João Santos Rebelo (A015-FF75-397C)

Curriculum Vitae

João Santos Rebelo

João Santos Rebelo.

Identification

Personal identification

Full name: João Santos Rebelo

Citation names

João S. Rebelo
Rebelo, J. S.
Rebelo, João

Author identifiers

Ciência ID: A015-FF75-397C
ORCID iD: 0000-0002-8662-7378

Email addresses

joaorebelo_4@hotmail.com (Professional)

Addresses

Faculdade de Ciências da Universidade de Lisboa, Campo Grnade, 1749-016, Lisboa, Lisboa, Portugal (Professional)

Knowledge fields

Exact Sciences - Computer and Information Sciences - Bioinformatics
Natural sciences - Biological Sciences - Microbiology
Natural sciences - Biological Sciences - Molecular Biology

Languages

Language	Speaking	Reading	Writing	Listening	Peer-review
Portuguese (Mother tongue)
English	Advanced (C1)	Advanced (C1)	Advanced (C1)	Advanced (C1)	Proficiency (C2)

Education

	Degree	Classification
2021/10/01 - 2025/10/01 Ongoing	Biologia (Doutoramento) Major in Bioinformática Universidade de Lisboa Faculdade de Ciências, Portugal
2021/01/18 - 2021/03/20 Concluded	Analyzing Data with Python (Outros) International Business Machines Corp, United States
2020/11/29 - 2020/12/21 Concluded	High-Dimensional Data Analysis (Outros) Harvard University T H Chan School of Public Health, United States
2020/11/29 - 2020/12/18 Concluded	Statistical Inference and Modeling for High-throughput Experiments (Outros) Harvard University T H Chan School of Public Health, United States
2020/10/06 - 2020/11/03 Concluded	Data Science: Inference and Modeling (Outros) Harvard University T H Chan School of Public Health, United States
2017/09/05 - 2019/11/18 Concluded	Bioinformática e Biologia Computacional (Mestrado) Universidade de Lisboa Faculdade de Ciências, Portugal "Modelling phenotypic resistance to ampicillin in a Petri dish" (THESIS/DISSERTATION)
2017/10/28 - 2017/10/29 Concluded	Introdução à Linguagem de Programação R (Outros) Universidade de Lisboa Faculdade de Ciências, Portugal
2013/09/25 - 2017/06/09 Concluded	Biologia (Licenciatura) Major in Biologia Molecular e Genética Universidade de Lisboa Faculdade de Ciências, Portugal

Projects

Grant

	Designation	Funders
2021/10/01 - 2025/09/30	Plasmid Diversity and Evolution in the Bacterial World SFRH/BD/04631/2021 PhD Student Fellow	Fundação para a Ciência e a Tecnologia Ongoing

Outputs

Publications

Conference poster	Célia P. F. Domingues; João S. Rebelo; Dionisio, Francisco; Nogueira, Teresa. "Co-ocorrência de genes de resistência a antibióticos: localização em plasmídeos nos microorganismos patogénicos prioritários". 2024. Bruno T. S. Luz; João S. Rebelo; Dionisio, Francisco; Monteiro, Francisca. "Qual é o Efeito da Resistência a Antibióticos na Persistência de uma População Bacteriana?". Paper presented in Encontro Ciência 2024, 2024. Silveira, H. D.; Domingues, C. P. F.; Rebelo, J. S.; Amaro, A.; Dionísio, F.; Nogueira, T.. "Genomic dynamics of virulence and antibiotic resistance in bacterial genomes". Paper presented in 17th Annual Meeting of the Portuguese Association for Evolutionary Biology, 2021. Domingues, C. P. F. (3416-6299-1379); Rebelo, J. S.; Nogueira, T.; Pothier, J.; Monteiro, F.; Dioinisio, F.. "Why is there a positive correlation between the diversity of virulence and antibiotic-resistance genes?". Paper presented in RECOMB 2021 - 25th International Conference on Research in Computational Molecular Biology, 2021. Rebelo, J. S.; Domingues, C. P. F.; Monteiro, F.; Nogueira, T.; Dionisio, F.. "Plasmid transfer as a weapon against plasmid-free cells - a strategy that leads to plasmid maintenance". Paper presented in RECOMB 2021 - 25th International Conference on Research in Computational Molecular Biology, 2021. Domingues, C. P. F.; Rebelo, J. S.; Nogueira, T.; Pothier, J.; Monteiro, F.; Dionísio, F.. "Ratio between contagion probability and resistance genes loss rate is key for the emergence of a positive correlation between the diversity of virulence and antibiotic-resistance genes". Paper presented in Ciências Research Day 2020, 2020. Rebelo, J. S.; Domingues, C. P. F.; Dionisio, F.; Botelho, A.; Nogueira, T.. "How the measures imposed due to COVID-19 influence the human microbiome?". Paper presented in Ciências Research Day 2020, 2020. Rebelo, J. S.; Domingues, C. P. F.; Monteiro, F.; Nogueira, T.; Dionisio, F.. "Long life of persistent cells - faults and errors resulting in a power-law decay". Paper presented in Ciências Research Day 2020, 2020. Domingues, C. P. F.; Rebelo, J.S. (A015-FF75-397C); Dionisio, F.; Botelho, A.; Nogueira, T.. "The Distancing Imposed To Contain COVID-19 Can Affect Our Microbiome: a Double-Edged Sword in Human Health". Paper presented in 6th Annual Meeting 2020 Frontiers in E3, 2020. Rebelo, J.S.; Domingues, C.P.F.; Dionisio, F.. "Indirect resistance to ampicillin – a computational approach to understand the role of persistence". Paper presented in VII Jornadas de Investigação em Biologia, 2020. Domingues, C. P. F.; Rebelo, J.S. (A015-FF75-397C); Nogueira, T.; Pothier, J.; Dionisio, F.. "Correlation between virulence and antibiotic resistance: a study through computational simulations". Paper presented in VIII Jornadas de Investigação em Biologia, 2020. Rebelo, J.S. (A015-FF75-397C); Dionisio, F.. "Modelling phenotypic resistance to ampicillin in a Petri dish". Paper presented in XV Encontro Nacional de Biologia Evolutiva, 2019.
Encyclopedia entry	Dionisio, Francisco; Célia P. F. Domingues; João S. Rebelo; Francisca Monteiro; Nogueira, Teresa. "The Role of Commensal and other Non-Pathogenic Bacteria". In Scholarly Community Encyclopedia, 2023. https://encyclopedia.pub/entry/40892.
Journal article	Bruno Tiago da Silva Luz; João S. Rebelo; Francisca Monteiro; Francisco Dionisio. "What Is the Impact of Antibiotic Resistance Determinants on the Bacterial Death Rate?". Antibiotics (2025): http://dx.doi.org/10.3390/antibiotics14020201. 10.3390/antibiotics14020201 Célia P. F. Domingues; João S. Rebelo; Francisco Dionisio; Teresa Nogueira. "Multi-Drug Resistance in Bacterial Genomes—A Comprehensive Bioinformatic Analysis". International Journal of Molecular Sciences (2023): https://doi.org/10.3390/ijms241411438. 10.3390/ijms241411438 João S. Rebelo; Célia P. F. Domingues; Teresa Nogueira; Francisco Dionisio. "Plasmids Increase the Competitive Ability of Plasmid-Bearing Cells Even When Transconjugants Are Poor Donors, as Shown by Computer Simulations". Microorganisms (2023): https://doi.org/10.3390/microorganisms11051238. 10.3390/microorganisms11051238 João S. Rebelo; Célia P. F. Domingues; Francisco Dionisio. "Plasmid Costs Explain Plasmid Maintenance, Irrespective of the Nature of Compensatory Mutations". Antibiotics (2023): https://doi.org/10.3390/antibiotics12050841. 10.3390/antibiotics12050841 Francisco Dionisio; Célia P. F. Domingues; João S. Rebelo; Francisca Monteiro; Teresa Nogueira. "The Impact of Non-Pathogenic Bacteria on the Spread of Virulence and Resistance Genes". International Journal of Molecular Sciences (2023): https://doi.org/10.3390/ijms24031967. 10.3390/ijms24031967 Helena Darmancier; Célia P. F. Domingues; João S. Rebelo; Ana Amaro; Francisco Dionísio; Joël Pothier; Octávio Serra; Teresa Nogueira. "Are Virulence and Antibiotic Resistance Genes Linked? A Comprehensive Analysis of Bacterial Chromosomes and Plasmids". Antibiotics 11 6 (2022): 706-706. https://doi.org/10.3390/antibiotics11060706. Published • 10.3390/antibiotics11060706 Célia P. F. Domingues; João S. Rebelo; Francisca Monteiro; Teresa Nogueira; Francisco Dionisio. "Harmful behaviour through plasmid transfer: a successful evolutionary strategy of bacteria harbouring conjugative plasmids". Philosophical Transactions of the Royal Society B: Biological Sciences (2022): https://doi.org/10.1098/rstb.2020.0473. Open access • Published • 10.1098/rstb.2020.0473 João S. Rebelo; Célia P. F. Domingues; Francisca Monteiro; Teresa Nogueira; Francisco Dionisio. "Bacterial persistence is essential for susceptible cell survival in indirect resistance, mainly for lower cell densities". PLOS ONE (2021): https://doi.org/10.1371/journal.pone.0246500. Open access • Published • 10.1371/journal.pone.0246500 João S. Rebelo; Célia P. F. Domingues; Francisco Dionisio; Manuel C. Gomes; Ana Botelho; Teresa Nogueira. "COVID-19 Lockdowns May Reduce Resistance Genes Diversity in the Human Microbiome and the Need for Antibiotics". International Journal of Molecular Sciences (2021): https://doi.org/10.3390/ijms22136891. Open access • Published • 10.3390/ijms22136891 Célia P. F. Domingues; João S. Rebelo; Joël Pothier; Francisca Monteiro; Teresa Nogueira; Francisco Dionisio. "The Perfect Condition for the Rising of Superbugs: Person-to-Person Contact and Antibiotic Use Are the Key Factors Responsible for the Positive Correlation between Antibiotic Resistance Gene Diversity and Virulence Gene Diversity in Human Metagenomes". Antibiotics 10 5 (2021): 605. https://doi.org/10.3390/antibiotics10050605. Open access • Published • 10.3390/antibiotics10050605 Domingues, Célia P. F.; Rebelo, João S. (A015-FF75-397C); Dionisio, Francisco; Botelho, Ana; Nogueira, Teresa. "The Social Distancing Imposed To Contain COVID-19 Can Affect Our Microbiome: a Double-Edged Sword in Human Health". mSphere 5 5 (2020): http://dx.doi.org/10.1128/msphere.00716-20. Open access • Published • 10.1128/msphere.00716-20
Preprint	João S. Rebelo; Célia P.F. Domingues; Luís Borda-de-Água; Teresa Nogueira; Francisco Dionisio. "The Rare Plasmid Biosphere: A Hidden Reservoir of Genetic Diversity". 2025. https://doi.org/10.1101/2025.07.24.666492. 10.1101/2025.07.24.666492 Célia P.F. Domingues; João S. Rebelo; Francisco Dionisio; Teresa Nogueira. "Plasmids Across Datasets: Resistance, Virulence, Mobility, and Host Taxonomy". 2025. https://doi.org/10.1101/2025.01.30.635773. 10.1101/2025.01.30.635773
Thesis / Dissertation	Rebelo, João. "Modelling phenotypic resistance to ampicillin in a Petri dish". Master, 2019.

Activities

Oral presentation

	Presentation title	Event name Host (Event location)
2025/05/08	The great diversity of the Rare Plasmid Biosphere	Encontros Scientia cE3c (Portugal)
2024/10/24	Conjugative plasmids as biological weapons of donor bacterial cells	Evolving Microbes and Global Health Gulbenkian Institute for Molecular Medicine (Portugal)
2024/10/24	Genomic dynamics and evolution of antibiotic resistance in microbial ecosystems	Evolving Microbes and Global Health Gulbenkian Institute for Molecular Medicine (Portugal)
2022/12/16	Long-term plasmid maintenance - plasmids used as weapons in bacterial competition	XVIII National Meeting of Evolutionary Universidade do Minho (Braga, Portugal)
2022/09/08	The ecology of indirect resistance to antibiotics	5th International Caparica Conference in Antibiotic Resistance 2022 NOVA School of Science and Technology (Portugal)
2022/09/05	Genomic dynamics and evolution of antibiotic resistance and bacterial virulence	5th International Caparica Conference in Antibiotic Resistance 2022 NOVA School of Science and Technology (Portugal)
2022/05/13	Será que a patogenicidade bacteriana e a resistência a antibióticos estão associados?	VI Ciclo de Conferências em Biotecnologia Universidade da Beira Interior (Portugal)
2022/01/13	The plasmid paradox demands a paradoxical solution	Encontros Scientia cE3c (Portugal)
2021/10/28	Bacteria escaping antibiotics - the role of persistence	Seminários em Bioinformática e Biologia Computacional Faculdade de Ciências da Universidade de Lisboa
2021/10/01	Are you sure you know why certain plasmids have the ability to transfer between bacteria?	Frontiers in E3 - 7th Annual Meeting Centre for Ecology, Evolution and Environmental Changes - cE3c (Portugal)
2021/10/01	Impact of COVID-19 measures on resistance genes diversity in the human microbiome and antibiotic administration	Frontiers in E3 - 7th Annual Meeting Centre for Ecology, Evolution and Environmental Changes - cE3c (Portugal)
2021/05/12	The dark side of conjugative plasmids	Encontros Scientia cE3c (Portugal)
2021/02/02	Human connections drive the evolution of metagenomes with virulence and antibiotic-resistance genes	Alphy 2021 (France)
2020/12/16	Human microbiome evolution and antibiotic resistance in pandemic times	XVI ENBE Universidade de Aveiro (Aveiro, Portugal)
2020/12/16	Human social interactions shape the distribution of pathogenicity and antibiotic resistance genes	XVI ENBE Universidade de Aveiro (Aveiro, Portugal)
2020/12/16	Bacterial persistence: an evolutionary mechanism or a set of errors in lucky bacteria?	XVI ENBE Universidade de Aveiro (Aveiro, Portugal)
2020/10/21	A journey through the phenomena of persistence and indirect resistance	Seminários em Bioinformática e Biologia Computacional Faculdade de Ciências da Universidade de Lisboa
2020/10/01	The advantage of dying slowly - the impact of persistence in indirect resistance	6th Annual Meeting 2020 Frontiers in E3
2020/10/01	Understanding the correlation between virulence and antibiotic resistance genes in human metagenomes through computational simulations	6th Annual Meeting 2020 Frontiers in E3
2019/10/17	How sensitive bacteria survive under antibiotic exposure?	Seminários em Bioinformática e Biologia Computacional Faculdade de Ciências da Universidade de Lisboa

Supervision

	Thesis Title Role	Degree Subject (Type) Institution / Organization
2022/02/21 - 2022/05/27	Morte de bactérias suscetíveis a antibióticos Co-supervisor	Estudo Orientado em Biologia Molecular e Genética (Scientific initiation) Universidade de Lisboa Faculdade de Ciências, Portugal
2022/02/21 - 2022/05/27	Morte de bactérias suscetíveis a antibióticos Co-supervisor	Estudo Orientado em Biologia Molecular e Genética (Scientific initiation) Universidade de Lisboa Faculdade de Ciências, Portugal
2021/02/08 - 2021/05/07	Simulation of plasmid transfer on solid surfaces Supervisor of Ana Caroço	Estudo Orientado em Biologia Molecular e Genética (Scientific initiation) Universidade de Lisboa Faculdade de Ciências, Portugal
2021/02/08 - 2021/05/07	Simulation of plasmid transfer on solid surfaces Supervisor of Luís Marques	Estudo Orientado em Biologia Molecular e Genética (Scientific initiation) Universidade de Lisboa Faculdade de Ciências, Portugal
2021/02/08 - 2021/05/07	Estimation of the number of transconjugants using computer simulations Supervisor of Rodrigo Bernardino	Estudo Orientado em Biologia Molecular e Genética (Scientific initiation) Universidade de Lisboa Faculdade de Ciências, Portugal
2021/02/08 - 2021/05/07	Estimation of the number of transconjugants using computer simulations Co-supervisor of Pedro Silva	Estudo Orientado em Biologia Molecular e Genética (Scientific initiation) Universidade de Lisboa Faculdade de Ciências, Portugal
2021/02/08 - 2021/05/07	Computational approach on the dynamics of growth and conjugation in bacteria Co-supervisor of Maria Câncio	Estudo Orientado em Biologia Molecular e Genética (Scientific initiation) Universidade de Lisboa Faculdade de Ciências, Portugal
2021/02/08 - 2021/05/07	Computational approach on the dynamics of growth and conjugation in bacteria Co-supervisor of Martim Geraldes	Estudo Orientado em Biologia Molecular e Genética (Scientific initiation) Universidade de Lisboa Faculdade de Ciências, Portugal

Event organisation

	Event name Type of event (Role)	Institution / Organization
2018/07/23 - 2018/07/27	Volunteer on the organizing committee of ECMTB 2018 - The European Conference on Mathematical and Theoretical Biology (ECMTB) (2018/07/23 - 2018/07/27) Congress (Member of the Organising Committee)	Universidade de Lisboa Faculdade de Ciências, Portugal
2018/03/14 - 2018/03/16	7th Bioinformatics Open Days (2018/03/14 - 2018/03/16)	Universidade do Minho, Portugal

Event participation

	Activity description Type of event	Event name Institution / Organization
2024/05/15 - 2024/05/15	Pontes entre biologia, estatística, informática e matemática	Universidade de Lisboa Faculdade de Ciências, Portugal
2024/03/27 - 2024/03/27	Deciphering the Microbiome: Research and Applications in Early Human Development Symposium	Applied Microbiology International, United Kingdom
2023/10/26 - 2023/10/27	2nd Microbiome PT Summit Conference	Universidade de Lisboa Faculdade de Medicina, Portugal
2023/07/03 - 2023/07/10	Clinical and Environmental Metagenome Analysis	Rice Global Paris Center (Paris)
2023/05/10 - 2023/05/10	Pontes entre biologia, estatística, informática e matemática	Universidade de Lisboa Faculdade de Ciências, Portugal
2022/12/15 - 2022/12/16	XVIII National Meeting of Evolutionary Biology Meeting	XVIII ENBE Universidade do Minho, Portugal
2021/10/27 - 2021/10/27	One Health EJP Dissemination Workshop on Metagenomics Workshop
2021/08/29 - 2021/09/01	25th International Conference on Research in Computational Molecular Biology Conference	RECOMB 2021 Università degli Studi di Padova, Italy
2021/02/04 - 2021/02/04	1st Microbiome PT Summit Meeting	BioData.pt, Portugal
2021/01/26 - 2021/01/27	Inhomogeneous Random Systems	Institut Curie, France Institut Henri Poincaré, France
2020/11/18 - 2020/11/18	3rd Workshop on Human BioMonitoring in Portugal Workshop
2020/06/22 - 2020/06/25	24th International Conference on Research in Computational Molecular Biology	RECOMB 2020 Università degli Studi di Padova, Italy
2018/03/14 - 2018/03/14	Understanding Microbial Dynamics and Interventions with Mathematical Models Workshop	Universidade do Minho, Portugal
2017/10/26 - 2017/11/09	Curso de Persuasão e Influência - Speak and Lead Other	Universidade de Lisboa Faculdade de Ciências, Portugal
2014/02/24 - 2014/03/06	II Jornadas de Investigação em Biologia Meeting	Universidade de Lisboa Faculdade de Ciências, Portugal

Course / Discipline taught

	Academic session	Degree Subject (Type)	Institution / Organization
2021/04/08 - 2021/04/09	Fundamentals of R, statistical analysis and data treatment course given to students of the Master in Applied Microbiology (7h duration)		Universidade de Lisboa Faculdade de Ciências, Portugal

Distinctions

Other distinction

2020	Most read paper September 2020 - mSphere American Society for Microbiology, United States
2020	Top most read paper October-December 2020 - mSphere American Society for Microbiology, United States