Evolution and Development (Evo-Devo)

Institute of Biomedicine (IBUB)

Principal investigator: Dr. Jordi Garcia-Fernàndez PostDoc: Dr. Enrique Navas-Pérez PhD Student: Mr. Carlos Herrera Úbeda

http://www.ub.edu/genetica/evo-devo/garcia.htm

Contact e-mail: jordigarcia@ub.edu

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Current
Research

Biology in general and Developmental Evolution in particular are living a revolution after the accumulating amount of available genome data. This permits comparative analyses in a growing range of species, not only at the gene coding level as before, but also of cis-regulatory elements for gene regulation, transcriptomics to identify splicing events, and genome architecture to identify synteny and gene clustering. It is therefore possible to study any given aspect not from a single gene point of view, but with a system level approach, which includes the analyses of gene networks and interconnected processes in a range of species. Then, top-down (systems biology) and bottom-up approaches (molecular biology) are integrating, where both approaches meet, the cellular level.

Our group addresses this middle ground by analysing several kinds of genome changes that may have been implicated in the genesis and increase in complexity, particulary but not exclusively, of one of the most complex cellular structures in life, the vertebrate (and mammalian) nervous system. We take advantage of the bulk genome data available for key phylogenetic species, as well as the availability of embryos and manipulation techniques in a range of models, e.g., amphioxus, zebrafish, mouse to study, among others i) changes in transcriptional regulation of gene networks, ii) changes in alternative splicing-regulated networks, and iii) gene clustering by tandem gene duplication, iv) lncRNAs, v) RNA editing. From our data, several research lines purely biomedical arose in the past hence will do in the future.

Selected
Publications

Amphioxus functional genomics and the origins of vertebrate gene regulation. Marletaz F, Firbas PN, Maeso I, Tena J, Bogdanovic O, Perry M, Wyatt CDR, de la Calle-Mustienes E, Bertrand S, Burguera D , Acemel RD, van Heeringen SJ, Naranjo S, Herrera-Ubeda C, Skvortsova K, Jimenez-Gancedo S, Aldea D, Marquez Y, Buono L,Kozmikova I, Permanyer J, Louis A, Albuixech-Crespo B, Le Petillon Y, Florian AL, Subirana L, Duckett PE, Farahani E, Aury JM, Mangenot S, Wincker P, Albalat R, Benito-Gutiérrez E, Cañestro C, Castro F, D’Aniello S, Ferrier DEK, Huang S, Laudet V, Marais GAB, Pontarotti P, Schubert M, Seitz H, Somorjai I, Takahashi T, Mirabeau O, Xu A, Yu JK, Carninci P, Martinez-Morales JR, Crollius HR, Kozmik Z, Weirauch M, Garcia-Fernàndez J, Lister R , Lenhard B, Holland PWH, Escriva H, Gómez-Skarmeta JL, IrimiaM. Nature (in the press)

Characterization of the TLR family in Branchiostoma lanceolatum and discovery of a novel TLR22-like involved in dsRNA recognition in amphioxus. Ji, J.; Ramos-Vicente, D.; Navas, E.; Herrera-Úbeda, C.; Lizcano, JL; Garcia-Fernàndez, J.; Escriva, H.; Bayés, A.; Roher, N. Frontiers in Immunology 9: 02525 (2018)

Burguera D.; Marquez Y.; Racioppi C.; Permanyer J.; Torres-Méndez A.; Esposito R.; Albuixech-Crespo B.; Fanlo L.; D’Agostino Y.; Gohr A.; Navas-Perez E.; Riesgo A.; Cuomo C.; Benvenuto G.; Christiaen LA.; Martí E.; D’Aniello S.; Spagnuolo A.; Ristoratore F.; Arnone MI.; Garcia-Fernàndez J.; Irimia M. Evolutionary recruitment of flexible Esrp-dependent splicing programs into diverse embryonic morphogenetic processes. Nature Communications 8:, 1799 (2017)

Albuixech-Crespo B.; López-Blanch L.; Burguera D.; Maeso I.; Sánchez-Arrones L.; Moreno-Bravo JA.; Somorjai I.; Pascual-Anaya J.; Puelles E.; Bovolenta P.; Garcia-Fernàndez J.; Puelles L.; Irimia M.; Ferran JL. Molecular regionalization of the developing amphioxus neural tube challenges major partitions of the vertebrate brain.PLoS Biology 15:4, e2001573 (2017)

Origin and evolution of the chordate central nervous system: insights from amphioxus genoarchitecture. Albuixech-Crespo, B.; Herrera-Úbeda, C.; Marfany, G.; Irimia, M.; Garcia-Fernàndez, J. Int J Dev Biol 61, 655-664 (2017)

Selected
Publications

Amphioxus functional genomics and the origins of vertebrate gene regulation.

Author

Identification

Marletaz F, Firbas PN, Maeso I, Tena J, Bogdanovic O, Perry M, Wyatt CDR, de la Calle-Mustienes E, Bertrand S, Burguera D , Acemel RD, van Heeringen SJ, Naranjo S, Herrera-Ubeda C, Skvortsova K, Jimenez-Gancedo S, Aldea D, Marquez Y, Buono L,Kozmikova I, Permanyer J, Louis A, Albuixech-Crespo B, Le Petillon Y, Florian AL, Subirana L, Duckett PE, Farahani E, Aury JM, Mangenot S, Wincker P, Albalat R, Benito-Gutiérrez E, Cañestro C, Castro F, D’Aniello S, Ferrier DEK, Huang S, Laudet V, Marais GAB, Pontarotti P, Schubert M, Seitz H, Somorjai I, Takahashi T, Mirabeau O, Xu A, Yu JK, Carninci P, Martinez-Morales JR, Crollius HR, Kozmik Z, Weirauch M, Garcia-Fernàndez J, Lister R , Lenhard B, Holland PWH, Escriva H, Gómez-Skarmeta JL, IrimiaM. Nature (in the press)

Author

Identification

Characterization of the TLR family in Branchiostoma lanceolatum and discovery of a novel TLR22-like involved in dsRNA recognition in amphioxus. Ji, J.; Ramos-Vicente, D.; Navas, E.; Herrera-Úbeda, C.; Lizcano, JL; Garcia-Fernàndez, J.; Escriva, H.; Bayés, A.; Roher, N. Frontiers in Immunology 9: 02525 (2018)

Author

Identification

Burguera D.; Marquez Y.; Racioppi C.; Permanyer J.; Torres-Méndez A.; Esposito R.; Albuixech-Crespo B.; Fanlo L.; D’Agostino Y.; Gohr A.; Navas-Perez E.; Riesgo A.; Cuomo C.; Benvenuto G.; Christiaen LA.; Martí E.; D’Aniello S.; Spagnuolo A.; Ristoratore F.; Arnone MI.; Garcia-Fernàndez J.; Irimia M. Evolutionary recruitment of flexible Esrp-dependent splicing programs into diverse embryonic morphogenetic processes. Nature Communications 8:, 1799 (2017)

Author

Identification

Albuixech-Crespo B.; López-Blanch L.; Burguera D.; Maeso I.; Sánchez-Arrones L.; Moreno-Bravo JA.; Somorjai I.; Pascual-Anaya J.; Puelles E.; Bovolenta P.; Garcia-Fernàndez J.; Puelles L.; Irimia M.; Ferran JL. Molecular regionalization of the developing amphioxus neural tube challenges major partitions of the vertebrate brain. PLoS Biology 15:4, e2001573 (2017)

Author

Identification

Origin and evolution of the chordate central nervous system: insights from amphioxus genoarchitecture. Albuixech-Crespo, B.; Herrera-Úbeda, C.; Marfany, G.; Irimia, M.; Garcia-Fernàndez, J. Int J Dev Biol 61, 655-664 (2017)

Author

Identification