the Red Sea region is important for improving our knowledge of the Red Sea plate boundary and for regional geohazard assessments. However, limited information has been available about the past activity due to insufficient in-situ data and remoteness of some of the activity. In this dissertation, I have used satellite remote sensing to derive new information about several recent volcanic and tectonic events in the Red Sea region. I first report on three volcanic eruptions in the southern Red Sea, the 2007-8 Jebel at Tair eruption and the 2011-12 & 2013 Zubair eruptions, which resulted in formation of two new islands. Series of high- resolution optical images were used to map the extent of lava flows and to observe and analyze the growth and destructive processes of the new islands. I used Interferometric Synthetic Aperture Radar (InSAR) data to study the evolution of lava flows, to estimate their volumes, as well as to generate ground displacements maps, which were used to model the dikes that fed the eruptions. I then report on my work of the 2009 Harrat Lunayyir dike intrusion and the 2004 Tabuk earthquake sequence in western Saudi Arabia. I used InSAR observations and stress calculations to study the intruding dike at Harrat Lunayyir, while I combined InSAR data and Bayesian estimation to study the Tabuk earthquake activity. The key findings of the thesis are: 1) The recent volcanic eruptions in the southern Red Sea indicate that the area is magmatically more active than previously acknowledged and that a rifting episode has been taken place in the southern Red Sea; 2) Stress interactions between an ascending dike intrusion and normal faulting on graben-bounding faults above the dike can inhibit vertical propagation of magma towards the surface; 3) InSAR observations can improve locations of shallow earthquakes and fault model uncertainties are useful to associate earthquake activity with mapped faults; 4). The successful application of satellite remote sensing technologies in studying the recent volcanic and tectonic processes in the Red Sea region implies that remote sensing data are an important resource for the local authorities to monitor geohazards.

Giant clams (Tridacninae subfamily) are prominent members of Indo-Pacific corals reefs, including the Red Sea, where they play multiple roles and are of distinct ecological significance for these communities. Tridacninae stand out among other bivalves as one of the few molluscan groups that live in a symbiosis with dinoflagellate Symbiodiniaceae. This relationship is comparable to the symbiosis of corals and their associated algae, where the symbionts provide a substantial amount of the respiratory carbon demand of the host through their photosynthetic activity. Their photosymbiosis restricts the distribution of the Tridacninae holobiont (i.e. giant clam host, symbiotic algae and associated bacteria) to the sunlit, shallow waters of the euphotic zone, where organisms receive sufficient incident light to maintain their high rates of primary production and calcification. However, giant clams in these shallow reefs are simultaneously exposed to potentially high and damaging levels of solar (UV) radiation. This thesis includes research on the Red Sea Tridacna spp. holobiont from an ecosystem to microscale level. It assess the abundance and distribution of Red Sea giant clams, including their associated symbiotic microalgae and bacterial microbiome. Further, it describes the strong light-dependency of calcification and primary production of Red Sea Tridacna maxima clams and reports on the effective photo-protective mechanisms that have been evolved by these clams to thrive in shallow reefs, despite levels of high solar irradiance. Tridacninae developed effective behavioral mechanisms for photo-protection, by which the clam is able to flexibly adjust its shell gaping behavior to incident light levels within a narrow time frame. On a microscale, Tridacninae use advanced photonic structures (iridocytes) within their tissues to mitigate the potential negative effects of high solar UV radiation, and to promote the photosynthesis of their symbiotic algae. Understanding the role of the Tridacna spp. holobiont for Red Sea coral reefs, its contributions to overall productivity, and its abundances in the region may serve as a baseline for further studies on this charismatic invertebrate. It may also contribute to the conservation efforts from local to regional scales, and eventually aid the protection of Tridacninae in the Red Sea and elsewhere.

Hydrostatic pressure (HP) and low temperature are among the main parameters that affect the microbial activity in the deep sea. Especially in the event of an oil spill, the natural microbial degradation of hydrocarbons in the harsh conditions of the deep sea can be significantly impaired. In the Red Sea, the temperature in the deep (22°C) is much higher than in other oceans and may favor hydrocarbon degradation. Bacteria of the genus Alcanivorax, which are prominent and ubiquitous alkane degrading bacteria, have been extensively studied because of their high abundance in oil-contaminated shallow water, but have been shown to be absent in the deep sea because of their piezo-sensitivity. In the present thesis, the novel species Alcanivorax marisrubri isolated at 1000 m from the Southern Red Sea has been evaluated for its piezo-adaptation under different combinations of temperature, and HP. A. marisrubri showed a piezotolerance different from other Alcanivorax species. Furthermore, a positive compensation of growth inhibition was observed when the cells were exposed to mild HP (10 MPa) in combination with a relatively high temperature of 38°C. While growth was inhibited at lower temperatures (20 and 26°C) under mild-HP (5 and 10 MPa), the metabolic activity was triggered, possibly in response to cellular stress. This study showed that the growth and metabolic activity of A. marisrubri under HP depend on temperature, which exerts a positive compensation effect and may extend the growth of this bacterium to the depths of the Red Sea.