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PhD in Biology (2002). Professor at the University of Porto, Biology Department. Head of the Evolutionary Genomics and Bioinformatics Research Team at CIIMAR, University of Porto (https://www2.ciimar.up.pt/research.php?team=1). Scientific-Technical Director of the Matosinhos Environmental Center (CMIA), a center that has as the main goal to do science diffusion and environmental education and monitoring (http://www.cmia-matosinhos.net/equipa.htm). I have been involved in the European project ShareBiotech, with the main goal of connecting and performing networking of research facilities and companies in the biotechnology field (http://www.sharebiotech.net/partners/73-ciimar) and I currently involved in the European H2020 Marie Sklodowska-Curie Innovative Training Networks (ITN) “IGNITE - Comparative genomics of non-model invertebrates” involving 14 European Institutions and one Australian Institution, in the top-level training of PhD students (http://www.itn-ignite.eu/showpage.php?storyid=11577). I have over 150 papers published in ISI journals of which more than 60 are as first or last author (H-Index: 32; >3800 citations), highlighting the leadership effort and the strait supervision of graduate and PhD students. I have accumulated experience as reviewer of prestigious scientific journals, national/international projects, event organization and in academic/evaluation juries
Read full resume ↓
Identification

Personal identification

Full name
Agostinho Antunes

Citation names

  • Antunes, Agostinho

Author identifiers

Ciência ID
C018-C319-6168
ORCID iD
0000-0002-1328-1732
Scopus Author Id
7102537544

Websites

Knowledge fields

  • Natural sciences - Biological Sciences
  • Exact Sciences - Computer and Information Sciences - Bioinformatics
  • Natural sciences - Biological Sciences - Evolutionary Biology
  • Natural sciences - Biological Sciences - Developmental Biology

Languages

Language Speaking Reading Writing Listening Peer-review
English Advanced (C1) Advanced (C1) Advanced (C1) Advanced (C1)
French Advanced (C1) Advanced (C1) Intermediate (B1) Advanced (C1)
Spanish; Castilian Advanced (C1) Advanced (C1) Intermediate (B1) Advanced (C1)
Portuguese (Mother tongue)
Education
Degree Classification
2002 - 2003
Concluded
 Comparative Genomic Analysis and Adaptative Evolution (Pós-doutoramento)
Major in Genomics and Molecular Evolution
National Institute of Health/National Cancer Institute, United States
1997 - 2002
Concluded
 Biologia (Doutoramento)
Universidade do Porto Faculdade de Ciências, Portugal
"The evolutionary history of the brown trout, Salmo trutta L. Genetic structure at the southern limit of the Atlantic distribution and phylogeography in Eurasia. " (THESIS/DISSERTATION)
 Aprovado por unanimidade
1994 - 1997
Concluded
 Ecologia Aplicada (Mestrado)
Universidade do Porto, Portugal
1990 - 1994
Concluded
 Biologia (Licenciatura)
Universidade do Porto Faculdade de Ciências, Portugal
 Muito Bom
1990
Concluded
 Curso de Liceus (Ensino secundário)
Escola Secundária Alexandre Herculano, Portugal
 18 valores
Affiliation

Positions / Appointments

Category
Host institution 		Employer
2017 - 2018 Coordenação ou direção de centro de investigação, departamento ou equivalente Universidade do Porto, Portugal

Others

Category
Host institution 		Employer
2016 - Current Professor Universidade do Porto, Portugal
Universidade do Porto Faculdade de Ciências, Portugal
2013/05/01 - Current Head of the Evolutionary Genomics and Bioinformatics Group Universidade do Porto Centro Interdisciplinar de Investigação Marinha e Ambiental, Portugal
2010/01/01 - Current Director Cientifico-Técnico, Centro de Monitorização e Interpretação Ambiental (CMIA) de Matosinhos da Câmara Municipal de Matosinhos (http://www.cmia-matosinhos.net/equipa.htm) Universidade do Porto Centro Interdisciplinar de Investigação Marinha e Ambiental, Portugal
2011/06/15 - 2016 Invited Professor Universidade do Porto Faculdade de Ciências, Portugal
2007 - 2016 Researcher Universidade do Porto Centro Interdisciplinar de Investigação Marinha e Ambiental, Portugal
2004/01/01 - 2012/12/31 Visiting Scientist NIH-NCI Frederick, United States
2004 - 2007 Researcher REQUIMTE LAQV Porto, Portugal
2002 - 2003 Postdoctoral research fellow NIH-NCI Frederick, United States
1997 - 2002 PhD student Universidade do Porto Faculdade de Ciências, Portugal
1994 - 1997 Masters student Universidade do Porto Faculdade de Ciências, Portugal
Projects

Grant

Designation Funders
2020 - 2024 EU-EVEN European Venom Network (CA19144). COST - European Cooperation in Science & Technology.
CA19144 OC-2019-1-24233-EU-EVEN
Core-team member
Ongoing
2003 - 2007 A global study of the molecular genetics of pangolins, the scaly anteaters
7483-03
Principal investigator
National Geographic Society, United States
Concluded

Contract

Designation Funders
2023/09/01 - 2027/08/31 iCulture: A digital bio-platform and co-culture bioprocess to prospect and utilize macroalgae responsibly and sustainably. HORIZON-CL6-2022-CIRCBIO-02-05-two-stage.
HORIZON-CL6-2022-CIRCBIO-02-05-two-stage
Co-Principal Investigator (Co-PI)
Universidade do Porto Centro Interdisciplinar de Investigação Marinha e Ambiental, Portugal
Ongoing
2021 - 2023 AFRICoV— Genomic surveillance of SARS-CoV-2(-like) viruses in African bushmeat markets, and perceptions of health risks related to COVID-19 and bushmeat consumption
ANRS COV06 - AFRICoV
Researcher
Universidade do Porto Centro Interdisciplinar de Investigação Marinha e Ambiental, Portugal
Ongoing
2021 - 2023 Ocean3R - Reduce pressures, restore and regenerate the NW-Portuguese ocean and waters. NORTE-01-0145-FEDER-000064
NORTE-01-0145-FEDER-000064
Researcher
Universidade do Porto Centro Interdisciplinar de Investigação Marinha e Ambiental, Portugal
Ongoing
2020 - 2023 BlueBio4Future.
H2020-ERA-CHAIR-952374-2019
Researcher
Horizon 2020 - Research and Innovation Framework Programme: Innovative Training Networks , Belgium
Ongoing
2020 - 2023 UNORTE – ATLANTIDA: Platform for the monitoring of the North Atlantic Ocean and tools for the sustainable exploitation of the marine resources.
NORTE-01-0145-FEDER- 000040
Researcher
Universidade do Porto Faculdade de Ciências, Portugal
Ongoing
2018/07/26 - 2022/07/25 Sexo e o meio ambiente: Descodificação genómica e a perpetuação da vida animal num mundo em mudança
PTDC/CTA-AMB/31774/2017
Principal investigator
Fundação para a Ciência e a Tecnologia
Ongoing
2018/07/02 - 2022/07/01 SYMBIOMICS – Omics of marine symbioses: metabarcoding and metagenomics characterization of host-microbe adaptation and novel biosynthetic gene clusters
PTDC/BIA-BMA/29985/2017
 Fundação para a Ciência e a Tecnologia
Ongoing
2018/06/01 - 2022/05/31 BUSHRISK – Tracking the bushmeat: a molecular framework for tracing the African bushmeat trade and risks of emerging diseases
PTDC/BIA-CBI/32130/2017
 Fundação para a Ciência e a Tecnologia
Ongoing
2018 - 2022 “IGNITE - Comparative genomics of non-model invertebrates”.
H2020-MSCA-ITN-2017-764840
Principal investigator
Horizon 2020, Belgium
2016/06/01 - 2020/05/31 Animal sensory diversity: innovative genomic solutions to enhance perception of environmental stimuli
PTDC/AAG-GLO/6887/2014
Principal investigator
Fundação para a Ciência e a Tecnologia
Ongoing
2016/05/01 - 2019/10/31 CyanoTox – Assessment of cyanobacterial toxins in aquatic systems: environmental impacts and development of new methodologies for their early detection
PTDC/AAG-GLO/2317/2014
 Fundação para a Ciência e a Tecnologia
Concluded
2016 - 2019 Towards an integrated approach to enhance predictive accuracy of jellyfish impact on coastal marine ecosystems
PTDC/MAR-BIO/0440/2014
Principal investigator
Universidade do Porto Centro Interdisciplinar de Investigação Marinha e Ambiental, Portugal
Concluded
2016 - 2019 BLUEandGREEN: Boosting scientific excellence and innovation capacity in biorefineries based on marine resources.
692419 (2020-TWINN-2015)
Researcher
Horizon 2020 - Research and Innovation Framework Programme: Innovative Training Networks , Belgium
Concluded
2016 - 2019 Towards an integrated approach to enhance predictive accuracy of jellyfish impact on coastal marine ecosystems
PTDC/MAR-BIO/0440/2014
 N/A
2016 - 2019 BLUEandGREEN: Boosting scientific excellence and innovation capacity in biorefineries based on marine resources.
692419 (2020-TWINN-2015)
 N/A
2012/05/03 - 2015/09/30 Biological warfare: unraveling the genomics of natural venoms and the mechanisms of natural venom-resistance
PTDC/AAC-AMB/121301/2010
Principal investigator
Fundação para a Ciência e a Tecnologia
Concluded
2011/04/01 - 2014/09/30 The modulation of retinoid and thyroid signalling pathways by endocrine disrupting chemicals: invertebrate insights
PTDC/MAR/115199/2009
 Fundação para a Ciência e a Tecnologia
Concluded
2011/03/01 - 2014/08/31 Sex at the edge: How temperature influences sexual selection
PTDC/AAC-CLI/112936/2009
Universidade do Porto Instituto de Ciências e Tecnologias Agrárias e Agro-Alimentares, Portugal

Universidade dos Açores Centro de Investigação em Biodiversidade e Recursos Genéticos, Portugal
Fundação para a Ciência e a Tecnologia
Concluded
2011/02/01 - 2014/07/31 CyanoPrimer - Developing new tools for the early warning of cyanobacteria and cyanotoxins
PTDC/AAC-CLI/116122/2009
Principal investigator
Fundação para a Ciência e a Tecnologia
Concluded
2013 - 2014 “Simulation laboratory of gene/protein evolution.”
PP-IJUP2011-315 IJUP
Principal investigator
Universidade do Porto Centro Interdisciplinar de Investigação Marinha e Ambiental, Portugal
2010/06/01 - 2013/11/30 NISTRACKS – Processes influencing the invasive behaviour of the non indigenous species Corbicula fluminea (Mollusca: Bivalvia) in estuaries – identification of genetic and environmental key factors
PTDC/AAC-AMB/102121/2008
 Fundação para a Ciência e a Tecnologia
Concluded
2010/05/01 - 2013/10/31 Evolutionary genomic analyses of toxic cyanobacteria and study of the molecular mechanisms for detoxification of cyanotoxins across metazoan species
PTDC/AAC-AMB/104983/2008
Principal investigator
Fundação para a Ciência e a Tecnologia
Concluded
2008/09/01 - 2012/05/31 The modulation of retinoic acid signalling pathways by environmental pollutants in teleosts
PTDC/MAR/68106/2006
Universidade do Porto Instituto de Ciências e Tecnologias Agrárias e Agro-Alimentares, Portugal
 Fundação para a Ciência e a Tecnologia
Concluded
2008/01/01 - 2011/06/30 Phenogenetic drift in evolution: insights into the genetic basis of vertebrate developmental genes
PTDC/BIA-BDE/69144/2006
Principal investigator
Rede de Química e Tecnologia Laboratório Associado para a Química Verde, Portugal
 Fundação para a Ciência e a Tecnologia
Concluded
2004/01/01 - 2007/11/30 Estudo global da genética molecular dos pangolins, os papa-formigas de escamas.
POCTI/BSE/47559/2002
Principal investigator
Universidade do Porto Centro Interdisciplinar de Investigação Marinha e Ambiental, Portugal
 Fundação para a Ciência e a Tecnologia
Concluded
Outputs

Publications

Book
  1. Ledoux, J.-B.; Antunes, A.; Haguenauer, A.; Pratlong, M.; Costantini, F.; Abbiati, M.; Aurelle, D.. Molecular forensics into the sea: How molecular markers can help to struggle against poaching and illegal trade in precious corals?. 2016.
    10.1007/978-3-319-31305-4_45
  2. Agüero-Chapin, G.; Pérez-Machado, G.; Sánchez-Rodríguez, A.; Santos, M.M.; Antunes, A.. Alignment-free methods for the detection and specificity prediction of adenylation domains. 2016.
    10.1007/978-1-4939-3375-4_16
Book chapter
  1. Silva, Liliana; Antunes, Agostinho. "Omics and Remote Homology Integration to Decipher Protein Functionality". In Methods in Molecular Biology, 61-81. Springer US, 2023.
    10.1007/978-1-0716-2974-1_4
  2. Cañizares, DG; García, SdR; Herrera, F; Gallardo, EA; Antunes, A; Agüero-Chapin, G. "Big Data Supervised Pairwise Ortholog Detection in Yeasts". 2017.
    10.5772/intechopen.70479
  3. Moreira, C; Matos, A; Mendes, R; Antunes, A. "Plant Cyanotoxins: Molecular Methods and Current Applications". 2016.
    10.1007/978-94-007-6728-7_18-1
  4. Aguero-Chapin, G; Molina-Ruiz, R; Pérez-Machado, G; Vasconcelos, V; Rodríguez-Negrin, Z; Antunes, A. "TI2BioP — Topological Indices to BioPolymers. A Graphical– Numerical Approach for Bioinformatics". 2016.
    10.5772/61887
Conference abstract
  1. Moreira, C; Vasconcelos, V; Antunes, A. "Biogeography of Microcystins". 2012.
    10.1016/j.toxicon.2012.04.125
Conference paper
  1. Cristiana Moreira; Vitor Vasconcelos; Agostinho Antunes. "Cyanotoxins Dynamics on Portuguese Freshwater Ecosystems on Current Global Changes". 2022.
    10.3390/blsf2022014030
  2. Cristiana Moreira; Vítor Vasconcelos; Agostinho Antunes. "Toxic Cyanobacteria Impacts on a Eutrophic and Protected Natural Ecosystem (Vela Lagoon)". 2022.
    10.3390/blsf2022014007
  3. Agüero-Chapin, G; Molina Ruiz, R; Antunes, A. "TI2BioP: Topological Indices to BioPolymers". 2015.
    10.3390/mol2net-1-f011
  4. Agüero-Chapin, G; Galpert Cañizares, D; del Río García, S; Herrera, F; Ancede Gallardo, E; Antunes, A. "Pairwise Ortholog Detection in Related Yeast Species by Using Big Data Supervised Classifications". 2015.
    10.3390/mol2net-1-e002
  5. Agueero Chapin, G; Sanchez Rodriguez, A; Hidalgo Yanes, PI; Perez Castillo, Y; Molina Ruiz, R; Marchal, K; Vasconcelos, V; et al. "An alignment-free approach for eukaryotic ITS2 annotation and phylogenetic inference". 2013.
    10.1371/journal.pone.0026638
Journal article
  1. Yue Qiao; Jiajun Ma; Lei Huang; Guohui Gao; Yihe Zhao; Agostinho Antunes; Meitong Li. "Study on the Mechanism by Which Fe3+ Promotes Toluene Degradation by Rhodococcus sp. TG-1". Microorganisms (2025): https://doi.org/10.3390/microorganisms13020468.
    10.3390/microorganisms13020468
  2. Ricardo Alexandre Barroso; Tomás Rodrigues; Alexandre Campos; Daniela Almeida; Francisco A. Guardiola; Maria V. Turkina; Agostinho Antunes. "Proteomic Diversity of the Sea Anemone Actinia fragacea: Comparative Analysis of Nematocyst Venom, Mucus, and Tissue-Specific Profiles". Marine Drugs (2025): https://doi.org/10.3390/md23020079.
    10.3390/md23020079
  3. Ricardo Alexandre Barroso; Guillermin Agüero-Chapin; Rita Sousa; Yovani Marrero-Ponce; Agostinho Antunes. "Unlocking Antimicrobial Peptides: In Silico Proteolysis and Artificial Intelligence-Driven Discovery from Cnidarian Omics". Molecules (2025): https://doi.org/10.3390/molecules30030550.
    10.3390/molecules30030550
  4. Tomás Rodrigues; Francisco Antonio Guardiola; Daniela Almeida; Agostinho Antunes. "Aquatic Invertebrate Antimicrobial Peptides in the Fight Against Aquaculture Pathogens". Microorganisms (2025): https://doi.org/10.3390/microorganisms13010156.
    10.3390/microorganisms13010156
  5. Marco Simões; Cátia Costa; Maria da Luz Calado; Nuno Vasco-Rodrigues; Maria Jorge Campos; Sérgio Miguel Leandro; Agostinho Antunes. "Unveiling the UNESCO Biosphere Reserve of the Berlengas Archipelago in Portugal as a Hotspot of Fish Species Using eDNA Metabarcoding and the Collaboration of Fishing Crews". Journal of Marine Science and Engineering (2025): https://doi.org/10.3390/jmse13010060.
    10.3390/jmse13010060
  6. Zetian Luo; Jiajun Ma; Lei Huang; Dahui Li; Guohui Gao; Yihe Zhao; Agostinho Antunes; Meitong Li. "Biodegradation of Crude Oil and Aniline by Heavy Metal-Tolerant Strain Rhodococcus sp. DH-2". Microorganisms (2024): https://doi.org/10.3390/microorganisms12112293.
    10.3390/microorganisms12112293
  7. Marco Simões; Sónia Cotrim Marques; Cátia Costa; Maria da Luz Calado; Jorge Lobo-Arteaga; Cátia Bartilotti; Maria Jorge Campos; Sérgio Miguel Leandro; Agostinho Antunes. "The Advantages of Combining Morphological and Molecular Methods to Characterise Zooplankton Communities: A Case Study of the UNESCO Biosphere Reserve of the Berlengas Archipelago, Portugal". Oceans (2024): https://doi.org/10.3390/oceans5040046.
    10.3390/oceans5040046
  8. Daniela de Llano García; Yovani Marrero-Ponce; Guillermin Agüero-Chapin; Francesc J. Ferri; Agostinho Antunes; Felix Martinez-Rios; Hortensia Rodríguez. "Innovative Alignment-Based Method for Antiviral Peptide Prediction". Antibiotics (2024): https://doi.org/10.3390/antibiotics13080768.
    10.3390/antibiotics13080768
  9. Tomás Rodrigues; Daniela Almeida; Francisco A. Guardiola; Paulo A.V. Borges; Agostinho Antunes. "A comprehensive compilation of Iberian Medusozoan data: Diversity, ecology, and omics insights". Regional Studies in Marine Science (2024): https://doi.org/10.1016/j.rsma.2024.103462.
    10.1016/j.rsma.2024.103462
  10. Mohamed Emam; Ahmed Tarek; Mohamed Soudy; Agostinho Antunes; Mohamed El Hadidi; Mohamed Hamed. "Comparative evaluation of multiomics integration tools for the study of prediabetes: insights into the earliest stages of type 2 diabetes mellitus". Network Modeling Analysis in Health Informatics and Bioinformatics (2024): https://doi.org/10.1007/s13721-024-00442-9.
    10.1007/s13721-024-00442-9
  11. Ricardo Alexandre Barroso; Luana Ramos; Hugo Moreno; Agostinho Antunes. "Evolutionary Analysis of Cnidaria Small Cysteine-Rich Proteins (SCRiPs), an Enigmatic Neurotoxin Family from Stony Corals and Sea Anemones (Anthozoa: Hexacorallia)". Toxins (2024): https://doi.org/10.3390/toxins16020075.
    10.3390/toxins16020075
  12. Gaubert, Philippe; Djagoun, Chabi A.M.S.; Missoup, Alain Didier; Ales, Nazif; Amougou, Claude Vianney; Dipita, Alain Din; Djagoun, Joël; et al. "Vendors’ perceptions on the bushmeat trade dynamics across West and central Africa during the COVID-19 pandemic: Lessons learned on sanitary measures and awareness campaigns". Environmental Science & Policy 152 (2024): 103649. http://dx.doi.org/10.1016/j.envsci.2023.103649.
    10.1016/j.envsci.2023.103649
  13. Larivière, Delphine; Abueg, Linelle; Brajuka, Nadolina; Gallardo-Alba, Cristóbal; Grüning, Bjorn; Ko, Byung June; Ostrovsky, Alex; et al. "Scalable, accessible and reproducible reference genome assembly and evaluation in Galaxy". Nature Biotechnology (2024): http://dx.doi.org/10.1038/s41587-023-02100-3.
    10.1038/s41587-023-02100-3
  14. Horaud, Mathilde; Arizmendi-Meija, Rosana; Nebot-Colomer, Elisabet; López-Sendino, Paula; Antunes, Agostinho; Dellicour, Simon; Viard, Frédérique; et al. "Comparative population genetics of habitat-forming octocorals in two marine protected areas: eco-evolutionary and management implications". Conservation Genetics (2023): http://dx.doi.org/10.1007/s10592-023-01573-8.
    10.1007/s10592-023-01573-8
  15. Rasoarahona, Ryan; Wattanadilokchatkun, Pish; Panthum, Thitipong; Jaisamut, Kitipong; Lisachov, Artem; Thong, Thanyapat; Singchat, Worapong; et al. "MicrosatNavigator: exploring nonrandom distribution and lineage-specificity of microsatellite repeat motifs on vertebrate sex chromosomes across 186 whole genomes". Chromosome Research 31 4 (2023): http://dx.doi.org/10.1007/s10577-023-09738-4.
    10.1007/s10577-023-09738-4
  16. Chalermwong, Piangjai; Panthum, Thitipong; Wattanadilokcahtkun, Pish; Ariyaraphong, Nattakan; Thong, Thanyapat; Srikampa, Phanitada; Singchat, Worapong; et al. "Overcoming taxonomic challenges in DNA barcoding for improvement of identification and preservation of clariid catfish species". Genomics & Informatics 21 3 (2023): e39. http://dx.doi.org/10.5808/gi.23038.
    10.5808/gi.23038
  17. Panthum, Thitipong; Wattanadilokchatkun, Pish; Jaisamut, Kitipong; Singchat, Worapong; Ahmad, Syed Farhan; Muangmai, Narongrit; Duengkae, Prateep; et al. "In Silico Chromosome Mapping of the Male-Specific/Linked Loci in the Jade Perch (Scortum barcoo) Suggests Chromosome 19 as the Putative Y Sex Chromosome". Fishes 8 10 (2023): 482. http://dx.doi.org/10.3390/fishes8100482.
    10.3390/fishes8100482
  18. Ryan Rasoarahona; Pish Wattanadilokchatkun; Thitipong Panthum; Thanyapat Thong; Worapong Singchat; Syed Farhan Ahmad; Aingorn Chaiyes; et al. "Optimizing Microsatellite Marker Panels for Genetic Diversity and Population Genetic Studies: An Ant Colony Algorithm Approach with Polymorphic Information Content". Biology (2023): https://www.mdpi.com/2079-7737/12/10/1280.
    10.3390/biology12101280
  19. Diogo Ribeiro; Rui Borges; Ana Paula Rocha; Agostinho Antunes; Russell Schwartz. "Testing phylogenetic signal with categorical traits and tree uncertainty". Bioinformatics (2023): https://doi.org/10.1093/bioinformatics/btad433.
    10.1093/bioinformatics/btad433
  20. Theissinger, Kathrin; Fernandes, Carlos; Formenti, Giulio; Bista, Iliana; Berg, Paul R.; Bleidorn, Christoph; Bombarely, Aureliano; et al. "How genomics can help biodiversity conservation". Trends in Genetics 39 7 (2023): 545-559. http://dx.doi.org/10.1016/j.tig.2023.01.005.
    10.1016/j.tig.2023.01.005
  21. Guillermin Agüero-Chapin; Agostinho Antunes; Yovani Marrero-Ponce. "A 2022 Update on Computational Approaches to the Discovery and Design of Antimicrobial Peptides". Antibiotics (2023): https://doi.org/10.3390/antibiotics12061011.
    10.3390/antibiotics12061011
  22. Manuel J. Seixas; Rodrigo R. Domingues; Agostinho Antunes. "Decoding the Transcriptome of Sharks, Rays, and Chimaeras: Insights into Their Physiology, Morphology, Evolution, and Biomedical Applications". Fishes (2023): https://doi.org/10.3390/fishes8050271.
    10.3390/fishes8050271
  23. Liliana Silva; Tito Mendes; Luana Ramos; Guojie Zhang; Agostinho Antunes. "Parallel evolution of fish bi-modal breathing and expansion of olfactory receptor (OR) genes: toward a universal ORs nomenclature". Journal of Genetics and Genomics (2023): https://doi.org/10.1016/j.jgg.2023.03.006.
    10.1016/j.jgg.2023.03.006
  24. Bentley, Blair P.; Carrasco-Valenzuela, Tomás; Ramos, Elisa K. S.; Pawar, Harvinder; Souza Arantes, Larissa; Alexander, Alana; Banerjee, Shreya M.; et al. "Divergent sensory and immune gene evolution in sea turtles with contrasting demographic and life histories". Proceedings of the National Academy of Sciences 120 7 (2023): http://dx.doi.org/10.1073/pnas.2201076120.
    10.1073/pnas.2201076120
  25. Yasser B. Ruiz-Blanco; Guillermin Agüero-Chapin; Sandra Romero-Molina; Agostinho Antunes; Lia-Raluca Olari; Barbara Spellerberg; Jan Münch; Elsa Sanchez-Garcia. "ABP-Finder: A Tool to Identify Antibacterial Peptides and the Gram-Staining Type of Targeted Bacteria". Antibiotics (2022): https://doi.org/10.3390/antibiotics11121708.
    10.3390/antibiotics11121708
  26. Cristiana Moreira; Ana Matos; Aldo Barreiro; Cidália Gomes; Vitor Vasconcelos; Agostinho Antunes. "Statistical Inferences Applying Non-Parametric Data on Cyanobacterial Investigations: Contributions to Water Quality and New Trends under Global Changes on Portuguese Freshwater Ecosystems". Toxins (2022): https://doi.org/10.3390/toxins14090638.
    10.3390/toxins14090638
  27. Rodrigo R. Domingues; Vito Antonio Mastrochirico-Filho; Natalia J. Mendes; Diogo T. Hashimoto; Rui Coelho; Agostinho Antunes; Fausto Foresti; Fernando F. Mendonça. "Gene-associated markers as a genomic and transcriptomic resource for a highly migratory and apex predator shark (Isurus oxyrinchus)". Marine Biology (2022): https://doi.org/10.1007/s00227-022-04094-z.
    10.1007/s00227-022-04094-z
  28. Cristiana Moreira; Cidália Gomes; Vitor Vasconcelos; Agostinho Antunes; Moreira, Cristiana; Gomes, Cidália; Vasconcelos, Vitor; Antunes, Agostinho. "Risk assessment of cyanobacteria toxic metabolites on freshwater ecosystems applying molecular methods". Environmental Science and Pollution Research 30 1 (2022): 219-227. https://doi.org/10.1007/s11356-022-21814-6.
    10.1007/s11356-022-21814-6
  29. Guillermin Agüero-Chapin; Deborah Galpert-Cañizares; Dany Domínguez-Pérez; Yovani Marrero-Ponce; Gisselle Pérez-Machado; Marta Teijeira; Agostinho Antunes. "Emerging Computational Approaches for Antimicrobial Peptide Discovery". Antibiotics (2022): https://doi.org/10.3390/antibiotics11070936.
    10.3390/antibiotics11070936
  30. Jorge L. Ramirez; Jonas Lescroart; Henrique V. Figueiró; Juan Pablo Torres-Florez; Priscilla M. S. Villela; Luiz L. Coutinho; Patricia D. Freitas; et al. "Genomic Signatures of Divergent Ecological Strategies in a Recent Radiation of Neotropical Wild Cats". Molecular Biology and Evolution 39 6 (2022): https://doi.org/10.1093/molbev/msac117.
    10.1093/molbev/msac117
  31. Choo, Siew Woh; Chong, Ju Lian; Gaubert, Philippe; Hughes, Alice Catherine; O’Brien, Stephen; Chaber, Anne-Lise; Antunes, Agostinho; et al. "A collective statement in support of saving pangolins". Science of The Total Environment 824 (2022): 153666. http://dx.doi.org/10.1016/j.scitotenv.2022.153666.
    Open access • Published • 10.1016/j.scitotenv.2022.153666
  32. Bjoern M von Reumont; Gregor Anderluh; Agostinho Antunes; Naira Ayvazyan; Dimitris Beis; Figen Caliskan; Ana Crnkovic; et al. "Modern venomics—Current insights, novel methods, and future perspectives in biological and applied animal venom research". GigaScience (2022): https://doi.org/10.1093/gigascience/giac048.
    10.1093/gigascience/giac048
  33. Ramos, Luana; Antunes, Agostinho. "Decoding sex: Elucidating sex determination and how high-quality genome assemblies are untangling the evolutionary dynamics of sex chromosomes". Genomics 114 2 (2022): 110277. http://dx.doi.org/10.1016/j.ygeno.2022.110277.
    Open access • Published • 10.1016/j.ygeno.2022.110277
  34. Maylin Romero; Yovani Marrero-Ponce; Hortensia Rodríguez; Agüero-Chapin G; Agostinho Antunes; Longendri Aguilera-Mendoza; FELIX MARTINEZ-RIOS; Guillermin Agüero-Chapin. "A Novel Network Science and Similarity-Searching-Based Approach for Discovering Potential Tumor-Homing Peptides from Antimicrobials". Antibiotics (2022): https://www.mdpi.com/2079-6382/11/3/401.
    10.3390/antibiotics11030401
  35. Formenti, Giulio; Theissinger, Kathrin; Fernandes, Carlos; Bista, Iliana; Bombarely, Aureliano; Bleidorn, Christoph; Ciofi, Claudio; et al. "The era of reference genomes in conservation genomics". Trends in Ecology & Evolution 37 3 (2022): 197-202. http://dx.doi.org/10.1016/j.tree.2021.11.008.
    Published • 10.1016/j.tree.2021.11.008
  36. Cristiana Moreira; Vitor Vasconcelos; Agostinho Antunes. "Cyanobacterial Blooms: Current Knowledge and New Perspectives". Earth 3 1 (2022): 127-135. https://doi.org/10.3390/earth3010010.
    10.3390/earth3010010
  37. Ricardo Barroso; Alexandre Vieira-Pires; Agostinho Antunes; Isabel Fidalgo-Carvalho. "Susceptibility of Pets to SARS-CoV-2 Infection: Lessons from a Seroepidemiologic Survey of Cats and Dogs in Portugal". Microorganisms 10 2 (2022): 345-345. https://doi.org/10.3390/microorganisms10020345.
    10.3390/microorganisms10020345
  38. Yihe Zhao; Agostinho Antunes. "Biomedical Potential of the Neglected Molluscivorous and Vermivorous Conus Species". Marine Drugs (2022): https://doi.org/10.3390/md20020105.
    10.3390/md20020105
  39. dos Santos, CS; Mendes, T; Antunes, A. "The genes from the pseudoautosomal region 1 (PAR1) of the mammalian sex chromosomes: Synteny, phylogeny and selection". GENOMICS (2022):
    10.1016/j.ygeno.2022.110419
  40. Modica, Maria Vittoria; Ahmad, Rafi; Ainsworth, Stuart; Anderluh, Gregor; Antunes, Agostinho; Beis, Dimitris; Caliskan, Figen; et al. "Corrigendum to: The new COST Action European Venom Network (EUVEN)—synergy and future perspectives of modern venomics". GigaScience 10 12 (2021): http://dx.doi.org/10.1093/gigascience/giab102.
    Open access • Published • 10.1093/gigascience/giab102
  41. Ledoux, Jean-Baptiste; Ghanem, Raouia; Horaud, Mathilde; López-Sendino, Paula; Romero-Soriano, Valèria; Antunes, Agostinho; Bensoussan, Nathaniel; et al. "Gradients of genetic diversity and differentiation across the distribution range of a Mediterranean coral: Patterns, processes and conservation implications". Diversity and Distributions 27 11 (2021): 2104-2123. http://dx.doi.org/10.1111/ddi.13382.
    Open access • Published • 10.1111/ddi.13382
  42. Mohamed Emam; Mariam Oweda; Agostinho Antunes; Mohamed El-Hadidi. "Positive selection as a key player for SARS-CoV-2 pathogenicity: Insights into ORF1ab, S and E genes". Virus Research 302 (2021): 198472-198472. https://doi.org/10.1016/j.virusres.2021.198472.
    10.1016/j.virusres.2021.198472
  43. Marra, Nicholas J.; Stanhope, Michael J.; Jue, Nathaniel K.; Richards, Vincent P.; O'Brien, Stephen J.; Antunes, Agostinho; Shivji, Mahmood S.. "Commentary: Unbiasing Genome-Based Analyses of Selection: An Example Using Iconic Shark Species". Frontiers in Marine Science 8 (2021): http://dx.doi.org/10.3389/fmars.2021.696523.
    Open access • Published • 10.3389/fmars.2021.696523
  44. Ana Matos; Agostinho Antunes. "Symbiotic Associations in Ascidians: Relevance for Functional Innovation and Bioactive Potential". Marine Drugs 19 7 (2021): 370-370. https://doi.org/10.3390/md19070370.
    10.3390/md19070370
  45. Gazulla, Carlota R.; López-Sendino, Paula; Antunes, Agostinho; Aurelle, Didier; Montero-Serra, Ignasi; Dominici, Jean-Marie; Linares, Cristina; Garrabou, Joaquim; Ledoux, Jean-Baptiste. "Demo-Genetic Approach for the Conservation and Restoration of a Habitat-Forming Octocoral: The Case of Red Coral, Corallium rubrum, in the Réserve Naturelle de Scandola". Frontiers in Marine Science 8 (2021): http://dx.doi.org/10.3389/fmars.2021.633057.
    Open access • Published • 10.3389/fmars.2021.633057
  46. Cristiana Moreira; Alexandre Campos; José Carlos Martins; Vitor Vasconcelos; Agostinho Antunes. "Review on Cyanobacterial Studies in Portugal: Current Impacts and Research Needs". Applied Sciences (2021): https://doi.org/10.3390/app11104355.
    10.3390/app11104355
  47. Maria Vittoria Modica; Rafi Ahmad; Stuart Ainsworth; Gregor Anderluh; Agostinho Antunes; Dimitris Beis; Figen Caliskan; et al. "The new COST Action European Venom Network (EUVEN)—synergy and future perspectives of modern venomics". GigaScience (2021): https://doi.org/10.1093/gigascience/giab019.
    10.1093/gigascience/giab019
  48. Dany Domínguez-Perez; Daniela Almeida; Josef Wissing; André M. Machado; Lothar Jänsch; Agostinho Antunes; Luís Filipe Castro; et al. "Proteogenomic Characterization of the Cement and Adhesive Gland of the Pelagic Gooseneck Barnacle Lepas anatifera". International Journal of Molecular Sciences (2021): https://doi.org/10.3390/ijms22073370.
    10.3390/ijms22073370
  49. Cristiana Moreira; Ana Pimentel; Vitor Vasconcelos; Agostinho Antunes. "Preliminary evidence on the presence of cyanobacteria and cyanotoxins from culture enrichments followed by PCR analysis: new perspectives from Africa (Mali) and South Pacific (Fiji) countries". Environmental Science and Pollution Research (2021): https://doi.org/10.1007/s11356-021-12662-x.
    10.1007/s11356-021-12662-x
  50. Rodrigo Rodrigues Domingues; Ingrid Vasconcellos Bunholi; Danillo Pinhal; Agostinho Antunes; Fernando Fernandes Mendonça. "From molecule to conservation: DNA-based methods to overcome frontiers in the shark and ray fin trade". Conservation Genetics Resources (2021): https://doi.org/10.1007/s12686-021-01194-8.
    10.1007/s12686-021-01194-8
  51. Alex, Anoop; Pratheepa, Vijayakumari; Martins, Joana; Antunes, Agostinho. "Draft Genome Sequences of Six Vibrio Strains Isolated from the Atlantic Intertidal Marine Sponge Ophlitaspongia papilla". Microbiology Resource Announcements 10 1 (2021): http://dx.doi.org/10.1128/mra.01259-20.
    Open access • Published • 10.1128/mra.01259-20
  52. Aguero Chapin, G; Jimenez, Y; Sanchez Rodriguez, A; Molina Ruiz, R; Vivanco, O; Antunes, A. "DISTATIS: A Promising Framework to Integrate Distance Matrices in Molecular Phylogenetics". CURRENT TOPICS IN MEDICINAL CHEMISTRY (2021):
    10.2174/1568026621666210113164605
  53. Tito Mendes; Cidália Gomes; Nuno Monteiro; Agostinho Antunes; Jose Lopez. "Strong Sexual Selection Does Not Induce Population Differentiation in a Fish Species with High Dispersal Potential: The Curious Case of the Worm Pipefish Nerophis lumbriciformis (Teleostei: Syngnathidae)". Journal of Heredity 111 7 (2020): 585-592. https://doi.org/10.1093/jhered/esaa052.
    10.1093/jhered/esaa052
  54. Barnett, Ross; Westbury, Michael V.; Sandoval-Velasco, Marcela; Vieira, Filipe Garrett; Jeon, Sungwon; Zazula, Grant; Martin, Michael D.; et al. "Genomic Adaptations and Evolutionary History of the Extinct Scimitar-Toothed Cat, Homotherium latidens". Current Biology 30 24 (2020): 5018-5025.e5. http://dx.doi.org/10.1016/j.cub.2020.09.051.
    Open access • Published • 10.1016/j.cub.2020.09.051
  55. Daniela Almeida; Dany Domínguez-Pérez; Ana Matos; Guillermin Agüero-Chapin; Yuselis Castaño; Vitor Vasconcelos; Alexandre Campos; Agostinho Antunes. "Data Employed in the Construction of a Composite Protein Database for Proteogenomic Analyses of Cephalopods Salivary Apparatus". Data 5 4 (2020): 110-110. https://doi.org/10.3390/data5040110.
    10.3390/data5040110
  56. Ruiz-Blanco, Yasser B.; Ávila-Barrientos, Luis Pablo; Hernández-García, Enrique; Antunes, Agostinho; Agüero-Chapin, Guillermin; García-Hernández, Enrique; Ruiz Blanco, YB; et al. "Engineering protein fragments via evolutionary and protein–protein interaction algorithms: de novo design of peptide inhibitors for F O F 1 -ATP synthase". FEBS Letters 595 2 (2020): 183-194. http://dx.doi.org/10.1002/1873-3468.13988.
    Open access • Published • 10.1002/1873-3468.13988
  57. Domingues, Rodrigo R.; Mastrochirico-Filho, Vito Antonio; Mendes, Natalia J.; Hashimoto, Diogo T.; Coelho, Rui; da Cruz, Vanessa Paes; Antunes, Agostinho; Foresti, Fausto; Mendonça, Fernando F.. "Comparative eye and liver differentially expressed genes reveal monochromatic vision and cancer resistance in the shortfin mako shark (Isurus oxyrinchus)". Genomics 112 6 (2020): 4817-4826. http://dx.doi.org/10.1016/j.ygeno.2020.08.037.
    Open access • Published • 10.1016/j.ygeno.2020.08.037
  58. Daniela Almeida; Dany Domínguez-Pérez; Ana Matos; Guillermin Agüero-Chapin; Hugo Osório; Vitor Vasconcelos; Alexandre Campos; Agostinho Antunes. "Putative Antimicrobial Peptides of the Posterior Salivary Glands from the Cephalopod Octopus vulgaris Revealed by Exploring a Composite Protein Database". Antibiotics 9 11 (2020): 757-757. https://doi.org/10.3390/antibiotics9110757.
    10.3390/antibiotics9110757
  59. Choo, Siew Woh; Zhou, Jinfeng; Tian, Xuechen; Zhang, Siyuan; Qiang, Shen; O'Brien, Stephen J.; Tan, Ka Yun; et al. "Are pangolins scapegoats of the COVID-19 outbreak-CoV transmission and pathology evidence?". Conservation Letters 13 6 (2020): http://dx.doi.org/10.1111/conl.12754.
    Open access • Published • 10.1111/conl.12754
  60. Jean-Baptiste Ledoux; Fernando Cruz; Jèssica Gómez-Garrido; Regina Antoni; Julie Blanc; Daniel Gómez-Gras; Silvija Kipson; et al. "The Genome Sequence of the Octocoral Paramuricea clavata – A Key Resource To Study the Impact of Climate Change in the Mediterranean". G3: Genes|Genomes|Genetics 10 9 (2020): 2941-2952. https://doi.org/10.1534/g3.120.401371.
    10.1534/g3.120.401371
  61. Ana Matos; Dany Domínguez-Pérez; Daniela Almeida; Guillermin Agüero-Chapin; Alexandre Campos; Hugo Osório; Vitor Vasconcelos; Agostinho Antunes. "Shotgun Proteomics of Ascidians Tunic Gives New Insights on Host–Microbe Interactions by Revealing Diverse Antimicrobial Peptides". Marine Drugs (2020): https://doi.org/10.3390/md18070362.
    10.3390/md18070362
  62. Daniela Sánchez-Soto; Guillermin Agüero-Chapin; Vinicio Armijos-Jaramillo; Yunierkis Perez-Castillo; Eduardo Tejera; Agostinho Antunes; Aminael Sánchez-Rodríguez. "ShadowCaster: Compositional Methods under the Shadow of Phylogenetic Models to Detect Horizontal Gene Transfers in Prokaryotes". Genes (2020): https://doi.org/10.3390/genes11070756.
    10.3390/genes11070756
  63. de Manuel, Marc; Barnett, Ross; Sandoval-Velasco, Marcela; Yamaguchi, Nobuyuki; Garrett Vieira, Filipe; Zepeda Mendoza, M. Lisandra; Liu, Shiping; et al. "The evolutionary history of extinct and living lions". Proceedings of the National Academy of Sciences 117 20 (2020): 10927-10934. http://dx.doi.org/10.1073/pnas.1919423117.
    Open access • Published • 10.1073/pnas.1919423117
  64. Jean-Baptiste Ledoux; Silvia Frias-Vidal; Ignasi Montero-Serra; Agostinho Antunes; Clara Casado Bueno; Sergi Civit; Paula Lopez-Sendino; Cristina Linares; Joaquim Garrabou. "Assessing the impact of population decline on mating system in the overexploited Mediterranean red coral". Aquatic Conservation: Marine and Freshwater Ecosystems (2020): https://doi.org/10.1002/aqc.3327.
    10.1002/aqc.3327
  65. Dany Domínguez-Pérez; Daniela Almeida; Josef Wissing; André M. Machado; Lothar Jänsch; Luís Filipe Castro; Agostinho Antunes; et al. "The Quantitative Proteome of the Cement and Adhesive Gland of the Pedunculate Barnacle, Pollicipes pollicipes". International Journal of Molecular Sciences 21 7 (2020): 2524-2524. https://doi.org/10.3390/ijms21072524.
    10.3390/ijms21072524
  66. Cristiana Moreira; Cidália Gomes; Vitor Vasconcelos; Agostinho Antunes. "Cyanotoxins Occurrence in Portugal: A New Report on Their Recent Multiplication". Toxins 12 3 (2020): 154-154. https://doi.org/10.3390/toxins12030154.
    10.3390/toxins12030154
  67. Cidália Gomes; Tito Mendes; Rui Borges; Irene Guarneri; Ilaria Marchi; Lúcia Guilhermino; Vitor Vasconcelos; Nicoletta Riccardi; Agostinho Antunes. "The genetic diversity of two invasive sympatric bivalves (Corbicula fluminea and Dreissena polymorpha) from Lakes Garda and Maggiore, Northern Italy". Journal of Great Lakes Research 46 1 (2020): 225-229. https://doi.org/10.1016/j.jglr.2019.11.006.
    10.1016/j.jglr.2019.11.006
  68. Rodrigues, T; Dominguez Perez, D; Almeida, D; Matos, A; Antunes, A. "Medusozoans reported in Portugal and its ecological and economical relevance". REGIONAL STUDIES IN MARINE SCIENCE (2020):
    10.1016/j.rsma.2020.101230
  69. Silva, L; Mendes, T; Antunes, A. "Acquisition of social behavior in mammalian lineages is related with duplication events of FPR genes". GENOMICS (2020):
    10.1016/j.ygeno.2020.03.015
  70. Campos, J; Moreira, C; Costa Dias, S; Ferreira, E; Matos, A; Vasconcelos, V; Antunes, A. "Polymerase chain reaction as a promising tool for DNA-based diet studies of crustaceans". REGIONAL STUDIES IN MARINE SCIENCE (2020):
    10.1016/j.rsma.2020.101340
  71. Frazao, B; Froufe, E; Fernandes, A; Barreiro, A; Vasconcelos, V; Antunes, A. "Genetic records of intertidal sea anemones from Portugal". REGIONAL STUDIES IN MARINE SCIENCE (2020):
    10.1016/j.rsma.2020.101067
  72. Machado, JP; Antunes, A. "The genomic context of retrocopies increases their chance of functional relevancy in mammals". GENOMICS (2020):
    10.1016/j.ygeno.2020.01.013
  73. Mendes, T; Silva, L; Almeida, D; Antunes, A. "Neofunctionalization of the UCP1 mediated the non-shivering thermogenesis in the evolution of small-sized placental mammals". GENOMICS (2020):
    10.1016/j.ygeno.2020.01.023
  74. Emam, M; Machado, JP; Antunes, A. "Evolutionary genomics of mammalian lung cancer genes reveals signatures of positive selection in APC, RB1 and TP53". GENOMICS (2020):
    10.1016/j.ygeno.2020.08.020
  75. Guillermin Agüero-Chapin; Deborah Galpert; Reinaldo Molina-Ruiz; Evys Ancede-Gallardo; Gisselle Pérez-Machado; Gustavo A. De la Riva; Agostinho Antunes. "Graph Theory-Based Sequence Descriptors as Remote Homology Predictors". Biomolecules 10 1 (2019): 26-26. https://doi.org/10.3390/biom10010026.
    10.3390/biom10010026
  76. Emanuel Maldonado; Agostinho Antunes. "LMAP_S: Lightweight Multigene Alignment and Phylogeny eStimation". BMC Bioinformatics (2019): https://doi.org/10.1186/s12859-019-3292-5.
    10.1186/s12859-019-3292-5
  77. Anoop Alex; Agostino Antunes. "Comparative Genomics Reveals Metabolic Specificity of Endozoicomonas Isolated from a Marine Sponge and the Genomic Repertoire for Host-Bacteria Symbioses". Microorganisms (2019): https://doi.org/10.3390/microorganisms7120635.
    10.3390/microorganisms7120635
  78. Antonio Bode; Fátima Abrantes; Agostinho Antunes; Alvise Benetazzo; Chen-Tung Arthur Chen; Emmanuel Devred; Martin Gade; et al. "MDPI Oceans: A New Publication Channel for Open Access Science Focused on the Ocean". Oceans (2019): https://doi.org/10.3390/oceans1010001.
    10.3390/oceans1010001
  79. Imran Khan; Emanuel Maldonado; Liliana Silva; Daniela Almeida; Warren E. Johnson; Stephen J. O’Brien; Guojie Zhang; et al. "The Vertebrate TLR Supergene Family Evolved Dynamically by Gene Gain/Loss and Positive Selection Revealing a Host–Pathogen Arms Race in Birds". Diversity (2019): https://doi.org/10.3390/d11080131.
    10.3390/d11080131
  80. Rui Borges; João Fonseca; Cidália Gomes; Warren E Johnson; Stephen J O’Brien; Guojie Zhang; M Thomas P Gilbert; et al. "Avian Binocularity and Adaptation to Nocturnal Environments: Genomic Insights from a Highly Derived Visual Phenotype". Genome Biology and Evolution 11 8 (2019): 2244-2255. https://doi.org/10.1093/gbe/evz111.
    10.1093/gbe/evz111
  81. Jorge L. B. Neves; Julita S. Imperial; David Morgenstern; Beatrix Ueberheide; Joanna Gajewiak; Agostinho Antunes; Samuel D. Robinson; et al. "Characterization of the First Conotoxin from Conus ateralbus, a Vermivorous Cone Snail from the Cabo Verde Archipelago". Marine Drugs (2019): https://doi.org/10.3390/md17080432.
    10.3390/md17080432
  82. Rui Borges; João Paulo Machado; Cidália Gomes; Ana Paula Rocha; Agostinho Antunes; John Hancock. "Measuring phylogenetic signal between categorical traits and phylogenies". Bioinformatics 35 11 (2019): 1862-1869. https://doi.org/10.1093/bioinformatics/bty800.
    10.1093/bioinformatics/bty800
  83. Marra, NJ; Stanhope, MJ; Jue, NK; Wang, MH; Sun, Q; Bitar, PP; Richards, VP; et al. "White shark genome reveals ancient elasmobranch adaptations associated with wound healing and the maintenance of genome stability". PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2019):
    10.1073/pnas.1819778116
  84. Alexi, A; Antunes, A. "Whole-Genome Comparisons Among the Genus Shewanella Reveal the Enrichment of Genes Encoding Ankyrin-Repeats Containing Proteins in Sponge-Associated Bacteria". FRONTIERS IN MICROBIOLOGY (2019):
    10.3389/fmicb.2019.00005
  85. Dominguez Perez, D; Durban, J; Aguero Chapin, G; Torres Lopez, JT; Molina Ruiz, R; Almeida, D; Calvete, JJ; Vasconcelos, V; Antunes, A. "The Harderian gland transcriptomes of Caraiba andreae, Cubophis cantherigerus and Tretanorhinus variabilis, three colubroid snakes from Cuba". GENOMICS (2019):
    10.1016/j.ygeno.2018.11.026
  86. Jean-Baptiste Ledoux; Maša Frleta-Valic; Silvija Kipson; Agostinho Antunes; Emma Cebrian; Cristina Linares; Pablo Sánchez; Raphael Leblois; Joaquim Garrabou. "Postglacial range expansion shaped the spatial genetic structure in a marine habitat-forming species: Implications for conservation plans in the Eastern Adriatic Sea". Journal of Biogeography (2018): https://doi.org/10.1111/jbi.13461.
    10.1111/jbi.13461
  87. Filipe Silva; Yu Huang; Vítor Yang; Xidong Mu; Qiong Shi; Agostinho Antunes. "Transcriptomic Characterization of the South American Freshwater Stingray Potamotrygon motoro Venom Apparatus". Toxins (2018): https://doi.org/10.3390/toxins10120544.
    10.3390/toxins10120544
  88. Anoop Alex; Zhi Ruan; Agostinho Antunes. "Genus-wide comparison of Pseudovibrio bacterial genomes reveal diverse adaptations to different marine invertebrate hosts". PLOS ONE 13 5 (2018): e0194368-e0194368. https://doi.org/10.1371/journal.pone.0194368.
    10.1371/journal.pone.0194368
  89. Ledoux, J.-B.; Antunes, A.. "Beyond the beaten path: improving natural products bioprospecting using an eco-evolutionary framework–the case of the octocorals". Critical Reviews in Biotechnology 38 2 (2018): 184-198. http://www.scopus.com/inward/record.url?eid=2-s2.0-85021287174&partnerID=MN8TOARS.
    10.1080/07388551.2017.1331335
  90. Dominguez Perez, D; Campos, A; Rodriguez, AA; Turkina, MV; Ribeiro, T; Osorio, H; Vasconcelos, V; Antunes, A. "Proteomic Analyses of the Unexplored Sea Anemone Bunodactis verrucosa". MARINE DRUGS (2018):
    10.3390/md16020042
  91. Borges, R; Johnson, WE; O'Brien, SJ; Gomes, C; Heesy, CP; Antunes, A. "Adaptive genomic evolution of opsins reveals that early mammals flourished in nocturnal environments". BMC GENOMICS (2018):
    10.1186/s12864-017-4417-8
  92. Humisto, A; Jokela, J; Liu, LW; Wahlsten, M; Wang, H; Permi, P; Machado, JP; et al. "The Swinholide Biosynthesis Gene Cluster from a Terrestrial Cyanobacterium, Nostoc sp Strain UHCC 0450". APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2018):
    10.1128/aem.02321-17
  93. Grigorev, K; Kliver, S; Dobrynin, P; Komissarov, A; Wolfsberger, W; Krasheninnikova, K; Afanador Hernandez, YM; et al. "Innovative assembly strategy contributes to understanding the evolution and conservation genetics of the endangered Solenodon paradoxus from the island of Hispaniola". GIGASCIENCE (2018):
    10.1093/gigascience/giy025
  94. Galpert, D; Fernandez, A; Herrera, F; Antunes, A; Molina Ruiz, R; Aguero Chapin, G; Agüero-Chapin, G; Galpert Cañizares, D; Fernández, A. "Surveying alignment-free features for Ortholog detection in related yeast proteomes by using supervised big data classifiers". BMC BIOINFORMATICS (2018):
    10.1186/s12859-018-2148-8
  95. Gaubert, P; Antunes, A; Meng, H; Miao, L; Peigne, S; Justy, F; Njiokou, F; et al. "The Complete Phylogeny of Pangolins: Scaling Up Resources for the Molecular Tracing of the Most Trafficked Mammals on Earth". JOURNAL OF HEREDITY (2018):
    10.1093/jhered/esx097
  96. Voolstra, C.R.; Adamski, M.; Agrawal, S.; Antunes, A.; Aranda, M.; Baxevanis, A.; Blaxter, M.; et al. "Advancing genomics through the Global Invertebrate Genomics Alliance (GIGA)". Invertebrate Systematics 31 1 (2017): 1-7. http://www.scopus.com/inward/record.url?eid=2-s2.0-85015749338&partnerID=MN8TOARS.
    10.1071/is16059
  97. Voolstra, C.R.; Adamski, M.; Agrawal, S.; Antunes, A.; Aranda, M.; Baxevanis, A.; Blaxter, M.; et al. "Corrigendum to: Advancing genomics through the Global Invertebrate Genomics Alliance (GIGA) (Invertebrate Systematics (2017) 31: 1 (1-7) DOI: 10.1071/IS16059)". Invertebrate Systematics 31 2 (2017): http://www.scopus.com/inward/record.url?eid=2-s2.0-85018169079&partnerID=MN8TOARS.
    10.1071/is16059_co
  98. Monteiro, N.M.; Carneiro, D.; Antunes, A.; Queiroz, N.; Vieira, M.N.; Jones, A.G.. "The lek mating system of the worm pipefish (Nerophis lumbriciformis): a molecular maternity analysis and test of the phenotype-linked fertility hypothesis". Molecular Ecology 26 5 (2017): 1371-1385. http://www.scopus.com/inward/record.url?eid=2-s2.0-85007379448&partnerID=MN8TOARS.
    10.1111/mec.13931
  99. Monteiro, N.; Cunha, M.; Ferreira, L.; Vieira, N.; Antunes, A.; Lyons, D.; Jones, A.G.. "Parabolic variation in sexual selection intensity across the range of a cold-water pipefish: implications for susceptibility to climate change". Global Change Biology 23 9 (2017): 3600-3609. http://www.scopus.com/inward/record.url?eid=2-s2.0-85012049330&partnerID=MN8TOARS.
    10.1111/gcb.13630
  100. Escalona, T.; Weadick, C.J.; Antunes, A.. "Adaptive Patterns of Mitogenome Evolution Are Associated with the Loss of Shell Scutes in Turtles". Molecular Biology and Evolution 34 10 (2017): 2522-2536. http://www.scopus.com/inward/record.url?eid=2-s2.0-85030702370&partnerID=MN8TOARS.
    10.1093/molbev/msx167
  101. Silva, L.; Antunes, A.. "Vomeronasal Receptors in Vertebrates and the Evolution of Pheromone Detection". Annual Review of Animal Biosciences 5 (2017): 353-370. http://www.scopus.com/inward/record.url?eid=2-s2.0-85013465949&partnerID=MN8TOARS.
    10.1146/annurev-animal-022516-022801
  102. Domínguez-Pérez, D.; Rodríguez, A.A.; Osorio, H.; Azevedo, J.; Castañeda, O.; Vasconcelos, V.; Antunes, A.. "Microcystin-lr detected in a low molecular weight fraction from a crude extract of Zoanthus sociatus". Toxins 9 3 (2017): http://www.scopus.com/inward/record.url?eid=2-s2.0-85016146271&partnerID=MN8TOARS.
    10.3390/toxins9030089
  103. Frazão, B.; Campos, A.; Osório, H.; Thomas, B.; Leandro, S.; Teixeira, A.; Vasconcelos, V.; Antunes, A.. "Analysis of Pelagia noctiluca proteome Reveals a Red Fluorescent Protein, a Zinc Metalloproteinase and a Peroxiredoxin". Protein Journal 36 2 (2017): 77-97. http://www.scopus.com/inward/record.url?eid=2-s2.0-85014261847&partnerID=MN8TOARS.
    10.1007/s10930-017-9695-0
  104. Ruiz-Blanco, Y.B.; Agüero-Chapin, G.; García-Hernández, E.; Álvarez, O.; Antunes, A.; Green, J.. "Exploring general-purpose protein features for distinguishing enzymes and non-enzymes within the twilight zone". BMC Bioinformatics 18 1 (2017): http://www.scopus.com/inward/record.url?eid=2-s2.0-85025066559&partnerID=MN8TOARS.
    10.1186/s12859-017-1758-x
  105. Moreira, C.; Mendes, R.; Azevedo, J.; Vasconcelos, V.; Antunes, A.. "First occurrence of cylindrospermopsin in Portugal: a contribution to its continuous global dispersal". Toxicon 130 (2017): 87-90. http://www.scopus.com/inward/record.url?eid=2-s2.0-85014495878&partnerID=MN8TOARS.
    10.1016/j.toxicon.2017.02.024
  106. Figueiro, HV; Li, G; Trindade, FJ; Assis, J; Pais, F; Fernandes, G; Santos, SHD; et al. "Genome-wide signatures of complex introgression and adaptive evolution in the big cats". SCIENCE ADVANCES (2017):
    10.1126/sciadv.1700299
  107. Regueiras, A; Alex, A; Pereira, S; Costa, MS; Antunes, A; Vasconcelos, V. "Cyanobacterial diversity in the marine sponge Hymeniacidon perlevis from a temperate region (Portuguese coast, Northeast Atlantic)". AQUATIC MICROBIAL ECOLOGY (2017):
    10.3354/ame01830
  108. Gaubert, P.; Njiokou, F.; Ngua, G.; Afiademanyo, K.; Dufour, S.; Malekani, J.; Bi, S.G.; et al. "Phylogeography of the heavily poached African common pangolin (Pholidota, Manis tricuspis) reveals six cryptic lineages as traceable signatures of Pleistocene diversification". Molecular Ecology 25 23 (2016): 5975-5993. http://www.scopus.com/inward/record.url?eid=2-s2.0-84998772579&partnerID=MN8TOARS.
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  109. Gomes, C.; Sousa, R.; Mendes, T.; Borges, R.; Vilares, P.; Vasconcelos, V.; Guilhermino, L.; Antunes, A.. "Low genetic diversity and high invasion success of Corbicula fluminea (Bivalvia, Corbiculidae) (Müller, 1774) in Portugal". PLoS ONE 11 7 (2016): http://www.scopus.com/inward/record.url?eid=2-s2.0-84978827296&partnerID=MN8TOARS.
    10.1371/journal.pone.0158108
  110. Machado, J.P.; Philip, S.; Maldonado, E.; ÖBrien, S.J.; Johnson, W.E.; Antunes, A.. "Positive selection linked with generation of novel mammalian dentition patterns". Genome Biology and Evolution 8 9 (2016): 2748-2759. http://www.scopus.com/inward/record.url?eid=2-s2.0-84995475171&partnerID=MN8TOARS.
    10.1093/gbe/evw200
  111. Almeida, D.; Maldonado, E.; Khan, I.; Silva, L.; Gilbert, M.T.P.; Zhang, G.; Jarvis, E.D.; et al. "Whole-genome identification, phylogeny, and evolution of the cytochrome P450 family 2 (CYP2) subfamilies in birds". Genome Biology and Evolution 8 4 (2016): 1115-1131. http://www.scopus.com/inward/record.url?eid=2-s2.0-85015355323&partnerID=MN8TOARS.
    10.1093/gbe/evw041
  112. Choo, S.W.; Rayko, M.; Tan, T.K.; Hari, R.; Komissarov, A.; Wee, W.Y.; Yurchenko, A.A.; et al. "Pangolin genomes and the evolution of mammalian scales and immunity". Genome Research 26 10 (2016): 1312-1322. http://www.scopus.com/inward/record.url?eid=2-s2.0-84989954912&partnerID=MN8TOARS.
    10.1101/gr.203521.115
  113. Agüero-Chapin, G.; Pérez-Machado, G.; Mull, J.C.; Ancede-Gallardo, E.; Antunes, A.; De La Riva De La Riva, G.A.. "How the protein architecture of rnases iii influences their substrate specificity?". Current Pharmaceutical Design 22 33 (2016): 5065-5071. http://www.scopus.com/inward/record.url?eid=2-s2.0-84995920246&partnerID=MN8TOARS.
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  114. Moore, A.E.; Cotterill, F.P.D.; Winterbach, C.W.; Winterbach, H.E.K.; Antunes, A.; O'Brien, S.J.. "Genetic Evidence for Contrasting Wetland and Savannah Habitat Specializations in Different Populations of Lions (Panthera leo)". Journal of Heredity 107 2 (2016): 101-103. http://www.scopus.com/inward/record.url?eid=2-s2.0-84961176863&partnerID=MN8TOARS.
    10.1093/jhered/esv097
  115. Mohamed Yusoff, A.; Tan, T.K.; Hari, R.; Koepfli, K.-P.; Wee, W.Y.; Antunes, A.; Sitam, F.T.; et al. "De novo sequencing, assembly and analysis of eight different transcriptomes from the Malayan pangolin". Scientific Reports 6 (2016): http://www.scopus.com/inward/record.url?eid=2-s2.0-84987623244&partnerID=MN8TOARS.
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  116. Machado, J.P.; Johnson, W.E.; Gilbert, M.T.P.; Zhang, G.; Jarvis, E.D.; O'Brien, S.J.; Antunes, A.. "Bone-associated gene evolution and the origin of flight in birds". BMC Genomics 17 1 (2016): 1-15. http://www.scopus.com/inward/record.url?eid=2-s2.0-84971280426&partnerID=MN8TOARS.
    10.1186/s12864-016-2681-7
  117. Moreira, C.; Vasconcelos, V.; Antunes, A.. "Genetic characterization of Microcystis aeruginosa isolates from Portuguese freshwater systems". World Journal of Microbiology and Biotechnology 32 7 (2016): http://www.scopus.com/inward/record.url?eid=2-s2.0-84975783176&partnerID=MN8TOARS.
    10.1007/s11274-016-2063-y
  118. Maldonado, E.; Almeida, D.; Escalona, T.; Khan, I.; Vasconcelos, V.; Antunes, A.. "LMAP: Lightweight Multigene Analyses in PAML". BMC Bioinformatics 17 1 (2016): http://www.scopus.com/inward/record.url?eid=2-s2.0-84985037160&partnerID=MN8TOARS.
    10.1186/s12859-016-1204-5
  119. O'Brien, S.J.; Koepfli, K.P.; Eizirik, E.; Johnson, W.; Driscoll, C.; Antunes, A.; Schmidt-Kuntzel, A.; Marker, L.; Dobrynin, P.. "Response to Comment by Faurby, Werdelin and Svenning". Genome Biology 17 1 (2016): http://www.scopus.com/inward/record.url?eid=2-s2.0-84965056890&partnerID=MN8TOARS.
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  120. Frazão, B.; Antunes, A.. "Jellyfish bioactive compounds: Methods for wet-lab work". Marine Drugs 14 4 (2016): http://www.scopus.com/inward/record.url?eid=2-s2.0-84964339362&partnerID=MN8TOARS.
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  121. Gaubert, P.; Njiokou, F.; Olayemi, A.; Pagani, P.; Dufour, S.; Danquah, E.; Nutsuakor, M.E.K.; et al. "Bushmeat genetics: Setting up a reference framework for the DNA typing of African forest bushmeat". Molecular Ecology Resources 15 3 (2015): 633-651. http://www.scopus.com/inward/record.url?eid=2-s2.0-84926413940&partnerID=MN8TOARS.
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  122. Almeida, D.; Maldonado, E.; Vasconcelos, V.; Antunes, A.. "Adaptation of the mitochondrial genome in cephalopods: Enhancing proton translocation channels and the subunit interactions". PLoS ONE 10 8 (2015): http://www.scopus.com/inward/record.url?eid=2-s2.0-84942645674&partnerID=MN8TOARS.
    10.1371/journal.pone.0135405
  123. Alex, A.; Antunes, A.. "Whole genome sequencing of the symbiont pseudovibrio sp. from the intertidal marine sponge polymastia penicillus revealed a gene repertoire for host-switching permissive lifestyle". Genome Biology and Evolution 7 11 (2015): 3022-3032. http://www.scopus.com/inward/record.url?eid=2-s2.0-84957060331&partnerID=MN8TOARS.
    10.1093/gbe/evv199
  124. Borges, R.; Khan, I.; Johnson, W.E.; Gilbert, M.T.P.; Zhang, G.; Jarvis, E.D.; O'Brien, S.J.; Antunes, A.. "Gene loss, adaptive evolution and the co-evolution of plumage coloration genes with opsins in birds". BMC Genomics 16 1 (2015): http://www.scopus.com/inward/record.url?eid=2-s2.0-84943408511&partnerID=MN8TOARS.
    10.1186/s12864-015-1924-3
  125. Arizmendi-Mejía, R.; Linares, C.; Garrabou, J.; Antunes, A.; Ballesteros, E.; Cebrian, E.; Díaz, D.; Ledoux, J.-B.. "Combining genetic and demographic data for the conservation of a Mediterranean marine habitat-forming species". PLoS ONE 10 3 (2015): http://www.scopus.com/inward/record.url?eid=2-s2.0-84924943566&partnerID=MN8TOARS.
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  126. Galpert, D.; Del Río, S.; Herrera, F.; Ancede-Gallardo, E.; Antunes, A.; Agüero-Chapin, G.. "An Effective Big Data Supervised Imbalanced Classification Approach for Ortholog Detection in Related Yeast Species". BioMed Research International 2015 (2015): http://www.scopus.com/inward/record.url?eid=2-s2.0-84947460740&partnerID=MN8TOARS.
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  127. Neves, J.L.B.; Lin, Z.; Imperial, J.S.; Antunes, A.; Vasconcelos, V.; Olivera, B.M.; Schmidt, E.W.. "Small Molecules in the Cone Snail Arsenal". Organic Letters 17 20 (2015): 4933-4935. http://www.scopus.com/inward/record.url?eid=2-s2.0-84944931210&partnerID=MN8TOARS.
    10.1021/acs.orglett.5b02389
  128. Khan, I.; Yang, Z.; Maldonado, E.; Li, C.; Zhang, G.; Gilbert, M.T.P.; Jarvis, E.D.; et al. "Olfactory receptor subgenomes linked with broad ecological adaptations in sauropsida". Molecular Biology and Evolution 32 11 (2015): 2832-2843. http://www.scopus.com/inward/record.url?eid=2-s2.0-84943404409&partnerID=MN8TOARS.
    10.1093/molbev/msv155
  129. Gaubert, P.; Antunes, A.. "What's behind these scales? Comments to "The complete mitochondrial genome of Temminck's ground pangolin (Smutsia temminckii; Smuts, 1832) and phylogenetic position of the Pholidota (Weber, 1904)"". Gene 563 1 (2015): 106-108. http://www.scopus.com/inward/record.url?eid=2-s2.0-84926418004&partnerID=MN8TOARS.
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  130. Dobrynin, P.; Liu, S.; Tamazian, G.; Xiong, Z.; Yurchenko, A.A.; Krasheninnikova, K.; Kliver, S.; et al. "Genomic legacy of the African cheetah, Acinonyx jubatus". Genome Biology 16 1 (2015): http://www.scopus.com/inward/record.url?eid=2-s2.0-84949776650&partnerID=MN8TOARS.
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  131. Alex, A.; Antunes, A.. "Pyrosequencing characterization of the microbiota from Atlantic intertidal marine sponges reveals high microbial diversity and the lack of co-occurrence patterns". PLoS ONE 10 5 (2015): http://www.scopus.com/inward/record.url?eid=2-s2.0-84930663907&partnerID=MN8TOARS.
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  132. Arizmendi-Mejía, R.; Ledoux, J.-B.; Civit, S.; Antunes, A.; Thanopoulou, Z.; Garrabou, J.; Linares, C.. "Demographic responses to warming: reproductive maturity and sex influence vulnerability in an octocoral". Coral Reefs 34 4 (2015): 1207-1216. http://www.scopus.com/inward/record.url?eid=2-s2.0-84947125568&partnerID=MN8TOARS.
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  133. Diaz-Garcia, C.M.; Antunes, A.; Agüero-Chapín, G.; Vasconcelos, V.. "Biological toxins and medicinal chemistry: Research and therapeutic tools". Current Topics in Medicinal Chemistry 15 7 (2015): http://www.scopus.com/inward/record.url?eid=2-s2.0-84930980401&partnerID=MN8TOARS.
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  134. Koepfli, KP; Paten, B; O'Brien, SJ; Genome 10K Community of Scientists,. "The Genome 10K Project: A Way Forward". ANNUAL REVIEW OF ANIMAL BIOSCIENCES, VOL 3 (2015):
    10.1146/annurev-animal-090414-014900
  135. Moreira, C.; Spillane, C.; Fathalli, A.; Vasconcelos, V.; Antunes, A.. "African origin and europe-mediated global dispersal of the cyanobacterium Microcystis aeruginosa". Current microbiology 69 5 (2014): 628-633. http://www.scopus.com/inward/record.url?eid=2-s2.0-85027952872&partnerID=MN8TOARS.
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  136. Correction Zhang, G.; Li, C.; Li, Q.; Li, B.; Larkin, D.M.; Lee, C.; Storz, J.F.; et al. "Comparative genomics reveals insights into avian genome evolution and adaptation". Science 346 6215 (2014): 1311-1320. http://www.scopus.com/inward/record.url?eid=2-s2.0-84917678595&partnerID=MN8TOARS.
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  137. Pineda, S.S.; Sollod, B.L.; Wilson, D.; Darling, A.; Sunagar, K.; Undheim, E.A.B.; Kely, L.; et al. "Diversification of a single ancestral gene into a successful toxin superfamily in highly venomous Australian funnel-web spiders". BMC Genomics 15 1 (2014): http://www.scopus.com/inward/record.url?eid=2-s2.0-84898601875&partnerID=MN8TOARS.
    10.1186/1471-2164-15-177
  138. Khan, I.; Maldonado, E.; Vasconcelos, V.; O'Brien, S.J.; Johnson, W.E.; Antunes, A.. "Mammalian keratin associated proteins (KRTAPs) subgenomes: Disentangling hair diversity and adaptation to terrestrial and aquatic environments". BMC Genomics 15 1 (2014): http://www.scopus.com/inward/record.url?eid=2-s2.0-84907236677&partnerID=MN8TOARS.
    10.1186/1471-2164-15-779
  139. Luo, S.-J.; Zhang, Y.; Johnson, W.E.; Miao, L.; Martelli, P.; Antunes, A.; Smith, J.L.D.; O'Brien, S.J.. "Sympatric Asian felid phylogeography reveals a major Indochinese-Sundaic divergence". Molecular Ecology 23 8 (2014): 2072-2092. http://www.scopus.com/inward/record.url?eid=2-s2.0-84898421837&partnerID=MN8TOARS.
    10.1111/mec.12716
  140. Monteiro, N.M.; Silva, R.M.; Cunha, M.; Antunes, A.; Jones, A.G.; Vieira, M.N.. "Validating the use of colouration patterns for individual recognition in the worm pipefish using a novel set of microsatellite markers". Molecular Ecology Resources 14 1 (2014): 150-156. http://www.scopus.com/inward/record.url?eid=2-s2.0-84890146836&partnerID=MN8TOARS.
    10.1111/1755-0998.12151
  141. Tamazian, G.; Simonov, S.; Dobrynin, P.; Makunin, A.; Logachev, A.; Komissarov, A.; Shevchenko, A.; et al. "Annotated features of domestic cat - Felis catus genome". GigaScience 3 1 (2014): http://www.scopus.com/inward/record.url?eid=2-s2.0-84939261538&partnerID=MN8TOARS.
    10.1186/2047-217x-3-13
  142. Maldonado, E.; Sunagar, K.; Almeida, D.; Vasconcelos, V.; Antunes, A.. "IMPACT_S: Integrated Multiprogram Platform to Analyze and Combine Tests of Selection". PLoS ONE 9 10 (2014): http://www.scopus.com/inward/record.url?eid=2-s2.0-84908193619&partnerID=MN8TOARS.
    10.1371/journal.pone.0096243
  143. Sunagar, K.; Undheim, E.A.B.; Scheib, H.; Gren, E.C.K.; Cochran, C.; Person, C.E.; Koludarov, I.; et al. "Intraspecific venom variation in the medically significant Southern Pacific Rattlesnake (Crotalus oreganus helleri): Biodiscovery, clinical and evolutionary implications". Journal of Proteomics 99 (2014): 68-83. http://www.scopus.com/inward/record.url?eid=2-s2.0-84893786238&partnerID=MN8TOARS.
    10.1016/j.jprot.2014.01.013
  144. Dutertre, S.; Jin, A.-H.; Vetter, I.; Hamilton, B.; Sunagar, K.; Lavergne, V.; Dutertre, V.; et al. "Evolution of separate predation-and defence-evoked venoms in carnivorous cone snails". Nature Communications 5 (2014): http://www.scopus.com/inward/record.url?eid=2-s2.0-84919783753&partnerID=MN8TOARS.
    10.1038/ncomms4521
  145. Pereira, J.; Johnson, W.E.; O'Brien, S.J.; Jarvis, E.D.; Zhang, G.; Gilbert, M.T.P.; Vasconcelos, V.; Antunes, A.. "Evolutionary genomics and adaptive evolution of the hedgehog gene family (Shh, Ihh and Dhh) in vertebrates". PLoS ONE 9 12 (2014): http://www.scopus.com/inward/record.url?eid=2-s2.0-84920130334&partnerID=MN8TOARS.
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  146. Machado, J.P.; Vasconcelos, V.; Antunes, A.. "Adaptive functional divergence of the warm temperature acclimation-related protein (wap65) in fishes and the ortholog hemopexin (hpx) in mammals". Journal of Heredity 105 2 (2014): 237-252. http://www.scopus.com/inward/record.url?eid=2-s2.0-84894238341&partnerID=MN8TOARS.
    10.1093/jhered/est087
  147. Moreira, C.; Fathalli, A.; Vasconcelos, V.; Antunes, A.. "Phylogeny and biogeography of the invasive cyanobacterium Cylindrospermopsis raciborskii". Archives of Microbiology 197 1 (2014): 47-52. http://www.scopus.com/inward/record.url?eid=2-s2.0-84922071215&partnerID=MN8TOARS.
    10.1007/s00203-014-1052-5
  148. Moreira, C.; Vasconcelos, V.; Antunes, A.. "Phylogeny of microcystins: Evidence of a biogeographical trend?". Current Microbiology 66 3 (2013): 214-221. http://www.scopus.com/inward/record.url?eid=2-s2.0-84878416044&partnerID=MN8TOARS.
    10.1007/s00284-012-0258-5
  149. Moreira, C.; Azevedo, J.; Antunes, A.; Vasconcelos, V.. "Cylindrospermopsin: Occurrence, methods of detection and toxicology". Journal of Applied Microbiology 114 3 (2013): 605-620. http://www.scopus.com/inward/record.url?eid=2-s2.0-84873992881&partnerID=MN8TOARS.
    10.1111/jam.12048
  150. Agüero-Chapin, G.; Molina-Ruiz, R.; Maldonado, E.; de la Riva, G.; Sánchez-Rodríguez, A.; Vasconcelos, V.; Antunes, A.. "Exploring the Adenylation Domain Repertoire of Nonribosomal Peptide Synthetases Using an Ensemble of Sequence-Search Methods". PLoS ONE 8 7 (2013): http://www.scopus.com/inward/record.url?eid=2-s2.0-84880476526&partnerID=MN8TOARS.
    10.1371/journal.pone.0065926
  151. Domínguez-Pérez, D.; Diaz-Garcia, C.M.; García-Delgado, N.; Sierra-Gómez, Y.; Castañeda, O.; Antunes, A.. "Insights into the toxicological properties of a low molecular weight fraction from zoanthus sociatus (cnidaria)". Marine Drugs 11 8 (2013): 2873-2881. http://www.scopus.com/inward/record.url?eid=2-s2.0-84883788617&partnerID=MN8TOARS.
    10.3390/md11082873
  152. Neves, J.; Campos, A.; Osoário, H.; Antunes, A.; Vasconcelos, V.. "Conopeptides from Cape Verde Conus crotchii". Marine Drugs 11 6 (2013): 2203-2215. http://www.scopus.com/inward/record.url?eid=2-s2.0-84879490572&partnerID=MN8TOARS.
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  153. Fry, B.G.; Undheim, E.A.B.; Ali, S.A.; Jackson, T.N.W.; Debono, J.; Scheib, H.; Ruder, T.; et al. "Squeezers and leaf-cutters: Differential diversification and degeneration of the venom system in toxicoferan reptiles". Molecular and Cellular Proteomics 12 7 (2013): 1881-1899. http://www.scopus.com/inward/record.url?eid=2-s2.0-84880065842&partnerID=MN8TOARS.
    10.1074/mcp.M112.023143
  154. Maldonado, E; Khan, I; Philip, S; Vasconcelos, V; Antunes, A; Maldonado, E.; Khan, I.; et al. "EASER: Ensembl Easy Sequence Retriever". EVOLUTIONARY BIOINFORMATICS 2013 9 (2013): 487-490. http://www.scopus.com/inward/record.url?eid=2-s2.0-84888402210&partnerID=MN8TOARS.
    10.4137/ebo.s11335
  155. Sunagar, K.; Undheim, E.A.B.; Chan, A.H.C.; Koludarov, I.; Muñoz-Gómez, S.A.; Antunes, A.; Fry, B.G.. "Evolution stings: The origin and diversification of scorpion toxin peptide scaffolds". Toxins 5 12 (2013): 2456-2487. http://www.scopus.com/inward/record.url?eid=2-s2.0-84890871392&partnerID=MN8TOARS.
    10.3390/toxins5122456
  156. John, L.; Philip, S.; Dahanukar, N.; Ali, P.H.A.; Tharian, J.; Raghavan, R.; Antunes, A.. "Erratum: Morphological and genetic evidence for multiple evolutionary distinct lineages in the endangered and commercially exploited red lined torpedo barbs endemic to the Western Ghats of India (PLoS ONE (2013) 8 (8))". PLoS ONE 8 8 (2013): http://www.scopus.com/inward/record.url?eid=2-s2.0-84898473943&partnerID=MN8TOARS.
    10.1371/annotation/bf1622ea-bb3e-49f7-9d16-f549c05fc584
  157. Sunagar, K.; Fry, B.G.; Jackson, T.N.W.; Casewell, N.R.; Undheim, E.A.B.; Vidal, N.; Ali, S.A.; et al. "Molecular evolution of vertebrate neurotrophins: Co-option of the highly conserved nerve growth factor gene into the advanced snake venom arsenalf". PLoS ONE 8 11 (2013): http://www.scopus.com/inward/record.url?eid=2-s2.0-84895917491&partnerID=MN8TOARS.
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  158. Undheim, E.A.B.; Sunagar, K.; Herzig, V.; Kely, L.; Low, D.H.W.; Jackson, T.N.W.; Jones, A.; et al. "A Proteomics and Transcriptomics investigation of the venom from the Barychelid spider Trittame loki (brush-foot trapdoor)". Toxins 5 12 (2013): 2488-2503. http://www.scopus.com/inward/record.url?eid=2-s2.0-84890885858&partnerID=MN8TOARS.
    10.3390/toxins5122488
  159. Alex, A.; Silva, V.; Vasconcelos, V.; Antunes, A.. "Evidence of unique and generalist microbes in distantly related sympatric intertidal marine sponges (Porifera: Demospongiae)". PLoS ONE 8 11 (2013): http://www.scopus.com/inward/record.url?eid=2-s2.0-84892964618&partnerID=MN8TOARS.
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  160. Moreira, C.; Vasconcelos, V.; Antunes, A.. "Phylogeny and biogeography of cyanobacteria and their produced toxins". Marine Drugs 11 11 (2013): 4350-4369. http://www.scopus.com/inward/record.url?eid=2-s2.0-84889255771&partnerID=MN8TOARS.
    10.3390/md11114350
  161. Sunagar, K.; Jackson, T.N.W.; Undheim, E.A.B.; Ali, S.A.; Antunes, A.; Fry, B.G.. "Three-fingered RAVERs: Rapid Accumulation of Variations in Exposed Residues of snake venom toxins". Toxins 5 11 (2013): 2172-2208. http://www.scopus.com/inward/record.url?eid=2-s2.0-84888155962&partnerID=MN8TOARS.
    10.3390/toxins5112172
  162. Low, D.H.W.; Sunagar, K.; Undheim, E.A.B.; Ali, S.A.; Alagon, A.C.; Ruder, T.; Jackson, T.N.W.; et al. "Dracula's children: Molecular evolution of vampire bat venom". Journal of Proteomics 89 (2013): 95-111. http://www.scopus.com/inward/record.url?eid=2-s2.0-84880112647&partnerID=MN8TOARS.
    10.1016/j.jprot.2013.05.034
  163. John, L.; Philip, S.; Dahanukar, N.; Anvar Ali, P.H.; Tharian, J.; Raghavan, R.; Antunes, A.. "Morphological and Genetic Evidence for Multiple Evolutionary Distinct Lineages in the Endangered and Commercially Exploited Red Lined Torpedo Barbs Endemic to the Western Ghats of India". PLoS ONE 8 7 (2013): http://www.scopus.com/inward/record.url?eid=2-s2.0-84886832605&partnerID=MN8TOARS.
    10.1371/journal.pone.0069741
  164. Terrat, Y.; Sunagar, K.; Fry, B.G.; Jackson, T.N.W.; Scheib, H.; Fourmy, R.; Verdenaud, M.; et al. "Atractaspis aterrima toxins: The first insight into the molecular evolution of venom in side-stabbers". Toxins 5 11 (2013): 1948-1964. http://www.scopus.com/inward/record.url?eid=2-s2.0-84886998480&partnerID=MN8TOARS.
    10.3390/toxins5111948
  165. Pereira, S.R.; Vasconcelos, V.M.; Antunes, A.. "Computational study of the covalent bonding of microcystins to cysteine residues - A reaction involved in the inhibition of the PPP family of protein phosphatases". FEBS Journal 280 2 (2013): 674-680. http://www.scopus.com/inward/record.url?eid=2-s2.0-84872823009&partnerID=MN8TOARS.
    10.1111/j.1742-4658.2011.08454.x
  166. Brust, A.; Sunagar, K.; Undheim, E.A.B.; Vetter, I.; Yang, D.C.; Casewell, N.R.; Jackson, T.N.W.; et al. "Differential evolution and neofunctionalization of snake venom metalloprotease domains". Molecular and Cellular Proteomics 12 3 (2013): 651-663. http://www.scopus.com/inward/record.url?eid=2-s2.0-84874586298&partnerID=MN8TOARS.
    10.1074/mcp.M112.023135
  167. Ruder, T.; Sunagar, K.; Undheim, E.A.B.; Ali, S.A.; Wai, T.-C.; Low, D.H.W.; Jackson, T.N.W.; et al. "Molecular phylogeny and evolution of the proteins encoded by coleoid (cuttlefish, octopus, and squid) posterior venom glands". Journal of Molecular Evolution 76 4 (2013): 192-204. http://www.scopus.com/inward/record.url?eid=2-s2.0-84877818472&partnerID=MN8TOARS.
    10.1007/s00239-013-9552-5
  168. Philip, S.; MacHado, J.P.; Maldonado, E.; Vasconcelos, V.; O'Brien, S.J.; Johnson, W.E.; Antunes, A.. "Fish lateral line innovation: Insights into the evolutionary genomic dynamics of a unique mechanosensory organ". Molecular Biology and Evolution 29 12 (2012): 3887-3898. http://www.scopus.com/inward/record.url?eid=2-s2.0-84869063141&partnerID=MN8TOARS.
    10.1093/molbev/mss194
  169. Koludarov, I.; Sunagar, K.; Undheim, E.A.B.; Jackson, T.N.W.; Ruder, T.; Whitehead, D.; Saucedo, A.C.; et al. "Structural and molecular diversification of the anguimorpha lizard mandibular venom gland system in the arboreal species abronia graminea". Journal of Molecular Evolution 75 5-6 (2012): 168-183. http://www.scopus.com/inward/record.url?eid=2-s2.0-84877133925&partnerID=MN8TOARS.
    10.1007/s00239-012-9529-9
  170. Sunagar, K.; Johnson, W.E.; O'Brien, S.J.; Vasconcelos, V.; Antunes, A.. "Evolution of CRISPs associated with toxicoferan-reptilian venom and mammalian reproduction". Molecular Biology and Evolution 29 7 (2012): 1807-1822. http://www.scopus.com/inward/record.url?eid=2-s2.0-84863583935&partnerID=MN8TOARS.
    10.1093/molbev/mss058
  171. Frazão, B.; Vasconcelos, V.; Antunes, A.. "Sea anemone (cnidaria, anthozoa, actiniaria) toxins: An overview". Marine Drugs 10 8 (2012): 1812-1851. http://www.scopus.com/inward/record.url?eid=2-s2.0-84865984564&partnerID=MN8TOARS.
    10.3390/md10081812
  172. Alex, A.; Vasconcelos, V.; Tamagnini, P.; Santos, A.; Antunes, A.. "Unusual Symbiotic Cyanobacteria Association in the Genetically Diverse Intertidal Marine Sponge Hymeniacidon perlevis (Demospongiae, Halichondrida)". PLoS ONE 7 12 (2012): http://www.scopus.com/inward/record.url?eid=2-s2.0-84871274929&partnerID=MN8TOARS.
    10.1371/journal.pone.0051834
  173. Borges, R.; Johnson, W.E.; O'Brien, S.J.; Vasconcelos, V.; Antunes, A.. "The Role of Gene Duplication and Unconstrained Selective Pressures in the Melanopsin Gene Family Evolution and Vertebrate Circadian Rhythm Regulation". PLoS ONE 7 12 (2012): http://www.scopus.com/inward/record.url?eid=2-s2.0-84871388422&partnerID=MN8TOARS.
    10.1371/journal.pone.0052413
  174. Philip, S.; Castro, L.F.C.; Da Fonseca, R.R.; Reis-Henriques, M.A.; Vasconcelos, V.; Santos, M.M.; Antunes, A.. "Adaptive evolution of the Retinoid X receptor in vertebrates". Genomics 99 2 (2012): 81-89. http://www.scopus.com/inward/record.url?eid=2-s2.0-84856458490&partnerID=MN8TOARS.
    10.1016/j.ygeno.2011.12.001
  175. Leão, P.N.; Engene, N.; Antunes, A.; Gerwick, W.H.; Vasconcelos, V.. "The chemical ecology of cyanobacteria". Natural Product Reports 29 3 (2012): 372-391. http://www.scopus.com/inward/record.url?eid=2-s2.0-84857566653&partnerID=MN8TOARS.
    10.1039/c2np00075j
  176. Lopes, V.R.; Ramos, V.; Martins, A.; Sousa, M.; Welker, M.; Antunes, A.; Vasconcelos, V.M.. "Phylogenetic, chemical and morphological diversity of cyanobacteria from Portuguese temperate estuaries". Marine Environmental Research 73 (2012): 7-16. http://www.scopus.com/inward/record.url?eid=2-s2.0-84655167713&partnerID=MN8TOARS.
    10.1016/j.marenvres.2011.10.005
  177. O'Brien, S.J.; Troyer, J.L.; Brown, M.A.; Johnson, W.E.; Antunes, A.; Roelke, M.E.; Pecon-Slattery, J.. "Emerging viruses in the felidae: Shifting paradigms". Viruses 4 2 (2012): 236-257. http://www.scopus.com/inward/record.url?eid=2-s2.0-84863403134&partnerID=MN8TOARS.
    10.3390/v4020236
  178. Olayemi, A; Oyeyiola, A; Antunes, A; Bonillo, C; Cruaud, C; Gaubert, P; Olayemi, A.; et al. "Contribution of DNA-typing to bushmeat surveys: assessment of a roadside market in south-western Nigeria". WILDLIFE RESEARCH 38 8 (2011): 696-716. http://www.scopus.com/inward/record.url?eid=2-s2.0-84255178384&partnerID=MN8TOARS.
    10.1071/wr11015
  179. Moreira, C.; Fathalli, A.; Vasconcelos, V.; Antunes, A.. "Genetic diversity and structure of the invasive toxic cyanobacterium Cylindrospermopsis raciborskii". Current Microbiology 62 5 (2011): 1590-1595. http://www.scopus.com/inward/record.url?eid=2-s2.0-79954417225&partnerID=MN8TOARS.
    10.1007/s00284-011-9900-x
  180. Maldonado, E.; Dutheil, J.Y.; Da Fonseca, R.R.; Vasconcelos, V.; Antunes, A.. "IMPACT: Integrated multiprogram platform for analyses in con test". Journal of Heredity 102 3 (2011): 366-369. http://www.scopus.com/inward/record.url?eid=2-s2.0-79954520264&partnerID=MN8TOARS.
    10.1093/jhered/esr003
  181. Pereira, S.R.; Vasconcelos, V.M.; Antunes, A.. "The phosphoprotein phosphatase family of Ser/Thr phosphatases as principal targets of naturally occurring toxins". Critical Reviews in Toxicology 41 2 (2011): 83-110. http://www.scopus.com/inward/record.url?eid=2-s2.0-79551650830&partnerID=MN8TOARS.
    10.3109/10408444.2010.515564
  182. Agüero-Chapin, G.; de la Riva, G.A.; Molina-Ruiz, R.; Sánchez-Rodríguez, A.; Pérez-Machado, G.; Vasconcelos, V.; Antunes, A.. "Non-linear models based on simple topological indices to identify RNase III protein members". Journal of Theoretical Biology 273 1 (2011): 167-178. http://www.scopus.com/inward/record.url?eid=2-s2.0-78651360965&partnerID=MN8TOARS.
    10.1016/j.jtbi.2010.12.019
  183. Fathalli, A.; Jenhani, A.B.R.; Moreira, C.; Azevedo, J.; Welker, M.; Romdhane, M.; Antunes, A.; Vasconcelos, V.. "Genetic variability of the invasive cyanobacteria Cylindrospermopsis raciborskii from Bir M'cherga reservoir (Tunisia)". Archives of Microbiology 193 8 (2011): 595-604. http://www.scopus.com/inward/record.url?eid=2-s2.0-79960897396&partnerID=MN8TOARS.
    10.1007/s00203-011-0704-y
  184. Martins, A.; Moreira, C.; Vale, M.; Freitas, M.; Regueiras, A.; Antunes, A.; Vasconcelos, V.. "Seasonal dynamics of Microcystis spp. and their toxigenicity as assessed by qPCR in a temperate reservoir". Marine Drugs 9 10 (2011): 1715-1730. http://www.scopus.com/inward/record.url?eid=2-s2.0-80054946461&partnerID=MN8TOARS.
    10.3390/md9101715
  185. Fathalli, A.; Ben Rejeb Jenhani, A.; Moreira, C.; Welker, M.; Romdhane, M.; Antunes, A.; Vasconcelos, V.. "Molecular and phylogenetic characterization of potentially toxic cyanobacteria in Tunisian freshwaters". Systematic and Applied Microbiology 34 4 (2011): 303-310. http://www.scopus.com/inward/record.url?eid=2-s2.0-79955476166&partnerID=MN8TOARS.
    10.1016/j.syapm.2010.12.003
  186. Benziger, A.; Philip, S.; Raghavan, R.; Anvar Ali, P.H.; Sukumaran, M.; Tharian, J.C.; Dahanukar, N.; et al. "Unraveling a 146 years old taxonomic puzzle: Validation of Malabar Snakehead, species-status and its relevance for Channid systematics and evolution". PLoS ONE 6 6 (2011): http://www.scopus.com/inward/record.url?eid=2-s2.0-79959611546&partnerID=MN8TOARS.
    10.1371/journal.pone.0021272
  187. MacHado, J.; Johnson, W.E.; O'Brien, S.J.; Vasconcelos, V.; Antunes, A.. "Adaptive evolution of the matrix extracellular phosphoglycoprotein in mammals". BMC Evolutionary Biology 11 1 (2011): http://www.scopus.com/inward/record.url?eid=2-s2.0-81355138245&partnerID=MN8TOARS.
    10.1186/1471-2148-11-342
  188. Moreira, C.; Martins, A.; Azevedo, J.; Freitas, M.; Regueiras, A.; Vale, M.; Antunes, A.; Vasconcelos, V.. "Application of real-time PCR in the assessment of the toxic cyanobacterium Cylindrospermopsis raciborskii abundance and toxicological potential". Applied Microbiology and Biotechnology 92 1 (2011): 189-197. http://www.scopus.com/inward/record.url?eid=2-s2.0-82455188039&partnerID=MN8TOARS.
    10.1007/s00253-011-3360-x
  189. Agüero-Chapin, G.; Pérez-Machado, G.; Molina-Ruiz, R.; Pérez-Castillo, Y.; Morales-Helguera, A.; Vasconcelos, V.; Antunes, A.. "TI2BioP: Topological Indices to BioPolymers. Its practical use to unravel cryptic bacteriocin-like domains". Amino Acids 40 2 (2011): 431-442. http://www.scopus.com/inward/record.url?eid=2-s2.0-78751579274&partnerID=MN8TOARS.
    10.1007/s00726-010-0653-9
  190. Da Fonseca, R.R.; Johnson, W.E.; O'Brien, S.J.; Vasconcelos, V.; Antunes, A.. "Molecular evolution and the role of oxidative stress in the expansion and functional diversification of cytosolic glutathione transferases". BMC Evolutionary Biology 10 1 (2010): http://www.scopus.com/inward/record.url?eid=2-s2.0-77956526507&partnerID=MN8TOARS.
    10.1186/1471-2148-10-281
  191. Lopes, V.R.; Antunes, A.; Welker, M.; Martins, R.F.; Vasconcelos, V.M.. "Morphological, toxicological and molecular characterization of a benthic Nodularia isolated from Atlantic estuarine environments". Research in Microbiology 161 1 (2010): 9-17. http://www.scopus.com/inward/record.url?eid=2-s2.0-74649085705&partnerID=MN8TOARS.
    10.1016/j.resmic.2009.11.001
  192. Vasconcelos, V.; Martins, A.; Vale, M.; Antunes, A.; Azevedo, J.; Welker, M.; Lopez, O.; Montejano, G.. "First report on the occurrence of microcystins in planktonic cyanobacteria from Central Mexico". Toxicon 56 3 (2010): 425-431. http://www.scopus.com/inward/record.url?eid=2-s2.0-77954143843&partnerID=MN8TOARS.
    10.1016/j.toxicon.2010.04.011
  193. Agüero-Chapin, G.; Varona-Santos, J.; De La Riva, G.A.; Antunes, A.; González-Villa, T.; Uriarte, E.; González-Díaz, H.. "Alignment-free prediction of polygalacturonases with pseudofolding topological indices: Experimental isolation from coffea arabica and prediction of a new sequence". Journal of Proteome Research 8 4 (2009): 2122-2128. http://www.scopus.com/inward/record.url?eid=2-s2.0-65249098338&partnerID=MN8TOARS.
    10.1021/pr800867y
  194. Luo, S.-J.; Johnson, W.E.; Martenson, J.; Antunes, A.; Martelli, P.; Uphyrkina, O.; Traylor-Holzer, K.; Smith, J.L.D.; O'Brien, S.J.. "Subspecies Genetic Assignments of Worldwide Captive Tigers Increase Conservation Value of Captive Populations". Current Biology 18 8 (2008): 592-596. http://www.scopus.com/inward/record.url?eid=2-s2.0-42149092623&partnerID=MN8TOARS.
    10.1016/j.cub.2008.03.053
  195. Troyer, J.L.; VandeWoude, S.; Pecon-Slattery, J.; McIntosh, C.; Franklin, S.; Antunes, A.; Johnson, W.; O'Brien, S.J.. "FIV cross-species transmission: An evolutionary prospective". Veterinary Immunology and Immunopathology 123 1-2 (2008): 159-166. http://www.scopus.com/inward/record.url?eid=2-s2.0-43049180035&partnerID=MN8TOARS.
    10.1016/j.vetimm.2008.01.023
  196. da Fonseca, R.R.; Johnson, W.E.; O'Brien, S.J.; Ramos, M.J.; Antunes, A.. "The adaptive evolution of the mammalian mitochondrial genome". BMC Genomics 9 (2008): http://www.scopus.com/inward/record.url?eid=2-s2.0-43349102636&partnerID=MN8TOARS.
    10.1186/1471-2164-9-119
  197. Agüero-Chapín, G.; Antunes, A.; Ubeira, F.M.; Chou, K.-C.; González-Díaz, H.. "Comparative study of topological indices of macro/supramolecular RNA complex networks". Journal of Chemical Information and Modeling 48 11 (2008): 2265-2277. http://www.scopus.com/inward/record.url?eid=2-s2.0-57549103611&partnerID=MN8TOARS.
    10.1021/ci8001809
  198. Marques, A.T.; Antunes, A.; Fernandes, P.A.; Ramos, M.J.. "Computational optimization of AG18051 inhibitor for amyloid-ß binding alcohol dehydrogenase enzyme". International Journal of Quantum Chemistry 108 11 (2008): 1982-1991. http://www.scopus.com/inward/record.url?eid=2-s2.0-47549087365&partnerID=MN8TOARS.
    10.1002/qua.21716
  199. Antunes, A.; Troyer, J.L.; Roelke, M.E.; Pecon-Slattery, J.; Packer, C.; Winterbach, C.; Winterbach, H.; et al. "The evolutionary dynamics of the lion Panthera leo revealed by host and viral population genomics". PLoS Genetics 4 11 (2008): http://www.scopus.com/inward/record.url?eid=2-s2.0-57149097458&partnerID=MN8TOARS.
    10.1371/journal.pgen.1000251
  200. Antunes, A.; Ramos, M.J.. "Gathering computational genomics and proteomics to unravel adaptive evolution". Evolutionary Bioinformatics 3 (2007): 207-209. http://www.scopus.com/inward/record.url?eid=2-s2.0-76249087624&partnerID=MN8TOARS.
  201. da Fonseca, R.R.; Antunes, A.; Melo, A.; Ramos, M.J.. "Structural divergence and adaptive evolution in mammalian cytochromes P450 2C". Gene 387 1-2 (2007): 58-66. http://www.scopus.com/inward/record.url?eid=2-s2.0-33845624599&partnerID=MN8TOARS.
    10.1016/j.gene.2006.08.017
  202. Antunes, A.; Pontius, J.; Ramos, M.J.; O'Brien, S.J.; Johnson, W.E.. "Mitochondrial introgressions into the nuclear genome of the domestic cat". Journal of Heredity 98 5 (2007): 414-420. http://www.scopus.com/inward/record.url?eid=2-s2.0-34548399778&partnerID=MN8TOARS.
    10.1093/jhered/esm062
  203. Pontius, J.U.; Mullikin, J.C.; Smith, D.R.; Lindblad-Toh, K.; Gnerre, S.; Clamp, M.; Chang, J.; et al. "Initial sequence and comparative analysis of the cat genome". Genome Research 17 11 (2007): 1675-1689. http://www.scopus.com/inward/record.url?eid=2-s2.0-36048982458&partnerID=MN8TOARS.
    10.1101/gr.6380007
  204. Luo, S.-J.; Cai, Q.-X.; David, V.A.; Zhang, L.; Martelli, P.; Lim, N.T.-L.; Ferrand, N.; et al. "Isolation and characterization of microsatellite markers in pangolins (Mammalia, Pholidota, Manis spp.): Primer note". Molecular Ecology Notes 7 2 (2007): 269-272. http://www.scopus.com/inward/record.url?eid=2-s2.0-33847369404&partnerID=MN8TOARS.
    10.1111/j.1471-8286.2006.01577.x
  205. Luo, S.-J.; Cai, Q.-X.; David, V.A.; Zhang, L.; Martelli, P.; Lim, N.T.-L.; Ferrand, N.; et al. "Erratum: Isolation and characterization of microsatellite markers in pangolins (Mammalia, Pholidota, Manis spp.) (Molecular Ecology Notes (2006) 7 (269-272))". Molecular Ecology Notes 7 3 (2007): http://www.scopus.com/inward/record.url?eid=2-s2.0-34248209102&partnerID=MN8TOARS.
    10.1111/j.1471-8286.2007.01778.x
  206. Osorio, D.S.; Antunes, A.; Ramos, M.J.. "Structural and functional implications of positive selection at the primate angiogenin gene". BMC Evolutionary Biology 7 (2007): http://www.scopus.com/inward/record.url?eid=2-s2.0-38149066606&partnerID=MN8TOARS.
    10.1186/1471-2148-7-167
  207. Johnson, W.E.; Eizirik, E.; Pecon-Slattery, J.; Murphy, W.J.; Antunes, A.; Teeling, E.; O'Brien, S.J.. "The late miocene radiation of modern felidae: A genetic assesstment". Science 311 5757 (2006): 73-77. http://www.scopus.com/inward/record.url?eid=2-s2.0-30344438542&partnerID=MN8TOARS.
    10.1126/science.1122277
  208. Kim, J.-H.; Antunes, A.; Luo, S.-J.; Menninger, J.; Nash, W.G.; O'Brien, S.J.; Johnson, W.E.. "Evolutionary analysis of a large mtDNA translocation (numt) into the nuclear genome of the Panthera genus species". Gene 366 2 (2006): 292-302. http://www.scopus.com/inward/record.url?eid=2-s2.0-32444439874&partnerID=MN8TOARS.
    10.1016/j.gene.2005.08.023
  209. Marques, A.T.; Antunes, A.; Fernandes, P.A.; Ramos, M.J.. "Comparative evolutionary genomics of the HADH2 gene encoding Aß-binding alcohol dehydrogenase/17ß-hydroxysteroid dehydrogenase type 10 (ABAD/HSD10)". BMC Genomics 7 (2006): http://www.scopus.com/inward/record.url?eid=2-s2.0-33748344899&partnerID=MN8TOARS.
    10.1186/1471-2164-7-202
  210. Antunes, A.; Faria, R.; Johnson, W.E.; Guyomard, R.; Alexandrino, P.. "Life on the edge: The long-term persistence and contrasting spatial genetic structure of distinct brown trout life histories at their ecological limits". Journal of Heredity 97 3 (2006): 193-205. http://www.scopus.com/inward/record.url?eid=2-s2.0-33745678018&partnerID=MN8TOARS.
    10.1093/jhered/esj014
  211. Antunes, A.; Gharbi, K.; Alexandrino, P.; Guyomard, R.. "Characterization of transferrin-linked microsatellites in brown trout (Salmo trutta) and Atlantic salmon (Salmo salar)". Molecular Ecology Notes 6 2 (2006): 547-549. http://www.scopus.com/inward/record.url?eid=2-s2.0-33646861436&partnerID=MN8TOARS.
    10.1111/j.1471-8286.2005.01253.x
  212. Antunes, A.; Ramos, M.J.. "Discovery of a large number of previously unrecognized mitochondrial pseudogenes in fish genomes". Genomics 86 6 (2005): 708-717. http://www.scopus.com/inward/record.url?eid=2-s2.0-28644444059&partnerID=MN8TOARS.
    10.1016/j.ygeno.2005.08.002
  213. Gaubert, P.; Antunes, A.; Gaubert, P; Antunes, A. "Assessing the taxonomic status of the Palawan pangolin Manis culionensis (Pholidota) using discrete morphological characters". Journal of Mammalogy 86 6 (2005): 1068-1074. http://www.scopus.com/inward/record.url?eid=2-s2.0-30344467186&partnerID=MN8TOARS.
    10.1644/1545-1542(2005)86[1068:ATTSOT]2.0.CO;2
  214. Antunes, A.; Templeton, A.R.; Guyomard, R.; Alexandrino, P.. "The role of nuclear genes in intraspecific evolutionary inference: Genealogy of the transferrin gene in the brown trout". Molecular Biology and Evolution 19 8 (2002): 1272-1287. http://www.scopus.com/inward/record.url?eid=2-s2.0-0036667688&partnerID=MN8TOARS.
    10.1093/oxfordjournals.molbev.a004188
  215. Antunes, A.; Templeton, A.R.; Guyomard, R.; Alexandrino, P.. "Erratum: The role of nuclear genes in intraspecific evolutionary inference: Genealogy of the transferrin gene in the brown trout (Molecular Biology and Evolution (2002) 19:8 (1272-1287))". Molecular Biology and Evolution 19 9 (2002): http://www.scopus.com/inward/record.url?eid=2-s2.0-0037866914&partnerID=MN8TOARS.
  216. Antunes, A; Nina, J; David, S. "Serological screening for tuberculosis in the community: an evaluation of the Mycodot procedure in an African population with high HIV-2 prevalence (Republic of Guinea-Bissau)". RESEARCH IN MICROBIOLOGY (2002):
    10.1016/s0923-2508(02)01323-2
  217. Antunes, A; Faria, R; Weiss, S; Alexandrino, P; Antunes, A.; Faria, R.; Weiss, S.; Alexandrino, P.. "Complex evolutionary history in the brown trout: Insights on the recognition of conservation units". CONSERVATION GENETICS 2 4 (2001): 337-347. http://www.scopus.com/inward/record.url?eid=2-s2.0-0005501520&partnerID=MN8TOARS.
    10.1023/a:1012518112891
  218. Weiss, S.; Antunes, A.; Schlötterer, C.; Alexandrino, P.; Weiss, S; Antunes, A; Schlotterer, C; Alexandrino, P. "Mitochondrial haplotype diversity among Portuguese brown trout Salmo trutta L. populations: Relevance to the post-Pleistocene recolonization of northern Europe". Molecular Ecology 9 6 (2000): 691-698. http://www.scopus.com/inward/record.url?eid=2-s2.0-0034083246&partnerID=MN8TOARS.
    10.1046/j.1365-294X.2000.00910.x
  219. Antunes, A.; Ferrand, N.; Alexandrino, P.. "A highly polymorphic plasma protein locus in brown trout (Salmo trutta L.) populations from Portugal". Biochemical Genetics 38 7-8 (2000): 217-226. http://www.scopus.com/inward/record.url?eid=2-s2.0-0033676378&partnerID=MN8TOARS.
    10.1023/a:1001935304035
  220. Antunes, A.; Alexandrino, P.; Ferrand, N.. "Genetic characterization of Portuguese brown trout (Salmo trutta L.) and comparison with other European populations". Ecology of Freshwater Fish 8 3 (1999): 194-200. http://www.scopus.com/inward/record.url?eid=2-s2.0-0033401684&partnerID=MN8TOARS.
    10.1111/j.1600-0633.1999.tb00070.x
Preprint
  1. Daniela De Llano García; Yovani Marrero-Ponce; Guillermin Agüero-Chapin; Francesc J. Ferri; Agostinho Antunes; Felix Martinez-Rios; Hortensia María Rodríguez-Cabrera. "Innovative Alignment-Based Method for Antiviral Peptide Prediction". 2024. https://doi.org/10.20944/preprints202407.1476.v1.
    10.20944/preprints202407.1476.v1
  2. Guillermin Agüero-Chapin; Agostinho Antunes; José R. Mora; Noel Pérez; Ernesto Contreras-Torres; José R. Valdes-Martini; Felix Martinez-Rios; Cesar H. Zambrano; Yovani Marrero-Ponce. "Complex Networks Analyses of Antibiofilm Peptides: An Emerging Tool for Next Generation Antimicrobials Discovery". 2023. https://doi.org/10.20944/preprints202303.0193.v1.
    10.20944/preprints202303.0193.v1
Thesis / Dissertation
  1. Pereira, Agostinho Antunes. "História evolutiva da truta, Salmo trutta L. : Estrutura genética no limite sul da distribuição Atlântica e filogeografia na região Euroasiática". PhD, 2001. http://hdl.handle.net/10216/9743.
Activities

Oral presentation

Presentation title Event name
Host (Event location)
2019/02/21 Antunes 2019. Sensing Adaptation with Genomics and Bioinformatics (Plenary). Bioinformatic Open Days, University of Minho, Braga.
2017/03/23 ANTUNES A. 2017. Genomics of adaptation. The Hebrew University of Jerusalem. Israel.
2016/11/18 ANTUNES A. 2016. NOVELMAR -Novel marine products with biotechnological applications. INNOVMAR - Innovation and Sustainability in the Management and Exploitation of Marine Resources. Sala D. Luís - Centro de Congressos da Alfandega do Porto.
2016/10/31 ANTUNES A. 2016. Next-generation genomics and the conservation of biodiversity. SEAZA 2016 Conference. Java, Indonesia.
2016/10/27 ANTUNES A. 2016. Gene novelty and gene enhancement in birds: adapting to life. B10K Conference. Beijing, China.
2016/10/16 ANTUNES A. 2016. A divulgação científica e educação ambiental na área do Mar. Conferência "MATOSINHOS, MAR DE OPORTUNIDADES". Terminal de Cruzeiros do Porto de Leixões, Matosinhos.
2015/09/07 ANTUNES A. 2015. Genomics and Fish Adaptation. XV European Congress of Icththyology. Porto, Portugal.
2015/03/19 ANTUNES A. 2015. The gene novelty and gene enhancement game: adapting to life. Centre for Irish Bat Research, Science Centre West, University College Dublin, Dublin, Ireland.
2015/03/01 ANTUNES A. 2015. The gene novelty and gene enhancement game: adapting to life. Genome 10K Conference. Santa Cruz, California, United States.
2014/11/11 ANTUNES A. 2014. Evolutionary Genomics I. Genomics prospecting: life diversification and adaptation. Lecture in the Course "Bioinformatics in Health Sciences". School of Health Sciences University of Minho Campus de Gualtar, Braga, Portugal.
2014/11/11 ANTUNES A. 2014. Evolutionary Genomics II. The gene novelty and gene enhancement game: adapting to life. Lecture in the Course "Bioinformatics in Health Sciences". School of Health Sciences University of Minho Campus de Gualtar, Braga, Portugal.
2014/10/31 ANTUNES A. 2014. Genomics and Biodiversity of bioactive peptides. Workshop on Bacterial Bioactive Peptides. University of Aveiro. Aveiro, Portugal.
2014/10/06 ANTUNES A. 2014. The gene novelty and gene enhancement game: adapting to life. Genomics Workshop, Theodosius Dobzhansky Center for Genome Bioinformatics, St. Petersburg State University, St. Petersburg, Russia.
2014/09/11 ANTUNES A (2014) The role of de novo genes and enhanced genes in life diversification. IGC9 Shenzhen, China.
2013/11/29 ANTUNES A (2013) A poluição não é a nossa praia. Programa Bandeira Azul. Tema “Poluição dos Oceanos – Esclarecer, Planear e Agir?”. Cineteatro Municipal João Mota, Sesimbra, Portugal.
2012/04/18 ANTUNES A (2012) A importância da genética na conservação de espécies em vias de extinção. Escola Básica Irmãos Passos, Guifões, Matosinhos, Porto, Portugal.
2012/03/22 ANTUNES A (2012) Lion tales and lentivirus: how far are from humankind? 15th Portugaliæ Genetica, IPATIMUP, Porto, Portugal.
2011/05/25 ANTUNES A (2011) EcoTertúlia "O preço da Biodiversidade". Evento realizado pelo Departamento de Biologia e o NEBAUM - Núcleo de Estudantes de Biologia Aplicada da Universidade do Minho. Estaleiro Cultural Velha-a-Branca, , Braga, Portugal.
2011/05/16 ANTUNES A (2011) A importância da genética na conservacão da biodiversidade. XIV Encontro Nacional de Estudantes de Biologia. Peniche, Portugal.
2011/05/05 ANTUNES A (2011) The role of genetics in environmental adaptation. ECClime – Estuaries in a changing climate. Porto, Portugal.
2010/10/01 ANTUNES A (2010) A importância da genética na conservação da biodiversidade. Palestra CMIA - Centro de Monitorização e Interpretação Ambiental de Vila do Conde, Vila do Conde, Portugal
2010/04/28 ANTUNES A (2010) Avanços na genómica evolutiva de espécies ameaçadas de mamíferos. XI Jornadas de Biologia Aplicada, Universidade do Minho, Braga, Portugal
2009/10/21 ANTUNES A (2009) Insights into the evolutionary genomics of mammalian species. 3as Jornadas de Biologia na UTAD, ,Vila Real, Portugal.
2006/09 ANTUNES A (2006) Comparative Genomics in Mammals: Insights into Human and Wildlife Genomic Prospecting. Rajiv Gandhi Center for Biotechnology, Trivadrum, Kerala, India
2001/04 ANTUNES A (2001) Evolution of Salmonids: the brown trout (Salmo trutta) as a case study. Laboratory of Genomic Diversity (LGD), National Cancer Institute (NCI) – National Institute of Health (NIH), Maryland, Estados Unidos da América.
1998/09 ANTUNES A, ALEXANDRINO P (1998) Preliminary results of brown trout genetics structure in northern rivers from Portugal by using isozymes. Iberian Trout Genetics Meeting, Lugo, Espanha, Setembro 1998. berian Trout Genetics Meeting
(Lugo, Spain)
1998/04 ANTUNES A, ALEXANDRINO P, FERRAND N (1998) Genetic characterisation of some Portuguese brown trout (Salmo trutta L.) populations. Ecology of Stream Fish: State of the Art and Future Prospects, Luarca, Espanha, Abril 1998. Ecology of Stream Fish: State of the Art and Future Prospects
(Luarca, Spain)

Supervision

Thesis Title
Role 		Degree Subject (Type)
Institution / Organization
2016 - Current Climatic and oceanographic drivers of plankton community dynamics in the Portuguese upwelling coastal system (Postdoc).
Co-supervisor
Instituto Português do Mar e da Atmosfera, Portugal
2019 - 2023 Molecular diversification of animal venoms and its adaptive impact
Supervisor of Filipe Correia Gonçalves e Silva
 Biologia (PhD)
Universidade do Porto Faculdade de Ciências, Portugal
2019 - 2022 Genomic study of genes involved in chemosensorial perception in metazoans
Supervisor of Liliana Patrícia Domingues Silva
 Biologia (PhD)
Universidade do Porto Faculdade de Ciências, Portugal
2018 - 2022 Tunicate organisms – genetic diversity, symbiotic associations and bioactive potential
Supervisor of Ana Isabel Bastos de Matos
 Biologia (PhD)
Universidade do Porto Faculdade de Ciências, Portugal
2018 - 2020 Molecular evolution of the thermoregulation in vertebrates
Supervisor of Tito Rafael Ferreira Mendes
 Biologia (PhD)
Universidade do Porto Faculdade de Ciências, Portugal
2018 - 2020 Bioinformatics Applications for Optimizing Downstream Analyses in Evolutionary Genomics
Supervisor of Emanuel Filipe Escaleira Maldonado
 Ciências e Tecnologia do Ambiente (PhD)
Universidade do Porto Faculdade de Ciências, Portugal
2017 - 2019 Jellyfish impact on aquatic ecosystems: warning for the development of mass occurrences early detection tools
Supervisor of Tomás Ferreira da Costa Rodrigues
 Biologia e Gestão da Qualidade da Água (Master)
Universidade do Porto Faculdade de Ciências, Portugal
2014 - 2018 An Evolution-Based Framework to Engineer the Synthesisof Biologically Active Oligopeptides (Postdoc).
Supervisor
Universidade do Porto Centro Interdisciplinar de Investigação Marinha e Ambiental, Portugal

Fundação para a Ciência e a Tecnologia, Portugal
2014 - 2018 Genus-wide comparison of bacterial genomes from different marine invertebrate hosts (Postdoc).
Supervisor
Universidade do Porto Centro Interdisciplinar de Investigação Marinha e Ambiental, Portugal
2010 - 2018 Molecular and evolutionary genetics of invasive bivalves
Supervisor
 Ciências Biomédicas (PhD)
Universidade do Porto Instituto de Ciências Biomédicas Abel Salazar, Portugal
2015 - 2017 Molecular monitoring of cyanobacteria and their related toxins in Portuguese freshwater systems.
Supervisor of Rita Afonso de Moura Mendes
 Toxicologia e Contaminação Ambientais (Master)
Universidade do Porto Instituto de Ciências Biomédicas Abel Salazar, Portugal
2012 - 2017 Evolutionary genomics of the molecular mechanisms involved in the environmental adaptation of the phylum Mollusca.
Supervisor
 Biologia (PhD)
Universidade do Porto Faculdade de Ciências, Portugal
2012 - 2017 Proteomics and Transcriptomics of Venomous Animals
Supervisor of Dany Dominguez Pérez
 Biologia (PhD)
Universidade do Porto Faculdade de Ciências, Portugal
2012 - 2017 The evolution of the sensorial receptors in vertebrates: focus on vision
Supervisor
 Biologia (PhD)
Universidade do Porto Faculdade de Ciências, Portugal
2012 - 2017 Evolution of marine biodiversity: linking natural genetic variation with phenotypic diversity in the sea (Postdoc).
Supervisor
Universidade do Porto Centro Interdisciplinar de Investigação Marinha e Ambiental, Portugal

Fundação para a Ciência e a Tecnologia, Portugal
2011 - 2017 Insights into the conservation and evolutionary genetics of aquatic turtles: the Podocnemis turtle complex as a case study (Postdoc)
Supervisor
Universidade do Porto Centro Interdisciplinar de Investigação Marinha e Ambiental, Portugal

Fundação para a Ciência e a Tecnologia, Portugal
2008 - 2017 A Genomic and Proteomic Study of Sea Anemones and Jellyfish from Portugal
Supervisor
 Biologia (PhD)
Universidade do Porto Faculdade de Ciências, Portugal
2014 - 2016 Evolutionary genomics of the eye and pigmentation development genes in the cavefish Astyanax mexicanus
Supervisor of Micaela de Pina Roque
 Biodiversidade, Genética e Evolução (Master)
Universidade do Porto Faculdade de Ciências, Portugal
2011 - 2016 Análise de conotoxinas em gastrópodes venenosos do género Conus endémicos do arquipélago de Cabo Verde
Co-supervisor of Jorge do Livramento Brito Neves
Universidade do Porto Instituto de Ciências Biomédicas Abel Salazar, Portugal
2013 - 2015 Genome analysis of a marine sponge symbiont - a Pseudovibrio related bacteria
Supervisor of Vítor Rocha Miranda da Silva
 Bioquímica (Master)
Universidade do Porto Faculdade de Ciências, Portugal
2013 - 2015 Evolutionary genomics - Study of genes Involved in animal Adaptation
Supervisor of Filipe Correia Gonçalves e Silva
 Bioquímica (Master)
Universidade do Porto Faculdade de Ciências, Portugal
2012 - 2014 Development of molecular tools for the early warning of toxic cyanobacteria
Supervisor of Ana Isabel Bastos de Matos
 Biologia Celular e Molecular (Master)
Universidade do Porto Faculdade de Ciências, Portugal
2012 - 2014 Genomic study of genes involved in species adaptation
Supervisor
 Bioquímica (Master)
Universidade do Porto Faculdade de Ciências, Portugal
2009 - 2014 Using genomic and proteomic information to characterize the evolution of genes involved in development and adaptation in vertebrates under differential conditions of selective pressure
Supervisor
 Biologia (PhD)
Universidade do Porto Faculdade de Ciências, Portugal
2008 - 2014 Evolutionary characterization of genes involved in development and adaptation in vertebrates under differential environmental conditions of selective pressure
Supervisor
 Ciências do Mar e do Ambiente (PhD)
Universidade do Porto Instituto de Ciências Biomédicas Abel Salazar, Portugal
2009 - 2013 Molecular Evolution of Animal Venom
Supervisor
 Biologia (PhD)
Universidade do Porto Faculdade de Ciências, Portugal
2008 - 2013 Genomic characterization of developmental and adaptation genes: insights into vertebrate evolution.
Supervisor of Siby Philip
 Biologia
Universidade do Porto Faculdade de Ciências, Portugal
2008 - 2013 A Graphical and Numerical Approach for Functional Annotation and Phylogenetic Inference.
Supervisor of Guillermin Agüero Chapin
 Biologia (PhD)
Universidade do Porto Faculdade de Ciências, Portugal
2008 - 2013 Phylogeny and Biogeography of Cyanobacteria
Supervisor
 Biologia (PhD)
Universidade do Porto Faculdade de Ciências, Portugal
2008 - 2013 Molecular evolutionary genomics of proto-eukaryotes symbioses
Supervisor
 Biologia (PhD)
Universidade do Porto Faculdade de Ciências, Portugal
2006 - 2013 Comparative Genomics and Proteomics Applied to the Study of Protein–Protein Interactions (Postdoc).
Supervisor
Universidade do Porto Centro Interdisciplinar de Investigação Marinha e Ambiental, Portugal

Fundação para a Ciência e a Tecnologia, Portugal
2011 - 2012 The modelling of retinoic acid signalling pathways by environmental contaminants
Supervisor
 Biologia (Master)
Universidade do Porto, Portugal
2010 - 2012 Evolutionary Genomics and Adaptive Evolution of the Hedgehog Gene Family in Vertebrates
Supervisor
 Bioquímica (Master)
Universidade do Porto, Portugal
2010 - 2012 The evolution of the melanopsin gene family (OPN4m and OPN4x) in vertebrates
Supervisor
 Biodiversidade, Genética e Evolução (Master)
Universidade do Porto, Portugal
2010 - 2011 Hotspot or Outpost? The Iberian Phylogeography of Nucella lapillus
Supervisor
 ERASMUS MUNDUS Master Programme EMBC (Master)
Universiteit Gent, Belgium
2007 - 2011 Application of novel comparative genomic annotation techniques to characterize patterns of molecular evolution among related mammalian species (Postdoc)
Supervisor of Rute da Fonseca
Universidade do Porto, Portugal

Fundação para a Ciência e a Tecnologia, Portugal
2009 - 2010 Evolutionary genetics of the AMT domain of the microcystin gene cluster in various cyanobacteria genera
Supervisor
 Contamination and Environmental Toxicology (Master)
Universidade do Porto, Portugal
2008 - 2009 Elaboração de software específico para avaliar a influência de selecção natural na funcionalidade de genes e proteínas
Supervisor
 Ciências dos Computadores (Master)
Universidade do Porto, Portugal
2006 - 2007 Signatures of natural selection of genes/proteins
Co-supervisor
Universidade do Minho Departamento de Biologia, Portugal

Event organisation

Event name
Type of event (Role) 		Institution / Organization
2018 - 2018 31st ESCPB (European Society for Comparative Physiology and Biochemistry) Congress, Porto, Portugal. (2018 - 2018)
Congress (Member of the Organising Committee)
2018 - 2018 Third Global Invertebrate Genomics Alliance Research Conference and Workshop (GIGA III). Curaçao. (2018 - 2018)
Workshop (Member of the Organising Committee)
2015 - 2015 XV European Congress of Ichthyology, Porto, Portugal. (2015 - 2015)
Congress (Co-organisor)
2013 - 2013 Workshop "Bioinvasions in the context of global environmental change: implications to human, animal and environmental health". Porto, Portugal (2013 - 2013)
Workshop
2011 - 2011 ECClima meeting, Estuaries in a Changing Climate, Porto, Portugal. (2011 - 2011)
Meeting
2010 - 2010 12º Meeting of Portuguese Ecology Society, SPECO, Porto, Portugal (2010 - 2010)
2009 - 2009 1º Iberian meeting on Cyanotoxins (2009 - 2009) Universidade do Porto, Portugal
2006 - 2006 8th International Feline Retrovirus Research Symposium, Washington DC, EUA. (2006 - 2006)
Symposium (Member of the Organising Committee)

Event participation

Activity description
Type of event 		Event name
Institution / Organization
2018/11 - 2018/11 Almeida D, Domínguez-Pérez D, Matos A, Campos A, Osório H, Vasconcelos V, Antunes A. (2018) Poorly characterized proteins involved in metabolic pathways revealed by shotgun proteomics of the posterior salivary glands from Octopus vulgaris (Cephalopoda). BioAqua2018 - International Conference on Aquatic Biotechnology and Aquaculture, October 28th to November 1st, Varadero, Matanzas, Cuba.
2018/10 - 2018/10 Moreira C, Gomes C, Vasconcelos V, Antunes A (2018) Environmental assessment of cyanobacteria and cyanotoxins in European temperate freshwater systems – The Portuguese situation. 18th International Conference on Harmful Algae, Nantes, França, 24-26 October.
2018/09 - 2018/09 From Metabarcoding to Metagenomics: Unraveling the evolutionary genomics of host-microbe interactions and search for potential secondary metabolites (Poster). Alex, A; Aguero-Chapin, G; Antunes, A. 31st Congress ESPB -European Society for Comparative Physiology & Biochemistry, Porto, Portugal.
2018/08 - 2018/08 Galpert-Cañizares D, Fernández A; Herrera F; Antunes A; Molina-Ruiz R, Agüero-Chapin G. 2018. Surveying Alignment-free Features for Ortholog Detection in Related Yeast Proteomes by using Supervised Big Data Classifiers (doi: 10.3390/mol2net- 04-05468; Conference Paper). Proceedings of MOL2NET 2018, International Conference on Multidisciplinary Sciences, 4th edition.
2018/07 - 2018/07 Antunes A. (2018). Adaptive Genomics: relevance for tropical biology conservation. 55th Annual Meeting of the Association for Tropical Biology and Conservation, Kuching, Malaysia, 1-5 July, 2018.
2018/06/14 - 2018/06/15 Genetic biodiversity in a Cyanobacterial Culture Collection (LEGE CC). Moreira C, Vasconcelos V, Antunes A .14- 15 of June, Porto Portugal.
Meeting
 Annual Meeting of the Portuguese Society of Genetics.
2018/06 - 2018/06 Antunes A. 2018. Next-generation genomics for marine management and conservation. 5th International Marine Conservation Congress, Kuching, Malaysia, 24-28 June, 2018.
2018/05 - 2018/05 Almeida D, Domínguez-Pérez D, Ribeiro T, Castaño Y, Frazão B, Quintero. A, Vasconcelos V, Antunes A, Urbatzka R. (2018) Cytotoxic activity of five cnidarians crude extracts assayed on liver cancer cells. FAPRONATURA - 5th International Congress on Pharmacology of Natural Products, 25th-30th May, Topes de Collantes, Trinidad, Cuba.
2018/05 - 2018/05 Moreira C, Martins J, Vasconcelos V, Antunes A (2018) Environmental Screening of natural products from cyanobacteria in freshwater systems. 5th International Symposium on Pharmacology of Natural Products (FAPRONATURA 2018), Topes de Collantes, Cuba, 25-30 of May.
2016/10 - 2016/10 VASCONCELOS V, DOMÍNGUEZ-PÉREZ D, RODRÍGUEZ AA, OSÓRIO H, AZEVEDO J, CASTAÑEDA O, ANTUNES A. 2016. First evidence of Microcystin LR (MC-LR) in Zoanthus sociatus (Zoanthidea, Cnidaria). The 10th International Conference on Toxic Cyanobacteria (ICTC10), 23-28 October, 2016, Wuhan, China.
2016/09 - 2016/09 DOMÍNGUEZ-PÉREZ D, DURBAN J, AGUERO-CHAPIN G, TORRES-LOPEZ J, MOLINA-RUIZ R, REIS B, CALVETE JJ, VASCONCELOS V, ANTUNES A. 2016. Exploring the toxin expression in the Harderian gland's transcriptome of three Cuban snakes (Colubroidea). XII Pan American Section of the International Society on Toxinology in Miami Beach, Florida, United States of America, 18 to 22 September 2016.
2016/07 - 2016/07 CAVALEIRO F, DIAS C, GOUVEIA A, ANTUNES A. 2016. Aprender a Ilustrar a Ciência - Um projeto pedagógico do CMIA de Matosinhos. II Encontro em Ensino e Divulgação das Ciências. 8 July 2016. Universidade do Porto, Porto, Portugal.
2015/06 - 2015/06 AGÜERO-CHAPIN G, PÉREZ-MACHADO G, SÁNCHEZ-RODRÍGUEZ A, SANTOS MM, ANTUNES A. 2015. Alignment-free methods for the detection and specificity prediction of Adenylation domains. Evolution 2015. 26-30 June. Guarujá, São Paulo, Brazil.
2014/11 - 2014/11 ARIZMENDI-MEJIA R, LEDOUX JB, GARRABOU J, CIVIT S, ANTUNES A, THANOPOULOU Z, LINARES C. 2014. Responses of habitat-forming species to warming: vulnerability of a Mediterranean anthozoa during reproduction. 2nd International Ocean Research Conference (IORC). 16-21 November, Barcelona, Spain.
2014/05 - 2014/05 ANTUNES A. 2014. Next-generation genomics for bioproducts discovery. The 10th Asia-Pacific Marine Biotechnology Conference (APMBC). 4 - 8 May, Taipei, Taiwan.
2013/11 - 2013/11 ANTUNES A. 2013. Next-generation genomics and the conservation of biodiversity. 21st SEAZA Conference. 18 - 20 November, Ho Chi Minh city, Vietnam.
2013/08 - 2013/08 MATOS A, MOREIRA C, VASCONCELOS V, ANTUNES A. 2013. Molecular genetics identification of toxic producing cyanobacteria in Portuguese freshwater systems. 9th International Conference on Toxic Cyanobacteria. 11-16 Agosto, Pilanesberg, South Africa.
2013/03 - 2013/03 AGÜERO-CHAPIN G, SÁNCHEZ-RODRÍGUEZ A, HIDALGO-YANES PI, PÉREZ –CASTILLO Y, MOLINA-RUIZ R, MARCHAL K, VASCONCELOS V, ANTUNES A. 2013. An alignment-free approach for eukaryotic ITS2 annotation and phylogenetic inference. ISCB Africa ASBCB Conference on Bioinformatics, March 13-15, Casablanca, Morocco.
2013/02 - 2013/02 AGÜERO-CHAPIN G, PÉREZ-MACHADO G, MOLINA-RUIZ R, PÉREZ-CASTILLO Y, MORALES-HELGUERA A, VASCONCELOS V, ANTUNES A. 2013. TI2BioP: Topological Indices to Biopolymers. Its practical use to unravel cryptic bacteriocin-like domains. Chemical Biology: Methods, Progress, Perspectives. 11-12 February, Vienna, Austria.
2012/06 - 2012/06 MOREIRA C, VASCONCELOS V, ANTUNES, A. 2012. Phylogeny of Cyanobacteria: a tale of two species. Society for Molecular Biology and Evolution. June 23-26, Dublin, Ireland.
2012/06 - 2012/06 PEREIRA J, JOHNSON WE, O’BRIEN SJ, VASCONCELOS V, ANTUNES A. 2012. Evolutionary Genomics of The Hedgehog Gene Family in Metazoans: Identification of The Desert Hedgehog Gene on Avian Genomes. Society for Molecular Biology & Evolution, June 23-26, Dublin, Ireland.
2012/06 - 2012/06 GOMES C, VASCONCELOS V, GUILHERMINO L. ANTUNES, A. 2012. Assessing the molecular evolution of the invasive bivalve Corbicula fluminea in Portugal. Society for Molecular Biology & Evolution, June 23-26, Dublin, Ireland.
2011/07 - 2011/07 JOUSSEF SP, VASCONCELOS V, ANTUNES, A. 2011. Evolutionary genetics of the AMT domain of the microcystin gene cluster in various cyanobacteria genera. 2º Congreso Ibérico de Cianotoxinas. 7th to 8th July, Seville, Spain.
2011/06 - 2011/06 AGÜERO-CHAPIN G, DE LA RIVA G, MOLINA-RUIZ R, SÁNCHEZ-RODRÍGUEZ A, PÉREZ-MACHADO G, VASCONCELOS V, ANTUNES A. 2011. Alignment-free Models based on the TI2BioP methodology to identify Rnase III protein members. 2nd Iberic Meeting on Medicinal Chemistry. June 12-15, Porto, Portugal.
2011/03 - 2011/03 REGUEIRAS A, ALEX A, TAMAGNINI P, SANTOS A, ANTUNES A, VASCONCELOS V. 2011. Symbiotic cyanobacteria in marine sponges: abundance, phylogeny and chemodiversity. 1st International Symposium on Sponge Microbiology, 21-22 March, Würzburg, Germany.
2010/09 - 2010/09 Alex A, Vasconcelos V, Tamagnini P, Santos A, Antunes A. 2010. Cyanobacteria-Sponge Symbioses: An evolutionary genomic approach. VIII - World Sponge Conference, 20-24 September, Girona, Spain.
2010/08 - 2010/08 Fathalli, A., Jenhani, A., Moreira, C., Antunes, A., Welker, M., Romdhane M., Vasconcelos, V. 2010. Toxicity assessment and phylogenetic characterization of Microcystis strains isolated from tunisian freshwaters. 8th International Conference on Toxic Cyanobacteria. 29th August-4th September, Istambul,
2010 - 2010 Agüero-Chapin G, Pérez-Machado G, Molina-Ruiz R, Pérez-Castillo Y, Morales-Helguera A, Vasconcelos V, Antunes A. 2010. A QSFR-like model to detect proteinaceous bacteriocins. Its practical application to the discovery of new bacteriocin-like domains. IV International Symposium on Chemistry, 1-4 of Jun 2010, Santa Clara, Cuba.
2010 - 2010 Moreira C, Vasconcelos V, Antunes A. 2010. Evolution and Phylogenetics of Worldwide Strains of the Invasive Cyanobacterium Cylindrospermopsis raciborskii. SMBE 2010 - Annual Meeting of the Society for Molecular Biology and Evolution. 4-8 Julho, Lyon, France.
2009 - 2009 PEREIRA SR, VASCONCELOS VM, ANTUNES A. 2009. The evolutionary dynamics of the catalytic subunits of Phosphoprotein Phosphatases in the Metazoan. EUROPHOSPHATASES 2009 - Protein phosphatases in development and disease. 14 - 18 July 2009 - Egmond aan Zee, The Netherlands.
2009 - 2009 Freitas M, Regueiras A, Martins A, Moreira C, Antunes A, Vasconcelos VM (2009). Comparação de diferentes métodos na detecção e quantificação de cianobactérias e suas toxinas. CIC 2009: 1º Congresso Ibérico de Cianotoxinas, 6-7 Julho, Porto, Portugal.
2009 - 2009 Martins A, Moreira C, Freitas M, Regueiras A, Antunes A, and Vasconcelos V (2009). Monitoring Microcystis sp. abundance and toxigenicity in a Northern Portugal recreational and water supply system by Real-Time PCR. SETAC Europe: 19th Annual Meeting, 31st May-4 June, Göteborg, Sweden.
2009 - 2009 Regueiras A, Freitas M, Martins A, Moreira C, Antunes A, Vasconcelos V (2009). Monitoring toxic cyanobacteria and their toxins in Portuguese freshwaters using immunoassays and molecular techniques. SETAC Europe: 19th Annual Meeting, 31st May-4 June, Göteborg, Sweden.
2009 - 2009 Agüero-Chapin G, González-Díaz H, de La Riva GA, Pérez-Machado G, Antunes A. 2009. QSAR study to polymeric sequences embedded in a novel 2D lattice. XIII Congreso Nacional de Bioquímica y Biología Molecular de Plantas, Session Omica de Plantas, Guanajuato, México, 9-13 Nov 2009.
2008 - 2008 DA FONSECA R, VASCONCELOS VM, ANTUNES A 2008. Molecular evolution of mammalian glutathione transferases: the alpha family. Molecular Biology and Evolution Symposium, Barcelona, Junho 2008.
2008 - 2008 PEREIRA S, VASCONCELOS VM, ANTUNES A 2008. The evolutionary dynamics of the protein phosphatases in the Metazoan. Molecular Biology and Evolution Symposium, Barcelona, Junho 2008.
2008 - 2008 RAMOS V, SEABRA R, SANTOS A, ANTUNES A, VASCONCELOS V, TAMAGNINI P 2008. Polyphasic evaluation and phylogenetic analysis of a marine cyanobacterium strain related to a thermophilic cyanobacteria. 7th European Workshop on the Molecular Biology of Cyanobacteria, Republica Checa, 31 de Agosto a 4 Setembro.
2007 - 2007 DA FONSECA RR, ANTUNES A (2007) Mammalian cytochromes P450: an example of protein evolution at the functional level. VII European Symposium of The Protein Society – From Proteins to Proteome, Stockholm/Uppsala, Sweden, Maio 2007.
2007 - 2007 Moreira C, Saker ML, Antunes A, Vasconcelos V, 2007. Phylogenetic Analysis of the Cyanobacterium Cylindrospermopsis raciborskii isolates from Portuguese Freshwaters. MICRO’07 BIOTEC’07-XXXIII JPG congress, Lisboa, Portugal, 30 Novembro a 2 de Dezembro.
2006 - 2006 OSÓRIO D, CUNHA E, ANTUNES A, RAMOS MJ (2006) Influence of Positive Selection on Proteins from the Ribonuclease A Superfamily. REQUIMTE-4º Encontro, Fátima, Portugal, Março de 2006.
2006 - 2006 MARQUES A, ANTUNES A, FERNANDES PA, RAMOS MJ (2006) Comparative Evolutionary Genomics of Aß-Binding Alcohol Dehydrogenase (ABAD): A Novel Protein Involved in Alzheimer´s Disease. REQUIMTE-4º Encontro, Fátima, Março de 2006.
2006 - 2006 BRANCO RJF, ANTUNES A, RAMOS MJ (2006) Phylogenetic Analysis of the Cu, Zn-Superoxide Dismutase Enzyme in Mammals. Quantum Pharmacology- 30 Years on The MGMS Oxford Meeting Series, Oxford, Setembro de 2006.
2005 - 2005 MARQUES A, ANTUNES A, FERNANDES P, RAMOS MJ. (2005) Proteomic and genomic comparative analysis of ABAD, a novel protein implicated in Alzheimer’s disease. 7º Encontro Nacional de Química-Física, Porto, Portugal Maio de 2005.
2005 - 2005 FONSECA R, ANTUNES A, MELO A, RAMOS MJ. (2005) Issues on the modeling of Cytochrome P450s. Biomolecular simulations, Ireland, Setembro de 2005.
2005 - 2005 ANTUNES A, RAMOS MJ. (2005) Evolutionary genomics of fish mitochondrial pseudogenes. Comparative and Functional Genomics. 24th Summer Symposium in Molecular Biology, Penn State University, Pennsylvania, United States of America, Julho de 2005.
2005 - 2005 LUO S, JOHNSON WE, KIM J.-H., MARTENSON J, ANTUNES A, TARASOV V, O´BRIEN SJ. (2005) Evolutionary history and genomic diversity in the worldwide in situ and ex situ tiger (Panthera tigris) populations. 2nd International Symposium of Conservation Genetics. Asilomar Conference Grounds, Monterey, California, United States of America, Setembro de 2005.
2001 - 2001 ANTUNES A, FARIA R, WEISS S, ALEXANDRINO P (2001) Complex evolutionary history in the brown trout: insights on the recognition of conservation units. 2001 Society of Conservation Biology Annual Meeting, Hilo, Hawaii, Estados Unidos da América, Julho de 2001
2000 - 2000 ANTUNES A, FARIA R, ALEXANDRINO P (2000) Management conservation of the brown trout in Portugal: criticisms and suggestions. 1º Encontro da Sociedade Ibérica de Recursos Genéticos Animais, Santarém, Portugal, Outubro de 2000.
1998 - 1998 ANTUNES A (1998) Estudo do regime alimentar de Lipophrys pholis L. e Coryphoblennius galerita L. no Norte de Portugal: variação com a sazonalidade, comprimento e sexo. X Simpósio Ibérico de Estudos de Bentos Marinho, Algarve, Portugal, Fevereiro de 1998.
1994 - 1994 MÚRIAS A, ANTUNES A, SEQUEIRA F, SANTOS M, VIEIRA N (1994) Estudo e Caracterização dos Povoamentos Bentónicos Intertidais (Substracto Rochoso) do Norte de Portugal. VII Simpósio Ibérico de Estudos de Bentos Marinho, Girona, Espanha.
Symposium
1994 - 1994 BORGES MT, ANTUNES A, ALMEIDA R (1994) Preliminary assessment of an artificial diet for juveniles of the European Clam Tapes decussatus (L.). V Congreso Nacional de Acuicultura, Espanha.

Jury of academic degree

Topic
Role 		Candidate name (Type of degree)
Institution / Organization
2020 HOW SATELLITE DNA COMES INTO PLAY IN GENOMES? A RODENTIA CELL-MODEL APPROACH
(Thesis) Main arguer
 Ana Cristina Mendes da Silva (PhD)
Universidade de Trás-os-Montes e Alto Douro, Portugal
2019 The Bovinae rob(1;29) as a model to study the translocation mechanism underlying the most frequent Robertsonian Centric Fusions
(Thesis) Arguer
 Ana Cláudia Brandão Gomes Paulo Escudeiro. (PhD)
Universidade de Trás-os-Montes e Alto Douro, Portugal
2018 Genetic variants associated with ectopic calcifications.
Thesis Member
 BRUNA DA CONCEIÇÃO CORREIA PARREIRA (PhD)
Universidade do Algarve, Portugal
2018 Symbiotic relationships between cyanobacteria and marine sponges: abundance, geographical distribution, phylogeny and chemdiversity.
Thesis Member
 Ana Vanessa Basto Regueiras (PhD)
Universidade do Porto Faculdade de Ciências, Portugal
2017 Study of the reproductive biology and chemical communication of sea cucumbers (Holothuria arguinensis and H. mammata)
(Thesis) Arguer
 Nathalie Véronique Bernardette Marquet (PhD)
Universidade do Algarve, Portugal
2016 The patchwork pattern of rodent genomes: species-specific organization of orthologous DNA sequences.
Thesis Member
 Ana Maria Correia Vieira da Silva (PhD)
Universidade de Trás-os-Montes e Alto Douro, Portugal
2016 Cyanobactins and other Bioactive Compounds from Cyanobacteria
Thesis Member
 Joana Soares de Oliveira Martins. (PhD)
Universidade do Porto Faculdade de Ciências, Portugal
2015 Uncovering the Evolution of Mammalian Sensory Perception Using Next Generation Sequencing Technologies
(Thesis) Arguer
 Graham M. Hughes (PhD)
University College Dublin, Ireland
2014 Repetitive DNA sequences in rodentia genomes: its involvement in chromosome architecture reshuffling and in genome functionality”. Provas de Doutoramento em “Genética Molecular Comparativa e Tecnológica,
(Thesis) Arguer
 Ana Isabel do Paço Teixeira (PhD)
Universidade de Trás-os-Montes e Alto Douro, Portugal
2006 Computational Studies on Cytochromes P450
Supervisor
 Rute Andreia Rodrigues da Fonseca (PhD)
Universidade do Porto Faculdade de Ciências, Portugal

Course / Discipline taught

Academic session Degree Subject (Type) Institution / Organization
2018 - Current Lectured “Comparative Genomics” - “IGNITE Summer School”, Mediterranean Institute for Life Sciences, Split, Croatia. (Postgraduate Certificate) Ignite, Australia

Mediterranean Institute for Life Sciences, Croatia
2011 - Current Molecular and Cellular Biology, Cytogenetic and Molecular Genetics, Population and Formal Genetics, Animal Histophysiology, In Silico Genomics, Development Biology, Human Biology, Toxicogenomics and Toxicoproteomics. Funtional Omics, Non-Human Forensic Applications, Blue Biotechnology, Genomics and Synthetic Biology Topics. (Licenciatura) Universidade do Porto Faculdade de Ciências, Portugal
2003 - 2018 Recent Advances in Conservation Genetics given in several cities/countries Virginia, Hawaii, Florida, Puerto Rico (USA), Republic of Panama, South Africa and Hungary. (Postgraduate Certificate) American Genetic Association, United States

Evaluation committee

Activity description
Role 		Institution / Organization Funding entity
2014 - 2019 Evaluator, National Center of Science and Technology Evaluation, Republic of Kazakhstan
Evaluator
2012 - 2018 Evaluator, National Research Council, Romanian Government.
Evaluator
2012 - 2016 Evaluator, National Research Council, Czech Republic
Evaluator
2015 - 2015 Evaluator, Fund for Scientific Research-FNRS (F.R.S.-FNRS), Belgium
Evaluator
 Fonds de la Recherche Scientific
2009 - 2014 Evaluator, Portuguese Foundation for Science and Technology (FCT)
Evaluator
 Fundação para a Ciência e a Tecnologia, Portugal
2013 - 2013 Evaluator, Israeli Science Foundation
Evaluator
2011 - 2011 Evaluator, Agence Nationale de la Recherche, Paris, França
Evaluator
2006 - 2006 Evaluator, National Science Foundation - US National Science
Evaluator

Journal scientific committee

Journal title (ISSN) Publisher
2019 - Current Oceans (2673-1924) MDPI AG
2015 - 2018 PLoS ONE (1932-6203) Public Library of Science
2014 - 2015 Current Topics in Medicinal Chemistry (1568-0266) Bentham Science
2013 - 2014 Toxins (2072-6651) MDPI AG

Other jury / evaluation

Activity description Institution / Organization
2002 - Current Reviewer of the journals: 1) Molecular Biology and Evolution, 2) Molecular Ecology, 3) Bioinformatics, 4) PLoS One 5) BMC Evolutionary Biology, 6) BMC Genomics, 7) Conservation Biology, 8) Molecular Phylogenetics and Evolution, 9) Genomics, 10) Gene, 11) Biological Invasions, 12) Animal Genetics, 13) Journal of Theoretical Biology, 14) Journal of Heredity, 15) Conservation Genetics, 16) Genetica, 17) Animal Conservation, 18) Journal of Fish Biology, 18) Ecology of Freshwater Fish Universidade do Porto, Portugal

Universidade do Porto Centro Interdisciplinar de Investigação Marinha e Ambiental, Portugal
Distinctions

Award

2018 Annual Regional Award. “Combinación de medidas de similitud para la detección escalable de genes ortólogos en especies de levaduras
Ministerio de Ciencia Tecnologia y Medio Ambiente, Cuba

Other distinction

2014 National Award of the Cuban Academy of Science.
2001 Young Researcher-Bursary to attend the 2001 Society of Conservation Biology Annual Meeting
2000 Young Researcher-Bursary to attend the 2000 Society of Conservation Biology Annual Meeting
1999 NATO Advanced Studies Institute. June 1999.
NATO, Belgium