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Mário Nuno Ramos de Almeida Ramirez. Completed the Título de Agregado in Microbiologia in 2015/12/15 by Universidade de Lisboa Faculdade de Medicina and Doutoramento in Biologia in 1998 by Universidade Nova de Lisboa Faculdade de Ciências e Tecnologia. Is Researcher in Instituto de Medicina Molecular João Lobo Antunes and Associate Professor in Universidade de Lisboa Faculdade de Medicina. Published 117 articles in journals. Supervised 8 PhD thesis(es) e co-supervised 3. Supervised 10 MSc dissertation(s) e co-supervised 6. Has received 1 awards and/or honors. Participates and/or participated as Principal investigator in 7 project(s) and Researcher in 10 project(s). Works in the area(s) of Medical and Health Sciences with emphasis on Health Sciences with emphasis on Infectious Diseases, Natural sciences with emphasis on Biological Sciences with emphasis on Microbiology and Exact Sciences with emphasis on Computer and Information Sciences with emphasis on Bioinformatics. In their professional activities interacted with 550 collaborator(s) co-authorship of scientific papers. In his curriculum Ciência Vitae the most frequent terms in the context of scientific, technological and artistic-cultural output are: Resistência aos antibióticos; Epidemiologia Molecular; Infecções respiratórias ; Streptococcus ; Genómica; Biologia de populações; Evolução; Virulência; Sequenciação de alto débito; Identificação bacteriana e rastreio; Doenças Infecciosas; Analise de Dados automatizada; Doença pneumocócica; Vacinas conjugadas pneumocócicas; Virulência e complemento genético; Genómica populacional; Infecção; Resistência a antimicrobianos; Medicina personalizada; Análise de DNA por microarrays (CGH); análise filogenética; algoritmos e estruturas de dados; NGS (Next Generation Sequencing); plataforma suportada na cloud; .
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Identificação

Identificação pessoal

Nome completo
Mário Nuno Ramos de Almeida Ramirez

Nomes de citação

  • Ramirez, Mário

Identificadores de autor

Ciência ID
9C1C-F2A2-4226
ORCID iD
0000-0002-4084-6233
Google Scholar ID
EWHFzOAAAAAJ&h
Researcher Id
B-4993-2008
Scopus Author Id
7201568476

Moradas

  • Av. Prof. Egas Moniz, 1649-028, Lisboa, Lisboa, Portugal (Profissional)

Websites

Domínios de atuação

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

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
2015/12/15
Concluído
 Microbiologia (Título de Agregado)
Universidade de Lisboa Faculdade de Medicina, Portugal
1998
Concluído
 Biologia (Doutoramento)
Especialização em Especialidade: Biologia Molecular
Universidade Nova de Lisboa Faculdade de Ciências e Tecnologia, Portugal
"Dna Exchange in Natural Populations of Streptococcus Pneumoniae" (TESE/DISSERTAÇÃO)
Percurso profissional

Ciência

Categoria Profissional
Instituição de acolhimento 		Empregador
2007/01/01 - 2024/12/31 Investigador (Investigação) Instituto de Medicina Molecular João Lobo Antunes, Portugal

Docência no Ensino Superior

Categoria Profissional
Instituição de acolhimento 		Empregador
2004/01/01 - Atual Professor Associado (Docente Universitário) Universidade de Lisboa Faculdade de Medicina, Portugal
Projetos

Bolsa

Designação Financiadores
2020/09 - Atual Gut Permeability in Children and Adults with Systemic Lupus Erythematosus
Lupus
Universidade de Lisboa Instituto de Medicina Molecular João Lobo Antunes, Portugal
 Fundação Amélia de Mello
Concluído
2023/11/01 - 2025/06/30 Creating and refining whole-genome and core-genome typing schemas for pathogen surveillance - CENTAUR
ISIDORe
Investigador responsável
Instituto de Medicina Molecular, Portugal
 União Europeia
Em curso
2021/01/01 - 2025/01/01 Inter-laboratory reproducibility and expansion of the gene-by-gene typing approach in an era of whole genome sequencing
2020.08493.BD
Universidade de Lisboa Faculdade de Medicina, Portugal

Universidade de Lisboa Instituto de Medicina Molecular João Lobo Antunes, Portugal
Fundação para a Ciência e a Tecnologia
Em curso
2017/01/01 - 2020/12/31 An OMICS Network to Prevent and Control Infectious Diseases and Antimicrobial Resistance (ONEIDA)
SAICTPAC/0015/2015
Universidade Nova de Lisboa Instituto de Tecnologia Química e Biológica António Xavier, Portugal
Concluído

Projeto

Designação Financiadores
2018/10/01 - 2021/09/30 Ferramentas para análise filogenética em larga escala
PTDC/CCI-BIO/29676/2017
Investigador
Instituto de Engenharia de Sistemas e Computadores Investigação e Desenvolvimento em Lisboa, Portugal

Instituto de Medicina Molecular João Lobo Antunes, Portugal
Fundação para a Ciência e a Tecnologia
Em curso
2017/01/01 - 2020/12/31 Plataforma Ómica para Prevenção e Controlo de infecções e de Resistência aos Antimicrobianos.
SAICTPAC/0015/2015
Investigador
Universidade Nova de Lisboa Instituto de Tecnologia Química e Biológica, Portugal

Fundação Calouste Gulbenkian, Portugal

Instituto de Medicina Molecular João Lobo Antunes, Portugal
Fundação para a Ciência e a Tecnologia
Concluído
2016/12/01 - 2019/11/30 BacGenTrack – Um sistema integrado para analise de genomas bacterianos usando metodos de sequenciação de alto débito: identificação de estirpes e visualização de resultados
TUBITAK/0004/2014
Investigador
Instituto de Medicina Molecular João Lobo Antunes, Portugal

Instituto de Engenharia de Sistemas e Computadores Investigação e Desenvolvimento em Lisboa, Portugal
Fundação para a Ciência e a Tecnologia
Concluído
2016/04/01 - 2019/09/30 As alterações dos pneumococos: adaptações à vacinação e a transição entre colonização e doença
PTDC/DTP-EPI/1555/2014
Investigador
Instituto de Medicina Molecular João Lobo Antunes, Portugal
 Fundação para a Ciência e a Tecnologia
Concluído
2015 - 2016 Infections by group B streptococci in Portugal and Iceland: raising awareness and contributing to preventive strategies
147DT
Investigador responsável
Instituto de Medicina Molecular João Lobo Antunes, Portugal
 EEA Grants
Concluído
2013/06/01 - 2015/05/31 A acção das vacinas conjugadas: alterações da população pneumocócica e as suas consequências genómicas
PTDC/DTP-EPI/1759/2012
Investigador
Instituto de Medicina Molecular João Lobo Antunes, Portugal
 Fundação para a Ciência e a Tecnologia
Concluído
2011/01 - 2014/06 In silico reconstruction of Streptococcus pneumoniae cellular networks and their impact on virulence
Provided by PTCRIS: 113824
113824
Investigador
Fundação para a Ciência e a Tecnologia, I.P.
2011/01/01 - 2013/02/17 Projecto Estratégico - LA 5 - 2011-2012
PEst-OE/SAU/LA0005/2011
Universidade de Lisboa Instituto de Medicina Molecular João Lobo Antunes, Portugal
 Fundação para a Ciência e a Tecnologia
Concluído
2009/02 - 2012/12 Implications for therapy and disease presentation of the changes triggered by the use of the pneumococcal 7-valent conjugate vaccine
Provided by PTCRIS: 83065
83065
Investigador responsável
Fundação para a Ciência e a Tecnologia, I.P.
2008/10 - 2012/05 Population and genomic consequences of vaccination against Streptococcus pneumoniae
64888
Provided by PTCRIS: 64888
Investigador responsável
Fundação para a Ciência e a Tecnologia, I.P.
2008/08 - 2012/02 Streptococcus pyogenes invasive disease and antimicrobial resistance - two faces of a changing pathogen
72321
Provided by PTCRIS: 72321
Investigador
Fundação para a Ciência e a Tecnologia, I.P.
2008/10 - 2011/09 A computational biology approach using Streptococcus pneumoniae as a model towards an integrative view of bacteria/host interactions and evolution
71499
Provided by PTCRIS: 71499
Investigador responsável
Fundação para a Ciência e a Tecnologia, I.P.
2009 - 2011 CAREPNEUMO - Combating antibiotic resistance pneumococci by novel strategies based on in vivo and in vitro host-pathogen interactions
FP7-HEALTH-2007-223111
Investigador responsável
Instituto de Medicina Molecular João Lobo Antunes, Portugal
 União Europeia
Concluído
2007/01 - 2008/12 Molecular epidemiology of Streptococcus agalactiae infections in Portugal
82582
Provided by PTCRIS: 82582
Investigador
Fundação para a Ciência e a Tecnologia, I.P.
2005/05 - 2007/06 Molecular epidemiology of Streptococcus agalactiae infections in Portugal
57646
Provided by PTCRIS: 57646
Investigador
Fundação para a Ciência e a Tecnologia, I.P.
2006 - 2006 Population based identification of pneumococcal virulence and colonization factors
N/A
Investigador responsável
Instituto de Medicina Molecular João Lobo Antunes, Portugal
 National Institute of Allergy and Infectious Diseases
Concluído
2004 - 2006 Pneumococcal Resistance Epidemicity and Virulence - an International Study: PREVIS
FP6-2002-CT-503413
Investigador
Instituto de Medicina Molecular João Lobo Antunes, Portugal
 União Europeia
Concluído
2001 - 2004 Caracterização do impacto de bacteriófagos em populações naturais de Streptococcus pneumoniae
POCTI/BME/34418/99-00
Investigador responsável
Universidade Nova de Lisboa Instituto de Tecnologia Química e Biológica, Portugal
 Fundação para a Ciência e a Tecnologia
Concluído
Produções

Publicações

Artigo em conferência
  1. Almada-Correia, I; Castro, Miguel; Motta, Carla; Catarina Sousa Guerreiro; Khmelinskii, Nikita; Filipa Oliveira Ramos; Catarina Inês Marques de Sousa Mendes; et al. "Gut permeability in lupus nephritis: results from the GUT-LUPUS study (COL17)". Trabalho apresentado em VII Congresso Hispano-Português de Nefrologia Pediátrica 2023 and XLVI Congreso Español de Nefrologia Pediátrica 2023, Lisboa, 2023.
  2. Almada-Correia, I; Castro, Miguel; Motta, Carla; Catarina Sousa Guerreiro; Khmelinskii, Nikita; Filipa Oliveira Ramos; Catarina Inês Marques de Sousa Mendes; et al. "Resultados do Estudo Gut-Lupus: Dieta, Composição Corporal, Microbiota e Permeabilidade Intestinal no Lúpus Eritematoso Sistémico (Oral 01)". Trabalho apresentado em I Congresso Português de Reumatologia Pediátrica, Lisboa, 2022.
Artigo em revista
  1. Gomes-Silva, Joana; Pinho, Marcos D.; Friães, Ana; Ramirez, Mário; Melo-Cristino, José; Silva-Costa, Catarina; Pinto, Margarida; et al. "Pneumococci remain the main cause of complicated pediatric pneumonia in the post-pandemic era despite extensive pneumococcal vaccine use". Pneumonia 16 1 (2024): https://doi.org/10.1186/s41479-024-00151-x.
    10.1186/s41479-024-00151-x
  2. Silva-Costa, Catarina; Gomes-Silva, Joana; Pinho, Marcos; Friães, Ana; Subtil-Limpo, Fábio; Ramirez, Mário; Melo-Cristino, José. "Rebound of pediatric invasive pneumococcal disease in Portugal after the COVID-19 pandemic was not associated with significant serotype changes". Journal of Infection 89 4 (2024): 106242. https://doi.org/10.1016/j.jinf.2024.106242.
    10.1016/j.jinf.2024.106242
  3. Xie, Ouli; Morris, Jacqueline M.; Hayes, Andrew J.; Towers, Rebecca J.; Jespersen, Magnus G.; Lees, John A.; Ben Zakour, Nouri L.; et al. "Inter-species gene flow drives ongoing evolution of Streptococcus pyogenes and Streptococcus dysgalactiae subsp. equisimilis". Nature Communications 15 1 (2024): http://dx.doi.org/10.1038/s41467-024-46530-2.
    10.1038/s41467-024-46530-2
  4. Faria, Nuno Alexandre; Touret, Tiago; Simões, Alexandra S.; Palos, Carlos; Bispo, Soraia; Cristino, José Melo; Ramirez, Mário; et al. "Genomic Insights into the expansion of Carbapenem-Resistant Klebsiella pneumoniae within Portuguese Hospitals". Journal of Hospital Infection (2024): http://dx.doi.org/10.1016/j.jhin.2024.02.028.
    10.1016/j.jhin.2024.02.028
  5. Gouveia, C.; Bajanca-Lavado, Maria Paula; Mamede, Rafael; Carvalho, A.; Rodrigues, F.; Melo Cristino, Jose; Ramirez, Mário; et al. "Sustained increase of paediatric invasive Streptococcus pyogenes infections dominated by M1UK and diverse emm12 isolates, Portugal, September 2022 to May 2023". Eurosurveillance (2023): https://doi.org/10.2807/1560-7917.ES.2023.28.36.2300427.
    10.2807/1560-7917.ES.2023.28.36.2300427
  6. Cezar Vinícius Würdig Riche; Mabel Kamweli Aworh; Renato Cassol; Diego Rodrigues Falci; Mario Ramirez; Cícero Armídio Gomes Dias. "Epidemiology and risk factors for mortality among methicillin-resistant Staphylococcus aureus bacteremic patients in Southern Brazil". PLOS ONE (2023): https://doi.org/10.1371/journal.pone.0283774.
    10.1371/journal.pone.0283774
  7. Silva-Costa, Catarina; Gomes-Silva, Joana; Santos, Andreia; Ramirez, Mario; Melo-Cristino, Jose. "Adult non-invasive pneumococcal pneumonia in Portugal is dominated by serotype 3 and non-PCV13 serotypes 3-years after near universal PCV13 use in children". Frontiers in Public Health (2023): https://publons.com/wos-op/publon/63701259/.
    10.3389/FPUBH.2023.1279656
  8. Xie, Ouli; Morris, Jacqueline M; Hayes, Andrew J.; Towers, Rebecca J; Jespersen, Magnus G.; Lees, John A.; Ben Zakour, Nouri L.; et al. "Inter-species gene flow drives ongoing evolution of Streptococcus pyogenes and Streptococcus dysgalactiae subsp. equisimilis". BioRxiv (2023): https://publons.com/wos-op/publon/64066903/.
    10.1101/2023.08.10.552873
  9. Catarina Inês Mendes; Pedro Vila-Cerqueira; Yair Motro; Jacob Moran-Gilad; João André Carriço; Mário Ramirez. "LMAS: evaluating metagenomic short de novo assembly methods through defined communities". GigaScience (2022): https://doi.org/10.1093/gigascience/giac122.
    10.1093/gigascience/giac122
  10. Catarina Silva-Costa; Joana Gomes-Silva; Marcos D. Pinho; Ana Friães; Mário Ramirez; José Melo-Cristino; Eleanor A. Powell; Laura Andrade de Oliveira. "Continued Vaccine Breakthrough Cases of Serotype 3 Complicated Pneumonia in Vaccinated Children, Portugal (2016–2019)". Microbiology Spectrum (2022): https://doi.org/10.1128/spectrum.01077-22.
    10.1128/spectrum.01077-22
  11. Elisabete R. Martins; Dulce Nascimento do Ó; Ana Luísa Marques Costa; José Melo-Cristino; Mário Ramirez; Jennifer M. Auchtung. "Characteristics of Streptococcus agalactiae Colonizing Nonpregnant Adults Support the Opportunistic Nature of Invasive Infections". Microbiology Spectrum (2022): https://doi.org/10.1128/spectrum.01082-22.
    10.1128/spectrum.01082-22
  12. A. Friães; R. Mamede; M. Ferreira; J. Melo-Cristino; M. Ramirez; Daniel J. Diekema. "Annotated Whole-Genome Multilocus Sequence Typing Schema for Scalable High-Resolution Typing of Streptococcus pyogenes". Journal of Clinical Microbiology (2022): https://doi.org/10.1128/jcm.00315-22.
    10.1128/jcm.00315-22
  13. Mukherjee, Debanjan; Chora, Angelo Ferreira; Lone, Jean-Christophe; Ramiro, Ricardo S.; Blankenhaus, Birte; Serre, Karine; Ramirez, Mario; et al. "Host lung microbiota promotes malaria-associated acute respiratory distress syndrome". Nature Communications (2022): https://publons.com/wos-op/publon/53681639/.
    10.1038/S41467-022-31301-8
  14. Birta Baeringsdottir; Helga Erlendsdottir; Erla Soffia Bjornsdottir; Elisabete R. Martins; Mário Ramirez; Asgeir Haraldsson; Thordur Thorkelsson. "Group B streptococcal infections in infants in Iceland: clinical and microbiological factors". Journal of Medical Microbiology (2021): https://doi.org/10.1099/jmm.0.001426.
    10.1099/jmm.0.001426
  15. Catarina Silva-Costa; Joana Gomes-Silva; Lúcia Prados; Mário Ramirez; José Melo-Cristino. "Pediatric Invasive Pneumococcal Disease Three Years after PCV13 Introduction in the National Immunization Plan—The Continued Importance of Serotype 3". Microorganisms (2021): https://doi.org/10.3390/microorganisms9071428.
    10.3390/microorganisms9071428
  16. Catarina Silva-Costa; Joana Gomes-Silva; Inês Teodoro; Mário Ramirez; José Melo-Cristino. "Invasive Pneumococcal Disease in Adults in Portugal: The Importance of Serotypes 8 and 3 (2015–2018)". Microorganisms (2021): https://doi.org/10.3390/microorganisms9051016.
    10.3390/microorganisms9051016
  17. Rafael Mamede; Pedro Vila-Cerqueira; Mickael Silva; João A Carriço; Mário Ramirez. "Chewie Nomenclature Server (chewie-NS): a deployable nomenclature server for easy sharing of core and whole genome MLST schemas". Nucleic Acids Research (2021): https://doi.org/10.1093/nar/gkaa889.
    10.1093/nar/gkaa889
  18. Ramirez, Mário. "Seroprevalence of anti-SARS-CoV-2 antibodies in COVID-19 patients and healthy volunteers up to 6 months post disease onset.". European journal of immunology (2020): https://europepmc.org/articles/PMC7756220.
    10.1002/eji.202048970
  19. Ramirez, Mário. "Two multi-fragment recombination events resulted in the ß-lactam-resistant serotype 11A-ST6521 related to Spain9V-ST156 pneumococcal clone spreading in south-western Europe, 2008 to 2016.". Euro surveillance : bulletin Europeen sur les maladies transmissibles = European communicable disease bulletin (2020): https://europepmc.org/articles/PMC7189650.
    10.2807/1560-7917.es.2020.25.16.1900457
  20. Catarina I. Mendes; Erley Lizarazo; Miguel P. Machado; Diogo N. Silva; Adriana Tami; Mário Ramirez; Natacha Couto; John W. A. Rossen; João A. Carriço. "DEN-IM: dengue virus genotyping from amplicon and shotgun metagenomic sequencing". Microbial Genomics (2020): https://doi.org/10.1099/mgen.0.000328.
    10.1099/mgen.0.000328
  21. Catarina Silva-Costa; Maria J. Brito; Sandra I. Aguiar; Joana P. Lopes; Mário Ramirez; José Melo-Cristino. "Dominance of vaccine serotypes in pediatric invasive pneumococcal infections in Portugal (2012–2015)". Scientific Reports (2019): https://doi.org/10.1038/s41598-018-36799-x.
    10.1038/s41598-018-36799-x
  22. A. Friães; J. Melo-Cristino; M. Ramirez. "Changes in emm types and superantigen gene content of Streptococcus pyogenes causing invasive infections in Portugal". Scientific Reports (2019): https://doi.org/10.1038/s41598-019-54409-2.
    10.1038/s41598-019-54409-2
  23. Mark van der Linden; Rafael Mamede; Natascha Levina; Peter Helwig; Pedro Vila-Cerqueira; João André Carriço; José Melo-Cristino; Mário Ramirez; Elisabete R Martins. "Heterogeneity of penicillin-non-susceptible group B streptococci isolated from a single patient in Germany". Journal of Antimicrobial Chemotherapy (2019): https://doi.org/10.1093/jac/dkz465.
    10.1093/jac/dkz465
  24. Tiago F Jesus; Bruno Ribeiro-Gonçalves; Diogo N Silva; Valeria Bortolaia; Mário Ramirez; João A Carriço. "Plasmid ATLAS: plasmid visual analytics and identification in high-throughput sequencing data". Nucleic Acids Research (2019): https://doi.org/10.1093/nar/gky1073.
    10.1093/nar/gky1073
  25. Echaniz-Aviles, Gabriela; Guerreiro, Soraia, I; Silva-Costa, Catarina; Mendes, Catarina, I; Carrico, Joao Andre; Noemi Carnalla-Barajas, Maria; Soto-Nogueron, Araceli; et al. "Streptococcus pneumoniae Serotype 3 in Mexico (1994 to 2017): Decrease of the Unusual Clonal Complex 4909 Lineage following PCV13 Introduction". Journal of Clinical Microbiology (2019): https://publons.com/publon/2896153/.
    10.1128/JCM.01354-18
  26. Ramirez, Mário. "Group B Streptococcal Neonatal and Early Infancy Infections in Iceland, 1976-2015". Pediatric Infectious Disease Journal (2019): https://publons.com/publon/28258762/.
    10.1097/INF.0000000000002214
  27. Dias, Oscar; Saraiva, Joao; Faria, Cristiana; Ramirez, Mario; Pinto, Francisco; Rocha, Isabel. "iDS372, a Phenotypically Reconciled Model for the Metabolism of Streptococcus pneumoniae Strain R6". Frontiers in Microbiology (2019): https://publons.com/publon/20997934/.
    10.3389/FMICB.2019.01283
  28. Pinho, Marcos D.; Foster, Geoffrey; Pomba, Constanga; Machado, Miguel P.; Baily, Johanna L.; Kuiken, Thijs; Melo-Cristino, Jose; et al. "Streptococcus canis Are a Single Population Infecting Multiple Animal Hosts Despite the Diversity of the Universally Present M-Like Protein SCM". Frontiers in Microbiology (2019): https://publons.com/publon/28258761/.
    10.3389/FMICB.2019.00631
  29. Andreia N. Horácio; Daniela Flavia Hozbor; Catarina Silva-Costa; Elísia Lopes; Mário Ramirez; José Melo-Cristino. "Conjugate vaccine serotypes persist as major causes of non-invasive pneumococcal pneumonia in Portugal despite declines in serotypes 3 and 19A (2012-2015)". PLOS ONE (2018): https://doi.org/10.1371/journal.pone.0206912.
    10.1371/journal.pone.0206912
  30. Silva, Mickael; Machado, Miguel P.; Silva, Diogo N.; Rossi, Mirko; Moran-Gilad, Jacob; Santos, Sergio; Ramirez, Mario; Carrico, Joao Andre. "chewBBACA: A complete suite for gene-by-gene schema creation and strain identification". Microbial Genomics 4 3 (2018): http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=ORCID&SrcApp=OrcidOrg&DestLinkType=FullRecord&DestApp=WOS_CPL&KeyUT=WOS:000431156100010&KeyUID=WOS:000431156100010.
    10.1099/mgen.0.000166
  31. Carrico, J. A.; Rossi, M.; Moran-Gilad, J.; Van Domselaar, G.; Ramirez, M.. "A primer on microbial bioinformatics for nonbioinformaticians". Clinical Microbiology and Infection 24 4 (2018): 342-349. http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=ORCID&SrcApp=OrcidOrg&DestLinkType=FullRecord&DestApp=WOS_CPL&KeyUT=WOS:000427826500005&KeyUID=WOS:000427826500005.
    10.1016/j.cmi.2017.12.015
  32. Silva-Costa, Catarina; Brito, Maria Joao; Pinho, Marcos D.; Friaes, Ana; Aguiar, Sandra I.; Ramirez, M.; Melo-Cristino, Jose; Portuguese Grp Study Streptococcal; Pediat Infect Dis Soc. "Pediatric Complicated Pneumonia Caused by Streptococcus pneumoniae Serotype 3 in 13-Valent Pneumococcal Conjugate Vaccinees, Portugal, 2010-2015". Emerging Infectious Diseases 24 7 (2018): 1307-1314. http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=ORCID&SrcApp=OrcidOrg&DestLinkType=FullRecord&DestApp=WOS_CPL&KeyUT=WOS:000435635900017&KeyUID=WOS:000435635900017.
    10.3201/eid2407.180029
  33. Lopes, Elisia; Fernandes, Tania; Machado, Miguel P.; Carrico, Joao Andre; Mello-Cristino, Jose; Ramirez, Mario; Martins, Elisabete R.; Portuguese Grp Study Streptococcal. "Increasing macrolide resistance among Streptococcus agalactiae causing invasive disease in non-pregnant adults was driven by a single capsular-transformed lineage, Portugal, 2009 to 2015". Eurosurveillance 23 21 (2018): 14-23. http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=ORCID&SrcApp=OrcidOrg&DestLinkType=FullRecord&DestApp=WOS_CPL&KeyUT=WOS:000433285600004&KeyUID=WOS:000433285600004.
    10.2807/1560-7917.ES.2018.23.21.1700473
  34. Natacha Couto; Leonard Schuele; Erwin C. Raangs; Miguel P. Machado; Catarina I. Mendes; Tiago F. Jesus; Monika Chlebowicz; et al. "Critical steps in clinical shotgun metagenomics for the concomitant detection and typing of microbial pathogens". Scientific Reports (2018): https://publons.com/publon/17448617/.
    10.1038/S41598-018-31873-W
  35. Catarina Pato; José Melo-Cristino; Mario Ramirez; Ana Friães. "Streptococcus pyogenes Causing Skin and Soft Tissue Infections Are Enriched in the Recently Emerged emm89 Clade 3 and Are Not Associated With Abrogation of CovRS". Frontiers in Microbiology (2018): https://publons.com/publon/17504803/.
    10.3389/FMICB.2018.02372
  36. Jorge Diamantino-Miranda; Herminia de Lencastre; Sandra Isabel Aguiar; João André Carriço; José Melo-Cristino; Mário Ramirez. "Clonal and serotype dynamics of serogroup 6 isolates causing invasive pneumococcal disease in Portugal: 1999-2012". PLOS ONE (2017):
    10.1371/journal.pone.0170354
  37. Martins, Elisabete R.; Pedroso-Roussado, Cristiano; Melo-Cristino, Jose; Ramirez, Mario; Portuguese Grp Study Streptococcal. "Streptococcus agalactiae Causing Neonatal Infections in Portugal (2005-2015): Diversification and Emergence of a CC17/PI-2b Multidrug Resistant Sublineage". Frontiers in Microbiology 8 (2017): http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=ORCID&SrcApp=OrcidOrg&DestLinkType=FullRecord&DestApp=WOS_CPL&KeyUT=WOS:000397612100001&KeyUID=WOS:000397612100001.
    10.3389/fmicb.2017.00499
  38. Nascimento, Marta; Sousa, Adriano; Ramirez, Mario; Francisco, Alexandre P.; Carrico, Joao A.; Vaz, Catia. "PHYLOViZ 2.0: providing scalable data integration and visualization for multiple phylogenetic inference methods". Bioinformatics 33 1 (2017): 128-129. http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=ORCID&SrcApp=OrcidOrg&DestLinkType=FullRecord&DestApp=WOS_CPL&KeyUT=WOS:000397091600019&KeyUID=WOS:000397091600019.
    10.1093/bioinformatics/btw582
  39. Jamet, Anne; Touchon, Marie; Ribeiro-Goncalves, Bruno; Carrico, Joao Andre; Charbit, Alain; Nassif, Xavier; Ramirez, Mario; Rocha, Eduardo P. C.. "A widespread family of polymorphic toxins encoded by temperate phages". Bmc Biology 15 (2017): http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=ORCID&SrcApp=OrcidOrg&DestLinkType=FullRecord&DestApp=WOS_CPL&KeyUT=WOS:000408678700001&KeyUID=WOS:000408678700001.
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  40. Machado MP; Ribeiro-Gonçalves B; Silva M; Ramirez M; Carriço JA. "Epidemiological Surveillance and Typing Methods to Track Antibiotic Resistant Strains Using High Throughput Sequencing". Antibiotics: Methods and Protocols (2017): https://publons.com/publon/11299000/.
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  44. Horacio, Andreia N.; Silva-Costa, Catarina; Diamantino-Miranda, Jorge; Lopes, Joana P.; Ramirez, Mario; Melo-Cristino, Jose; Portuguese Grp Study Streptococcal. "Population Structure of Streptococcus pneumoniae Causing Invasive Disease in Adults in Portugal before PCV13 Availability for Adults: 2008-2011". Plos One 11 5 (2016): http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=ORCID&SrcApp=OrcidOrg&DestLinkType=FullRecord&DestApp=WOS_CPL&KeyUT=WOS:000376587300078&KeyUID=WOS:000376587300078.
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  45. Bjoernsdottir, E. S.; Martins, E. R.; Erlendsdottir, H.; Haraldsson, G.; Melo-Cristino, J.; Kristinsson, K. G.; Ramirez, M.. "Changing epidemiology of group B streptococcal infections among adults in Iceland: 1975-2014". Clinical Microbiology and Infection 22 4 (2016): http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=ORCID&SrcApp=OrcidOrg&DestLinkType=FullRecord&DestApp=WOS_CPL&KeyUT=WOS:000375399900015&KeyUID=WOS:000375399900015.
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  46. Barato, P.; Martins, E. R.; Vasquez, G. M.; Ramirez, M.; Melo-Cristino, J.; Martinez, N.; Iregui, C.. "Capsule impairs efficient adherence of Streptococcus agalactiae to intestinal epithelium in tilapias Oreochromis sp". Microbial Pathogenesis 100 (2016): 30-36. http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=ORCID&SrcApp=OrcidOrg&DestLinkType=FullRecord&DestApp=WOS_CPL&KeyUT=WOS:000388548100004&KeyUID=WOS:000388548100004.
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  47. Ana Friães; Miguel P. Machado; Catarina Pato; João Carriço; José Melo-Cristino; Mario Ramirez. "Emergence of the Same Successful Clade among Distinct Populations of emm89 Streptococcus pyogenes in Multiple Geographic Regions". mBio 6 6 (2015): https://doi.org/10.1128/mBio.01780-15.
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  48. Raquel Arinto-Garcia; Marcos Daniel Pinho; João André Carriço; José Melo-Cristino; Mário Ramirez; S. S. Richter. "Comparing Matrix-Assisted Laser Desorption Ionization–Time of Flight Mass Spectrometry and Phenotypic and Molecular Methods for Identification of Species within the Streptococcus anginosus Group". Journal of Clinical Microbiology 53 11 (2015): 3580-3588. http://dx.doi.org/10.1128/JCM.01892-15.
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  49. Silva-Costa, Catarina; Friaes, Ana; Ramirez, Mario; Melo-Cristino, Jose. "Macrolide-resistant Streptococcus pyogenes: prevalence and treatment strategies". Expert Review of Anti-Infective Therapy 13 5 (2015): 615-628. http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=ORCID&SrcApp=OrcidOrg&DestLinkType=FullRecord&DestApp=WOS_CPL&KeyUT=WOS:000356442600009&KeyUID=WOS:000356442600009.
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  50. Coelho, Luis Pedro; Pato, Catarina; Friaes, Ana; Neumann, Ariane; von Koeckritz-Blickwede, Maren; Ramirez, Mario; Carrico, Joao Andre. "Automatic determination of NET (neutrophil extracellular traps) coverage in fluorescent microscopy images". Bioinformatics 31 14 (2015): 2364-2370. http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=ORCID&SrcApp=OrcidOrg&DestLinkType=FullRecord&DestApp=WOS_CPL&KeyUT=WOS:000358173500017&KeyUID=WOS:000358173500017.
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  51. Teixeira, Andreia Sofia; Monteiro, Pedro T.; Carrico, Joao A.; Ramirez, Mario; Francisco, Alexandre P.. "Not Seeing the Forest for the Trees: Size of the Minimum Spanning Trees (MSTs) Forest and Branch Significance in MST-Based Phylogenetic Analysis". Plos One 10 3 (2015): http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=ORCID&SrcApp=OrcidOrg&DestLinkType=FullRecord&DestApp=WOS_CPL&KeyUT=WOS:000351987300036&KeyUID=WOS:000351987300036.
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  52. Friaes, A.; Resina, C.; Manuel, V.; Lito, L.; Ramirez, M.; Melo-Cristino, J.. "Epidemiological survey of the first case of vancomycin-resistant Staphylococcus aureus infection in Europe". Epidemiology and Infection 143 4 (2015): 745-748. http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=ORCID&SrcApp=OrcidOrg&DestLinkType=FullRecord&DestApp=WOS_CPL&KeyUT=WOS:000351058600011&KeyUID=WOS:000351058600011.
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  54. Ana Friães; Friães A; Catarina Pato; Pato C; José Melo-Cristino; Melo-Cristino J; Mario Ramirez; Ramirez M. "Consequences of the variability of the CovRS and RopB regulators among Streptococcus pyogenes causing human infections". Scientific Reports (2015): https://publons.com/publon/131527/.
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  55. C. Silva-Costa; M. Ramirez; J. Melo-Cristino. "Declining macrolide resistance in Streptococcus pyogenes in Portugal (2007–13) was accompanied by continuous clonal changes". Journal of Antimicrobial Chemotherapy (2015): https://publons.com/publon/8833846/.
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  56. P Barato; E R Martins; J Melo-Cristino; C A Iregui; M Ramirez. "Persistence of a single clone of Streptococcus agalactiae causing disease in tilapia (Oreochromis sp.) cultured in Colombia over 8 years". Journal of Fish Diseases (2015): https://publons.com/publon/4141946/.
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  57. Cardoso, Liliana Sofia; Suissas, Claudia Elvas; Ramirez, Mario; Antunes, Marilia; Pinto, Francisco Rodrigues. "Comparison of alternative mixture model methods to analyze bacterial CGH experiments with multi-genome arrays.". BMC research notes 7 (2014): 148-148.
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  58. Lopez, Elena; Domenech, Arnau; Ferrandiz, Maria-Jose; Frias, Maria Joao; Ardanuy, Carmen; Ramirez, Mario; Garcia, Ernesto; Linares, Josefina; de la Campa, Adela G.. "Induction of Prophages by Fluoroquinolones in Streptococcus pneumoniae: Implications for Emergence of Resistance in Genetically-Related Clones". Plos One 9 4 (2014):
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  59. Horacio, Andreia N; Lopes, Joana P; Ramirez, Mario; Melo-Cristino, Jose; Portuguese Group for the Study of Streptococcal Infections. "Non-invasive pneumococcal pneumonia in portugal-serotype distribution and antimicrobial resistance.". PloS one 9 7 (2014): e103092-e103092.
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  60. Preziuso, S.; Pinho, M. D.; Attili, A. R.; Melo-Cristino, J.; Acke, E.; Midwinter, A. C.; Cuteri, V.; Ramirez, M.. "PCR based differentiation between Streptococcus dysgalactiae subsp equisimilis strains isolated from humans and horses". Comparative Immunology Microbiology and Infectious Diseases 37 3 (2014): 169-172.
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  61. Carrolo, Margarida; Pinto, Francisco Rodrigues; Melo-Cristino, Jose; Ramirez, Mario. "Pherotype Influences Biofilm Growth and Recombination in Streptococcus pneumoniae". Plos One 9 3 (2014):
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  65. Vaz, Catia; Francisco, Alexandre P.; Silva, Mickael; Jolley, Keith A.; Bray, James E.; Pouseele, Hannes; Rothganger, Joerg; Ramirez, Mario; Carrico, Joao A.. "TypOn: the microbial typing ontology". Journal of Biomedical Semantics (2014): https://publons.com/publon/1334377/.
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  81. Friães, A.; Pinto, F.R.; Silva-Costa, C.; Ramirez, M.; Melo-Cristino, J.. "Group A streptococci clones associated with invasive infections and pharyngitis in Portugal present differences in emm types, superantigen gene content and antimicrobial resistance". BMC Microbiology 12 (2012): http://www.scopus.com/inward/record.url?eid=2-s2.0-84872274958&partnerID=MN8TOARS.
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  85. Martins, E.R.; Andreu, A.; Correia, P.; Juncosa, T.; Bosch, J.; Ramirez, M.; Melo-Cristino, J.. "Group B streptococci causing neonatal infections in barcelona are a stable clonal population: 18-Year surveillance". Journal of Clinical Microbiology 49 8 (2011): 2911-2918. http://www.scopus.com/inward/record.url?eid=2-s2.0-79960949392&partnerID=MN8TOARS.
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  86. Severiano, A.; Carriço, J.A.; Robinson, D.A.; Ramirez, M.; Pinto, F.R.. "Evaluation of Jackknife and Bootstrap for defining confidence intervals for pairwise agreement measures". PLoS ONE 6 5 (2011): http://www.scopus.com/inward/record.url?eid=2-s2.0-79956190902&partnerID=MN8TOARS.
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  89. Melo-Cristino, José; Santos, Letícia; Silva-Costa, Catarina; Friães, Ana; Pinho, Marcos D.; Ramirez, Mário; Portuguese Surveillance Group for the Study of Respiratory Pathogens. "The Viriato Study". Pediatric Drugs 12 (2010): 11-17. http://dx.doi.org/10.2165/11538730-s0-000000000-00003.
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  90. Carrolo, M.; Frias, M.J.; Pinto, F.R.; Melo-Cristino, J.; Ramirez, M.. "Prophage spontaneous activation promotes DNA release enhancing biofilm formation in Streptococcus pneumoniae". PLoS ONE 5 12 (2010): http://www.scopus.com/inward/record.url?eid=2-s2.0-78650883397&partnerID=MN8TOARS.
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  93. Aguiar, S.I.; Pinto, F.R.; Nunes, S.; Serrano, I.; Melo-Cristino, J.; Sá-Leão, R.; Ramirez, M.; De Lencastre, H.. "Denmark14-230 clone as an increasing cause of pneumococcal infection in Portugal within a background of diverse serotype 19A lineages". Journal of Clinical Microbiology 48 1 (2010): 101-108. http://www.scopus.com/inward/record.url?eid=2-s2.0-73949151881&partnerID=MN8TOARS.
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  94. Ramirez, M.; Melo-Cristino, J.. "Expanding the diagnosis of pediatric bacteremic pneumococcal pneumonia from blood cultures to molecular methods: Advantages and caveats". Clinical Infectious Diseases 51 9 (2010): 1050-1052. http://www.scopus.com/inward/record.url?eid=2-s2.0-77958570254&partnerID=MN8TOARS.
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  95. McMillan, D.J.; Bessen, D.E.; Pinho, M.; Ford, C.; Hall, G.S.; Melo-Cristino, J.; Ramirez, M.. "Population genetics of Streptococcus dysgalactiae subspecies equisimilisreveals widely dispersed clones and extensive recombination". PLoS ONE 5 7 (2010): http://www.scopus.com/inward/record.url?eid=2-s2.0-77955385273&partnerID=MN8TOARS.
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  96. Melo-Cristino, J.; Santos, L.; Silva-Costa, C.; Friães, A.; Pinho, M.D.; Ramirez, M.. "The Viriato study: Update on antimicrobial resistance of microbial pathogens responsible for community-acquired respiratory tract infections in Portugal". Pediatric Drugs 12 SUPPL. 1 (2010): 11-17. http://www.scopus.com/inward/record.url?eid=2-s2.0-77954184517&partnerID=MN8TOARS.
  97. Aguiar, S.I.; Brito, M.J.; Gonçalo-Marques, J.; Melo-Cristino, J.; Ramirez, M.. "Serotypes 1, 7F and 19A became the leading causes of pediatric invasive pneumococcal infections in Portugal after 7 years of heptavalent conjugate vaccine use". Vaccine 28 32 (2010): 5167-5173. http://www.scopus.com/inward/record.url?eid=2-s2.0-77954953848&partnerID=MN8TOARS.
    10.1016/j.vaccine.2010.06.008
  98. Frias, M.J.; Melo-Cristino, J.; Ramirez, M.. "The autolysin LytA contributes to efficient bacteriophage progeny release in Streptococcus pneumoniae". Journal of Bacteriology 191 17 (2009): 5428-5440. http://www.scopus.com/inward/record.url?eid=2-s2.0-68949098479&partnerID=MN8TOARS.
    10.1128/JB.00477-09
  99. Francisco, A.P.; Bugalho, M.; Ramirez, M.; Carriço, J.A.. "Global optimal eBURST analysis of multilocus typing data using a graphic matroid approach". BMC Bioinformatics 10 (2009): http://www.scopus.com/inward/record.url?eid=2-s2.0-67650093575&partnerID=MN8TOARS.
    10.1186/1471-2105-10-152
  100. Carrolo, M.; Pinto, F.R.; Melo-Cristino, J.; Ramirez, M.. "Pherotypes are driving genetic differentiation within Streptococcus pneumoniae". BMC Microbiology 9 (2009): http://www.scopus.com/inward/record.url?eid=2-s2.0-70349656631&partnerID=MN8TOARS.
    10.1186/1471-2180-9-191
  101. Trigo, G.; Ferreira, P.; Ribeiro, N.; Dinis, M.; Andrade, E.B.; Melo-Cristino, J.; Ramirez, M.; Tavares, D.. "Identification of immunoreactive extracellular proteins of Streptococcus agalactiae in bovine mastitis". Canadian Journal of Microbiology 54 11 (2008): 899-905. http://www.scopus.com/inward/record.url?eid=2-s2.0-55849110023&partnerID=MN8TOARS.
    10.1139/W08-083
  102. Aguiar, S.I.; Serrano, I.; Pinto, F.R.; Melo-Cristino, J.; Ramirez, M.. "Changes in Streptococcus pneumoniae serotypes causing invasive disease with non-universal vaccination coverage of the seven-valent conjugate vaccine". Clinical Microbiology and Infection 14 9 (2008): 835-843. http://www.scopus.com/inward/record.url?eid=2-s2.0-50149095416&partnerID=MN8TOARS.
    10.1111/j.1469-0691.2008.02031.x
  103. Pinto, F.R.; Aguiar, S.I.; Melo-Cristino, J.; Ramirez, M.. "Optimal control and analysis of two-color genomotyping experiments using bacterial multistrain arrays". BMC Genomics 9 (2008): http://www.scopus.com/inward/record.url?eid=2-s2.0-44649164484&partnerID=MN8TOARS.
    10.1186/1471-2164-9-230
  104. Aguiar, S.I.; Serrano, I.; Pinto, F.R.; Melo-Cristino, J.; Ramirez, M.. "The presence of the pilus locus is a clonal property among pneumococcal invasive isolates". BMC Microbiology 8 (2008): http://www.scopus.com/inward/record.url?eid=2-s2.0-41149167131&partnerID=MN8TOARS.
    10.1186/1471-2180-8-41
  105. Silva-Costa, C.; Pinto, F.R.; Ramirez, M.; Melo-Cristino, J.. "Decrease in macrolide resistance and clonal instability among Streptococcus pyogenes in Portugal". Clinical Microbiology and Infection 14 12 (2008): 1152-1159. http://www.scopus.com/inward/record.url?eid=2-s2.0-57749088762&partnerID=MN8TOARS.
    10.1111/j.1469-0691.2008.02104.x
  106. Pinto, F.R.; Melo-Cristino, J.; Ramirez, M.. "A confidence interval for the wallace coefficient of concordance and its application to microbial typing methods". PLoS ONE 3 11 (2008): http://www.scopus.com/inward/record.url?eid=2-s2.0-58149200162&partnerID=MN8TOARS.
    10.1371/journal.pone.0003696
  107. Faria, N.A.; Carrico, J.A.; Oliveira, D.C.; Ramirez, M.; De Lencastre, H.. "Analysis of typing methods for epidemiological surveillance of both methicillin-resistant and methicillin-susceptible Staphylococcus aureus strains". Journal of Clinical Microbiology 46 1 (2008): 136-144. http://www.scopus.com/inward/record.url?eid=2-s2.0-38149098343&partnerID=MN8TOARS.
    10.1128/JCM.01684-07
  108. Friães, A.; Ramirez, M.; Melo-Cristino, J.; Fonseca, A.; Coutinho, A.; Alves, A.F.; Albuquerque, L.; et al. "Nonoutbreak surveillance of group A streptococci causing invasive disease in Portugal identified internationally disseminated clones among members of a genetically heterogeneous population". Journal of Clinical Microbiology 45 6 (2007): 2044-2047. http://www.scopus.com/inward/record.url?eid=2-s2.0-34250615891&partnerID=MN8TOARS.
    10.1128/JCM.00496-07
  109. Pinto, F.R.; Carriço, J.A.; Ramirez, M.; Almeida, J.S.. "Ranked adjusted rand: Integrating distance and partition information in a measure of clustering agreement". BMC Bioinformatics 8 (2007): http://www.scopus.com/inward/record.url?eid=2-s2.0-33847331585&partnerID=MN8TOARS.
    10.1186/1471-2105-8-44
  110. Martins, E.R.; Florindo, C.; Martins, F.; Aldir, I.; Borrego, M.J.; Brum, L.; Ramirez, M.; Melo-Cristino, J.. "Streptococcus agalactiae serotype Ib as an agent of meningitis in two adult nonpregnant women". Journal of Clinical Microbiology 45 11 (2007): 3850-3852. http://www.scopus.com/inward/record.url?eid=2-s2.0-36349008805&partnerID=MN8TOARS.
    10.1128/JCM.01358-07
  111. Martins, E.R.; Melo-Cristino, J.; Ramirez, M.. "Reevaluating the serotype II capsular locus of Streptococcus agalactiae". Journal of Clinical Microbiology 45 10 (2007): 3384-3386. http://www.scopus.com/inward/record.url?eid=2-s2.0-35348876697&partnerID=MN8TOARS.
    10.1128/JCM.01296-07
  112. Martins, E.R.; Pessanha, M.A.; Ramirez, M.; Melo-Cristino, J.; Lopes, P.; Calheiros, I.; Felício, L.; et al. "Analysis of group B streptococcal isolates from infants and pregnant women in Portugal revealing two lineages with enhanced invasiveness". Journal of Clinical Microbiology 45 10 (2007): 3224-3229. http://www.scopus.com/inward/record.url?eid=2-s2.0-35348859651&partnerID=MN8TOARS.
    10.1128/JCM.01182-07
  113. Melo-Cristino, J.; Santos, L.; Ramirez, M.; Lozano, S.; Fonseca, A.; Coutinho, A.; Alves, A.F.; et al. "The Viriato Study: Update of antimicrobial susceptibility data of bacterial pathogens from community-acquired respiratory tract infections in Portugal in 2003 and 2004 | Estudo Viriato: Actualização de dados de susceptibilidade aos antimicrobianos de bactérias responsáveis por infecções adquiridas na comunidade em Portugal em 2003 e 2004". Revista Portuguesa de Pneumologia 12 1 (2006): 9-10. http://www.scopus.com/inward/record.url?eid=2-s2.0-33645635124&partnerID=MN8TOARS.
  114. Serrano, I.; Melo-Cristino, J.; Ramirez, M.. "Heterogeneity of pneumococcal phase variants in invasive human infections". BMC Microbiology 6 (2006): http://www.scopus.com/inward/record.url?eid=2-s2.0-33748052378&partnerID=MN8TOARS.
    10.1186/1471-2180-6-67
  115. Carriço, J.A.; Silva-Costa, C.; Melo-Cristino, J.; Pinto, F.R.; De Lencastre, H.; Almeida, J.S.; Ramirez, M.. "Illustration of a common framework for relating multiple typing methods by application to macrolide-resistant Streptococcus pyogenes". Journal of Clinical Microbiology 44 7 (2006): 2524-2532. http://www.scopus.com/inward/record.url?eid=2-s2.0-33746255226&partnerID=MN8TOARS.
    10.1128/JCM.02536-05
  116. Silva-Costa, C.; Ramirez, M.; Melo-Cristino, J.. "Identification of macrolide-resistant clones of Streptoccus pyogenes in Portugal". Clinical Microbiology and Infection 12 6 (2006): 513-518. http://www.scopus.com/inward/record.url?eid=2-s2.0-33646675065&partnerID=MN8TOARS.
    10.1111/j.1469-0691.2006.01408.x
  117. Pinho, M.D.; Melo-Cristino, J.; Ramirez, M.. "Clonal relationships between invasive and noninvasive Lancefield group C and G Streptococci and emm-specific differences in invasiveness". Journal of Clinical Microbiology 44 3 (2006): 841-846. http://www.scopus.com/inward/record.url?eid=2-s2.0-33644889954&partnerID=MN8TOARS.
    10.1128/JCM.44.3.841-846.2006
  118. Aguiar, S.I.; Frias, M.J.; Santos, L.; Melo-Cristino, J.; Ramirez, M.; Lozano, S.; Fonseca, A.; et al. "Emergence of optochin resistance among Streptococcus pneumoniae in Portugal". Microbial Drug Resistance 12 4 (2006): 239-245. http://www.scopus.com/inward/record.url?eid=2-s2.0-33846251546&partnerID=MN8TOARS.
    10.1089/mdr.2006.12.239
  119. Figueiredo, T.A.; Aguiar, S.I.; Melo-Cristino, J.; Ramirez, M.. "DNA methylase activity as a marker for the presence of a family of phage-like elements conferring efflux-mediated macrolide resistance in streptococci". Antimicrobial Agents and Chemotherapy 50 11 (2006): 3689-3694. http://www.scopus.com/inward/record.url?eid=2-s2.0-33750587170&partnerID=MN8TOARS.
    10.1128/AAC.00782-06
  120. Silva-Costa, C.; Ramirez, M.; Melo-Cristino, J.. "Rapid inversion of the prevalences of macrolide resistance phenotypes paralleled by a diversification of T and emm types among Streptococcus pyogenes in Portugal". Antimicrobial Agents and Chemotherapy 49 5 (2005): 2109-2111. http://www.scopus.com/inward/record.url?eid=2-s2.0-18244394279&partnerID=MN8TOARS.
    10.1128/AAC.49.5.2109-2111.2005
  121. Serrano, I.; Melo-Cristino, J.; Carriço, J.A.; Ramirez, M.. "Characterization of the genetic lineages responsible for pneumococcal invasive disease in Portugal". Journal of Clinical Microbiology 43 4 (2005): 1706-1715. http://www.scopus.com/inward/record.url?eid=2-s2.0-16844377427&partnerID=MN8TOARS.
    10.1128/JCM.43.4.1706-1715.2005
  122. Figueira-Coelho, J.; Ramirez, M.; Salgado, M.J.; Melo-Cristino, J.. "Streptococcus agalactiae in a Large Portuguese Teaching Hospital: Antimicrobial Susceptibility, Serotype Distribution, and Clonal Analysis of Macrolide-Resistant Isolates". Microbial Drug Resistance 10 1 (2004): 31-36. http://www.scopus.com/inward/record.url?eid=2-s2.0-1942434649&partnerID=MN8TOARS.
    10.1089/107662904323047772
  123. Serrano, I.; Ramirez, M.; Melo-Cristino, J.. "Invasive Streptococcus pneumoniae from Portugal: Implications for vaccination and antimicrobial therapy". Clinical Microbiology and Infection 10 7 (2004): 652-656. http://www.scopus.com/inward/record.url?eid=2-s2.0-4043097641&partnerID=MN8TOARS.
    10.1111/j.1469-0691.2004.00869.x
  124. Brito, D.A.; Ramirez, M.; De Lencastre, H.. "Serotyping Streptococcus pneumoniae by multiplex PCR". Journal of Clinical Microbiology 41 6 (2003): 2378-2384. http://www.scopus.com/inward/record.url?eid=2-s2.0-0037505612&partnerID=MN8TOARS.
  125. Melo-Cristino, J.; Lopes, P.; Magalhães, C.; Sobral, L.; Vaz, T.; Girão, M.; Afonso, T.; et al. "Macrolide resistance in Streptococcus pneumoniae isolated from patients with community-acquired lower respiratory tract infections in Portugal: Results of a 3-year (1999-2001) multicenter surveillance study". Microbial Drug Resistance 9 1 (2003): 73-80. http://www.scopus.com/inward/record.url?eid=2-s2.0-0037357088&partnerID=MN8TOARS.
  126. Alou, L.; Ramirez, M.; García-Rey, C.; Prieto, J.; De Lencastre, H.. "Streptococcus pneumoniae isolates with reduced susceptibility to ciprofloxacin in Spain: Clonal diversity and appearance of ciprofloxacin-resistant epidemic clones". Antimicrobial Agents and Chemotherapy 45 10 (2001): 2955-2957. http://www.scopus.com/inward/record.url?eid=2-s2.0-0034806776&partnerID=MN8TOARS.
    10.1128/AAC.45.10.2955-2957.2001
  127. Ramirez, M.; Tomasz, A.. "Acquisition of new capsular genes among clinical isolates of antibiotic- resistant Streptococcus pneumoniae". Microbial Drug Resistance 5 4 (1999): 241-246. http://www.scopus.com/inward/record.url?eid=2-s2.0-0033387366&partnerID=MN8TOARS.
  128. Severina, E.; Ramirez, M.; Tomasz, A.. "Prophage carriage as a molecular epidemiological marker in Streptococcus pneumoniae". Journal of Clinical Microbiology 37 10 (1999): 3308-3315. http://www.scopus.com/inward/record.url?eid=2-s2.0-0032849749&partnerID=MN8TOARS.
  129. Ramirez, M.; Severina, E.; Tomasz, A.. "A high incidence of prophage carriage among natural isolates of Streptococcus pneumoniae". Journal of Bacteriology 181 12 (1999): 3618-3625. http://www.scopus.com/inward/record.url?eid=2-s2.0-0033055030&partnerID=MN8TOARS.
  130. Marchese, A.; Ramirez, M.; Schito, G.C.; Tomasz, A.. "Molecular epidemiology of penicillin-resistant Streptococcus pneumoniae isolates recovered in Italy from 1993 to 1996". Journal of Clinical Microbiology 36 10 (1998): 2944-2949. http://www.scopus.com/inward/record.url?eid=2-s2.0-0031682158&partnerID=MN8TOARS.
  131. Nesin, M.; Ramirez, M.; Tomasz, A.. "Capsular transformation of a multidrug-resistant Streptococcus pneumoniae in vivo". Journal of Infectious Diseases 177 3 (1998): 707-713. http://www.scopus.com/inward/record.url?eid=2-s2.0-0031887641&partnerID=MN8TOARS.
  132. Ramirez, M.; Tomasz, A.. "Molecular characterization of the complete 23F capsular polysaccharide locus of Streptococcus pneumoniae". Journal of Bacteriology 180 19 (1998): 5273-5278. http://www.scopus.com/inward/record.url?eid=2-s2.0-0031683056&partnerID=MN8TOARS.
  133. Ramirez, M.; Morrison, D.A.; Tomasz, A.. "Ubiquitous distribution of the competence related genes comA and comC among isolates of Streptococcus pneumoniae". Microbial Drug Resistance 3 1 (1997): 39-52. http://www.scopus.com/inward/record.url?eid=2-s2.0-0030987056&partnerID=MN8TOARS.
  134. Sanches, I.S.; Ramirez, M.; Troni, H.; Abecassis, M.; Padua, M.; Tomasz, A.; De Lencastre, H.. "Evidence for the geographic spread of a methicillin-resistant Staphylococcus aureus clone between Portugal and Spain". Journal of Clinical Microbiology 33 5 (1995): 1243-1246. http://www.scopus.com/inward/record.url?eid=2-s2.0-0028958767&partnerID=MN8TOARS.
Capítulo de livro
  1. Silva-Costa, Catarina; Melo-Cristino, José; Ramirez, Mario. "Streptococcus pneumoniae". In Molecular Medical Microbiology, 1479-1490. Elsevier, 2024.
    10.1016/b978-0-12-818619-0.00095-2
Poster em conferência
  1. Friães, Ana; Gouveia, Catarina; Bajanca-Lavado, Maria Paula; Mamede, Rafael; Melo-Cristino, José; Ramirez, Mário. "Paediatric invasive group A streptococcal infections in Portugal: post-pandemic expansion of the M1UK sub-lineage circulating since 2014/15". Trabalho apresentado em ECCMID, 2024.
  2. Friães, Ana; Santos, B; Mamede, Rafael; Marrão, G; Melo-Cristino, José; Ramirez, Mário. "Increasing macrolide resistance among pharyngeal Streptococcus pyogenes in a Portuguese hospital due to emm2-ST55 lineage carrying mef(A)-msr(D)". Trabalho apresentado em ECCMID, 2024.
  3. Gomes-Silva, Joana; Silva-Costa, C.; Pinho, Marcos Daniel; Friães, Ana; Ramirez, Mário; Melo Cristino, Jose; Portuguese Group for the Study of Streptococcal Infections; Portuguese Study Group of Invasive Pneumococcal Disease of the Paediatric Infectious Disease Society. "Pediatric invasive pneumococcal disease: the importance of molecular methods in the diagnosis and serotyping of Streptococcus pneumoniae in culture negative samples". Trabalho apresentado em 16th International Conference on Molecular Epidemiology and Evolutionary Genetics of Infectious Diseases, 2023.
  4. Boto, C.; Carneiro, S.; Carvalho, A.; Lemos, A.; Machado, P.; Pinto, M.; Friães, Ana; et al. "Comparação entre pneumonia por Streptococcus pneumoniae versus Streptococcus pyogenes". Trabalho apresentado em 23º Congresso Nacional de Pediatria, 2023.
  5. Couto, C.; Lemos, A.; Stella, L.; Sobral, C.; Pinto, M.; Melo Cristino, Jose; Friães, Ana; Ramirez, Mário; Gouveia, C.. "Infeção profunda dos tecidos moles por Streptococcus do grupo A, sem fasceíte - a propósito de uma série de casos". Trabalho apresentado em 23º Congresso Nacional de Pediatria, 2023.
  6. Silva-Costa, C.; Gomes-Silva, Joana; Ramirez, Mário; Melo Cristino, Jose; Portuguese Group for the Study of Streptococcal Infections. "Invasive pneumococcal disease in adults in Portugal: small decrease in PCV13 serotypes (2019-2022)". Trabalho apresentado em 16th European Meeting on the Molecular Biology of the Pneumococcus (EuroPneumo), 2023.
  7. Gouveia, C.; Carvalho, A.; Rodrigues, F.; Varandas, L.; Ramirez, Mário; Melo Cristino, Jose; Friães, Ana; Portuguese Group for the Study of Streptococcal Infections; Portuguese Study Group of Pediatric Invasive Streptococcal Disease. "Pediatric invasive infections caused by Streptococcus pyogenes in Portugal (2014-2022)". Trabalho apresentado em 41st Annual Meeting of the European Society for Paediatric Infectious Diseases (ESPID), 2023.
  8. Gomes-Silva, Joana; Silva-Costa, C.; Pinho, Marcos Daniel; Friães, Ana; Ramirez, Mário; Melo Cristino, Jose; Portuguese Group for the Study of Streptococcal Infections; Portuguese Study Group of Invasive Pneumococcal Disease of the Pediatric Infectious Disease Society. "Sustained importance of Streptococcus pneumoniae among pediatric complicated pneumonia in Portugal (2019-22)". Trabalho apresentado em 41st Annual Meeting of the European Society for Paediatric Infectious Diseases (ESPID), 2023.
  9. Almada-Correia, I; Castro, Miguel; Motta, Carla; Catarina Sousa Guerreiro; Khmelinskii, Nikita; Filipa Oliveira Ramos; Catarina Inês Marques de Sousa Mendes; et al. "Unraveling the mysteries of the connection between gut and the chronic activation of the immune system in Systemic Lupus Erythematosus (POS1426).". Trabalho apresentado em European Congress of Rheumatology (EULAR 2023), 2023.
  10. Gomes-Silva, Joana; Silva-Costa, C.; Pinho, Marcos Daniel; Friães, Ana; Ramirez, Mário; Melo Cristino, Jose; Portuguese Group for the Study of Streptococcal Infections; The Portuguese Study Group Of Invasive Pneumococcal Disease Of The Paediatric Infectious Diseases Society.. "Etiologic diagnosis from pleural effusion and empyema in pediatrics: is it worth looking beyond Streptococcus pneumoniae in the post-pneumococcal vaccine era?". Trabalho apresentado em 33rd European Congress of Clinical Microbiology and Infectious Diseases (ECCMID), 2023.
  11. Silva-Costa, C.; Gomes-Silva, Joana; Subtil-Limpo, F; Ramirez, Mário; Melo Cristino, Jose; Portuguese Group for the Study of Streptococcal Infections; The Portuguese Study Group Of Invasive Pneumococcal Disease Of The Paediatric Infectious Diseases Society.. "Vaccine serotypes and the post-pandemic rebound of pediatric invasive disease in Portugal (2018-2022)". Trabalho apresentado em 33rd European Congress of Clinical Microbiology and Infectious Diseases (ECCMID), 2023.
  12. Silva-Costa, C.; Gomes-Silva, Joana; Ramirez, Mário; Melo Cristino, Jose; The Portuguese Group For The Study Of Streptococcal Infections. "Small decrease of PCV13 serotypes in invasive pneumococcal disease in adults in Portugal 7 years after PCV13 universal use in children". Trabalho apresentado em 33rd European Congress of Clinical Microbiology and Infectious Diseases (ECCMID), 2023.
  13. Mamede, Rafael; Friães, Ana; Ferreira, Mariana; Melo Cristino, Jose; Ramirez, Mário. "Enabling high resolution typing of Streptococcus pyogenes with a novel whole-genome multilocus sequence typing schema". Trabalho apresentado em 13th International Meeting on Microbial Epidemiological Markers (IMMEM XIII), 2022.
  14. Mamede, Rafael; Vila-Cerqueira, Pedro; Ramirez, Mário. "Optimizing the gene-by-gene approach for bacterial typing with chewBBACA 3". Trabalho apresentado em 13th International Meeting on Microbial Epidemiological Markers (IMMEM XIII), 2022.
  15. de Almeida, Inês; Forofontov, Mykyta; Mamede, Rafael; Ramirez, Mário. "Schema Refinery: a tool to assist in the creation of cg/wgMLST schemas with chewBBACA". Trabalho apresentado em 13th International Meeting on Microbial Epidemiological Markers (IMMEM XIII), 2022.
  16. Forofontov, Mykyta; de Almeida, Inês; Mamede, Rafael; Martins, Elisabete; Ramirez, Mário. "Creation of a schema for gene-by-gene typing of Streptococcus agalactiae". Trabalho apresentado em 13th International Meeting on Microbial Epidemiological Markers (IMMEM XIII), 2022.
  17. Almada-Correia, I; Castro, Miguel; Motta, Carla; Catarina Sousa Guerreiro; Khmelinskii, Nikita; Filipa Oliveira Ramos; Catarina Inês Marques de Sousa Mendes; et al. "Exploring the link between diet, gut microbiota, gut permeability, and disease activity in Systemic Lupus Erythematosus (Poster 290)". Trabalho apresentado em 28th Paediatric Rheumatology European Society Congress, 2022.
  18. Silva-Costa, C.; Gomes-Silva, Joana; Santos, Andreia; Ramirez, Mário; Melo-Cristino, José; Portuguese Group for the Study of Streptococcal Infections. "Persistence of PCV13 serotypes in non-invasive pneumococcal pneumonia in adults in Portugal after vaccine introduction in the national immunization plan for children". Trabalho apresentado em 12th International Symposium on Pneumococci&Pneumococcal Diseases (ISPPD-12), 2022.
  19. Silva-Costa, C.; Gomes-Silva, Joana; Subtil-Limpo, F; Ramirez, Mário; Melo Cristino, Jose; Portuguese Group for the Study of Streptococcal Infections; Portuguese Study Group of Invasive Pneumococcal Disease of the Paediatric Infectious Disease Society. "Pneumococcal pediatric invasive disease in Portugal: importance of serotype 3 and increase in non-vaccine types six-years after near universal vaccination with PCV13". Trabalho apresentado em 12th International Symposium on Pneumococci&Pneumococcal Diseases (ISPPD-12), 2022.
  20. Silva-Costa, C.; Gomes-Silva, Joana; Pinho, Marcos Daniel; Friães, Ana; Ramirez, Mário; Melo Cristino, Jose; Portuguese Group for the Study of Streptococcal Infections; Portuguese Study Group of Invasive Pneumococcal Disease of the Paediatric Infectious Disease Society. "Complicated pediatric pneumococcal pneumonia in the context of near universal vaccination in Portugal". Trabalho apresentado em 12th International Symposium on Pneumococci&Pneumococcal Diseases (ISPPD-12), 2022.
  21. Friães, Ana; Mamede, Rafael; Melo Cristino, Jose; Ramirez, Mário. "High resolution typing of Streptococcus pyogenes using a novel whole genome multilocus sequence typing (wgMLST) schema". Trabalho apresentado em 21st Lancefield International Symposium for Streptococci and Streptococcal Diseases (LISSSD), 2022.
  22. Silva-Costa, C.; Gomes-Silva, Joana; Subtil-Limpo, F; Ramirez, Mário; Melo-Cristino, José; Portuguese Group for the Study of Streptococcal Infections; Portuguese Study Group of Invasive Pneumococcal Disease of the Paediatric Infectious Disease Society. "Decreases in pediatric invasive disease (pIPD) in Portugal (2018-2021) and the growing importance of non-vaccine serotypes and of serotype 3 complicated pneumonia in pIPD". Trabalho apresentado em 15th European Meeting on the Molecular Biology of the Pneumococcus - Europneumo, 2022.
  23. Gomes-Silva, Joana; Silva-Costa, C.; Pinho, Marcos Daniel; Friães, Ana; Ramirez, Mário; Melo-Cristino, José. "Looking beyond Streptococcus pneumoniae in culture-negative complicated pneumonia in children in Portugal (2009-19)". Trabalho apresentado em 32nd European Congress of Clinical Microbiology and Infectious Diseases (ECCMID), 2022.
  24. Castro AC; Jose Melo Cristino; Ramirez, Mário; Pinho, Marcos Daniel. "Genomic characterization of Streptococcus dysgalactiae subspecies equisimilis isolates causing invasive infections (Poster 03794)". 2022.
  25. Gomes-Silva, Joana; Silva-Costa, C.; Pinho MD; Friães, Ana; Ramirez, Mário; Melo Cristino, Jose; Portuguese Group for the Study of Streptococcal Infections; Portuguese Study Group of Invasive Pneumococcal Disease of the Pediatric Infectious Disease Society. Autor correspondente: Ramirez, Mário. "Looking beyond Streptococcus pneumoniae in culture-negative complicated pneumonia in children in Portugal (2010-19)". Trabalho apresentado em 32nd European Congress of Clinical Microbiology and Infectious Diseases (ECCMID), 2022.
  26. Silva-Costa, C.; Gomes-Silva, Joana; Santos, A; Pinho, Marcos Daniel; Friães, Ana; Ramirez, Mário; Melo-Cristino, José; Portuguese Group for the Study of Streptococcal Infections. "Non-invasive pneumococcal pneumonia in Portugal (2016-2018): the importance of conjugate vaccine serotypes". Trabalho apresentado em 32nd European Congress of Clinical Microbiology and Infectious Diseases (ECCMID), 2022.
  27. Faria, Nuno A.; Tiago Touret; Alexandra S. Simões; Margarida Pinto; José Melo-Cristino; Ramirez, Mário; João André Carriço; et al. "Multiple events of colistin resistance emergence in epidemic carbapenem resistant Klebsiella pneumoniae (CR-KP) clonal types circulating in Portugal". Trabalho apresentado em 32nd European Congress of Clinical Microbiology and Infectious Diseases, 2022.
  28. Silva-Costa, C.; Gomes-Silva, Joana; Pinho, Marcos Daniel; Friães, Ana; Ramirez, Mário; Melo-Cristino, José. "Continued dominance of serotype 3 in pediatric complicated pneumococcal pneumonia in Portugal, five years after PCV13 introduction into routine infant immunization". Trabalho apresentado em 32nd European Congress of Clinical Microbiology and Infectious Diseases (ECCMID), 2022.
  29. Mamede, Rafael; Vila-Cerqueira, Pedro; Ramirez, Mário. "Accelerating the gene-by-gene approach for bacterial genomics with chewBBACA 3.0". Trabalho apresentado em 13th International Meeting on Microbial Epidemiological Markers (IMMEM XIII), 2022.
  30. Mamede, Rafael; Vila-Cerqueira, Pedro; Ramirez, Mário. "Fast, faster, fastest: improving an allele calling algorithm for whole-genome multilocus sequence typing (wgMLST)". Trabalho apresentado em ECCMID 2021, 2021.
  31. Riche, C.V.W.; Mamede, Rafael; Falci, D.R.; Carriço, João André; Ramirez, Mário; Dias, C.A.G.. "MRSA invasive infections: epidemiology and risk-factors for mortality in bacteraemic patients in Porto Alegre, Brazil". Trabalho apresentado em ECCMID 2021, 2021.
  32. Vila-Cerqueira, Pedro; Mamede, Rafael; Friães, Ana; Ramirez, Mário. "Defining publicly available whole-genome multilocus sequence typing schemas - the example of Streptococcus pyogenes". Trabalho apresentado em ECCMID 2021, 2021.
  33. Mamede, Rafael; Vila-Cerqueira, Pedro; Friães, Ana; Ramirez, Mário. "Towards a framework for the definition of publicly available whole-genome multilocus sequence typing schemas - the example of Streptococcus pyogenes". Trabalho apresentado em GenomePT Symposium, 2021.
  34. Mamede, Rafael; Vila-Cerqueira, Pedro; Ramirez, Mário. "The need for speed: improving an allele calling algorithm for whole-genome multilocus sequence typing (wgMLST)". Trabalho apresentado em Applied Bioinformatics & Public Health Microbiology 2021, 2021.
  35. Vila-Cerqueira, Pedro; Mamede, Rafael; Friães, Ana; Ramirez, Mário. "Tracking strains is simpler if you use common schemas from public repositories". Trabalho apresentado em Applied Bioinformatics & Public Health Microbiology 2021, 2021.
  36. Mamede, Rafael; Vila-Cerqueira, Pedro; Silva, Mickael; Carriço, João André; Ramirez, Mário. "Enabling easy sharing of gene-by-gene typing schemas and results based on a common allelic nomenclature". Trabalho apresentado em iMM Computational Biology and Bioinformatics Day, 2020.
  37. Gouveia, C.; Varandas, L.; Ramirez, Mário; Melo Cristino, Jose; Friães, Ana. "Pediatric invasive infections caused by Streptococcus pyogenes in Portugal (2014-2018)". Trabalho apresentado em 38th Annual Meeting of the European Society for Paediatric Infectious Diseases (ESPID), 2020.
  38. Mamede, Rafael; Melo-Cristino, José; Ramirez, Mário; Martins, Elisabete. "Genomic characterization of emerging penicillin non-susceptibility among group B streptococci". Trabalho apresentado em Bioinformatics Open Days, 2020.
  39. Vila-Cerqueira, Pedro; Mamede, Rafael; Silva, Mickael; Carriço, João André; Ramirez, Mário. "Chewie-NS: Enabling the use of gene-by-gene typing methods through a public and centralized service". Trabalho apresentado em Trabalho apresentado em Bioinformatics Open Days 2020, 2020.
  40. Silva-Costa, C.; Gomes-Silva J; Prados L; Ramirez, Mário; Melo-Cristino, José. "Continued dominance of serotype 3 and increase in serotype 8 as causes of pediatric invasive pneumococcal disease in Portugal four years after PCV13 inclusion in the national immunization plan". Trabalho apresentado em 38th Annual Meeting of the European Society for Paediatric Infectious Diseases, 26-29 October., 2019.
  41. Silva-Costa, C.; Gomes-Silva J; Ramirez, Mário; Melo-Cristino, José. "Serotypes 19F, 11A and 23B dominate in pediatric non-invasive pneumococcal pneumonia in Portugal (2015-2018)". Trabalho apresentado em 38th Annual Meeting of the European Society for Paediatric Infectious Diseases, 2019.
  42. Silva-Costa, C.; Pinho, Marcos Daniel; Friães, Ana; Gomes-Silva J; Ramirez, Mário; Melo-Cristino, José. "Despite introduction of PCV13 into routine infant immunization serotype 3 continues to cause pediatric complicated pneumococcal pneumonia among vaccinees". Trabalho apresentado em 38th Annual Meeting of the European Society for Paediatric Infectious Diseases, 2019.
  43. Silva-Costa, C.; Pinho, Marcos Daniel; Friães, Ana; Gomes-Silva J; Guerreiro, Soraia I.; Brito, Maria J.; Ramirez, Mário; Melo-Cristino, José. "Molecular diagnostics reveals persistence of serotype 3 as the main cause of pediatric complicated pneumonia in Portugal despite extensive PCV13 use". Trabalho apresentado em 12th International Meeting on Microbial Epidemiological Markers (IMMEM XII), 2019.
  44. Gomes-Silva J; Silva-Costa, C.; Ramirez, Mário; Melo-Cristino, José. "Characterization of the genetic lineages responsible for pediatric invasive pneumococcal disease in Portugal (1999-2015)". Trabalho apresentado em 12th International Meeting on Microbial Epidemiological Markers (IMMEM XII), 2019.
  45. Silva-Costa, C.; Pinho, Marcos; Friães, Ana; Gomes-Silva, Joana; Guerreiro, Soraia; Brito, Maria; Ramirez, Mário; Melo-Cristino, José. "Molecular diagnostics reveals persistence of serotype 3 as the main cause of pediatric complicated pneumonia in Portugal despite extensive PCV13 use (P263)". Trabalho apresentado em 12th International Meeting on Microbial Epidemiological Markers (IMMEM XII), 2019.
  46. Silva-Costa, C.; Pinho, Marcos Daniel; Friães, Ana; Gomes-Silva J; Guerreiro, Soraia I.; Brito, Maria J.; Ramirez, Mário; Melo-Cristino, José. "Three years after PCV13 introduction in the National Immunization Plan serotype 3 is still the main cause of complicated pneumonia in Portugal". Trabalho apresentado em 14th European Meeting on the Molecular Biology of the Pneumococcus, 2019.
  47. Silva-Costa, C.; Pinho, Marcos D.; Friães, Ana; Gomes-Silva, Joana; Guerreiro, Soraia; Brito, Maria João; Ramirez, Mário; et al. "Three years after PCV13 introduction in the National Immunization Plan serotype 3 is still the main cause of complicated pneumonia in Portugal (P46)". Trabalho apresentado em 14th European Meeting on the Molecular Biology of the Pneumococcus, 2019.
  48. Pinho, Marcos Daniel; Castro AC; Jose Melo Cristino; Ramirez, Mário. "Diversity of emm types among Streptococcus dysgalactiae subspecies equisimilis isolates recovered from invasive and non-invasive human infections in Portugal (P2695)". 2019.
  49. Friães, Ana; Marrão, Gina; Ramirez, Mário; Melo-Cristino, José. "Low macrolide resistance and minimal clonal diversity among Streptococcus pyogenes causing pharyngitis in Portugal (P2837)". Trabalho apresentado em 29th European Congress of Clinical Microbiology and Infectious Diseases (ECCMID), 2019.
  50. Silva-Costa, C.; Lopes JP; Ramirez, Mário; Melo-Cristino, José. "Non-invasive pneumococcal pneumonia in adults in Portugal: continued decline of PCV13 serotypes (2015-2017)". Trabalho apresentado em IDWeek 2018, 2018.
  51. Silva-Costa, C.; Lopes JP; Ramirez, Mário; Melo-Cristino, José. "Serotypes 8 and 3 are the leading cause of invasive pneumococcal disease in adults in Portugal (2015-2017)". Trabalho apresentado em IDWeek 2018, 2018.
  52. Silva-Costa, C.; Horácio, Andreia N.; Aguiar, Sandra I; Lopes JP; Brito, Maria J.; Ramirez, Mário; Melo-Cristino, José. "Persistence of PCV7 and PCV13 serotypes in pediatric invasive pneumococcal disease in Portugal after more than a decade of vaccine use". Trabalho apresentado em 11th International Symposium on Pneumococci and Pneumococcal Diseases (ISPPD-11), 2018.
  53. Silva-Costa, C.; Brito, Maria J.; Pinho, Marcos Daniel; Friães, Ana; Aguiar, Sandra I; Ramirez, Mário; Melo-Cristino, José. "Serotype 3 is the leading cause of complicated pediatric pneumococcal pneumonia in Portugal even among PCV13 vaccinated children (2010-2015)". Trabalho apresentado em 11th International Symposium on Pneumococci and Pneumococcal Diseases (ISPPD-11), 2018.
  54. Horácio, Andreia N.; Silva-Costa, C.; Lopes JP; Ramirez, Mário; Melo-Cristino, José. "Emerging non-vaccine serotypes but also conjugate vaccine serotypes remain the major causes of non-invasive pneumococcal pneumonia in adults in Portugal (2012-2015)". Trabalho apresentado em 11th International Symposium on Pneumococci and Pneumococcal Diseases (ISPPD-11), 2018.
  55. Pinho, Marcos Daniel; Jose Melo Cristino; Ramirez, Mário. "Genotypic relationships of Streptococcus dysgalactiae subsp. equisimilis isolates from humans and animals (P-170)". Trabalho apresentado em MicroBioTec'17, 2017.
  56. Silva-Costa, C.; Horácio, Andreia N.; Aguiar, Sandra I; Lopes JP; Brito, Maria J.; Ramirez, Mário; Melo-Cristino, José. "Pediatric invasive pneumococcal disease in Portugal: changing epidemiology (2012-2016)". Trabalho apresentado em MicroBioTec'17, 2017.
  57. Silva-Costa, C.; Horácio, Andreia N.; Aguiar, Sandra I; Lopes JP; Brito Maria J; Ramirez, Mário; Melo-Cristino, José. "PCV13 serotypes are still important causes of pediatric invasive pneumococcal disease in Portugal after more than a decade of conjugate vaccine". Trabalho apresentado em International Congress of Chemotherapy and Infection (ICC 2017), 2017.
  58. Horácio, Andreia N.; Silva-Costa, C.; Lopes JP; Ramirez, Mário; Melo-Cristino, José. "Importance of vaccine serotypes and emergence of non-vaccine serotypes causing non-invasive pneumococcal pneumonia in adults in Portugal". Trabalho apresentado em International Congress of Chemotherapy and Infection (ICC 2017), 2017.
  59. Horácio, Andreia N.; Silva-Costa, C.; Lopes JP; Ramirez, Mário; Melo-Cristino, José. "Non-invasive pneumococcal pneumonia in adults in Portugal (2012-2015): resilience of vaccine serotypes and emergence of non-vaccine serotypes". Trabalho apresentado em IDWeek 2017, 2017.
  60. Silva-Costa, C.; Aguiar, Sandra I; Pinho, Marcos Daniel; Friães, Ana; Ramirez, Mário; Melo-Cristino, José. "Serotype distribution among Streptococcus pneumoniae isolates causing complicated pneumonia in children in Portugal (2010-2015)". Trabalho apresentado em 27th European Congress of Clinical Microbiology and Infectious Diseases, 2017.
  61. Friães, Ana; Lopes, Joana P.; Ramirez, Mário; Melo-Cristino, José. "Clonal stability among Group A Streptococci causing invasive infections in Portugal". Trabalho apresentado em 27th European Congress of Clinical Microbiology and Infectious Diseases, 2017.
  62. Mendes CI; Pinho, Marcos Daniel; Jose Melo Cristino; Ramirez, Mário; Carriço JA. "Pan-genome comparison between Streptococcus dysgalactiae subsp. equisimilis isolates from human and animal sources". Trabalho apresentado em Bioinformatics Open Days, 2017.
  63. Silva-Costa, C.; Aguiar, Sandra I; Pinho, Marcos Daniel; Friães, Ana; Ramirez, Mário; Melo-Cristino, José. "High prevalence of serotype 3 in pneumococcal isolates causing complicated pneumonia and empyema in Portugal (2010-2015)". Trabalho apresentado em International Meeting on Emerging Diseases and Surveillance (IMED 2016), 2016.
  64. Horácio, Andreia N.; Silva-Costa, C.; Lopes JP; Ramirez, Mário; Melo-Cristino, José. "Serotypes and Antimicrobial Resistance of Isolates Causing Invasive Pneumococcal Disease in Adult Patients in Portugal After the 13-Valent Conjugate Vaccine Received an Adult Indication - 2012-2014". Trabalho apresentado em IDWeek 2016, 2016.
  65. Silva-Costa, C.; Horácio, Andreia N.; Lopes JP; Ramirez, Mário; Melo-Cristino, José. "Isolates expressing PCV13 serotypes are still the leading cause of pediatric invasive pneumococcal disease in Portugal". Trabalho apresentado em 10th International Symposium on Pneumococci and Pneumococcal Diseases, 2016.
  66. Horácio, Andreia N.; Silva-Costa, C.; Diamantino-Miranda J; Lopes JP; Ramirez, Mário; Melo-Cristino, José. "CC156 persisted as the major cause of adult IPD in Portugal in the late post-PCV7 period despite being mostly composed of isolates expressing PCV7 serotypes". Trabalho apresentado em 10th International Symposium on Pneumococci and Pneumococcal Diseases, 2016.
  67. Horácio, Andreia N.; Silva-Costa, C.; Lopes JP; Ramirez, Mário; Melo-Cristino, José. "Serotype and antimicrobial resistance of isolates causing invasive pneumococcal disease in adults in Portugal (2012-2014)". Trabalho apresentado em 10th International Symposium on Pneumococci and Pneumococcal Diseases, 2016.
  68. Pato, Catarina; Friães, Ana; Lopes, Joana P.; Ramirez, Mário; Melo-Cristino, José. "Comparison of Streptococcus pyogenes isolates from invasive and skin and soft tissue infections reveal differences in the capacity to interact with host proteins". Trabalho apresentado em 26th European Congress of Clinical Microbiology and Infectious Diseases (ECCMID), 2016.
  69. Horácio, Andreia N.; Silva-Costa, C.; Diamantino-Miranda J; Lopes JP; Ramirez, Mário; Melo-Cristino, José. "The dominant clonal complex causing invasive disease in Portugal still expressed PCV7 serotypes in spite of a decade of vaccine use in children". Trabalho apresentado em Microbiotec'15, 2015.
  70. Silva-Costa, C.; Horácio, Andreia N.; Aguiar, Sandra I; Lopes JP; Brito, Maria J.; Ramirez, Mário; Melo-Cristino, José. "PCV13 serotypes are still major causes of invasive pneumococcal disease in Portugal despite 10 years of conjugate vaccine use in the private market". Trabalho apresentado em 9th World Congress of the World Society for Pediatric Infectious Diseases, 2015.
  71. Silva-Costa, C.; Aguiar, Sandra I; Pinho, Marcos Daniel; Friães, Ana; Brito, Maria J.; Ramirez, Mário; Melo-Cristino, José. "The advantage of various PCR-based techniques in the enhanced ethiological diagnosis of pediatric complicated pneumococcal pneumonia in Portugal". Trabalho apresentado em 9th World Congress of the World Society for Pediatric Infectious Diseases, 2015.
  72. Horácio, Andreia N.; Silva-Costa, C.; Lopes JP; Ramirez, Mário; Melo-Cristino, José. "PCV13 serotypes were the major constituents of the major clones causing adult IPD in Portugal in the conjugate vaccine era". Trabalho apresentado em 12th European Meeting on the Molecular Biology of the Pneumococcus (EuroPneumo), 2015.
  73. Aguiar, Sandra I; Silva-Costa, C.; Pinho, Marcos Daniel; Brito, Maria J.; Ramirez, Mário; Melo-Cristino, José. "Complicated pneumococcal pneumonia in Portugal: Enhanced ethiological diagnosis and serotype distribution". Trabalho apresentado em 33rd Annual Meeting of the European Society for Paediatric Infectious Diseases, 2015.
  74. Melo-Cristino, José; Friães, Ana; Resina, Cristina; MANUEL, V.; Lito, Luís; Ramirez, Mário. "Emergence of vancomycin resistant Staphylococcus aureus (VRSA) in Portugal". Trabalho apresentado em International Meeting on Emerging Diseases and Surveillance, 2014.
  75. Silva-Costa, C.; Aguiar, Sandra I; Pinho, Marcos Daniel; Ramirez, Mário; Melo-Cristino, José. "The role of conventional and real-time PCR in determining the pneumococcal etiology of complicated pneumonia cases". Trabalho apresentado em International Meeting on Emerging Diseases and Surveillance, 2014.
  76. Melo-Cristino, José; Friães, Ana; Resina, Cristina; MANUEL, V.; Lito, Luís; Ramirez, Mário. "Detection, evolution and outcome of the first case of Vancomycin Resistant Staphylococcus aureus (VRSA) infection in Europe". Trabalho apresentado em ID Week 2014, 2014.
  77. Arinto-Garcia, Raquel; Pinho, Marcos Daniel; Ramirez, Mário; Jose Melo Cristino. "Comparison between phenotypic and genotypic methods for the identification of the Streptococcus anginosus group (P0593)". 2014.
  78. Silva-Costa, C.; Ramirez, Mário; Melo-Cristino, José. "Streptococcus pyogenes in Portugal: decrease of macrolide resistance and clonal instability in spite of sustained macrolide consumption". Trabalho apresentado em 28th International Congress of Chemotherapy and Infection (ICC 2013), 2013.
  79. Pato Catarina; Silva-Costa, C.; Sancho L; Portugal C; Sardinha T; Ramirez, Mário; Melo-Cristino, José. "Decreasing macrolide resistance among pharyngeal group A streptococci recovered in a prospective survey in a Portugal hospital". Trabalho apresentado em 23rd European Congress of Clinical Microbiology and Infectious Diseases (ECCMID), 2013.
  80. Silva-Costa, C.; Ramirez, Mário; Melo-Cristino, José. "Macrolide resistance in Streptococcus pyogenes in Portugal (2007-2011). diminishing resistance and clonal instability in spite of high macrolide consumption". Trabalho apresentado em GAS Infections 2013, 2013.
  81. Silva-Costa, C.; Friães, Ana; Ramirez, Mário; Melo-Cristino, José. "Importance of clonal properties in addition to antibiotic consumption in determining the differences between macrolide resistant and susceptible Streptococcus pyogenes". Trabalho apresentado em International Meeting on Emerging Diseases and Surveillance, 2013.
  82. Silva-Costa, C.; Friães, Ana; Pinho, Marcos Daniel; Ramirez, Mário; Melo-Cristino, José. "Dinamics of susceptibility to tigecycline and to an extended panel of antimicrobials of Gram-positive and Gram-negative bacteria in Portugal (2005-2011)". Trabalho apresentado em 52th Interscience Conference of Antimicrobial Agents and Chemotherapy (ICAAC), 2012.
  83. Silva-Costa, C.; Ramirez, Mário; Melo-Cristino, José. "Continued decline of macrolide-resistant Streptococcus pyogenes in Portugal". Trabalho apresentado em 22nd European Congress of Clinical Microbiology and Infectious Diseases, 2012.
  84. Friães, Ana; Silva-Costa, C.; Pinto, Francisco; Ramirez, Mário; Melo-Cristino, Jose. "Identification of clones with enhanced invasive capacity among Group A Streptococci isolated in Portugal". Trabalho apresentado em XVIII Lancefield International Symposium, 2011.
  85. Pato, Catarina; Friães, Ana; Ramirez, Mário; Melo-Cristino, José. "Molecular characterization and antimicrobial resistance of Streptococcus pyogenes causing skin and soft tissue infections in Portugal". Trabalho apresentado em XVIII Lancefield International Symposium, 2011.
  86. Friães, Ana; Lopes, Joana P.; Ramirez, Mário; Melo-Cristino, José. "Molecular changes in Streptococcus pyogenes invasive isolates recovered during ten years in Portugal". Trabalho apresentado em XVIII Lancefield International Symposium, 2011.
  87. Preziuso S; Pinho, Marcos; Attili AR; Jose Melo Cristino; Ramirez, Mário; Cuteri V. "The streptokinase gene as a candidate target for differentiation between Streptococcus dysgalactiae subsp. equisimilis causing infections in humans and horses (P980)". 2011.
  88. Pinho, Marcos Daniel; Ramirez, Mário; Jose Melo Cristino. "Multilocus sequence typing characterisation of Streptococcus dysgalactiae subsp. equisimilis isolates from Portugal". Trabalho apresentado em 21st European Congress of Clinical Microbiology and Infectious Diseases (ECCMID) and 27th International Congress of Chemotherapy (ICC), 2011.
  89. Silva-Costa, C.; Friães, Ana; Pinho, Marcos Daniel; Ramirez, Mário; Melo-Cristino, José. "In vitro susceptibility to Tigecycline and to an extended panel of antimicrobials of Gram-positive and Gram-negative isolates in Portugal". Trabalho apresentado em 50th Interscience Conference on Antimicrobial Agents and Chemotherapy (ICAAC), 2010.
  90. Pinho, Marcos Daniel; Ramirez, Mário; Jose Melo Cristino. "Molecular characterization of levofloxacin resistance in Streptococcus dysgalactiae subsp. equisimilis isolates from Portugal (P1002)". Trabalho apresentado em 20th European Congress of Clinical Microbiology and Infectious Diseases (ECCMID), 2010.
  91. Silva-Costa, C.; Ramirez, Mário; Melo-Cristino, José. "Phenotypic and molecular characterization of Streptococcus pyogenes isolated scarlet fever patients". Trabalho apresentado em 20th European Congress of Clinical Microbiology and Infectious Diseases (ECCMID), 2010.
  92. Silva-Costa, C.; Friães, Ana; Pinho, Marcos Daniel; Ramirez, Mário; Melo Cristino, Jose. "In vitro susceptibility to tigecycline and to an extended panel of antimicrobials of Gram positive and Gram negative isolates in Portugal. P204". Trabalho apresentado em 19th European Congress of Clinical Microbiology and Infectious Diseases (ECCMID), 2009.
  93. Friães, Ana; Silva-Costa, C.; Vaz, Filipa; Fernandes, Paulo; Carriço, João André; Pires, Renato; Santos-Sanches, Ilda; Ramirez, Mário; Melo-Cristino, José. "Quantitative comparison of Streptococcus pyogenes typing methods". Trabalho apresentado em XVII Lancefield International Symposium on Streptococci and Streptococcal Diseases, 2008.
  94. Silva-Costa, C.; Friães, Ana; Pinto, Francisco; Vaz Filipa; Fernandes Paulo; Carriço, Joao A.; Melo-Cristino, José; Ramirez, Mário. "Re-evaluating the appropriateness of using emm typing to define group A streptococci clones". Trabalho apresentado em 8th International Meeting on Microbial Epidemiological Markers (IMMEM 8), 2008.
  95. Silva-Costa, C.; Pinto, Francisco; Ramirez, Mário; Melo-Cristino, José. "Decrease in macrolide resistance and clonal instability among Streptococcus pyogenes in spite of increased macrolide consumption". Trabalho apresentado em 18th European Congress of Clinical Microbiology and Infectious Diseases (ECCMID), 2008.
  96. Friães, Ana; Ramirez, Mário; Melo-Cristino, José. "Characterization of an emm12/T12 GAS clone associated with paediatric invasive disease in Portugal". Trabalho apresentado em 18th European Congress of Clinical Microbiology and Infectious Diseases (ECCMID), 2008.
  97. Silva-Costa, C.; Ramirez, Mário; Melo-Cristino, José. "Susceptibility to tigecycline and to an extended panel of antimicrobials of contemporary Gram-positive and Gram-negative Portuguese isolates.". Trabalho apresentado em 17th European Congress of Clinical Microbiology and Infectious Diseases” (ECCMID), 2007.
  98. Silva-Costa, C.; Ramirez, Mário; Melo-Cristino, José. "Identity of macrolide-resistant clones of Streptococcus pyogenes in Portugal supports Europe-wide dissemination of a few lineages". Trabalho apresentado em Strep-Euro Symposium – Global burden of Streptococcal disease, battle against it, 2006.
Resumo em conferência
  1. Silva-Costa, C.; Gomes-Silva, Joana; Pinho, Marcos Daniel; Friães, Ana; Ramirez, Mário; Melo Cristino, Jose; he Portuguese Group for the Study of Streptococcal Infections; Portuguese Study Group of Invasive Pneumococcal Disease of the Paediatric Infectious Disease Society. "Serotype 3 dominance in pediatric complicated pneumococcal pneumonia in Portugal during the COVID-19 pandemic (2020-2022)". Trabalho apresentado em 16th European Meeting on the Molecular Biology of the Pneumococcus (EuroPneumo), Rethymno, 2023.
  2. Almada-Correia, I; Castro, Miguel; Motta, Carla; Catarina Sousa Guerreiro; Khmelinskii, Nikita; Filipa Oliveira Ramos; Catarina Inês Marques de Sousa Mendes; et al. "DIET, GUT MICROBIOTA, AND INTESTINAL PERMEABILITY IN SYSTEMIC LUPUS ERYTHEMATOSUS (Oral CO-030)". Trabalho apresentado em 22º Congresso Nacional de Pediatria, Lisboa, 2022.
  3. Silva-Costa, C.; Gomes-Silva, Joana; Pinho, Marcos Daniel; Friães, Ana; Ramirez, Mário; Melo Cristino, Jose; Portuguese Group for the Study of Streptococcal Infections; Portuguese Study Group of Invasive Pneumococcal Disease of the Paediatric Infectious Disease Society. "Pneumococci and serotype 3 remain important causes of complicated pneumonias despite six-years of near universal coverage of PCV13". Trabalho apresentado em 15th European Meeting on the Molecular Biology of the Pneumococcus - Europneumo, Liverpool, 2022.
  4. Silva-Costa, C.; Gomes-Silva, Joana; Pinho, Marcos Daniel; Friães, Ana; Ramirez, Mário; Melo Cristino, Jose; Portuguese Group for the Study of Streptococcal Infections; Portuguese Study Group of Invasive Pneumococcal Disease of the Paediatric Infectious Disease Society. "Continued dominance of serotype 3 in paediatric complicated pneumococcal pneumonia in Portugal, five years after PCV13 introduction into routine infant immunisation". Trabalho apresentado em 32nd European Congress of Clinical Microbiology and Infectious Diseases (ECCMID), Lisbon, 2022.
  5. Inês Almada-Correia; Castro, Miguel; Catarina Sousa Guerreiro; Khmelinskii, Nikita; Catarina Inês Marques de Sousa Mendes; Ramirez, Mário; João Eurico Cortez Cabral da Fonseca; Patrícia Costa-Reis. "Oral communication: Vamos olhar para o intestino no lúpus eritematoso sistémico". Trabalho apresentado em XXVII Jornadas de Pediatria do Hospital de Santa Maria, Lisboa, 2022.
  6. Almada-Correia, Inês; Castro, Miguel; Catarina Sousa Guerreiro; Motta, Carla; Ramirez, Mário; João Eurico Cortez Cabral da Fonseca; Patrícia Costa-Reis. "Oral communication: Exploring the link between diet, microbiome, gut permeability, metabolomics and disease activity in Systemic Lupus Erythematosus". Trabalho apresentado em iMED Conference - Innovate Competition, 2021.
  7. Friães, Ana; Marrão, Gina; Melo Cristino, Jose; Ramirez, Mário. "Decreasing macrolide resistance among group A streptococci causing pharyngitis in Portugal". Trabalho apresentado em 38th Annual Meeting of the European Society for Paediatric Infectious Diseases (ESPID), 2020.
  8. Riche, C.V.W.; Mamede, Rafael; Pereira, R.I.; Carriço, J.A.; Dias, C.A.G.; Ramirez, Mário. "Decline of the Brazilian endemic clone and dominance of internationally disseminated lineages among MRSA from bacteraemic patients in Porto Alegre, Brazil". Trabalho apresentado em ECCMID, 2020.
    Aceite para publicação • 10.1190/sbgf2017-101
  9. Mamede, Rafael; Melo-Cristino, José; Ramirez, Mário; Martins, Elisabete. "Emergence of penicillin non-susceptible group B streptococci within the hypervirulent CC17 clone colonizing pregnant women in Portugal ¿ a genomic analysis". Trabalho apresentado em ECCMID, 2020.
    Aceite para publicação
  10. Gouveia, C.; Varandas, L.; Ramirez, Mário; Melo Cristino, Jose; Friães, Ana. "Clinical and bacterial characteristics of paediatric invasive infections caused by Streptococcus pyogenes". Trabalho apresentado em 30th European Congress of Clinical Microbiology and Infectious Diseases (ECCMID), 2020.
  11. Silva-Costa, C.; Gomes-Silva J; Teodoro I; Ramirez, Mário; Melo-Cristino, José. "The PCV13 serotypes still account for a large fraction of invasive pneumococcal disease in adults three-years after PCV13 introduction in the pediatric vaccination schedule (Portugal: 2015-2018)". Trabalho apresentado em 30th European Congress of Clinical Microbiology and Infectious Diseases (ECCMID), 2020.
    Publicado
  12. Silva-Costa, C.; Gomes-Silva J; Prados L; Ramirez, Mário; Melo-Cristino, José. "Pediatric invasive pneumococcal disease in Portugal: dominance of serotype 3 and increase in serotype 8 four years after PCV13 inclusion in the National Immunization Plan". Trabalho apresentado em 30th European Congress of Clinical Microbiology and Infectious Diseases (ECCMID), 2020.
    Publicado
  13. Silva-Costa, C.; Gomes-Silva J; Prados L; Ramirez, Mário; Melo-Cristino, José. "Persistence of serotype 19F and the importance of non-vaccine serotypes in pediatric non-invasive pneumococcal pneumonia in Portugal (2015-2018)". Trabalho apresentado em 30th European Congress of Clinical Microbiology and Infectious Diseases (ECCMID), 2020.
    Publicado
  14. Friães, Ana; Melo-Cristino, José; Ramirez, Mário. "Genetic variation within the transcriptional regulator genes covR/S and ropB among invasive and non-invasive Streptococcus pyogenes isolates". Trabalho apresentado em XIX Lancefield International Symposium on Streptococci and Streptococcal Diseases, Buenos Aires, 2014.
    Publicado
  15. Carriço, João André; Friães, Ana; Prior, K.; Harmsen, D.; Ramirez, Mário; Melo-Cristino, José. "Whole genome analysis of the first vancomycin-resistant Staphylococcus aureus (VRSA) isolated in Europe". Trabalho apresentado em 24th European Congress of Clinical Microbiology and Infectious Diseases (ECCMID), Barcelona, 2014.
    Publicado
  16. Pato, Catarina; Friães, Ana; Ramirez, Mário; Melo-Cristino, José. "Characteristics of Streptococcus pyogenes causing skin and soft tissue infections in Portugal". Trabalho apresentado em 22nd European Congress of Clinical Microbiology and Infectious Diseases (ECCMID), London, 2012.
    Publicado
  17. Pires, Renato; Friães, Ana; Silva-Costa, C.; Rolo, Dora; Brito-Avô, A.; Morais, A.; Gonçalo-Marques, J.; et al. "Relationship among macrolide resistant group A streptococci associated with oropharyngeal colonization and infection". Trabalho apresentado em XVII Lancefield International Symposium on Streptococci and Streptococcal Diseases, Porto Heli, 2008.
    Publicado

Outros

Outra produção
  1. Molecular Epidemiology of Streptococcus pneumoniae. 2015. Mário Ramirez; Joáo A. Carriço; Mark van der Linden; José Melo-Cristino. http://dx.doi.org/10.1016/b978-0-12-410530-0.00001-6.
    10.1016/b978-0-12-410530-0.00001-6
  2. Streptococcus pneumoniae. 2015. Mario Ramirez. http://dx.doi.org/10.1016/b978-0-12-397169-2.00086-x.
    10.1016/b978-0-12-397169-2.00086-x
  3. Analysis of Typing Results. 2014. João André Carriço; Mário Ramirez. http://dx.doi.org/10.1002/9781118278666.ch5.
    10.1002/9781118278666.ch5
Atividades

Orientação

Título / Tema
Papel desempenhado 		Curso (Tipo)
Instituição / Organização
2021/01/01 - Atual Inter-laboratory reproducibility and expansion of the gene-by-gene typing approach in an era of whole genome sequencing
Orientador
Universidade de Lisboa Faculdade de Medicina, Portugal
2014/03/01 - Atual New tools for visualization and analysis of draft genomes for microbial molecular epidemiology
Coorientador
 Ciências da Saúde (Doutoramento)
Universidade de Lisboa Faculdade de Medicina, Portugal
2018/01/01 - 2023/04/17 Towards accreditation in metagenomics for clinical microbiology
Coorientador
 Programa Doutoral do Centro Académico de Medicina de Lisboa (ramo de Medicina; ramo de Ciências Biomédicas; ramo de Ciências e Tecnologias da Saúde) (Doutoramento)
Universidade de Lisboa Faculdade de Medicina, Portugal
2020/09/01 - 2022/02/09 The Shewanella genus – understanding an emerging human pathogen
Coorientador
 Microbiologia Clínica e Doenças Infeciosas Emergentes (Mestrado)
Universidade de Lisboa Faculdade de Medicina, Portugal
2019/09 - 2020/10/13 Peptidoglycan hydrolases: Sub-cellular localization of pneumococcal LytA and LytB
Coorientador
 Microbiologia Clínica e Doenças Infeciosas Emergentes (Mestrado)
Universidade de Lisboa Faculdade de Medicina, Portugal
2012 - 2019 Understanding pherotype specificity and its influence on the genetic structure of Streptococcus pneumoniae
Orientador
 Ciências e Tecnologias da Saúde
Universidade de Lisboa Faculdade de Medicina, Portugal
2012 - 2018 Naturally ocurring mutations in regulatory proteins among Streptococcus pyogenes isolates from distinct human infections
Orientador
 Ciências e Tecnologias da Saúde (Doutoramento)
Universidade de Lisboa Faculdade de Medicina, Portugal
2014 - 2015 Streptococcus agalactiae in neonatal infections – a changing population?
Orientador
 Microbiologia
Universidade de Lisboa Faculdade de Medicina, Portugal
2013 - 2014 Streptococcus anginosus como agentes de infeção em humanos: um estudo epidemiológico numa taxonomia em mudança
Orientador
 Microbiologia Médica (Mestrado)
Universidade Nova de Lisboa, Portugal
2011 - 2014 Characterization of Streptococcus pyogenes associated with tonsillo-pharyngitis in Portugal with particular emphasis on macrolide resistance
Coorientador
 Ciências e Tecnologias da Saúde (Doutoramento)
Universidade de Lisboa Faculdade de Medicina, Portugal
2007 - 2014 Lancefield group C and G streptococci in human infection: Molecular typing, virulence and antimicrobial susceptibility
Orientador
 Ciências e Tecnologias da Saúde (Doutoramento)
Universidade de Lisboa Faculdade de Medicina, Portugal
2012 - 2013 Distribuição e diversidade de elementos genéticos associados à virulência em Streptococcus pneumoniae
Orientador
 Microbiologia Aplicada (Mestrado)
Universidade de Lisboa Faculdade de Ciências, Portugal
2011 - 2013 Exotoxin profile of Lancefield group C and G streptococci from animal and human infections
Orientador
 Ciências Biofarmacêuticas (Mestrado)
Universidade de Lisboa Faculdade de Farmácia, Portugal
2010 - 2013 Molecular Characterization of Streptococus Pyogenes isolates associated with invasive infections and pharyngitis in Portugal: Evaluation of typing methods and relatioship with invasive ability
Coorientador
 Ciências e Tecnologias da Saúde (Doutoramento)
Universidade de Lisboa Faculdade de Medicina, Portugal
2010 - 2011 Streptococcus pyogenes como agente de infecção da pele e tecidos moles
Orientador
 Microbiologia Aplicada (Mestrado)
Universidade de Lisboa Faculdade de Ciências, Portugal
2008 - 2011 Lysis strategy of streptococcus pneumoniae bacteriophages: mechanisms and host implications.
Orientador
 Ciências e Tecnologias da Saúde (Doutoramento)
Universidade de Lisboa Faculdade de Medicina, Portugal
2008 - 2011 New insights into the sociomicrobiology of Streptococcus pneumoniae: exploring biofilm formation
Orientador
 Ciências e Tecnologias da Saúde (Doutoramento)
Universidade de Lisboa Faculdade de Medicina, Portugal
2007 - 2011 Caracterização fenotípica e genotípica de Streptococcus pneumoniae responsável por infecção em crianças de idade pré-escolar
Orientador
 Ciências e Tecnologias da Saúde (Doutoramento)
Universidade de Lisboa Faculdade de Medicina, Portugal
2007 - 2011 Streptococcus agalactiae causing human infections: genetic diversity and capsular switching.
Orientador
 Ciências e Tecnologias da Saúde (Doutoramento)
Universidade de Lisboa Faculdade de Medicina, Portugal
2008 - 2009 Staphylococcus aureus adquirido na comunidade, em idade pediátrica: resistência aos antimicrobianos, importância da leucocidina de Panton-Valentine, caracterização molecular e correlação com a clínica
Orientador
 Microbiologia Clínica (Mestrado)
Universidade de Lisboa Faculdade de Medicina, Portugal
2007 - 2008 Aplicação de Espectroscopia de FT-IR para a Serotipagem e Avaliação da Susceptibilidade à Penicilina em Streptococcus Peneumoniae
Coorientador
 Microbiologia Clínica (Mestrado)
Universidade de Lisboa Faculdade de Medicina, Portugal
2007 - 2008 Estudo Genético e Fenótipico do Operão fsr e gelE-sprE em Diferentes Espécies de Enterococcus
Coorientador
 Microbiologia Clínica
Universidade de Lisboa Faculdade de Medicina, Portugal
2007 - 2008 Transformações capsulares em Streptococcus agalactiae
Orientador
 Microbiologia Clínica (Mestrado)
Universidade de Lisboa Faculdade de Medicina, Portugal
2006 - 2008 Avaliação de estruturas mosaico em estirpes clínicas de Chlamydia trachomatis
Coorientador
 Microbiologia Clínica
Universidade de Lisboa Faculdade de Medicina, Portugal
2006 - 2008 Pesquisa de serogrupos e genes virulentos de Escherichia coli produtora de shiga-toxina em alimentos e em fezes de bovinos
Coorientador
 Microbiologia Clínica (Mestrado)
Universidade de Lisboa Faculdade de Medicina, Portugal
2003 - 2008 Contribuição para a Caracterização da População de Streptococcus Pneumoniae Causadora de Infecções Graves
Orientador
 Ciências e Tecnologias da Saúde (Doutoramento)
Universidade de Lisboa Faculdade de Medicina, Portugal
2006 - 2007 A Partícula de Reconhecimento de Sinal do Streptococcus Pneumoniae é Essencial para a sua Viabilidade
Coorientador
 Microbiologia Clínica (Mestrado)
Universidade de Lisboa Faculdade de Medicina, Portugal
2006 - 2007 Estudo da contribuição de proteínas fágicas e da autolisina bacteriana na lise de Streptococcus pneumoniae
Orientador
 Microbiologia Clínica (Mestrado)
Universidade de Lisboa Faculdade de Medicina, Portugal
2005 - 2007 Caracterização dos mecanismos moleculares de resistência às fluoroquinolonas em estirpes clínicas de Escherichia coli de origem animal
Coorientador
 Microbiologia Clínica (Mestrado)
Universidade de Lisboa Faculdade de Medicina, Portugal
2005 - 2006 Caracterização fenotípica e genotípica de Streptococcus pneumoniae responsáveis por infecção em crianças de idade pré-escolar
Orientador
 Microbiologia Clínica (Mestrado)
Universidade de Lisboa Faculdade de Medicina, Portugal
2005 - 2006 Diversidade clonal e contribuição do gene emm para a virulência de Streptococcus spp. dos grupos C e G de Lancefield isolados de infecção no Homem
Coorientador
 Microbiologia Clínica (Mestrado)
Universidade de Lisboa Faculdade de Medicina, Portugal
2004 - 2005 Caracterização de Bacteriófagos em Populações Naturais de Streptococcus Pneumoniae
Orientador
 Mestrado em Microbiologia Clínica (Mestrado)
Universidade de Lisboa Faculdade de Medicina, Portugal
2001 - 2002 Epidemiologia molecular de estirpes de Streptococcus pneumoniae isoladas em Portugal
Orientador
 Mestrado em Microbiologia Molecular (Mestrado)
Universidade de Aveiro, Portugal

Membro de comissão

Descrição da atividade
Tipo de participação 		Instituição / Organização
2023/01/01 - Atual Treasurer of the ESCMID Study Group for Genomic and Molecular Diagnostics - ESGMD
Outro
 European Society of Clinical Microbiology and Infectious Diseases, Suiça
2020/04/01 - Atual Program Committee member of the European Congress of Clinical Microbiology and Infectious Diseases
Consultor
 European Society of Clinical Microbiology and Infectious Diseases, Suiça
2011/01/01 - Atual Founder and treasurer of the Immunisations and Vaccines Working Group of the International Society of Antimicrobial Chemotherapy (ISAC)
Outro
 The International Society of Antimicrobial Chemotherapy, Reino Unido
Distinções

Prémio

2016 Prémios Científicos Universidade de Lisboa. 2016. Menção honrosa
Universidade de Lisboa Reitoria, Portugal

Título

2025 Fellow of the International Society of Antimicrobial Chemotherapy
The International Society of Antimicrobial Chemotherapy, Reino Unido