A candidate gene survey of quantitative trait loci affecting chemical composition in tomato fruit
- Autores
- Bermúdez, Luisa; Urias, Ursula; Milstein, D.; Kamenetzky, Laura; Asís, Ramón; Fernie, Alisdair R.; Van Sluys, M.A.; Carrari, Fernando; Rossi, Magdalena
- Año de publicación
- 2008
- Idioma
- inglés
- Tipo de recurso
- artículo
- Estado
- versión publicada
- Descripción
- In tomato, numerous wild-related species have been demonstrated to be untapped sources of valuable genetic variability, including pathogen-resistance genes, nutritional, and industrial quality traits. From a collection of S. pennellii introgressed lines, 889 fruit metabolic loci (QML) and 326 yield-associated loci (YAL), distributed across the tomato genome, had been identified previously. By using a combination of molecular marker sequence analysis, PCR amplification and sequencing, analysis of allelic variation, and evaluation of co-response between gene expression and metabolite composition traits, the present report, provides a comprehensive list of candidate genes co-localizing with a subset of 106 QML and 20 YAL associated either with important agronomic or nutritional characteristics. This combined strategy allowed the identification and analysis of 127 candidate genes located in 16 regions of the tomato genome. Eighty-five genes were cloned and partially sequenced, totalling 45 816 and 45 787 bases from S. lycopersicum and S. pennellii, respectively. Allelic variation at the amino acid level was confirmed for 37 of these candidates. Furthermore, out of the 127 gene-metabolite co-locations, some 56 were recovered following correlation of parallel transcript and metabolite profiling. Results obtained here represent the initial steps in the integration of genetic, genomic, and expressional patterns of genes co-localizing with chemical compositional traits of the tomato fruit.
Instituto de Biotecnología
Fil: Bermúdez, Luisa. Universidade de Sao Paulo. Instituto de Biociências. Departamento de Botânica; Brasil
Fil: Urias, Ursula. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Biotecnología; Argentina. Universidade de Sao Paulo. Instituto de Biociências. Departamento de Botânica; Brasil
Fil: Milstein, D. Universidade de Sao Paulo. Instituto de Biociências. Departamento de Botânica; Brasil
Fil: Kamenetzky, Laura. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Biotecnología; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina.
Fil: 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
Fil: Fernie, Alisdair R. Max Planck Institute for Molecular Plant Physiology; Alemania
Fil: Van Sluys, M.A. Universidade de Sao Paulo. Instituto de Biociências. Departamento de Botânica; Brasil
Fil: Carrari, Fernando Oscar. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Biotecnología; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina.
Fil: Rossi, Magdalena. Universidade de São Pablo. Instituto de Biociências. Departamento de Botânica; Brasil - Fuente
- Journal of Experimental Botany 59 (10) : 2875–2890 (July 2008)
- Materia
-
Tomate
Loci de Rasgos Cuantitativos
Variación Genética
Marcadores Genéticos
Tomatoes
Quantitative Trait Loci
Genetic Variation
Genetic Markers
QTL (quantitative trait loci)
Marcadores Moleculares - Nivel de accesibilidad
- acceso abierto
- Condiciones de uso
- http://creativecommons.org/licenses/by-nc-sa/4.0/
- Repositorio
- Institución
- Instituto Nacional de Tecnología Agropecuaria
- OAI Identificador
- oai:localhost:20.500.12123/7493
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A candidate gene survey of quantitative trait loci affecting chemical composition in tomato fruitBermúdez, LuisaUrias, UrsulaMilstein, D.Kamenetzky, LauraAsís, RamónFernie, Alisdair R.Van Sluys, M.A.Carrari, FernandoRossi, MagdalenaTomateLoci de Rasgos CuantitativosVariación GenéticaMarcadores GenéticosTomatoesQuantitative Trait LociGenetic VariationGenetic MarkersQTL (quantitative trait loci)Marcadores MolecularesIn tomato, numerous wild-related species have been demonstrated to be untapped sources of valuable genetic variability, including pathogen-resistance genes, nutritional, and industrial quality traits. From a collection of S. pennellii introgressed lines, 889 fruit metabolic loci (QML) and 326 yield-associated loci (YAL), distributed across the tomato genome, had been identified previously. By using a combination of molecular marker sequence analysis, PCR amplification and sequencing, analysis of allelic variation, and evaluation of co-response between gene expression and metabolite composition traits, the present report, provides a comprehensive list of candidate genes co-localizing with a subset of 106 QML and 20 YAL associated either with important agronomic or nutritional characteristics. This combined strategy allowed the identification and analysis of 127 candidate genes located in 16 regions of the tomato genome. Eighty-five genes were cloned and partially sequenced, totalling 45 816 and 45 787 bases from S. lycopersicum and S. pennellii, respectively. Allelic variation at the amino acid level was confirmed for 37 of these candidates. Furthermore, out of the 127 gene-metabolite co-locations, some 56 were recovered following correlation of parallel transcript and metabolite profiling. Results obtained here represent the initial steps in the integration of genetic, genomic, and expressional patterns of genes co-localizing with chemical compositional traits of the tomato fruit.Instituto de BiotecnologíaFil: Bermúdez, Luisa. Universidade de Sao Paulo. Instituto de Biociências. Departamento de Botânica; BrasilFil: Urias, Ursula. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Biotecnología; Argentina. Universidade de Sao Paulo. Instituto de Biociências. Departamento de Botânica; BrasilFil: Milstein, D. Universidade de Sao Paulo. Instituto de Biociências. Departamento de Botânica; BrasilFil: Kamenetzky, Laura. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Biotecnología; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina.Fil: 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; ArgentinaFil: Fernie, Alisdair R. Max Planck Institute for Molecular Plant Physiology; AlemaniaFil: Van Sluys, M.A. Universidade de Sao Paulo. Instituto de Biociências. Departamento de Botânica; BrasilFil: Carrari, Fernando Oscar. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Biotecnología; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina.Fil: Rossi, Magdalena. Universidade de São Pablo. Instituto de Biociências. Departamento de Botânica; BrasilSociety for Experimental Biology2020-06-30T14:39:05Z2020-06-30T14:39:05Z2008-07info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionhttp://purl.org/coar/resource_type/c_6501info:ar-repo/semantics/articuloapplication/pdfhttp://hdl.handle.net/20.500.12123/7493https://academic.oup.com/jxb/article/59/10/2875/4422810022-09571460-2431https://doi.org/10.1093/jxb/ern146Journal of Experimental Botany 59 (10) : 2875–2890 (July 2008)reponame:INTA Digital (INTA)instname:Instituto Nacional de Tecnología Agropecuariaenginfo:eu-repo/semantics/openAccesshttp://creativecommons.org/licenses/by-nc-sa/4.0/Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0)2025-09-04T09:48:28Zoai:localhost:20.500.12123/7493instacron:INTAInstitucionalhttp://repositorio.inta.gob.ar/Organismo científico-tecnológicoNo correspondehttp://repositorio.inta.gob.ar/oai/requesttripaldi.nicolas@inta.gob.arArgentinaNo correspondeNo correspondeNo correspondeopendoar:l2025-09-04 09:48:30.798INTA Digital (INTA) - Instituto Nacional de Tecnología Agropecuariafalse |
dc.title.none.fl_str_mv |
A candidate gene survey of quantitative trait loci affecting chemical composition in tomato fruit |
title |
A candidate gene survey of quantitative trait loci affecting chemical composition in tomato fruit |
spellingShingle |
A candidate gene survey of quantitative trait loci affecting chemical composition in tomato fruit Bermúdez, Luisa Tomate Loci de Rasgos Cuantitativos Variación Genética Marcadores Genéticos Tomatoes Quantitative Trait Loci Genetic Variation Genetic Markers QTL (quantitative trait loci) Marcadores Moleculares |
title_short |
A candidate gene survey of quantitative trait loci affecting chemical composition in tomato fruit |
title_full |
A candidate gene survey of quantitative trait loci affecting chemical composition in tomato fruit |
title_fullStr |
A candidate gene survey of quantitative trait loci affecting chemical composition in tomato fruit |
title_full_unstemmed |
A candidate gene survey of quantitative trait loci affecting chemical composition in tomato fruit |
title_sort |
A candidate gene survey of quantitative trait loci affecting chemical composition in tomato fruit |
dc.creator.none.fl_str_mv |
Bermúdez, Luisa Urias, Ursula Milstein, D. Kamenetzky, Laura Asís, Ramón Fernie, Alisdair R. Van Sluys, M.A. Carrari, Fernando Rossi, Magdalena |
author |
Bermúdez, Luisa |
author_facet |
Bermúdez, Luisa Urias, Ursula Milstein, D. Kamenetzky, Laura Asís, Ramón Fernie, Alisdair R. Van Sluys, M.A. Carrari, Fernando Rossi, Magdalena |
author_role |
author |
author2 |
Urias, Ursula Milstein, D. Kamenetzky, Laura Asís, Ramón Fernie, Alisdair R. Van Sluys, M.A. Carrari, Fernando Rossi, Magdalena |
author2_role |
author author author author author author author author |
dc.subject.none.fl_str_mv |
Tomate Loci de Rasgos Cuantitativos Variación Genética Marcadores Genéticos Tomatoes Quantitative Trait Loci Genetic Variation Genetic Markers QTL (quantitative trait loci) Marcadores Moleculares |
topic |
Tomate Loci de Rasgos Cuantitativos Variación Genética Marcadores Genéticos Tomatoes Quantitative Trait Loci Genetic Variation Genetic Markers QTL (quantitative trait loci) Marcadores Moleculares |
dc.description.none.fl_txt_mv |
In tomato, numerous wild-related species have been demonstrated to be untapped sources of valuable genetic variability, including pathogen-resistance genes, nutritional, and industrial quality traits. From a collection of S. pennellii introgressed lines, 889 fruit metabolic loci (QML) and 326 yield-associated loci (YAL), distributed across the tomato genome, had been identified previously. By using a combination of molecular marker sequence analysis, PCR amplification and sequencing, analysis of allelic variation, and evaluation of co-response between gene expression and metabolite composition traits, the present report, provides a comprehensive list of candidate genes co-localizing with a subset of 106 QML and 20 YAL associated either with important agronomic or nutritional characteristics. This combined strategy allowed the identification and analysis of 127 candidate genes located in 16 regions of the tomato genome. Eighty-five genes were cloned and partially sequenced, totalling 45 816 and 45 787 bases from S. lycopersicum and S. pennellii, respectively. Allelic variation at the amino acid level was confirmed for 37 of these candidates. Furthermore, out of the 127 gene-metabolite co-locations, some 56 were recovered following correlation of parallel transcript and metabolite profiling. Results obtained here represent the initial steps in the integration of genetic, genomic, and expressional patterns of genes co-localizing with chemical compositional traits of the tomato fruit. Instituto de Biotecnología Fil: Bermúdez, Luisa. Universidade de Sao Paulo. Instituto de Biociências. Departamento de Botânica; Brasil Fil: Urias, Ursula. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Biotecnología; Argentina. Universidade de Sao Paulo. Instituto de Biociências. Departamento de Botânica; Brasil Fil: Milstein, D. Universidade de Sao Paulo. Instituto de Biociências. Departamento de Botânica; Brasil Fil: Kamenetzky, Laura. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Biotecnología; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina. Fil: 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 Fil: Fernie, Alisdair R. Max Planck Institute for Molecular Plant Physiology; Alemania Fil: Van Sluys, M.A. Universidade de Sao Paulo. Instituto de Biociências. Departamento de Botânica; Brasil Fil: Carrari, Fernando Oscar. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Biotecnología; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina. Fil: Rossi, Magdalena. Universidade de São Pablo. Instituto de Biociências. Departamento de Botânica; Brasil |
description |
In tomato, numerous wild-related species have been demonstrated to be untapped sources of valuable genetic variability, including pathogen-resistance genes, nutritional, and industrial quality traits. From a collection of S. pennellii introgressed lines, 889 fruit metabolic loci (QML) and 326 yield-associated loci (YAL), distributed across the tomato genome, had been identified previously. By using a combination of molecular marker sequence analysis, PCR amplification and sequencing, analysis of allelic variation, and evaluation of co-response between gene expression and metabolite composition traits, the present report, provides a comprehensive list of candidate genes co-localizing with a subset of 106 QML and 20 YAL associated either with important agronomic or nutritional characteristics. This combined strategy allowed the identification and analysis of 127 candidate genes located in 16 regions of the tomato genome. Eighty-five genes were cloned and partially sequenced, totalling 45 816 and 45 787 bases from S. lycopersicum and S. pennellii, respectively. Allelic variation at the amino acid level was confirmed for 37 of these candidates. Furthermore, out of the 127 gene-metabolite co-locations, some 56 were recovered following correlation of parallel transcript and metabolite profiling. Results obtained here represent the initial steps in the integration of genetic, genomic, and expressional patterns of genes co-localizing with chemical compositional traits of the tomato fruit. |
publishDate |
2008 |
dc.date.none.fl_str_mv |
2008-07 2020-06-30T14:39:05Z 2020-06-30T14:39:05Z |
dc.type.none.fl_str_mv |
info:eu-repo/semantics/article info:eu-repo/semantics/publishedVersion http://purl.org/coar/resource_type/c_6501 info:ar-repo/semantics/articulo |
format |
article |
status_str |
publishedVersion |
dc.identifier.none.fl_str_mv |
http://hdl.handle.net/20.500.12123/7493 https://academic.oup.com/jxb/article/59/10/2875/442281 0022-0957 1460-2431 https://doi.org/10.1093/jxb/ern146 |
url |
http://hdl.handle.net/20.500.12123/7493 https://academic.oup.com/jxb/article/59/10/2875/442281 https://doi.org/10.1093/jxb/ern146 |
identifier_str_mv |
0022-0957 1460-2431 |
dc.language.none.fl_str_mv |
eng |
language |
eng |
dc.rights.none.fl_str_mv |
info:eu-repo/semantics/openAccess http://creativecommons.org/licenses/by-nc-sa/4.0/ Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0) |
eu_rights_str_mv |
openAccess |
rights_invalid_str_mv |
http://creativecommons.org/licenses/by-nc-sa/4.0/ Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0) |
dc.format.none.fl_str_mv |
application/pdf |
dc.publisher.none.fl_str_mv |
Society for Experimental Biology |
publisher.none.fl_str_mv |
Society for Experimental Biology |
dc.source.none.fl_str_mv |
Journal of Experimental Botany 59 (10) : 2875–2890 (July 2008) reponame:INTA Digital (INTA) instname:Instituto Nacional de Tecnología Agropecuaria |
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INTA Digital (INTA) |
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INTA Digital (INTA) |
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Instituto Nacional de Tecnología Agropecuaria |
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INTA Digital (INTA) - Instituto Nacional de Tecnología Agropecuaria |
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tripaldi.nicolas@inta.gob.ar |
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