Two years of SARS-CoV-2 infection (2019–2021): structural biology, vaccination, and current global situation

The deadly SARS-CoV-2 virus has infected more than 259,502,031 confirmed cases with 5,183,003 deaths in 223 countries during the last 22 months (Dec 2019–Nov 2021), whereas approximately 7,702,859,718, vaccine doses have been administered (WHO: https://covid19.who.int/) as of the 24th of Nov 2021. Recent announcements of test trial completion of several new vaccines resulted in the launching of immunization for the common person around the globe highlighting a ray of hope to cope with this infection. Meanwhile, genetic variations in SARS-CoV-2 and third layer of infection spread in numerous countries emerged as a stronger prototype than the parental. New and parental SARS-CoV-2 strains appeared as a risk factor for other pre-existing diseases like cancer, diabetes, neurological disorders, kidney, liver, heart, and eye injury. This situation requires more attention and re-structuring of the currently developed vaccines and/or drugs against SARS-CoV-2 infection. Although a decline in COVID-19 infection has been reported globally, an increase in COVID-19 cases in the subcontinent and east Mediterranean area could be alarming. In this review, we have summarized the current information about the SARS-CoV-2 biology, its interaction and possible infection pathways within the host, epidemiology, risk factors, economic collapse, and possible vaccine and drug development.

Demographic history and range modelling of the East Mediterranean Abies cilicica

The Mediterranean Basin is one of the 36 global hotspots of biodiversity and it is rich in endemic tree species. The complex geological history of the region throughout the Neogene and Quaternary periods that were marked with several palaeoclimatic transformations was a major factor triggering the genetic divergence of lineages in tree species in the region. The ongoing global climate change is the main factor threatening Mediterranean biodiversity. The risk of population decline related to aridization is the highest in the case of endemics, especially for cold-adapted conifers, such as Abies cilicica. The Cilician fir grows in the East Mediterranean mountains that constitute a local centre of endemism within the region. The species range is fragmented and small-size populations prevail. Previous studies have suggested that the last glacial cycle led to a significant reduction in the species range and might have initiated genetic divergence. As a result, two lineages are currently recognized at the subspecies level, A. cilicica subsp. isaurica (Turkey) and A. cilicica subsp. cilicica (Turkey, Syria, and Lebanon). The predictions about the impact of future climate changes in the East Mediterranean suggest a profound reduction of precipitation and overall warming that may put the remnant populations of A. cilicica at a risk of decline. Here, we used the Bayesian approach to investigate the demographic history of endemic A. cilicica. Specifically, we estimated the probable time of the intraspecies divergence to verify previous assumptions about the species’ evolutionary history. Additionally, niche modelling was used to outline the potential range of changes in the past and to indicate glacial refugia in where the species persisted climate crisis. This approach was also used to explore the possible influence of the future climate changes on the distribution of A. cilicica in the region. Our results demonstrate that the divergence between the Lebanese and the Turkish populations that occurred ~220 ka years BP coincided with the Riss glaciation. According to palaeoecological data, in the East Mediterranean, that glacial period caused a severe reduction in the populations of woody species due to the aridity of the climate. At that time, the Lebanese-Syrian part of the range was likely disconnected from the main range. The second split was induced by the last glacial cycle ~60 ka years BP and led to the separation of the Central Taurus and East Taurus population and, consequently, to the formation of the two subspecies. Niche modelling for the last glacial maximum has allowed us to locate the probable refugia for A. cilicica in the western Anatolia and Syria-Lebanon area. A projection of the future possible distribution of the species indicates a serious reduction of the range during this century.

Long Term Post-Fire Vegetation Dynamics in North-East Mediterranean Ecosystems. The Case of Mount Athos Greece

Fire is an ecological and disturbance factor with a significant historical role in shaping the landscape of fire-prone environments. Despite the large amount of literature regarding post-fire vegetation dynamics, the north-east Mediterranean region is rather underrepresented in the literature. Studies that refer to the early post fire years and long term research are rather scarce. The current study is conducted in the socially and geographically isolated peninsula of Mount Athos (Holly Mountain) in northern Greece, and it studies vegetation dynamics over a period of 30 years since the last fire. Field data were collected 11 years since the event and were used to identify the present plant communities in the area, using TWINSPAN, and the factors affecting their distribution using CART. Four Landsat (TM, ETM, OLI) images are employed for the calculation of NDVI, which was found effective in detecting the intercommunity variation in the study area, and it is used for long term monitoring. The study includes four communities, from maquis to forest which are common in the Mediterranean region covering a wide altitudinal range. The results suggest that fire affects the various communities in a different way and their recovery differs significantly. While forest communities recover quickly after fire, maintaining their composition and structure, the maquis communities may need several years before reaching the pre-fire characteristics. The dry climatic conditions of the study area are probably the reason for the slow recovery of the most fire prone communities. Given that climate change is expected to make the conditions even drier in the region, studies like this emphasize the need to adopt measures for controlling wildfires and preventing ecosystem degradation.

Kikuchi-Fujimoto Disease in the Eastern Mediterranean zone.

Background Kikuchi-Fujimoto disease (KFD) is a rare benign and self-limiting syndrome. We aim to review cases of KFD at our institution as a rare illness in the Arab ethnic descent, and to analyze reports from most countries in the east Mediterranean zone. Methods This is a retrospective study in which the histopathology database was searched for the diagnosis of KFD. A full review of KFD patients’ medical records was done. Data regarding demographic features, clinical presentation, laboratory findings, comorbidities and management protocols were obtained. Published KFD cases from east Mediterranean countries were discussed and compared to other parts of the world. Results Out of 1968 lymph node biopsies studied, 11 (0.6%) cases of KFD were identified. Mean age of patients with KFD was 32 years (4-59). 73% (8/11) were females. The disease was self-limiting in 5 patients (45%), corticosteroid therapy was needed in 4 patients (34%), one patient was treated with methotrexate and one with antibiotics. One patient died as a consequence of lymphoma. Conclusion KFD may still be under diagnosed in our part of the world, likely due to the non-specific mixed symptoms at presentation as well as to the lack of awareness among general practitioners and health care providers. Early diagnosis and treatment is essential to reduce associated morbidity.

The rejuvenations of hydrocarbon exploration in the Eastern Mediterranean

The exploration history of the large East Mediterranean Basin, which encompasses the Nile delta, Levantine, Herodotus and Eratosthenes provinces, has seen several phases of rejuvenation since exploration started in the 1950s, with new plays opened repeatedly after the basin was considered mature by the industry. The 584 exploration wells drilled to date have discovered more than 23 Bboe recoverable reserves/resources, mostly gas. The first discovery was the Abu Madi Field, in 1967, which opened the Messinian clastic play. Over time, other plays and sub plays were opened, including the Serravallian-Tortonian, the Plio-Pleistocene, the Oligo/Miocene in the Levantine, the intra Oligocene and the Cretaceous carbonates (Zohr discovery, 2015). The exceptional variety of plays, with different trapping styles, reservoir and seal facies patterns has few equivalents worldwide and makes the region a valuable training ground for explorers. The geological variety is not the only reason for such a complex and episodic exploration history: commercial (gas market) and geopolitical issues have also had an impact on the activity in parts of the basin. The largest discoveries have been made in the last 10 years (Tamar, Leviathan, Zohr) and, despite the intense exploration activity, parts of the basin remain underexplored. The company with the longest and most successful play opening history in the basin is Eni. Today, most major oil companies are active in the basin, which even after 70 years is still considered one of the world's exploration hotspots.

Observations of Gas-Phase Alkylamines at a Coastal Site in the East Mediterranean Atmosphere

Atmospheric amines are ubiquitous compounds in the atmosphere, having both natural and anthropogenic origin. Recently, they have been identified as important contributors to new particle formation in the atmosphere, but observations of their atmospheric concentrations are scarce. In the present study we introduce the first systematic long-term observations of gas-phase amines measurements in the East Mediterranean atmosphere. Air samples were collected at the Finokalia monitoring station of the University of Crete during a 3.5-year period from January 2013 to July 2016, and analyzed after extraction using a high-performance liquid chromatography triple quadrupole mass spectrometer. The detected alkylamines were the sum of dimethylamine and ethylamine (DMA+EA), trimethylamine (TMA), diethylamine (DEA) and triethylamine (TEA). DMA+EA and TMA were the most abundant alkylamines, with concentrations spanning from the detection limit to 78.0 and 69.8 pptv, and average concentrations of 7.8 ± 12.1 and 7.5 ± 12.4 pptv, respectively. Amines showed pronounced seasonal variability with DMA+EA and TMA concentrations being higher in winter. Statistical analysis of the observations showed different sources for each of the studied amines, except for DMA+ΕA and DEA that appear to have common sources in the region. This analysis points to a marine source of TMA and animal husbandry in the area as a potential source of TEA. None of the alkylamines is correlated with other anthropogenic sources. Furthermore, no clear association was found between the seasonality of NPF events and alkylamines concentrations, while a clear correlation was detected between the seasonality of nucleation mode particle (dp < 25 nm) number concentrations and alkylamine concentrations, indicating that amines may contribute to nucleation mode particles’ production.