Significant patterns of population genetic structure and limited gene flow in a threatened macropodid marsupial despite continuous habitat in southeast Queensland, Australia

Many endangered species worldwide are found in remnant populations, often within fragmented landscapes. However, when possible, an understanding of the natural extent of population structure and dispersal behaviour of threatened species would assist in their conservation and management. The brush-tailed rock-wallaby (Petrogale penicillata), a once abundant and widespread rock-wallaby species across southeastern Australia, has become nearly extinct across much of the southern part of its range. However, the northern part of the species' range still sustains many small colonies closely distributed across suitable habitat, providing a rare opportunity to investigate the natural population dynamics of a listed threatened species. We used 12 microsatellite markers to investigate genetic diversity, population structure and gene flow among brush-tailed rock-wallaby colonies within and among two valley regions with continuous habitat in southeast Queensland. We documented high and signifcant levels of population genetic structure between rock-wallaby colonies embedded in continuous escarpment habitat and forest. We found a strong and significant pattern of isolation-by-distance among colonies indicating restricted gene flow over a small geographic scale (< 10 km) and conclude that gene flow is more likely limited by intrinsic factors rather than environmental factors. In addition, we provide evidence that genetic diversity was significantly lower in colonies located in a more isolated valley region compared to colonies located in a valley region surrounded by continuous habitat. These findings shed light on the processes that have resulted in the endangered status of rock-wallaby species in Australia and they have strong implications for the conservation and management of both the remaining 'connected' brush-tailed rock-wallaby colonies in the northern parts of the species' range and the remnant endangered populations in the south.

Italian wild hop (Humulus lupulus L.): from biodiversity evaluation to varietal selection

Hop (Humulus lupulus L.) is a dioecius perennial plant. The cultivation is specific for female plants, used mainly for brewing and pharmacology. Female inflorescence, known as cone or strobili, contains bitter acids, essential oil and polyphenols. Commercial hop cultivation provides better results in regions between 45 and 55 degrees north or south in latitude, an area that also includes the northern part of Italy, where hop is endemic. Despite several studies have been conducted on the characterization of wild hops biodiversity in the U.S.A. and Europe, a lack in literature concerning the description of Italian wild hops genetic variability is still present. The increasing request of hop varieties improved in important traits, like diseases, resistance and valuable aroma profile, is bringing the hop industry. Moreover, Italian agricultural sector needs new impulse to be competitive in the market. In this view, Italian wild hop biodiversity is a resource, useful for the obtaining of Italian hop varieties, characterized by peculiar aromatic traits and more adaptable to Mediterranean climate, making their cultivation more sustainable. Based on this consideration, the present Ph.D. thesis deals with the evaluation of the Italian hop biodiversity, through the characterization of the wild samples under different point of view. The project started with the recovery of wild hop samples in different areas of north of Italy to consitue a collection field, where 11 commercial cultivars of US and European origin were grown, to have a complete vision of the hop panorama. Ph.D. project followed different research lines, the results of each one contributed to completly characterize the northern Italian hop wild biodiversity: • the morphological description showed a high phenological variability (Study 1); • the genetic characterization confirmed the rich biodiversity of the Italian population and showed a significant genetic distance between Italian genotypes and the commercial cultivars, taken in consideration (Study 2); • the need of an early sex discrimination method leads to an improvement of a genetic marker, developing a more efficient marker (Study 3); • a complete morphologic, genetic and chemical analysis of plants gave results to select the most promising genotypes (Study 4); • the comparison between the performance of wild hops and commercial cultivars in the same collection field indicated that some wild genotypes had a higher environment adaptability (Study 5); • the evaluation of the terroir, obtained comparing commercial cultivars in the collection field and the same genotypes purchased in the market, showed the influence of the northern Italian environment on the aromatic profile (Study 5); • a new analytical method for the revelation of bioactive metabolites and a simple extraction procedure were developed (Study 6). In conclusion, the Ph.D. thesis, contains the first characterization of Italian wild hop, made under field condition. The present study: i) permits to obtain a complete and significative description of the genotypes; ii) allows the identification of the most promising wild Italian genotypes; iii) allows the identification of commercial cultivars more adaptable the northern Italian climate.

Ocean sprawl: challenges and opportunities for biodiversity management in a changing world.

The last few decades have seen rapid proliferation of hard artificial structures (e.g., energy infra-structure, aquaculture, coastal defences) in the marine environment: ocean sprawl. The replacement of natural, often sedimentary, substrata with hard substrata has altered the distribution of species, particularly non-indigenous species, and can facilitate the assisted migration of native species at risk from climate change. This has been likened to urbanization as a driver of global biotic homogenization in the marine environment—the process by which species invasions and extinctions increase the genetic, taxonomic, or functional similarity of communities at local, regional, and global scales. Ecological engineering research showed that small-scale engineering interventions can have a significant positive effect on the biodiversity of artificial structures, promoting more diverse and resilient communities on local scales. This knowledge can be applied to the design of multifunctional structures that provide a range of ecosystem services. In coastal regions, hybrid designs can work with nature to combine hard and soft approaches to coastal defence in a more environmentally sensitive manner. The challenge now is to manage ocean sprawl with the dual goal of supporting human populations and activities, simultaneously strengthening ecosystem resilience using an ecosystem- based approach.

Connectivity patterns inferred from the genetic structure of white seabream (Diplodus sargus L.)

Themarine environment seems, at first sight, to be a homogeneousmediumlacking barriers to species dispersal. Nevertheless, populations of marine species show varying levels of gene flow and population differentiation, so barriers to gene flow can often be detected. Weaimto elucidate the role of oceanographical factors ingenerating connectivity among populations shaping the phylogeographical patterns in the marine realm, which is not only a topic of considerable interest for understanding the evolution ofmarine biodiversity but also formanagement and conservation of marine life. For this proposal,we investigate the genetic structure and connectivity between continental and insular populations ofwhite seabreamin North East Atlantic (NEA) and Mediterranean Sea (MS) aswell as the influence of historical and contemporary factors in this scenario using mitochondrial (cytochrome b) and nuclear (a set of 9 microsatellite) molecular markers. Azores population appeared genetically differentiated in a single cluster using Structure analysis. This result was corroborated by Principal Component Analysis (PCA) and Monmonier algorithm which suggested a boundary to gene flow, isolating this locality. Azorean population also shows the highest significant values of FST and genetic distances for both molecular markers (microsatellites and mtDNA). We suggest that the breakdown of effective genetic exchange between Azores and the others' samples could be explained simultaneously by hydrographic (deep water) and hydrodynamic (isolating current regimes) factors acting as barriers to the free dispersal of white seabream(adults and larvae) and by historical factors which could be favoured for the survival of Azorean white seabream population at the last glaciation. Mediterranean islands show similar genetic diversity to the neighbouring continental samples and nonsignificant genetic differences. Proximity to continental coasts and the current system could promote an optimal larval dispersion among Mediterranean islands (Mallorca and Castellamare) and coasts with high gene flow.

Genetic considerations on the introduction of farmed fish in marine protected areas: The case of study of white seabream restocking in the Gulf of Castellammare (Southern Tyrrhenian Sea)

Human exploitation has drastically reduced the abundance and distribution of several marine fish and invertebrate populations through overfishing and habitat destruction. Restocking can potentially mitigate these impacts and help to reconstitute depleted stocks but genetic repercussions must be considered. In the present study, the degree of genetic similarity between white seabream (Diplodus sargus Linnaeus 1758) individuals reared for restocking purposes and the receiving population in the Gulf of Castellammare fishery reserve (Sicily, Italy) was assessed using microsatellites. We also inferred the spatial pattern of the genetic structure of D. sargus and connectivity along Sicilian coasts. The farmed population showed significant heterozygosity deficiency in 6 loci and an important reduction in the number of alleles, which could indicate an incipient inbreeding. Both the farmed population and the target one for restocking (Castellammare fishery reserve), showed high and significant values of genetic differentiation due to different allele frequencies, number of privative alleles and total number of alleles. These findings indicate a low degree of genetic similarity between both populations, therefore this restocking initiative is not advisable. The genetic connectivity pattern, highly consistent with oceanographic currents, identified two distinct metapopulations of white seabream around Sicily. Thus it is recommended to utilize broods from the same metapopulation for restocking purposes to provide a better genetic match to the wild populations.

Biomares, a LIFE project to restore and manage the biodiversity of Prof. Luiz Saldanha Marine Park

The Marine Park Prof. Luiz Saldanha, in the coast of Arrabida, is the first marine park in continental Portugal. This area is a Nature 2000 site and is considered to be a hotspot for European marine biodiversity. In 2005, the management plan of the park was implemented, ending several habitat menaces, thereby allowing an application to the LIFE-NATURE Programme. The LIFE-BIOMARES project aimed at the restoration and management of the biodiversity of the marine park through several actions. The restoration of the seagrass prairies that were completely destroyed by fishing activities and recreational boating, was one of the most challenging. It included the transplanting of seagrasses from donor populations and the germination of seagrass seeds for posterior plantation to maintain genetic diversity in the transplanted area. One of the most popular actions was the implementation of environmental friendly moorings to integrate recreational use of the area with environmental protection. Several dissemination and environmental education actions concerning the marine park and the project took place and contributed to the public increase of the park acceptance. The seabed habitats were mapped along the park and a surrounding area to 100 m depth in order to create a habitat cartography of the park and to help locate alternative fishing zones. Biodiversity assessments for macrofauna revealed seasonal variations and an effect of the protection status. Preliminary results are presented and show that the marine park regulations are having a positive effect on biodiversity conservation and sustainable fisheries, thereby showing that these kind of conservation projects are important to disseminate coastal conservation best practices. The Biomares project is a model project that can be followed in the implementation of marine reserves and the establishment of the Natura 2000 marine network.

The genetic diversity of the American oil palm, Elaeis oleifera (Kunth), Cortes revealed by nuclear RFLP markers.

The genetic diversity of E. oleifera is strongly structured by geographical origin, with four groups clearly distinguished: Brazil, Surinam/French Guyana, north of /Colombia/Central America and Peru. Within the Amazon basin, thereis a moderate structure that corresponds to the major tributaries of the Amazon river. From the 37 polymorphic RFLP probe/enzyme combinatios used, 19 probes (51%) presented simple restriction profiles, with one (1) or two bands/plant, suggesting a single locus with different alleles, allowing allelic co-dominant coding for them.