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I am, since 2023, pursuing a Ph.D. in Biotechnology and Biosciences at the Instituto Superior Técnico da Universidade de Lisboa, focusing on the correlation between chitin catabolism and activation of secondary metabolism in marine bacteria. In my first year, I successfully expressed and characterized a chitinase from uncultured coral symbionts using synthetic molecular biology and am preparing the corresponding manuscript for publication. During this time, I attended three workshops on the challenges of preparing and processing transcriptomics and metabolomics data in preparation for an in-depth study of the correlation of chitin catabolism and secondary metabolism of the antibiotic-producing marine bacterium Aquimarina aquimarini. By combining transcriptomics, untargeted and targeted metabolomics, and armed with the closed genome of Aquimarina, I hope to shed more light on its chitin catabolism, and to determine whether it is suitable for further drug screening assays and/or for the discovery of chitinase enzymes with industrial potential. During my Bachelor in Biology at the Instituto Superior de Agronomia da Universidade de Lisboa (2019-06-28), I completed three internships, studying RNA editing in grapevine flowering. During my Master in Molecular Biology and Genetics at the Faculdade de Ciências da Universidade de Lisboa (2022-02-25), I studied the antimicrobial activities of a collection of marine bacteria, involving phylogenomics, chemical extraction of compounds and screening, and metabolomics, which gave me the knowledge base and interest that I am now applying in my Ph.D., and resulted in a first-author publication in the Q1 journal Marine Drugs. So far I have authored one research article, one oral presentation and presented four posters at conferences in Portugal, Switzerland and Denmark. I am a hardworking person who enjoys new challenges and I work well in teams with diverse expertise. I thrive in a flexible environment where I have the freedom to organize my work and hope to continue producing excellent scientific results that push the boundaries of knowledge.
Identification

Personal identification

Full name
João Manuel Romano Fragoso de Almeida

Citation names

  • João Fragoso Almeida

Author identifiers

Ciência ID
D411-D430-5DDA
ORCID iD
0000-0002-8305-5095

Email addresses

  • joao.fragoso.almeida@tecnico.ulisboa.pt (Professional)

Addresses

  • Institute for Bioengineering and Biosciences (iBB). Instituto Superior Técnico, Av. Rovisco Pais 1, 1049-001, Lisbon, Lisbon, Portugal (Professional)

Knowledge fields

  • Engineering and Technology - Environmental Biotechnology
  • Natural sciences - Biological Sciences - Microbiology
  • Natural sciences - Biological Sciences - Molecular Biology

Languages

Language Speaking Reading Writing Listening Peer-review
Portuguese (Mother tongue)
English Proficiency (C2) Proficiency (C2) Proficiency (C2) Proficiency (C2) Proficiency (C2)
Education
Degree Classification
2023/01/31 - 2027/01/31
Ongoing
Biotecnologia e Biociências (Doutoramento)
Universidade de Lisboa Instituto Superior Técnico, Portugal
2019/09/09 - 2022/02/25
Concluded
Biologia Molecular e Genética (Mestrado)
Universidade de Lisboa Faculdade de Ciências, Portugal
"Natural product biosynthesis capacities and anti-Candida activities in marine host-associated bacteria" (THESIS/DISSERTATION)
18
2016/09/12 - 2019/06/28
Concluded
Biologia (Licenciatura)
Universidade de Lisboa Instituto Superior de Agronomia, Portugal
13
Affiliation

Science

Category
Host institution
Employer
2022/05/01 - 2023/04/30 Research Assistant (Research) Universidade de Lisboa Instituto de Bioengenharia e Biociências, Portugal
Universidade de Lisboa Instituto Superior Técnico, Portugal
2019/09/13 - 2020/06/22 Research Trainee (Research) Universidade de Lisboa Instituto Superior Técnico, Portugal
Universidade de Lisboa Instituto Superior Técnico, Portugal
2019/02/01 - 2019/06/30 Research Trainee (Research) Universidade de Lisboa Instituto Superior de Agronomia, Portugal
Universidade de Lisboa Instituto Superior de Agronomia, Portugal
2018/07/01 - 2018/08/01 Research Trainee (Research) Universidade de Lisboa Instituto Superior de Agronomia, Portugal
Universidade de Lisboa Instituto Superior de Agronomia, Portugal
2017/07/01 - 2017/08/01 Research Trainee (Research) Universidade de Lisboa Instituto Superior de Agronomia, Portugal
Universidade de Lisboa Instituto Superior de Agronomia, Portugal
Projects

Contract

Designation Funders
2023/02/01 - Current C632741873-00467082 Blue Bioeconomy Pact (PBA) - Recovery and Resilience Plan (PRR); Active on Work Package WP9 - Portuguese Blue Biobank
PhD Student Fellow
Universidade de Lisboa Instituto Superior Técnico, Portugal
European Union - NextGenerationEU
Ongoing
2022/05/01 - 2023/04/30 ChiCoBionts - Harnessing the catalyst power of host-microbe interactions: a quest for novel chitinases from octocoral symbionts
EXPL/BIA-MIC/0286/2021
Research Fellow
Universidade de Lisboa Instituto Superior Técnico, Portugal
Fundação para a Ciência e a Tecnologia
Concluded
2020/10/01 - 2022/02/25 Symbioreactor - Sustainable production of bioactive metabolites from microbial symbionts of marine sponges and corals
FA05-2017-032
Master Student Fellow
Universidade de Lisboa Instituto de Bioengenharia e Biociências, Portugal
Outputs

Publications

Conference poster
  1. João Almeida. "From chitin degradation to antibiotics production: leveraging the marine bacterial genus Aquimarina for the blue circular economy". Paper presented in PhD Open days 2024, 2024.
  2. Tina Keller-Costa; João Fragoso Almeida; Daniela M.G. da Silva; Filipa R. Pedrosa; Ulisses N. da Rocha; M. Ângela Taipa; Rodrigo Costa. Corresponding author: Tina Keller-Costa. "The temperate octocoral microbiome: from community structure and function to novel chitinases for the circular blue bioeconomy". Paper presented in 19th International Symposium on Microbial Ecology (ISME19), 2024.
  3. João Fragoso Almeida; Leitão M; Costa R; Taipa A; Keller-Costa T. "Heterologous expression and characterisation of novel chitinases from a yet unculturable, highly abundant bacterial symbiont of octocorals". Paper presented in Congress of Microbiology and Biotechnology 2023, 2023.
  4. João Fragoso Almeida; Marques M; Oliveira V; Egas C; Mil-Homens D.; Viana R; Cleary D.F. R; et al. "Marine Sponge and Octocoral-Associated Bacteria Show Versatile Secondary Metabolite Biosynthesis Potential and Antimicrobial Activities against Human Pathogens". Paper presented in BAGECO 2023, 2023.
  5. João Fragoso Almeida; Costa R; Keller-Costa T. "From chitin degradation to antibiotics production: leveraging the marine bacterial genus Aquimarina for the blue circular economy". Paper presented in SymbNET Metabolomics Workshop for Biologists: Metabolite-data driven stories on Host-Microbe Symbioses, 2023.
  6. Marques, Matilde; Almeida, João; Mil-Homens, Dalila; Fialho. Arsénio M. ; Oliveira, Vanessa ; Daniel, Cleary; Huang, Yusheng M. ; et al. "Bioprospecting bacterial symbionts of marine animals: sponge and coral-associated Gammaproteobacteria inhibit growth of notorious human and aquaculture pathogens". Paper presented in Microbiotec 2021, 2021.
Journal article
  1. João Fragoso Almeida; Marques, Matilde; Oliveira, Vanessa; Egas, Conceição; Mil-Homens, Dalila; Viana, Romeu; Cleary, Daniel F. R.; et al. "Marine Sponge and Octocoral-Associated Bacteria Show Versatile Secondary Metabolite Biosynthesis Potential and Antimicrobial Activities against Human Pathogens". Marine Drugs 21 1 (2022): 34. http://dx.doi.org/10.3390/md21010034.
    Open access • Published • 10.3390/md21010034
Thesis / Dissertation
  1. "Natural product biosynthesis capacities and anti-Candida activities in marine host-associated bacteria". Master, Universidade de Lisboa Faculdade de Ciências, 2022. http://hdl.handle.net/10451/51969.
Activities

Oral presentation

Presentation title Event name
Host (Event location)
2021/11/25 Marine host-associated bacteria show versatile secondary metabolite biosynthesis capacities and antimicrobial activities Microbiotec 2021
Universidade NOVA de Lisboa (Lisboa, Portugal)

Event participation

Activity description
Type of event
Event name
Institution / Organization
2024/10/29 - 2034/10/30 Participação no 5 congresso Ibérico de la Dehesa y el Montado 5 congresso Ibérico de la Dehesa y el Montado
Universidade de Évora, Portugal
2021/09/17 - 2024/09/17 International Microorganism Day - IMD, yearly since 2021, exhibitor and speaker. Introducing the general public to the wonders of microbial life
Exhibition
International Microorganism Day
Universidade de Lisboa Instituto Superior Técnico, Portugal
2024/02/06 - 2024/02/08 Worshop sobre utilização e aplicação de sistemas de computação em cluster para Big Data de transcriptómica
Workshop
2nd edition computational biosciences using HPC systems
Unidade de Ciências Biomoleculares Aplicadas, Portugal
2023/06/06 - 2023/06/08 Worshop and seminar on cutting-edge methodologies and technologies in metabolomics analisys and data processing and interpretation
Workshop
SymbNET Metabolomics Workshop for Biologists
Université de Lausanne, Switzerland
2021/05/23 - 2023/05/23 Dia do Técnico exhibitor; yearly since 2021 engagement with the public and school classes, showcasing "The wonderful world of marine bacteria", "The symbionts of corals and sponges" and "Life in a drop of water"
Exhibition
Dia do Técnico
Universidade de Lisboa Instituto Superior Técnico, Portugal
2023/05/06 - 2023/05/08 Introduction to R utilization in Biological sciences
Workshop
Olissipo | EMBL training Introduction and computation with R
Instituto de Engenharia de Sistemas e Computadores Investigação e Desenvolvimento em Lisboa, Portugal
2022/04/04 - 2022/04/08 Overview of Python and R languages with an emphasis on biology related practical problem solving, focused on data plotting and reproducibility.
Workshop
Introduction to R and Python for Biologists
Wellcome Sanger Institute, United Kingdom

Association member

Society Organization name Role
2016/10/01 - 2019/06/30 Núcleo de Biologia do Instituto Superior de Agronomia Organized lectures, speed meetings and several ludic activities
2016/12/01 - 2017/12/01 Associação de estudantes do Instituto Superior de Agronomia Organization of events, lectures and ludic programs

Mentoring / Tutoring

Topic Student name
2023/06 - 2023/09 Production and characterization of a new recombinant chitinase from an uncultured coral bacterial symbiont Mafalda Leitão