Recognizing Panulirus meripurpuratus sp. nov. (Decapoda: Palinuridae) in Brazil—Systematic and biogeographic overview of Panulirus species in the Atlantic Ocean

Genetic analysis divides Panulirus argus into two different species, physically separated by the Amazon-Orinoco plume since the Last Glacial Maximum. Panulirus argus sensu stricto is distributed north of this biogeographic barrier and the second species to the south, occurring in Brazil. The Panulirus species in the Atlantic Ocean are being overfished and the standing stocks are unknown and still not considered endangered or threatened due to a deficiency of precise abundance data. The lack of data makes it impossible to undertake an effective conservation and management policy. In order to assist in the future management and conservation of the Spiny Lobster in the Atlantic Ocean and particularly for the indigenous species from Brazilian waters, this study formally recognizes and describes a new species, Panulirus meripurpuratus sp. nov., for what was previously known as P. argus in Brazilian waters, and differentiates it from Panulirus argus from North American waters and the Caribbean Sea. The work also presents an overview of the biogeographic distribution of the species and presents two identification keys to Atlantic species, one based on morphology and the other on live colouration

Marine collection in Qatar - basis for biodiversity management

Biological Collections, which deal directly with identifying and documenting biodiversity, have a major role in assisting biodiversity management. They form the basis for research, documenting flora and fauna and creating repositories of biological information. Without taxonomic research the biological collections would be merely a collection of curious objects, of limited value to our understanding of the natural world. The Environmental Scientific Centre of Qatar University has created a Marine Collection to house the species collected in the region. The species are being identified by taxonomists and deposited in the Marine Collection with a Collection Number and accompanied by descriptive characteristics. The Specify Software Project, a database platform for museum and herbarium research data, is being used concomitantly for registration of each species. The collection includes marine animals from coastal and offshore waters of Qatar, such as invertebrates (poriferas, cnidarians, crustaceans, gastropods, molluscs, echinoderms and others) and vertebrate specimens (urochordata, cephalochordate, Condrictyes, Osteicties and Reptiles). A total of 4830 specimens was collected and are being deposited in the Collection, as well as subsequent samples from new projects, including species for articles in preparation which are currently listed as a new occurrence in Qatar such as; Coeloplana (Benthoplan) meteoris,Branchyostoma arabia, Paranchystus pictodontaeamong several other species. Furthermore the collection houses a new systematic ofPortunus segnis, and the biodiversity of benthic organisms from offshore oyster beds and crabs from the mangrove ecosystem. It is well recognized for any impending assessment of biodiversity indices a baseline of existing data is required and the marine collection at the ESC will be a crucial tool in any future research or environmental monitoring programs that might be undertaken in not only Qatar but the Arabian Gulf.qscienc

De novo transcriptome assembly of the Qatari pearl oyster Pinctada imbricata radiata

© 2019 The pearl oyster Pinctada imbricata radiata is an iconic species in Qatar, representing an integral part of the nation's cultural heritage and one of the main economic foundations upon which the nation developed. During the early part of the 20th century, nearly half the Qatar population was involved in the pearl oyster industry. However, the fishery has undergone steady decline since the 1930s, and the species is now under threat due to multiple confounding pressures. This manuscript presents the first de novo transcriptome of the Qatari pearl oyster assembled into 30,739 non-redundant coding sequences and with a BUSCO completeness score of 98.4%. Analysis of the transcriptome reveals the close evolutionary distance to the conspecific animal Pinctada imbricata fucata but also highlights differences in immune genes and the presence of distinctive transposon families, suggesting recent adaptive divergence. This data is made available for all to utilise in future studies on the species.This publication was made possible by the NPRP award [NPRP9-394-1-090 “The Pearl Oyster: from national icon to guardian of Qatar's marine environment”] from the Qatar National Research Fund (a member of Qatar Foundation). The findings herein reflect the work, and are solely the responsibility, of the authors. In addition, the authors would like to thank Prof. Eduarda Santos for advice regarding sequencing requirements and Mr. Mark Chatting and Mr. Reyniel Gasang for their support in the collection of the samples

Whole genome sequencing of marine organisms by Oxford Nanopore Technologies: Assessment and optimization of HMW-DNA extraction protocols

Marine habitats are Earth's largest aquatic ecosystems, yet little is known about marine organism's genomes. Molecular studies can unravel their genetics print, thus shedding light on specie's adaptation and speciation with precise authentication. However, extracting high molecular weight DNA from marine organisms and subsequent DNA library preparation for whole genome sequencing is challenging. The challenges can be explained by excessive metabolites secretion that co-precipitates with DNA and barricades their sequencing. In this work, we sought to resolve this issue by describing an optimized isolation method and comparing its performance with the most commonly reported protocols or commercial kits: SDS/phenol–chloroform method, Qiagen Genomic Tips kit, Qiagen DNeasy Plant mini kit, a modified protocol of Qiagen DNeasy Plant kit, Qiagen DNeasy Blood and Tissue kit, and Qiagen Qiamp DNA Stool mini kit. Our method proved to work significantly better for different marine species regardless of their shape, consistency, and sample preservation, improving Oxford Nanopore Technologies sequencing yield by 39 folds for Spirobranchus sp. and enabling generation of almost 10 GB data per flow cell/run for Chrysaora sp. and Palaemon sp. samples

Target gastropods for standardizing the monitoring of tar mat contamination in the Arabian Gulf

This study proposes a standardization process for the monitoring the level of tar mat contamination in the Arabian Gulf. In the study, we selected target gastropod species and evaluated the ecological and ecotoxicological effects of tar mats on their populations, the bioaccumulation of heavy metals, and these species’ potential as bioindicator taxa for tar mat-associated heavy metals. The study was carried out at two sites on the Qatar coast on shoreline rocks, both of which have areas of tar mat coverage and areas without tar mats. The species selected as representative species for the ecoregion were the endemic Clypeomorus bifasciata persica (Houbrick, 1985) in the intertidal zone and the Echinolittorina arabica (El Assal, 1990) in the supratidal zone. Both are grazers and are niche restricted to hard substrates and daily scraping/grazing on the tar mat deposition zone of the shorelines. The key heavy metal indicators chosen were As, Ba, Cd, Co, Cr, Cu, Fe, Mn, Ni and Zn, and the gastropod species were divided into classes according to their size. Tar mat presence was found to negatively affect both the overall population size of Clypeomorus and different size classes, and lead to high levels of assimilation of heavy metals. Tar mat presence also negatively affected different size classes of Echinolittorina where large sizes were found to be most significantly affected. The results also demonstrated that Cu and Ni are the heavy metals most associated with tar mat contamination of this kind. Overall, our results confirmed that grazer gastropods are good bioindicators of tar mat-associated contaminants in shoreline ecosystems. Our study provides the database on the heavy metal contamination of the proposed target gastropods, and offers information that will be relevant for further monitoring and comparisons among threatened coastal areas in the Arabian Gulf.This research was supported by the Qatar Petroleum through the project of QU (QUEX-ESC-QP-TM-18/19)

Two new sponge species (Demospongiae: Chalinidae and Suberitidae) isolated from hyperarid mangroves of Qatar with notes on their potential antibacterial bioactivity.

This study presents the taxonomic description of two new sponge species that are intimately associated with the hyperarid mangrove ecosystem of Qatar. The study includes a preliminary evaluation of the sponges' potential bioactivity against pathogens. Chalinula qatari sp. nov. is a fragile thinly encrusting sponge with a vivid maroon colour in life, often with oscular chimneys and commonly recorded on pneumatophores in the intertidal and shallow subtidal zone. Suberites luna sp. nov. is a massive globular-lobate sponge with a greenish-black colour externally and a yellowish orange colour internally, recorded on pneumatophores in the shallow subtidal zone, with large specimens near the seagrass ecosystem that surrounds the mangrove. For both species, a drug extraction protocol and an antibacterial experiment was performed. The extract of Suberites luna sp. nov. was found to be bioactive against recognized pathogens such as Staphylococcus epidermidis, Staphylococcus aureus and Enterococcus faecalis, but no bioactive activity was recorded for Chalinula qatari sp. nov. This study highlights the importance of increasing bioprospecting effort in hyperarid conditions and the importance of combining bioprospecting with taxonomic studies for the identification of novel marine drugs.QNRF/URE

Deep behavioral impairment in the pearl oyster Pinctada radiata exposed to anthropogenic noise and light stress

The pearl oyster Pinctada radiata is an iconic species in the Arabian Gulf, which is one of the ecosystems most at risk in the world because of the multiple sources of pollution it faces. Alongside chemical pollution, the Gulf is ranked first with regard to noise and light pollution, and pearl oyster populations are at risk. The impact of these latter types of pollution on marine invertebrates is still poorly known. We used the difference in noise and brightness that can exist between a very quiet room without artificial lighting and a standard laboratory room equipped with a standard aquarium as a testbed to explore the possible impact of noise and light pollution on the behavioral and biological traits of Pinctada radiata without added chemical exposure. During an experiment that lasted 2.5 months, we analyzed their grouping behavior, valve activity, biological rhythm, growth rate and spawning activity. In the standard aquarium kept in the laboratory room, the oysters dispersed instead of regrouping as in their natural environment, regrouping which was observed in the quiet room. They stayed closed longer, the opening amplitude of their valves was systematically lower, and in the closed position, they squeezed their valves more tightly when subjected to noise and light pollution. Their daily opening rhythm was strongly structured by switching the electric light on and off, and females showed significantly less egg-laying behavior. In conclusion, seemingly innocuous human activities can lead to very significant alterations in pearl oyster behavior. We propose that it could have significant effects on populations and ecosystems

Expanding ocean protection and peace: a window for science diplomacy in the Gulf.

The ecological state of the Persian or Arabian Gulf (hereafter 'Gulf') is in sharp decline. Calls for comprehensive ecosystem-based management approaches and transboundary conservation have gone largely unanswered, despite mounting marine threats made worse by climate change. The region's long-standing political tensions add additional complexity, especially now as some Gulf countries will soon adopt ambitious goals to protect their marine environments as part of new global environmental commitments. The recent interest in global commitments comes at a time when diplomatic relations among all Gulf countries are improving. There is a window of opportunity for Gulf countries to meet global marine biodiversity conservation commitments, but only if scientists engage in peer-to-peer diplomacy to build trust, share knowledge and strategize marine conservation options across boundaries. The Gulf region needs more ocean diplomacy and coordination; just as critically, it needs actors at its science-policy interface to find better ways of adapting cooperative models to fit its unique marine environment, political context and culture. We propose a practical agenda for scientist-led diplomacy in the short term and lines of research from which to draw (e.g. co-production, knowledge exchange) to better design future science diplomacy practices and processes suited to the Gulf's setting.We acknowledge support from the Smithson Fellowship (C.M.F.)