80 documents found, page 1 of 8
Multi-marker DNA metabarcoding for precise species identification in ichthyopla...
Ferreira, André O.; Barroso, Cristina; Azevedo, Olga Mouteira; Duarte, Sofia; Egas, Conceição; Fontes, João T.; Ré, Pedro; Santos, A. Miguel P.Ichthyoplankton monitoring is crucial for stock assessments, offering insights into spawning grounds, stock size, seasons, recruitment, and changes in regional ichthyofauna. This study evaluates the efficiency of multi-marker DNA metabarcoding using mitochondrial cytochrome c oxidase subunit I (COI), 12S rRNA and 16S rRNA gene markers, in comparison to morphology-based methods for fish species identification in...
Assessing the seasonal and spatial dynamics of zooplankton through DNA metabarc...
Moutinho, Jorge; Flores, Diego Carreira; Gomes, Pedro T.; Costa, Filipe O.; Duarte, Sofia Alexandra FerreiraZooplankton are key components of estuarine trophic networks. However, routine monitoring is hindered by the difficulty of morphology-based identification. DNA-based methods allow us to circumvent some of these hurdles, providing precise species identifications regardless of the taxonomic expertise of the investigator or the developmental stage of the specimens. However, the process is dependent on the complete...
Current status and topical issues on the use of eDNA-based targeted detection o...
Duarte, Sofia Alexandra Ferreira; Simões, Luara Aparecida; Costa, Filipe O.Animal detection through DNA present in environmental samples (eDNA) is a valuable tool for detecting rare species, that are difficult to observe and monitor. eDNA-based tools are underpinned by molecular evolutionary principles, key to devising tools to efficiently single out a targeted species from an environmental sample. Here, we present a comprehensive review of the use of eDNA-based methods for the detect...
Revealing the diversity of the green Eulalia (Annelida, Phyllodocidae) species ...
Teixeira, Marcos André Machado Lima; Vieira, Pedro Emanuel Ferreira Reis; Fenwick, David; Langeneck, Joachim; Pleijel, Fredrik; Sampieri, Bruno R.The green phyllodocids Eulalia clavigera and E. viridis are a known European pseudo-cryptic complex, but questions about its distribution and evidence of additional lineages in previous studies call for an investigation of the real diversity within the complex. We analyze DNA sequences (mtCOI-5P, ITS, and 28S rRNA) of different populations of E. clavigera from intertidal and subtidal marine waters along the Nor...
Catch me if you can: current status and topical issues on the use of eDNA-based...
Duarte, Sofia Alexandra Ferreira; Simões, Luara Aparecida; Costa, Filipe O.Animal detection through DNA present in environmental samples (eDNA) is a valuable tool for detecting rare species, that are difficult to observe and monitor. eDNA-based tools are underpinned by molecular evolutionary principles, which are key to devising tools to efficiently single out a targeted species from an environmental sample, using carefully chosen marker regions and customized primers. Here, we presen...
Compilation, revision, and annotation of DNA barcodes of marine invertebrate No...
Lavrador, Ana Sofia Castro; Fontes, João T.; Vieira, Pedro Emanuel Ferreira Reis; Costa, Filipe O.; Duarte, Sofia Alexandra FerreiraThe introduction of non-indigenous species (NIS) is one of the major threats to the integrity of European coastal ecosystems. DNA-based assessments have been increasingly adopted for monitoring NIS. However, the accuracy of DNA-based taxonomic assignments is largely dependent on the completion and reliability of DNA barcode reference libraries. As such, we aimed to compile and audit a DNA barcode reference libr...
To be, or not to be: that is the hamletic question of cryptic evolution in the ...
Ferrari, Alice; Crobe, Valentina; Cannas, Rita; Leslie, Rob W.; Serena, Fabrizio; Stagioni, Marco; Costa, Filipe O.; Golani, Daniel; Hemida, FaridDespite a high species diversity, skates (Rajiformes) exhibit remarkably conservative morphology and ecology. Limited trait variations occur within and between species, and cryptic species have been reported among sister and non-sister taxa, suggesting that species complexes may be subject to stabilising selection. Three sibling species are currently recognised in the Raja miraletus complex: (i) R. miraletus oc...
Macrozoobenthos monitoring in Portuguese transitional waters in the scope of th...
Duarte, Sofia Alexandra Ferreira; Vieira, Pedro Emanuel Ferreira Reis; Leite, Barbara R.; Teixeira, Marcos André Machado Lima; Neto, João MiguelDespite the growing use and potential of DNA metabarcoding to improve and expedite macrozoobenthos monitoring, its employment in Water Framework Directive (WFD) monitoring of transitional ecosystems still remains largely unexplored. In the current study, we addressed this research gap by building upon the biomonitoring network program of the Portuguese Environmental Agency (APA). The ecological condition of 20 ...
Artificial seaweed substrates complement ARMS in DNA metabarcoding-based monito...
Leite, Barbara R.; Duarte, Sofia Alexandra Ferreira; Troncoso, Jesús S.; Costa, Filipe O.We used DNA metabarcoding to compare macrozoobenthic species colonization between autonomous reef monitoring structures (ARMS) and artificial seaweed monitoring systems (ASMS). We deployed both substrates in two different locations (Ría de Vigo and Ría de Ferrol, NW Iberian coast) and collected them after 6, 9, and 12 months to assess species composition of the colonizing communities through high-throughput seq...
Hurdles and opportunities in implementing marine biosecurity systems in data-po...
Carvalho, Susana; Shchepanik, Hailey; Aylagas, Eva; Berumen, Michael L.; Costa, Filipe O.; Costello, Mark John; Duarte, Sofia Alexandra FerreiraManaging marine nonindigenous species (mNIS) is challenging, because marine environments are highly connected, allowing the dispersal of species across large spatial scales, including geopolitical borders. Cross-border inconsistencies in biosecurity management can promote the spread of mNIS across geopolitical borders, and incursions often go unnoticed or unreported. Collaborative surveillance programs can enha...