Spatial Structure and Genetic Variation of a Mangrove Species (Avicennia marina (Forssk.) Vierh) in the Farasan Archipelago

Rapid diversification of grey mangroves (Avicennia marina) driven by geographic isolation and extreme environmental conditions in the Arabian Peninsula

Biological systems occurring in ecologically heterogeneous and spatially discontinuous habitats provide an ideal opportunity to investigate the relative roles of neutral and selective factors in driving lineage diversification. The grey mangroves (Avicennia marina) of Arabia occur at the northern edge of the species' range and are subject to variable, often extreme, environmental conditions, as well as historic large fluctuations in habitat availability and connectivity resulting from Quaternary glacial cycles. Here, we analyse fully sequenced genomes sampled from 19 locations across the Red Sea, the Arabian Sea and the Persian/Arabian Gulf (PAG) to reconstruct the evolutionary history of the species in the region and to identify adaptive mechanisms of lineage diversification. Population structure and phylogenetic analyses revealed marked genetic structure correlating with geographic distance and highly supported clades among and within the seas surrounding the Arabian Peninsula. Demographic modelling showed times of divergence consistent with recent periods of geographic isolation and low marine connectivity during glaciations, suggesting the presence of (cryptic) glacial refugia in the Red Sea and the PAG. Significant migration was detected within the Red Sea and the PAG, and across the Strait of Hormuz to the Arabian Sea, suggesting gene flow upon secondary contact among populations. Genetic-environment association analyses revealed high levels of adaptive divergence and detected signs of multi-loci local adaptation driven by temperature extremes and hypersalinity. These results support a process of rapid diversification resulting from the combined effects of historical factors and ecological selection and reveal mangrove peripheral environments as relevant drivers of lineage diversity.

Studies on genetic diversity, gene flow and landscape genetic in Avicennia marina: Spatial PCA, Random Forest, and phylogeography approaches

Mangrove forests grow in coastal areas, lagoons, estuaries, and deltas and form the main vegetation in tidal and saline wetlands. Due to the mankind activities and also changes in climate, these forests face degradations and probably extinction in some areas. Avicennia marina is one of the most distributed mangrove species throughout the world. The populations of A. marina occur in a limited region in southern parts of Iran. Very few genetic and spatial analyses are available on these plants from our country. Therefore, the present study was planned to provide detailed information on Avicennia marina populations with regard to genetic diversity, gene flow versus genetic isolation, effects of spatial variables on connectivity and structuring the genetic content of trees populations and also identifying adaptive genetic regions in respond too spatial variables. We used SCoT molecular markers for genetic analyses and utilized different computational approaches for population genetics and landscapes analyses. The results of present study showed a low to moderate genetic diversity in the studied populations and presence of significant Fst values among them. Genetic fragmentation was also observed within each province studied. A limited gene flow was noticed among neighboring populations within a particular province. One population was almost completely isolated from the gene flow with other populations and had peculiar genetic content.Spatial PCA analysis revealed both significant global and local genetic structuring in the studied populations. Spatial variables like humidity, longitude and altitude were the most important spatial features affecting genetic structure in these populations.

Farasan Island of Saudi Arabia confronts the measurable impacts of global warming in 45 years

Coastal vulnerability assessment is the key to coastal management and sustainable development. Sea level rise (SLR) and anthropogenic activities have triggered more extreme climatic events and made the coastal region vulnerable in recent decades. Many parts of the world also noticed increased sediment deposition, tidal effects, and changes in the shoreline. Farasan Island, located in the south-eastern part of Saudi Arabia, experienced changes in sediment deposition from the Red Sea in recent years. This study used Digital Shoreline Analysis System (DSAS) to delineate the shoreline changes of Farasan Island during 1975–2020. Multi-temporal Landsat data and DSAS were used for shoreline calculation based on endpoint rate (EPR) and linear regression. Results revealed an increase in vegetation area on the island by 17.18 km² during 1975–1989 and then a decrease by 69.85 km² during 1990–2020. The built-up land increased by 5.69 km² over the study period to accommodate the population growth. The annual temperature showed an increase at a rate of 0.196 °C/year. The sea-level rise caused a shift in the island's shoreline and caused a reduction of land by 80.86 km² during 1975–2020. The highly influenced areas by the environmental changes were the north, central, northwest, southwest, and northeast parts of the island. Urban expansion and sea-level rise gradually influence the island ecosystem, which needs proper attention, management, policies, and awareness planning to protect the environment of Farasan Island. Also, the study’s findings could help develop new strategies and plan climate change adaptation.

The genome of a mangrove plant, Avicennia marina, provides insights into adaptation to coastal intertidal habitats

Whole-genome duplication, gene family and lineage-specific genes analysis based on high-quality genome reveal the adaptation mechanisms of Avicennia marina to coastal intertidal habitats. Mangrove plants grow in a complex habitat of coastal intertidal zones with high salinity, hypoxia, etc. Therefore, it is an interesting question how mangroves adapt to the unique intertidal environment. Here, we present a chromosome-level genome of the Avicennia marina, a typical true mangrove with a size of 480.43 Mb, contig N50 of 11.33 Mb and 30,956 annotated protein-coding genes. We identified 621 Avicennia-specific genes that are mainly related to flavonoid and lignin biosynthesis, auxin homeostasis and response to abiotic stimulus. We found that A. marina underwent a novel specific whole-genome duplication, which is in line with a brief era of global warming that occurred during the paleocene-eocene maximum. Comparative genomic and transcriptomic analyses outline the distinct evolution and sophisticated regulations of A. marina adaptation to the intertidal environments, including expansion of photosynthesis and oxidative phosphorylation gene families, unique genes and pathways for antibacterial, detoxifying antioxidant and reactive oxygen species scavenging. In addition, we also analyzed salt gland secretion-related genes, and those involved in the red bark-related flavonoid biosynthesis, while significant expansions of key genes such as NHX, 4CL, CHS and CHI. High-quality genomes in future investigations will facilitate the understand of evolution of mangrove and improve breeding.

Seed Mucilage Promotes Dispersal of Plantago asiatica Seeds by Facilitating Attachment to Shoes

Understanding the mechanisms underlying seed dispersal is a fundamental issue in plant ecology and vegetation management. Several species demonstrate myxospermy, a phenomenon where the seeds form mucilage after absorbing water. Mucilage is thought to act as a glue, enabling seeds to attach to the external surfaces of dispersing agents. However, there have been no quantitative investigations of the efficacy of this function of seed mucilage. We performed a trampling and walking experiment to investigate the seed dispersal of a perennial herb, Asian plantain (Plantago asiatica L.), which forms polysaccharide mucilage upon hydration. Our experiment showed that: (1) after trampling, more seeds of P. asiatica attached to shoes in wet conditions (after rainfall), in which seed mucilage was created, than in dry conditions (no rainfall); and (2) after walking for 1000 m, more seeds remained attached to shoes in wet conditions than in dry conditions. Our results indicate that mucilage promotes the adherence of seeds to the surface of vectors. We therefore provide the first empirical evidence that seed mucilage facilitates epizoochory and human-mediated dispersal.

Genotypes of Rhizophora Propagules From a Non-mangrove Beach Provide Evidence of Recent Long-Distance Dispersal

Dispersal plays a crucial role in the connectivity of established mangrove populations and in species range dynamics. As species ranges shift in response to climate change, range expansions can occur from incremental short-distance dispersal events and from stochastic long-distance dispersal events. Most population genetic research dealt with historically accumulated events though evidence of actual propagule dispersal allows to estimate genotypic features and origin of founders. In this study, we aim to disentangle a contemporary dispersal event. Using microsatellite markers, we genotyped 60 Rhizophora racemosa drift propagules obtained on a bare unforested coastal area in southern Cameroon, estimated their relationship to 109 adult trees from most proximate sites (which were 3–85 km away), and assessed their relative difference with 873 trees of major mangrove areas (> 300 km) along the Cameroonian coastline. Proximate mangrove populations were considered as potential source populations in assignment tests. However, drift propagules could not be assigned to any of the Cameroonian mangrove sites and were genetically isolated from Cameroonian populations. Drift propagules showed higher levels of genetic diversity and private alleles giving a higher relatedness to each other than to any putative source population. Chloroplast sequences were used to confirm the identity of drift propagules as R. racemosa. We postulate that a complex interaction of ocean currents, estuarine geomorphology, and tidal patterns explain drift propagule dispersal to an area. Most likely the investigated cohort of propagules originated from more southern mangrove areas of the West African range beyond the Cameroonian border. This study unraveled the allelic, genetic, and genotypic features of stranded propagules following a stochastic long-distance dispersal. Transboundary dispersal of these propagules highlights the need for intergovernmental efforts in the management of biodiversity.

Shade Avoidance and Light Foraging of a Clonal Woody Species, Pachysandra terminalis

(1) Background: A central subject in clonal plant ecology is to elucidate the mechanism by which clones forage resources in heterogeneous environments. Compared with studies conducted in laboratories or experimental gardens, studies on light foraging of forest woody clonal plants in their natural habitats are limited. (2) Methods: We investigated wild populations of an evergreen clonal understory shrub, Japanese pachysandra (Pachysandra terminalis Siebold & Zucc.), in two cool-temperate forests in Japan. (3) Results: Similar to the results of herbaceous clonal species, this species formed a dense stand in a relatively well-lit place, and a sparse stand in a shaded place. Higher specific rhizome length (i.e., length per unit mass) in shade resulted in lower ramet population density in shade. The individual leaf area, whole-ramet leaf area, or ramet height did not increase with increased light availability. The number of flower buds per flowering ramet increased as the canopy openness or population density increased. (4) Conclusions: Our results provide the first empirical evidence of shade avoidance and light foraging with morphological plasticity for a clonal woody species.