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Having completed my PhD in Biochemistry, speciality in Structural Biochemistry, at UCIBIO/FCT-NOVA, I have acquired important skills in the field of Molecular Glycosciences and Structural Biology. During my PhD I have applied a unique approach combining Carbohydrate Microarrays with X-ray Crystallography, to uncover and structurally characterize the carbohydrate-specificity of novel CBMs (Carbohydrate Binding Modules) of cellulolytic bacteria residing in different ecological niches. During this project, I had the opportunity develop work abroad at the Glycosciences Laboratory, Imperial College London, where I have become most interested in developing new strategies to allow purification and characterization of oligosaccharides isolated from natural sources, combining thin-layer chromatography, high-performance liquid chromatography and mass spectrometry. My work resulted in 3 peer reviewed journal publications and 1 book chapter. Since my PhD, I have been advancing my knowhow in the carbohydrate microarray technology, as a Junior Researcher at GlycoLab (UCIBIO/FCT-NOVA). Currently, I am interested in developing platforms to allow the detailed characterization of protein carbohydrate interactions in bacterial systems, such as in the human gut microbiome and in host-pathogen interactions. I am also involved in the creation of a novel database dedicated to providing curated three-dimensional structures of CBM-carbohydrate complexes and their interactions, and more recently I’m contributing for the EPS-DB dedicated to exopolysaccharide properties and structures.
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Identification

Personal identification

Full name
Diana de Oliveira Ribeiro

Citation names

  • Diana O. Ribeiro
  • Ribeiro, Diana O.
  • Ribeiro, D.O.

Author identifiers

Ciência ID
7E10-CBC0-596D
ORCID iD
0000-0001-9022-0055

Email addresses

  • diana.oliveira.ribeiro@gmail.com (Personal)

Websites

Knowledge fields

  • Natural sciences - Biological Sciences - Biochemistry

Languages

Language Speaking Reading Writing Listening Peer-review
English Proficiency (C2) Proficiency (C2) Proficiency (C2) Proficiency (C2) Proficiency (C2)
Portuguese (Mother tongue)
Education
Degree Classification
2020/07
Concluded
 PhD in Biochemistry (Doutoramento)
Major in Structural Biochemistry
Faculdade de Ciências e Tecnologia, Universidade Nova de Lisboa, Portugal
"Protein-carbohydrate recognition in the biodegradation of plant cell wall: Funcional and structural studies using carbohydrate microarrays and X-ray crystallography" (THESIS/DISSERTATION)
2019/02
Concluded
 Project Management (Outros)
NOVA Doctoral School, Portugal
 17/20
2017/07
Concluded
 Practical Course in Mass Spectrometry – From the Basics to LC-MS Data Acquisition and Interpretation (Outros)
Universidade de Aveiro, Portugal
2016/04
Concluded
 Scientific Text Processing with LaTeXScientific Text Processing with LaTeX (Outros)
NOVA Doctoral School, Portugal
 18/20
2015/05 - 2015/11
Concluded
 Glycobiology & Glycochemistry International E-learning Course 2015 (Outros)
Universidade Nova de Lisboa Faculdade de Ciências Médicas, Portugal
 18/20
2014/06
Concluded
 The 1st FEBS-INSTRUCT crystallization course: Advanced methods in macromolecular crystallization VI (Outros)
The Academic and University Center, Nové Hrady, Czech Republic
2012
Concluded
 MSc Structural and Functional Biochemistry (Mestrado)
Faculdade de Ciências e Tecnologia, Universidade Nova de Lisboa, Portugal
"Using Gold Nanoparticles in Protein Crystallography: Studies in crystal growth and derivatization" (THESIS/DISSERTATION)
 17/20
2011/11
Concluded
 Short-course: Nanociences for Life (Outros)
Sociedade Portuguesa de Biofísica, Portugal
2010
Concluded
 BSc Applied Chemistry (Licenciatura)
Major in Biotechnology
Faculdade de Ciências e Tecnologia, Universidade Nova de Lisboa, Portugal
"Crystallographic Studies of Lysozyme in the Presence of Gold Nanoparticles" (THESIS/DISSERTATION)
 14/20
Affiliation

Science

Category
Host institution 		Employer
2020/08 - 2022/08 Contracted Researcher (Research) GlycoLab - Functional Glycobiology, Portugal
UCIBIO@REQUIMTE, FCT-NOVA, Portugal

Others

Category
Host institution 		Employer
2023/10 - 2024/04 R&D Projects Consultant Agência Nacional de Inovação, Portugal
2015/04/01 - 2020/07/02 PhD Student - Thesis "Protein-carbohydrate recognition in the biodegradation of plant cell wall: Funcional and structural studies using carbohydrate microarrays and X-ray crystallography" GlycoLab - Functional Glycobiology & Macromolecular Crystallography Group, Portugal
UCIBIO@REQUIMTE, FCT-NOVA, Portugal
2018/05 - 2018/08 Visiting PhD student Imperial College London Glycosciences Laboratory, United Kingdom
Imperial College London, United Kingdom
2013/07/01 - 2015/08/01 Research fellow (BI) - Project "A carbohydrate microarray platform for discovery of ligands in polysaccharides recognised by microbial carbohydrate-binding modules” GlycoLab - Functional Glycobiology & Macromolecular Crystallography Group, Portugal
UCIBIO@REQUIMTE, FCT-NOVA, Portugal
2011/09/12 - 2012/10/12 MSc Student - Thesis “Crystallographic studies in crystal growth and derivatization using gold nanoparticles” Macromolecular Crystallography and BioNano Groups, Portugal
2010/02/14 - 2010/07/31 BSc Student - Biotechnology Project “Crystallographic studies of proteins in the presence of gold nanoparticles" Macromolecular Crystallography and BioNano Groups, Portugal
Faculdade de Ciências e Tecnologia, Universidade Nova de Lisboa, Portugal
2009/02/15 - 2009/07/31 Internship - Preparation and characterization of Tyrosinase bionanoconjugates with gold nanoparticles functionalized with mercaptoundecanoic acid BioNano Lab, Portugal
Faculdade de Ciências e Tecnologia, Universidade Nova de Lisboa, Portugal
2008/03/01 - 2008/06/30 Internship - Characterisation of optical properties of colloidal gold and silver upon variation of pH and ionic strength conditions, using UV-visible spectroscopy and light dispersion techniques BioNano Lab, Portugal
Faculdade de Ciências e Tecnologia, Universidade Nova de Lisboa, Portugal
Projects

Grant

Designation Funders
2021/07/01 - 2021/07/31 Bioinformatics tools to develop and link databases relevant to the field of Glycosciences
E-COST-GRANT-CA18103-02b37039
Researcher
European Cooperation in Science and Technology
Concluded
2015/04 - 2019/03 Protein-carbohydrate Recognition in Polysaccharide Biodegradation: Characterization Studies Using carbohydrate Microarrays and Macromolecular Crystallography
SFRH/BD/100569/2014
PhD Student Fellow
Fundação para a Ciência e a Tecnologia, Portugal
 Governo da República Portuguesa Ministério da Ciência Tecnologia e Ensino Superior
Concluded

Contract

Designation Funders
2020/08 - 2022/08 GLYCOINTERACT - Glycan-human microbiome interaction: glycan diversity and recognition in the human gut with impact on health and nutrition
PTDC/BIA-MIB/31730/2017
Researcher
UCIBIO@REQUIMTE, FCT-NOVA, Portugal
Ongoing
2016 - 2018 An integrative structural biology approach to characterise the protein-carbohydrate microbial recognition
PTDC/BBB-BEP/0869/2014
Fundação para a Ciência e a Tecnologia, Portugal
Concluded
2016 - 2018 Molecular determinants of bacterial cellulosome diversity in different ecological niches
PTDC/BIA-MIC/5947/2014
Fundação para a Ciência e a Tecnologia, Portugal
Concluded
2014 - 2015 Ionic liquid-based systems for protein crystallization
PTDC/BBB-BEP/3058/2012
Fundação para a Ciência e a Tecnologia, Portugal
Concluded
2013 - 2014 A Carbohydrate Microarray Platform for Discovery of Ligands in Polysaccharides Recognised by Microbial Carbohydrate-binding Modules
PTDC/QUI-QUI/112537/2009
Research Fellow
Concluded
2012 - 2014 Modern Structural Biology: Resources for the advancement of in-house X-ray Crystallography
RECI/BBB-BEP/0124/2012
Fundação para a Ciência e a Tecnologia, Portugal
Concluded
Outputs

Publications

Book chapter
  1. Ribeiro, D.O.; F. Bonnardel; A.S. Palma; A.L.M. Carvalho; S. Perez. Corresponding author: S. Perez. "CBMcarb-DB: Interface of the Three-Dimensional Landscape of Carbohydrate-Binding Modules". In Carbohydrate Chemistry. The Royal Society of Chemistry, 2024.
    In press
  2. Ribeiro, Diana O.; Pinheiro, Benedita A.; Carvalho, Ana Luísa; Palma, Angelina S.. "Targeting protein-carbohydrate interactions in plant cell-wall biodegradation: the power of carbohydrate microarrays". In Carbohydrate Chemistry: Chemical and biological approaches, 159-176. Royal Society of Chemistry, 2018.
    Published • 10.1039/9781788010641-00159
Conference poster
  1. Diana O. Ribeiro. "D. O. Ribeiro, R.L. Costa, B.A. Pinheiro, J.L.A. Brás, L.M. Silva, Y. Zhang, S. Filipe, M.J. Romão, Y. Liu, T. Feizi, W. Chai, N. F. Brás, C.M.G.A. Fontes, A.L. Carvalho, A.S. Palma. Unravelling Clostridium thermocellum LysM domains: Structural basis for the recognition of chitin and peptidoglycan". Paper presented in Society for Glycobiology 2020 Virtual Annual Meeting, 2020.
  2. Ribeiro, Diana O.. "Costa, R.L., Ribeiro, D.O., Pinheiro, B.A., Brás, J.L.A., Silva, L., Zhang, Y., Liu, Y., Chai, W., M.J., Romão, Feizi, T., Fontes, C.M.G.A., Carvalho, A.L., Palma, A.S. Unravelling the Carbohydrate-specificity of a Novel LysM Domain from Clostridium thermocellum.". Paper presented in 25th International Symposium on Glycoconjugates 2019, Milan, Italy, 2019.
  3. Ribeiro, Diana O.. "Pinheiro, B.A.; Ribeiro, D.O.; Correia, V.G.; Costa, R.; Trovão, F.; Romão, M.J.; Carvalho, A.L.; Palma, A.S. Glycan microarrays: driving structural biology approaches to unravel glycan recognition.". Paper presented in 1st MC meeting of COST Action 18132 “Functional Glyconanomaterials for the Development of Diagnostics and Targeted Therapeutic Probes”., 2019.
  4. Ribeiro, Diana O.. "Ribeiro, D.O., Costa, R.L., Pinheiro, B.A., Brás, N.F., Ramos, M.J., Romão, M.J., Feizi, T., Chai, W., Fontes, C.M.G.A., Palma, A.S, Carvalho, A.L. Structural-functional Characterization of a New LysM Domain from Clostridium thermocellum". Paper presented in UCIBIO Annual Meeting, FCT-NOVA, Caparica, Portugal, 2018.
  5. Ribeiro, Diana O.. "Pinheiro, B.A.; Correia, V.G.; Ribeiro, A.O.; Cabrita, E.J.; Llorca, O.; Gilbert, H.; Bayer, E.A. Unravelling the Cellulosomes' action using hybrid method.". Paper presented in ESRF Users Meeting, Grenoble, France, 2017.
  6. Ribeiro, Diana O.. "Ribeiro, D.O., Brás, J.L.A., Costa, R.L., Zhang, Y., Chai, W., Liu, Y., Prates, J.A.M., Ferreira, L.M.A., Romão, M.J., Feizi, T., Fontes, C.M.G.A., Carvalho, A.L., Palma, A.S. Unravelling Carbohydrate Binding Specificities of CBMomes from two Cellulolytic Bacteria using an Integrative High-Throughput Approach.". Paper presented in Summer Course Glycosciences, Groningen, Netherlands, 2016.
  7. Ribeiro, Diana O.. "Pinheiro, B.A.; Correia, V.G.; Ribeiro, D.O.; Cabrita, E.J.; Llorca, O.; Gilbert, H.; Bayer, E.A. Unravelling the Cellulosomes' action using hybrid methods.". Paper presented in EMBO Meeting Molecular Machines, Heidelberg, Germany, 2016.
  8. Ribeiro, Diana O.. "Ribeiro D.O., Brás J.L.A., Zhang Y., Chai W., Liu Y., Prates J.A.M., Ferreira L.M.A., Romão M.J., Feizi T., Fontes C.M.G.A., Carvalho A.L., Palma A.S. An Integrative Study to Reveal the Carbohydrate Specificities of the CBMomes of Two Cellulolytic Bacteria.". Paper presented in GLUPOR11, Viseu, Portugal, 2015.
  9. Martin, Jason N.; Munoz, Eva M.; Schwergold, Caroline; Asensio, Juan Luis; Jimenez-Barbero, Jesus; Vicent, Cristina. "Ribeiro D.O., Romão M.J., Cabrita E.J., Fontes C.M.G.A., Palma A.S., Carvalho A.L. Deciphering Protein-carbohydrate Recognition in Biodegradation of Plant Cell Wall by Carbohydrate Microarrays and X-ray crystallography". Paper presented in 4th ENURS and ESRF-Day, Coimbra, Portugal, 2015.
    10.1100/tsw.2002.431
  10. Ribeiro, Diana O.. "Ribeiro D.O., Kulakova A., Quaresma P., Pereira E., Bonifácio C., Romão M.J., Franco R., Carvalho A.L. The use of Gold Nanoparticles as additives in Protein Crystallization. (Best poster award)". Paper presented in The 1st FEBS-INSTRUCT crystallization course: Advanced methods in macromolecular crystallization VI, Nové Hrady, Czech Republic, 2014.
  11. Ribeiro, Diana O.. "Correia, V.G.; Ribeiro, D.O.; Pinheiro, B.A. Implementation of the Microarray Technology for studying molecular interactions of the bacterial Cellulosome [Best Poster Award]". Paper presented in 3rd ENURS and ESRF-Day, Marinha Grande, Portugal, 2014.
Journal article
  1. Trovão, F.; Correia, V.G.; Lourenço, F.M.; Ribeiro, D.O.; Carvalho, A.L.; Palma, A.S.; Pinheiro, B.A.. "The structure of a Bacteroides thetaiotaomicron carbohydrate-binding module provides new insight into the recognition of complex pectic polysaccharides by the human microbiome". Journal of Structural Biology: X 7 (2023): http://www.scopus.com/inward/record.url?eid=2-s2.0-85146067583&partnerID=MN8TOARS.
    10.1016/j.yjsbx.2022.100084
  2. Ribeiro, Diana O.; Viegas, Aldino; Pires, Virgínia M. R.; Medeiros-Silva, João; Bule, Pedro; Chai, Wengang; Marcelo, Filipa; et al. "Molecular basis for the preferential recognition of ß1,3-1,4-glucans by the family 11 carbohydrate-binding module from Clostridium thermocellum". The FEBS Journal (2020): http://dx.doi.org/10.1111/febs.15162.
    Published • 10.1111/febs.15162
  3. Ribeiro, Diana; Kulakova, Alina; Quaresma, Pedro; Pereira, Eulália; Bonifácio, Cecília; Romão, Maria João; Franco, Ricardo; Carvalho, Ana Luísa. "Use of Gold Nanoparticles as Additives in Protein Crystallization". Crystal Growth & Design 14 1 (2013): 222-227. http://dx.doi.org/10.1021/cg4014398.
    Published • 10.1021/cg4014398
Thesis / Dissertation
  1. Diana O. Ribeiro. "Protein-carbohydrate recognition in the biodegradation of the plant cell wall: Functional and structural studies using carbohydrate microarrays and X-ray crystallography". PhD, Faculdade de Ciências e Tecnologia, Universidade Nova de Lisboa, 2020. http://hdl.handle.net/10362/100951.
  2. Ribeiro, Diana O.. "Using gold nanoparticles in protein crystallography: Studies in rystal growth and derivatization". Master, 2012.
Activities

Oral presentation

Presentation title Event name
Host (Event location)
2022/07 Protein­carbohydrate recognition in the biodegradation of plant cell wall: functional studies using carbohydrate microarrays The Biochemistry Global Summit
(Lisbon, Portugal)
2022/02 Targeting protein-carbohydrate interactions in plant cell wall biodegradation: The power of carbohydrate microarrays BioSeminars@UCIBIO
UCIBIO@FCT-NOVA (Caparica, Portugal)
2019/09 Investigating the ligand-specificity of a Carbohydrate-Binding protein Module from Clostridium thermocellum: a biotechnological tool to target ß1,3-1,4-mixed-linked glucans GLUPOR13
Universidade de Lisboa, Faculdade de Farmácia (Porto, Portugal)
2018/07 Unravelling Family 50 CBMs of Clostridium thermocellum: Structural-functional Characterization of a New LysM Domain (Presenting author) 29th International Carbohydrate Symposium – ICS 2018
Faculdade de Ciências, Universidade de Lisboa (Lisboa, Portugal)
2018/07 Targeting protein-carbohydrate interactions in plant cell-wall biodegradation: the power of carbohydrate microarrays 29th International Carbohydrate Symposium – ICS 2018
Faculdade de Ciências, Universidade de Lisboa (Lisboa, Portugal)
2017/09 Identification and structural-functional characterization of a new chitin-binding protein module from Clostridium thermocellum (Presenting author) GLUPOR12
(Aveiro, Portugal)
2014/08 The use of Gold Nanoparticles as additives in Protein Crystallization IUCr Meeting
IUCr (Montréal, Canada)

Event organisation

Event name
Type of event (Role) 		Institution / Organization
2007 - 2022 Volunteer to perform science dissemination activities with young students and undergrads at EXPO FCT - Open Day (2007)
Exhibition (Other)
 Universidade Nova de Lisboa Faculdade de Ciências e Tecnologia, Portugal
2018/06 - 2018/06 Volunteer to perform science dissemination activities with children at the Arts and Science mash up - at the invention rooms (2018/06 - 2018/06)
Exhibition (Other)
 Imperial College London, United Kingdom

Event participation

Activity description
Type of event 		Event name
Institution / Organization
2020/05 - 2020/07 Volunteer at SARVS-COV2 diagnostic tests task force - Responsible for receiving and registering RNA samples, overseeing and providing support to RT-qPCR reactions preparation.
Other
UCIBIO@REQUIMTE, FCT-NOVA, Portugal
2017/01 - 2017/01 CCP4 Study Weekend 2017 - From Crystal to Structure, Nottingham, United Kingdom
Conference
 CCP4 Study Weekend 2017 – From Crystal to Structure
2016/06 - 2016/06 Summer Course Glycosciences - 14th European Training Course on Carbohydrates, Groningen (Netherlands)
Conference
 Summer Course Glycosciences - 14th European Training Course on Carbohydrates
2016/01 - 2016/01 CCP4 Study Weekend 2016 - Protein-Ligand Complexes: Understanding Biological Chemistry, Nottingham United Kingdom
Conference
 CCP4 Study Weekend 2016
CCP4, United Kingdom, United Kingdom

Course / Discipline taught

Academic session Degree Subject (Type) Institution / Organization
2015/07 - 2015/07 Teaching Assistant at the International hands-on Course ISBio2015: Integrative Structural Biology tools for the study of protein-ligand interactions ISBio2015: Integrative Structural Biology tools for the study of protein-ligand interactions. Training course supported by INSTRUCT/COST. UCIBIO@REQUIMTE, FCT-NOVA, Portugal
2014/10 - 2014/10 Teaching Assistant at the International hands-on Course ISBio2014: Integrative Structural Biology tools for the study of protein-ligand interactions ISBio2014: Integrative Structural Biology tools for the study of protein-ligand interactions. Training course supported by INSTRUCT/COST. UCIBIO@REQUIMTE, FCT-NOVA, Portugal

Mentoring / Tutoring

Topic Student name
2017/02 - 2017/05 Practical orientation of BSc Student - Project "Characterization of a novel LysM domain essential in the recognition of the cellular wall of fungi and bacteria" Ana Tomé (BSc in Biochemistry, FCT-NOVA)
2015/09 - 2016/09 Practical orientation of MSc Student - Project "Ligand discovery and structural-functional analysis of proteins involved in plant cell wall degradation" Raquel Costa (MSc in Biochemistry, FCT-NOVA)
2014/02 - 2014/05 Practical orientation of BSc Student - Project "Utilização de nanopartículas de ouro na resolução da estrutura 3D de macromoléculas biológicas" Diana Silva (BSc in Biochemistry, FCT-NOVA)
Distinctions

Award

2015 Best poster award
11th International Meeting of the Portuguese Carbohydrate Group and 6th Iberian Carbohydrate Meeting (GLUPOR11), Portugal
2014 Best Poster Award
The International Organization for Biological Crystallization, Czech Republic

Other distinction

2015 4-year PhD Scholarship
Fundação para a Ciência e a Tecnologia, Portugal