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Francisco Alberto Cubillos Riffo

Investigador Asociado

Universidad de Santiago de Chile

Santiago, Chile

Genética de Poblaciones Genética Cuantitativa Bioinformática Microbiología Levaduras

Genética, UNIVERSITY OF NOTTINGHAM. Reino Unido, 2010
Ciencias, UNIVERSIDAD DE CHILE. Chile, 2008
Ingeniero en Biotecnología Molecular, UNIV.COLUMBUS. Chile, 2007

Investigador Asociado Full Time

UNIVERSIDAD DE SANTIAGO DE CHILE

Santiago, Chile

2013 - A la fecha

Post-doc Full Time

INRA Versailles

Versailles, Francia

2011 - 2013

- Dirección de 10 tesis de pregrado
- Dirección de 2 tesis de postgrado
- Dirección de 4 Post-doctorados

La difusión se ha realizado a través de
- Charla Nerd Nights
- Aparición en Futuro360 CNN
- TV Valdivia
- Emol
- Noticiario CHV
- Mega+ programa Tendencias
- Charla Festival 'Cambalache', USACH

Mejor Alumno Licenciatura en Biotecnología Molecular

UNIVERSIDAD DE CHILE

Chile, 2006

Reconocimiento al mejor promedio de notas de la generación 2006
University Endowed Postgraduate Prize

UNIVERSITY OF NOTTINGHAM

Reino Unido, 2010

Premio a los mejores 10 alumnos de post-grado en la Universidad de Nottingham


An Out-of-Patagonia migration explains the worldwide diversity and distribution of Saccharomyces eubayanus lineages Nespolo, Roberto F.; Villarroel, Carlos A.; Oporto, Christian, I; Tapia, Sebastian M.; Vega-Macaya, Franco; Urbina, Kamila; De Chiara, Matteo; Mozzachiodi, Simone; Mikhalev, Ekaterina; Thompson, Dawn; Larrondo, Luis F.; Saenz-Agudelo, Pablo; Liti, Gianni; Cubillos, Francisco A Article ISI PLOS GENETICS (2020)
Fungal Diversity Analysis of Grape Musts from Central Valley-Chile and Characterization of Potential New Starter Cultures Mandakovic, Dinka; Pulgar, Rodrigo; Maldonado, Jonathan; Mardones, Wladimir; González, Mauricio; Cubillos, Francisco A; Cambiazo, Verónica Article MICROORGANISMS (2020)
Into the wild: new yeast genomes from natural environments and new tools for their analysis Libkind D.; Peris D.; Cubillos F.A.; Steenwyk J.L.; Opulente D.A.; Langdon Q.K.; Rokas A.; Hittinger C.T. Article SCOPUS FEMS yeast research (2020)
Molecular profiling of beer wort fermentation diversity across natural Saccharomyces eubayanus isolates Mardones, Wladimir; Villarroel, Carlos A.; Krogerus, Kristoffer; Tapia, Sebastian M.; Urbina, Kamila; Oporto, Christian I.; O'Donnell, Samuel; Minebois, Romain; Nespolo, Roberto; Fischer, Gilles; Querol, Amparo; Gibson, Brian; Cubillos, Francisco A Article ISI MICROBIAL BIOTECHNOLOGY (2020)
Performance, genomic rearrangements, and signatures of adaptive evolution: Lessons from fermentative yeasts Nespolo, Roberto F.; Solano?Iguaran, Jaiber J.; Paleo?López, Rocío; Quintero?Galvis, Julian F.; Cubillos, Francisco A; Bozinovic, Francisco Article ECOLOGY AND EVOLUTION (2020)
Transcriptional Activity and Protein Levels of Horizontally Acquired Genes in Yeast Reveal Hallmarks of Adaptation to Fermentative Environments Devia, Joaquin; Bastias, Camila; Kessi-Perez, Eduardo I.; Villarroel, Carlos A.; De Chiara, Matteo; Cubillos, Francisco A; Liti, Gianni; Martinez, Claudio; Salinas, Francisco Article ISI FRONTIERS IN GENETICS (2020)
Volatile Compound Screening Using HS-SPME-GC/MS on Saccharomyces eubayanus Strains under Low-Temperature Pilsner Wort Fermentation Urbina, Kamila; Villarreal, Pablo; Nespolo, Roberto F.; Salazar, Ricardo; Santander, Rocio; Cubillos, Francisco A Article MICROORGANISMS (2020)
Distinct Transcriptional Changes in Response to Patulin Underlie Toxin Biosorption Differences in Saccharomyces cerevisiae Oporto, Christian I.; Villarroel, Carlos A.; Tapia, Sebastian M.; Garcia, Veronica; Cubillos, Francisco A Article ISI SCOPUS Toxins (2019)
Genetic variants of TORC1 signaling pathway affect nitrogen consumption in Saccharomyces cerevisiae during alcoholic fermentation Molinet, Jennifer; Cubillos, Francisco A; Salinas, Francisco; Liti, Gianni; Martínez, Claudio; Schacherer, Joseph Article ISI SCOPUS PLOS ONE (2019)
Adaptability of the Saccharomyces cerevisiae yeasts to wine fermentation conditions relies on their strong ability to consume nitrogen Brice, Claire; Cubillos, Francisco A; Dequin, Sylvie; Camarasa, Carole; Martinez, Claudio Article ISI SCOPUS PLOS ONE (2018)
GPD1 and ADH3 Natural Variants Underlie Glycerol Yield Differences in Wine Fermentation Tapia, Sebastián M.; Cuevas, Mara; Abarca, Valentina; Delgado, Verónica; Rojas, Vicente; García, Verónica; Brice, Claire; Martínez, Claudio; Salinas, Francisco; Larrondo, Luis F.; Cubillos, Francisco A Article ISI SCOPUS FRONTIERS IN MICROBIOLOGY (2018)
Genetic basis of mycotoxin susceptibility differences between budding yeast isolates Quispe X.; Tapia S.M.; Villarroel C.; Oporto C.; Abarca V.; García V.; Martínez C.; Cubillos F.A. Article ISI SCOPUS SCIENTIFIC REPORTS (2017)
Genomics Perspectives on Metabolism, Survival Strategies, and Biotechnological Applications of Brettanomyces bruxellensis LAMAP2480. Godoy, Liliana; Silva-Moreno, Evelyn; Mardones, Wladimir; Guzman, Darwin; Cubillos, Francisco A; Ganga, Angélica Article Journal of molecular microbiology and biotechnology (2017)
Identification of Nitrogen Consumption Genetic Variants in Yeast Through QTL Mapping and Bulk Segregant RNA-Seq Analyses Cubillos F.A.; Brice C.; Molinet J.; Tisné S.; Abarca V.; Tapia S.M.; Oporto C.; García V.; Liti G.; Martínez C. Article ISI SCOPUS G3-GENES GENOMES GENETICS (2017)
Natural gene expression variation studies in yeast Thompson, Dawn A.; Cubillos, Francisco A. Article ISI SCOPUS YEAST (2017)
Exploiting budding yeast natural variation for industrial processes Cubillos F.A. Article ISI SCOPUS Current Genetics (2016)
Natural variation in non-coding regions underlying phenotypic diversity in budding yeast Salinas, F.; de Boer, CG; Abarca, V; garcia, v; Cuevas, M; Araos S.; Larrondo, LF; Martínez C; Cubillos, FA Article ISI SCOPUS SCIENTIFIC REPORTS (2016)
RIM15 antagonistic pleiotropy is responsible for differences in fermentation and stress response kinetics in budding yeast Kessi-Pérez E.I.; Araos S.; garcia, v; Salinas, F.; Abarca, V; Larrondo, L.F.; Martínez C; Cubillos F.A. Article ISI SCOPUS FEMS Yeast Research (2016)
Draft genome sequence and transcriptome analysis of the wine spoilage yeast Dekkera bruxellensis LAMAP2480 provides insights into genetic diversity, metabolism and survival Valdés J.; Tapia, P; Cepeda, V.; Varela, J; GODOY, L.; Cubillos F.A.; Silva, E.; Martínez C; Ganga, M.A Article SCOPUS FEMS MICROBIOLOGY LETTERS (2015)
Extensive cis-Regulatory Variation Robust to Environmental Perturbation in Arabidopsis Cubillos, FA; Stegle, O; Grondin, C; Canut, M; Tisne, S; Gy I.; Loudet O. Article ISI SCOPUS PLANT CELL (2014)
Mapping Genetic Variants Underlying Differences in the Central Nitrogen Metabolism in Fermenter Yeasts Jara M.; Cubillos, FA; garcia, v; Salinas, F.; Aguilera, O; Liti, G; Martínez C Article ISI PLOS ONE (2014)
SHOOT GROWTH1 maintains arabidopsis epigenomes by regulating IBM1 Coustham V.; Vlad D.; Deremetz A.; Gy I.; Cubillos F.A.; Kerdaffrec E.; Loudet O.; Bouché N. Article SCOPUS PLOS ONE (2014)
High quality de novo sequencing and assembly of the Saccharomyces arboricolus genome Liti, Gianni; Ba, Alex N Nguyen; Blythe, Martin; Müller, Carolin A; Bergström, Anders; Cubillos, Francisco A; Dafhnis-Calas, Felix; Khoshraftar, Shima; Malla, Sunir; Mehta, Neel; Siow, Cheuk C; Warringer, Jonas; Moses, Alan M; Louis, Edward J; Nieduszynski, Conrad A Article BMC GENOMICS (2013)
High-Resolution Mapping of Complex Traits with a Four-Parent Advanced Intercross Yeast Population Cubillos, FA; Parts, L; Salinas, F.; Bergstrom, A; Scovacricchi, E; Zia, A; Illingworth, CJR; Mustonen, V; Ibstedt, S; Warringer, J; Louis, EJ; Durbin, R; Liti, G Article ISI SCOPUS Genetics (2013)
Expression variation in connected recombinant populations of Arabidopsis thaliana highlights distinct transcriptome architectures Cubillos, Francisco A; Yansouni, Jennifer; Khalili, Hamid; Balzergue, Sandrine; Elftieh, Samira; Martin-Magniette, Marie-Laure; Serrand, Yann; Lepiniec, Loic; Baud, Sebastien; Dubreucq, Bertrand; Renou, Jean-Pierre; Camilleri, Christine; Loudet, Olivier Article BMC GENOMICS (2012)
Lessons from eQTL mapping studies: non-coding regions and their role behind natural phenotypic variation in plants Cubillos, Francisco A; Coustham, Vincent; Loudet, Olivier Article Current Opinion in Plant Biology (2012)
Life History Shapes Trait Heredity by Accumulation of Loss-of-Function Alleles in Yeast Zorgo, E.; Gjuvsland, A.; Cubillos, F. A.; Louis, E. J.; Liti, G.; Blomberg, A.; Omholt, S. W.; Warringer, J. Article Molecular Biology and Evolution (2012)
The Genetic Basis of Natural Variation in Oenological Traits in Saccharomyces cerevisiae Salinas, F.; Cubillos F.A.; Soto, D; garcia, v; Bergstrom, A; Warringer, J; Ganga, M.A; Louis E.J.; Liti, G; Martínez C Article ISI SCOPUS PLOS ONE (2012)
Assessing the complex architecture of polygenic traits in diverged yeast populations Cubillos, Francisco A.; BILLI, ELEONORA; ZÖRGÖ, ENIKÖ; Parts, Leopold; FARGIER, PATRICK; OMHOLT, STIG; BLOMBERG, ANDERS; Warringer, Jonas; Louis, Edward J.; Liti, Gianni Article MOLECULAR ECOLOGY (2011)
Revealing the genetic structure of a trait by sequencing a population under selection Parts, Leopold; Cubillos, Francisco A; Warringer, Jonas; Jain, Kanika; Salinas, Francisco; Bumpstead, Suzannah J.; Molin, Mikael; Zia, Amin; Simpson, Jared T.; Quail, Michael A.; Moses, Alan; Louis, Edward J.; Durbin, Richard; Liti, Gianni Article ISI GENOME RESEARCH (2011)
Trait Variation in Yeast Is Defined by Population History Warringer, Jonas; Zörgö, Enikö; Cubillos, Francisco A.; Zia, Amin; Gjuvsland, Arne; Simpson, Jared T.; Forsmark, Annabelle; Durbin, Richard; Omholt, Stig W.; Louis, Edward J.; Liti, Gianni; Moses, Alan; BLOMBERG, ANDERS; Kruglyak, Leonid Article PLOS GENETICS (2011)
Generation of a large set of genetically tractable haploid and diploid Saccharomyces âstrains Cubillos, Francisco A.; Louis, Edward J.; Liti, Gianni Article FEMS yeast research (2009)
Segregating YKU80 and TLC1 Alleles Underlying Natural Variation in Telomere Properties in Wild Yeast Liti, Gianni; Haricharan, Svasti; Cubillos, Francisco A.; Tierney, Anna L.; Sharp, Sarah; Bertuch, Alison A.; Parts, Leopold; Bailes, Elizabeth; Louis, Edward J.; Kruglyak, Leonid Article PLOS GENETICS (2009)
Self-fertilization is the main sexual reproduction mechanism in native wine yeast populations Cubillos, FA; Vásquez C.; Faugeron, S; Ganga A.; Martínez C Article ISI SCOPUS FEMS MICROBIOLOGY ECOLOGY (2009)


Genomic and physiological Characterization of ethanol-‐producing yeast populations From Patagonia PCI (ECOS180003) Proyecto 2019-2022 Inv. Principal
Identification of the molecular bases of adaptation to brewing conditions of native S. eubayanus FONDECYT (3190532) Proyecto 2019-2022 Inv. Patrocinante
Aislamiento y caracterización de una cepa de levadura nativa para la cervecería artesanal de la Región de Los Ríos FIC-GORE (FIC-GORE) Proyecto 2018-2020 Coinvestigador(a)
Decoding the genomic and phenomic complexity of the cryotolerant yeast Saccharomyces eubayanus FONDECYT (1180161) Proyecto 2018-2021 Inv. Principal
Millennium Institute for Integrative Systems and Synthetic Biology Iniciativa Científica Milenio (MIISSB) Proyecto 2018-2028 Inv. Principal
Biochemical and molecular responses disclose mechanisms of Antarctic macroalgae to thrive under Climate Change INACH (RT_09_16) Proyecto 2017-2020 Coinvestigador(a)
GENETIC VARIATION IN TRANSCRIPTION FACTOR BINDING SITES UNDERLYING NITROGEN ASSIMILATION DIFFERENCES IN YEAST ISOLATES FONDECYT (3170404) Proyecto 2017-2020 Inv. Patrocinante
Millennium Nucleus for Fungal Integrative and Synthetic Biology Iniciativa Científica Milenio (MN-FISB 120043) Proyecto 2017-2017 Coinvestigador(a)
Applied yeast genetics for food products PCI (150077) Proyecto 2016-2017 Inv. Principal
Biochemical and molecular responses disclose mechanisms of Antarctic macroalgae to thrive under Climate Change Claudio Saez; Francisco A. Cubillos Proyecto (2016)
IDENTIFICATION OF NATURAL GENETIC VARIANTS UNDERLYING NITROGEN ASSIMILATION DIVERSITY IN YEAST FONDECYT (1150522) Proyecto 2015-2019 Coinvestigador(a)
QUANTITATIVE GENETIC ANALYSIS OF THE RESPONSE TO MYCOTOXINS IN YEAST FONDECYT (11140097) Proyecto 2014-2017 Inv. Responsable
Establecimiento de sistemas sustentables para el control del proceso de producción de Vino Pajarete de la Provincia del Huasco, para fortalecer su identidad local GORE Atacama Proyecto 2013-2014 Coinvestigador(a)
Estudio de las variantes regulatorias que subyacen la diversidad natural en Saccharomyces cerevisiae PAI (82130010) Proyecto 2013-2015 Inv. Principal
Identification of allelic variants underlying Nitrogen Metabolism in yeast through an integrative BS-RNA seq approach PCI (C13B02) Proyecto 2013-2015 Inv. Principal
Decoding the complexity of quantitative natural variation in Arabidopsis thaliana European Research Council Proyecto 2010-2015 Personal técnico y/o de apoyo
Exploiting natural genetic variation to map QTLs of telomere properties in Yeast=> Length silencing ageing and senescence BBSRC Project Grant Proyecto 2008-2011 Personal técnico y/o de apoyo
Telomeres and subtelomeres in yeast Welcome Trust Project Grant Proyecto 2008-2011 Personal técnico y/o de apoyo
GENOMICA ESTRUCTURAL EN AISLADOS NATIVOS DE LEVADURAS DE INTERES ENOLOGICO FONDECYT (1040099) Proyecto 2004-2007 Personal técnico y/o de apoyo


Bioprospecting for brewers: Exploiting natural diversity for naturally diverse beers Cubillos F.A.; Gibson B.; Grijalva-Vallejos N.; Krogerus K.; Nikulin J. Review ISI SCOPUS YEAST (2019)