Publication Date: 2016.
Language: English.
Abstract:
This chapter summarizes the main features of the tomato plastid and mitochondrial genomes in the context of the current knowledge about “orthologue” genomes from other higher plants species in a historical perspective. We have focused on the application of this knowledge to aid in deciphering the functional roles of these organelles in growth and developmental processes of the tomato plants, especially on those related to fruit ripening. It also presents an assessment of the phylogenetic position of tomato, based on the available information of plastid and chondrome sequences from other land plants; which adds to the understanding of the evolutionary history of plants.
Inst. de Biotecnología
Author affiliation: Lichtenstein, Gabriel. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Biotecnología; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Author affiliation: Conte, Mariana. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Biotecnología; Argentina
Author affiliation: Asis, Ramón. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Córdoba. Centro de Investigaciones en Bioquímica Clínica e Inmunología; Argentina. Universidad Nacional de Córdoba. Facultad de Ciencias Químicas, Universidad Nacional de Córdoba; Argentina
Author affiliation: Carrari, Fernando. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Biotecnología; Argentina. Universidad de Buenos Aires. Facultad de Agronomía. Cátedra de Genética; Argentina
Keywords: Tomate; Genomas; Cloroplasto; Genomes; Tomatoes; Chloroplasts.
Repository: INTA Digital (INTA). Instituto Nacional de Tecnología Agropecuaria
Authors: Conte, Mariana; de Simone, Silvia; Simmons, Susan J.; Ballare, Carlos Luis; Stapleton, Ann E.
Publication Date: 2010.
Language: English.
Abstract:
Background: Understanding of the genetic architecture of plant UV-B responses allows extensive targeted testing of candidate genes or regions, along with combinations of those genes, for placement in metabolic or signal transduction pathways.Results: Composite interval mapping and single-marker analysis methods were used to identify significant loci for cotyledon opening under UV-B in four sets of recombinant inbred lines. In addition, loci important for canalization (stability) of cotyledon opening were detected in two mapping populations. One candidate locus contained the gene HY5. Mutant analysis demonstrated that HY5 was required for UV-B-specific cotyledon opening.Conclusions: Structured mapping populations provide key information on the degree of complexity in the genetic control of UV-B-induced cotyledon opening in Arabidopsis. The loci identified using quantitative trait analysis methods are useful for follow-up testing of candidate genes.
Author affiliation: Conte, Mariana. Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Parque Centenario. Instituto de Investigaciones Fisiológicas y Ecológicas Vinculadas a la Agricultura. Universidad de Buenos Aires. Facultad de Agronomía; Argentina
Author affiliation: de Simone, Silvia. Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Parque Centenario. Instituto de Investigaciones Fisiológicas y Ecológicas Vinculadas a la Agricultura. Universidad de Buenos Aires. Facultad de Agronomía; Argentina
Author affiliation: Simmons, Susan J.. University of North Carolina; Estados Unidos
Author affiliation: Ballare, Carlos Luis. Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Parque Centenario. Instituto de Investigaciones Fisiológicas y Ecológicas Vinculadas a la Agricultura. Universidad de Buenos Aires. Facultad de Agronomía; Argentina
Author affiliation: Stapleton, Ann E.. University of North Carolina; Estados Unidos
Repository: CONICET Digital (CONICET). Consejo Nacional de Investigaciones Científicas y Técnicas
Authors: Nunes Nesi, Adriano; Alseekh, Saleh; Oliveira Silva, Franklin Magnum de; Omranian, Nooshin; Lichtenstein, Gabriel; Mirnezhad, Mohammad; Romero González, Roman R.; Sabio Y Garcia, Julia Veronica; Conte, Mariana; Leiss, Kirsten A.; Klinkhamer, Peter G. L.; Nikoloski, Zoran; Carrari, Fernando; Fernie, Alisdair R.
Publication Date: 2019.
Language: English.
Abstract:
Introduction: To date, most studies of natural variation and metabolite quantitative trait loci (mQTL) in tomato have focused on fruit metabolism, leaving aside the identification of genomic regions involved in the regulation of leaf metabolism. Objective: This study was conducted to identify leaf mQTL in tomato and to assess the association of leaf metabolites and physiological traits with the metabolite levels from other tissues. Methods: The analysis of components of leaf metabolism was performed by phenotypying 76 tomato ILs with chromosome segments of the wild species Solanum pennellii in the genetic background of a cultivated tomato (S. lycopersicum) variety M82. The plants were cultivated in two different environments in independent years and samples were harvested from mature leaves of non-flowering plants at the middle of the light period. The non-targeted metabolite profiling was obtained by gas chromatography time-of-flight mass spectrometry (GC-TOF-MS). With the data set obtained in this study and already published metabolomics data from seed and fruit, we performed QTL mapping, heritability and correlation analyses. Results: Changes in metabolite contents were evident in the ILs that are potentially important with respect to stress responses and plant physiology. By analyzing the obtained data, we identified 42 positive and 76 negative mQTL involved in carbon and nitrogen metabolism. Conclusions: Overall, these findings allowed the identification of S. lycopersicum genome regions involved in the regulation of leaf primary carbon and nitrogen metabolism, as well as the association of leaf metabolites with metabolites from seeds and fruits.
Instituto de Biotecnología
Author affiliation: Nunes Nesi, Adriano. Universidade Federal de Viçosa. Departamento de Biologia Vegetal; Brasil. Max-Planck-Institute of Molecular Plant Physiology; Alemania
Author affiliation: Alseekh, Saleh. Max-Planck-Institute of Molecular Plant Physiology; Alemania. Center of Plant System Biology and Biotechnology; Bulgaria
Author affiliation: Oliveira Silva, Franklin Magnum de. Universidade Federal de Viçosa. Departamento de Biologia Vegetal; Brasil
Author affiliation: Omranian, Nooshin. Max-Planck-Institute of Molecular Plant Physiology; Alemania. Center of Plant System Biology and Biotechnology; Bulgaria
Author affiliation: Lichtenstein, Gabriel. INTA. Instituto de Biotecnología; Argentina
Author affiliation: Mirnezhad, Mohammad. Leiden University. Plant Ecology, Institute of Biology; Holanda
Author affiliation: Romero González, Roman R. Leiden University. Plant Ecology, Institute of Biology; Holanda
Author affiliation: Sabio Y Garcia, Julia Veronica. INTA. Instituto de Biotecnología; Argentina
Author affiliation: Conte, Mariana. INTA. Instituto de Biotecnología; Argentina
Author affiliation: Leiss, Kirsten A. Leiden University. Plant Ecology, Institute of Biology; Holanda. Wageningen University & Research. Business Unit Horticulture; Holanda
Author affiliation: Klinkhamer, Peter G. L. Leiden University. Plant Ecology, Institute of Biology; Holanda
Author affiliation: Nikoloski, Zoran. Max-Planck-Institute of Molecular Plant Physiology; Alemania. University of Potsdam. Institute of Biochemistry and Biology. Bioinformatics Group; Alemania
Author affiliation: Carrari, Fernando. INTA. Instituto de Biotecnología; Argentina
Author affiliation: Fernie, Alisdair R. Max-Planck-Institute of Molecular Plant Physiology; Alemania. Center of Plant System Biology and Biotechnology; Bulgaria
Repository: INTA Digital (INTA). Instituto Nacional de Tecnología Agropecuaria
Authors: Lopez, Mariana Gabriela; Zanor, María Inés; Pratta, Guillermo Raúl; Stegmayer, Georgina; Boggio, Silvana Beatriz; Conte, Mariana; Bermudez Salazar, Luisa Fernanda; Coluccio Leskow, Carla; Rodríguez, Gustavo Rubén; Picardi, Liliana Amelia; Zorzoli, Roxana; Fernie, Alisdair R.; Milone, Diego Humberto; Asis, Ramón; Valle, Estela Marta; Carrari, Fernando Oscar
Publication Date: 2015.
Language: English.
Abstract:
Elucidating the determinants of tomato nutritional value and fruit quality to introduce improved varieties on the international market represents a major challenge for crop biotechnology. Different strategies can be undertaken to exploit the natural variability of Solanum to re-incorporate lost allelic diversity into commercial varieties. One of them is the characterization of selected germplasm for breeding programs. To achieve this goal, 18 RILs (S. lycopersicum × S. pimpinellifolium) were comprehensively phenotyped for fruit polar metabolites and quality associated traits. Metabolites were quantified by GC–MS and 1H NMR. Integrative analyses by neuronal clustering and network construction revealed that fruit properties are strongly associated with the metabolites aspartate, serine, glutamate and 2-oxoglutarate. Shelf life and firmness appeared to be linked to malate content. By a comparative analysis of the whole data set, ten RILs presented higher number of traits with positive effect than the S. lycopersicum × S. pimpinellifolium hybrid. Thus, these lines can be proposed as promising candidates for breeding programs aimed to improve fruit quality.
Author affiliation: Lopez, Mariana Gabriela. Instituto Nacional de Tecnología Agropecuaria. Centro de Investigación en Ciencias Veterinarias y Agronómicas. Instituto de Biotecnología; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Author affiliation: Zanor, María Inés. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Rosario. Instituto de Biología Molecular y Celular de Rosario. Universidad Nacional de Rosario. Facultad de Ciencias Bioquímicas y Farmacéuticas. Instituto de Biología Molecular y Celular de Rosario; Argentina
Author affiliation: Pratta, Guillermo Raúl. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina. Universidad Nacional de Rosario. Facultad de Cs.agrarias. Departamento de Biologia. Cat.de Genetica; Argentina
Author affiliation: Stegmayer, Georgina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina. Universidad Tecnológica Nacional; Argentina
Author affiliation: Boggio, Silvana Beatriz. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Rosario. Instituto de Biología Molecular y Celular de Rosario. Universidad Nacional de Rosario. Facultad de Ciencias Bioquímicas y Farmacéuticas. Instituto de Biología Molecular y Celular de Rosario; Argentina
Author affiliation: Conte, Mariana. Instituto Nacional de Tecnología Agropecuaria. Centro de Investigación en Ciencias Veterinarias y Agronómicas. Instituto de Biotecnología; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Author affiliation: Bermudez Salazar, Luisa Fernanda. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina. Instituto Nacional de Tecnología Agropecuaria. Centro de Investigación en Ciencias Veterinarias y Agronómicas. Instituto de Biotecnología; Argentina
Author affiliation: Coluccio Leskow, Carla. Instituto Nacional de Tecnología Agropecuaria. Centro de Investigación en Ciencias Veterinarias y Agronómicas. Instituto de Biotecnología; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Author affiliation: Rodríguez, Gustavo Rubén. Universidad Nacional de Rosario. Facultad de Cs.agrarias. Departamento de Biologia. Cat.de Genetica; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Author affiliation: Picardi, Liliana Amelia. Universidad Nacional de Rosario. Facultad de Cs.agrarias. Departamento de Biologia. Cat.de Genetica; Argentina
Author affiliation: Zorzoli, Roxana. Universidad Nacional de Rosario. Facultad de Cs.agrarias. Departamento de Biologia. Cat.de Genetica; Argentina
Author affiliation: Fernie, Alisdair R.. Max Planck Institute For Molecular Plant Physiology; Alemania
Author affiliation: Milone, Diego Humberto. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina. Universidad Nacional del Litoral. Facultad de Ingeniería y Ciencias Hídricas. Departamento de Informática. Laboratorio de Investigaciones en Señales e Inteligencia Computacional; Argentina
Author affiliation: Asis, Ramón. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Córdoba. Centro de Investigaciones en Bioquímica Clínica e Inmunología; Argentina
Author affiliation: Valle, Estela Marta. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Rosario. Instituto de Biología Molecular y Celular de Rosario. Universidad Nacional de Rosario. Facultad de Ciencias Bioquímicas y Farmacéuticas. Instituto de Biología Molecular y Celular de Rosario; Argentina
Author affiliation: Carrari, Fernando Oscar. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina. Instituto Nacional de Tecnología Agropecuaria. Centro de Investigación en Ciencias Veterinarias y Agronómicas. Instituto de Biotecnología; Argentina
Repository: CONICET Digital (CONICET). Consejo Nacional de Investigaciones Científicas y Técnicas
Authors: Lopez, Mariana Gabriela; Zanor, María Inés; Pratta, Guillermo Raúl; Stegmayer, Georgina; Boggio, Silvana Beatriz; Conte, Mariana; Bermudez Salazar, Luisa; Coluccio Leskow, Carla; Rodríguez, Gustavo Rubén; Picardi, Liliana Amelia; Zorzoli, Roxana; Fernie, Alisdair R.; Milone, Diego Humberto; Asis, Ramón; Valle, Estela Marta; Carrari, Fernando
Publication Date: 2015.
Language: English.
Abstract:
Elucidating the determinants of tomato nutritional value and fruit quality to introduce improved varieties on the international market represents a major challenge for crop biotechnology. Different strategies can be undertaken to exploit the natural variability of Solanum to re-incorporate lost allelic diversity into commercial varieties. One of them is the characterization of selected germplasm for breeding programs. To achieve this goal, 18 RILs (S. lycopersicum × S. pimpinellifolium) were comprehensively phenotyped for fruit polar metabolites and quality associated traits. Metabolites were quantified by GC–MS and 1H NMR. Integrative analyses by neuronal clustering and network construction revealed that fruit properties are strongly associated with the metabolites aspartate, serine, glutamate and 2-oxoglutarate. Shelf life and firmness appeared to be linked to malate content. By a comparative analysis of the whole data set, ten RILs presented higher number of traits with positive effect than the S. lycopersicum × S. pimpinellifolium hybrid. Thus, these lines can be proposed as promising candidates for breeding programs aimed to improve fruit quality.
Instituto de Biotecnología
Author affiliation: Lopez, Mariana Gabriela. INTA. Instituto de Biotecnología; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Author affiliation: Zanor, María Inés. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Rosario. Instituto de Biología Molecular y Celular de Rosario. Universidad Nacional de Rosario. Facultad de Ciencias Bioquímicas y Farmacéuticas. Instituto de Biología Molecular y Celular de Rosario; Argentina
Author affiliation: Pratta, Guillermo Raúl. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina. Universidad Nacional de Rosario. Facultad de Ciencias Agrarias. Departamento de Biología. Cátedra de Genética; Argentina
Author affiliation: Stegmayer, Georgina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina. Universidad Tecnológica Nacional. Centro de Investigación en Ingeniería en Sistemas de Información; Argentina
Author affiliation: Boggio, Silvana Beatriz. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Rosario. Instituto de Biología Molecular y Celular de Rosario. Universidad Nacional de Rosario. Facultad de Ciencias Bioquímicas y Farmacéuticas. Instituto de Biología Molecular y Celular de Rosario; Argentina
Author affiliation: Conte, Mariana. INTA. Instituto de Biotecnología; Argentina
Author affiliation: Bermudez Salazar, Luisa. INTA. Instituto de Biotecnología; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Author affiliation: Coluccio Leskow, Carla. INTA. Instituto de Biotecnología; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Author affiliation: Rodríguez, Gustavo Rubén. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina. Universidad Nacional de Rosario. Facultad de Ciencias Agrarias. Departamento de Biología. Cátedra de Genética; Argentina
Author affiliation: Picardi, Liliana Amelia. Universidad Nacional de Rosario. Facultad de Ciencias Agrarias. Departamento de Biología. Cátedra de Genética; Argentina
Author affiliation: Zorzoli, Roxana. Universidad Nacional de Rosario. Facultad de Ciencias Agrarias. Departamento de Biología. Cátedra de Genética; Argentina
Author affiliation: Fernie, Alisdair R. Max Planck Institute for Molecular Plant Physiology; Alemania
Author affiliation: Milone, Diego Humberto. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina. Universidad Nacional del Litoral. Facultad de Ingeniería y Ciencias Hídricas. Departamento de Informática. Laboratorio de Investigaciones en Señales e Inteligencia Computacional; Argentina
Author affiliation: Asis, Ramón. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Córdoba. Centro de Investigaciones en Bioquímica Clínica e Inmunología; Argentina. Universidad Nacional de Córdoba. Facultad de Ciencias Químicas; Argentina
Author affiliation: Valle, Estela Marta. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Rosario. Instituto de Biología Molecular y Celular de Rosario. Universidad Nacional de Rosario. Facultad de Ciencias Bioquímicas y Farmacéuticas. Instituto de Biología Molecular y Celular de Rosario; Argentina
Author affiliation: Carrari, Fernando. INTA. Instituto de Biotecnología; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Keywords: Tomate; Metabolismo; Calidad; Genética; Lineas Consanguíneas; Tomatoes; Metabolism; Quality; Genetics; Inbred Lines.
Repository: INTA Digital (INTA). Instituto Nacional de Tecnología Agropecuaria
Authors: de Oliveira Silva, Franklin Magnum; Lichtenstein, Gabriel; Alseekh, Saleh; Rosado Souza, Laise; Conte, Mariana; Suguiyama, Vanessa Fuentes; Lira, Bruno Silvestre; Fanourakis, Dimitrios; Usadel, Björn; Bhering, Leonardo Lopes; DaMatta, Fábio M.; Sulpice, Ronan; Araújo, Wagner L.; Rossi, Magdalena; de Setta, Nathalia; Fernie, Alisdair R.; Carrari, Fernando Oscar; Nunes Nesi, Adriano
Publication Date: 2018.
Language: English.
Abstract:
To identify genomic regions involved in the regulation of fundamental physiological processes such as photosynthesis and respiration, a population of Solanum pennellii introgression lines was analyzed. We determined phenotypes for physiological, metabolic, and growth related traits, including gas exchange and chlorophyll fluorescence parameters. Data analysis allowed the identification of 208 physiological and metabolic quantitative trait loci with 33 of these being associated to smaller intervals of the genomic regions, termed BINs. Eight BINs were identified that were associated with higher assimilation rates than the recurrent parent M82. Two and 10 genomic regions were related to shoot and root dry matter accumulation, respectively. Nine genomic regions were associated with starch levels, whereas 12 BINs were associated with the levels of other metabolites. Additionally, a comprehensive and detailed annotation of the genomic regions spanning these quantitative trait loci allowed us to identify 87 candidate genes that putatively control the investigated traits. We confirmed 8 of these at the level of variance in gene expression. Taken together, our results allowed the identification of candidate genes that most likely regulate photosynthesis, primary metabolism, and plant growth and as such provide new avenues for crop improvement.
Author affiliation: de Oliveira Silva, Franklin Magnum. Universidade Federal de Viçosa; Brasil
Author affiliation: Lichtenstein, Gabriel. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina. Instituto Nacional de Tecnología Agropecuaria. Centro de Investigación en Ciencias Veterinarias y Agronómicas. Instituto de Biotecnología; Argentina
Author affiliation: Alseekh, Saleh. Max Planck Institute of Molecular Plant Physiology; Alemania
Author affiliation: Rosado Souza, Laise. Max Planck Institute of Molecular Plant Physiology; Alemania
Author affiliation: Conte, Mariana. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina. Instituto Nacional de Tecnología Agropecuaria. Centro de Investigación en Ciencias Veterinarias y Agronómicas. Instituto de Biotecnología; Argentina
Author affiliation: Suguiyama, Vanessa Fuentes. Universidade Federal do ABC; Brasil
Author affiliation: Lira, Bruno Silvestre. Universidade de Sao Paulo; Brasil
Author affiliation: Fanourakis, Dimitrios. Vegetable Crops and Plant Protection; Grecia
Author affiliation: Usadel, Björn. RWTH Aachen University; Alemania. Forschungszentrum Jülich; Alemania
Author affiliation: Bhering, Leonardo Lopes. Universidade Federal de Viçosa; Brasil
Author affiliation: DaMatta, Fábio M.. Universidade Federal de Viçosa; Brasil
Author affiliation: Sulpice, Ronan. National University of Ireland Galway; Irlanda
Author affiliation: Araújo, Wagner L.. Universidade Federal de Viçosa; Brasil
Author affiliation: Rossi, Magdalena. Universidade de Sao Paulo; Brasil
Author affiliation: de Setta, Nathalia. Universidade Federal do ABC; Brasil
Author affiliation: Fernie, Alisdair R.. Max Planck Institute of Molecular Plant Physiology; Alemania
Author affiliation: Carrari, Fernando Oscar. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina. Instituto Nacional de Tecnología Agropecuaria. Centro de Investigación en Ciencias Veterinarias y Agronómicas. Instituto de Biotecnología; Argentina
Author affiliation: Nunes Nesi, Adriano. Universidade Federal de Viçosa; Brasil
Repository: CONICET Digital (CONICET). Consejo Nacional de Investigaciones Científicas y Técnicas