???global.info.a_carregar???
I am a professor and principal investigator of the University of Vigo. My current research lines involve the evolutionary analysis, at the population and molecular levels, of pathogens, cancer and humans. I am interested in the design, development and implementation of evolutionary models and methods for the simulation and analysis of genetic data. Indeed, I am also interested in combining molecular evolution and population genetics with computational chemistry to improve the design of molecular therapies against pathogens (especially viruses and cancer tumor cells) accounting for evolutionary processes.
Read full resume ↓
Identification

Personal identification

Full name
Miguel Arenas Busto

Citation names

  • Arenas, Miguel
  • Arenas, M

Author identifiers

Ciência ID
6211-C6EE-643A
ORCID iD
0000-0002-0516-2717
Google Scholar ID
https://scholar.google.com/citations?hl=en&user=WNCO6tgAAAAJ&view_op=list_works
Researcher Id
C-4831-2009
Scopus Author Id
23468840800

Knowledge fields

  • Natural sciences - Biological Sciences - Genetics and Heredity

Languages

Language Speaking Reading Writing Listening Peer-review
Spanish; Castilian (Mother tongue)
English Advanced (C1) Advanced (C1) Advanced (C1) Advanced (C1)
Galician (Mother tongue)
Portuguese Intermediate (B1) Intermediate (B1) Intermediate (B1) Intermediate (B1)
Education
Degree Classification
2010
Concluded
 PhD (Doutoramento)
Universidade de Vigo, Spain
"Applications of the Coalescent with Recombination in Molecular Evolution" (THESIS/DISSERTATION)
 Highest score - "Sobresaliente cum laude" (spanish
2005
Concluded
 Certificate of Advanced Studies (Diploma de Estudios Avanzados; DEA) (Mestrado)
Universidade de Santiago de Compostela, Spain
"Master - Certificate of Advanced Studies (DEA)" (THESIS/DISSERTATION)
 Highest score - "Sobresaliente" (spanish rating)
2003
Concluded
 BSc (Licenciatura)
Universidade de Santiago de Compostela, Spain
"BSc in Chemistry" (THESIS/DISSERTATION)
 High score - "Notable" (spanish rating)
Affiliation

Science

Category
Host institution 		Employer
2017/05/01 - Current Principal Investigator (Research) Universidade de Vigo, Spain
2015/06/15 - 2017/04/30 Principal Investigator (Research) Universidade do Porto Instituto de Patologia e Imunologia Molecular, Portugal
2012/05/16 - 2015/05/15 Postdoc (Research) Consejo Superior de Investigaciones Científicas, Spain
2010/08/16 - 2012/04/30 Contracted Researcher (Research) Universität Bern, Switzerland
2010/04/01 - 2010/07/31 Contracted Researcher (Research) Universidade de Vigo, Spain
2009/11/01 - 2010/03/31 Researcher (Research) Universidade de Vigo, Spain
2005/11/01 - 2009/10/31 Researcher (Research) Universidade de Vigo, Spain

Teaching in Higher Education

Category
Host institution 		Employer
2022/12/22 - Current Associate Professor (University Teacher) Universidade de Vigo, Spain
Universidade de Vigo, Spain
2004/01/01 - 2005/10/31 Assistant (University Teacher) Universidade de Santiago de Compostela, Spain

Others

Category
Host institution 		Employer
2005/02/21 - 2005/10/30 Personal Assistant of Computational Service (fellowship) Universidade de Santiago de Compostela, Spain
Projects

Grant

Designation Funders
2020/07/01 - 2023/06/30 Forecasting protein evolution accounting for selection on the estability and function
PID2019-107931GA-I00
Principal investigator
Universidade de Vigo, Spain
 Gobierno de España Ministerio de Ciencia e Innovación
Ongoing
2020/01/01 - 2020/12/31 Identification of the causes of the modern humans genetic gradients observed in the Iberian Peninsula
BECALEONARDOARENAS
Principal investigator
Universidade de Vigo, Spain
 Fundación BBVA
Ongoing
2013/01/01 - 2015/12/31 Computational prediction of structure changes in protein function and evolution with torsional linear response and anharmonic potentials
BFU2012-40020
Researcher
Centre for Molecular Biology Severo Ochoa, Spain
 Ministerio de Economía, Industria y Competitividad (Government of Spain)
Concluded
2014 - 2014 EMBO short-term Fellowship
ASTF 367 – 2013
Post-doc Fellow
University of Wyoming, United States
 Gesellschaft zur Förderung der Lebenswissenschaften Heidelberg GmbH
Concluded
2007/10/01 - 2009/10/04 Computational design of centralized genes with recombination: implications for the AIDS vaccine
BIO2007-61411
Researcher
Universidade de Vigo, Spain
 Ministerio de Educación y Ciencia (Government of Spain)
Concluded

Contract

Designation Funders
2017/05/01 - 2022/04/30 Molecular Evolution and Population Genetics in Biological Systems that are relevant for Biomedicine
RYC-2015-18241 - project
Principal investigator
Universidade de Vigo, Spain
 Ministerio de Economía, Industria y Competitividad (Government of Spain)
Ongoing
2017 - 2022 Principal Investigator - Ramón y Cajal
RYC-2015-18241
Principal investigator
Universidade de Vigo, Spain
 Ministerio de Economía, Industria y Competitividad (Government of Spain)
Ongoing
2015/06/15 - 2017/04/30 Population Genetics and Molecular Evolution of HIV and Cancer Tumor Cells
IF/00955/2014/CP1245/CT0003
Principal investigator
Universidade do Porto Instituto de Patologia e Imunologia Molecular, Portugal
 Fundação para a Ciência e a Tecnologia
Concluded
2015 - 2017 Principal Investigator - FCT Staring Grant
IF/00955/2014
Principal investigator
Universidade do Porto Instituto de Patologia e Imunologia Molecular, Portugal
 Fundação para a Ciência e a Tecnologia
Concluded
2012 - 2015 Postdoctoral fellow - Juan de la Cierva
JCI-2011-10452
Post-doc Fellow
Centre for Molecular Biology Severo Ochoa, Spain
 Ministerio de Educación y Ciencia (Government of Spain)
2010/08/16 - 2012/04/30 SCALES - Securing the conservation of biodiversity across administrative levels and spatial, temporal, and ecological scales
226852
Researcher
Universität Bern Departement Biologie, Switzerland
 European Commission Seventh Framework Programme for Research and Technological Development
Concluded
2006 - 2010 PhD student at the University of Vigo
BFU2004-02700
PhD Student Fellow
Universidade de Vigo, Spain
 Ministerio de Educación y Ciencia (Government of Spain)
Outputs

Publications

Book chapter
  1. Arenas, Miguel. "Methodologies for Microbial Ancestral Sequence Reconstruction". In Environmental Microbial Evolution, 283-303. New York, United States: Springer US, 2022.
    Published • 10.1007/978-1-0716-2691-7_14
  2. Arenas, Miguel. "Computational Analysis of Recombination in Viral Nucleotide Sequences". In Encyclopedia of Virology, 108-115. Elsevier, 2021.
    Published • 10.1016/b978-0-12-814515-9.00056-4
  3. Arenas, Miguel. "Applications of the Coalescent for the Evolutionary Analysis of Genetic Data". In Encyclopedia of Bioinformatics and Computational Biology, 746-758. Elsevier, 2019.
    10.1016/b978-0-12-809633-8.20260-4
  4. Bastolla, U.; Arenas, Miguel. "The Influence of Protein Stability on Sequence Evolution: Applications to Phylogenetic Inference.". In Computational Methods in Protein Evolution, 215-231. Springer, 2019.
    10.1007/978-1-4939-8736-8_11
  5. Oliveira, M.; Arenas, Miguel; Pinto, N.; Amorim, A.. "Genética forense no humana". In Genetica forense: Del laboratorio a los tribunales, 291-318. Ediciones Diaz de Santos, 2019.
  6. Pérez-Losada, M.; Arenas, M.; Castro-Nallar, E.. "Multilocus Sequence Typing of Pathogens: Methods, Analyses, and Applications". In Genetics and Evolution of Infectious Diseases, 383-404. Elsevier, 2017.
    10.1016/B978-0-12-799942-5.00016-0
  7. Mallo, D.; Sánchez-Cobos, A.; Arenas, M.. "Diverse Considerations for Successful Phylogenetic Tree Reconstruction: Impacts from Model Misspecification, Recombination, Homoplasy, and Pattern Recognition". In Pattern Recognition in Computational Molecular Biology: Techniques and Approaches, 439-456. John Wiley & Sons, 2016.
    10.1002/9781119078845.ch23
  8. Miguel Arenas; Mona, S.; Trochet, A.; Sramkova Hanulova, A.; Currat, M.; Ray, N.; Chikhi, L.; et al. "The scaling of genetic diversity in a changing and fragmented world". In Scaling in Ecology and Biodiversity Conservation, 55-60. Pensoft Publishers, 2014.
  9. Miguel Arenas; Posada, D.. "The influence of recombination on the estimation of selection from coding sequence alignments". In Natural Selection: Methods and Applications, 112-125. CRC Press/Taylor & Francis, 2014.
  10. Arenas, M.; Posada, D.. "Simulation of coding sequence evolution". In Codon Evolution: Mechanisms and Models, 126-132. Oxford University Press, 2012.
    10.1093/acprof:osobl/9780199601165.003.0009
Journal article
  1. David Ferreiro; Ruqaiya Khalil; Sergio F Sousa; Miguel Arenas. Corresponding author: Miguel Arenas. "Substitution models of protein evolution with selection on enzymatic activity". Molecular Biology and Evolution (2024): https://doi.org/10.1093/molbev/msae026.
    10.1093/molbev/msae026
  2. Uruén, Cristina; Fernandez, Ana; Arnal, José Luis; del Pozo, Mateo; Amoribieta, Maria Casas; de Blas, Ignacio; Jurado, Paula; et al. Corresponding author: Arenas, Jesús. "Genomic and phenotypic analysis of invasive Streptococcus suis isolated in Spain reveals genetic diversification and associated virulence traits". Veterinary Research 55 1 (2024): http://dx.doi.org/10.1186/s13567-024-01267-0.
    Open access • Published • 10.1186/s13567-024-01267-0
  3. Roberto Del Amparo; Miguel Arenas. "Influence of substitution model selection on protein phylogenetic tree reconstruction". Gene (2023): https://doi.org/10.1016/j.gene.2023.147336.
    10.1016/j.gene.2023.147336
  4. Luis Daniel González-Vázquez; Miguel Arenas. "Molecular Evolution of SARS-CoV-2 during the COVID-19 Pandemic". Genes (2023): https://doi.org/10.3390/genes14020407.
    10.3390/genes14020407
  5. Roberto Del Amparo; Luis Daniel González-Vázquez; Laura Rodríguez-Moure; Ugo Bastolla; Miguel Arenas. "Consequences of Genetic Recombination on Protein Folding Stability". Journal of Molecular Evolution (2023): https://doi.org/10.1007/s00239-022-10080-2.
    10.1007/s00239-022-10080-2
  6. Filipa Moreira; Miguel Arenas; Arnaldo Videira; Filipe Pereira. "Evolution of TOP1 and TOP1MT Topoisomerases in Chordata". Journal of Molecular Evolution (2023): https://doi.org/10.1007/s00239-022-10091-z.
    10.1007/s00239-022-10091-z
  7. David Ferreiro; Ruqaiya Khalil; María J Gallego; Nuno S Osorio; Miguel Arenas. "The evolution of the HIV-1 protease folding stability". Virus Evolution (2022): https://doi.org/10.1093/ve/veac115.
    10.1093/ve/veac115
  8. Roberto Del Amparo; Miguel Arenas. "Consequences of Substitution Model Selection on Protein Ancestral Sequence Reconstruction". Molecular Biology and Evolution 39 7 (2022): http://dx.doi.org/10.1093/molbev/msac144.
    10.1093/molbev/msac144
  9. Moyano, Ana; Blanch-Lombarte, Oscar; Tarancon-Diez, Laura; Pedreño-Lopez, Nuria; Arenas, Miguel; Alvaro, Tamara; Casado, Concepción; et al. "Immunoescape of HIV-1 in Env-EL9 CD8+ T cell response restricted by HLA-B*14:02 in a Non progressor who lost twenty-seven years of HIV-1 control". Retrovirology 19 1 (2022): http://dx.doi.org/10.1186/s12977-022-00591-7.
    Open access • Published • 10.1186/s12977-022-00591-7
  10. Baselga, Andrés; Gómez-Rodríguez, Carola; Araújo, Miguel B.; Castro-Insua, Adrián; Arenas, Miguel; Posada, David; Vogler, Alfried P.. "Joint analysis of species and genetic variation to quantify the role of dispersal and environmental constraints in community turnover". Ecography 2022 5 (2022): http://dx.doi.org/10.1111/ecog.05808.
    Open access • Published • 10.1111/ecog.05808
  11. Catarina Branco; Marina Kanellou; Antonio González-Martín; Miguel Arenas. "Consequences of the Last Glacial Period on the Genetic Diversity of Southeast Asians". Genes (2022): https://doi.org/10.3390/genes13020384.
    10.3390/genes13020384
  12. Filipa Moreira; Miguel Arenas; Arnaldo Videira; Filipe Pereira. "Evolutionary History of TOPIIA Topoisomerases in Animals". Journal of Molecular Evolution (2022): https://doi.org/10.1007/s00239-022-10048-2.
    10.1007/s00239-022-10048-2
  13. Roberto Del Amparo; Miguel Arenas. "HIV Protease and Integrase Empirical Substitution Models of Evolution: Protein-Specific Models Outperform Generalist Models". Genes (2021): https://doi.org/10.3390/genes13010061.
    10.3390/genes13010061
  14. Miguel Arenas. "ProteinEvolverABC: coestimation of recombination and substitution rates in protein sequences by approximate Bayesian computation". Bioinformatics (2021): https://doi.org/10.1093/bioinformatics/btab617.
    10.1093/bioinformatics/btab617
  15. Miguel Arenas. "General considerations for online teaching practices in bioinformatics in the time of COVID -19". Biochemistry and Molecular Biology Education (2021): https://doi.org/10.1002/bmb.21558.
    10.1002/bmb.21558
  16. Filipa Moreira; Miguel Arenas; Arnaldo Videira; Filipe Pereira. "Molecular Evolution of DNA Topoisomerase III Beta (TOP3B) in Metazoa". Journal of Molecular Evolution 89 6 (2021): 384-395. https://doi.org/10.1007/s00239-021-10011-7.
    10.1007/s00239-021-10011-7
  17. Bruno Monteiro; Keith A. Crandall; Miguel Arenas; Maria João Prata; António Amorim. "Evolutionary dynamics of the human pseudoautosomal regions". PLOS Genetics 17 4 (2021): e1009532-e1009532. https://doi.org/10.1371/journal.pgen.1009532.
    10.1371/journal.pgen.1009532
  18. David Ferreiro; Bernabé Núñez-Estévez; Mateo Canedo; Catarina Branco; Miguel Arenas. "Evaluating Causes of Current Genetic Gradients of Modern Humans of the Iberian Peninsula". Genome Biology and Evolution 13 4 (2021): https://doi.org/10.1093/gbe/evab071.
    10.1093/gbe/evab071
  19. Macedo, Ana; Gómez, Carlos; Rebelo, Miguel Ângelo; Poza, Jesús; Gomes, Iva; Martins, Sandra; Maturana-Candelas, Aarón; et al. "Risk Variants in Three Alzheimer’s Disease Genes Show Association with EEG Endophenotypes". Journal of Alzheimer's Disease (2021): 1-15. http://dx.doi.org/10.3233/jad-200963.
    10.3233/jad-200963
  20. Roberto Del Amparo; Catarina Branco; Jesús Arenas; Alberto Vicens; Miguel Arenas. "Analysis of selection in protein-coding sequences accounting for common biases". Briefings in Bioinformatics (2021): https://doi.org/10.1093/bib/bbaa431.
    10.1093/bib/bbaa431
  21. Miguel Arenas; Amaya Gorostiza; Juan Miguel Baquero; Elena Campoy; Catarina Branco; Héctor Rangel-Villalobos; Antonio González-Martín. "The Early Peopling of the Philippines based on mtDNA". Scientific Reports 10 4901 (2020): https://doi.org/10.1038/s41598-020-61793-7.
    10.1038/s41598-020-61793-7
  22. Mauro Lago-Docampo; Jair Tenorio; Ignacio Hernández-González; Carmen Pérez-Olivares; Pilar Escribano-Subías; Guillermo Pousada; Adolfo Baloira; et al. "Characterization of rare ABCC8 variants identified in Spanish pulmonary arterial hypertension patients". Scientific Reports 10 15135 (2020): https://doi.org/10.1038/s41598-020-72089-1.
    10.1038/s41598-020-72089-1
  23. Miguel Ângelo Rebelo; Carlos Gómez; Iva Gomes; Jesus Poza; Sandra Martins; Aarón Maturana-Candelas; Saúl J. Ruiz-G´ómez; et al. "Genome-Wide Scan for Five Brain Oscillatory Phenotypes Identifies a New QTL Associated with Theta EEG Band". Brain Sciences 10 11 (2020): 870. https://www.mdpi.com/2076-3425/10/11/870.
    Open access • 10.3390/brainsci10110870
  24. Miguel Arenas. "Protein Evolution in the Flaviviruses". Journal of Molecular Evolution 88 (2020): 473-476. https://doi.org/10.1007/s00239-020-09953-1.
    10.1007/s00239-020-09953-1
  25. Catarina Branco; Nicolas Ray; Mathias Currat; Miguel Arenas. "Influence of Paleolithic range contraction, admixture and long-distance dispersal on genetic gradients of modern humans in Asia". Molecular Ecology 29 12 (2020): 2150-2159. https://doi.org/10.1111/mec.15479.
    10.1111/mec.15479
  26. Marcos Pérez-Losada; Miguel Arenas; Juan Carlos Galán; Mª. Alma Bracho; Julia Hillung; Neris García-González; Fernando González-Candelas. "High-throughput sequencing (HTS) for the analysis of viral populations". Infection, Genetics and Evolution 80 (2020): 104208-104208. https://doi.org/10.1016/j.meegid.2020.104208.
    10.1016/j.meegid.2020.104208
  27. Miguel Arenas; Ugo Bastolla. "ProtASR2: Ancestral reconstruction of protein sequences accounting for folding stability". Methods in Ecology and Evolution 11 (2020): 248-257. https://doi.org/10.1111/2041-210X.13341.
    10.1111/2041-210X.13341
  28. Roberto Del Amparo; Alberto Vicens; Miguel Arenas. "The influence of heterogeneous codon frequencies along sequences on the estimation of molecular adaptation". Bioinformatics 36 2 (2020): 430-436. https://doi.org/10.1093/bioinformatics/btz558.
    10.1093/bioinformatics/btz558
  29. João Pimenta; Alexandra M. Lopes; Angel Carracedo; Miguel Arenas; António Amorim; David Comas. "Spatially explicit analysis reveals complex human genetic gradients in the Iberian Peninsula". Scientific Reports 9 7825 (2019): https://doi.org/10.1038/s41598-019-44121-6.
    10.1038/s41598-019-44121-6
  30. Mathias Currat; Miguel Arenas; Claudio S Quilodràn; Laurent Excoffier; Nicolas Ray. "SPLATCHE3: simulation of serial genetic data under spatially explicit evolutionary scenarios including long-distance dispersal". Bioinformatics 35 21 (2019): 4480-4483. https://doi.org/10.1093/bioinformatics/btz311.
    10.1093/bioinformatics/btz311
  31. Illera, Juan Carlos; Arenas, Miguel; López-Sánchez, Carlos A.; Obeso, José Ramón; Laiolo, Paola. "Gradual Distance Dispersal Shapes the Genetic Structure in an Alpine Grasshopper". Genes 10 8 (2019): 590. http://dx.doi.org/10.3390/genes10080590.
    10.3390/genes10080590
  32. Negredo, Ana; Habela, Miguel Ángel; Ramírez de Arellano, Eva; Diez, Francisco; Lasala, Fátima; López, Pablo; Sarriá, Ana; et al. "Survey of Crimean-Congo Hemorrhagic Fever Enzootic Focus, Spain, 2011–2015". Emerging Infectious Diseases 25 6 (2019): 1177-1184. http://dx.doi.org/10.3201/eid2506.180877.
    10.3201/eid2506.180877
  33. Pascual-García, Alberto; Arenas, Miguel; Bastolla, Ugo. "The Molecular Clock in the Evolution of Protein Structures". Systematic Biology 68 6 (2019): 987-1002. http://dx.doi.org/10.1093/sysbio/syz022.
    10.1093/sysbio/syz022
  34. Vicens, Alberto; Vinuesa, Pablo; Arenas, Miguel; Treviño, Claudia L.. "Analyzing the functional divergence of Slo1 and Slo3 channel subfamilies". Molecular Phylogenetics and Evolution 133 (2019): 33-41. http://dx.doi.org/10.1016/j.ympev.2018.12.026.
    10.1016/j.ympev.2018.12.026
  35. Catarina Branco; Miguel Velasco; Macarena Benguigui; Mathias Currat; Nicolas Ray; Miguel Arenas. "Consequences of diverse evolutionary processes on american genetic gradients of modern humans". Heredity 121 6 (2018): 548-556. https://doi.org/10.1038/s41437-018-0122-x.
    10.1038/s41437-018-0122-x
  36. Catarina Branco; Miguel Arenas. "Selecting among Alternative Scenarios of Human Evolution by Simulated Genetic Gradients". Genes 9 10 (2018): 506. https://doi.org/10.3390/genes9100506.
    Open access • 10.3390/genes9100506
  37. Jimenez-Santos, M.J.; Arenas, Miguel; Bastolla, U.. "Influence of mutation bias and hydrophobicity on the substitution rates and sequence entropies of protein evolution.". PeerJ 6 e5549 (2018): https://europepmc.org/articles/PMC6174885.
    Open access • 10.7717/peerj.5549
  38. Miguel Arenas; Natalia M. Araujo; Catarina Branco; Nadine Castelhano; Eduardo Castro-Nallar; Marcos Pérez-Losada. "Mutation and recombination in pathogen evolution: Relevance, methods and controversies". Infection, Genetics and Evolution 63 (2018): 295-306. https://doi.org/10.1016/j.meegid.2017.09.029.
    10.1016/j.meegid.2017.09.029
  39. Ramírez-Amaro, S.; Picornell, A.; Arenas, M.; Castro, J.A.; Massutí, E.; Ramon, M.M.; Terrasa, B.. "Contrasting evolutionary patterns in populations of demersal sharks throughout the western Mediterranean". Marine Biology 165 3 (2018): http://www.scopus.com/inward/record.url?eid=2-s2.0-85032992545&partnerID=MN8TOARS.
    10.1007/s00227-017-3254-2
  40. Oliveira, Manuela; Arenas, Miguel; Lage, O.; Cunha, M.; Amorim, M.I.. "Epiphytic fungal community in Vitis vinifera of the Portuguese wine regions.". Letters in applied microbiology 66 1 (2018): 93-102. http://europepmc.org/abstract/med/29139139.
    10.1111/lam.12826
  41. Perez-Losada, M.; Arenas, Miguel; Castro-Nallar, E.. "Microbial sequence typing in the genomic era". Infection, Genetics and Evolution 63 (2018): 346-359. http://europepmc.org/abstract/med/28943406.
    10.1016/j.meegid.2017.09.022
  42. Jimenez, María José; Arenas, Miguel; Bastolla, Ugo. "Substitution Rates Predicted by Stability-Constrained Models of Protein Evolution Are Not Consistent with Empirical Data". Molecular Biology and Evolution 35 3 (2017): 743-755. http://dx.doi.org/10.1093/molbev/msx327.
    10.1093/molbev/msx327
  43. João Pimenta; Alexandra M Lopes; David Comas; António Amorim; Miguel Arenas. "Evaluating the Neolithic Expansion at Both Shores of the Mediterranean Sea". Molecular Biology and Evolution 34 12 (2017): 3232-3242. https://doi.org/10.1093/molbev/msx256.
    10.1093/molbev/msx256
  44. Arenas, Miguel; Weber, C.C.; Liberles, D.; Bastolla, U.. "ProtASR: An Evolutionary Framework for Ancestral Protein Reconstruction with Selection on Folding Stability.". Systematic biology 66 6 (2017): 1054-1064. http://europepmc.org/abstract/med/28057858.
    10.1093/sysbio/syw121
  45. Nadine Castelhano; Natalia M. Araujo; Miguel Arenas. "Heterogeneous recombination among Hepatitis B virus genotypes". Infection, Genetics and Evolution 54 (2017): 486-490. https://doi.org/10.1016/j.meegid.2017.08.015.
    10.1016/j.meegid.2017.08.015
  46. Miguel Arenas; Filipe Pereira; Manuela Oliveira; Nadia Pinto; Alexandra M. Lopes; Veronica Gomes; Angel Carracedo; Antonio Amorim. "Forensic genetics and genomics: Much more than just a human affair". PLOS Genetics 13 9 (2017): e1006960. https://doi.org/10.1371/journal.pgen.1006960.
    Open access • 10.1371/journal.pgen.1006960
  47. Arenas, Miguel; Lorenzo-Redondo, R.; Lopez-Galindez, C.. "Influence of mutation and recombination on HIV-1 in vitro fitness recovery". Molecular Phylogenetics and Evolution 94 (2016): 264-270. http://europepmc.org/abstract/med/26358613.
    10.1016/j.ympev.2015.09.001
  48. Alves, I.; Arenas, M.; Currat, M.; Hanulova, A.S.; Sousa, V.C.; Ray, N.; Excoffier, L.. "Long-distance dispersal shaped patterns of human genetic diversity in Eurasia". Molecular Biology and Evolution 33 4 (2016): 946-958. http://www.scopus.com/inward/record.url?eid=2-s2.0-84964842720&partnerID=MN8TOARS.
    10.1093/molbev/msv332
  49. López-Bueno, A.; Rastrojo, A.; Peiró, R.; Arenas, Miguel; Alcamí, A.. "Ecological connectivity shapes quasispecies structure of RNA viruses in an Antarctic lake.". Molecular Ecology 24 19 (2015): 4812-4825. http://europepmc.org/abstract/med/26198078.
    10.1111/mec.13321
  50. Arenas, Miguel; Lopes, J.S.; Beaumont, M.A.; Posada, D.. "CodABC: a computational framework to coestimate recombination, substitution, and molecular adaptation rates by approximate Bayesian computation". Molecular Biology and Evolution 32 4 (2015): 1109-1112. http://europepmc.org/abstract/med/25577191.
    10.1093/molbev/msu411
  51. Arenas, Miguel. "Advances in Computer Simulation of Genome Evolution: Toward more Realistic Evolutionary Genomics Analysis by Approximate Bayesian Computation". Journal of Molecular Evolution 80 3-4 (2015): 189-192. http://europepmc.org/abstract/med/25808249.
    10.1007/s00239-015-9673-0
  52. Arenas, Miguel; Sanchez-Cobos, A.; Bastolla, U.. "Maximum likelihood phylogenetic inference with selection on protein folding stability". Molecular Biology and Evolution 32 8 (2015): 2195-2207. http://europepmc.org/abstract/med/25837579.
    10.1093/molbev/msv085
  53. Perez-Losada, M.; Arenas, Miguel; Galan, J.C.; Palero, F.; Gonzalez-Candelas, F.. "Recombination in viruses: mechanisms, methods of study, and evolutionary consequences". Infection, Genetics and Evolution 30 (2015): 296-307. http://europepmc.org/abstract/med/25541518.
    10.1016/j.meegid.2014.12.022
  54. Arenas, M.. "Trends in substitution models of molecular evolution". Frontiers in Genetics 6 OCT (2015): http://www.scopus.com/inward/record.url?eid=2-s2.0-84947071888&partnerID=MN8TOARS.
    Open access • 10.3389/fgene.2015.00319
  55. Arenas, Miguel. "Genetic consequences of antiviral therapy on HIV-1". Computational and Mathematical Methods in Medicine 2015 (2015): 1-9. http://www.scopus.com/inward/record.url?eid=2-s2.0-84934891659&partnerID=MN8TOARS.
    10.1155/2015/395826
  56. Arenas, Miguel; Posada, D.. "Simulation of genome-wide evolution under heterogeneous substitution models and complex multispecies coalescent histories". Molecular Biology and Evolution 31 5 (2014): 1295-1301. http://europepmc.org/abstract/med/24557445.
    10.1093/molbev/msu078
  57. Mona, S.; Ray, N.; Arenas, Miguel; Excoffier, L.. "Genetic consequences of habitat fragmentation during a range expansion". Heredity 112 (2014): 291-299. http://europepmc.org/abstract/med/24149654.
    10.1038/hdy.2013.105
  58. Lopes, J.S.; Arenas, Miguel; Posada, D.; Beaumont, M.A.. "Coestimation of recombination, substitution and molecular adaptation rates by approximate Bayesian computation". Heredity 112 (2014): 255-264. http://europepmc.org/abstract/med/24149652.
    10.1038/hdy.2013.101
  59. Benguigui, M.; Miguel Arenas. "Spatial and Temporal Simulation of Human Evolution. Methods, Frameworks and Applications". Current Genomics 15 4 (2014): 245-255. http://benthamscience.com/journal/abstracts.php?journalID=cg&articleID=122012.
    10.2174/1389202915666140506223639
  60. Arenas, Miguel; Dos Santos, H.G.; Posada, D.; Bastolla, U.. "Protein evolution along phylogenetic histories under structurally constrained substitution models". Bioinformatics 29 23 (2013): 3020-3028. http://europepmc.org/abstract/med/24037213.
    10.1093/bioinformatics/btt530
  61. Arenas, Miguel; François, O.; Currat, M.; Ray, N.; Excoffier, L.. "Influence of admixture and paleolithic range contractions on current European diversity gradients". Molecular Biology and Evolution 30 1 (2013): 57-61. http://europepmc.org/abstract/med/22923464.
    10.1093/molbev/mss203
  62. Arenas, Miguel. "The importance and application of the ancestral recombination graph". Frontiers in Genetics 4 206 (2013): http://europepmc.org/abstract/med/24133504.
    Open access • 10.3389/fgene.2013.00206
  63. Arenas, Miguel. "Computer programs and methodologies for the simulation of DNA sequence data with recombination". Frontiers in Genetics 4 9 (2013): http://europepmc.org/abstract/med/23378848.
    Open access • 10.3389/fgene.2013.00009
  64. Arenas, Miguel. "Simulation of molecular data under diverse evolutionary scenarios". PLoS Computational Biology 8 5 (2012): e1002495. http://europepmc.org/abstract/med/22693434.
    Open access • 10.1371/journal.pcbi.1002495
  65. Arenas, Miguel; Ray, N.; Currat, M.; Excoffier, L.. "Consequences of range contractions and range shifts on molecular diversity". Molecular Biology and Evolution 29 1 (2012): 207-218. http://europepmc.org/abstract/med/21778191.
    10.1093/molbev/msr187
  66. Perez-Losada, M.; Jobes, D.V.; Sinangil, F.; Crandall, K.A.; Arenas, Miguel; Posada, D.; Berman, P.W.. "Phylodynamics of HIV-1 from a phase III AIDS vaccine trial in Bangkok, Thailand". PLoS ONE 6 3 (2011): e16902. http://europepmc.org/abstract/med/21423744.
    Open access • 10.1371/journal.pone.0016902
  67. Arenas, Miguel; Posada, D.. "Computational design of centralized HIV-1 genes". Current HIV Research 8 8 (2010): 613-621. http://europepmc.org/abstract/med/21054255.
    10.2174/157016210794088263
  68. Arenas, Miguel; Posada, D.. "The effect of recombination on the reconstruction of ancestral sequences". Genetics 184 4 (2010): 1133-1139. http://europepmc.org/abstract/med/20124027.
    10.1534/genetics.109.113423
  69. Arenas, Miguel; Posada, D.. "Coalescent simulation of intracodon recombination". Genetics 184 2 (2010): 429-437. http://europepmc.org/abstract/med/19933876.
    10.1534/genetics.109.109736
  70. Arenas, Miguel; Patricio, M.; Posada, D.; Valiente, G.. "Characterization of phylogenetic networks with NetTest". BMC Bioinformatics 11 268 (2010): http://europepmc.org/abstract/med/20487540.
    Open access • 10.1186/1471-2105-11-268
  71. Arenas, Miguel; Villaverde, M.C.; Sussman, F.. "Prediction and analysis of binding affinities for chemically diverse HIV-1 PR inhibitors by the modified SAFE_p approach". Journal of Computational Chemistry 30 8 (2009): 1229-1240. http://europepmc.org/abstract/med/18988271.
    10.1002/jcc.21147
  72. Perez-Losada, Marcos; Posada, David; Arenas, Miguel; Jobes, D.V.; Sinangil, F.; Berman, P.W.; Crandall, K.A.. "Ethnic differences in the adaptation rate of HIV gp120 from a vaccine trial". Retrovirology 6 67 (2009): http://europepmc.org/abstract/med/19604405.
    Open access • 10.1186/1742-4690-6-67
  73. Arenas, Miguel; Valiente, Gabriel. "Characterization of reticulate networks based on the coalescent with recombination". Molecular Biology and Evolution 25 12 (2008): 2517-2520. http://europepmc.org/abstract/med/18927089.
    10.1093/molbev/msn219
  74. Arenas, Miguel. "Recodon: coalescent simulation of coding DNA sequences with recombination, migration and demography". BMC Bioinformatics 8 458 (2007): http://europepmc.org/abstract/med/18028540.
    Open access • 10.1186/1471-2105-8-458
Preprint
  1. Ivan Lorca; Miguel Arenas; Ugo Bastolla. "Structure and stability constrained substitution models outperform traditional substitution models used for evolutionary inference". 2023. https://doi.org/10.1101/2023.01.22.525075.
    10.1101/2023.01.22.525075

Other

Other output
  1. Selection among site-dependent structurally constrained substitution models of protein evolution by approximate Bayesian computation. 2024. David Ferreiro; Catarina Branco; Miguel Arenas. https://doi.org/10.1093/bioinformatics/btae096.
    10.1093/bioinformatics/btae096
Activities

Oral presentation

Presentation title Event name
Host (Event location)
2022/03/25 Evolutionary fluctuations of the HIV-1 protease folding stability 19th Meeting Portugaliæ Genetica
I3S (Porto, Portugal)
2020/07/10 Ancestral reconstruction of protein sequences accounting for fitness based on structural constraints Seminar
Instituto Gulbenkian de Ciência (Lisbon, Portugal)
2018/10/31 Investigating the evolution of Paleolithic and Neolithic populations of North Africa and Philippines Seminar
University of Geneve (Geneve, Switzerland)
2018/10/30 The coalescent and its applications for the evolutionary analysis of genetic data Seminar
Swiss Federal Institute of Technology Zurich (ETH Basel) (Basel, Switzerland)
2018/10/29 Deciphering migration routes with approximate Bayesian computation based on spatially-explicit computer simulations Seminar
University of Bern (Bern, Switzerland)
2018/03/22 Accounting for protein stability in sequence evolution: Applications to Phylogenetics 18th Meeting Portugaliæ Genetica
I3S (Porto, Portugal)
2016/02/15 Human Evolutionary Analysis based on Computer Simulations of Genetic Data Seminar
Universidad de Oviedo (Oviedo, Spain)
2015/02/13 Simulaciones computacionales para el análisis evolutivo de datos genéticos Seminar
Universidad Complutense de Madrid (Madrid, Spain)
2013/06/05 Simulation of molecular evolution. Methods and applications Informal Meeting of Computational Biology Groups at the Autonomous University of Madrid (COMP-BIOL)
CSIC / UAM (Madrid, Spain)
2012/02/22 Simulation of Molecular Data by the coalescent with recombination, migration and demographics Seminar
Swiss Federal Institute of Technology Zurich (ETH Zurich) (Zurich, Switzerland)
2011/02/10 Consequences of Range Contractions and Range Shifts on Molecular Diversity Seminar
University of Grenoble (Grenoble, France)
2010/10/04 Applications of the coalescent with recombination in molecular evolution Seminar
University of Bern (Bern, Switzerland)
2009/11/03 Coalescent simulation of coding sequences with recombination, migration, selection, demographics and longitudinal sampling Jornadas de Bioinformática 2009
Gulbenkian Foundation (Lisbon, Portugal)

Supervision

Thesis Title
Role 		Degree Subject (Type)
Institution / Organization
2020 - Current Monitoring the evolution of drug targets of pathogens to improve the design of therapies
Supervisor
 Genetics (PhD)
Universidade de Vigo, Spain
2023 - 2033 Influencia de los modelos empíricos de sustitución de aminoácidos sobre la estabilidad de las proteínas modeladas
Supervisor
 Master degree (Master)
Universidade de Vigo, Spain
2018 - 2022/09/09 Influence of the last glacial period on the genetic diversity of modern humans
Supervisor
 Genetics (PhD)
Universidade de Vigo, Spain
2021 - 2022 Evolución molecular del SARS-CoV-2 en Galicia
Co-supervisor
 Genetics (Master)
Universidade de Vigo, Spain
2021 - 2022 Identificación de la estabilidad de proteínas diana del VIH-1 en presencia y ausencia de mutaciones de resistencia
Supervisor
 Molecular Biology (Degree)
Universidade de Vigo, Spain
2018 - 2021/07/22 Development and applications of protein models of evolution
Supervisor
 Genetics (PhD)
Universidade de Vigo, Spain
2020 - 2021 Evolución de la estabilidad proteica diana en las terapias contra el VIH-1
Supervisor
 Genetics (Master)
Universidade de Vigo, Spain
2020 - 2021 Análisis de recombinación a lo largo del genoma del SARS-CoV-2
Supervisor
 Genetics (Degree)
Universidade de Vigo, Spain
2020 - 2021 Influencia de los modelos de substitución en la reconstrucción de secuencias ancestrales
Supervisor
 Genetics (Degree)
Universidade de Vigo, Spain
2019 - 2020 Deciphering evolutionary relationships among populations of modern humans from Southeast Asia
Supervisor
 Genetics (Degree)
Universidade de Vigo, Spain
2018 - 2019 Influencia de diversos procesos evolutivos en los gradientes genéticos de humanos de la Península Ibérica
Supervisor
 Genetics (Master)
Universidade de Vigo, Spain
2018 - 2019 Influencia de diversos procesos evolutivos en los gradientes genéticos de humanos de la Península Ibérica
Supervisor
 Genetics (Degree)
Universidade de Vigo, Spain
2015 - 2018/12/11 Human Migrations and Population Dynamics in the Western Mediterranean: from the Neolithic to the present
Co-supervisor
 Genetics (PhD)
Universidade do Porto, Portugal
2017 - 2018 Influencia de la recombinación en la estabilidad estructural de proteínas
Supervisor
 Genetics (Degree)
Universidade de Vigo, Spain
2016 - 2017 Consequences of admixture and LGM on current genetic diversity gradients of American humans
Supervisor
 Genetics (Master)
Universidade de Trás-os-Montes e Alto Douro, Portugal
2014 - 2015 Análisis de complejos escenarios evolutivos de Colonización de América por humanos del Paleolítico
Supervisor
 Genetics (Master)
Universidad Autónoma de Madrid, Spain
2014 - 2015 Análisis de la colonización humana de las islas Filipinas mediante aproximaciones Bayesianas computacionales
Co-supervisor
 Genetics (Master)
Universidad Complutense de Madrid, Spain
2013 - 2014 Protein evolution along phylogenetic histories under structurally constrained substitution models. Mean-Field approximation
Co-supervisor
 Genetics (Master)
Universidad Autónoma de Madrid, Spain
2013 - 2014 Simulaciones computacionales de escenarios evolutivos de la Colonización de América
Supervisor
 Genetics (Master)
Universidad Autónoma de Madrid, Spain

Event organisation

Event name
Type of event (Role) 		Institution / Organization
2022/02/02 - 2022/02/04 VIII Bienal Congress of the Spanish Society for Evolutionary Biology (2022/02/02 - 2022/02/04)
Congress (Member of the Organising Committee)
 Universidade de Vigo, Spain
2022/02/02 - 2022/02/04 Organizing and scientific committee of the "VIII Bienal Congress of the Spanish Society for Evolutionary Biology" (2022/02/02 - 2022/02/04)
Congress (Member of the Organising Committee)
 Universidade de Vigo - Campus Lagoas Marcosende, Spain
2019/07/01 - 2019/07/02 3rd Annual Meeting CINBIO. Vigo (Spain). (2019/07/01 - 2019/07/02)
Meeting (Co-organisor)
 Universidade de Vigo Centro de Investigaciones Biomédicas, Spain
2016/03/17 - 2016/03/18 17th Meeting Portugaliæ Genetica. Porto (Portugal) (2016/03/17 - 2016/03/18)
Meeting (Co-organisor)
 Universidade do Porto Instituto de Patologia e Imunologia Molecular, Portugal

Jury of academic degree

Topic
Role 		Candidate name (Type of degree)
Institution / Organization
2022/06/14 Biomedical anthropology high-throughput investigation of natural selection and susceptibility to diseases in the Arabian Peninsula
(Thesis) Main arguer
 Joana Catarina da Rocha Ferreira (PhD)
Universidade do Porto, Portugal
2022/01/25 Impact of HIV-1 genetic diversity on the interaction with host cells
(Thesis) Main arguer
 Ana Alexandra de Portugal dos Santos Pereira (PhD)
Universidade do Minho, Portugal

Course / Discipline taught

Academic session Degree Subject (Type) Institution / Organization
2020/07/27 - 2020/07/29 Nuevas perspectivas en la evolución de los genes y proteínas Genetics (Postgraduate Certificate) Universidad de Zaragoza, Spain
2018/10/26 - 2018/10/26 Cycle of Workshops in Forensic Genetics: PHYLOGENETICS: THEORETICAL CONCEPTS Genetics (Pós-Graduação) Universidade do Porto, Portugal

Interview (newspaper / magazine)

Activity description Newspaper / Forum
2021/12/10 Project “Divulgación virtual de biología a la sociedad” in Biology. Diario da Universidade de Vigo
2019/12/21 Project funded by BBVA fundation on human genetics Faro de Vigo
2016/11/24 Ramon y Cajal fellowship Faro de Vigo
2016/02/16 Human evolution La Nueva España
2015/10/25 Galician researchers working abroad Faro de Vigo

Other jury / evaluation

Activity description Institution / Organization
2015 - Current Evaluator for funding agencies of research scientific projects: Agencia Nacional de Evaluación y Prospectiva (ANEP-ANECA). España. BiodivERsA (ERA-NET Co-fund, EU H2020 Framework Programme for Research and Innovation). The Biotechnology and Biological Sciences Research Council (BBSRC). UK. The French National Research Agency (ANR). France. National Science Centre of Poland (NSC). Poland. Foundation Flanders, European Science Foundation (FWO). Belgium. Universidad de Las Americas (UDLA). Ecuador. DC CFAR Pilot Awards Program. USA.
2021 - 2021 Jury of works for end of Master. Master in Genomics and Genetics Universidade de Vigo, Spain
2020 - 2020 Jury of works for end of Master. Master in Genomics and Genetics Universidade de Vigo, Spain
2019 - 2019 Jury of works for end of Degree in Biology Universidade de Vigo, Spain
Distinctions

Other distinction

2021 Group leader - "Computational Molecular Evolution" at CINBIO
Universidade de Vigo Centro de Investigaciones Biomédicas, Spain
2017 Ramon y Cajal Grant
2015 FCT Starting Grant
2014 EMBO Short Term Fellowship (2.5 months in The University of Wyoming, USA)
2012 PostDoctoral Fellowship "Juan de la cierva" (3 years)
2010 Best Thesis Award. Best Thesis of the University of Vigo in 2010
Universidade de Vigo, Spain
2009 Fellowship for research stay (2 months in the University of Reading, UK)
2008 Fellowship for research stay (3 months in the Brigham Young University, USA)
2007 Fellowship for research stay (3 months in the Instituto de Salud Carlos III, Spain)
2005 PhD student Fellowship "FPI" (4 years)