Ricardo Bruno da Costa Oliveira (441A-683A-40E8)

Curriculum Vitae

Ricardo Bruno da Costa Oliveira

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 (Class A - Top Student in the ECTS Grading scale), having completed his final internship at the Science for Life Laboratory (SciLifeLab) / Stockholm University, Sweden, under the Erasmus+ program. Awarded the Prize Prof. Dr. Fernando Serrão from the Faculty of Sciences of the University of Porto (FCUP, 2015) for his distinction in the area of Organic Chemistry. 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, PhD researcher at National Institute for Agricultural and Veterinary Research, I. P. (INIAV) focusing on bacteriology, food safety and diagnostic and/or therapeutic solutions (special interest in the development of aptamers).

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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

up201200365@fe.up.pt (Professional)
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
2018/10 - 2023/10	Research Trainee (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	Contracted Researcher (Research)	Universidade do Porto Faculdade de Engenharia, Portugal
	Universidade do Porto Faculdade de Engenharia, Portugal
2018/10 - 2023/02	Research Trainee (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	Contracted Researcher (Research)	Universidade do Minho Centro de Engenharia Biológica, Portugal
	Universidade do Minho Centro de Engenharia Biológica, Portugal
2016/09 - 2017/11	Research Trainee (Research)	Biomode SA, Portugal
	International Iberian Nanotechnology Laboratory, 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

Projects

Contract

	Designation	Funders
2022/01/01 - Current	APTAcoli: NAM-aptamers for blocking enterotoxins in pig colibacillosis PTDC/CVT-CVT/4620/2021 Post-doc Fellow International Iberian Nanotechnology Laboratory, Portugal Instituto Nacional de Investigação Agrária e Veterinária, Portugal Universidade de Trás-os-Montes e Alto Douro, Portugal	Fundação para a Ciência e a Tecnologia Ongoing
2018/10 - 2023/07	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
2023/02/01 - 2023/05/31	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 - 2022/10	Locked nucleic acid (LNA) aptamers for the detection of Staphylococcal Enterotoxins SFRH/BD/138883/2018	Fundação para a Ciência e a Tecnologia
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 Master Student Fellow Universidade do Minho Centro de Engenharia Biológica, Portugal Instituto Nacional de Investigação Agrária e Veterinária, 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 Universidade do Porto Faculdade de Engenharia, Portugal Instituto Nacional de Saúde Doutor Ricardo Jorge, Portugal	Fundação para a Ciência e a Tecnologia Concluded

Outputs

Publications

Book chapter	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 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. 10.1007/978-1-0716-0243-0_13
Conference abstract	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. 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. 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. 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. 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. 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	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	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. 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. 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. 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. 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. 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. Barros, Maria Margarida; Campos, Ana Maria; Oliveira, Ricardo; Castro, Joana; Almeida, Gonçalo; Silva, Sónia; Outor-Monteiro, Divanildo; Almeida, Carina. "Detecting Enterotoxigenic Escherichia coli in animal production: method development and validation". Paper presented in Dare2Change, 2023. 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. 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. 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. 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. 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. 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. 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. 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. 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. 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. 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. 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. 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. 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. 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. 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. 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. 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. 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. 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	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. 10.1016/j.lwt.2024.115922 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. 10.1016/j.vetmic.2024.110056 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 Oliveira, Ricardo; Pinho, Eva; Azevedo, Nuno Filipe (BE1B-918B-A853); Almeida, Carina. "In vitro selection of DNA aptamers against staphylococcal enterotoxin A". Scientific Reports (2024): Under revision Oliveira, Ricardo; Pinho, Eva; Azevedo, Nuno Filipe (BE1B-918B-A853); Almeida, Carina. "Post-SELEX modifications with locked nucleic acids (LNA) of a SEA-specific DNA aptamer assisted by in silico modelling". Molecular Systems Design & Engineering (2024): Under revision 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 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 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 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 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 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 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 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 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 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	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	"Application of nucleic acid mimics (NAM) in the selection of aptamers against staphylococcal enterotoxins". PhD, Universidade do Porto Faculdade de Engenharia, 2023. 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. 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

Barros, Maria Margarida; Castro, Joana; Araújo, Daniela; Oliveira, Ricardo; Silva, Sónia; Almeida, Carina. Impacto da Colibacilose Suína: da Quinta ao Homem.
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)
2022/11/08	Selection of DNA aptamers for the detection of foodborne toxins	36th EFFoST International Conference 2022 (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)
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
2024/01/08 - 2024/01/27	Selection and characterization of aptamers against enterotoxigenic E. coli Supervisor	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	Biotecnologia Medicinal (Degree) Instituto Politécnico do Porto Escola Superior de Saúde, Portugal

Event participation

	Activity description Type of event	Event name Institution / Organization
2023/09/06 - Current	COST Academy Leadership Workshop Workshop	European Cooperation in Science and Technology, Belgium
2019/03/21 - Current	Design and Synthesis of Nucleic Acids Mimics Workshop	Syddansk Universitet, Denmark
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
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
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
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
2019 - Current	Portuguese Society of Microbiology	Member

Mentoring / Tutoring

	Topic	Student name
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

2023	FEMS Early Career Scientist Meeting Grant Federation Of European Microbiological Societies, Netherlands
2021	Best Presentation Award - 1st place 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
2015	Erasmus+ Scholarship Universidade do Porto Instituto de Ciências Biomédicas Abel Salazar, Portugal

Other distinction

2018	FCT PhD Studentship - SFRH/BD/138883/2018 Fundação para a Ciência e a Tecnologia, Portugal