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Ricardo Oliveira is graduated in Biochemistry from the Faculty of Sciences of the University of Porto (FCUP) and the Abel Salazar Institute of Biomedical Sciences (ICBAS) since 2015, having completed his final internship at the Science for Life Laboratory (SciLifeLab) / Stockholm University, Sweden under the Erasmus+ program. Master in Biotechnology from the University of Minho (UM) since 2017, having carried out his master's dissertation at the company Biomode SA. In 2018, he was awarded an FCT PhD scholarship (first place in the Agricultural and Food Technologies panel) for the development of aptamers for staphylococcal enterotoxins using nucleic acid mimics (NAMs) at the Faculty of Engineering of the University of Porto (FEUP) in collaboration with the National Institute for Agricultural and Veterinary Research, I. P. (INIAV). During this period, he was a visiting PhD student at the Department of Cell Biology and Molecular Genetics, University of Maryland, USA, where he strengthened his knowledge in aptamer selection approaches with NAMs. He completed his PhD in Chemical and Biological Engineering in 2023. Currently, Postdoctoral Fellow at National Institute for Agricultural and Veterinary Research, I. P. (INIAV) focusing on bacteriology, food safety and diagnostic/therapeutic solutions (special interest in the development of aptamers). Awarded the Prize Prof. Dr. Fernando Serrão by FCUP (2015) for his distinction in the area of Organic Chemistry. He was recognised by the Federation of European Microbiology Societies (FEMS) as one of the 20 most talented and promising researchers from around the world and invited to the FEMS Summer School for Postdocs 2024, where he won the best scientific project proposal. To date, R. Oliveira has authored or co-authored 21 papers in peer-reviewed international journals and 5 book chapters. He has more than 150 citations and an H-index of 8 (ResearchGate. September 2024). He was also involved on 7 oral communications (two invited) and 28 poster communications in international congresses. He participates (or participated) as researcher in several FCT-funded projects (PTDC/CVT-CVT/4620/2021, FCT_128_596771122, POCI-01-0145-FEDER-028659, PTDC/DTP-PIC/4562/2014) and in three European Cost Actions (CA22105, CA21145 and CA20103). To date, he successfully completed the supervision of 4 bachelor students and mentored several other bachelor's, master's and doctoral students. R. Oliveira reviews manuscripts for several Q1 journals and is on the editorial boards of Frontiers in Microbiology, Frontiers in Cellular and Infection Microbiology, Frontiers in Antibiotics, Molecular and Cellular Probes and PloS one. He has been a member of the organising committee for the "Simpósios INIAV para a Segurança Alimentar", practical courses for primary/secondary school teachers and various study visits to INIAV. R. Oliveira has also taught theoretical and practical courses for the Masters in Bioengineering at FEUP.
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Identification

Personal identification

Full name
Ricardo Bruno da Costa Oliveira

Citation names

  • Oliveira, Ricardo

Author identifiers

Ciência ID
441A-683A-40E8
ORCID iD
0000-0001-9175-4278

Email addresses

  • ricardo.oliveira@iniav.pt (Professional)

Knowledge fields

  • Agrarian Sciences - Agrarian and Food Biotechnology - Diagnostics
  • Engineering and Technology - Other Engineering and Technologies - Food and Beverages
  • Natural sciences - Biological Sciences - Microbiology
  • Natural sciences - Biological Sciences - Biochemical Research Methods
  • Medical and Health Sciences - Medical Biotechnology - Health-Related Biotechnology

Languages

Language Speaking Reading Writing Listening Peer-review
Portuguese (Mother tongue)
English Advanced (C1) Advanced (C1) Advanced (C1) Advanced (C1)
Education
Degree Classification
2018/10 - 2023/10
Concluded
 Chemical and Biological Engineering (Doutoramento)
Universidade do Porto Faculdade de Engenharia, Portugal
"Application of nucleic acid mimics (NAM) in the selection of aptamers against staphylococcal enterotoxins" (THESIS/DISSERTATION)
 Approved unanimously
2023/05/08 - 2023/06/12
Concluded
 Transferable skills for engineering: basic teaching skills (Pós-Graduação)
Universidade do Porto Faculdade de Engenharia, Portugal
 18
2016 - 2017
Concluded
 Biotechnology (Mestrado)
Universidade do Minho, Portugal
"Design and validation of an alternative molecular method using peptide nucleic acid fluorescence in situ hybridization (PNA FISH) for the detection of Campylobacter spp. in food samples" (THESIS/DISSERTATION)
 19
2012/10 - 2015/10
Concluded
 Biochemistry (Licenciatura)
Universidade do Porto Faculdade de Ciências, Portugal

Universidade do Porto Instituto de Ciências Biomédicas Abel Salazar, Portugal
"Identification of multi-drug resistant Mycobacterium tuberculosis by padlock probes and lateral flow nucleic acid biosensors" (THESIS/DISSERTATION)
 17 (ECTS Grading scale: Class A - Top Student)
Affiliation

Science

Category
Host institution 		Employer
2023/12 - Current Postdoc (Research) Instituto Nacional de Investigação Agrária e Veterinária, I. P. , Portugal
Instituto Nacional de Investigação Agrária e Veterinária, I. P. , Portugal
2023/05 - 2023/11 Researcher (Research) Instituto Nacional de Investigação Agrária e Veterinária, I. P. , Portugal
Instituto Nacional de Investigação Agrária e Veterinária, I. P. , Portugal
2023/02 - 2023/05 Researcher (Research) Universidade do Porto Faculdade de Engenharia, Portugal
Universidade do Porto Faculdade de Engenharia, Portugal
2019/05 - 2019/07 Visiting Researcher (Research) Fundação para a Ciência e a Tecnologia, Portugal
University of Maryland at College Park Cell Biology and Molecular Genetics, United States
2018/02 - 2018/09 Researcher (Research) Universidade do Minho Centro de Engenharia Biológica, Portugal
Universidade do Minho Centro de Engenharia Biológica, Portugal
2015/02 - 2015/07 Research Trainee (Research) Stockholms Universitet, Sweden
Science for Life Laboratory (SciLifeLab), Sweden
2013/11 - 2014/06 Research Trainee (Research) REQUIMTE LAQV Porto, Portugal
Universidade do Porto Faculdade de Ciências, Portugal

Others

Category
Host institution 		Employer
2018/10 - 2023/02 PhD student Fundação para a Ciência e a Tecnologia, Portugal
Universidade do Porto Faculdade de Engenharia, Portugal
(...)
2016/09 - 2017/11 Master Student Biomode SA, Portugal
Projects

Grant

Designation Funders
2018/10 - 2022/10 Locked nucleic acid (LNA) aptamers for the detection of Staphylococcal Enterotoxins
SFRH/BD/138883/2018
PhD Student Fellow
Fundação para a Ciência e a Tecnologia
Concluded

Contract

Designation Funders
2023/05 - Current APTAcoli: NAM-aptamers for blocking enterotoxins in pig colibacillosis
PTDC/CVT-CVT/4620/2021
Post-doc Fellow
Instituto Nacional de Investigação Agrária e Veterinária, Portugal
 Fundação para a Ciência e a Tecnologia
Ongoing
2023/02 - 2023/05 FLUDS - Desenvolvimento de sistemas baseados em espectroscopia de fluorescência para deteção microbiana
NORTE-01-0247-FEDER-046970
Research Fellow
Universidade do Porto Faculdade de Engenharia, Portugal
 Fundação para a Ciência e a Tecnologia
Concluded
2018/10 - 2023/02 NAM4toxins - De novo selection of toxin-specific aptamers using nucleic acid mimics
POCI-01-0145-FEDER- 028659
PhD Student Fellow
Instituto Nacional de Investigação Agrária e Veterinária, Portugal

Universidade do Porto Faculdade de Engenharia, Portugal
Fundação para a Ciência e a Tecnologia
Concluded
2018/02 - 2018/09 Coded-FISH: Development of a novel colour-coded RING FISH method: an innovative tool for the detection of antibiotic resistant clinical pathogens
PTDC/DTP-PIC/4562/2014
Research Fellow
Universidade do Minho Centro de Engenharia Biológica, Portugal
 Fundação para a Ciência e a Tecnologia
Concluded

Other

Designation Funders
2023/09 - Current BeSafeBeeHoney - BEekeeping products valorization and biomonitoring for the SAFEty of BEEs and HONEY
CA22105
Researcher
Instituto Nacional de Investigação Agrária e Veterinária, Portugal
 European Cooperation in Science and Technology
Ongoing
2022/09 - Current EURESTOP - European Network for diagnosis and treatment of antibiotic-resistant bacterial infections
CA21145
Researcher
Instituto Nacional de Investigação Agrária e Veterinária, Portugal
 European Cooperation in Science and Technology
Ongoing
2022/05 - Current BETTER - Biosecurity Enhanced Through Training Evaluation and Raising Awareness
CA20103
Researcher
Instituto Nacional de Investigação Agrária e Veterinária, Portugal
 European Cooperation in Science and Technology
Ongoing
2022/01 - 2023/06 NAMShield - Controlo de Salmonella spp, na indústria pecuária, através de aptâmeros nanoensapsulados
POCI-01-0247-FEDER-069756
Researcher
Instituto Nacional de Investigação Agrária e Veterinária, Portugal
 Fundação para a Ciência e a Tecnologia
Concluded
2020/05 - 2020/12 NAM4Covid19 - Nucleic acid mimic lateral flow assay (NAM-LFA) for the detection of Covid19
19128_596771122
Researcher
Instituto Nacional de Investigação Agrária e Veterinária, Portugal
 Fundação para a Ciência e a Tecnologia
Concluded
Outputs

Publications

Book chapter
  1. Araújo, Daniela; Ana Rita Silva; Oliveira, Ricardo; Campos, Ana Maria; Barros, Maria Margarida; Rosca, Aliona S.; Mira, Nuno Pereira; et al. "Probiotics, Prebiotics, and Synbiotics as Antimicrobials: One-Health Perspective". In Advances in Health and Disease, edited by Lowel T.Duncan. United States: Nova Science Publishers, 2024.
    Published
  2. Araújo, Daniela; Oliveira, Ricardo; Ana Maria Campos; Maria Margarida Barros; Andreia S. Azevedo; Ana Barbosa; Laura Cerqueira; et al. "Exploring the Spectrum of Biofilm Complexity". In Microbial Biofilm Dynamics.. Taylor & Francis Group, LLC, 2024.
    Accepted
  3. Castro, Joana; Oliveira, Ricardo; Campos, Ana Maria; Barros, Maria Margarida; Andreia Azevedo; Barbosa, Ana; Cerqueira, Laura; et al. "Laboratory Models for Biofilm Studies". In Microbial Biofilm Dynamics. United Kingdom: Taylor and Francis, 2024.
    Accepted
  4. Oliveira, Ricardo; Azevedo, Andreia S.; Mendes, Luzia. "Application of Nucleic Acid Mimics in Fluorescence In Situ Hybridization". In Fluorescence In-Situ Hybridization (FISH) for Microbial Cells, 69-86. Springer US, 2021.
    Published • 10.1007/978-1-0716-1115-9_5
  5. Oliveira, Ricardo; Almeida, Carina; Azevedo, Nuno Filipe. "Detection of Microorganisms by Fluorescence In Situ Hybridization Using Peptide Nucleic Acid". In Methods in Molecular Biology, 217-230. Springer US, 2020.
    Published • 10.1007/978-1-0716-0243-0_13
Conference abstract
  1. Margarida Barros; Oliveira, Ricardo; Pinho, Eva; Azevedo, Nuno Filipe; Almeida, Carina. "Selection of DNA aptamers for the detection of foodborne toxins". Paper presented in 36th EFFoST International Conference 2022, Dublin, 2022.
  2. Oliveira, Ricardo; Pinho, Eva. "Prevalência e diversidade de Staphylococcus aureus e enterotoxinas estafilocócicas em leite cru na região norte de Portugal". Paper presented in Microbiologia 2022, 2022.
  3. Oliveira, Ricardo; Pinho, Eva; Azevedo, Nuno Filipe; Almeida, Carina. "In silico prediction of three-dimensional structure and docking of aptamers containing nucleic acid mimics (NAMs)". Paper presented in 4th Doctoral Congress in Engineering, Porto, 2021.
  4. Oliveira, Ricardo; Pinho, Eva; Azevedo, Nuno Filipe; Almeida, Carina; Oliveira, Ricardo; Pinho, Eva; Azevedo, Nuno Filipe; Almeida, Carina. "Easy-to-use pipeline to predict NAM-aptamers 3D structure and docking". Paper presented in World Microbe Forum, 2021.
  5. Oliveira, Ricardo; Pinho, Eva; Azevedo, Nuno Filipe; Almeida, Carina. "Surveillance study of Staphylococcus aureus in raw milk from Northern Portugal: enterotoxins and resistance genetic profiles". Paper presented in Microbiotec'21, 2021.
  6. Oliveira, Ricardo; Ana Sousa; Pinho, Eva; Azevedo, Nuno Filipe; Jeffrey Destefano; Almeida, Carina. "De novo selection of toxin-specific aptamers using nucleic acid mimic". Paper presented in Microbiotec 19, 2019.
Conference paper
  1. Oliveira, Hugo Alexandre Mendes; Duarte, José; Domingues, Rita; Vieira, Maria; Silva, Sónia Carina; Santos, Sílvio Roberto Branco; Oliveira, Ricardo; et al. "Understanding the complete reservoir of bacteriophage depolymerases against A. baumannii capsules". 2022.
Conference poster
  1. Oliveira, Ricardo; Azevedo, Nuno Filipe; Almeida, Carina. "Development of an aptasensor for the detection of staphylococcal enterotoxin A". Paper presented in Encontro Ciência 2024, 2024.
  2. Campos, Ana Maria; Barros, Maria Margarida; Oliveira, Ricardo; Castro, Joana; Araújo, Daniela; Outor-Monteiro, Divanildo; Carina Almeida. "Aptamers as Novel Therapeutics Against Enterotoxigenic Escherichia coli: Targeting Fimbrial Adhesion". Paper presented in Ciência 2024, 2024.
  3. Oliveira, Ricardo; Araújo, Daniela; Beatriz Loureiro; Castro, Joana; Silva, Sónia; Almeida, Carina. "ST8475: a new sequence type identified in methicillin-resistant staphylococci (MRS) in Portugal". Paper presented in Congress of Microbiology and Biotechnology 2023, 2023.
  4. Barros, Maria Margarida; Oliveira, Ricardo; Castro, Joana; Campos, Ana Maria; Almeida, Gonçalo; Araújo, Daniela; Silva, Sónia; Outor-Monteiro, Divanildo; Almeida, Carina. "Detecting Enterotoxigenic Escherichia coli in animal production: method development and validation". Paper presented in Congress of Microbiology and Biotechnology 2023, 2023.
  5. Araújo, Daniela; Castro, Joana; Oliveira, Ricardo; Oliveira, Hugo; Fernandes, Liliana; Carvalho, Isabel; Cho, GS; et al. "Characterization of molecular features and virulence profile of Klebsiella pneumoniae and Klebsiella oxytoca isolates from companion animals in Portugal.". Paper presented in Congress of Microbiology and Biotecnology, 2023.
  6. Castro, Joana; Araújo, Daniela; Oliveira, Hugo; Fernandes, Liliana; Oliveira, Ricardo; Cho, GS; Franz, C; et al. "Genomic and phenotypic profiling of multidrug- resistant Klebsiella pneumoniae and Klebsiella variicola isolated from northern Portuguese hospitals". Paper presented in Congress of Microbiology and Biotecnology, 2023.
  7. Oliveira, Ricardo; Pinho, Eva; Azevedo, Nuno Filipe; Almeida, Carina. "Selection of nucleic acid mimic (NAM) aptamers: from de novo SELEX to post-SELEX enhancement". Paper presented in 5th Doctoral Congress Engineering (DCE23), 2023.
  8. Barros, Maria Margarida ; Oliveira, Ricardo; Campos, Ana Maria; Castro, Joana; Araújo, Daniela ; Silva, Sónia; Outor-Monteiro, Divanildo; Almeida, Carina. "Aptamers for blocking Enterotoxigenic Escherichia coli". Paper presented in Dare2Change: Inovattion-Driven Agrifood Business, 2023.
  9. Oliveira, Ricardo; Pinho, Eva; Azevedo, Nuno Filipe; Almeida, Carina. Corresponding author: Oliveira, Ricardo. "Development of an aptamer based-biosensor for the detection of food toxins". Paper presented in Dare2Change, 2023.
  10. Nunes, Bárbara; Barata, Ana; Oliveira, Ricardo; Guedes, Hugo; Almeida, Carina; Silva, Gabriela; M. J. Saavedra; Almeida, Gonçalo. "Fecal carriage of Listeria monocytogenes in dairy cows". Paper presented in Under One Health Concept, 2022.
  11. Bárbara Nunes; Ana Rita Barata; Oliveira, Ricardo; Guedes, Hugo; Carina Manuela Fernandes Almeida; da Silva, Gabriela Jorge; Saavedra, Maria José ; Almeida, Gonçalo. Corresponding author: Almeida, Gonçalo. "Fecal carriage of Listeria monocytogenes in dairy". Paper presented in I International Congress on Animal and Veterinary Sciences ¿Under One Health Concept¿, 2022.
  12. Campos, Ana Maria; Oliveira, Ricardo; Vieira, Filipa ; Silva, Regina A.; Silva, Regina ; Almeida, Carina. ""Optimisation of a molecular methodology for the detection of virulence factors of enterotoxigenic Escherichia coli in the diagnosis of swine colibacillosis"". 2022.
  13. Oliveira, Ricardo; Pinho, Eva; Almeida, Gonçalo; Nuno Azevedo; Carina Manuela Fernandes Almeida. Corresponding author: Carina Manuela Fernandes Almeida. "Prevalence and diversity of Staphylococcus aureus and staphylococal enterotoxins in raw milk from the North of Portugal". Paper presented in Microbiology 2022, 2022.
  14. Oliveira, Ricardo; Pinho, Eva; Almeida, Gonçalo; Azevedo, Nuno Filipe; Almeida, Carina. "Characterization of Staphylococcus aureus and staphylococcal enterotoxins in raw milk from northern Portugal". Paper presented in FEMS Conference on Microbiology, 2022.
  15. Bárbara Nunes; Ana Rita Barata; Oliveira, Ricardo; Guedes, Hugo; Carina Manuela Fernandes Almeida; Gabriela Silva; Saavedra, Maria José ; Almeida, Gonçalo. Corresponding author: Almeida, Gonçalo. "Raw milk as a source of Listeria monocytogenes". Paper presented in workshop of the National Reference Laboratories for Listeria monocytogenes, 2022.
  16. Oliveira, Ricardo; Pinho, Eva; DeStefano, Jeffrey; Azevedo, Nuno Filipe; Almeida, Carina. "Aptamers For Detection of Staphylococcal Enterotoxins in Food Samples". Paper presented in Dare2Change, 2021.
  17. Oliveira, Ricardo; Pinho, Eva; Almeida, Gonçalo; Azevedo, Nuno Filipe; Almeida, Carina. "Prevalence of Staphylococcus aureus and staphylococcal enterotoxins in raw milk from Northern Portugal". Paper presented in Dare2Change, 2021.
  18. Ana Rita Barata; Oliveira, Ricardo; Bárbara Nunes; Guedes, Hugo; Almeida, Carina; Saavedra, Maria José ; Silva, Gabriela; Almeida, Gonçalo. "Raw milk as a source of food zoonotic pathogens". Paper presented in Dare2Change, 2021.
  19. Oliveira, Ricardo; Pinho, Eva; Azevedo, Nuno Filipe; Almeida, Carina. "In silico prediction of the functional 3D conformation of NAM aptamers". Paper presented in 1st Symposium on Oligonucleotide Technologies and Therapeutics, 2021.
  20. Oliveira, Ricardo; Pinho, Eva; Azevedo, Nuno Filipe; Almeida, Carina. "Prediction of single-stranded nucleic acids structure: from the sequence to the three-dimensional docking of aptamers". Paper presented in World Microbe Forum 2021, 2021.
  21. Vindeirinho, Joao; Pinho, Eva; Oliveira, Ricardo; Azevedo, Nuno Filipe; Almeida, Carina. "SARS-CoV-2 detection: a simple solution for end-point sensing of RT-PCR products". Paper presented in 1st Symposium on Oligonucleotide Technologies and Therapeutics, 2021.
  22. Oliveira, Ricardo; Pinho, Eva; Azevedo, Nuno Filipe; Almeida, Carina. "De novo SELEX of toxin specific aptamers using nucleic acid mimics (NAMs)". Paper presented in Encontro Ciência 2020, 2020.
  23. Oliveira, Ricardo; Sousa, Ana Luísa; Pinho, Eva; Azevedo, Nuno Filipe; Almeida, Carina. "Prediction and design of aptamer structures and their interaction with a target molecule". Paper presented in Microbiotec 19 - Congress of Microbiology and Biotechnology 19, Coimbra, Portugal, 2019.
  24. Oliveira, Ricardo; Ferreira-Bravo, Irani A; Sousa, Ana Luísa; Pinho, Eva; Azevedo, Nuno Filipe; DeStefano, Jeffrey; Almeida, Carina. "Application of nucleic acid mimics (NAMs) in the selection of aptamers against staphylococcal enterotoxins". Paper presented in 1º Simpósio INIAV para a Segurança Alimentar - Rumo à Alimentação do Futuro, Vila do Conde, Portugal, 2019.
  25. Ana Sousa; Oliveira, Ricardo; Pinho, Eva; Azevedo, Nuno Filipe; Almeida, Carina. "Prediction of aptamers´ structures and their interaction with staphylococcal enterotoxin A". Paper presented in 1º Simpósio INIAV para a Segurança Alimentar, 2019.
  26. Oliveira, Ricardo; Azevedo, Andreia S; Fernandes, Ricardo; Azevedo, Nuno Filipe; Almeida, Carina. "Identification of genes associated with beta lactam resistance in clinical isolates of Gram negative bacteria". Paper presented in FEMS 2019 - 8th Congress of European Microbiologists, Glasgow, Scotland, 2019.
  27. Oliveira, Ricardo; Sousa, Ana Luísa; Pinho, Eva; Almeida, Gonçalo; Azevedo, Nuno Filipe; Almeida, Carina. "De novo selection of toxin-specific aptamers using nucleic acid mimics". Paper presented in Doctoral Congress in Engineering 2019 - FEUP, Porto, Portugal, 2019.
  28. Oliveira, Ricardo; Rocha, Rui; Sousa, Mário; Cerqueira, Laura; Azevedo, Nuno Filipe (BE1B-918B-A853); Almeida, Carina. "Rapid identification of Campylobacter spp. using peptide nucleic acid fluorescence in situ hybridization (PNA-FISH) in food samples". Paper presented in V AEICBAS Biomedical Congress - Abel Salazar Biomedical Sciences Institute (ICBAS), Porto, Portugal, 2017.
Journal article
  1. Castro, Joana; Araújo, Daniela; Oliveira, Hugo Alexandre Mendes; Fernandes, Liliana; Oliveira, Ricardo; Brinks, Erick; Cho, Gyu-Sung; et al. "Multidrug-resistant Klebsiella pneumoniae and Klebsiella variicola isolated from patients in Portuguese hospitals: Genomic and phenotypic characterization". The Microbe 5 (2024): 100172. http://dx.doi.org/10.1016/j.microb.2024.100172.
    Published • 10.1016/j.microb.2024.100172
  2. Domingues, Rita; Oliveira, Ricardo; Silva, Sónia; Araújo, Daniela; Almeida, Carina; Cho, Gyu-Sung; Franz, Charles M.A.P.; et al. "Molecular Detection of Carbapenemases in Acinetobacter baumannii Strains of Portugal and Association With Sequence Types, Capsular Types, and Virulence". Clinical Therapeutics (2024): http://dx.doi.org/10.1016/j.clinthera.2024.09.005.
    Published • 10.1016/j.clinthera.2024.09.005
  3. Barros, Maria Margarida; Castro, Joana; Araújo, Daniela; Oliveira, Ricardo; Campos, Ana Maria; Silva, Sónia; Outor-Monteiro, Divanildo; Almeida, Carina. "Application of DNA aptamers to block enterotoxigenic Escherichia coli toxicity in a Galleria mellonella larval model". Frontiers in Chemistry 12 (2024): http://dx.doi.org/10.3389/fchem.2024.1425903.
    Published • 10.3389/fchem.2024.1425903
  4. Oliveira, Ricardo; Pinho, Eva; Barros, Maria Margarida; Azevedo, Nuno Filipe; Almeida, Carina. "In vitro selection of DNA aptamers against staphylococcal enterotoxin A". Scientific Reports 14 1 (2024): http://dx.doi.org/10.1038/s41598-024-61094-3.
    Published • 10.1038/s41598-024-61094-3
  5. Vindeirinho, João M.; Oliveira, Ricardo; Pinho, Eva; Guiomar, Raquel; Azevedo, Nuno F.; Almeida, Carina. "The potential of tailed amplicons for SARS-CoV-2 detection in Nucleic Acid Lateral Flow Assays". PLOS ONE 19 5 (2024): e0301234. http://dx.doi.org/10.1371/journal.pone.0301234.
    Published • 10.1371/journal.pone.0301234
  6. Araújo, Daniela; Silva, Ana Rita; Fernandes, Rúben; Serra, Patrícia; Barros, Maria Margarida; Campos, Ana Maria; Oliveira, Ricardo; et al. "Emerging Approaches for Mitigating Biofilm-Formation-Associated Infections in Farm, Wild, and Companion Animals". Pathogens 13 4 (2024): 320. http://dx.doi.org/10.3390/pathogens13040320.
    Published • 10.3390/pathogens13040320
  7. Oliveira, Ricardo; Barbosa, Ana; Sousa, Mário; Azevedo, Nuno Filipe (BE1B-918B-A853); Cerqueira, Laura; Almeida, Carina. "Using peptide nucleic acid fluorescence in situ hybridization (PNA-FISH) to detect Campylobacter spp. in food samples". LWT (2024): 115922. http://dx.doi.org/10.1016/j.lwt.2024.115922.
    Published • 10.1016/j.lwt.2024.115922
  8. Castro, J; Oliveira, Ricardo; Fernandes, L; Carvalho; Oliveira, H; Brinks, E; Cyu-Sung, Cho; et al. "Molecular characterization and virulence profile of Klebsiella pneumoniae and Klebsiella oxytoca isolated from ill cats and dogs in Portugal". Veterinary Microbiology (2024): 110056. http://dx.doi.org/10.1016/j.vetmic.2024.110056.
    Published • 10.1016/j.vetmic.2024.110056
  9. Nunes, Bárbara; Barata, Ana Rita; Oliveira, Ricardo; Guedes, Hugo; Almeida, Carina; da Silva, Gabriela Jorge; Nogueira, Teresa; Saavedra, Maria José; Almeida, Gonçalo. "Occurrence and diversity of Listeria monocytogenes in Portuguese dairy farms". The Microbe (2024): 100063. http://dx.doi.org/10.1016/j.microb.2024.100063.
    Published • 10.1016/j.microb.2024.100063
  10. Oliveira, Ricardo; Pinho, Eva; Azevedo, Nuno Filipe; Almeida, Carina. "Post-SELEX modifications with locked nucleic acids (LNA) of a SEA-specific DNA aptamer assisted by in silico modelling". Molecular Systems Design and Engineering (2024): http://dx.doi.org/10.1039/d4me00043a.
    Published • 10.1039/d4me00043a
  11. Araujo, D.; Oliveira, Ricardo; Silva, B. L.; Castro, J.; Ramos, C.; Matos, F.; Almeida, C.; Silva, S.. "Antimicrobial resistance patterns of Staphylococcus spp. isolated from clinical specimens of companion animals in Northern Portugal, 2021-2023". The Veterinary Journal (2024): https://publons.com/wos-op/publon/68247629/.
    Published • 10.1016/J.TVJL.2024.106153
  12. Araújo, D.; Castro, J.; Matos, F.; Oliveira, R.; Ramos, C.; Almeida, C.; Silva, S.. "Exploring the prevalence and antibiotic resistance profile of Klebsiella pneumoniae and Klebsiella oxytoca isolated from clinically ill companion animals from North of Portugal". Research in Veterinary Science 159 (2023): 183-188. http://dx.doi.org/10.1016/j.rvsc.2023.04.009.
    10.1016/j.rvsc.2023.04.009
  13. Barros, Maria Margarida; Castro, Joana; Araújo, Daniela; Campos, Ana Maria; Oliveira, Ricardo; Silva, Sónia; Outor-Monteiro, Divanildo; Almeida, Carina. "Swine Colibacillosis: Global Epidemiologic and Antimicrobial Scenario". Antibiotics 12 4 (2023): 682. http://dx.doi.org/10.3390/antibiotics12040682.
    10.3390/antibiotics12040682
  14. Oliveira, Ana; Dias, Carla; Oliveira, Ricardo; Almeida, Carina; Fuciños, Pablo; Sillankorva, Sanna; Oliveira, Hugo. "Paving the way forward: Escherichia coli bacteriophages in a One Health approach". Critical Reviews in Microbiology (2023): 1-18. http://dx.doi.org/10.1080/1040841x.2022.2161869.
    10.1080/1040841x.2022.2161869
  15. Barata, Ana Rita; Nunes, Bárbara; Oliveira, Ricardo; Guedes, Hugo; Almeida, Carina; Saavedra, Maria José; da Silva, Gabriela Jorge; Almeida, Gonçalo. "Occurrence and seasonality of Campylobacter spp. in Portuguese dairy farms". International Journal of Food Microbiology 383 (2022): 109961. http://dx.doi.org/10.1016/j.ijfoodmicro.2022.109961.
    10.1016/j.ijfoodmicro.2022.109961
  16. Oliveira, Ricardo; Castro, Joana; Silva, Sónia; Oliveira, Hugo; Saavedra, Maria José; Azevedo, Nuno Filipe; Almeida, Carina. "Exploring the Antibiotic Resistance Profile of Clinical Klebsiella pneumoniae Isolates in Portugal". Antibiotics 11 11 (2022): 1613. http://dx.doi.org/10.3390/antibiotics11111613.
    Published • 10.3390/antibiotics11111613
  17. Castro, Joana; Barros, Maria Margarida; Araújo, Daniela; Campos, Ana Maria; Oliveira, Ricardo; Silva, Sónia; Almeida, Carina. "Swine enteric colibacillosis: Current treatment avenues and future directions". Frontiers in Veterinary Science 9 (2022): http://dx.doi.org/10.3389/fvets.2022.981207.
    Published • 10.3389/fvets.2022.981207
  18. Oliveira, Ricardo; Pinho, Eva; Sousa, Ana Luísa; Dias, Óscar; Azevedo, Nuno Filipe; Almeida, Carina. "Modelling aptamers with nucleic acid mimics (NAM): From sequence to three-dimensional docking". PLOS ONE 17 3 (2022): e0264701. http://dx.doi.org/10.1371/journal.pone.0264701.
    Open access • 10.1371/journal.pone.0264701
  19. Oliveira, Ricardo; Pinho, Eva; Almeida, Gonçalo; Azevedo, Nuno Filipe; Almeida, Carina. "Prevalence and diversity of Staphylococcus aureus and staphylococcal enterotoxins in raw milk from northern Portugal". Frontiers in Microbiology (2022): https://www.frontiersin.org/articles/10.3389/fmicb.2022.846653/abstract.
    Open access • In press • 10.3389/fmicb.2022.846653
  20. Oliveira, Ricardo; Pinho, Eva; Sousa, Ana Luísa; DeStefano, Jeffrey J.; Azevedo, Nuno Filipe; Almeida, Carina. "Improving aptamer performance with nucleic acid mimics: de novo and post-SELEX approaches". Trends in Biotechnology (2021): http://dx.doi.org/10.1016/j.tibtech.2021.09.011.
    10.1016/j.tibtech.2021.09.011
  21. Fernandes, Ricardo M; Silva, Hélder; Oliveira, Ricardo; Almeida, Carina; Azevedo, Nuno Filipe; Vieira, Maria J. "Morphological transition of Helicobacter pyloriadapted to water". Future Microbiology 12 13 (2017): 1167-1179. http://dx.doi.org/10.2217/fmb-2016-0174.
    10.2217/fmb-2016-0174
Magazine article
  1. Castro, Joana; Barros, Maria Margarida; Oliveira, Ricardo; Araújo, Daniela; Campos, Ana Maria; Ana Margarida Duarte; FAGULHA, TERESA; et al. "Coinfecção pelo Vírus da Síndrome Respiratória e Reprodutiva dos Suínos (PRRS), Actinobacillus pleuropneumoniae, Pasteurella multocida e Streptococcus suis 2 - Relato de um caso numa exploração familiar de suínos em Portugal", Revista Portuguesa de Ciências Veterinárias 119, 625, 2024
Thesis / Dissertation
  1. "Application of nucleic acid mimics (NAM) in the selection of aptamers against staphylococcal enterotoxins". PhD, Universidade do Porto Faculdade de Engenharia, 2023. https://hdl.handle.net/10216/153643.
  2. Oliveira, Ricardo. "Design and validation of an alternative molecular method using peptide nucleic acid fluorescence in situ hybridization (PNA FISH) for the detection of Campylobacter spp. in food samples". Master, Universidade do Minho Departamento de Engenharia Biológica, 2017. https://hdl.handle.net/1822/77457.
  3. Oliveira, Ricardo. "Identification of multi-drug resistant Mycobacterium tuberculosis by padlock probes and lateral flow nucleic acid biosensors". Degree, Universidade do Porto, 2015.

Artistic / Performance

Visual artwork
  1. Barros, Maria Margarida; Castro, Joana; Araújo, Daniela; Oliveira, Ricardo; Silva, Sónia; Almeida, Carina. Impacto da Colibacilose Suína: da Quinta ao Homem.
  2. Rúben Fernandes; Vindeirinho, João M. ; Castro, Joana; Araújo, Daniela; Barros, Maria Margarida; Oliveira, Ricardo; Campos, Ana Maria; Silva, Sónia; Almeida, Carina. Os Vilões Invisíveis.
Activities

Oral presentation

Presentation title Event name
Host (Event location)
2024/10/23 Action Tank "Food Security" BIN@PORTO 2024 ‘Innovation for Resilience"
Faculty of Engineering, University of Porto (Porto, Portugal)
2022/11/08 Selection of DNA aptamers for the detection of foodborne toxins 36th EFFoST International Conference 2022
European Federation of Food Science and Technology (Dublin, Ireland)
2022/10/18 Prevalência e diversidade de Staphylococcus aureus e enterotoxinas estafilocócicas em leite cru na região norte de Portugal Microbiologia 2022
Sociedade Portuguesa de Microbiologia (Portugal)
2022/01/20 Staphylococcal enterotoxins and mycotoxins in raw milk: a combined risk? SciMonday
National Institute for Agricultural and Veterinary Research (INIAV) (Vairão, Portugal)
2021/11/25 Surveillance study of Staphylococcus aureus in raw milk from Northern Portugal: Enterotoxins and resistance genetic profiles. Microbiotec'21
NOVA University of Lisbon (Lisboa, Portugal)
2021/06/28 In silico prediction of three-dimensional structure and docking of aptamers containing nucleic acid mimics (NAMs) 4th Doctoral Congress in Engineering
Faculty of Engineering, University of Porto (Porto, Portugal)
2020/06/26 NAM4Covid19 – What if you could know the test results in less than 1 hour? LEPABE talks
Faculty of Engineering, University of Porto (Porto, Portugal)
2019/12 Application of nucleic acid mimics in the selection of aptamers against staphylococcal enterotoxins Microbiotec'19 - Congress of Microbiology and Biotechnology 2019
Faculdade de Ciências da Universidade de Coimbra (Coimbra, Portugal)

Supervision

Thesis Title
Role 		Degree Subject (Type)
Institution / Organization
2024/09/09 - 2024/09/27 Characterisation of Staphylococcus sp. isolates from animals in the INIAV collection using culturomics methods.
Supervisor
 Ciências Biomédicas Laboratoriais (Scientific initiation)
Instituto Politécnico do Porto Escola Superior de Saúde, Portugal
2024/04/29 - 2024/06/17 Própolis português e infeções bacterianas de animais domésticos: que potencial?
Co-supervisor of Rui Francisco Sousa Almeida
 Licenciatura em Bioquímica (Degree)
Universidade do Minho Departamento de Biologia, Portugal
2024/01/08 - 2024/01/27 Selection and characterization of aptamers against enterotoxigenic E. coli
Supervisor of Denise Marques
 Ciências Biomédicas Laboratoriais (Degree)
Instituto Politécnico do Porto Escola Superior de Saúde, Portugal
2021/01 - 2021/07 Aptamers for Staphylococcal enterotoxin A: effects on incorporating nucleic acid mimics
Co-supervisor of Roberto Pinto
 Biotecnologia Medicinal (Degree)
Instituto Politécnico do Porto Escola Superior de Saúde, Portugal

Event organisation

Event name
Type of event (Role) 		Institution / Organization
2024/11/27 - Current 2º Simpósio INIAV para a Segurança Alimentar- “Sistemas Alimentares Sustentáveis e Seguros (2024/11/27)
Symposium (Member of the Organising Committee)
 Instituto Nacional de Investigação Agrária e Veterinária - Polo de Vairão, Portugal
2023/03/17 - Current Co-organização da visita de estudo ao INIAV dedicada a alunos do secundário (escolas secundárias de Viana do Castelo e da Galícia), no tema “Papel da PAC na promoção da inovação”, 17 de Março de 2023. Total de 40 alunos. Breve seminário seguido de atividades laboratoriais: identificação de agentes patogénicos em amostras alimentares; pesquisa de antibióticos em alimentos; modelo larvar para estudo de citotoxicidade. (2023/03/17)
Other (Co-organisor)
 Instituto Nacional de Investigação Agrária e Veterinária - Polo de Vairão, Portugal
2024/04/03 - 2024/04/03 Co-organização da visita de estudo ao INIAV, alunos da Licenciatura de Ciências Biomédicas (Escola Universitária Vasco da Gama, Coimbra), 3 de Abril de 2024. Total de 15 alunos. Atividades: visita aos laboratórios de Segurança Alimentar e Saúde Animal; avaliação de toxicidade em modelo animal. (2024/04/03)
Other (Co-organisor)
 Instituto Nacional de Investigação Agrária e Veterinária - Polo de Vairão, Portugal
2023/07/13 - 2023/07/13 Co-organização da visita de estudo ao INIAV de alunos da escola primária e pré-escolar da escola de Vairão e Fornelo, 13 de Julho de 2023, com organização de 4 atividades de ciência dedicadas as crianças dos 4 aos 11 anos. Total de 51 alunos. Atividades de ciência organizadas: (1) O ciclo de vida das larvas; (2) Morfologia de bactérias e os fungos; (3) O vulcão: conceito de reação química; (4) A família dos coronavírus. (2023/07/13)
Other (Co-organisor)
 Instituto Nacional de Investigação Agrária e Veterinária - Polo de Vairão, Portugal
2023/04/04 - 2023/04/04 Co-organização da visita de estudo ao INIAV dedicada a alunos do ensino primário (1º ao 4º ano), das freguesias de Vairão e Fornelo (Vila do Conde), 4 de Abril de 2023. Total de 20 alunos. Vista ao polo com atividades de ciência dedicadas às crianças: formação de arco-íris com soluções salinas, crescimento de larvas, morfologia das bactérias no microscópio, moldagem da morfologia de bactérias com plasticina. (2024/04/04)
Other (Co-organisor)
 Instituto Nacional de Investigação Agrária e Veterinária - Polo de Vairão, Portugal
2023/02/01 - 2023/02/01 Co-organização da visita de estudo ao INIAV, alunos do secundário (Curso Profissional de Análises Laboratoriais), da escola Oliveira Júnior, de S. João da Madeira, 1 de fevereiro de 2023. Total de 13 alunos. Atividades: analise de contaminantes por cromatografia fina; deteção de patogénicos por PCR em tempo real, avaliação de toxicidade em modelo animal. (2023/02/01)
Other (Co-organisor)
 Instituto Nacional de Investigação Agrária e Veterinária - Polo de Vairão, Portugal

Event participation

Activity description
Type of event 		Event name
Institution / Organization
2024/09/02 - 2024/09/10 Climate Change: Challenges and Influence on Microbial Safety of Water and Food
Meeting
 FEMS Summer School for Postdocs 2024
Mediterranean Institute for Life Sciences, Croatia
2024/05/28 - 2024/05/29 BEekeeping products valorization and biomonitoring for the SAFEty of BEEs and HONEY
Conference
 1st International Conference - BeSafeBeeHoney
Panepistemio Thessalias - Larisa, Greece
2024/04/09 - 2024/04/24 e.Biofilm Training School - Fundamentals of Biofilm Engineering
Workshop
 e.Biofilm Training School - Fundamentals of Biofilm Engineering
Universidade do Porto Faculdade de Engenharia, Portugal
2023/09/06 - 2023/09/07 COST Academy Leadership Workshop
Workshop
European Cooperation in Science and Technology, Belgium
2020/08/27 - 2020/08/28 Antimicrobial drugs, drug delivery vectors, bio-barriers and characterization assays.
Workshop
 DelNAM’s Workshop 3 - “Drug Delivery meets Bacteria"
Universidade do Porto Faculdade de Engenharia, Portugal
2019/05 - 2019/06 Radiation Protection Training for Use of Radiation-Producing Materials
Workshop
University of Maryland at College Park, United States
2019/03/21 - 2019/03/22 Design and Synthesis of Nucleic Acids Mimics
Workshop
Syddansk Universitet, Denmark
2018/11/21 - 2018/11/23 XXIV Encontro Luso-Galego de Química
Meeting
 XXIV Encontro Luso-Galego de Química
Universidade do Porto Faculdade de Ciências, Portugal

Jury of academic degree

Topic
Role 		Candidate name (Type of degree)
Institution / Organization
2024/12/09 Evaluating Essential Oils for Treating Skin Infections Caused by Staphylococcus pseudintermedius
(Thesis) Main arguer
 Taísa Cebotari (Other)
Instituto Politécnico de Coimbra Escola Superior Agrária de Coimbra, Portugal
2024/07/12 Characterization of pathogenicity and virulence factors of Staphylococcus spp. recovered from company animals
(Thesis) Main arguer
 Rodrigo Miranda Magalhães (Other)
Instituto Politécnico do Porto Escola Superior de Saúde, Portugal
2022 Development and optimization of a PCR methodology for the detection of the main virulence factors (i.e., toxins and fimbriae) of enterotoxigenic E. coli (ETEC)
Supervisor
 Ana Campos (Other)
Instituto Politécnico do Porto Escola Superior de Saúde, Portugal

Association member

Society Organization name Role
2024/01/19 - Current Gonditrilhos - Associação de Ciclismo de Gondifelos President
2019 - Current Portuguese Society of Microbiology Member

Committee member

Activity description
Role 		Institution / Organization
2024/09 - Current Topic Coordinator for the Research Topic ‘Perspectives in Clinical Infectious Diseases: 2024’ in Frontiers in Cellular and Infection Microbiology
Coordinator

Course / Discipline taught

Academic session Degree Subject (Type) Institution / Organization
2024/12 - Current Engenharia Metabólica e Biomolecular Mestrado em Bioengenharia (Mestrado) Universidade do Porto Faculdade de Engenharia, Portugal
2024/07/22 - Current Aplicação de métodos de deteção de fatores de patogenicidade de Escherichia coli, e a sua importância num contexto de Saúde Pública (Outros) Instituto Nacional de Investigação Agrária e Veterinária - Polo de Vairão, Portugal
2018/11 - 2018/12 Engenharia Metabólica e Celular Bioengenharia (Mestrado integrado) Universidade do Porto Faculdade de Engenharia, Portugal

Evaluation committee

Activity description
Role 		Institution / Organization Funding entity
2024/11/27 - Current Evaluation/selection of the best poster presentations at the 2º Simpósio INIAV para a Segurança Alimentar
Evaluator
 Instituto Nacional de Investigação Agrária e Veterinária - Polo de Vairão, Portugal

Journal scientific committee

Journal title (ISSN) Publisher
2024/07 - Current Frontiers in Microbiology (1664-302X) Frontiers Media
2024/06 - Current Molecular and cellular probes (0890-8508) Elsevier Editorial
2024/06 - Current PloS one (1932-6203) PLOS
2024/02 - Current Frontiers in Cellular and Infection Microbiology (2235-2988) Frontiers Media
2023/08 - Current Frontiers in Antibiotics (2813-2467) Frontiers Media

Mentoring / Tutoring

Topic Student name
2024/01 - Current Aptamers for blocking Escherichia coli Shiga-toxins Ana Campos
2022/07 - Current Aptamers to control colibacillosis in piglets Maria Margarida Barros
2022/09 - 2024/11 Aptamers for blocking enterotoxigenic Escherichia coli Ana Campos
2023/07/03 - 2023/07/23 Previsão da afinidade de aptâmeros para a enterotoxina A de Staphylococcus aureus Catarina Machado Rebelo
2022/04/26 - 2022/07/14 Desenvolvimento de uma metodologia molecular para deteção de fatores de virulência de Escherichia coli enterotoxigénica em suínos de explorações portuguesas. Ana Maria da Silva Campos
2022/04 - 2022/05 Development and optimization of a PCR methodology for the detection of the main virulence factors (i.e., toxins and fimbriae) of enterotoxigenic E. coli (ETEC) Ana Ferraz
2021/09/06 - 2021/09/24 Characterization of resistance/virulence genes by PCR of Staphylococcus aureus isolates obtained from raw milk samples. Ana Campos
2021/01 - 2021/07 Aptamers for Staphylococcal enterotoxin A: effects on incorporating nucleic acid mimics Roberto Miguel Pais Pinto
Distinctions

Award

2024 Best Project Proposal at 5th FEMS Summer School for Postdocs 2024
Federation Of European Microbiological Societies, Netherlands
2023 FEMS Early Career Scientist Meeting Grant - Microbiotec'23
Federation Of European Microbiological Societies, Netherlands
2023 5ª edição do concurso comunicação de ciência em microbiologia - Vencedor na categorial geral
Sociedade Portuguesa de Microbiologia, Portugal
2021 Best Oral Presentation Award - LEPABE Talks
Universidade do Porto Laboratorio de Engenharia de Processos Ambiente Biotecnologia e Energia, Portugal

Universidade do Porto Faculdade de Engenharia, Portugal
2017 2nd Best Scientific Poster Award - V AEICBAS Biomedical Congress
Universidade do Porto Instituto de Ciências Biomédicas Abel Salazar, Portugal
2015 Prize Prof. Doutor Fernando Serrão
Universidade do Porto Faculdade de Ciências, Portugal

Other distinction

2024 Top 20 of the most talented and promising researchers from across the world - Invitation to FEMS Summer School for Postdocs 2024
Federation Of European Microbiological Societies, Netherlands
2018 FCT PhD Studentship - SFRH/BD/138883/2018
Fundação para a Ciência e a Tecnologia, Portugal
2015 Erasmus+ Scholarship - Stockholm University, Sweden
Universidade do Porto Instituto de Ciências Biomédicas Abel Salazar, Portugal