Implications of temporal and spatial variability in Paracentrotus lividus populations to the associated commercial coastal fishery

Barnes, David K. A.; Crook, Anne C.

doi:10.1007/978-94-010-0434-3_10

Cited by 24 publications

(23 citation statements)

References 20 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…This is consistent with our metabarcoding-derived AMOVAs (P < 0.001 and P = 0.729, respectively). The two species are of remarkable ecological importance, Paracentrotus lividus is an engineer species able to modify the littoral landscape through its browsing activity (Palacin et al 1998, Wangensteen et al 2011, and is also a commercially exploited species (Barnes and Crook 2001). The different lineages of Ophiothrix fragilis are highly abundant components of the littoral communities and can form dense beds, with an important role in clearing particulate matter with their filtering activities (Davoult 1989, Davoult andGounin 1995).…”

Section: Discussionmentioning

confidence: 99%

From metabarcoding to metaphylogeography: separating the wheat from the chaff

Turon

Antich

Palacín

et al. 2019

Ecological Applications

160

View full text Add to dashboard Cite

Metabarcoding is by now a well‐established method for biodiversity assessment in terrestrial, freshwater, and marine environments. Metabarcoding data sets are usually used for α‐ and β‐diversity estimates, that is, interspecies (or inter‐MOTU [molecular operational taxonomic unit]) patterns. However, the use of hypervariable metabarcoding markers may provide an enormous amount of intraspecies (intra‐MOTU) information—mostly untapped so far. The use of cytochrome oxidase (COI) amplicons is gaining momentum in metabarcoding studies targeting eukaryote richness. COI has been for a long time the marker of choice in population genetics and phylogeographic studies. Therefore, COI metabarcoding data sets may be used to study intraspecies patterns and phylogeographic features for hundreds of species simultaneously, opening a new field that we suggest to name metaphylogeography. The main challenge for the implementation of this approach is the separation of erroneous sequences from true intra‐MOTU variation. Here, we develop a cleaning protocol based on changes in entropy of the different codon positions of the COI sequence, together with co‐occurrence patterns of sequences. Using a data set of community DNA from several benthic littoral communities in the Mediterranean and Atlantic seas, we first tested by simulation on a subset of sequences a two‐step cleaning approach consisting of a denoising step followed by a minimal abundance filtering. The procedure was then applied to the whole data set. We obtained a total of 563 MOTUs that were usable for phylogeographic inference. We used semiquantitative rank data instead of read abundances to perform AMOVAs and haplotype networks. Genetic variability was mainly concentrated within samples, but with an important between seas component as well. There were intergroup differences in the amount of variability between and within communities in each sea. For two species, the results could be compared with traditional Sanger sequence data available for the same zones, giving similar patterns. Our study shows that metabarcoding data can be used to infer intra‐ and interpopulation genetic variability of many species at a time, providing a new method with great potential for basic biogeography, connectivity and dispersal studies, and for the more applied fields of conservation genetics, invasion genetics, and design of protected areas.

show abstract

Section: Discussionmentioning

confidence: 99%

From metabarcoding to metaphylogeography: separating the wheat from the chaff

Turon

Antich

Palacín

et al. 2019

Ecological Applications

160

View full text Add to dashboard Cite

show abstract

“…This species is nowadays facing contrasting anthropogenic pressures. While overfishing of predators can promote high densities of sea urchins (Hereu, Zabala, Linares, & Sala, 2005;Sala et al, 1998), this species is also exploited for their roe (Barnes & Crook, 2001), and it has shown early signs of collapse in some areas. This decline is probably the result of the combined impact of over-exploitation, climate change due to its temperature tolerances (Privitera, Noli, Falugi, & Chiantore, 2011;Yeruham, Rilov, Shpigel, & Abelson, 2015) and possible competition with other species (Rilov, 2016;Yeruham et al, 2015).…”

Section: Introductionmentioning

confidence: 99%

East is East and West is West: Population genomics and hierarchical analyses reveal genetic structure and adaptation footprints in the keystone species Paracentrotus lividus (Echinoidea)

Carreras

García-Cisneros

Wangensteen

et al. 2019

Diversity and Distributions

View full text Add to dashboard Cite

Aim The Atlanto‐Mediterranean edible purple sea urchin, Paracentrotus lividus, is a commercially exploited keystone species in benthic communities. Its browsing activity can deeply modify the littoral landscape, and changes in its abundance are of major conservation concern. This species is facing nowadays contrasting anthropogenic pressures linked to predator release, exploitation and sea warming. Management of this key species requires knowledge of its genetic structure, connectivity and local adaptation. Our goal was to assess the current global status of the species under a genomic perspective. Location Atlanto‐Mediterranean shores from Morocco and France to Turkey. Methods We used genotyping by sequencing (GBS) of 241 individuals belonging to 11 populations spanning the known range of distribution of the species. We obtained 3,348 loci for population genomics and outlier analyses. Results We identified significant genetic structure and a gradient matching the longitudinal position of the localities. A hierarchical analysis revealed two main clusters (Atlantic and Mediterranean) and subtler patterns of differentiation within them. Candidate markers for selection identified between and within these two main clusters were mostly different, likely indicating different selective pressures. Adaptation to maximum salinity and maximum temperature appeared as an important driver of the transition between Atlantic and Mediterranean basins. Other stressors, such as minimum temperature or range of temperature, seem to define the structuring within the Mediterranean. Main conclusions Our study shows the potential of hierarchical analyses on population genomics to detect fine‐scale genetic structure and adaptation signatures in marine species with long dispersal capabilities. Although genetic interchange occurs widely in Paracentrotus lividus, the species is sensitive to dispersal barriers, displays isolation by distance and faces local selective pressures associated to environmental conditions, all of which can render it more vulnerable than previously thought.

show abstract

“…This sea urchin lives on rocky substrates and in seagrass meadows, from shallow waters down to about 20 m depth. It is a species of commercial importance, with a high market demand for its roe, particularly in the Mediterranean basin (Régis et al, 1986) and more recently in other European non-Mediterranean areas (Byrne, 1990;Barnes and Crook, 2001). In the last decades, its populations have shown a wide scale decline in many European countries due to overfishing (Boudouresque and Verlaque, 2001).…”

Section: Purple Sea Urchin Distribution Habitat and Exploitationmentioning

confidence: 99%

Molluscs and echinoderms aquaculture: biological aspects, current status, technical progress and future perspectives for the most promising species in Italy

Parisi

Centoducati

Gasco

et al. 2012

Italian Journal of Animal Science

View full text Add to dashboard Cite

Shellfish aquaculture is a widespread activity in the Italian peninsula. However, only two bivalve species are mainly cultured along the coastline of that country: the Mediterranean mussel Mytilus galloprovincialis and the Manila clam Venerupis philippinarum (Ruditapes philippinarum). By contrast, just a few other mollusc species of commercial interest are scarcely reared at a small-scale level.After analysing the current status of Italian shellfish production, this paper reports and discusses the potential for culturing several different invertebrate species [i.e., the European flat oyster Ostrea edulis, the grooved carpet shell Venerupis decussata (Ruditapes decussatus), the razor clams Ensis minor and Solen marginatus, the cephalopod Octopus vulgaris, and the purple sea urchin Paracentrotus lividus] in this country.In addition, a detailed overview of the progress made in aquacultural techniques for these species in the Mediterranean basin is presented, highlighting the most relevant bottlenecks and the way forward to shift from the experimental to the aquaculture phase. Finally, an outlook of the main economic and environmental benefits arising from these shellfish culture practices is also given.

show abstract

Implications of temporal and spatial variability in Paracentrotus lividus populations to the associated commercial coastal fishery

Cited by 24 publications

References 20 publications

From metabarcoding to metaphylogeography: separating the wheat from the chaff

From metabarcoding to metaphylogeography: separating the wheat from the chaff

East is East and West is West: Population genomics and hierarchical analyses reveal genetic structure and adaptation footprints in the keystone species Paracentrotus lividus (Echinoidea)

Molluscs and echinoderms aquaculture: biological aspects, current status, technical progress and future perspectives for the most promising species in Italy

Contact Info

Product

Resources

About