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My name is João Botelho and I completed my PhD in Pharmaceutical Sciences - Microbiology at the University of Porto in December 2018, studying the molecular basis of antibiotic resistance mediated by different mobile elements in Pseudomonas aeruginosa isolates from clinical settings. I used experimental and computational approaches and worked in the laboratory of Luísa Peixe, funded by a competitive Fundação para a Ciência e Tecnologia (FCT) grant. I also completed a short postdoctoral fellowship in the same laboratory, before moving to Germany in April 2019 to work as a Max Planck postdoctoral researcher in the laboratory of Hinrich Schulenburg. There, I used computational and experimental approaches to study antibiotic resistance in an evolutionary context, and was awarded the Kiel Life Science Award for Early Career Postdocs while in Germany. I was then awarded a Maria Zambrano Fellowship at the end of 2021 and worked at the Centre for Plant Biotechnology and Genomics CBGP (UPM-INIA) in Spain from July 2022 to November 2024, where my research focused on the evolutionary dynamics of bacterial and archaeal genomes, viruses and microbial populations. In 2023, I've secured a competitive contract in the 6th edition of the Individual Call of the Scientific Employment Stimulus (CEEC), funded by the FCT. Since December 2024, I've been working at the Centre for Biotechnology and Fine Chemistry (CBQF) with my CEEC project, which focuses on exploring the role of duplicated core genes in multipartite bacterial genomes. I've produced high quality results and publications in the labs and countries where I've worked and have established myself as a major figure in the field of bacterial evolution, as evidenced by invitations to present my results and ideas at academic institutions. I have also developed strong collaborations with scientists around the world, resulting in international publications and competitive funding. I have recently co-supervised a PhD student, an undergraduate student and am currently a co-supervisor of a PhD student.
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Identificação

Identificação pessoal

Nome completo
João Francisco Tomaz Santos Botelho
Data de nascimento
1988/05/16
Género
Masculino

Nomes de citação

  • Botelho, João

Identificadores de autor

Ciência ID
6010-5A73-CB50
ORCID iD
0000-0002-2771-2345
Google Scholar ID
_Sz69QgAAAAJ

Endereços de correio eletrónico

  • joaobotelho9@hotmail.com (Profissional)
  • joao.tbotelho@upm.es (Profissional)
  • botelho@evolbio.mpg.de (Profissional)

Websites

Domínios de atuação

  • Ciências Naturais - Ciências Biológicas - Microbiologia
  • Ciências Exatas - Ciências da Computação e da Informação - Bioinformática
  • Ciências Naturais - Ciências Biológicas - Biologia da Evolução das Espécies
  • Ciências Médicas e da Saúde - Ciências da Saúde - Doenças Infeciosas
  • Ciências Médicas e da Saúde - Ciências da Saúde - Saúde Pública e Saúde Ambiental

Idiomas

Idioma Conversação Leitura Escrita Compreensão Peer-review
Português (Idioma materno)
Inglês Utilizador proficiente (C2) Utilizador proficiente (C2) Utilizador proficiente (C2) Utilizador proficiente (C2) Utilizador proficiente (C2)
Formação
Grau Classificação
2021/06/10 - 2021/06/17
Frequentou
 Introduction to Containers for Scientific Computing (Outros)
Christian-Albrechts-Universität zu Kiel, Alemanha
2021/06/02 - 2021/06/04
Frequentou
 Advanced R (Outros)
Max-Planck-Institut für Evolutionsbiologie, Alemanha
2021/05/27 - 2021/05/28
Frequentou
 R for Beginners (Outros)
Max-Planck-Institut für Evolutionsbiologie, Alemanha
2021/05/17 - 2021/05/20
Frequentou
 Ontologies – statistics, biases, tools, networks, and interpretation (CBNA L2P1) (Outros)
European Molecular Biology Laboratory, Alemanha
2021/04/29 - 2021/04/29
Frequentou
 High-Performance and Parallel Computing introduction course (Outros)
Christian-Albrechts-Universität zu Kiel, Alemanha
2021/01/14 - 2021/01/15
Frequentou
 Research Software Development Workshop (Outros)
Max-Planck-Institut für Evolutionsbiologie, Alemanha
2018/12/19
Concluído
 Ciências Farmacêuticas (Doutoramento)
Especialização em Microbiologia
Universidade do Porto Faculdade de Farmácia, Portugal
"Carbapenemase producers of Pseudomonas aeruginosa: lights on new mobile genetic elements" (TESE/DISSERTAÇÃO)
 A
2016/01/20 - 2016/01/22
Frequentou
 2nd ESCMID course on the Principles of Molecular Microbiological Diagnostics (Outros)
Maastricht Universitair Medisch Centrum+, Países Baixos
2011/11/03
Concluído
 Ciências Farmacêuticas (Mestrado integrado)
Universidade do Porto Faculdade de Farmácia, Portugal
 15
Percurso profissional

Ciência

Categoria Profissional
Instituição de acolhimento 		Empregador
2024/12/01 - Atual Investigador (Investigação) Universidade Católica Portuguesa, Portugal
Universidade Católica Portuguesa Portuguesa Centro de Biotecnologia e Química Fina, Portugal
2022/07/27 - 2024/11/15 Investigador (Investigação) Universidad Politécnica de Madrid, Espanha
Centro de Biotecnología y Genómica de Plantas, Espanha
2019/04/24 - 2022/06/23 Pós-doutorado (Investigação) Max-Planck-Institut für Evolutionsbiologie, Alemanha
2019/01/02 - 2019/03/31 Pós-doutorado (Investigação) Universidade do Porto Faculdade de Farmácia, Portugal
2012/01/16 - 2012/07/15 Estagiário de Investigação (Investigação) Universidade de Aveiro CICECO, Portugal
2011/03/01 - 2011/05/31 Estagiário de Investigação (Investigação) Uniwersytet Mikolaja Kopernika w Toruniu Collegium Medicum im Ludwika Rydygiera w Bydgoszczy Wydzial Farmaceutyczny, Polónia
2009/09/01 - 2011/03/01 Estagiário de Investigação (Investigação) Universidade do Porto Faculdade de Farmácia, Portugal
Projetos

Bolsa

Designação Financiadores
2025 - Atual Effective Monitoring and Modelling solutions for data-driven hOlistic management of URBAN water quality
HORIZON-CL6-2024-ZEROPOLLUTION-02-2-two-stage
Investigador
Horizon 2020
2022/07/27 - Atual Coevolution of virus-host interactions and their effect on the microbiome
UP2021-035
Investigador Pós-doutorado
Centro de Biotecnología y Genómica de Plantas, Espanha
 Agencia Estatal de Investigación
Em curso
2015/01/02 - 2018/12/19 Carbapenemase producers of Pseudomonas aeruginosa: lights on new mobile genetic elements
SFRH/BD/104095/2014
Bolseiro de Doutoramento
Governo da República Portuguesa Ministério da Ciência Tecnologia e Ensino Superior
Concluído

Projeto

Designação Financiadores
2024/12/01 - Atual Exploring core gene redundancy and antibiotic resistance through microbial genomics, mathematical modeling, and deep learning
2023.06600.CEECIND/CP2855/CT0001
Universidade Católica Portuguesa Portuguesa Centro de Biotecnologia e Química Fina, Portugal
 Fundação para a Ciência e a Tecnologia
Em curso
2022/07/27 - Atual Severo Ochoa programme
CEX2020-000999-S (2022–2025)
Investigador Pós-doutorado
Centro de Biotecnología y Genómica de Plantas, Espanha
 Agencia Estatal de Investigación
Em curso
2022/09/01 - 2025/08/31 Optimising Pseudomonas putida as a crop warden. Environmental signals, effector specificity and efficiency of the type VI secretion system biocontrol weapon
PID2021-123000OB-I00
Investigador Pós-doutorado
Universidad de Sevilla, Espanha
 Agencia Estatal de Investigación
Em curso
2021/01/01 - 2022/12/31 Bacterial responses to evolution-informed antibiotic therapy - resistance and microbiome monitoring in an interventional study
EXC 2167
Investigador Pós-doutorado
Deutsche Forschungsgemeinschaft
2012/01/16 - 2012/07/15 Development of sustainable selective catalytic oxidation of alkanes
FP7-PEOPLE-2009-RG-256509
Bolseiro de Mestrado
EU Framework Programme for Research and Innovation Marie Sklodowska-Curie Actions
Concluído
Produções

Publicações

Artigo em revista
  1. Liu, Yang; Botelho, Joao; Iranzo, Jaime. "Timescale and genetic linkage explain the variable impact of defense systems on horizontal gene transfer". Genome Research (2025): https://doi.org/10.1101/gr.279300.124.
    10.1101/gr.279300.124
  2. Tueffers, Leif; Batra, Aditi; Zimmermann, Johannes; Botelho, João; Buchholz, Florian; Liao, Junqi; Mendoza Mejía, Nicolás; et al. "Variation in the response to antibiotics and life-history across the major Pseudomonas aeruginosa clone type (mPact) panel". Microbiology Spectrum 12 7 (2024): https://doi.org/10.1128/spectrum.00143-24.
    10.1128/spectrum.00143-24
  3. López-Beltrán, Adrián; Botelho, João; Iranzo, Jaime. "Dynamics of CRISPR-mediated virus–host interactions in the human gut microbiome". The ISME Journal 18 1 (2024): https://doi.org/10.1093/ismejo/wrae134.
    10.1093/ismejo/wrae134
  4. Wheatley, Rachel M.; Botelho, João. "Chasing resistance: analyzing the fight against hospital infections". The Lancet Regional Health - Europe 34 (2023): 100740. https://doi.org/10.1016/j.lanepe.2023.100740.
    10.1016/j.lanepe.2023.100740
  5. Rocha, Jaqueline; Silva, Vanessa; Poeta, Patrícia; Botelho, João; Manaia, Célia M.. "Searching for links between environmental and clinical mecA Staphylococcus aureus: A comparative genomics study". Science of The Total Environment 895 (2023): 165078. https://doi.org/10.1016/j.scitotenv.2023.165078.
    Acesso aberto • 10.1016/j.scitotenv.2023.165078
  6. Botelho, João. "Defense systems are pervasive across chromosomally integrated mobile genetic elements and are inversely correlated to virulence and antimicrobial resistance". Nucleic Acids Research 51 9 (2023): 4385-4397. https://doi.org/10.1093/nar/gkad282.
    Acesso aberto • 10.1093/nar/gkad282
  7. Botelho, João; Tüffers, Leif; Fuss, Janina; Buchholz, Florian; Utpatel, Christian; Klockgether, Jens; Niemann, Stefan; Tümmler, Burkhard; Schulenburg, Hinrich. "Phylogroup-specific variation shapes the clustering of antimicrobial resistance genes and defence systems across regions of genome plasticity in Pseudomonas aeruginosa". eBioMedicine 90 (2023): 104532. https://doi.org/10.1016/j.ebiom.2023.104532.
    Acesso aberto • 10.1016/j.ebiom.2023.104532
  8. Botelho, João; Cazares, Adrian; Schulenburg, Hinrich. "The ESKAPE mobilome contributes to the spread of antimicrobial resistance and CRISPR-mediated conflict between mobile genetic elements". Nucleic Acids Research 51 1 (2023): 236-252. https://doi.org/10.1093/nar/gkac1220.
    Acesso aberto • 10.1093/nar/gkac1220
  9. Hall, James P. J.; Botelho, João; Cazares, Adrian; Baltrus, David A.. "What makes a megaplasmid?". Philosophical Transactions of the Royal Society B: Biological Sciences 377 1842 (2021): https://doi.org/10.1098/rstb.2020.0472.
    Acesso aberto • 10.1098/rstb.2020.0472
  10. Botelho, João; Hinrich Schulenburg. Autor correspondente: Botelho, João. "The Role of Integrative and Conjugative Elements in Antibiotic Resistance Evolution". Trends in Microbiology 29 1 (2021): 8-18. http://dx.doi.org/10.1016/j.tim.2020.05.011.
    10.1016/j.tim.2020.05.011
  11. Botelho, João; Mourão, Joana; Roberts, Adam P.; Peixe, Luísa. "Comprehensive genome data analysis establishes a triple whammy of carbapenemases, ICEs and multiple clinically relevant bacteria". Microbial Genomics 6 10 (2020): https://doi.org/10.1099/mgen.0.000424.
    Acesso aberto • 10.1099/mgen.0.000424
  12. Botelho, João; Grosso, Filipa; Peixe, Luísa. Autor correspondente: Botelho, João. "ICEs Are the Main Reservoirs of the Ciprofloxacin-Modifying crpP Gene in Pseudomonas aeruginosa". Genes 11 8 (2020): http://dx.doi.org/10.3390/genes11080889.
    Acesso aberto • 10.3390/genes11080889
  13. Nikolaou, Elissavet; Hubbard, Alasdair T. M.; Botelho, João; Marschall, Taylor A. M.; Ferreira, Daniela M.; Roberts, Adam P.. "Antibiotic Resistance Is Associated with Integrative and Conjugative Elements and Genomic Islands in Naturally Circulating Streptococcus pneumoniae Isolates from Adults in Liverpool, UK". Genes 11 6 (2020): 625. http://dx.doi.org/10.3390/genes11060625.
    Acesso aberto • 10.3390/genes11060625
  14. Hubbard, Alasdair T. M.; Newire, Enas; Botelho, João; Reiné, Jesús; Wright, Elli; Murphy, Emma A; Hutton, William; Roberts, Adam P.. "Isolation of an antimicrobial-resistant, biofilm-forming, Klebsiella grimontii isolate from a reusable water bottle". MicrobiologyOpen 9 6 (2020): 1128-1134. http://dx.doi.org/10.1002/mbo3.1023.
    Acesso aberto • 10.1002/mbo3.1023
  15. Joana Rocha; Botelho, João; Magdalena Ksiezarek; Svetlana Ugarcina Perovic; Miguel Machado; João André Carriço; Lígia L. Pimentel; et al. "Lactobacillus mulieris sp. nov., a new species of Lactobacillus delbrueckii group". International Journal of Systematic and Evolutionary Microbiology 70 3 (2020): 1522-1527. https://doi.org/10.1099/ijsem.0.003901.
    Acesso aberto • 10.1099/ijsem.0.003901
  16. Monárrez, Rubén; Braun, Molly; Coburn-Flynn, Olivia; Botelho, João; Odetoyin, Babatunde W.; Otero-Vera, Jose I.; Quartey, Naa Kwarley Eyiram; et al. "A large self-transmissible resistance plasmid from Nigeria contains genes that ameliorate a carrying cost". Scientific Reports 9 1 (2019): http://dx.doi.org/10.1038/s41598-019-56064-z.
    Acesso aberto • 10.1038/s41598-019-56064-z
  17. Botelho, João; Grosso, Filipa; Peixe, Luísa. Autor correspondente: Botelho, João. "Antibiotic resistance in Pseudomonas aeruginosa – Mechanisms, epidemiology and evolution". Drug Resistance Updates 44 (2019): http://dx.doi.org/10.1016/j.drup.2019.07.002.
    10.1016/j.drup.2019.07.002
  18. Botelho, João; Lood, Cédric; Partridge, Sally R.; van Noort, Vera; Lavigne, Rob; Grosso, Filipa; Peixe, Luísa. Autor correspondente: Botelho, João. "Combining sequencing approaches to fully resolve a carbapenemase-encoding megaplasmid in a Pseudomonas shirazica clinical strain". Emerging Microbes & Infections 8 1 (2019): 1186-1194. http://dx.doi.org/10.1080/22221751.2019.1648182.
    Acesso aberto • 10.1080/22221751.2019.1648182
  19. Botelho, João; Adam P. Roberts; Ricardo León-Sampedro; Filipa Grosso; Luísa Peixe. Autor correspondente: Botelho, João. "Carbapenemases on the move: it’s good to be on ICEs". Mobile DNA 9 1 (2018): https://doi.org/10.1186/s13100-018-0141-4.
    Acesso aberto • 10.1186/s13100-018-0141-4
  20. Beaton, Ainsley; Lood, Cédric; Cunningham-Oakes, Edward; MacFadyen, Alison; Mullins, Alex J; Bestawy, Walid El; Botelho, João; et al. "Community-led comparative genomic and phenotypic analysis of the aquaculture pathogen Pseudomonas baetica a390T sequenced by Ion semiconductor and Nanopore technologies". FEMS Microbiology Letters 365 9 (2018): http://dx.doi.org/10.1093/femsle/fny069.
    Acesso aberto • 10.1093/femsle/fny069
  21. Botelho, João; Grosso, Filipa; Quinteira, Sandra; Brilhante, Michael; Ramos, Helena; Peixe, Luísa. "Two decades of blaVIM-2-producing Pseudomonas aeruginosa dissemination: an interplay between mobile genetic elements and successful clones". Journal of Antimicrobial Chemotherapy 73 4 (2018): 873-882. http://dx.doi.org/10.1093/jac/dkx517.
    Acesso aberto • 10.1093/jac/dkx517
  22. Botelho, João; Grosso, Filipa; Peixe, Luísa. "Unravelling the genome of a Pseudomonas aeruginosa isolate belonging to the high-risk clone ST235 reveals an integrative conjugative element housing a blaGES-6 carbapenemase". Journal of Antimicrobial Chemotherapy 73 1 (2017): 77-83. http://dx.doi.org/10.1093/jac/dkx337.
    Acesso aberto • 10.1093/jac/dkx337
  23. Mabrouk, Aymen; Grosso, Filipa; Botelho, João; Achour, Wafa; Ben Hassen, Assia; Peixe, Luisa. "GES-14-Producing Acinetobacter baumannii Isolates in a Neonatal Intensive Care Unit in Tunisia Are Associated with a Typical Middle East Clone and a Transferable Plasmid". Antimicrobial Agents and Chemotherapy 61 6 (2017): http://dx.doi.org/10.1128/aac.00142-17.
    Acesso aberto • 10.1128/aac.00142-17
  24. Botelho, João; Grosso, Filipa; Quinteira, Sandra; Mabrouk, Aymen; Peixe, Luísa. "The complete nucleotide sequence of an IncP-2 megaplasmid unveils a mosaic architecture comprising a putative novel blaVIM-2-harbouring transposon in Pseudomonas aeruginosa". Journal of Antimicrobial Chemotherapy 72 8 (2017): 2225-2229. http://dx.doi.org/10.1093/jac/dkx143.
    Acesso aberto • 10.1093/jac/dkx143
  25. Botelho, João; Grosso, Filipa; Peixe, Luísa. "Characterization of the pJB12 Plasmid from Pseudomonas aeruginosa Reveals Tn 6352 , a Novel Putative Transposon Associated with Mobilization of the bla VIM-2 -Harboring In58 Integron". Antimicrobial Agents and Chemotherapy 61 5 (2017): http://dx.doi.org/10.1128/aac.02532-16.
    Acesso aberto • 10.1128/aac.02532-16
  26. Sousa, Clara; Botelho, João; Grosso, Filipa; Silva, Liliana; Lopes, João; Peixe, Luísa. "Unsuitability of MALDI-TOF MS to discriminate Acinetobacter baumannii clones under routine experimental conditions". Frontiers in Microbiology 6 (2015): http://dx.doi.org/10.3389/fmicb.2015.00481.
    Acesso aberto • 10.3389/fmicb.2015.00481
  27. Botelho, João; Grosso, F.; Sousa, C.; Peixe, L.. "Characterization of a new genetic environment associated with GES-6 carbapenemase from a Pseudomonas aeruginosa isolate belonging to the high-risk clone ST235". Journal of Antimicrobial Chemotherapy 70 2 (2014): 615-617. http://dx.doi.org/10.1093/jac/dku391.
    Acesso aberto • 10.1093/jac/dku391
  28. Sousa, C.; Botelho, João; Silva, L.; Grosso, F.; Nemec, A.; Lopes, J.; Peixe, L.. "MALDI-TOF MS and chemometric based identification of the Acinetobacter calcoaceticus-Acinetobacter baumannii complex species". International Journal of Medical Microbiology 304 5-6 (2014): 669-677. http://www.scopus.com/inward/record.url?eid=2-s2.0-84903819314&partnerID=MN8TOARS.
    10.1016/j.ijmm.2014.04.014
  29. Silva, A.R.; Botelho, João. "Peroxidative oxidation of cyclic and linear hexane catalysed by supported iron complexes under mild and sustainable conditions". Journal of Molecular Catalysis A: Chemical 381 (2014): 171-178. http://www.scopus.com/inward/record.url?eid=2-s2.0-84887283070&partnerID=MN8TOARS.
    10.1016/j.molcata.2013.10.020
  30. Gaspar, L.; Oliveira, A.P.; Silva, L.R.; Andrade, P.B.; de Pinho, P.G.; Botelho, João; Valentão, P.. "Metabolic and biological prospecting of Coreopsis tinctoria". Brazilian Journal of Pharmacognosy 22 2 (2012): 350-358. http://www.scopus.com/inward/record.url?eid=2-s2.0-84856898672&partnerID=MN8TOARS.
    Acesso aberto • 10.1590/S0102-695X2011005000224
  31. Ferreres, F.; Pereira, D.M.; Gil-Izquierdo, A.; Valentão, P.; Botelho, João; Mouga, T.; Andrade, P.B.. "HPLC-PAD-atmospheric pressure chemical ionization-MS metabolite profiling of cytotoxic carotenoids from the echinoderm Marthasterias glacialis (spiny sea-star)". Journal of Separation Science 33 15 (2010): 2250-2257. http://www.scopus.com/inward/record.url?eid=2-s2.0-77955345220&partnerID=MN8TOARS.
    10.1002/jssc.201000197
Edição de número de revista
  1. Botelho, João. "Special Issue "Mobile Elements and Antibiotic Resistance"". Antibiotics (2021): https://www.mdpi.com/journal/antibiotics/special_issues/mobile_elements.
    Publicado • Editor convidado
Poster em conferência
  1. Botelho, João; Iranzo, Jaime. Autor correspondente: Botelho, João. "Defense systems are pervasive across chromosomally integrated mobile genetic elements and are inversely correlated to virulence and antimicrobial resistance". Trabalho apresentado em SMBE 2023, 2023.
  2. Grosso, Filipa; Botelho, João; Silva, Liliana; Lood, Cédric; van Noort, Vera; Lavigne, Rob; Luísa Vieira Peixe. "Unraveling the Genetic Mechanisms of blaIMP-5 Dissemination in Acinetobacter Species: Insights and Unanswered Questions". Trabalho apresentado em 13th International Symposium on the Biology of Acinetobacter, 2023.
  3. Botelho, João; Schulenburg, Hinrich. Autor correspondente: Botelho, João. "The ESKAPE pathogens mobilome: a systematic analysis". Trabalho apresentado em Microbiotec 19, 2019.
  4. Rocha, Joana; Botelho, João; Ksiezarek M; Ribeiro TG; Machado MP; Carriço JA; Pimentel L; et al. "Lactobacillus femina sp. nov., a new species of Lactobacillus delbrueckii group". Trabalho apresentado em 8th Congress of European Microbiologists (FEMS 2019), 2019.
  5. Botelho, João; Rocha J; Lood, Cédric; Carriço JA; Ribeiro TG; van Noort, Vera; Lavigne, Rob; Grosso, F; Peixe, L. Autor correspondente: Botelho, João. "Pseudomonas catumbelensis sp. nov. is a novel species within the Pseudomonas putida phylogenetic group isolated from a septic tank in Angola and carrying several antimicrobial resistance genes". Trabalho apresentado em 8th Congress of European Microbiologists (FEMS 2019), 2019.
  6. Botelho, João; Rocha J; Lood, Cédric; Partridge, Sally R.; Carriço JA; Ribeiro TG; van Noort, Vera; et al. "Characterization of a large blaVIM-2-carrying plasmid in Pseudomonas portuensis sp. nov., a novel species within the Pseudomonas putida phylogenetic group". Trabalho apresentado em 8th Congress of European Microbiologists (FEMS 2019), 2019.
  7. Botelho, João; Roberts, AP; Mourão, Joana; Grosso, F; Peixe, L. Autor correspondente: Botelho, João. "Integrative and conjugative elements, the neglected drivers of carbapenemase-encoding genes". Trabalho apresentado em ASM Microbe, 2019.
  8. Botelho, João; Lood, Cédric; Partridge, Sally R.; van Noort, Vera; Lavigne, Rob; Grosso, F; Peixe, L. Autor correspondente: Botelho, João. "Megaplasmids on the rise: combining sequencing approaches to fully resolve a carbapenemase-encoding plasmid in a novel Pseudomonas species". Trabalho apresentado em 29th European Congress of Clinical Microbiology and Infectious Diseases (ECCMID), 2019.
  9. Grosso, F; Botelho, João; Lira, A; Lameirão, A; Selaru, A; Abreu, G; Lopes, P; Mota, M; Peixe, L. Autor correspondente: Grosso, F. "GES-6 Pseudomonas aeruginosa producers more common than expected questioning ceftolozane/tazobactam efficacy". Trabalho apresentado em 29th European Congress of Clinical Microbiology and Infectious Diseases (ECCMID), 2019.
  10. Botelho, João; Roberts, AP; León-Sampedro, R; Grosso, F; Peixe, L. Autor correspondente: Botelho, João. "An in silico approach to explore the link between carbapenemase-producing Pseudomonas spp. and ICE". Trabalho apresentado em Antimicrobial Resistance – Genomes, Big Data and Emerging Technologies, 2018.
  11. Botelho, João; Roberts, AP; León-Sampedro, R; Grosso, F; Peixe, L. Autor correspondente: Botelho, João. "Carbapenemases on the move: it’s good to be on ICE". Trabalho apresentado em Copenhagen Bioscience Conference 15 - Averting the post-antibiotic era, 2018.
  12. Botelho, João; Roberts, AP; Grosso, F; Peixe, L. "A wide array of integrative conjugative elements associated with carbapenemase-encoding genes in Pseudomonas genomes is disclosed by in silico analysis". Trabalho apresentado em 28th European Congress of Clinical Microbiology and Infectious Diseases (ECCMID), 2018.
  13. Botelho, João; Grosso, F; Ribeiro TG; Peixe, L. Autor correspondente: Botelho, João. "Whole-genome sequencing of a potentially new Pseudomonas species from a non-clinical niche in Angola uncovers a wide array of antimicrobial resistance genes and mobile genetic elements". Trabalho apresentado em MicroBiotec 17, 2017.
  14. Botelho, João; Grosso, F; Peixe, L. Autor correspondente: Botelho, João. "Unraveling the genome of a Pseudomonas aeruginosa isolate belonging to the high-risk clone ST235 exposes a putative integrative conjugative element housing a blaGES-6 carbapenemase". Trabalho apresentado em 16th International Conference on Pseudomonas, 2017.
  15. Botelho, João; Grosso, F; Peixe, L. Autor correspondente: Botelho, João. "Two decades of relentless blaVIM-2 producing Pseudomonas aeruginosa dissemination: the decisive role of mobile genetic elements and successful clones". Trabalho apresentado em 16th International Conference on Pseudomonas, 2017.
  16. Botelho, João; Grosso, F; Peixe, L. Autor correspondente: Botelho, João. "Whole-genome sequencing unveils a potentially new Pseudomonas species associated with Tn6372, a novel blaVIM-2-transposable element". Trabalho apresentado em 7th Congress of European Microbiologists (FEMS 2017), 2017.
  17. Botelho, João; Grosso, F; Mabrouk, Aymen; Peixe, L. Autor correspondente: Botelho, João. "Complete nucleotide sequence of pJB58, a blaVIM-2-harboring plasmid from Pseudomonas aeruginosa". Trabalho apresentado em 7th Congress of European Microbiologists (FEMS 2017), 2017.
  18. Botelho, João; Grosso, F; Mabrouk, Aymen; Peixe, L. Autor correspondente: Botelho, João. "Complete nucleotide sequence of an IncP-2 blaVIM-2-harboring megaplasmid from Pseudomonas aeruginosa". Trabalho apresentado em 27th European Congress of Clinical Microbiology and Infectious Diseases (ECCMID), 2017.
  19. Mabrouk, Aymen; Grosso, F; Botelho, João; Silva, Liliana; Achour, Wafa; Ben Hassen, Assia; Peixe, L. Autor correspondente: Mabrouk, Aymen. "Regional clones and carbapenemases associated with carbapenem-resistant Acinetobacter baumannii in nosocomial settings in Tunis, Tunisia". Trabalho apresentado em 27th European Congress of Clinical Microbiology and Infectious Diseases (ECCMID), 2017.
  20. Botelho, João; Grosso, F; Rocha, C; Brilhante, M; Sousa, Clara; Peixe, L. Autor correspondente: Botelho, João. "High-risk clones among carbapenemase-producing Pseudomonas aeruginosa in a Portuguese hospital". Trabalho apresentado em 25th European Congress of Clinical Microbiology and Infectious Diseases (ECCMID), 2015.
  21. Pires, J; Novais, Ângela; Silva, Liliana; Campos, Joana; Botelho, João; Czobor, I; Gheorghe, I; Peixe, L. "Further validation of Blue-Carba, a recently described quick and reliable method for carbapenemase detection". Trabalho apresentado em 24th European Congress of Clinical Microbiology and Infectious Diseases (ECCMID), 2014.
  22. Sousa, Clara; Botelho, João; Silva, Liliana; Grosso, F; Lopes, João; Peixe, L. "MALDI-TOF MS and FTIR-ATR: Different Biomolecules and Distinct Outputs in Acinetobacter baumannii Typing". Trabalho apresentado em 24th European Congress of Clinical Microbiology and Infectious Diseases (ECCMID), 2014.
  23. Botelho, João; Sousa, Clara; Silva, Liliana; Grosso, F; Nemec, A.; Lopes, João; Peixe, L. Autor correspondente: Botelho, João. "Acinetobacter calcoaceticus-Acinetobacter baumannii complex species depicted by MALDI-TOF MS and multivariate data analysis". Trabalho apresentado em MicroBiotec 13, 2013.
  24. Sousa, Clara; Botelho, João; Silva, Liliana; Grosso, F; Nemec, A.; Lopes, João; Peixe, L. "Improvement on the discrimination of the Acinetobacter calcoaceticus-Acinetobacter baumannii complex species by a combined MALDI-TOF MS and chemometric approach". Trabalho apresentado em 10th International Meeting on Microbial Epidemiological Markers (IMMEM-10), 2013.
  25. Botelho, João; Silva, AR. "Peroxidative Oxidation of Cyclohexane Catalyzed by Iron(III) Acetylacetonate Anchored onto Amine-Functionalized Solid Supports". Trabalho apresentado em IX CICECO Meeting, 2012.
  26. Gonçalves, RF; Llopis, A; Félix, CC; Botelho, João; Gaspar, L.; Almada, M; Gonçalves, ML; Guimarães, TM. "Insight into chemistry and biological potential of Osmundea pinnatifida (Rhodophyta)". Trabalho apresentado em IJUP'11, 2011.
  27. Pereira, DM; Gonçalves, C; Couto, D; Meireles, H; Moreira, P; Mouga, T.; Botelho, João. "Marthasterias glacialis: from chemistry to bioactivity". Trabalho apresentado em IJUP'10, 2010.
Pré-impressão
  1. Liu, Yang; Botelho, João; Iranzo, Jaime. "Timescales and genetic linkage explain the variable impact of defense systems on horizontal gene transfer". 2024. http://dx.doi.org/10.1101/2024.02.29.582795.
    10.1101/2024.02.29.582795
Recurso online
  1. Botelho, João. Autor correspondente: Botelho, João. Code repository for reproducing the main figures in the paper: "The ESKAPE mobilome contributes to the spread of antimicrobial resistance and CRISPR-mediated conflict between mobile genetic elements". 2022. https://gitlab.gwdg.de/botelho/eskape_paper.
  2. Botelho, João. Autor correspondente: Botelho, João. Code repository for reproducing the analyses in the paper: "Defense systems are pervasive across chromosomally integrated mobile genetic elements and are inversely correlated to virulence and antimicrobial resistance". 2022. https://gitlab.gwdg.de/botelho/ices_imes.
  3. Botelho, João. Pseudomonas aeruginosa Hannover strains collection. 2022. https://www.ncbi.nlm.nih.gov/bioproject/810040.
  4. Botelho, João. Autor correspondente: Botelho, João. Code repository for reproducing the analyses in the paper: "Phylogroup-specific variation shapes the clustering of antimicrobial resistance genes and defence systems across regions of genome plasticity". 2022. https://gitlab.gwdg.de/botelho/pa_pangenome.
  5. Botelho, João. Pseudomonas sp. FFUP_PS_473 Genome sequencing and assembly. 2017. https://www.ncbi.nlm.nih.gov/bioproject/422363.
  6. Botelho, João. blaVIM-2-producing Pseudomonas aeruginosa isolates from Portuguese hospitals. 2017. https://www.ncbi.nlm.nih.gov/bioproject/388154.
Tese / Dissertação
  1. "Carbapenemase producers of Pseudomonas aeruginosa: lights on new mobile genetic elements". 2018. https://ciencia.ucp.pt/en/publications/d78afc96-9528-46af-93b9-9d9326264aea.
Atividades

Apresentação oral de trabalho

Título da apresentação Nome do evento
Anfitrião (Local do evento)
2024/10/24 Regions of genome plasticity: a comparative analysis of mobility and retention patterns in bacterial and archaeal pangenomes IUMS 2024
IUMS (Florence, Itália)
2024/10/24 Regions of genome plasticity: a comparative analysis of mobility and retention patterns in bacterial and archaeal pangenomes IUMS24
(Florence, Itália)
2024/10/23 Timescales and Genetic Linkage Explain the Variable Impact of Defense Systems on Horizontal Gene Transfer - ePoster flash presentation IUMS 2024
IUMS (Florence, Itália)
2024/10/23 Timescales and Genetic Linkage Explain the Variable Impact of Defense Systems on Horizontal Gene Transfer IUMS24
(Florence, Itália)
2023/10/25 Regions of Genome Plasticity: A Comparative Analysis of Mobility and Retention Patterns in Bacterial and Archaeal Pangenomes The Local Pangenome 2023
(Alicante, Espanha)
2023/06/27 The Importance Of Recycling The Sheath Of The Type VI Secretion System (T6SS), A Bacterial Killing Machine And Biocontrol Weapon XXIX SEM congress (Spanish society for Microbiology)
(Burgos, Espanha)
2023/01 Assembly and disassembly of a bacterial killing machine and biocontrol weapon. The importance of recycling the sheath of the Type VI secretion system X Meeting of the Plant Microbiology Group (MiP23)
Spanish Society for Microbiology (SEM) (Nerja, Espanha)
2022/10/20 The ESKAPE mobilome contributes to the spread of antimicrobial resistance and CRISPR-mediated conflict between mobile genetic elements SMBEeverywhere GS5 - Evolutionary Genomics of Host-Pathogen Interactions and Antimicrobial Drug Resistance
The Society for Molecular Biology and Evolution
2022/10/20 The ESKAPE mobilome contributes to the spread of antimicrobial resistance and CRISPR-mediated conflict between mobile genetic elements SMBEeverywhere
2022/02/03 The ESKAPE mobilome Antimicrobial Chemotherapy Virtual Conference
The British Society for Antimicrobial Chemotherapy/The Global Antibiotic Research & Development Partnership
2021/05/07 The ESKAPE pathogens mobilome Microbial Genomics Workshop
University of Pittsburgh (Pittsburgh, Estados Unidos)
2021/05/07 The ESKAPE pathogens mobilome
University of Pittsburgh
2021/03/05 Integrative and conjugative elements (ICEs): what do we know about them? Seminar at Hildegard Uecker’s lab
Max Planck Institute for Evolutionary Biology (Ploen, Alemanha)
2021/03/05 Integrative and conjugative elements (ICEs): what do we know about them?
Max Planck Institute for Evolutionary Biology
2020/12/02 Crossroads of mobile genetic elements and antibiotic resistance BLS Seminar Series
Lancaster University (Lancaster, Reino Unido)
2020/12/02 Crossroads of mobile genetic elements and antibiotic resistance
Lancaster University
2020/04 Big data analysis of all bacterial genomes establishes a triple whammy of carbapenemases, ICEs and multiple clinically-relevant bacteria 30th European Congress of Clinical Microbiology and Infectious Diseases (ECCMID)
European Society of Clinical Microbiology and Infectious Diseases (ESCMID) (Paris, França)
2019/08/07 Antibiotic resistance in Pseudomonas aeruginosa – mechanisms, epidemiology and evolution of mobile genetic elements Seminar at Tal Dagan’s lab
CAU Kiel (Kiel, Alemanha)
2019/08/07 Antibiotic resistance in Pseudomonas aeruginosa – mechanisms, epidemiology and evolution of mobile genetic elements
Kiel University
2018/11 An in silico approach to explore the link between carbapenemase-producing Pseudomonas spp. and ICE Antimicrobial Resistance – Genomes, Big Data and Emerging Technologies
Wellcome (Hinxton, Reino Unido)
2017/09 Two decades of relentless blaVIM-2 producing Pseudomonas aeruginosa dissemination: the decisive role of mobile genetic elements and successful clones 16th International Conference on Pseudomonas
Federation of European Microbiological Societies (FEMS) (Liverpool, Reino Unido)
2017/04/23 Sequencing the plasmid pJB12 from Pseudomonas aeruginosa reveals Tn6352, a novel transposon associated with mobilization of blaVIM-2 harbouring In58 integron 27th European Congress of Clinical Microbiology and Infectious Diseases (ECCMID)
European Society of Clinical Microbiology and Infectious Diseases (ESCMID) (Wien, Áustria)
2015/12 Unveiling clones and integrons dynamics associated with carbapenemase-producing P. aeruginosa clinical isolates in a Portuguese hospital Microbiotec’15
Portuguese Society of Microbiology/Portuguese Society of Biotechnology (Evora, Portugal)
2014/02 Molecular characterization of carbapenem-resistant Pseudomonas aeruginosa clinical isolates from a Portuguese Hospital IJUP'14
University of Porto (Porto, Portugal)
2011/02 Metabolic profiling and bioactivity of Lithospermum diffusum IJUP'11
University of Porto (Porto, Portugal)

Orientação

Título / Tema
Papel desempenhado 		Curso (Tipo)
Instituição / Organização
2022/09/01 - Atual Virus-host interaction dynamics in the gut microbiome through the analysis of CRISPR arrays
Coorientador
Centro de Biotecnología y Genómica de Plantas, Espanha
2022/09/01 - 2024/04/15 Quantifying the effect of CRISPR-Cas immunity on gene gain and loss
Coorientador
Centro de Biotecnología y Genómica de Plantas, Espanha
2020/10 - 2021/08 Collateral sensitivity and horizontal gene transfer; an intersection
Coorientador
Christian-Albrechts-Universität zu Kiel, Alemanha

Organização de evento

Nome do evento
Tipo de evento (Tipo de participação) 		Instituição / Organização
2025/04/02 - 2025/04/03 Co-chair a session on "Microbial Warfare: conflicts between species, strains, and mobile genetic elements" at the Microbiology Society Annual Conference in Liverpool (2-3 April 2025) - https://microbiologysociety.org/event/annual-conference/annual-conference-2025.html#tab-2 (2025/03/31)
Conferência (Outra)
 Microbiology Society, Reino Unido
2021/05/25 - 2021/05/25 Webinar ‘Mobile Elements and Antibiotic Resistance’ (2021/05/25 - 2021/05/25)
Seminário (Outra)
2019/05/08 - 2019/05/10 Evolutionary Biology Meets the Antibiotic Crisis (2019/05/08 - 2019/05/10)
Oficina (workshop) (Outra)
 Max-Planck-Institut für Evolutionsbiologie, Alemanha

Participação em evento

Descrição da atividade
Tipo de evento 		Nome do evento
Instituição / Organização
2023/06/01 - 2023/06/02 4th Griffith's Legacy Meeting - Today’s models, approaches and concepts
Encontro
2021/10/11 - 2021/10/13 AMR Hackathon
Oficina (workshop)
 AMR Hackathon
Joint Programming Initiative on Antimicrobial Resistance, Suécia
2021/09/28 - 2021/09/30 Genomic population structures of microbial pathogens
Conferência
 Genomic population structures of microbial pathogens
The Royal Society, Reino Unido
2021/09/20 - 2021/09/21 Career Steps for Postdocs in Academia & Industry
Oficina (workshop)
 Career Steps for Postdocs in Academia & Industry
Max-Planck-Institut für Evolutionsbiologie, Alemanha
2021/05/06 - 2021/06/08 Plasmids Around the Globe 2021
Conferência
 Plasmid Biology Society
2021/04/26 - 2021/04/30 Annual Conference Online 2021
Conferência
Microbiology Society, Reino Unido
2020/06/09 - 2020/08/04 Pseudomonas Seminars, organized by Urvish Trivedi and Cassie Nelson
Conferência

Júri de grau académico

Tema
Tipo de participação 		Nome do candidato (Tipo de grau)
Instituição / Organização
2022/02/05 Evolutionary Relationships and Interactions of Conjugative Antibiotic Resistance Plasmids
Arguente
 Miss Aurelie Tsee Woon Yuen (Doutoramento)
La Trobe University, Austrália
2022/02/05 Evolutionary Relationships and Interactions of Conjugative Antibiotic Resistance Plasmids
Arguente principal
 Aurelie Tsee Woon Yuen (Doutoramento)
La Trobe University, Austrália

Comissão de avaliação

Descrição da atividade
Tipo de assessoria 		Instituição / Organização Entidade financiadora
2024/09/03 - 2024/09/20 Review grant proposal for the National Science Center, Poland
Avaliador
 Uniwersytet Medyczny w Bialymstoku, Polónia
2023/02/02 - 2023/02/15 FWO Call for Junior and Senior post-doctoral Fellowships
Avaliador
 Universiteit Antwerpen, Bélgica Fonds Wetenschappelijk Onderzoek Vlaanderen
2020/06/30 - 2020/07/21 Medical Research Council (MRC)-funded fellowships
Avaliador
 Imperial College London, Reino Unido UK Research and Innovation
2020/01/29 - 2020/03/15 Research Südtirol/Alto Adige 2019
Avaliador
 Università degli Studi di Trento, Itália Provincia autonoma di Bolzano - Alto Adige

Curso / Disciplina lecionado

Disciplina Curso (Tipo) Instituição / Organização
2024/11/11 - 2024/11/11 Seminar for the Master’s in Applied Microbiology (Mestrado) Universidade Católica Portuguesa Portuguesa Centro de Biotecnologia e Química Fina, Portugal
2022/11/02 - 2022/11/02 Seminar for the Master’s in Applied Microbiology (Mestrado) Universidade Católica Portuguesa Portuguesa Centro de Biotecnologia e Química Fina, Portugal
2015 - 2017 Curricular unit of Clinical Bacteriology Master in Clinical Analysis Universidade do Porto Faculdade de Farmácia, Portugal
2015 - 2016 Curricular unit of Microbiological Quality Master in Quality Control Universidade do Porto Faculdade de Farmácia, Portugal
2015 - 2016 Curricular unit of Bacteriology Integrated Master's in Pharmaceutical Sciences Universidade do Porto Faculdade de Farmácia, Portugal

Entrevista / Programa (rádio / tv)

Programa Tema
2020/11/13 - Atual Programme held in Portuguese and named "Conversas de Consultório" Science communication, focused on the use of antibiotics and how it impacts the society and the environment

Membro de comissão

Descrição da atividade
Tipo de participação 		Instituição / Organização
2015 - 2017 Member of the Pedagogic Council
Membro
 Universidade do Porto Faculdade de Farmácia, Portugal

Revisão ad hoc de artigos em revista

Nome da revista (ISSN) Editora
2024/07 - Atual Journal of Applied Microbiology
2024/06 - Atual Drug Resistance Updates
2024/05 - Atual Cell Press Community
2023/10 - Atual JAC-Antimicrobal Resistance
2023/09/21 - Atual Nature Communications
2023/08 - Atual iMeta
2023/07 - Atual Microbiology
2023/07 - Atual The Lancet Regional Health - Europe
2023/06/21 - Atual Microbial Biotechnology
2023/04/24 - Atual NAR Genomics and Bioinformatics
2023/02/27 - Atual Chemosphere
2021/10/29 - Atual Computational and Structural Biotechnology Journal
2021/04/26 - Atual Virulence
2021/04/10 - Atual Future Microbiology
2021/04/10 - Atual International Journal of Molecular Sciences
2021/01/05 - Atual Emerging Microbes & Infections
2020/11/18 - Atual Microorganisms
2020/10/16 - Atual BMC Microbiology
2020/10/12 - Atual Communications Biology
2020/09/18 - Atual Expert Review of Anti-Infective Therapy
2020/05/21 - Atual Antibiotics
2020/05/07 - Atual mSystems
2019/12/10 - Atual Microbial Genomics
2019/11/28 - Atual Infection and Drug Resistance
2019/09/27 - Atual Eurosurveillance
2019/08/24 - Atual Plos One
2017/09/11 - Atual Antimicrobial Agents and Chemotherapy
2016/01/04 - Atual Journal of Antimicrobial Chemotherapy

Tutoria

Tópico Nome do aluno
2014/09 - 2016/12 Genotypic and phenotypic characterization of Acinetocter baumannii isolates resistant to carbapenems Aymen Mabrouk
2014/07 - 2014/08 Molecular characterization of clinical isolates of Pseudomonas aeruginosa resistant to carbapenems Michael Quinta Brilhante
2014/05 - 2014/06 Molecular characterization of clinical isolates of Pseudomonas aeruginosa resistant to carbapenems Catarina Rocha
Distinções

Prémio

2020 Kiel Life Science Award for Early Career Postdocs
Christian-Albrechts-Universität zu Kiel, Alemanha
2019 ASM Infectious Disease Fellows Program Award
American Society for Microbiology, Estados Unidos
2015 Best Oral Presentation at the Microbiotec 15
American Society for Microbiology, Estados Unidos

Outra distinção

2019 ECCMID Travel grant to attend the 29th European Congress of Clinical Microbiology and Infectious Diseases (ECCMID), held in Amsterdam, The Netherlands, 13-16 April 2019
European Society of Clinical Microbiology and Infectious Diseases, Suiça
2019 FEMS Congress Grant for Early Career Scientists to attend Microbiotec¿19, held in Coimbra, Portugal, 5-7 December 2019
Federation Of European Microbiological Societies, Reino Unido
2018 Novo Nordisk Fonden Grant to attend the Copenhagen Bioscience Conference 15 - Averting the post-antibiotic era, held in Hillerød, Denmark, 31 October to 3 November 2018
Novo Nordisk Fonden, Dinamarca
2018 Wellcome Genome Campus bursary to attend the Antimicrobial Resistance - Bacterial Genomics, Big Data & Emerging Technologies conference, held in Hinxton, UK, 27-29 November 2018
Wellcome Sanger Institute, Reino Unido
2018 Wellcome Genome Campus bursary to attend the Antimicrobial Resistance - Bacterial Genomics, Big Data & Emerging Technologies conference, held in Hinxton, UK, 27-29 November 2018
Wellcome Sanger Institute, Reino Unido
2017 BSAC Travel grant for the 27th European Congress of Clinical Microbiology and Infectious Diseases (ECCMID), held in Wien, Austria, 21-25 April 2017
British Society for Antimicrobial Chemotherapy, Reino Unido
2017 FEMS Congress Grant for Early Career Scientists to attend the 7th FEMS Congress of European Microbiologists, held in Valencia, Spain, 9-13 July 2017
Federation Of European Microbiological Societies, Reino Unido
2017 Microbiology Society Conference Grant to attend the 16th International Conference on Pseudomonas, held in Liverpool, UK, 5-9 September 2017
Microbiology Society, Reino Unido
2015 ESCMID Travel grant for the ESCMID Postgraduate Education Course: 2nd Course on Principles of Molecular Microbiological Diagnostics, held in Maastricht, Netherlands, 20-22 January 2016
European Society of Clinical Microbiology and Infectious Diseases, Suiça