Atmospheric aerosols have been studied in great depth in regards to its metrological and chemical characterizations. Covering about 33% of the planet, the Global Dust Belt is the major source of wind-blown dust. Airborne aerosols play important roles in the Earth systems, impacting the marine and terrestrial ecosystems, human and organismal health. Aerosolized dust can carry a diverse range of microorganisms that may be transported across large distances. If surviving the transport, influence, as vectors supporting microbial populations or as pathogens to other organisms, the recipient ecosystems where they may be delivered through dry and wet depositions. Located in the middle of the global dust belt area, the Red Sea receives about 1.2 Mt of emitted dust particles per storm and a total of 6 Mt dust deposition from the annual 5-6 storm events, which may contain important loads of microorganisms. This dissertation characterizes the taxonomical compositions of airborne prokaryotes and micro-eukaryotes and their transport history in the dust-associated microbiome, and the functional profile of the airborne microorganisms. The samples required to achieve these goals were collected with a high-volume dust collector over the Red Sea from the coastal and offshore regions over two years. In addition, microbial communities sampled from the surface Red Sea water were used to establish the possible relationship, suggesting an exchange, between the airborne microbial communities and those in the Red Sea. Since relying on culture5 based analyses would take no notice of unculturable microorganism, culture-independent techniques were followed to detect the vast majority of the biological particles on the sampled air filters. However, large volumes of air should be collected due to the difficulty of acquiring enough genomic materials from the low density of airborne microorganisms for molecular assays. Sahara Deserts and deserts in the Arabian Peninsula represented the major sources of microbial inputs to the Red Sea atmosphere. Hence, a high number of allergens, plant and mammalian pathogens, human and animal parasites have been detected in airborne dust samples, which could be of concern. Functionally, dust-associated microbiome has exclusive lifestyle’s features that facilitate a resilient strategy to survive during airborne transportation, so-called “aeolian lifestyle.”

Oligotrophic (sub-)tropical oceans receive intense incident ultraviolet radiation (UV, 280–400 nm) and their water columns are highly transparent due to their nutrient-deficient state. This combination suggests a high potential for adverse effects on organisms, yet only few reports describe the UV exposures received in these waters and the associated impacts on marine biota. Here, we aimed to investigate the UV bio-optics of various open ocean locations and, using the Red Sea as a representative oligotrophic environment, we investigated the pattern of UV attenuation over a wide latitudinal range, quantified UV exposures in the water column, and determined impacts of UVB (280–320 nm) on indigenous phytoplankton and scleractinian corals. Globally, the lowest average downwelling diffuse attenuation coefficients (Kd) in the UV spectrum were recorded in the ultra-oligotrophic Indian Ocean Subtropical Gyre (Kd(313nm): 0.110 m-1) and South Pacific Gyre (Kd(313nm): 0.098 m-1), while aCDOM(λ) was ~1–2 orders of magnitude higher than ap(λ), In the Red Sea, UV attenuation mirrored the prevailing latitudinal gradient in nutrients, with the lowest and highest Kd(313) of 0.130 m-1 and 0.357 m-1 measured in the far north and in the south of the basin, respectively. Central Red Sea waters were most transparent to UV in late summer, i.e., a few weeks after incident irradiances and SSTs reach their annual maximum. Although, the projected increase of SST due to climate change means that extreme UV exposure and temperatures could coincide in the near future. This finding is of particular relevance since we found that Red Sea diatom species such as C. closterium are highly sensitive to UVB-induced photoinhibition and cell decay (LRD50: 11.4 kJ). Water temperature also governed the UVB sensitivity of Synechococcus sp., although this group exhibited a high resistance overall (LRD50: 57 kJ to non-detectable). For corals, we found that UVB-removal generally had little impact on the oxidative stress levels and photophysiology of S. pistillata and P. verrucosa from shallow waters, but considerably accelerated the acclimation of upward transplanted corals, which highlights that UVB is a crucial stressor that governs the photoacclimation capacity of Red Sea corals.

Recent efforts in understanding the variability inherent in coastal and offshore waters have highlighted the need for higher resolution sampling at finer spatial and temporal resolutions. Gliders are increasingly used in these transitional waters due to their ability to provide these finer resolution data sets in areas where satellite coverage may be poor, ship-based surveys may be impractical, and important processes may occur below the surface. Since no single instrument platform provides coverage across all needed spatial and temporal scales, Ocean Observation systems are using multiple types of instrument platforms for data collection. However, this results in increasingly large volumes of data that need to be processed and analyzed and there is no current “best practice” methodology for combining these instrument platforms. In this study, high resolution glider data, High Frequency Radar (HFR), and satellite-derived data products (MERRA_2 and ARMOR3D NRT Eddy Tracking) were used to quantify: 1) dominant scales of variability of the central Red Sea, 2) determine the minimum sampling frequency required to adequately characterize the central Red Sea, 3) discriminate whether the fine scale persistency of oceanographic variables determined from the glider data are comparable to those identified using HFR and satellite-derived data products, and 4) determine additional descriptive information regarding eddy occurrence and strength in the Red Sea from 2018-2019. Both Integral Time Scale and Characteristic Length Scale analysis show that the persistence time frame from glider data for temperature, salinity, chlorophyll-α, and dissolved oxygen is 2-4 weeks and that these temporal scales match for HFR and MERRA_2 data, matching a similar description of a ”weather-band” level of temporal variability. Additionally, the description of eddy activity in the Red Sea also supports this 2-4-week time frame, with the average duration of cyclonic and anticyclonic eddies from 2018-2019 being 22 and 27 days, respectively. Adoption of scale-based methods across multiple ocean observation areas can help define “best practice” methodologies for combining glider, HFR, and satellite-derived data to better understand the naturally occurring variability and improve resource allocation.

Picoplankton, cells between 0.2 - 2 μm, play a vital role in the carbon flow and nutrient cycling in marine food webs. Auto- and heterotrophic picoplankton dominate the biomass of oligotrophic tropical and subtropical oceans. However, little is known about their vertical distribution, changes in space and time and their relationships with environmental variables in the central Red Sea. The goal of this Ph.D. dissertation is to obtain baseline knowledge about their abundance, cellular characteristics (cell size, relative pigment and nucleic acid content) and biomass at seasonal and high-frequency temporal resolution (every 2 hours). This dissertation also aims at assessing picoplankton responses to separate and joint effects of nutrients additions (inorganic, organic and mixed) and temperature in order to be able to predict the relative contribution of eutrophication and warming in the future standing stocks of picoplankton in the Red Sea. I conducted a total of 63 vertical profiles (15 at around noon plus 48 more from the high-frequency diel samplings) from the surface down to the bottom (ca. 700 m) at a station situated 6 km off the coast of King Abdullah Economic City (KAEC) in the central Red Sea and performed 4 nutrient and temperature experiments lasting each 6 days with surface waters from the harbor of King Abdullah University of Science and Technology (KAUST). Flow cytometry allowed me to consistently identify five groups of autotrophs (Prochlorococcus, two populations of Synechococcus separated by their relative phycoerythrin fluorescence, and two differently-sized groups of picoeukaryotes) and two groups of heterotrophic prokaryotes characterized by their different relative nucleic acid content. One of the most surprising findings is the relatively lower abundances and to a lesser extent also growth rates of picoplankton compared with other tropical and subtropical oceans. Seasonality in environmental conditions emerged as an important factor in the response of picoplankton to nutrient additions and temperature. Picoplankton mostly responded to inorganic and mixed nutrient additions rather than warming. Overall, the information provided in this dissertation fills the gap of a critical component of Red Sea pelagic ecosystems and expands the information available on picoplankton communities in tropical waters.

While geographic distance is a variable often used to explain population genetic differentiation, dynamic processes leading to stochastic population structure are more likely driving factors. The following thesis presents the population structure of a common reef sponge, Stylissa carteri, and yields hypotheses on the influence of environmental heterogeneity as a predictor of the observed population structure. This project represents the largest population genetics study thus conducted in the Red Sea and also includes the first population genetics data gathered for sites off the coast of Sudan and Soccotra. The study herein presented includes both a large scale (36 reef sites covering over 1000km of coastline) and small-scale (16 transects of 50m each) analysis of gene flow in a benthic dwelling organism. The variable effect of geography and environmental conditions on S. carteri population structure is assessed using a seascape genetics approach. Environmental factors from a nine-year dataset accessed from the NASA Giovanni website including chlorophyll a, sea surface temperature, dissolved and particulate organic matter for both the annual and winter temporal scale were considered.

As a region renowned for high biodiversity, endemism and extreme temperature and salinity levels, the Red Sea is of high ecological interest. Despite this, there is relatively little literature on basic broad scale characteristics of the biodiversity or overall reef fish communities and how they change across latitude. We conducted visual transects recording the abundance of over 200 species of fish from 45 reefs spanning over 1000 km of Saudi Arabian coastline and used hierarchical cluster analysis to find that for combined depths from 0m-10m across this geographical range, the reef fish communities are relatively similar. However we find some interesting patterns both at the community level across depth and latitude as well as in endemic community distributions. We find that the communities, much like the environmental factors, shift gradually along latitude but do not show distinct clusters within the range we surveyed (from Al-Wajh in the north to the Farasan Banks in the south). Numbers of endemic species tend to be higher in the Thuwal region and further south. This type of baseline data on reef fish distribution and possible factors that may influence their ranges in the Red Sea are critical for future scientific studies as well as effective monitoring and in the face of the persistent anthropogenic influences such as coastal development, overfishing and climate change.

In order to properly assess human impacts and appropriate restoration goals, baselines of pristine conditions on coral reefs are required. In Saudi Arabian waters of the central Red Sea, widespread and heavy fishing pressure has been ongoing for decades. To evaluate this influence, we surveyed the assemblage of offshore reef fishes in both this region as well as those of remote and largely unfished southern Sudan. At comparable latitudes, of similar oceanographic influence, and hosting the same array of species, the offshore reefs of southern Sudan provided an ideal location for comparison. We found that top predators (jacks, large snappers, groupers, and others) dominated the reef fish community biomass in Sudan’s deep south region, resulting in an inverted (top-heavy) biomass pyramid. In contrast, the Red Sea reefs of central Saudi Arabia exhibited the typical bottom-heavy pyramid and show evidence for trophic cascades in the form of mesopredator release. Biomass values from Sudan’s deep south are quite similar to those previously reported in the remote and uninhabited Northwest Hawaiian Islands, northern Line Islands, Pitcairn Islands, and other remote Pacific islands and atolls. The findings of this study suggest that heavy fishing pressure has significantly altered the fish community structure of Saudi Arabian Red Sea reefs. The results point towards the urgent need for enhanced regulation and enforcement of fishing practices in Saudi Arabia while simultaneously making a strong case for protection in the form of marine protected areas in the southern Sudanese Red Sea.

Aeolian dust exerts a notable influence on atmospheric and oceanic conditions and human health, particularly in arid and semi-arid regions like Saudi Arabia. Dust is often characterized by its mineral and chemical composition, but there is a microbiological component of natural aerosols which has received comparatively little attention. Moreover, the amount of materials suspended in the atmosphere is highly variable from day to day. Thus, knowing the loads of dust and suspended microbes and its variability over the year is essential to understand the possible effects of dust on the Red Sea ecosystem. Here, we present the first estimates of dust and microbial loads at a coastal side on the Red Sea over a two-year period supplemented with information from dust samples collected along the Red Sea in offshore water and their variability. Weekly average dust loads ranged from 4.63 to 646.11 μg m-3, while the abundance of airborne prokaryotic cells and viral particles ranged from 31,457 to 608,333 cells m-3 and from 69,615.5 to 3,104,758 particles m-3, respectively. These are the first estimates of airborne microbial abundance that we are aware of in this region. The large number of dust particles and suspended microbes found in the air indicates that airborne microbes may have a large impact on our health and that of the Red Sea ecosystem.

The Red Sea is one of the warmest, saltiest, and most oligotrophic seas in the world that supports a healthy and extremely diverse coral reef ecosystem. Increasing development along the Saudi Arabian coast may increase eutrophication due to impacts of human population and also oil pollution from increased shipping traffic and refinery activity. The risk of oil pollution combined with increased eutrophication due to coastal development provides a clear stressor interaction which is vastly understudied. Individually, these stressors are known to negatively impact coral reproduction, recruitment, and growth. This study focuses on reef settlement and recovery following experimentally-simulated disturbance scenarios. Carbonate recruitment tiles were placed on the reef and exposed to four treatments: control, nutrient enrichment with slow-release fertilizer, tiles soaked in crude oil, and a combination treatment of nutrient enrichment and oil-coated tiles. At periods of 3, 6, 9, 14, and 17 weeks, tiles were collected to classify the settled community and measure oxygen production. Oil, nitrate, and phosphate were the biggest determining factors predicting settlement and oxygen production of the different treatments. The oil treatment had the least overall settlement and oxygen production, whereas the nutrient treatment had the most turf algal recruitment and oxygen production. The combination treatment had an antagonistic effect on algal growth: the nutrients facilitated growth on the otherwise toxic oiled tiles.

The relationship between clownfish and sea anemones is a beloved and iconic example of marine symbiosis. However, ecological information in the eastern Red Sea about the endemic Red Sea clownfish, Amphiprion bicinctus, and its host sea anemones remains relatively incomplete. For example, previous studies report that A. bicinctus forms mutualistic relationships with three to five host anemone species in the Red Sea. But the reported number and combination of host anemone species varies substantially among sources and little is known about host anemone distributions at different scales on the eastern coastline. To better understand the ecology of A. bicinctus and its host sea anemones, we conducted 70 surveys in three regions of Saudi Arabia and one region in Djibouti. We then analyzed distribution patterns for all anemone species observed in these regions, to attain deeper knowledge of anemone habitat usage and relative abundance. We recorded six host sea anemone species associated with A. bicinctus in the Red Sea, one of which represents a new case of symbiosis, and we identified differences in species composition and abundance across different reef scales. We noted patterns of decreasing anemone diversity with increasing latitude, beginning at 20° N, and greater overall anemone abundance in the central Red Sea. We also used field and laboratory observations to examine anemonefish abundance, survival, and fecundity on different species of anemones at different life history stages. In sum, this thesis collectively identifies eastern Red Sea anemone hosts for A. bicinctus, evaluates their regional and fine-scale distributions, and assesses how different anemone species impact their anemonefish occupants on different levels.