LÍLIA DE FÁTIMA GOMES PERFEITO (B418-E116-244B)

Curriculum Vitae

LÍLIA DE FÁTIMA GOMES PERFEITO

Identification

Personal identification

Full name: LÍLIA DE FÁTIMA GOMES PERFEITO

Citation names

PERFEITO, LÍLIA
Perfeito, Lilia

Author identifiers

Ciência ID: B418-E116-244B
ORCID iD: 0000-0003-4844-8763
Google Scholar ID: https://scholar.google.pt/citations?user=zbTSWjEAAAAJ&hl=pt-PT
Researcher Id: AAE-1245-2020
Scopus Author Id: 18635216800

Email addresses

lperfeito@lip.pt (Professional)

Addresses

Av. Gama Pinto, n.2, piso 3, 1649-003, Lisboa, Lisboa, Portugal (Professional)

Knowledge fields

Exact Sciences - Mathematics - Applied Mathematics
Exact Sciences - Computer and Information Sciences
Natural sciences - Biological Sciences - Evolutionary Biology

Languages

Language	Speaking	Reading	Writing	Listening
English	Advanced (C1)	Advanced (C1)	Advanced (C1)	Advanced (C1)
Spanish; Castilian	Intermediate (B1)	Intermediate (B1)	Beginner (A1)	Intermediate (B1)
French	Beginner (A1)	Beginner (A1)	Beginner (A1)	Beginner (A1)

Education

	Degree	Classification
2008 Concluded	Doutoramento em Biologia (Doutoramento) Universidade Nova de Lisboa Instituto de Tecnologia Química e Biológica, Portugal "Dynamics of Adaptation in populations of E. coli" (THESIS/DISSERTATION)	Aprovado
2004 Concluded	Biologia Microbiana e Genética (Licenciatura) Universidade de Lisboa Faculdade de Ciências, Portugal "Dinâmica de Populações de Escherichia coli com elevada taxa de mutação" (THESIS/DISSERTATION)	16

Affiliation

Science

	Category Host institution	Employer
2020/10/01 - Current	Auxiliary Researcher (Research)	Laboratório de Instrumentação e Física Experimental de Partículas, Portugal
	Laboratório de Instrumentação e Física Experimental de Partículas, Portugal
2019/01/01 - 2020/09/30	Researcher (Research)	Universidade Nova de Lisboa Nova School of Business and Economics, Portugal
	Universidade Nova de Lisboa Nova School of Business and Economics, Portugal
2014/01/01 - 2018/12/31	Auxiliary Researcher (Research)	Instituto Gulbenkian de Ciência, Portugal
	Instituto Gulbenkian de Ciência, Portugal
2012/05/01 - 2013/12/31	Postdoc (Research)	Instituto Gulbenkian de Ciência, Portugal
	Instituto Gulbenkian de Ciência, Portugal
2008/10/01 - 2012/04/30	Postdoc (Research)	Universität zu Köln - Institute for Theoretical Physics, Germany
	Universität zu Köln - Institute for Theoretical Physics, Germany (...)
2004/10/01 - 2008/09/30	Researcher (Research)	Instituto Gulbenkian de Ciência, Portugal
	Instituto Gulbenkian de Ciência, Portugal
2003/09/01 - 2004/06/30	Research Trainee (Research)	Instituto Gulbenkian de Ciência, Portugal
	Instituto Gulbenkian de Ciência, Portugal

Teaching in Higher Education

	Category Host institution	Employer
2019/02/01 - 2020/07/31	Invited Assistant (University Teacher)	Universidade Nova de Lisboa Nova School of Business and Economics, Portugal
	Universidade Nova de Lisboa Nova School of Business and Economics, Portugal

Projects

Grant

	Designation	Funders
2019/02/01 - 2020	Identifying and Reducing Antibiotic Under and Over Prescription Sem referência (projeto piloto) Universidade NOVA de Lisboa NOVA School of Business and Economics, Portugal	Fundação para a Ciência e a Tecnologia Ongoing
2013/01/01 - 2013/12/31	The role of genomic instability in evolution SFRH / BPD / 84223 / 2012 Post-doc Fellow Instituto Gulbenkian de Ciência, Portugal	Fundação para a Ciência e a Tecnologia Concluded
2010/01/01 - 2010/12/31	Fitness landscape of a molecular pathway SFRH/BPD/43224/2008 Post-doc Fellow Universität zu Köln - Institute for Theoretical Physics, Germany	Fundação para a Ciência e a Tecnologia Concluded
2004/10/01 - 2008/09/30	Adaptation in E. coli SFRH/BD/18161/2004 PhD Student Fellow Instituto Gulbenkian de Ciência, Portugal	Fundação para a Ciência e a Tecnologia Concluded

Contract

	Designation	Funders
2020/10/01 - Current	Fake News and Real People - Using Big Data to Understand Human Behaviour 853566 Post-doc Laboratório de Instrumentação e Física Experimental de Partículas, Portugal	European Research Council Ongoing
2019/01/01 - 2019/12/31	Instituto Gulbenkian de Ciência UID/Multi/04555/2019 Universidade de Trás-os-Montes e Alto Douro Centro de Investigação e de Tecnologias Agro-Ambientais e Biologicas, Portugal Instituto Gulbenkian de Ciência, Portugal	Fundação para a Ciência e a Tecnologia Concluded
2018/10/01 - 2018/12/31	From diversity to efficiency - Uncovering how different strains adapt to the same environment and how we can direct evolution towards more efficient microorganisms. 02/SAICT/2017 Principal investigator Instituto Gulbenkian de Ciência, Portugal	Fundação para a Ciência e a Tecnologia Ongoing
2013/06 - 2015/05	Fitness effects of synonymous mutations Provided by PTCRIS: 129471 129471 Researcher Instituto Gulbenkian de Ciência, Portugal	Fundação para a Ciência e a Tecnologia, I.P. Concluded
2014/04 - 2015/03	How does chromosome structure affect the tempo and mode of adaptation? 133151 Provided by PTCRIS: 133151 Principal investigator Instituto Gulbenkian de Ciência, Portugal	Fundação para a Ciência e a Tecnologia, I.P. Concluded
2011/03 - 2014/02	Consequences of genome instability to adaptation and speciation Provided by PTCRIS: 114460 114460 Post-doc Instituto Gulbenkian de Ciência, Portugal	Fundação para a Ciência e a Tecnologia, I.P. Concluded
2008/10/01 - 2012/03/31	Evolution of gene expression SFB680 Researcher Universität zu Köln, Germany	Deutsche Forschungsgemeinschaft Concluded
2008/03 - 2010/09	Rate and effects of mutations in the protozoa Tetrahymena thermophila Provided by PTCRIS: 73163 73163 Other	Fundação para a Ciência e a Tecnologia, I.P. Concluded
2004/09/01 - 2006	Population genetics of adaptation in E. coli POCTI/BSE/46856/2002 PhD Student Fellow Instituto Gulbenkian de Ciência, Portugal	Fundação para a Ciência e a Tecnologia Concluded

Other

	Designation	Funders
2014/01/01 - 2018/12/31	Genetic basis of evolvability in a model Eukaryote: How does chromosome structure affect the adaptation rate? IF/00019/2013 Principal investigator Instituto Gulbenkian de Ciência, Portugal	Fundação para a Ciência e a Tecnologia Concluded

Outputs

Publications

Book chapter	Perfeito, Lília. "Cancer as an Evolutionary Process". In Molecular and Cell Biology of Cancer, 21-30. Switzerland: Springer International Publishing, 2019. Published • 10.1007/978-3-030-11812-9_2 Perfeito, Lilia. "Adaptação e Aptidão". In Evolução: Conceitos e Debates. Portugal: Esfera do Caos, 2009. Published
Conference poster	Perfeito, Lilia; Gonçalves-Sá, Joana. Corresponding author: Perfeito, Lilia. "The microevolution of information on social media". Paper presented in Conference on Complex systems CCS2022, 2022. Perfeito, Lilia. "Using pandemic periods to improve now-casting models based on search engine data". Paper presented in COMPLEX NETWORKS 2020 - The 9th International Conference on Complex Networks and their Applications, 2020. Perfeito, Lilia. "Gene organization is a selectable trait maintained by antagonistic pleiotropy". Paper presented in EMBO Conference Experimental approaches to evolution and ecology using yeast, 2012. Perfeito, Lilia. "Empirical fitness landscapes and the predictability of evolution". Paper presented in Meeting of the society for molecular biology and evolution, 2012. Perfeito, Lilia. "Mutation accumulation in bacteria in light of Fisher's geometrical model". Paper presented in Annual Meeting of the European Society for Evolutionary Biology, 2011. Perfeito, Lilia. "Nonlinear Fitness Landscape of a Metabolic Pathway". Paper presented in Annual Meeting of the European Society for Evolutionary Biology, 2011. Perfeito, Lilia. "Nonlinear fitness effects of protein activity in the lac operon of Escherichia coli". Paper presented in Annual Meeting of the Society for Molecular Biology and Evolution, 2010. Perfeito, Lilia; Trindade, Sandra; Gordo, Isabel. "Rate and Effects of Spontaneous Fitness-Affecting Mutations in Escherichia coli". Paper presented in Second Summer School-Mathematics in Biology and Medicine, 2006.
Journal article	Varela-Lasheras, Irma; Perfeito, Lilia; Mesquita, Sara; Gonçalves-Sá, Joana. "The effects of weather and mobility on respiratory viruses dynamics before and during the COVID-19 pandemic in the USA and Canada". PLOS Digital Health 2 12 (2023): e0000405. http://dx.doi.org/10.1371/journal.pdig.0000405. 10.1371/journal.pdig.0000405 Durão, Paulo; Amicone, Massimo; Perfeito, Lília; Gordo, Isabel. "Competition dynamics in long-term propagations of Schizosaccharomyces pombe strain communities". Ecology and Evolution (2021): http://dx.doi.org/10.1002/ece3.8191. Published • 10.1002/ece3.8191 Dragan Stajic; Lília Perfeito; Lars E. T. Jansen. "Epigenetic gene silencing alters the mechanisms and rate of evolutionary adaptation". Nature Ecology & Evolution 3 3 (2019): 491-498. https://doi.org/10.1038/s41559-018-0781-2. Published • 10.1038/s41559-018-0781-2 Passagem-Santos, Diogo; Zacarias, Simone; Perfeito, Lilia. Corresponding author: Passagem-Santos, Diogo. "Power law fitness landscapes and their ability to predict fitness". Heredity 121 5 (2018): 482-498. http://dx.doi.org/10.1038/s41437-018-0143-5. Open access • 10.1038/s41437-018-0143-5 Perfeito, L.; Sousa, A.; Bataillon, T.; Gordo, I.. "Rates of fitness decline and rebound suggest pervasive epistasis.". Evolution 68 1 (2013): 150-162. http://dx.doi.org/10.1111/evo.12234. Published • 10.1111/evo.12234 Teresa Avelar, A.; Perfeito, L.; Gordo, I.; Godinho Ferreira, M.. "Genome architecture is a selectable trait that can be maintained by antagonistic pleiotropy". Nature Communications 4 (2013): http://www.scopus.com/inward/record.url?eid=2-s2.0-84883299936&partnerID=MN8TOARS. Published • 10.1038/ncomms3235 Gordo, I.; Perfeito, L.; Sousa, A.. "Fitness effects of mutations in bacteria". Journal of Molecular Microbiology and Biotechnology 21 1-2 (2012): 20-35. http://www.scopus.com/inward/record.url?eid=2-s2.0-84856059615&partnerID=MN8TOARS. Published • 10.1159/000332747 Perfeito, L.; Ghozzi, S.; Berg, J.; Schnetz, K.; Lässig, M.. "Nonlinear fitness landscape of a molecular pathway". PLoS Genetics 7 7 (2011): http://www.scopus.com/inward/record.url?eid=2-s2.0-79960958913&partnerID=MN8TOARS. Open access • 10.1371/journal.pgen.1002160 Trindade, S.; Perfeito, L.; Gordo, I.. "Rate and effects of spontaneous mutations that affect fitness in mutator escherichia coli". Philosophical Transactions of the Royal Society B: Biological Sciences 365 1544 (2010): 1177-1186. http://www.scopus.com/inward/record.url?eid=2-s2.0-77951595254&partnerID=MN8TOARS. Published • 10.1098/rstb.2009.0287 Perfeito, L.; Pereira, M.I.; Campos, P.R.A.; Gordo, I.. "The effect of spatial structure on adaptation in Escherichia coli". Biology Letters 4 1 (2008): 57-59. http://www.scopus.com/inward/record.url?eid=2-s2.0-40949151137&partnerID=MN8TOARS. 10.1098/rsbl.2007.0481 Perfeito, L.; Fernandes, L.; Mota, C.; Gordo, I.. "Adaptive mutations in bacteria: High rate and small effects". Science 317 5839 (2007): 813-815. http://www.scopus.com/inward/record.url?eid=2-s2.0-34547924819&partnerID=MN8TOARS. Published • 10.1126/science.1142284 Perfeito, L.; Gordo, I.; Campos, P.R.A.. "The effect of spatial structure in adaptive evolution". European Physical Journal B 51 2 (2006): 301-306. http://www.scopus.com/inward/record.url?eid=2-s2.0-33745051396&partnerID=MN8TOARS. Published • 10.1140/epjb/e2006-00222-x
Newspaper article	Perfeito, Lilia. "“A minha rica saúde”", Público, 2019, Análise, https://www.publico.pt/2019/04/22/tecnologia/analise/rica-saude-1869954.
Report	Perfeito, Lilia; Paulo Almeida; Cláudio Haupt Vieira. 2019. Justiça Intergeracional e Sustentabilidade - Uma Análise dos Discursos Parlamentares e dos Média. https://content.gulbenkian.pt/wp-content/uploads/sites/46/2021/01/06175636/JI_AnaliseDiscursos_PT.pdf.

Other

Other output

Learning from pandemics: using extraordinary events can improve disease now-casting models. 2021. Sara Mesquita; Cláudio Haupt Vieira; Perfeito, Lilia; Joana Gonçalves-Sá. https://www.medrxiv.org/content/10.1101/2021.01.18.21250056v1.
https://doi.org/10.1101/2021.01.18.21250056
A data-driven epidemiological model to explain the Covid-19 pandemic in multiple countries and help in choosing mitigation strategies. 2020. M. J. Beira; A. Kumar; L. Perfeito; J. Gonçalves-Sá; P. J. Sebastião. https://doi.org/10.1101/2020.08.15.20175588.
10.1101/2020.08.15.20175588
The Time Scale of Evolution. 2018. Diogo Passagem-Santos; Lilia Perfeito. https://doi.org/10.1101/464362.
10.1101/464362

Activities

Oral presentation

	Presentation title	Event name Host (Event location)
2022/10/27	A method to infer diagnoses from prescription data	[3C] Cells, Computers & Clinics Instituto Gulbenkian de Ciência (Oeiras, Portugal)
2021/07/30	An evolutionary model for the spread of information on Twitter	IC2S2 ETH, Zurich (online, Switzerland)
2021/07/08	An evolutionary model for the spread of information on Twitter	Networks 2021 Indiana University Network Science Institute, (online)
2020/12/02	A popularity model for information spreading: Twitter as a case study	COMPLEX NETWORKS 2020 - The 9th International Conference on Complex Networks and their Applications (Madrid, Spain)
2019/09/03	Discourse vs. Voting: An Analysis of Polarization over 40 Years of the Portuguese Parliament	European Symposium Series on Societal Challenges in Computational Social Science ETH (Zurich, Switzerland)
2016/04/16	“The impact of genetic background on the evolutionary potential of populations”	First biological sciences annual meeting (BioSAM) Faculdade de Ciências da Universidade de Lisboa (Lisboa, Portugal)
2014/09/14	New mutations seen through the eyes of natural selection	Workshop on Quantitative Evolutionary Biology Nesin Foundation Mathematics Village (Sirinçe, Turkey)
2014/07/14	Major transitions in evolution	Inspirar Ciência - Workshop for highschool teachers Instituto Gulbenkian de Ciência (Oeiras, Portugal)
2014/06/18	Forces driving the evolution of genome structure	566th WE-Heraeus-Seminar Mechanisms, Strategies and Evolution of Microbial Systems Physikzentrum Bad Honnef (Bad Honnef, Germany)
2014/02/21	Forces driving the evolution of genome structure	CIBIO seminar Series Centro de Investigação em Biodiversidade e Recursos Genéticos - CIBIO (Vairão, Portugal)
2013/08/22	The impact of gene architecture on the adaptation rate	XIV Congress of the European Society for Evolutionary Biology Faculdade de Ciências da Universidade de Lisboa (Lisboa, Portugal)
2011/04/02	The fitness landscape of a molecular pathway and a phenotypic approach to population genetics	Jacques Monod Conference: Theoretical and empirical advances in evolutionary genomics. instituts des sciences biologiques (INSB) et écologie et environnement (INEE) du Centre national de la recherche scientifique (CNRS) & l'Inserm (Roscoff, France)
2011/01/24	Fitness Landscape of a Metabolic Pathway	KITP Program: Microbial and Viral Evolution Kavli Institute for Theoretical Physics (Santa Barbara, United States)
2011	Nonlinear Fitness Landscape of a Molecular Pathway	Mind the Gap 2011 - SFB 680 workshop funded by the Volkswagenstiftung Universität zu Köln (Cologne, Germany)
2010/12	Nonlinear Fitness Landscape of a Molecular Pathway	Portuguese Meeting of Evolutionary Biology Faculdade de Ciências da Universidade de Lisboa (Lisboa, Portugal)

Supervision

	Thesis Title Role	Degree Subject (Type) Institution / Organization
2022/01/01 - Current	The diffusion of information in social media – How much complexity do we need? Supervisor of Pedro Duarte	Mestrado em Engenharia Física e Tecnológica (Master) Instituto Superior Técnico Departamento de Física, Portugal
2014/09/01 - 2018/12/07	Understanding Fitness from Molecular mechanisms – a step towards predicting evolution. Supervisor of Diogo Passagem Santos	Instituto Gulbenkian de Ciência, Portugal Universidade Nova de Lisboa Instituto de Tecnologia Química e Biológica, Portugal
2013/09/01 - 2018/03/21	The role of epigenetic mechanisms in the adaptative evolution Co-supervisor of Dragan Stajic	Instituto Gulbenkian de Ciência, Portugal Universidade Nova de Lisboa Instituto de Tecnologia Química e Biológica, Portugal
2016/09/01 - 2017/12/12	Characterization of the selective potential for the improvement of Cry toxins with nematicidal activity Supervisor of Mariana Delgadinho	Instituto Gulbenkian de Ciência, Portugal Universidade de Aveiro, Portugal
2014/09/01 - 2015/12/15	Characterization of the selective potential for the improvement of Cry toxins with nematicidal activity Supervisor of Ana Catarina Morais	Instituto Gulbenkian de Ciência, Portugal Universidade de Lisboa Faculdade de Ciências, Portugal
2014/09/01 - 2015/12/03	Impact of chromossomal structure on the evolution of Schizosaccharomyces pombe undergoing Mutation Accumulation Supervisor of Gustavo Eduardo	Instituto Gulbenkian de Ciência, Portugal Universidade Nova de Lisboa Faculdade de Ciências e Tecnologia, Portugal

Event organisation

	Event name Type of event (Role)	Institution / Organization
2019/12/10 - 2019/12/12	The 8th International Conference on Complex Networks and their Applications: One of the largest international conferences on complex networks with over 400 participants. I was part of the local organizing committee (2019/12/10 - 2019/12/12) Conference (Member of the Organising Committee)
2015/11/15 - 2015/12/21	ENBE 2015 (Portuguese Meeting of Evolutionary Biology). I was part of the scientific committee which selected the abstracts to be invited for oral presentations. (2015/12/21 - 2015/12/21) Conference (Member of the Scientific Committee)	Universidade Nova de Lisboa Faculdade de Ciências e Tecnologia, Portugal

Jury of academic degree

	Topic Role	Candidate name (Type of degree) Institution / Organization
2017/06/22	On plasmids : studies of plasmid-host and plasmid-plasmid interactions (Thesis) Main arguer	João Gama (PhD) Universidade de Lisboa Faculdade de Ciências, Portugal
2016/10/05	Microbe Domestication and the Identification of the Wild Genetic Stock of Wine Yeasts (Thesis) Main arguer	Pedro Miguel Coelho de Almeida (PhD) Universidade Nova de Lisboa Faculdade de Ciências e Tecnologia, Portugal
2016/01/22	Tracking evolutionary paths in colonizing events temporal changes in life-history traits, microsatellites and inversions in Drosophila subobscura (Thesis) Main arguer	Josiane Santos (PhD) Universidade de Lisboa Faculdade de Ciências, Portugal
2015/09/14	The role of history, chance and selection during adaptation : an integrated perspective (Thesis) Arguer	Inês Fragata (PhD) Universidade de Lisboa Faculdade de Ciências, Portugal
2013/11/19	Influência da densidade bacteriana na epistasia (Thesis) Main arguer	Luís Cardoso (Master) Universidade de Lisboa Faculdade de Ciências, Portugal

Association member

	Society Organization name	Role
2013/01/01 - 2014/12/31	Associação Portuguesa de Biologia Evolutiva	Secretária da Assembleia Geral

Conference scientific committee

	Conference name	Conference host
2020/12/01 - 2020/12/03	COMPLEX NETWORKS 2020 - The 9th International Conference on Complex Networks and their Applications	Madrid (online)

Interview (tv / radio show)

	Program	Topic
2017/12/26 - 2017/12/26	Bom Dia Portugal

Distinctions

Other distinction

2008	Finalist for the Water Fitch prize
2001	Menção Honrosa Fundação da Faculdade de Ciências da Universidade de Lisboa, Portugal