A5070669048- Environmental DNA in Biodiversity Studies
- Identification and Quantification in Food
- Marine Ecology and Invasive Species
- Marine Biology and Ecology Research
- Microbial Community Ecology and Physiology
- Ichthyology and Marine Biology
- Genomics and Phylogenetic Studies
- Coral and Marine Ecosystems Studies
- Genetic diversity and population structure
- Protist diversity and phylogeny
- Environmental Toxicology and Ecotoxicology
- Isotope Analysis in Ecology
- Fish Biology and Ecology Studies
- Fish Ecology and Management Studies
- Marine and coastal plant biology
- Marine Biology and Environmental Chemistry
- Parasite Biology and Host Interactions
- Crustacean biology and ecology
- Pesticide and Herbicide Environmental Studies
- Aquatic Invertebrate Ecology and Behavior
- Marine and coastal ecosystems
- Pharmaceutical and Antibiotic Environmental Impacts
- Banking stability, regulation, efficiency
- Methane Hydrates and Related Phenomena
- Spectroscopy and Chemometric Analyses
University of Minho
2015-2024
Research Network (United States)
2024
Aquatic Systems (United States)
2024
Royal Botanic Garden Edinburgh
2024
Centre for Research and Development in Telecommunications (Brazil)
2023
University of Coimbra
2022
University of Algarve
2022
Universidade Estadual Paulista (Unesp)
2022
Portuguese Sea and Atmosphere Institute
2022
University of Aveiro
2021
The ability of a 650 base pair section the mitochondrial cytochrome c oxidase I (COI) gene to provide species-level identifications has been demonstrated for large taxonomic assemblages animals such as insects, birds, and fishes, but not subphylum Crustacea, one most diverse groups arthropods. In this study, we test COI in group, examining two disparate levels hierarchy — orders species. first phase our study involved development sequence profile 23 dominant crustacean orders, based upon...
Decapods are the most recognizable of all crustaceans and comprise a dominant group benthic invertebrates continental shelf slope, including many species economic importance. Of 17635 morphologically described Decapoda species, only 5.4% represented by COI barcode region sequences. It therefore remains challenge to compile regional databases that identify analyse extent patterns decapod diversity throughout world.We contributed 101 from North East Atlantic, Gulf Cadiz Mediterranean Sea,...
Building reference libraries of DNA barcodes is relatively straightforward when specifically designed primers are available to amplify the COI-5P region from a narrow taxonomic group (e.g. single class or order). barcoding marine communities have been comparatively harder accomplish due broad diversity and lack consistently efficient primers. Although some so-called “universal” successful, they still fail many animal groups, while displaying random success even among species within each...
The protection, preservation and restoration of aquatic ecosystems their functions are global importance. For European states it became legally binding mainly through the EU-Water Framework Directive (WFD). In order to assess ecological status a given water body, biodiversity data obtained compared reference body. quantified mismatch determines extent potential management actions. current approach assessment is based on morpho-taxonomy. This has many drawbacks such as being time consuming,...
Background DNA barcoding enhances the prospects for species-level identifications globally using a standardized and authenticated DNA-based approach. Reference libraries comprising validated barcodes (COI) constitute robust datasets testing query sequences, providing considerable utility to identify marine fish other organisms. Here we test feasibility of assign species tissue samples from collected in central Mediterranean Sea, major contributor European ichthyofaunal diversity....
Valid fish species identification is an essential step both for fundamental science and fisheries management. The traditional mainly based on external morphological diagnostic characters, leading to inconsistent results in many cases. Here, we provide a sequence reference library mitochondrial cytochrome c oxidase subunit I (COI) valid of 93 North Atlantic originating from the Sea adjacent waters, including commercially exploited species. Neighbour-joining analysis K2P genetic distances...
Background The increasing availability of reference libraries DNA barcodes (RLDB) offers the opportunity to screen level consistency in barcode data among libraries, order detect possible disagreements generated from taxonomic uncertainty or operational shortcomings. We propose a ranking system attribute confidence species identifications associated with records RLDB. Here we apply proposed newly RLDB for marine fish Portugal. Methodology/Principal Findings Specimens (n = 659) representing...
The study of the Portuguese marine ichthyofauna has a long historical tradition, rooted back in 18th Century. Here we present an annotated checklist fishes from waters, including area encompassed by proposed extension continental shelf and Economic Exclusive Zone (EEZ). list is based on literature records taxon occurrence data obtained natural history collections, together with new revisions occurrences. It comprises total 1191 species, distributed among 3 superclasses, 4 classes, 42 orders,...
Molecular data have been suggesting the existence of a complex cryptic species within taxon Perinereis cultrifera , which has not fully explored yet. In this study, we performed morphological and molecular analysis (mtCOI-5P 16S rRNA 28SD2 ) specimens from intertidal marine brackish European localities, mostly focusing on Mediterranean Sea Canary Islands. Two major phylogenetic clades with at least 18 divergent (COI 19.8; 6.4-28.5%) completely sorted lineages were uncovered based original...
Abstract The genus Gammarus (Amphipoda) is one of the most speciose genera Crustacea, yet much uncertainty remains concerning taxonomy and systematic relationships, particularly for brackish marine forms. We used DNA barcode sequences from mitochondrial cytochrome c oxidase I (COI) gene to probe prominent members water North Atlantic, Baltic, Mediterranean Black Seas. investigated 16 putative spp. at an average number 9 specimens per species. This constitutes taxonomically geographically...
Morphology-based profiling of benthic communities has been extensively applied to aquatic ecosystems' health assessment. However, it remains a low-throughput, and sometimes ambiguous, procedure. Despite DNA metabarcoding marine benthos, comprehensive approach providing species-level identifications for estuarine macrobenthos is still lacking. Here we report combination experimental field studies assess the aptitude COI provide robust high-throughput monitoring macrobenthos. To investigate...
Abstract Annelid polychaetes have been seldom the focus of dedicated DNA barcoding studies, despite their ecological relevance and often dominance, particularly in soft‐bottom estuarine coastal marine ecosystems. Here, we report first assessment performance barcodes discrimination shallow water polychaete species from southern European Atlantic coast, focusing on specimens collected estuaries ecosystems Portugal. We analysed cytochrome oxidase I ( COI ‐5P) 164 specimens, which were assigned...
Benthic macroinvertebrates are among the most used biological quality elements for assessing condition of all types aquatic ecosystems worldwide (i.e., fresh water, transitional, and marine). Current morphology-based assessments have several limitations that may be circumvented by using DNA-based approaches. Here, we present a comprehensive review 90 publications on use DNA metabarcoding benthic in bioassessments. Metabarcoding bulk macrozoobenthos has been preferentially waters, whereas...
Over the last two decades, use of DNA barcodes has transformed our ability to identify and assess life on planet. Both strengths weaknesses method have been exemplified through thousands peer-reviewed scientific articles. Given novel sequencing approaches, currently capable generating millions reads at low cost, we reflect questions: What will future bring for barcoding? Will identification species using short, standardized fragments stand test time? We present reflected opinions early...
DNA barcoding and metabarcoding is increasingly used to effectively precisely assess monitor biodiversity in aquatic ecosystems. As these methods rely on data availability quality of barcode reference libraries, it important develop follow best practices ensure optimal traceability the metadata associated with barcodes for identification. Sufficient metadata, as well vouchers, corresponding each must be available reliable library curation and, thereby, provide trustworthy baselines...
Almost 250 years after the publication of taxonomy-founding work Systema Naturae, by Carl Linnaeus, inventory and catalogue planet's biodiversity is still far from complete: only ca 1.5 to 1.8 million an estimated 10+ species are so described. Notwithstanding remarkable merits Linnean system, task too vast ever be completed using current conventional approaches. Such a staggering reality, customary difficulty that scientific community society in general experience access taxonomic knowledge,...
AB Aquatic Biology Contact the journal Twitter RSS Mailing List Subscribe to our mailing list via Mailchimp HomeLatest VolumeAbout JournalEditorsTheme Sections 3:71-78 (2008) - DOI: https://doi.org/10.3354/ab00068 DNA barcoding of shared fish species from North Atlantic and Australasia: minimal divergence for most taxa, but Zeus faber Lepidopus caudatus each probably constitute two Robert D. Ward1,*, Filipe O. Costa2, Bronwyn H. Holmes1, Dirk Steinke3 1CSIRO Wealth Oceans Flagship, CSIRO...
Abstract We analysed cytochrome oxidase I (COI) barcodes for 35 putative fish species collected in the Scotia Sea, and compared resultant molecular data with field-based morphological identifications, additional sequence obtained from GenBank Barcode of Life Data System (BOLD). There was high congruence between classification, COI provided effective species-level discrimination nearly all species. No effect geographic sampling observed variation. For two families, including Liparidae...
Abstract Biodiversity studies greatly benefit from molecular tools, such as DNA metabarcoding, which provides an effective identification tool in biomonitoring and conservation programmes. The accuracy of species‐level assignment, consequent taxonomic coverage, relies on comprehensive barcode reference libraries. role these libraries is to support species identification, but accidental errors the generation barcodes may compromise their accuracy. Here, we present R‐based application,...