17 results on '"Gómez-Garrido, Jessica"'
Search Results
2. Massive gene presence-absence variation shapes an open pan-genome in the Mediterranean mussel
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Gerdol, Marco, Moreira, Rebeca, Cruz, Fernando, Gómez-Garrido, Jessica, Vlasova, Anna, Rosani, Umberto, Venier, Paola, Naranjo-Ortiz, Miguel A., Murgarella, Maria, Greco, Samuele, Balseiro, Pablo, Corvelo, André, Frias, Leonor, Gut, Marta, Gabaldón, Toni, Pallavicini, Alberto, Canchaya, Carlos, Novoa, Beatriz, Alioto, Tyler S., Posada, David, and Figueras, Antonio
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- 2020
- Full Text
- View/download PDF
3. Genomic adaptations to aquatic and aerial life in mayflies and the origin of insect wings
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Almudi, Isabel, Vizueta, Joel, Wyatt, Christopher D. R., de Mendoza, Alex, Marlétaz, Ferdinand, Firbas, Panos N., Feuda, Roberto, Masiero, Giulio, Medina, Patricia, Alcaina-Caro, Ana, Cruz, Fernando, Gómez-Garrido, Jessica, Gut, Marta, Alioto, Tyler S., Vargas-Chavez, Carlos, Davie, Kristofer, Misof, Bernhard, González, Josefa, Aerts, Stein, Lister, Ryan, Paps, Jordi, Rozas, Julio, Sánchez-Gracia, Alejandro, Irimia, Manuel, Maeso, Ignacio, and Casares, Fernando
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- 2020
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- View/download PDF
4. High ambient temperature impacts on flowering time in Brassica napus through both H2A.Z‐dependent and independent mechanisms
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Abelenda, José A., primary, Trabanco, Noemí, additional, del Olmo, Iván, additional, Pozas, Jenifer, additional, Martín‐Trillo, María del Mar, additional, Gómez‐Garrido, Jessica, additional, Esteve‐Codina, Anna, additional, Pernas, Mónica, additional, Jarillo, José A., additional, and Piñeiro, Manuel, additional
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- 2023
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5. High ambient temperature impacts on flowering time in Brassica napus through both H2A.Z-dependent and independent mechanisms
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Ministerio de Economía, Industria y Competitividad (España), European Commission, Abelenda, José A. [0000-0001-7952-4891], Jarillo, José Antonio [0000-0002-2963-7641], Piñeiro, Manuel [0000-0002-4640-6511], Pernas Ochoa, Mónica [0000-0002-6521-9164], Abelenda, José A., Trabanco, Noemí, del Olmo, I., Pozas, Jenifer, Martín-Trillo, Mar, Gómez-Garrido, Jessica, Esteve-Codina, Anna, Pernas Ochoa, Mónica, Jarillo, José Antonio, Piñeiro, Manuel, Ministerio de Economía, Industria y Competitividad (España), European Commission, Abelenda, José A. [0000-0001-7952-4891], Jarillo, José Antonio [0000-0002-2963-7641], Piñeiro, Manuel [0000-0002-4640-6511], Pernas Ochoa, Mónica [0000-0002-6521-9164], Abelenda, José A., Trabanco, Noemí, del Olmo, I., Pozas, Jenifer, Martín-Trillo, Mar, Gómez-Garrido, Jessica, Esteve-Codina, Anna, Pernas Ochoa, Mónica, Jarillo, José Antonio, and Piñeiro, Manuel
- Abstract
Knowledge concerning the integration of genetic pathways mediating the responses to environmental cues controlling flowering initiation in crops is scarce. Here, we reveal the diversity in oilseed rape (OSR) flowering response to high ambient temperature. Using a set of different spring OSR varieties, we found a consistent flowering delay at elevated temperatures. Remarkably, one of the varieties assayed exhibited the opposite behaviour. Several FT-like paralogs are plausible candidates to be part of the florigen in OSR. We revealed that BnaFTA2 plays a major role in temperature-dependent flowering initiation. Analysis of the H2A.Z histone variant occupancy at this locus in different Brassica napus varieties produced contrasting results, suggesting the involvement of additional molecular mechanisms in BnaFTA2 repression at high ambient temperature. Moreover, BnARP6 RNAi plants showed little accumulation of H2A.Z at high temperature while maintaining temperature sensitivity and delayed flowering. Furthermore, we found that H3K4me3 present in BnaFTA2 under inductive flowering conditions is reduced at high temperature, suggesting a role for this hallmark of transcriptionally active chromatin in the OSR flowering response to warming. Our work emphasises the plasticity of flowering responses in B. napus and offers venues to optimise this process in crop species grown under suboptimal environmental conditions.
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- 2022
6. A New Variant of the aadE-sat4-aphA-3 Gene Cluster Found in a Conjugative Plasmid from a MDR Campylobacter jejuni Isolate
- Author
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Guirado, Pedro, primary, Miró, Elisenda, additional, Iglesias-Torrens, Yaidelis, additional, Navarro, Ferran, additional, Campoy, Susana, additional, Alioto, Tyler Scott, additional, Gómez-Garrido, Jessica, additional, Madrid, Cristina, additional, and Balsalobre, Carlos, additional
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- 2022
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7. Massive gene presence-absence variation shapes an open pan-genome in the mediterranean mussel
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Ministerio de Ciencia, Innovación y Universidades (España), Xunta de Galicia, European Commission, European Research Council, Ministerio de Economía y Competitividad (España), Generalitat de Catalunya, Instituto de Salud Carlos III, Gerdol, Marco, Moreira, Rebeca, Cruz, Fernando, Gómez-Garrido, Jessica, Vlasova, Anna, Rosani, Umberto, Venier, Paola, Naranjo-Ortiz, Miguel A., Murgarella, Maria, Greco, Samuele, Balseiro, P., Corvelo, André, Frías, Leonor, Gut, Marta, Gabaldón, Toni, Pallavicini, Alberto, Canchaya, Carlos, Novoa, Beatriz, Alioto, Tyler S., Posada, David, Figueras Huerta, Antonio, Ministerio de Ciencia, Innovación y Universidades (España), Xunta de Galicia, European Commission, European Research Council, Ministerio de Economía y Competitividad (España), Generalitat de Catalunya, Instituto de Salud Carlos III, Gerdol, Marco, Moreira, Rebeca, Cruz, Fernando, Gómez-Garrido, Jessica, Vlasova, Anna, Rosani, Umberto, Venier, Paola, Naranjo-Ortiz, Miguel A., Murgarella, Maria, Greco, Samuele, Balseiro, P., Corvelo, André, Frías, Leonor, Gut, Marta, Gabaldón, Toni, Pallavicini, Alberto, Canchaya, Carlos, Novoa, Beatriz, Alioto, Tyler S., Posada, David, and Figueras Huerta, Antonio
- Abstract
Background: The Mediterranean mussel Mytilus galloprovincialis is an ecologically and economically relevant edible marine bivalve, highly invasive and resilient to biotic and abiotic stressors causing recurrent massive mortalities in other bivalves. Although these traits have been recently linked with the maintenance of a high genetic variation within natural populations, the factors underlying the evolutionary success of this species remain unclear. Results: Here, after the assembly of a 1.28-Gb reference genome and the resequencing of 14 individuals from two independent populations, we reveal a complex pan-genomic architecture in M. galloprovincialis, with a core set of 45,000 genes plus a strikingly high number of dispensable genes (20,000) subject to presence-absence variation, which may be entirely missing in several individuals. We show that dispensable genes are associated with hemizygous genomic regions affected by structural variants, which overall account for nearly 580 Mb of DNA sequence not included in the reference genome assembly. As such, this is the first study to report the widespread occurrence of gene presence-absence variation at a whole-genome scale in the animal kingdom. Conclusions: Dispensable genes usually belong to young and recently expanded gene families enriched in survival functions, which might be the key to explain the resilience and invasiveness of this species. This unique pan-genome architecture is characterized by dispensable genes in accessory genomic regions that exceed by orders of magnitude those observed in other metazoans, including humans, and closely mirror the open pan-genomes found in prokaryotes and in a few nonmetazoan eukaryotes.
- Published
- 2020
8. Massive gene presence-absence variation shapes an open pan-genome in the Mediterranean mussel
- Author
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Barcelona Supercomputing Center, Gerdol, Marco, Moreira, Rebeca, Cruz, Fernando, Gómez-Garrido, Jessica, Vlasova, Anna, Rosani, Umberto, Venier, Paola, Naranjo-Ortiz, Miguel A., Murgarella, Maria, Greco, Samuele, Balseiro, Pablo, Corvelo, André, Frias, Leonor, Gut, Marta, Gabaldon, Toni, Pallavicini, Alberto, Canchaya, Carlos, Novoa, Beatriz, Alioto, Tyler S., Posada, David, Figueras, Antonio, Barcelona Supercomputing Center, Gerdol, Marco, Moreira, Rebeca, Cruz, Fernando, Gómez-Garrido, Jessica, Vlasova, Anna, Rosani, Umberto, Venier, Paola, Naranjo-Ortiz, Miguel A., Murgarella, Maria, Greco, Samuele, Balseiro, Pablo, Corvelo, André, Frias, Leonor, Gut, Marta, Gabaldon, Toni, Pallavicini, Alberto, Canchaya, Carlos, Novoa, Beatriz, Alioto, Tyler S., Posada, David, and Figueras, Antonio
- Abstract
Background The Mediterranean mussel Mytilus galloprovincialis is an ecologically and economically relevant edible marine bivalve, highly invasive and resilient to biotic and abiotic stressors causing recurrent massive mortalities in other bivalves. Although these traits have been recently linked with the maintenance of a high genetic variation within natural populations, the factors underlying the evolutionary success of this species remain unclear. Results Here, after the assembly of a 1.28-Gb reference genome and the resequencing of 14 individuals from two independent populations, we reveal a complex pan-genomic architecture in M. galloprovincialis, with a core set of 45,000 genes plus a strikingly high number of dispensable genes (20,000) subject to presence-absence variation, which may be entirely missing in several individuals. We show that dispensable genes are associated with hemizygous genomic regions affected by structural variants, which overall account for nearly 580 Mb of DNA sequence not included in the reference genome assembly. As such, this is the first study to report the widespread occurrence of gene presence-absence variation at a whole-genome scale in the animal kingdom. Conclusions Dispensable genes usually belong to young and recently expanded gene families enriched in survival functions, which might be the key to explain the resilience and invasiveness of this species. This unique pan-genome architecture is characterized by dispensable genes in accessory genomic regions that exceed by orders of magnitude those observed in other metazoans, including humans, and closely mirror the open pan-genomes found in prokaryotes and in a few non-metazoan eukaryotes., This work was conducted with the support of the projects AGL2011-14507-E, AGL2015-65705-R, RTI2018-095997-B-I00 (Ministerio de Ciencia, Innovación y Universidades, Spain) and INCITE 10PXIB402096PR, IN607B 2016/12 (Consellería de Economía, Emprego e Industria - GAIN, Xunta de Galicia). Antonio Figueras, Beatriz Novoa, Rebeca Moreira, Alberto Pallavicini, Marco Gerdol, Paola Venier, and Umberto Rosani are supported by the European Union’s Horizon 2020 research and innovation programme under grant agreement no. 678589. David Posada is supported by the European Research Council, the Spanish Ministry of Economy and Competitiveness, and Xunta de Galicia. We acknowledge the support of the Spanish Ministry of Science and Innovation to the EMBL partnership, the Centro de Excelencia Severo Ochoa, the CERCA Programme/Generalitat de Catalunya, the Spanish Ministry of Science and Innovation through the Instituto de Salud Carlos III, the Generalitat de Catalunya through Departament de Salut and Departament d’Empresa i Coneixement, and the Co-financing by the Spanish Ministry of Science and Innovation with funds from the European Regional Development Fund (ERDF) corresponding to the 2014-2020 Smart Growth Operating Program., Peer Reviewed, Postprint (published version)
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- 2020
9. Genomic adaptations to aquatic and aerial life in mayflies and the origin of wings in insects
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Almudi, Isabel, primary, Vizueta, Joel, additional, de Mendoza, Alex, additional, Wyatt, Chris, additional, Marletaz, Ferdinand, additional, Firbas, Panos, additional, Feuda, Roberto, additional, Masiero, Giulio, additional, Medina, Patricia, additional, Alcaina, Ana, additional, Cruz, Fernando, additional, Gómez-Garrido, Jessica, additional, Gut, Marta, additional, Alioto, Tyler S., additional, Vargas-Chavez, Carlos, additional, Davie, Kristofer, additional, Misof, Bernhard, additional, González, Josefa, additional, Aerts, Stein, additional, Lister, Ryan, additional, Paps, Jordi, additional, Rozas, Julio, additional, Sánchez-Gracia, Alejandro, additional, Irimia, Manuel, additional, Maeso, Ignacio, additional, and Casares, Fernando, additional
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- 2019
- Full Text
- View/download PDF
10. Massive gene presence/absence variation in the mussel genome as an adaptive strategy: first evidence of a pan-genome in Metazoa
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Gerdol, Marco, primary, Moreira, Rebeca, additional, Cruz, Fernando, additional, Gómez-Garrido, Jessica, additional, Vlasova, Anna, additional, Rosani, Umberto, additional, Venier, Paola, additional, Naranjo-Ortiz, Miguel A., additional, Murgarella, Maria, additional, Balseiro, Pablo, additional, Corvelo, André, additional, Frias, Leonor, additional, Gut, Marta, additional, Gabaldón, Toni, additional, Pallavicini, Alberto, additional, Canchaya, Carlos, additional, Novoa, Beatriz, additional, Alioto, Tyler S., additional, Posada, David, additional, and Figueras, Antonio, additional
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- 2019
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11. Additional file 1: of Genome and transcriptome analysis of the Mesoamerican common bean and the role of gene duplications in establishing tissue and temporal specialization of genes
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Vlasova, Anna, Capella-Gutiérrez, Salvador, Rendón-Anaya, Martha, Hernández-Oñate, Miguel, Minoche, André, Erb, Ionas, Câmara, Francisco, Prieto-Barja, Pablo, Corvelo, André, Sanseverino, Walter, Gastón Westergaard, Dohm, Juliane, Pappas, Georgios, Saburido-Alvarez, Soledad, Kedra, Darek, Gonzalez, Irene, Cozzuto, Luca, Gómez-Garrido, Jessica, Aguilar-Morón, María, Andreu, Nuria, O. Aguilar, Garcia-Mas, Jordi, Zehnsdorf, Maik, Vázquez, Martín, Delgado-Salinas, Alfonso, Delaye, Luis, Lowy, Ernesto, Mentaberry, Alejandro, Vianello-Brondani, Rosana, García, José, Alioto, Tyler, Sánchez, Federico, Himmelbauer, Heinz, Santalla, Marta, Notredame, Cedric, Gabaldón, Toni, Herrera-Estrella, Alfredo, and Guigó, Roderic
- Abstract
Supplementary text, Figures S1–S19, Tables S1–S32, supplementary dataset descriptions. (PDF 5381 kb)
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- 2016
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12. Genome and transcriptome analysis of the Mesoamerican common bean and the role of gene duplications in establishing tissue and temporal specialization of genes
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Vlasova, Anna, primary, Capella-Gutiérrez, Salvador, additional, Rendón-Anaya, Martha, additional, Hernández-Oñate, Miguel, additional, Minoche, André E., additional, Erb, Ionas, additional, Câmara, Francisco, additional, Prieto-Barja, Pablo, additional, Corvelo, André, additional, Sanseverino, Walter, additional, Westergaard, Gastón, additional, Dohm, Juliane C., additional, Pappas, Georgios J., additional, Saburido-Alvarez, Soledad, additional, Kedra, Darek, additional, Gonzalez, Irene, additional, Cozzuto, Luca, additional, Gómez-Garrido, Jessica, additional, Aguilar-Morón, María A., additional, Andreu, Nuria, additional, Aguilar, O. Mario, additional, Garcia-Mas, Jordi, additional, Zehnsdorf, Maik, additional, Vázquez, Martín P., additional, Delgado-Salinas, Alfonso, additional, Delaye, Luis, additional, Lowy, Ernesto, additional, Mentaberry, Alejandro, additional, Vianello-Brondani, Rosana P., additional, García, José Luís, additional, Alioto, Tyler, additional, Sánchez, Federico, additional, Himmelbauer, Heinz, additional, Santalla, Marta, additional, Notredame, Cedric, additional, Gabaldón, Toni, additional, Herrera-Estrella, Alfredo, additional, and Guigó, Roderic, additional
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- 2016
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13. Additional file 3 of Massive gene presence-absence variation shapes an open pan-genome in the Mediterranean mussel
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Gerdol, Marco, Moreira, Rebeca, Cruz, Fernando, Gómez-Garrido, Jessica, Vlasova, Anna, Rosani, Umberto, Venier, Paola, Naranjo-Ortiz, Miguel A., Murgarella, Maria, Greco, Samuele, Balseiro, Pablo, Corvelo, André, Frias, Leonor, Gut, Marta, Gabaldón, Toni, Pallavicini, Alberto, Canchaya, Carlos, Novoa, Beatriz, Alioto, Tyler S., Posada, David, and Figueras, Antonio
- Subjects
14. Life underwater - Abstract
Additional file 3. Review history.
14. Additional file 1 of Massive gene presence-absence variation shapes an open pan-genome in the Mediterranean mussel
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Gerdol, Marco, Moreira, Rebeca, Cruz, Fernando, Gómez-Garrido, Jessica, Vlasova, Anna, Rosani, Umberto, Venier, Paola, Naranjo-Ortiz, Miguel A., Murgarella, Maria, Greco, Samuele, Balseiro, Pablo, Corvelo, André, Frias, Leonor, Gut, Marta, Gabaldón, Toni, Pallavicini, Alberto, Canchaya, Carlos, Novoa, Beatriz, Alioto, Tyler S., Posada, David, and Figueras, Antonio
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14. Life underwater - Abstract
Additional file 1. Manuscript data notes. This file includes additional data notes 1–24, along with all the supplementary figures and most supplementary tables referenced in the main text.
15. Additional file 1 of Massive gene presence-absence variation shapes an open pan-genome in the Mediterranean mussel
- Author
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Gerdol, Marco, Moreira, Rebeca, Cruz, Fernando, Gómez-Garrido, Jessica, Vlasova, Anna, Rosani, Umberto, Venier, Paola, Naranjo-Ortiz, Miguel A., Murgarella, Maria, Greco, Samuele, Balseiro, Pablo, Corvelo, André, Frias, Leonor, Gut, Marta, Gabaldón, Toni, Pallavicini, Alberto, Canchaya, Carlos, Novoa, Beatriz, Alioto, Tyler S., Posada, David, and Figueras, Antonio
- Subjects
14. Life underwater - Abstract
Additional file 1. Manuscript data notes. This file includes additional data notes 1–24, along with all the supplementary figures and most supplementary tables referenced in the main text.
16. Additional file 3 of Massive gene presence-absence variation shapes an open pan-genome in the Mediterranean mussel
- Author
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Gerdol, Marco, Moreira, Rebeca, Cruz, Fernando, Gómez-Garrido, Jessica, Vlasova, Anna, Rosani, Umberto, Venier, Paola, Naranjo-Ortiz, Miguel A., Murgarella, Maria, Greco, Samuele, Balseiro, Pablo, Corvelo, André, Frias, Leonor, Gut, Marta, Gabaldón, Toni, Pallavicini, Alberto, Canchaya, Carlos, Novoa, Beatriz, Alioto, Tyler S., Posada, David, and Figueras, Antonio
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14. Life underwater - Abstract
Additional file 3. Review history.
17. Massive gene presence-absence variation shapes an open pan-genome in the mediterranean mussel
- Author
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Jèssica Gómez-Garrido, Maria Murgarella, Toni Gabaldón, Anna Vlasova, Umberto Rosani, Carlos Canchaya, André Corvelo, David Posada, Marco Gerdol, Rebeca Moreira, Paola Venier, Fernando Cruz, Alberto Pallavicini, Tyler Alioto, Pablo Balseiro, Beatriz Novoa, Leonor Frias, Samuele Greco, Antonio Figueras, Miguel A. Naranjo-Ortiz, Marta Gut, Ministerio de Ciencia, Innovación y Universidades (España), Xunta de Galicia, European Commission, European Research Council, Ministerio de Economía y Competitividad (España), Generalitat de Catalunya, Instituto de Salud Carlos III, Ministerio de Ciencia e Innovación (España), Gerdol, Marco, Moreira, Rebeca, Cruz, Fernando, Gómez-Garrido, Jessica, Vlasova, Anna, Rosani, Umberto, Venier, Paola, Naranjo-Ortiz, Miguel A., Murgarella, Maria, Greco, Samuele, Balseiro, Pablo, Corvelo, André, Frias, Leonor, Gut, Marta, Gabaldón, Toni, Pallavicini, Alberto, Canchaya, Carlo, Novoa, Beatriz, Alioto, Tyler S., Posada, David, Figueras, Antonio, and Barcelona Supercomputing Center
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Male ,Presence-absence variation ,Phylome ,0302 clinical medicine ,Peptide Elongation Factor 1 ,Hemizygosity ,lcsh:QH301-705.5 ,Innate immunity ,0303 health sciences ,Genome ,biology ,Bivalve ,Pan-genome ,Genomics ,Biological Evolution ,Mussel ,Structural variants ,Dispensable gene ,Antimicrobial peptides ,Female ,Mediterranean mussel ,Pore Forming Cytotoxic Proteins ,2412 Inmunología ,lcsh:QH426-470 ,Mediterrània ,DNA sequencing ,03 medical and health sciences ,Genetic variation ,Gene family ,Animals ,Humans ,Gene ,030304 developmental biology ,Mytilus ,Base Sequence ,2409 Genética ,Research ,DNA ,biology.organism_classification ,Human genetics ,Immunity, Innate ,lcsh:Genetics ,Genòmica ,Mytilus galloprovincialis ,lcsh:Biology (General) ,Musclos ,Evolutionary biology ,Structural variant ,Genètica ,030217 neurology & neurosurgery ,Enginyeria química::Química orgànica::Bioquímica [Àrees temàtiques de la UPC] ,Reference genome - Abstract
21 pages, 4 figures, Background: The Mediterranean mussel Mytilus galloprovincialis is an ecologically and economically relevant edible marine bivalve, highly invasive and resilient to biotic and abiotic stressors causing recurrent massive mortalities in other bivalves. Although these traits have been recently linked with the maintenance of a high genetic variation within natural populations, the factors underlying the evolutionary success of this species remain unclear. Results: Here, after the assembly of a 1.28-Gb reference genome and the resequencing of 14 individuals from two independent populations, we reveal a complex pan-genomic architecture in M. galloprovincialis, with a core set of 45,000 genes plus a strikingly high number of dispensable genes (20,000) subject to presence-absence variation, which may be entirely missing in several individuals. We show that dispensable genes are associated with hemizygous genomic regions affected by structural variants, which overall account for nearly 580 Mb of DNA sequence not included in the reference genome assembly. As such, this is the first study to report the widespread occurrence of gene presence-absence variation at a whole-genome scale in the animal kingdom. Conclusions: Dispensable genes usually belong to young and recently expanded gene families enriched in survival functions, which might be the key to explain the resilience and invasiveness of this species. This unique pan-genome architecture is characterized by dispensable genes in accessory genomic regions that exceed by orders of magnitude those observed in other metazoans, including humans, and closely mirror the open pan-genomes found in prokaryotes and in a few nonmetazoan eukaryotes., This work was conducted with the support of the projects AGL2011-14507-E, AGL2015-65705-R, RTI2018-095997-B-I00 (Ministerio de Ciencia, Innovación y Universidades, Spain) and INCITE 10PXIB402096PR, IN607B 2016/12 (Consellería de Economía, Emprego e Industria - GAIN, Xunta de Galicia). Antonio Figueras, Beatriz Novoa, Rebeca Moreira, Alberto Pallavicini, Marco Gerdol, Paola Venier, and Umberto Rosani are supported by the European Union’s Horizon 2020 research and innovation programme under grant agreement no. 678589. David Posada is supported by the European Research Council, the Spanish Ministry of Economy and Competitiveness, and Xunta de Galicia. We acknowledge the support of the Spanish Ministry of Science and Innovation to the EMBL partnership, the Centro de Excelencia Severo Ochoa, the CERCA Programme/Generalitat de Catalunya, the Spanish Ministry of Science and Innovation through the Instituto de Salud Carlos III, the Generalitat de Catalunya through Departament de Salut and Departament d’Empresa i Coneixement, and the Co-financing by the Spanish Ministry of Science and Innovation with funds from the European Regional Development Fund (ERDF) corresponding to the 2014-2020 Smart Growth Operating Program.
- Published
- 2020
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