Testing ultraconserved elements (UCEs) for phylogenetic inference across bivalves (Mollusca: Bivalvia).

Bivalves constitute an important resource for fisheries and as cultural objects. Bivalve phylogenetics has had a long tradition using both morphological and molecular characters, and genomic resources are available for a good number of commercially important species. However, relationships among bivalve families have been unstable and major conflicting results exist between mitogenomics and results based on Sanger-based amplicon sequencing or phylotranscriptomics. Here we design and test an ultraconserved elements probe set for the class Bivalvia with the aim to use hundreds of loci without the need to sequence full genomes or transcriptomes, which are expensive and complex to analyze, and to open bivalve phylogenetics to museum specimens. Our probe set successfully captured 1,513 UCEs for a total of 263,800 bp with an average length of 174.59 ± 3.44 per UCE (ranging from 28 to 842 bp). Phylogenetic testing of this UCE probe set across Bivalvia and within the family Donacidae using different data matrices and methods for phylogenetic inference shows promising results at multiple taxonomic levels. In addition, our probe set was able to capture large numbers of UCEs for museum specimens collected before 1900 and from DNAs properly stored, of which many museums and laboratories are well stocked. Overall, this constitutes a novel and useful resource for bivalve phylogenetics.

Metal concentrations in echinoderms: Assessing bioindicator potential and ecological implications.

This study investigates the concentrations of heavy metals and trace elements in five echinoderm species: Holothuria (Platyperona) sanctori, Arbacia lixula, Coscinasterias tenuispina, Ophioderma longicaudum, and Antedon bifida. Given their ecological significance and potential as a food source, understanding the presence and transfer of heavy metals in these species is crucial. Sampling was conducted in 2022 in Canary Islands. Analysis using ICP-OES revealed concentrations of Zn, Cd, Pb, Cu, Ni, Cr, and Fe in mg/kg. The results showed a consistent sequence of metals across all species, with Fe > Zn > Cu > Ni > Cr > Pb > Cd. Holothurians exhibiting the highest levels, followed by sea urchins. Starfish and brittle stars showed similar, lower concentrations, while crinoids exhibited the lowest levels, consistent with their filter-feeding behavior. The findings highlight the potential of holothurians as bioindicators for environmental pollutants. Understanding the role of these echinoderms as bioindicators is essential for assessing ecosystem health and informing conservation efforts in subtropical marine environments.

Exceptional population genomic homogeneity in the black brittle star Ophiocomina nigra (Ophiuroidea, Echinodermata) along the Atlantic-Mediterranean coast.

The Atlantic-Mediterranean marine transition is characterised by strong oceanographic barriers and steep environmental gradients that generally result in connectivity breaks between populations from both basins and may lead to local adaptation. Here, we performed a population genomic study of the black brittle star, Ophiocomina nigra, covering most of its distribution range along the Atlantic-Mediterranean region. Interestingly, O. nigra is extremely variable in its coloration, with individuals ranging from black to yellow-orange, and different colour morphs inhabiting different depths and habitats. In this work, we used a fragment of the mitochondrial COI gene and 2,374 genome-wide ddRADseq-derived SNPs to explore: (a) whether the different colour morphs of O. nigra represent different evolutionary units; (b) the disruptive effects of major oceanographic fronts on its population structure; and (c) genomic signals of local adaptation to divergent environments. Our results revealed exceptional population homogeneity, barely affected by oceanographic fronts, with no signals of local adaptation nor genetic differentiation between colour morphs. This remarkable panmixia likely results from a long pelagic larval duration, a large effective population size and recent demographic expansions. Our study unveils an extraordinary phenotypic plasticity in O. nigra, opening further research questions on the ecological and molecular mechanisms underpinning coloration in Ophiuroidea.

High taxonomic diversity and miniaturization in benthic communities under persistent natural CO2 disturbances.

Metabarcoding techniques have revolutionized ecological research in recent years, facilitating the differentiation of cryptic species and revealing previously hidden diversity. In the current scenario of climate change and ocean acidification, biodiversity loss is one of the main threats to marine ecosystems. Here, we explored the effects of ocean acidification on marine benthic communities using DNA metabarcoding to assess the diversity of algae and metazoans. Specifically, we examined the natural pH gradient generated by the Fuencaliente CO2 vent system, located near La Palma Island (Canary Islands). High-resolution COI metabarcoding analyses revealed high levels of taxonomic diversity in an acidified natural area for the first time. This high number of species arises from the detection of small and cryptic species that were previously undetectable by other techniques. Such species are apparently tolerant to the acidification levels expected in future oceans. Hence and following our results, future subtropical communities are expected to keep high biodiversity values under an acidification scenario, although they will tend toward overall miniaturization due to the dominance of small algal and invertebrate species, leading to changes in ecosystem functions.

Use of survival rates of the barnacle Chthamalus stellatus as a bioindicator of pollution.

Concentrations of heavy metals and trace elements in marine environments have increasingly become a problem for several ocean ecosystems, due to increments in pollution. Habitats daily exposed to extreme conditions, such as the intertidal rocky platforms and pools, are more vulnerable to pollution effects. In the coast of Punta del Hidalgo (Tenerife, Spain), we have located a water-treatment plant that could be pouring periodically pollutants to the near shore. We studied coverage and survival rates of the cirriped Chthamalus stellatus inhabiting the intertidal near the sewage pipe of the water plant of ​Punta del Hidalgo and in a control area in a proximate location. Concurrently, water samples from intertidal pools were obtained from both affected and control areas in order to corroborate the presence of pollutants, analyzing the concentrations of metals and trace elements. The results obtained clarified that the area near the underwater outfall presented higher percentage of coverage and mortality of C. stellatus than the control zone. The analysis of metal content in water samples also showed higher concentrations of metals for the affected area compared to the control one. We therefore propose the use of survival rates of populations of C. stellatus in the intertidal as bioindicators of metal pollution.

The Importance of Natural Acidified Systems in the Study of Ocean Acidification: What Have We Learned?

Human activity is generating an excess of atmospheric CO2, resulting in what we know as ocean acidification, which produces changes in marine ecosystems. Until recently, most of the research in this area had been done under small-scale, laboratory conditions, using few variables, few species and few life cycle stages. These limitations raise questions about the reproducibility of the environment and about the importance of indirect effects and synergies in the final results of these experiments. One way to address these experimental problems is by conducting studies in situ, in natural areas where expected future pH conditions already occur, such as CO2 vent systems. In the present work, we compile and discuss the latest research carried out in these natural laboratories, with the objective to summarize their advantages and disadvantages for research to improve these investigations so they can better help us understand how the oceans of the future will change.