Academic Position: Associate Professor

Educational Background:

  • B.S Biology (Licentiate’s degree before EU’s Bologna reforms), Faculdade de Ciências da Universidade do Porto, Portugal, 2002
  • EU Socrates Erasmus Programme Fellow, Center for Marine Biotechnology, Applied Algology group, University of Las Palmas (ULPGC), Canary Islands, Spain, 2002.
  • Ph.D. Biology (Microbial Ecology), University of Puerto Rico Rio Piedras, Puerto Rico, 2009
  • Postdoctoral Fellow in Metagenomics, National Science Foundation. US DOE – Joint Genome Institute, Walnut Creek, California, 2009-2012

Academic Address, Telephone & E-Mail:

Microbiome Lab
Dept. Microbiology and Medical Zoology
Univ Puerto Rico School of Medicine
Medical Sciences Campus

Tel:+1-787-758-2525 exts 2096/7069/1361

E-mail: filipa.godoy@upr.edu

https://tinyurl.com/ycs48vgu

https://tinyurl.com/ycg6qmye

 

 Field of InterestMicrobiome, Microbial Community Ecology, Metagenomics, Host-Microbe interactions, NGS, Bioinformatics

Research in the lab has been focused on microbial community structure and function in vertebrate animals, humans and other ecosystems. We integrate DNA sequence data with microbiology, ecology, physiology, metagenomics and bioinformatics to address broad questions on host-microbe interactions.

Besides performing comparative microbial surveys (amplicon sequencing of bacteria and fungi), we also perform shotgun metagenomics, comparative genomics and single cell genomics.

Our lab has made significant contributions to the field of animal microbiomes, studying the hoatzin – a South American folivorous bird – as well as other animals.

Currently we characterize microbiomes to understand the evolution, transmission and functions of host-microbe symbiosis and to dissect dysbiotic phenotypes. Current areas of research include: 1) understanding the correlation between HPV and the cervicovaginal and oral microbiomes in Puerto Ricans; 2) relating gut microbiome with sleep patterns; 3) exploring the role of the microbiome on the onset of T1D in children. Other ongoing projects include the characterization of the rhizosphere of Tabebuia heterophylla, a tree native to the West Indies; Mining for lignocellulose carbohydrate-active enzymes in fermentative ecosystems and characterizing the microbiomes of Puerto Rican Mangroves. Collaborative studies include the microbiome of Cetaceans, Phylogenetically distant algae, and the role of the built environment in microbial transmission to humans.

SELECTED PEER REVIEWED PUBLICATIONS 2018-2019

  1. Abarca JG, Zuniga I, Ortiz-Morales G, Lugo A, Viquez-Cervilla M, Rodriguez-Hernandez N, Vázquez-Sánchez F, Murillo-Cruz C, Torres-Rivera EA, Pinto-Tomás AA and Godoy-Vitorino F (2018) Characterization of the Skin Microbiota of the Cane Toad Rhinella cf. marina in Puerto Rico and Costa Rica. Front. Microbiol. 8:2624. doi: 10.3389/fmicb.2017.02624 PMID: 29354109 PMCID: PMC5760547
  2. Ortiz,G., Chorna,N., Romaguera ,J.,Martinez-Ferrer,M., Sanchez,M.,Ortiz,A.P., White,J.R., Guerrero-Preston,R. and Godoy-Vitorino, F., Cervical microbiota and the urinary metabolome in patients with high-risk and low-risk HPV infections, Cancer Research 78 (13 Supplement), 3267-3267 ([abstract]. In: of the 109th Annual Meeting of the American Association for Cancer Research; 2018 Apr 14-18; Chicago, Illinois. Philadelphia (PA): AACR; 2018.Abstract nr 3267)
  3. Guerrero-Preston,R., Navarro,K., Godoy-Vitorino,F, White, J., Jedlicka,A., Rivera-Alvarez,G.,Mora-Lagos,B., Timp, W., Westra, W., Koch, W.,Marchionni, L., Kim, Y.,Sidransky, D., High-resolution microbiome profiling of 16SrRNA sequencing data, Microbiome Arrays and Expression Arrays identify differential bacterial communities in head and neck cancer patients treated with surgery, chemo-radiation and PD-1 checkpoint blockade therapy, Biomarkers predictive of therapeutic benefit , Cancer Research 78 (13 Supplement), 570-570 (In: of the 109th Annual Meeting of the American Association for Cancer Research; 2018 Apr 14-18; Chicago, Illinois. Philadelphia (PA): AACR; 2018.Abstract nr 570)
  4. Ortiz-Maldonado, Y., Godoy-Vitorino, F. and Restrepo,C., Landsliding and rhizobiota link the short- and long-term carbon cycles,  Geophysical Research Abstracts Vol. 20, EGU2018-17124, 2018 EGU General Assembly 2018
  5. Vargas-Robles, D., Magris, M., Morales, N., de Koning, M.N., Rodriguez, I., Nieves, T., Godoy-Vitorino,F., Sanchez, G., Alcaraz, L.D., Forney, L., Pérez,M.E., García-Briceño, L., van Doorn,L.J., Dominguez-Bello,M.G., High infection by only oncogenic Human Papillomavirus in Amerindians, mSphere,3:e00176-18. https://doi.org/10.1128/mSphere.00176-18. PMID: 29720524, PMCID:PMC5932372
  6. Godoy-Vitorino, F. and Toledo-Hernandez, C. (2018) Reef building corals as a tool for climate change research in the genomics era. In M. Kloc, J. Z. Kubiak (eds.), Marine Organisms as Model Systems in Biology and Medicine, Results and Problems in Cell Differentiation 65,Chapter 23 , ISBIN 978-3-319-92485-4, https://doi.org/10.1007/978-3-319-92486-1_23, PMID:30083934
  7. van Schooten, B., Godoy-Vitorino, F., McMillan, W. O. and Papa, R. (2018), Conserved microbiota among young Heliconius butterfly species, Oct 2;6:e5502. doi: 10.7717/peerj.5502. eCollection 2018. PMID:30310733
  8. Godoy-Vitorino, F., Romaguera, J.E., Zhao, C., Vargas-Robles, D., Ortiz-Morales, G., Vázquez-Sánchez, F., Sanchez-Vázquez M, de la Garza-Casillas M, Martinez-Ferrer M, White JR, Bittinger K, Dominguez-Bello MG and Blaser MJ (2018). Cervicovaginal fungi and bacteria associated with cervical intraepithelial neoplasia and high-risk Human Papillomavirus infections in a Hispanic population. Front Microbiol. 2018 Oct 23;9:2533. doi: 10.3389/fmicb.2018.02533. eCollection 2018. PubMed PMID: 30405584; PubMed Central PMCID: PMC6208322.
  9. Godoy-Vitorino F, Ortiz-Morales G, Romaguera J, Sanchez MM, Martinez-Ferrer M, Chorna N (2018) Discriminating high-risk cervical Human Papilloma Virus infections with urinary biomarkers via non-targeted GC-MS-based metabolomics. PLoS ONE 13(12): e0209936. doi: 10.1371/journal.pone.0209936,  eCollection 2018. PMID:30592768
  10. Dominguez-Bello MG, Godoy-Vitorino F, Knight R, Blaser MJ. Role of the microbiome in human development. Gut. 2019 Jan 22;0:1–7;  pii: gutjnl-2018-317503. doi: 10.1136/gutjnl-2018-317503, PMID: 30670574

BOOK CHAPTERS / TECHNICAL REPORTS

  • Godoy-Vitorino, F. and Toledo-Hernandez, C. (2018) Reef building corals as a tool for climate change research in the genomics era. In M. Kloc, J. Z. Kubiak (eds.), Marine Organisms as Model Systems in Biology and Medicine, Results and Problems in Cell Differentiation 65,Chapter 23 , ISBIN 978-3-319-92485-4, https://doi.org/10.1007/978-3-319-92486-1_23
  • National Library of Medicine (U.S.). Board of Regents, A platform for biomedical discovery and data-powered health : National Library of Medicine strategic plan 2017-2027 [Bethesda, Md.] : U.S. Dept.of Health and Human Services, Public Health Service, National Institutes of Health, National Library of Medicine, (2018) pp39, NLM ID: 101721534 [Book] Co-Author. My working group aimed to build a report (10-year plan) with recommended strategies for NLM to facilitate and accelerate discovery inbiomedical discovery and translational science.
  • Dominguez-Bello M., Godoy-Vitorino F. (2013) Infant Microbiome. In: Nelson K. (eds) Encyclopedia of Metagenomics. Springer, New York, NY Chapter: 304271, pp.280- 285, DOI: 1007/978-1-4899-7475-4_405

SELECTED HONORS/AWARDS

  • Board of Directors American Association for the Advancement of Science (AAAS) Caribbean Division – Nov2018-present
  • The microbiota Vault – A global microbiota vault to conserve long-term health for humanity – http://www.microbiotavault.org/ – team member – coordinate support from global institutions
  • Productivity Award – 1st place, Puerto Rico Idea Network for Biomedical Research Excellence – research projects Publication Awards – August 2018
  • Dec 1st 2018 Puerto Rico Society for Microbiology (SMPR), Americo Pomales Award, 1st place Undergraduate Poster Presentation at the Sixth Student Research Symposium: Passing the torch of Ethics and Research to the next generation,  Brayan VilanovaThe probiotic microbiota of fermented tropical beverages: Mauby and Tepache” 
  • Dec 1st 2018 Puerto Rico Society for Microbiology (SMPR), Americo Pomales Award, 2nd place graduate Poster Presentation at the Sixth Student Research Symposium: Passing the torch of Ethics and Research to the next generation,  Frances VazquezAnogenital bacteria associated to HPV infections in Puerto Rican women”
  • Organizing Committee ISME Latin America, August 2019 , Chile
  • ISME – International Board of Embassadors– International Society for Microbial Ecology (2018- present)
  • Member of NIH’s National Library of Medicine’s (NLM) Literature Selection Technical Review Committeefor selection of journals for PubMed indexation (2015-2019)
  • 2018 American Association for Cancer Research (AACR) Minority Faculty Scholar in Cancer Research Award (AACR-MICR Faculty Scholar Award)
  • Visiting Faculty Award, IDeA Network for Biomedical Research Excellence (PRINBRE), 02/2018 Proj title: Microbial Pathway Reconstructions in cervical samples associated to HPV
    Host: Dr. Rob Knight’s Dept. Pediatrics Center for Microbiome Innovation, University of California-San Diego, La Jolla, CA
  • ASM/NSF LINK-UFRI Award Undergraduate Faculty Research Initiative (UFRI) Fellowship – supported by the American Society for Microbiology (ASM) and the National Science Foundation (NSF) under the Leaders Inspiring Networks and Knowledge (LINK) program. Recognition at the National level, as a model of excellence in STEM research and for commitment to student learning.
  • American Society for Microbiology Minority Awardto Filipa Godoy-Vitorino, June 2015, New Orleans, Louisiana
  • Carl Storm Fellowship– Invited Speaker at the Gordon Research Conference in Applied and Environmental Microbiology, Mount Holyoke, MA – Summer 2013
  • Millis-Colwell Exchange Program Award for Early Career Scientists, American Society for Microbiology. This Award is given to only 1 US researcher each year. Award to participate in the Australian Society for Microbiology Annual Meeting and visit the Australian Centre for Ecogenomics at the University of Queensland.
  • American Society for MicrobiologyYoung Investigator Oral Presentation, Session on Ecology and Evolution of Unicellular Eukaryotes, San Francisco, CA – may 2012
  • NSF National Science Foundation/DBI- Postdoctoral Research Fellowship – 2009-2012
  • NSF National Science Foundation/DEB – Doctoral Dissertation Improvement Grant – 2007-2009

People

Student Group

Microbiome Laboratory News

In the Photo, Dr. Patricia Brennan (Director of NLM) and Dr. Filipa Godoy

The National Library of Medicine of the National Institutes of Health, recognized Dr. Filipa Godoy-Vitorino’s service, as member of the Literature Selection Technical Review Committee (LSTRC) from 2015 to 2019. June 20, 2019. LSTRC is a Federal advisory committee that reviews and recommends journals for inclusion in MEDLINE/PubMed.

62nd annual Meeting Puerto Rico Society of Microbiologists
62nd annual Meeting Puerto Rico Society of Microbiologists
Miss Frances Vazquez and Mr Eduardo Tosado
Microbiologists annual convention with Dr. Bolaños, awardee of the El Koury-Medina Medal 2019
BAGECO 15
Dr. Godoy-Vitorino at the BAGECO 15, 15th Symposium on Bacterial Genetics and Ecology “Ecosystem drivers in a changing planet” May 30 2019-Calouste Gulbenkian Foundation – Lisbon/Portugal
INNOVATION LAB SYSTEMS BIOLOGY MAY 2019
INNOVATION LAB SYSTEMS BIOLOGY MAY 2019
#cancerbiome3
#cancerbiome3
Fotos Poster Awards Ceremony-PR- Clinical Research Summit
Fotos Poster Awards Ceremony-PR- Clinical Research Summit

Dra Godoy

Dra Godoy

Descifran bacterias que originan un cáncer en la mujer puertorriqueña

La extensa investigación sobre las comunidades bacterianas, presentes en el área cervicovaginal y el Virus del Papiloma Humano (VPH) en mujeres puertorriqueñas, ya rindió sus primeros frutos. Recientemente, se confirmó el hallazgo de un considerable número de bacterias y hongos no descritos con anterioridad. Así lo adelantó a la Revista de Medicina y Salud Pública (MSP), la doctora e investigadora Filipa Godoy-Vitorino.

En el cuerpo humano existen numerosos microbiomas bacterianos. La cantidad de bacterias y su proliferación en determinadas áreas depende de cada individuo. Sin embargo, en términos generales, se reconoce al intestino como el órgano más biodiverso y al tracto genital femenino como la zona con menos comunidades bacterianas.

Por Jean Mitchelle Vélez
Agencia Latina de Noticias de Medicina y Salud Pública

Un estudio ayudaría a la detección temprana del VPH

El primer estudio dirigido a investigar la ecología microbiana cervicovaginal de las mujeres puertorriqueñas permitió descubrir los primeros biomarcadores del virus del papiloma humano (VPH) de alto riesgo responsables de la mayoría de los casos de displasia cervical.

Los resultados fueron compartidos a El Nuevo Día por la ecóloga microbiana Filipa Godoy Vitorino, quien inició, en 2015, los trabajos de reclutamiento para la investigación, de la que salieron dos publicaciones en octubre y diciembre pasado.

Por Paola Arroyo Guzmán
El Nuevo Dia

Latest social media impact on the lab’s review on microbiome:

Link: https://gut.bmj.com/content/early/2019/01/22/gutjnl-2018-317503

Presentation

Eduardo L. Tosado-Rodríguez, M.S

Ph.D. Student

Microbiology and Medical Zoology Dept.
UPR Medical Sciences Campus
Projects: Metabolomics and cervical dysplasia; The Rio Piedras watershed project;The microbiota of sea urchins

Frances E. Vázquez Sánchez, B.S

INBRE Research Fellow and master’s degree Student

Molecular Microbiology (MOMI) Program
Inter American Univ Puerto Rico, Thesis project: UPRRCM
Projects: Anogenital microbiomes and HPV; The Rio Piedras watershed project

Kimil T. Acosta Pagán, B.S.

M.Sc. Student

Kimil AcostaMicrobiology and Medical Zoology Dept. UPR Medical Sciences Campus

Project: oral mycobiota of high-risk Hispanics and Human Papilloma Virus infections . Collaborates with 1R21ES029762-01 (Built environment)

Luis A. Acevedo Márquez, B.S

M.Sc. Student

Luis AcevedoMicrobiology and Medical Zoology Dept. UPR Medical Sciences Campus

Project: Lifestyle and diet effects on the gut microbiome and its correlation with sleep hygiene, on mother-baby diads

Gilmary Ortiz-Morales, B.S

Master’s degree Student

Molecular Microbiology (MOMI) Program
Inter American Univ Puerto Rico, Thesis project: UPRRCM
Projects: 1R21ES029762-01 (Built environment); Ubiquity plots – a new R package

Brayan Y. Vilanova-Cuevas

INBRE Research Fellow and Undergraduate student

Bachelor Degree in Microbiology, Inter American Univ Puerto Rico
Projects:  The oral microbiota of high-risk Hispanic adults with Human Papilloma Virus infections (1R21DE027226-01A1); Microbiota of Mauby

Anelisse Dominicci-Maura

Undergraduate student

Bachelor Degree Environmental Science
UPR RIO PIEDRAS, Research project: UPRRCM
Projects: Correlating the cervical microbiome with HPV infections and cervical lesions

Alexandra-Aldarondo

Undergraduate student

Bachelor Degree Molecular Biology
UPR RIO PIEDRAS, Research project: UPRRCM
Projects: First semester; apprentice Microbiome Research (several collaborative projects)

Maria del Mar Fuentes

Undergraduate student

Bachelor Degree Molecular Biology
UPR RIO PIEDRAS, Research project: UPRRCM
Projects: First semester; apprentice Microbiome Research (several collaborative projects)

Aitor Gonzalez-Fernandez

Undergraduate student

Bachelor Degree Interdisciplinary in Natural Sciences
UPR RIO PIEDRAS, Research project: UPR RCM
Projects: First semester; apprentice Microbiome Research, Correlating the cervical microbiome with HPV infections