Research output per year
Research output per year
Personal profile
Profile
I am a microbiologist and bioinformatician with a PhD in Pharmaceutical Sciences and over 15 years of experience in antimicrobial resistance (AMR) and heavy metal/biocide tolerance research across foodborne pathogens and clinical bacteria. My expertise spans whole-genome sequencing analysis, high-throughput bioinformatics, machine learning applications, and both wet and dry-lab methodologies for resistance surveillance and characterization. I have contributed to advancing AMR detection and genomic prediction capabilities, developed validated bioinformatic pipelines, and strengthened laboratory capacity through reference services at the EU Reference Laboratory for Antimicrobial Resistance (EURL-AMR). Additionally, I have coordinated worldwide inter-laboratory comparative testing, supervised students at multiple academic levels, and led training initiatives across Europe, collaborating with multidisciplinary teams and resulting in several scientific publications, computational tools for drug discovery, and resources that advance AMR research and surveillance.
Education/Academic qualification
Biostatistics and Bioinformatics, MSc in Biostatistics and Bioinformatics Applied to Health (Specialist Course), Polytechnic Institute of Porto
Award Date: 22 Feb 2019
Microbiology, PhD in Pharmaceutical Sciences – Microbiology Specialty, Contribution of biocides to the selection of Salmonella non-typhoid resistant to antibiotics: a multilayered approach, University of Porto
Award Date: 4 May 2016
Pharmaceutical Sciences, Integrated Master in Pharmaceutical Sciences, Bacterial resistance to antibiotics and biocides: two sides of the same coin?, University of Porto
Award Date: 17 Nov 2011
Keywords
- User defined:
- Antimicrobial resistance
- Foodborne Pathogens
- Food safety
- Epidemiology
- High-throughput methods
- Machine Learning
- Bioinformatics
- Heavy Metal Tolerance
- Biocide Tolerance
- Bacterial Evolution
Expertise related to UN Sustainable Development Goals
In 2015, UN member states agreed to 17 global Sustainable Development Goals (SDGs) to end poverty, protect the planet and ensure prosperity for all. This person’s work contributes towards the following SDG(s):
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SDG 2 Zero Hunger -
SDG 3 Good Health and Well-being -
SDG 6 Clean Water and Sanitation
Fingerprint
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Collaborations and top research areas from the last five years
Recent external collaboration on country/territory level. Dive into details by clicking on the dots or
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Antiparasitic practices in Portuguese animal shelters: A survey of veterinarians
Martins, A. L., Mourão, J., Amorim, I., Cardoso, L. & Mesquita, J. R., 2026, In: Research in Veterinary Science. 202, 12 p., 106073.Research output: Contribution to journal › Journal article › Research › peer-review
Open AccessFile529 Downloads (Orbit) -
Assessment of phenotypic carbapenem susceptibility and genomic epidemiology of Campylobacter from animal, food and human domains – “CarbaCamp”: EFSA-Q-2026-00140
Chang, E. D., Andrea, A., Mourão, J., Akkas, A., Mølnitz, F. H., Lund, B. S. R., Kristensen, T., Larsen, G., Matuschek, E., Kahlmeter, G. & Hendriksen, R. S., 2026, In: EFSA Supporting Publications. 23, 7, 113 p., 10100E.Research output: Contribution to journal › Journal article › Commissioned › peer-review
Open AccessFile5 Downloads (Orbit) -
Comprehensive Shotgun Metagenomic Profiling of Antibiotic Resistance Genes in Sheep and Goat Farming Environments
Gomes-Gonçalves, S., Bento, J. T., Moreira, G., Mourão, J., Cruz, R., Esteves, F., Baptista, A. L., Pereira, M. A., Caseiro, P., Carreira, P., Figueira, L. & Mesquita, J. R., 2026, In: Antibiotics. 15, 3, 14 p., 277.Research output: Contribution to journal › Journal article › Research › peer-review
Open AccessFile22 Downloads (Orbit) -
Human-associated NDM-5-producing multidrug-resistant Escherichia coli detected in retail beef and pork in Hungary, 2021
Ivanova, M., Mourão, J., Szarvas, J., Tosun, E. S., Lacy-Roberts, N., Thornval, N. R., Záborcki, Z., Jánosi, S., Garcia-Fierro, R., Beloeil, P.-A., Liebana, E., Guerra, B., Hendriksen, R. S. & Kjeldgaard, J. S., 2026, In: Frontiers in Bioinformatics. 6, 11 p., 1793862.Research output: Contribution to journal › Journal article › Research › peer-review
Open AccessFile12 Downloads (Orbit) -
Optimization of nanopore sequencing for surveillance of antimicrobial resistance in low-resource settings
Thornval, N. R., Lacy-Roberts, N., Rebelo, A. R., Nilsson, P., Mourão, J., Gibson, C., Hasman, H. & Hendriksen, R. S., 2026, In: Frontiers in Public Health. 14, 9 p., 1755877.Research output: Contribution to journal › Journal article › Research › peer-review
Open AccessFile16 Downloads (Orbit)
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EURL-AMR: EU Reference Laboratory for Antimicrobial Resistance 2025-2027
Hendriksen, R. S. (PI), Pedersen, S. K. (Project Manager), Kjeldgaard, J. S. (Project Participant), Andrea, A. (Project Participant), Mourão, J. (Project Participant), Espinosa Gongora, C. (Project Participant) & Cardoso, J. (Project Participant)
01/01/2025 → 31/12/2027
Project: Consultancy
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Fleming Fund, Regional Grant, SeqAsia
Rasmussen, L. B. (Project Manager), Jeyakumar, P. Z. (PI), Emmad, M. (PI), Mourão, J. (PI), Hendriksen, R. S. (PI), Thornval, N. R. (PI), Weese, C. J. (PI) & Gibson, C. T. (PI)
01/10/2024 → 31/03/2026
Project: Research
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CarbaCamp: Assessment of phenotypic carbapenem susceptibility and genomic epidemiology of Campylobacter from animal, food and human domains
Chang, E. D. (Project Manager), Hendriksen, R. S. (PI), Andrea, A. (Project Participant), Mourão, J. (Project Participant), Odgaard, C. (Project Participant) & Helwigh, B. (Project Participant)
01/09/2023 → 28/02/2026
Project: Research
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EURL-AMR: EU Reference Laboratory for Antimicrobial Resistance
Hendriksen, R. S. (PI), Pedersen, S. K. (Project Manager), Kjeldgaard, J. S. (Project Participant), Andrea, A. (Project Participant), Mourão, J. (Project Participant) & Espinosa Gongora, C. (Project Participant)
01/07/2006 → 31/12/2024
Project: Consultancy
Activities
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Beyond traditional monitoring: whole genome profiling of Enterobacteriaceae on food-contact surfaces reveals diverse lineages and mcr genes in foodservice facilities
Mourão, J. (Other)
17 Apr 2026 → 21 Apr 2026Activity: Talks and presentations › Conference presentations
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Escherichia coli in the human gut: individuals from the community as silent reservoirs of pathogenic and antimicrobial-resistant strains
Mourão, J. (Other)
17 Apr 2026 → 21 Apr 2026Activity: Talks and presentations › Conference presentations
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European Society of Clinical Microbiology and Infectious Diseases (External organisation)
Mourão, J. (Member)
20 Apr 2026Activity: Membership › Membership of commitees, commissions, boards, councils, associations, organisations, or similar
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Regional Training Course on Genomics and Bioinformatics of Salmonella using MinION Sequencing
Mourão, J. (Guest lecturer)
27 Apr 2026 → 30 Apr 2026Activity: Talks and presentations › Talks and presentations in private or public companies and organisations
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Innovating food safety with next generation (sequencing) workshop
Mourão, J. (Guest lecturer)
10 Jun 2025 → 12 Jun 2025Activity: Talks and presentations › Talks and presentations in private or public companies and organisations