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Joana Isidro (MSc in Molecular Biology and Genetics) is a Superior Technician that integrates the Genomics and Bioinformatics Unit of the Department of Infectious Diseases at the National Institute of Health Doutor Ricardo Jorge, a research team dedicated to microbial genomics of multiple pathogens. Her scientific activities are mainly focused on the genomic and epidemiological surveillance of clinically relevant pathogens (mostly bacteria and viruses), on giving support to the investigation of infectious diseases outbreaks and on the identification of genetic determinants associated with virulence and antimicrobial resistance. She has published >30 peer reviewed papers in international scientific journals (including 9 as first (co-)author), one book chapter and an EFSA funded project scientific report. Her work involves multiple collaborations at both national (e.g., with several National Reference Laboratories) and international levels, including several European projects, among which the INNUENDO project, focused on strengthening the integration of genomics in the surveillance of foodborne pathogens, and, more recently, the TELEVIR project that was focused on developing metagenomics-oriented tools for the rapid identification and characterisation of emerging virus threats. Since 2020, she has been continuously involved in the genomic surveillance of SARS-CoV-2 and, more recently, on the Mpox outbreak in Portugal.
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Identificação

Identificação pessoal

Nome completo
Joana Isidro

Nomes de citação

  • Isidro, Joana

Identificadores de autor

Ciência ID
5413-98F8-F069
ORCID iD
0000-0002-8529-9878

Endereços de correio eletrónico

  • joana.isidro@insa.min-saude.pt (Profissional)

Moradas

  • Instituto Nacional de Saúde Doutor Ricardo Jorge, Avenida Padre Cruz, 1649-016, Lisbon, Lisbon, Portugal (Profissional)

Domínios de atuação

  • Ciências Médicas e da Saúde - Ciências da Saúde - Doenças Infeciosas
  • Ciências Exatas - Ciências da Computação e da Informação - Bioinformática
  • Ciências Naturais - Ciências Biológicas - Biologia
  • Ciências Naturais - Ciências Biológicas - Biologia Molecular
  • Ciências Naturais - Ciências Biológicas - Microbiologia

Idiomas

Idioma Conversação Leitura Escrita Compreensão Peer-review
Português (Idioma materno)
Inglês Utilizador proficiente (C1) Utilizador proficiente (C1) Utilizador proficiente (C1) Utilizador proficiente (C1) Utilizador proficiente (C1)
Formação
Grau Classificação
2023/10 - 2027
Em curso
 Biologia (Genética e Microbiologia) (Doutoramento)
Universidade de Lisboa Faculdade de Ciências, Portugal
2015
Concluído
 Biologia Molecular e Genética (Mestrado)
Universidade de Lisboa Faculdade de Ciências, Portugal
"Clostridium difficile infection: molecular and epidemiological study" (TESE/DISSERTAÇÃO)
2013
Concluído
 Biologia (Licenciatura)
Especialização em Biologia Molecular e Genética
Universidade de Lisboa Faculdade de Ciências, Portugal
Percurso profissional

Outras Carreiras

Categoria Profissional
Instituição de acolhimento 		Empregador
2019/02 - Atual Técnico Superior (Técnico Superior) Instituto Nacional de Saúde Doutor Ricardo Jorge, Portugal

Outros

Categoria Profissional
Instituição de acolhimento 		Empregador
2018/01 - 2019/01 Prestador de Serviços Instituto Nacional de Saúde Doutor Ricardo Jorge, Portugal
2017/11 - 2017/12 Prestador de Serviços Instituto Nacional de Saúde Doutor Ricardo Jorge, Portugal
2017/06 - 2017/10 Bolseira de Apoio à Investigação Científica Instituto Nacional de Saúde Doutor Ricardo Jorge, Portugal
2016/06 - 2017/05 Bolseira de Investigação Instituto Nacional de Saúde Doutor Ricardo Jorge, Portugal
2015/11 - 2016/05 Bolseira de Apoio à Investigação Científica Instituto Nacional de Saúde Doutor Ricardo Jorge, Portugal
Projetos

Projeto

Designação Financiadores
2023 - Atual DURABLE: Delivering a Unified Research Alliance of Biomedical and public health Laboratories against Epidemics
DURABLE 101102733
Investigador
European Union
Em curso
2023 - Atual CENTAUR: Creating and refining whole-genome and core-genome typing schemas for pathogen surveillance
ISIDORe
Investigador
European Union
2022 - Atual GENEO: Sustainable use and integration of enhanced infrastructure into routine WGS-based surveillance and outbreak investigation activities in Portugal
GENEO 101113460
Investigador
European Union
Em curso
2020 - Atual Genetic diversity of the novel coronavirus SARS-CoV-2 (COVID-19) in Portugal
234_596874175
Investigador
Fundação para a Ciência e a Tecnologia
Em curso
2021 - 2023 COVRIN: One Health research integration on SARS-CoV-2 emergence, risk assessment and preparedness
COVRIN
Investigador
European Union
2020 - 2022 BeOne: Building Integrative Tools for One Health Surveillance
BeOne
Investigador
Statens Serum Institut, Dinamarca
 European Union
Em curso
2020 - 2022 DiSCoVer: Discovering the sources of Salmonella, Campylobacter, VTEC and antimicrobial resistance
DiSCoVer
Investigador
Danmarks Tekniske Universitet, Dinamarca
 European Union
Em curso
2020 - 2022 ADONIS: Assessing Determinants of the Non-Decreasing Incidence of Salmonella
ADONIS
Investigador
Rijksinstituut voor Volksgezondheid en Milieu, Países Baixos
Em curso
2020 - 2022 TELE-Vir: Point-of-incidence toolbox for emerging virus threats
TELE-Vir
Investigador
Statens Serum Institut, Dinamarca
Em curso
2020 - 2022 FED-AMR: The role of free extracellular DNA in dissemination of antimicrobial resistance over ecosystem boundaries along the food/feed chain
FED-AMR
Investigador
Österreichische Agentur für Gesundheit und Ernährungssicherheit GmbH, Áustria
 European Union
Em curso
2017/06 - 2017/10 ORCHID: Observational study of Risk factors for Clostridium difficile infection in Hospitalised patients with Infective Diarrhoea
ORCHID
Bolseiro de Investigação
2016 - 2017 INNUENDO: A cross-sectoral platform for the integration of genomics in the surveillance of food-borne pathogens
GP/EFSA/AFSCO/2015/01/CT2 (New approaches in identifying and characterizing microbial and chemical hazards)
Bolseiro de Investigação
European Food Safety Authority
Concluído
Produções

Publicações

Artigo em revista
  1. Joana Isidro; Raquel Escudero; Juan José Luque-Larena; Miguel Pinto; Vítor Borges; Rosa González-Martín-Niño; Sílvia Duarte; et al. "Strengthening the genomic surveillance of Francisella tularensis by using culture-free whole-genome sequencing from biological samples". Frontiers in Microbiology (2024): http://dx.doi.org/10.3389/fmicb.2023.1277468.
    10.3389/fmicb.2023.1277468
  2. Vítor Borges; Mariana Perez Duque; João Vieira Martins; Paula Vasconcelos; Rita Ferreira; Daniel Sobral; Ana Pelerito; et al. "Viral genetic clustering and transmission dynamics of the 2022 mpox outbreak in Portugal". Nature Medicine (2023): http://dx.doi.org/10.1038/s41591-023-02542-x.
    10.1038/s41591-023-02542-x
  3. Norton Komora; Cláudia Maciel; Joana Isidro; Carlos Pinto; Gianuario Fortunato; Saraiva, Jorge Alexandre; Paula Teixeira. "The Impact of HPP-Assisted Biocontrol Approach on the Bacterial Communities’ Dynamics and Quality Parameters of a Fermented Meat Sausage Model". Biology (2023): https://www.mdpi.com/2079-7737/12/9/1212.
    10.3390/biology12091212
  4. Kislaya, Irina; Casaca, Pedro; Borges, Vítor; Sousa, Carlos; Ferreira, Bibiana I.; Fonte, Ana; Fernandes, Eugénia; et al. "Comparative Effectiveness of COVID-19 Vaccines in Preventing Infections and Disease Progression from SARS-CoV-2 Omicron BA.5 and BA.2, Portugal". Emerging Infectious Diseases 29 3 (2023): 569-575. http://dx.doi.org/10.3201/eid2903.221367.
    10.3201/eid2903.221367
  5. Kislaya, Irina; Peralta-Santos, André; Borges, Vítor; Vieira, Luís; Sousa, Carlos; Ferreira, Bibiana; Pelerito, Ana; et al. "Comparative complete scheme and booster effectiveness of COVID-19 vaccines in preventing SARS-CoV-2 infections with SARS-CoV-2 Omicron (BA.1) and Delta (B.1.617.2) variants: A case–case study based on electronic health records". Influenza and Other Respiratory Viruses 17 3 (2023): http://dx.doi.org/10.1111/irv.13121.
    10.1111/irv.13121
  6. Rita Macedo; Joana Isidro; Rita Ferreira; Miguel Pinto; Vítor Borges; Sílvia Duarte; Luís Vieira; Gomes JP. "Molecular Capture of Mycobacterium tuberculosis Genomes Directly from Clinical Samples: A Potential Backup Approach for Epidemiological and Drug Susceptibility Inferences". International Journal of Molecular Sciences (2023): https://www.mdpi.com/1422-0067/24/3/2912.
    10.3390/ijms24032912
  7. Ribeiro, Miguel; Sousa, Margarida; Borges, Vítor; Gomes, João Paulo; Duarte, Sílvia; Isidro, Joana; Vieira, Luís; et al. "Bioinformatics study of expression from genomes of epidemiologically related MRSA CC398 isolates from human and wild animal samples". Journal of Proteomics 268 (2022): 104714. http://dx.doi.org/10.1016/j.jprot.2022.104714.
    10.1016/j.jprot.2022.104714
  8. Happi, Christian; Adetifa, Ifedayo; Mbala, Placide; Njouom, Richard; Nakoune, Emmanuel; Happi, Anise; Ndodo, Nnaemeka; et al. "Urgent need for a non-discriminatory and non-stigmatizing nomenclature for monkeypox virus". PLOS Biology 20 8 (2022): e3001769. http://dx.doi.org/10.1371/journal.pbio.3001769.
    10.1371/journal.pbio.3001769
  9. Sá, Regina; Isidro, Joana; Borges, Vítor; Duarte, Sílvia; Vieira, Luís; Gomes, João P; Tedim, Sofia; Matias, Judite; Leite, Andreia. "Unraveling the hurdles of a large COVID-19 epidemiological investigation by viral genomics". Journal of Infection 85 1 (2022): 64-74. http://dx.doi.org/10.1016/j.jinf.2022.05.013.
    10.1016/j.jinf.2022.05.013
  10. Isidro, Joana; Borges, Vítor; Pinto, Miguel; Sobral, Daniel; Santos, João Dourado; Nunes, Alexandra; Mixão, Verónica; et al. "Phylogenomic characterization and signs of microevolution in the 2022 multi-country outbreak of monkeypox virus". Nature Medicine 28 8 (2022): 1569-1572. http://dx.doi.org/10.1038/s41591-022-01907-y.
    10.1038/s41591-022-01907-y
  11. Kislaya, Irina; Rodrigues, Eduardo Freire; Borges, Vítor; Gomes, João P.; Sousa, Carlos; Almeida, José P.; Peralta-Santos, André; Nunes, Baltazar; PT-COVID-19 Group. "Comparative Effectiveness of Coronavirus Vaccine in Preventing Breakthrough Infections among Vaccinated Persons Infected with Delta and Alpha Variants". Emerging Infectious Diseases 28 2 (2022): 331-337. http://dx.doi.org/10.3201/eid2802.211789.
    10.3201/eid2802.211789
  12. Borges, Vítor; Isidro, Joana; Trovão, Nídia Sequeira; Duarte, Sílvia; Cortes-Martins, Helena; Martiniano, Hugo; Gordo, Isabel; et al. "SARS-CoV-2 introductions and early dynamics of the epidemic in Portugal". Communications Medicine 2 1 (2022): http://dx.doi.org/10.1038/s43856-022-00072-0.
    10.1038/s43856-022-00072-0
  13. "Omicron (BA.1) SARS-CoV-2 variant is associated with reduced risk of hospitalization and length of stay compared with Delta (B.1.617.2)". medRxiv (2022): https://doi.org/10.1101/2022.01.20.22269406.
  14. "B.1.617.2 SARS-CoV-2 (Delta) variant is associated with increased risk of hospitalization and death compared with B.1.1.7 SARS-CoV-2 (Alpha) variant". medRxiv (2022): https://doi.org/10.1101/2022.01.21.22268602.
  15. Amicone, Massimo; Borges, Vítor; Alves, Maria João; Isidro, Joana; Zé-Zé, Líbia; Duarte, Sílvia; Vieira, Luís; et al. "Mutation rate of SARS-CoV-2 and emergence of mutators during experimental evolution". Evolution, Medicine, and Public Health (2022):
    Aceite para publicação
  16. Correia, Ana M; Borges, Vítor; Isidro, Joana; Lima, Ana R; Fernandes, Alberto; Godinho, Maria Leonor; Duarte, Sílvia; et al. "Potential recurrence of COVID-19 in a healthcare professional: SARS-CoV-2 genome sequencing confirms contagiousness after re-positivity". International Journal of Infectious Diseases 112 (2021): 318-320. http://dx.doi.org/10.1016/j.ijid.2021.09.035.
    10.1016/j.ijid.2021.09.035
  17. O'Toole, Áine; Hill, Verity; Pybus, Oliver G.; Watts, Alexander; Bogoch, Issac I.; Khan, Kamran; Messina, Jane P.; et al. "Tracking the international spread of SARS-CoV-2 lineages B.1.1.7 and B.1.351/501Y-V2 with grinch". Wellcome Open Research 6 (2021): 121. http://dx.doi.org/10.12688/wellcomeopenres.16661.2.
    10.12688/wellcomeopenres.16661.2
  18. Silvestre, Inês; Nunes, Alexandra; Borges, Vítor; Isidro, Joana; Silva, Catarina; Vieira, Luís; Gomes, João Paulo; Borrego, Maria José. "Genomic insights on DNase production in Streptococcus agalactiae ST17 and ST19 strains". Infection, Genetics and Evolution 93 (2021): 104969. http://dx.doi.org/10.1016/j.meegid.2021.104969.
    10.1016/j.meegid.2021.104969
  19. Borges, Vítor; Isidro, Joana; Cunha, Mário; Cochicho, Daniela; Martins, Luís; Banha, Luís; Figueiredo, Margarida; et al. "Long-Term Evolution of SARS-CoV-2 in an Immunocompromised Patient with Non-Hodgkin Lymphoma". mSphere 6 4 (2021): http://dx.doi.org/10.1128/msphere.00244-21.
    10.1128/msphere.00244-21
  20. Funk, Tjede; Pharris, Anastasia; Spiteri, Gianfranco; Bundle, Nick; Melidou, Angeliki; Carr, Michael; Gonzalez, Gabriel; et al. "Characteristics of SARS-CoV-2 variants of concern B.1.1.7, B.1.351 or P.1: data from seven EU/EEA countries, weeks 38/2020 to 10/2021". Eurosurveillance 26 16 (2021): http://dx.doi.org/10.2807/1560-7917.es.2021.26.16.2100348.
    10.2807/1560-7917.es.2021.26.16.2100348
  21. Vítor Borges; Joana Isidro; Filipe Macedo; José Neves; Luís Silva; Mário Paiva; José Barata; et al. "Nosocomial Outbreak of SARS-CoV-2 in a non-COVID-19 Hospital Ward: Virus Genome Sequencing as a Key Tool to Understand Cryptic Transmission". Viruses (2021): https://www.mdpi.com/1999-4915/13/4/604.
    10.3390/v13040604
  22. "Tracking SARS-CoV-2 lineage B.1.1.7 dissemination: insights from nationwide spike gene target failure (SGTF) and spike gene late detection (SGTL) data, Portugal, week 49 2020 to week 3 2021". Eurosurveillance 26 10 (2021): http://dx.doi.org/10.2807/1560-7917.es.2021.26.10.2100130.
    10.2807/1560-7917.es.2021.26.10.2100130
  23. Pinto, Miguel; Borges, Vítor; Isidro, Joana; Rodrigues, João Carlos; Vieira, Luís; Borrego, Maria José; Gomes, João Paulo. "Neisseria gonorrhoeae clustering to reveal major European whole-genome-sequencing-based genogroups in association with antimicrobial resistance". Microbial Genomics 7 2 (2021): http://dx.doi.org/10.1099/mgen.0.000481.
    10.1099/mgen.0.000481
  24. Borges, Vítor; Isidro, Joana; Correia, Cristina; Cordeiro, Dora; Vieira, Luís; Lodhia, Zohra; Fernandes, Cândida; et al. "Transcontinental dissemination of the L2b/D-Da recombinant Chlamydia trachomatis Lymphogranuloma venereum (LGV) strain: need of broad multi-country molecular surveillance". Clinical Infectious Diseases (2021): http://dx.doi.org/10.1093/cid/ciab067.
    10.1093/cid/ciab067
  25. Borges, Vítor; Isidro, Joana; Cortes-Martins, Helena; Duarte, Sílvia; Vieira, Luís; Leite, Ricardo; Gordo, Isabel; et al. "Massive dissemination of a SARS-CoV-2 Spike Y839 variant in Portugal". Emerging Microbes & Infections 9 1 (2020): 2488-2496. http://dx.doi.org/10.1080/22221751.2020.1844552.
    10.1080/22221751.2020.1844552
  26. Correia, Cátia R.; Marçal, Mónica; Vieira, Filipa; Santos, Edmundo; Novais, Cristina; Maria, Ana Teresa; Malveiro, Duarte; et al. "Congenital SARS-CoV-2 Infection in a Neonate With Severe Acute Respiratory Syndrome". Pediatric Infectious Disease Journal 39 12 (2020): e439-e443. http://dx.doi.org/10.1097/inf.0000000000002941.
    10.1097/inf.0000000000002941
  27. Alm, Erik; Broberg, Eeva K; Connor, Thomas; Hodcroft, Emma B; Komissarov, Andrey B; Maurer-Stroh, Sebastian; Melidou, Angeliki; et al. "Geographical and temporal distribution of SARS-CoV-2 clades in the WHO European Region, January to June 2020". Eurosurveillance 25 32 (2020): http://dx.doi.org/10.2807/1560-7917.es.2020.25.32.2001410.
    10.2807/1560-7917.es.2020.25.32.2001410
  28. Macedo, Rita; Isidro, Joana; Gomes, Maria Conceição; Botelho, Ana; Albuquerque, Teresa; Sogorb, Arlete; Bernardino, Rui; et al. "Animal-to-human transmission of Mycobacterium pinnipedii". European Respiratory Journal (2020): 2000371. http://dx.doi.org/10.1183/13993003.00371-2020.
    10.1183/13993003.00371-2020
  29. Isidro, Joana; Ferreira, Susana; Pinto, Miguel; Domingues, Fernanda; Oleastro, Mónica; Gomes, João Paulo; Borges, Vítor. "Virulence and antibiotic resistance plasticity of Arcobacter butzleri: Insights on the genomic diversity of an emerging human pathogen". Infection, Genetics and Evolution 80 (2020): 104213. http://dx.doi.org/10.1016/j.meegid.2020.104213.
    10.1016/j.meegid.2020.104213
  30. Pinto, Ana; Barbosa, Joana; Albano, Helena; Isidro, Joana; Teixeira, Paula. "Screening of Bacteriocinogenic Lactic Acid Bacteria and Their Characterization as Potential Probiotics". Microorganisms 8 3 (2020): 393. http://dx.doi.org/10.3390/microorganisms8030393.
    10.3390/microorganisms8030393
  31. Silveira, Leonor; Pinto, Miguel; Isidro, Joana; Pista, Ângela; Themudo, Patrícia; Vieira, Luís; Machado, Jorge; Gomes, João Paulo. "Multidrug-Resistant Salmonella enterica Serovar Rissen Clusters Detected in Azores Archipelago, Portugal". International Journal of Genomics 2019 (2019): 1-9. http://dx.doi.org/10.1155/2019/1860275.
    10.1155/2019/1860275
  32. Borges, Vítor; Cordeiro, Dora; Salas, Ana Isabel; Lodhia, Zohra; Correia, Cristina; Isidro, Joana; Fernandes, Cândida; et al. "Chlamydia trachomatis: when the virulence-associated genome backbone imports a prevalence-associated major antigen signature". Microbial Genomics 5 11 (2019): http://dx.doi.org/10.1099/mgen.0.000313.
    10.1099/mgen.0.000313
  33. Jaakkonen A; Castro H; Hallanvuo S; Ranta J; Rossi M; Isidro J; Lindström M; Hakkinen M. "Longitudinal Study of Shiga Toxin-Producing Escherichia coli and Campylobacter jejuni on Finnish Dairy Farms and in Raw Milk.". Applied and environmental microbiology (2019): http://europepmc.org/abstract/med/30709824.
    10.1128/aem.02910-18
  34. Isidro J; Menezes J; Serrano M; Borges V; Paixão P; Mimoso M; Martins F; et al. "Genomic Study of a Clostridium difficile Multidrug Resistant Outbreak-Related Clone Reveals Novel Determinants of Resistance.". Frontiers in microbiology (2018): http://europepmc.org/abstract/med/30574133.
    10.3389/fmicb.2018.02994
  35. Isidro, Joana; Santos, Andrea; Nunes, Alexandra; Borges, Vítor; Silva, Catarina; Vieira, Luís; Mendes, Aristides L.; et al. "Imipenem Resistance in Clostridium difficile Ribotype 017, Portugal". Emerging Infectious Diseases 24 4 (2018): 741-745. http://dx.doi.org/10.3201/eid2404.170095.
    10.3201/eid2404.170095
  36. Santos A; Isidro J; Silva C; Boaventura L; Diogo J; Faustino A; Toscano C; Oleastro M. "Molecular and epidemiologic study of Clostridium difficile reveals unusual heterogeneity in clinical strains circulating in different regions in Portugal.". Clinical microbiology and infection : the official publication of the European Society of Clinical Microbiology and Infectious Diseases (2016): http://europepmc.org/abstract/med/27091093.
    10.1016/j.cmi.2016.04.002
Artigo em revista (magazine)
  1. Luís Vieira; Catarina Silva; Silvia Duarte; Joana Mendonça; Dina Carpinteiro; Daniel A. Sampaio; José Ferrão; et al. "Avaliação do desempenho de uma core-facility de sequenciação genómica especializada em saúde pública", Boletim Epidemiológico Observações, 2022, http://hdl.handle.net/10400.18/8027.
  2. Vítor Borges; Joana Isidro; Helena Cortes-Martins; Sílvia Duarte; Luís Vieira; Raquel Guiomar; João Paulo Gomes. "Estudo da diversidade genética do SARS-CoV-2 (COVID-19) em Portugal", Boletim Epidemiológico Observações, 2020, http://hdl.handle.net/10400.18/7248.
  3. Joana Isidro; Andrea Santos; Alexandra Nunes; Vítor Borges; Catarina Silva; Luís Vieira; Aristides L Mendes; et al. "Resistência de Clostridium difficile do ribotipo 017 ao imipenemo: contributo da sequenciação do genoma completo", Boletim Epidemiológico Observações, 2018, http://hdl.handle.net/10400.18/5692.
  4. Rita Macedo; Miguel Pinto; Vítor Borges; Alexandra Nunes; Joana Isidro; Sílvia Duarte; Luís Vieira; João Paulo Gomes. "Nova era na vigilância da tuberculose multirresistente em Portugal: sequenciação do genoma completo", Boletim Epidemiológico Observações, 2018, http://hdl.handle.net/10400.18/5693.
  5. Andrea Santos; Isidro, Joana; Cláudia Júlio; Mónica Oleastro. "Clostridium difficile: diversidade genética e perfis de suscetibilidade aos antimicrobianos", Boletim Epidemiológico Observações, 2015, http://hdl.handle.net/10400.18/2998.
Capítulo de livro
  1. Isidro, Joana; Mendes, Aristides L.; Serrano, Mónica; Henriques, Adriano O.; Oleastro, Mónica. "Overview of Clostridium difficile Infection: Life Cycle, Epidemiology, Antimicrobial Resistance and Treatment". In Clostridium Difficile - A Comprehensive Overview, editado por Shymaa Enany. InTech, 2017.
    10.5772/intechopen.69053
Poster em conferência
  1. Vítor Borges; Isidro, Joana; Rita Ferreira; Silvia Duarte; Daniela Santos; Luís Vieira; et al. "Genomic epidemiology of SARS-CoV-2 in Portugal: supporting evidence-informed public health decision-making". Trabalho apresentado em 32nd European Congress of Clinical Microbiology & Infectious Diseases (ECCMID 2022), 2022.
  2. Isidro, Joana; Susana Ferreira; Miguel Pinto; Fernanda Domingues; Mónica Oleastro; João Paulo Gomes; Borges, Vitor. "Virulence and antibiotic resistance plasticity of Arcobacter butzleri: insights on the genomic diversity of an emerging human pathogen". Trabalho apresentado em IX Bioinformatics Open Days, 2020.
  3. Isidro, Joana; Susana Ferreira; Miguel Pinto; Fernanda Domingues; Mónica Oleastro; João Paulo Gomes; Vítor Borges. "Virulence and antibiotic resistance plasticity of Arcobacter butzleri: insights on the genomic diversity of an emerging human pathogen". Trabalho apresentado em 12th International Meeting on Microbial Epidemiological Markers (IMMEM XII), 2019.
  4. Leonor Silveira; Miguel Pinto; Joana Isidro; Ângela Pista; Patrícia Themudo; Luís Vieira; Jorge Machado; João Paulo Gomes. "Whole Genome Sequencing for cluster detection and characterization of Salmonella Rissen isolates from Portugal". Trabalho apresentado em 12th International Meeting on Microbial Epidemiological Markers (IMMEM XII), 2019.
  5. Andrea Santos; Joana Isidro; Vítor Borges; João Paulo Gomes; Mónica Oleastro. "Genome-based surveillance of Clostridioides difficile ribotype 017 sublineages circulating in Portugal". Trabalho apresentado em 12th International Meeting on Microbial Epidemiological Markers (IMMEM XII), 2019.
  6. Rita Macedo; Joana Isidro; Miguel Pinto; Vítor Borges; João Paulo Gomes. "Strengthening Mycobacterium tuberculosis surveillance through culture-independent whole-genome sequencing". Trabalho apresentado em 12th International Meeting on Microbial Epidemiological Markers (IMMEM XII), 2019.
  7. Catarina Silva; Daniel Sampaio; Joana Mendonça; Dina Carpinteiro; Sílvia Duarte; Paula Barreiro; Joana Isidro; Miguel Machado; Luís Vieira. "The Technology and Innovation Unit of the National Institute of Health: a sequencing and bioinformatics core facility specializing in public health genomics". Trabalho apresentado em 1st GenomePT Symposium, 2019.
  8. Joana Isidro; Juliana Menezes; Andrea Santos; Mónica Oleastro. "Novos determinantes de resistência identificados num clone multirresistente de Clostridium difficile implicado num surto hospitalar". Trabalho apresentado em 11ªs Jornadas de Atualização em Doenças Infeciosas do Hospital de Curry Cabral, 2018.
  9. Juliana Menezes; Andrea Santos; Joana Isidro; Paulo Paixão; Cristina Toscano; Mónica Oleastro. "Study of Clostridium difficile multiresistant strain from ribotype 017 in a hospital centre in Portugal.". 2017.
  10. Joana Isidro; Catarina Silva; Vítor Borges; Miguel Machado; Mickael Silva; João André Carriço; João Paulo Gomes; et al. "Implementation and validation of a low-volume protocol for large-scale small genome sequencing". Trabalho apresentado em 2º Dia do Jovem Investigador do Instituto Nacional de Saúde Doutor Ricardo Jorge, 2017.
  11. Joana Isidro; Andrea Santos; Alexandra Nunes; Vítor Borges; Catarina Silva; Luís Vieira; João Paulo Gomes; Mónica Oleastro. "Imipenem resistance is associated with mutations in penicillin-binding proteins in a multiresistant clone of Clostridium difficile". Trabalho apresentado em 2º Dia do Jovem Investigador do Instituto Nacional de Saúde Doutor Ricardo Jorge, 2017.
  12. Paulo Paixão; Mónica Oleastro; Andrea Santos; I. Faria; Joana Isidro; M. Nascimento; Y. Sydor; Cristina Toscano. "Infecção por Clostridium difficile: Epidemiologia num centro hospitalar de Lisboa". Trabalho apresentado em Congresso Nacional VIH, Doenças Infeciosas e Microbiologia Clínica, 2016.
  13. Andrea Santos; Joana Isidro; C. Lameiras; F. Campilho; R. Branca; A. Campos; Mónica Oleastro. "Investigação de um cluster de infeções por Clostridium difficile em contexto oncológico". Trabalho apresentado em Congresso Nacional VIH, Doenças Infeciosas e Microbiologia Clínica, 2016.
  14. Joana Isidro; Andrea Santos; Cláudia Júlio; L. Boaventura; J. Diogo; A. Faustino; Mónica Oleastro. "Genótipos e perfis de suscetibilidade a antimicrobianos de estirpes de Clostridium difficile isoladas de hospitais portugueses". Trabalho apresentado em Congresso Nacional VIH, Doenças Infeciosas e Microbiologia Clínica, 2014.
Pré-impressão
  1. Santos, João Dourado; Sobral, Daniel; Pinheiro, Miguel; Isidro, Joana; Bogaardt, Carlijn; Pinto, Miguel; Eusébio, Rodrigo; et al. "INSaFLU-TELEVIR: an open web-based bioinformatics suite for viral metagenomic detection and routine genomic surveillance". 2023. http://dx.doi.org/10.21203/rs.3.rs-3556988/v1.
    10.21203/rs.3.rs-3556988/v1
Relatório
  1. João Santos; Daniel Sobral; Miguel Pinheiro; Joana Isidro; M. Pinto; Ricardo Pais; Rodrigo Eusébio; et al. 2022. D- JRP16-ET2.2-TELEVIR-WP2 - Open-sourced Bioinformatics platform that allows the user-friendly handling of high-throughput sequencing data (second and third generation) for detection and monitoring of viral emerging threats.
    10.5281/zenodo.7443399
  2. Adriano Di Pasquale; João Dourado Santos; Carlijn Bogaardt; Joana Isidro; Verónica Mixão; João Paulo Gomes; Daniel Horton; et al. 2022. D-COVRIN.2.1.3 Report on the development of an algorithm for novel virus assessment. https://zenodo.org/record/6784044.
    10.5281/ZENODO.6784044
  3. Joana Isidro; Luca De Sabato; Knijn Arnold; Miguel Pinto; João Paulo Gomes; Gabriele Vaccari; Vítor Borges. 2022. D-COVRIN.2.1.2 - Report on the comparisons of variants and reference sample exchange - Bioinformatics Ring Trial. https://zenodo.org/record/6458215.
    10.5281/ZENODO.6458215
  4. Llarena, Ann-Katrin; Ribeiro-Gonçalves, Bruno Filipe; Nuno Silva, Diogo; Halkilahti, Jani; Machado, Miguel Paulo; Da Silva, Mickael Santos; Jaakkonen, Anniina; et al. 2018. INNUENDO: A cross-sectoral platform for the integration of genomics in the surveillance of food-borne pathogens. http://dx.doi.org/10.2903/sp.efsa.2018.en-1498.
    10.2903/sp.efsa.2018.en-1498
Resumo em conferência
  1. R Sá; J Isidro; V Borges; S Duarte; L Vieira; J P Gomes; S Tedim; J Matias; A Leite. "Unraveling COVID-19 investigation hurdles with viral genomics". 2023.
    10.1093/eurpub/ckad160.219

Outros

Conjunto de dados
  1. Innuendo Whole Genome And Core Genome Mlst Schemas And Datasets For Yersinia Enterocolitica.
    10.5281/zenodo.1421262
  2. Innuendo Whole Genome And Core Genome Mlst Schemas And Datasets For Campylobacter Jejuni.
    10.5281/zenodo.1322564
  3. Innuendo Whole Genome And Core Genome Mlst Schemas And Datasets For Salmonella Enterica.
    10.5281/zenodo.1323684
  4. Innuendo Whole Genome And Core Genome Mlst Schemas And Datasets For Escherichia Coli.
    10.5281/zenodo.1323690
  5. Joana Isidro; Susana Ferreira; Miguel Pinto; Fernanda Domingues; Mónica Oleastro; João Paulo Gomes; Vítor Borges. Virulence and antibiotic resistance plasticity of Arcobacter butzleri: insights on the genomic diversity of an emerging human pathogen (genome assembly, annotation dataset, core- and pan-genome loci). 2019.
    10.5281/ZENODO.3434222
Atividades

Apresentação oral de trabalho

Título da apresentação Nome do evento
Anfitrião (Local do evento)
2023/12/08 (Co-Author) Probe-based Metagenomics: an added value for clinical decision? Congress of Microbiology and Biotechnology 2023 (MicroBiotec'23)
(Covilhã, Portugal)
2023/11/17 (Co-Author) Maternal HIV-1 genotypes and resistance mutations assessment in mother-to-child transmission with next-generation sequencing: perspectives of using this powerful tool 3rd Symposium of the National Research Infrastructure for Genome Sequencing and Analysis
GenomePT (Lisbon, Portugal)
2023/09/27 (Co-Author) Culture-free whole-genome characterization of Francisella tularensis directly from complex samples 10th International Conference on Tularemia
Tularemia International Society (Grenoble, França)
2022/11/08 (Presenter) Multi-country 2022 outbreak of monkeypox virus: from the first viral genome sequence to phylogenomic characterization and microevolution 3º Dia do Jovem Investigador do Instituto Nacional de Saúde Doutor Ricardo Jorge
Instituto Nacional de Saúde Doutor Ricardo Jorge (Lisboa, Portugal)
2022/06/23 (Presenter invited) "Monkeypox virus genome sequencing - first draft genome associated with the 2022 multi-country outbreak obtained using shotgun metagenomics in Portugal" Webinar "The frontlines of pathogen genomic surveillance with rapid nanopore sequencing"
Oxford Nanopore Technologies
2020/10/02 (Presenter) Genetic diversity of the novel coronavirus SARS-CoV-2 (COVID-19) in Portugal XV Annual CICS-UBI Symposium
CICS-UBI (Portugal)
2020/01/16 (Presenter) Whole-genome sequencing of infectious agents in the National Institute of Health: Towards a One Health approach
Universidade Lusófona (Portugal)
2019/09/18 (Co-Author) Chlamydia trachomatis outbreak: when the virulence-associated genome backbone imports aprevalence-associated major antigen signature 12th International Meeting on Microbial Epidemiological Markers (IMMEM XII)
(Dubrovnik, Croácia)
2018/10/16 (Co-Author) Genome-scale comparison of Francisella tularensis strains isolated in an endemic region of Spain 9th International Conference on Tularemia
(Montreal, Canadá)
2018/04/22 (Co-Author) Genomic study of a Clostridium difficile multidrug resistant outbreak clone reveals novel determinants of resistance 28th European Congress of Clinical Microbiology and Infectious Diseases (ECCMID)
(Madrid, Espanha)
2016/11/30 (Presenter) Resistência ao imipenemo em clone endémico de Clostridium difficile do ribotipo 017 Congresso Nacional VIH, Doenças Infeciosas e Microbiologia Clínica
SPDIMC (Portugal)
2016/04/09 (Co-Author) Molecular and epidemiological study of Clostridium difficile reveals unusual heterogeneity in strains circulating in different regions from Portugal 26th European Congress of Clinical Microbiology and Infectious Diseases (ECCMID)
(Amsterdam, Países Baixos)
2014/12/03 (Presenter) Genótipos e perfis de suscetibilidade a antimicrobianos de estirpes de Clostridium difficile isoladas de hospitais portugueses Congresso Nacional VIH, Doenças Infeciosas e Microbiologia Clínica
(Lisboa, Portugal)

Organização de evento

Nome do evento
Tipo de evento (Tipo de participação) 		Instituição / Organização
2023/04/17 - 2023/04/21 Trainer at the workshop "MediLabSecure Workshop - Metagenomics For Rapid Viral Surveillance" (2023/04/17 - 2023/04/21)
Oficina (workshop) (Outra)
 Institut Pasteur, França
2022/12/14 - 2022/12/14 Lecture "INSaFLU-TELEVIR: an open web-based bioinformatics suite for metagenomic virus detection and routine genomic surveillance" - MediLabSecure Webinar "INTRODUCTION TO METAGENOMIC TECHNOLOGIES" (Online Webinar) (2022/12/14 - 2022/12/14)
Oficina (workshop) (Outra)
2022/06/23 - 2022/06/24 TELEVIR project workshop - INSaFLU platform demonstration and metagenomics viral detection (2022/06/23 - 2022/06/24)
Oficina (workshop) (Coorganizador)
 Statens Serum Institut, Dinamarca

Participação em evento

Descrição da atividade
Tipo de evento 		Nome do evento
Instituição / Organização
2023/11/08 - 2023/11/10 TRAINING - Identification and characterization of Burkholderia (Project RefBio: "Germany's contribution to strengthen the bio-analytical reference laboratories in the UNSGM"))
Oficina (workshop)
2023/10/02 - 2023/10/04 EVD-LabNet Virtual Training Event - Phylogeography and Molecular Epidemiology
Oficina (workshop)
European Centre for Disease Prevention and Control, Suécia
2022/11/08 - 2022/11/08 3º Dia do Jovem Investigador do Instituto Nacional de Saúde Doutor Ricardo Jorge, Lisboa, Portugal
Congresso
2022/04/23 - 2022/04/26 ECCMID 2022 - 32nd European Congress of Clinical Microbiology & Infectious Diseases, Lisboa, Portugal
Congresso
2021/01/14 - 2021/01/15 ARTICnetwork and CLIMB-BIG-DATA joint workshop on COVID-19 data analysis
Oficina (workshop)
2020/02/19 - 2020/02/21 IX Bioinformatics Open Days, Universidade do Minho, Braga, Portugal
Congresso
2019/12/02 - 2019/12/06 CADDE Genomic Epidemiology Workshop (São Paulo, Brasil) (Brazil-UK Centre for Arbovirus Discovery, Diagnosis, Genomics and Epidemiology)
Oficina (workshop)
Universidade de São Paulo Instituto de Medicina Tropical de São Paulo, Brasil
2018/03/27 - 2018/03/28 Training "NextSeq 550", I.L.C. - Instrumentos de Laboratório e Científicos, Lda.
Oficina (workshop)
Instituto Nacional de Saúde Doutor Ricardo Jorge, Portugal
2018/01/25 - 2018/01/26 11as Jornadas de Atualização em Doenças Infeciosas do Hospital de Curry Cabral – CHLC, Lisboa
Congresso
2017/07/12 - 2017/07/13 Course "Genomics in foodborne pathogen surveillance and outbreak Investigation"
Oficina (workshop)
Universidad del País Vasco - Campus de Gipuzkoa, Espanha
2017/05/11 - 2017/05/12 ECDC workshop - Train the trainer workshop on diagnostics and typing of Clostridium difficile (AGES, Austria)
Oficina (workshop)
European Centre for Disease Prevention and Control, Suécia

Österreichische Agentur für Gesundheit und Ernährungssicherheit GmbH, Áustria
2017/05/08 - 2017/05/08 2º Dia do Jovem Investigador do Instituto Nacional de Saúde Doutor Ricardo Jorge, Lisboa, Portugal
Congresso
2016/11/30 - 2016/12/02 Congresso Nacional VIH, Doenças Infeciosas e Microbiologia Clínica, Coimbra, Portugal
Congresso
2014/12/01 - 2014/12/03 Congresso Nacional VIH, Doenças Infeciosas e Microbiologia Clínica, Lisboa, Portugal
Congresso
2014/06/06 - 2014/06/06 2º simpósio Alere "O Desafio em Diagnosticar Clostridium difficile"
Simpósio
Hospital da Luz, Portugal
Distinções

Prémio

2023 Prémio Arnaldo Sampaio 2023 (to the article "Unraveling the hurdles of a large COVID-19 epidemiological investigation by viral genomics")
Associação Portuguesa para a Promoção da Saúde Pública, Portugal
2022 Prémio João Monjardino 2022 (to the article "Phylogenomic characterization and signs of microevolution in the 2022 multi-country outbreak of monkeypox virus")
Fundação Professor Francisco Pulido Valente, Portugal

Fundação para a Ciência e a Tecnologia, Portugal
2022 Melhor Comunicação Oral no 3º Dia do Jovem Investigador do Instituto Nacional de Saúde Doutor Ricardo Jorge
Instituto Nacional de Saúde Doutor Ricardo Jorge, Portugal

Outra distinção

2014 "Best of Posters" no Congresso Nacional VIH, Doenças Infeciosas e Microbiologia Clínica, Lisbon, Portugal