Publications
Papers
Ferreira AO, Azevedo OM, Barroso C, Duarte S, Egas C, Fontes JT, Ré P, Piecho-Santos AM, Costa FO (2024). Multi-marker DNA metabarcoding for precise species identification in ichthyoplankton samples. Scientific Reports, 14(1), 1-14. https://doi.org/10.1038/s41598-024-69963-7
Fontes JT, Katoh K, Pires R, Soares P, Costa FO (2024). Benchmarking the discrimination power of commonly used markers and amplicons in marine fish (e)DNA (meta)barcoding. Metabarcoding & Metagenomics, 8: e128646. https://doi.org/10.3897/mbmg.8.128646
Preprints
Fontes JT, Ferreira AO, Lavrador AS, Machado C, Soares P, Costa FO, Canchaya CA (2024). Exploring artificial neural networks for the curation of DNA barcode reference libraries: a pilot study with marine fish species of the Eastern Atlantic. Authorea Preprints. https://doi.org/10.22541/au.172374899.92498971/v1
Abstracts in conference proceedings
Ferreira AO, Barroso C, Cruz J, Duarte S, Egas C, Gomes P, Oliveira C, E. Vieira P, Piecho-Santos AM, Costa FO (2022). Testing COI primers for ichthyoplankton metabarcoding and their capability to assess local mesozooplankton communities. ARPHA Conference Abstracts 5: e87495. https://doi.org/10.3897/aca.5.e87495
Communications
Oral communications at conferences
Ferreira AO (2025). Monthly monitoring of fish diversity in a temperate Atlantic estuary through ichthyoplankton morphology, and multi-marker bulk metabarcoding and seawater eDNA. II CBMA Open Day & III PhD|Bio Symposium, February 5, Braga, Portugal.
Costa FO (2024). DNA-based approaches for fisheries monitoring. OBON Network Spotlight: Updates and new beginnings. 16 October, 2024, Webinar by OBON.
Fontes JT, Katoh K, Pires R, Soares P, Costa FO (2024). Benchmarking the discrimination power of commonly used markers and amplicons in marine fish (e)DNA (meta)barcoding. FSBI 2024 Annual Symposium, July 15-19, Bilbao, Spain.
Machado C, Azevedo OM, Barroso C, Duarte S, Egas C, Fontes JT, Oliveira C, Piecho-Santos AM, Costa FO (2024). Assessing the impact of genetic markers and sampled water volume in eDNA-based detection of marine fish species in a large aquarium. FSBI 2024 Annual Symposium, July 15-19, Bilbao, Spain.
Ferreira AO, Azevedo OM, Barroso C, Duarte S, Egas C, Fontes JT, Piecho-Santos AM, Costa FO (2024). Unveiling diversity and seasonal variations in ichthyoplankton communities using DNA metabarcoding. FSBI 2024 Annual Symposium, July 15-19, Bilbao, Spain.
Machado C, Barroso C, Baylina N, Duarte S, Egas C, Fernandes M, Oliveira C, Piecho-Santos AM, Soares P, E. Vieira P, Costa FO (2024). Environmental DNA for detecting marine fish species. CBMA Open Day & II PhD Bio Symposium, February 2, Braga, Portugal.
Fontes JT, K Katoh, Pires R, Soares P, Costa FO (2023). Comparing the species discriminatory power of commonly used markers and amplicons in marine fish (e)DNA metabarcoding. IV International Meeting of the Portuguese Society of Genetics, October 19-20, Braga, Portugal.
Costa FO (2023). Usefulness and potential of (e)DNA (meta)barcoding in marine biodiversity monitoring and management. Encontro Ciência 2023, Fundação para a Ciência e Tecnologia (FCT), 7 July, 2023, Aveiro, Portugal.
Ferreira AO, Azevedo OM, Barroso C, Duarte S, Egas C, Fontes JT, Ré P, Piecho-Santos AM, Costa FO (2023). A proof-of-concept study to use DNA metabarcoding as a tool for species identification in ichthyoplankton samples. 46th Larval Fish Conference, May 7-11, Lisbon, Portugal.
Costa FO (2023). Report on the UN Ocean Decade Action. DNA-based approaches to fisheries. Ocean Biomolecular Observation Network (OBON) Workshop, April 3, Plymouth, United Kingdom.
Fontes JT, Landi M, Barradas A, Barri I, Sobrino I, Carneiro M, Martins R, Soares P, Costa FO (2022). Updated phylogeography of the widely distributed John Dory (Zeus faber, Actinopterygii: Zeiformes) reaffirms the prevalence of at least two deeply divergent evolutionary lineages. Honorable Mention at the XVIII Encontro Nacional de Biologia Evolutiva, December 15-16, Braga, Portugal.
Costa FO (2022). DNA-based approaches for fisheries. Virtual side event “Biomolecular observations in support of conservation and sustainable development”, Ocean Biomolecular Observing Network (OBON), UN Ocean Conference, 30 June, Lisbon.
Piecho-Santos AM (2022). Proposal of A-FISH-DNA-SCAN for endorsement by OBON (Ocean Biomolecular Observation Network). 23rd POGO Annual Meeting (POGO-23) and Side Meetings, 24–28 January, Virtual conference.
Costa FO (2021). Barcode of Life for new generation global ecosystems monitoring. Networking Fridays on Ecosystems Health and Resilience with IB-S. March 26, Air Centre, Virtual Event.
Poster communications at conferences
Ferreira AO, Machado C, Azevedo OM, Barroso C, Duarte S, Egas C, Fontes JT, Piecho-Santos AM, Costa FO (2024). Monthly monitoring of fish diversity in a temperate Atlantic estuary through ichthyoplankton morphology, and multi-marker bulk metabarcoding and seawater eDNA. 9th International Barcode of Life Conference (IBOL), September 2-6, Belém, Brazil.
Fontes JT, Ferreira AO, Lavrador AS, Machado C, Soares P, Costa FO, Canchaya CA (2024). Exploring artificial neural networks for the curation of DNA barcode reference libraries: a pilot study with marine fish species of the Eastern Atlantic. 9th International Barcode of Life Conference (IBOL), September 2-6, Belém, Brazil.
Ferreira AO, Azevedo OM, Barroso C, Duarte S, Egas C, Fontes JT, Ré P, Piecho-Santos AM, Costa FO (2024). DNA Metabarcoding as a tool to identify fish species ichthyoplankton samples. CBMA Open Day & II PhD Bio Symposium, 2 February, Braga, Portugal.
Machado C, Azevedo OM, Barroso C, Duarte S, Egas C, Fontes JT, Oliveira C, Piecho-Santos AM, Costa FO (2023). A comparison of eDNA metabarcoding and morphological analyses for detecting ichthyoplankton in the Guadiana estuary. IV International Meeting of the Portuguese Society of Genetics, October 19-20, Braga, Portugal.
Ferreira AO, Azevedo OM, Barroso C, Duarte S, Egas C, Fontes JT, Ré P, Piecho-Santos AM, Costa FO (2023). DNA Metabarcoding as a tool to identify fish species in zooplankton samples: a proof-of-concept study on the Portuguese coast. IV International Meeting of the Portuguese Society of Genetics, October 19-20, Braga, Portugal.
Machado C, Azevedo OM, Barroso C, Duarte S, Egas C, Fontes JT, Oliveira C, Piecho-Santos AM, Costa FO (2023). Old meets new: 2. eDNA metabarcoding vs morphological analyses for detecting ichthyoplankton in the Guadiana estuary. 46th Larval Fish Conference, May 7-11, Lisbon, Portugal.
Azevedo OM, Cruz J, Ré P, Machado C, Ferreira AO, Teodósio A, Duarte S, Costa FO, Piecho-Santos AM (2023). Old meets new: 1. Morphological analyses of Guadiana ichthyoplankton as a support for DNA-based approaches. 46th Larval Fish Conference, May 7-11, Lisbon, Portugal.
Machado C, Barroso C, Baylina N, Duarte S, Egas C, Fernandes M, Oliveira C, Piecho-Santos AM, Soares P, E. Vieira P, Costa FO (2022). Environmental DNA for detecting marine fish species: testing the volume of sampled water, markers and primers in a public oceanarium. XVIII Encontro Nacional de Biologia Evolutiva, December 15-16, Braga, Portugal, mixed event.
Ferreira AO, Barroso C, Cruz J, Duarte S, Egas C, Gomes P, Oliveira C, Piecho-Santos AM, Costa FO (2022). COI metabarcoding of mesozooplankton communities: the impact of OTU versus ASV-based pipelines on recovered diversity. XVIII Encontro Nacional de Biologia Evolutiva, December 15-16, Braga, Portugal, mixed event.
Machado C, Barroso C, Baylina N, Duarte S, Egas C, Fernandes M, Oliveira C, Piecho-Santos AM, E. Vieira P, Costa FO (2022). Testing the efficiency of environmental DNA metabarcoding for detecting marine fish species using a public aquarium. ICES Annual Science Conference 2022, September 19–22, Dublin, Ireland, mixed event.
Ferreira AO, Barroso C, Cruz J, Duarte S, Egas C, Gomes P, Oliveira C, E. Vieira P, Piecho-Santos AM, Costa FO (2022). Testing COI primers for ichthyoplankton metabarcoding and their capability to assess local mesozooplankton communities. International Conference on DNA Barcoding and Biodiversity (ICDBB), May 25-27, Sofia, Bulgaria, mixed event.
Theses
PhD
André Ferreira. DNA-based monitoring of ichthyoplankton for application to fish biodiversity conservation and fisheries management (DFA/BD/6653/2020). PhD in Environmental and Molecular Biology, Universidade do Minho, Braga, Portugal, ongoing.
Cláudia Machado. Exploring the use of environmental DNA to monitor the ichthyofauna and provide data to assist fish stock assessment in the Atlantic (UMINHO/BID/2021/36). PhD in Biology, Universidade do Minho, Braga, Portugal, ongoing.
João Tadeu Fontes. Meta-species screening for genetic divergence and phylogeographic reconstruction in Atlantic marine fish species (UI/BD/150910/2021). PhD in Molecular and Environmental Biology, Universidade do Minho, Braga, Portugal, ongoing.
Cristina Bernardo. Identificação e caracterização da comunidade ictioplanctônica do estuário do Rio Ribeira de Iguape, São Paulo, Brasil, através de DNA metabarcoding. Institute of Biosciences (IB), Universidade Estadual Paulista, Brazil, ongoing
Master
João Meira. A curated reference library of NE Atlantic and Mediterranean fish species to support biomonitoring and DNA barcode-driven screening of phylogeographic structure, Portugal, ongoing.