Institution: I2SYSBIO
Research Groups: PathoGenOmics
Position: PhD Student
Home page: https://paururo.github.io/
Contact email: paula.ruiz.rodriguez@csic.es
BCB Committee: No committees assigned.
BCB Community: No communities assigned.
BCB Services: No services assigned.
Research topics: Molecular evolution, Evolutionary rates, Phylogenetic Analysis, Mapping, Sequence Alignment, Genome Assembly, Genome Sequencing, Genomic Annotation, Population genomics, Variant calling, RNA Sequencing (RNA-seq), Analysis packages (R, Python, etc.), Annotation tools, Workflow managers, Containers Computing
Biography: Paula Ruiz-Rodriguez is a researcher in the PathoGenOmics Group (I2SYSBIO, CSIC) and a PhD candidate in Biodiversity and Evolutionary Biology at the University of Valencia. Her research uses phylogenomics, population genetics, and computational biology to dissect the evolutionary dynamics of pathogens such as SARS-CoV-2 and Mycobacterium tuberculosis. Through advanced computational pipelines utilizing Python, R, and Bash, she analyzes extensive genomic datasets to identify genetic variations crucial to pathogenicity, transmission, and drug resistance.
Paula's scientific contributions have been published in prestigious journals, including Nature Genetics, Nature, mBio, and Virus Evolution, and have been recognized through distinctions such as the Ciutat d'Algemesí Scientific-Technical Award. Beyond her research, she actively promotes science communication and public outreach as a coordinator at Expociencia, and integrates art and science through scientific illustration projects. Paula is also involved in multiple international professional societies dedicated to bioinformatics, evolutionary biology, and infectious diseases. Through rigorous science, interdisciplinary collaboration, and a passion for communication, she continues to address critical challenges posed by infectious diseases and their evolving threats to global health.
Publications
Álvarez-Herrera, M., Ruiz-Rodriguez, P., Navarro-Domínguez, B., Zulaica, J., Grau, B., Bracho, M. A., Guerreiro, M., Aguilar-Gallardo, C., González-Candelas, F., Comas, I., Geller, R., & Coscollá, M. (2025). Genome data artifacts and functional studies of deletion repair in the BA.1 SARS-CoV-2 spike protein. Virus Evolution, 11(1). https://doi.org/10.1093/ve/veaf015
Ruiz-Rodriguez, P., Caballer-Gual, M., Santamaria, G., Hiza, H., & Coscolla, M. (2024). Host-strain compatibility influences transcriptional responses inMycobacterium tuberculosisinfections. https://doi.org/10.1101/2024.05.21.595142
Álvarez-Herrera, M., Sevilla, J., Ruiz-Rodriguez, P., Vergara, A., Vila, J., Cano-Jiménez, P., González-Candelas, F., Comas, I., & Coscollá, M. (2024). VIPERA: Viral Intra-Patient Evolution Reporting and Analysis. Virus Evolution, 10(1). https://doi.org/10.1093/ve/veae018
Loperena-Barber, M., Elizalde-Bielsa, A., Salvador-Bescós, M., Ruiz-Rodríguez, P., Pellegrini, J. M., Renau-Mínguez, C., Lancaster, R., Zúñiga-Ripa, A., Iriarte, M., Bengoechea, J. A., Coscollá, M., Gorvel, J.-P., Moriyón, I., & Conde-Álvarez, R. (2024). “Phylogenomic insights into brucellaceae: The Pseudochrobactrum algeriensis case.” Infection, Genetics and Evolution, 123, 105625. https://doi.org/10.1016/j.meegid.2024.105625
Renau-Mínguez, C., Herrero-Abadía, P., Ruiz-Rodriguez, P., Sentandreu, V., Torrents, E., Chiner-Oms, Á., Torres-Puente, M., Comas, I., Julián, E., & Coscolla, M. (2023). Genomic analysis of Mycobacterium brumae sustains its nonpathogenic and immunogenic phenotype. Frontiers in Microbiology, 13. https://doi.org/10.3389/fmicb.2022.982679
Cabañero-Navalon, M. D., Garcia-Bustos, V., Ruiz-Rodriguez, P., Comas, I., Coscollá, M., Martinez-Priego, L., Todolí, J., & Moral Moral, P. (2022). Persistent SARS-CoV-2 infection with repeated clinical recurrence in a patient with common variable immunodeficiency. Clinical Microbiology and Infection, 28(2), 308–310. https://doi.org/10.1016/j.cmi.2021.10.021
Ginex, T., Marco-Marín, C., Wieczór, M., Mata, C. P., Krieger, J., Ruiz-Rodriguez, P., López-Redondo, M. L., Francés-Gómez, C., Melero, R., Sánchez-Sorzano, C. Ó., Martínez, M., Gougeard, N., Forcada-Nadal, A., Zamora-Caballero, S., Gozalbo-Rovira, R., Sanz-Frasquet, C., Arranz, R., Bravo, J., Rubio, V., … Carazo, J.-M. (2022). The structural role of SARS-CoV-2 genetic background in the emergence and success of spike mutations: The case of the spike A222V mutation. PLOS Pathogens, 18(7), e1010631. https://doi.org/10.1371/journal.ppat.1010631
Santamaria, G., Ruiz-Rodriguez, P., Renau-Mínguez, C., Pinto, F. R., & Coscollá, M. (2022). In Silico Exploration of Mycobacterium tuberculosis Metabolic Networks Shows Host-Associated Convergent Fluxomic Phenotypes. Biomolecules, 12(3), 376. https://doi.org/10.3390/biom12030376
Hodcroft, E. B., Zuber, M., Nadeau, S., Vaughan, T. G., Crawford, K. H. D., Althaus, C. L., Reichmuth, M. L., Bowen, J. E., Walls, A. C., Corti, D., Bloom, J. D., Veesler, D., Mateo, D., Hernando, A., Comas, I., González-Candelas, F., González-Candelas, F., Goig, G. A., … Neher, R. A. (2021). Spread of a SARS-CoV-2 variant through Europe in the summer of 2020. Nature, 595(7869), 707–712. https://doi.org/10.1038/s41586-021-03677-y
López, M. G., Chiner-Oms, Á., García de Viedma, D., Ruiz-Rodriguez, P., Bracho, M. A., Cancino-Muñoz, I., D’Auria, G., de Marco, G., García-González, N., Goig, G. A., Gómez-Navarro, I., Jiménez-Serrano, S., Martinez-Priego, L., Ruiz-Hueso, P., Ruiz-Roldán, L., Torres-Puente, M., Alberola, J., Albert, E., Aranzamendi Zaldumbide, M., … Comas, I. (2021). The first wave of the COVID-19 epidemic in Spain was associated with early introductions and fast spread of a dominating genetic variant. Nature Genetics, 53(10), 1405–1414. https://doi.org/10.1038/s41588-021-00936-6
Ruiz-Rodriguez, P., Francés-Gómez, C., Chiner-Oms, Á., López, M. G., Jiménez-Serrano, S., Cancino-Muñoz, I., Ruiz-Hueso, P., Torres-Puente, M., Bracho, M. A., D’Auria, G., Martinez-Priego, L., Guerreiro, M., Montero-Alonso, M., Gómez, M. D., Piñana, J. L., González-Candelas, F., Comas, I., Marina, A., … Coscolla, M. (2021). Evolutionary and Phenotypic Characterization of Two Spike Mutations in European Lineage 20E of SARS-CoV-2. MBio, 12(6). https://doi.org/10.1128/mbio.02315-21
Alm, E., Broberg, E. K., Connor, T., Hodcroft, E. B., Komissarov, A. B., Maurer-Stroh, S., Melidou, A., Neher, R. A., O’Toole, Á., & Pereyaslov, D. (2020). Geographical and temporal distribution of SARS-CoV-2 clades in the WHO European Region, January to June 2020. Eurosurveillance, 25(32). https://doi.org/10.2807/1560-7917.es.2020.25.32.2001410
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