The network structure of intertidal meiofaunal communities from environmental DNA metabarcoding surveys in Northwest Iberia

Bellisario, Bruno; Fais, Maria; Duarte, Sofia Alexandra Ferreira; Vieira, Pedro E.; Canchaya, Carlos; Costa, Filipe O.

doi:10.1007/s00027-021-00828-1

Cited by 8 publications

(5 citation statements)

References 66 publications

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“…vettonica , distributed only in some small rivers of the southwestern Duero Basin that they have not sampled in the present study. Recent eDNA metabarcoding studies through COI or 18S have been carried out in the Iberian Peninsula to study the intertidal meiofaunal communities or the total composition of macroinvertebrates and none of them was focused on the Duero Basin [ 79 – 81 ]. However, our study is the first to focus on determining the ichthyofaunal composition through the 12S marker in the Iberian Peninsula.…”

Section: Discussionmentioning

confidence: 99%

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Environmental DNA metabarcoding of water samples as a tool for monitoring Iberian freshwater fish composition

Corral-Lou,

Doadrio

2023

PLoS ONE

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Environmental DNA (eDNA) metabarcoding has been increasingly used to monitor the community assemblages of a wide variety of organisms. Here, we test the efficacy of eDNA metabarcoding to assess the composition of Iberian freshwater fishes, one of the most endangered groups of vertebrates in Spain. For this purpose, we sampled 12 sampling sites throughout one of Spain’s largest basins, the Duero, which is home to approximately 70% of the genera and 30% of the primary freshwater fish in Spain. We sampled these sampling sites in the summer by using electrofishing, a traditional sampling method, and eDNA metabarcoding of river water samples using the mitochondrial 12S rRNA gene (12S) as a marker. We also resampled four of these sampling sites in autumn by eDNA. We compared the results obtained through eDNA metabarcoding with those of electrofishing surveys (ones conducted for the present study and past ones) and assessed the suitability of 12S as an eDNA metabarcoding marker for this group of freshwater fishes. We found that the 12S fragment, analysed for 25 Iberian species, showed sufficient taxonomic resolution to be useful for eDNA approaches, and even showed population-level differences in the studied populations across the tissue samples for Achondrostoma arcasii. In most cases, a greater number of species was detected through eDNA metabarcoding than through electrofishing. Based on our results, eDNA metabarcoding is a powerful tool to study the freshwater fish composition in the Iberian Peninsula and to unmask cryptic diversity. However, we highlight the need to generate a local genetic database for 12S gene for such studies and to interpret the results with caution when studying only mitochondrial DNA. Finally, our survey shows that the high detection sensitivity of eDNA metabarcoding and the non-invasiveness of this method allows it to act as a detection system for species of low abundance, such as early invasive species or species in population decline, two key aspects of conservation management of Spanish freshwater fishes.

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Section: Discussionmentioning

confidence: 99%

“…study the intertidal meiofaunal communities or the total composition of macroinvertebrates and none of them was focused on the Duero Basin [79][80][81]. However, our study is the first to focus on determining the ichthyofaunal composition through the 12S marker in the Iberian Peninsula.…”

Section: Plos Onementioning

confidence: 99%

Environmental DNA metabarcoding of water samples as a tool for monitoring Iberian freshwater fish composition

Corral-Lou,

Doadrio

2023

PLoS ONE

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“…Here we considered all the exclusively meiofaunal phyla (Gnathostomulida, Kinorhyncha, Loricifera, Gastrotricha, and Tardigrada) and other metazoans that can be meiofaunal-sized during their life cycle (temporary meiofaunal taxa) ( Higgins & Thiel, 1988 ; Giere, 2009 ). After this filtering, the final dataset contained 10 phyla (Annelida, Cnidaria, Crustacea, Echinodermata, Gastrotricha, Mollusca, Nematoda, Nemertea, Platyhleminthes, and Rotifera) as previously implemented in other studies ( Brannock & Halanych, 2015 ; Bernardino et al, 2019 ; Fais et al, 2020 ; Bellisario et al, 2021 ; Castro et al, 2021 ; Coppo et al, 2023 ). Permutational analysis of variance (PERMANOVA; Anderson, Gorley & Clarke, 2008 ) was performed to compare environmental variables (rainfall, temperature, salinity, carbonate content, grain size, total organic matter, and biopolymeric composition), seascape coverage (the extent of an area that is encompassed within any of the MBON Marine Seascapes categories), and meiofaunal data (diversity metrics—Shannnon’s diversity index, phylogenetic diversity, and abundance of sequence reads) among sampled seasons (summer, autumn, winter, and spring) and sampled stations at Gramuté beach.…”

Section: Methodsmentioning

confidence: 99%

Meiofauna at a tropical sandy beach in the SW Atlantic: the influence of seasonality on diversity

Coppo,

Pereira,

Netto

et al. 2024

PeerJ

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Background Sandy beaches are dynamic environments housing a large diversity of organisms and providing important environmental services. Meiofaunal metazoan are small organisms that play a key role in the sediment. Their diversity, distribution and composition are driven by sedimentary and oceanographic parameters. Understanding the diversity patterns of marine meiofauna is critical in a changing world. Methods In this study, we investigate if there is seasonal difference in meiofaunal assemblage composition and diversity along 1 year and if the marine seascapes dynamics (water masses with particular biogeochemical features, characterized by temperature, salinity, absolute dynamic topography, chromophoric dissolved organic material, chlorophyll-a, and normalized fluorescent line height), rainfall, and sediment parameters (total organic matter, carbonate, carbohydrate, protein, lipids, protein-to-carbohydrate, carbohydrate-to-lipids, and biopolymeric carbon) affect significatively meiofaunal diversity at a tropical sandy beach. We tested two hypotheses here: (i) meiofaunal diversity is higher during warmer months and its composition changes significatively among seasons along a year at a tropical sandy beach, and (ii) meiofaunal diversity metrics are significantly explained by marine seascapes characteristics and sediment parameters. We used metabarcoding (V9 hypervariable region from 18S gene) from sediment samples to assess the meiofaunal assemblage composition and diversity (phylogenetic diversity and Shannon’s diversity) over a period of 1 year. Results Meiofauna was dominated by Crustacea (46% of sequence reads), Annelida (28% of sequence reads) and Nematoda (12% of sequence reads) in periods of the year with high temperatures (>25 °C), high salinity (>31.5 ppt), and calm waters. Our data support our initial hypotheses revealing a higher meiofaunal diversity (phylogenetic and Shannon’s Diversity) and different composition during warmer periods of the year. Meiofaunal diversity was driven by a set of multiple variables, including biological variables (biopolymeric carbon) and organic matter quality (protein content, lipid content, and carbohydrate-to-lipid ratio).

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“…From an ecological point of view, modularity is a straightforward structural property of networks able to detect species with similar responses to the main spatial, environmental and biotic (e.g. species interactions) processes structuring biodiversity [42][43][44]. We used an eigenvector-based maximizing algorithm (i.e.…”

Section: Network Inference and Modularitymentioning

confidence: 99%

Co-migration fidelity at a stopover site increases over time in African–European migratory landbirds

Bellisario,

Cardinale,

Maggini

et al. 2023

R. Soc. open sci.

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Migratory species are changing their timing of departure from wintering areas and arrival to breeding sites (i.e. migration phenology) in response to climate change to exploit maximum food availability at higher latitudes and improve their fitness. Despite the impact of changing migration phenology at population and community level, the extent to which individual and species-specific response affects associations among co-migrating species has been seldom explored. By applying temporal co-occurrence network models on 15 years of standardized bird ringing data at a spring stopover site, we show that African–European migratory landbirds tend to migrate in well-defined groups of species with high temporal overlap. Such ‘co-migration fidelity’ significantly increased over the years and was higher in long-distance (trans-Saharan) than in short-distance (North African) migrants. Our findings suggest non-random patterns of associations in co-migrating species, possibly related to the existence of regulatory mechanisms associated with changing climate conditions and different uses of stopover sites, ultimately influencing the global economy of migration of landbirds in the Palearctic–African migration system.

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The network structure of intertidal meiofaunal communities from environmental DNA metabarcoding surveys in Northwest Iberia

Cited by 8 publications

References 66 publications

Environmental DNA metabarcoding of water samples as a tool for monitoring Iberian freshwater fish composition

Environmental DNA metabarcoding of water samples as a tool for monitoring Iberian freshwater fish composition

Meiofauna at a tropical sandy beach in the SW Atlantic: the influence of seasonality on diversity

Co-migration fidelity at a stopover site increases over time in African–European migratory landbirds

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