Whole genome re-sequencing analysis of two tomato genotypes for polymorphism insight in cloned genes and a genetic map construction

Next generation sequencing technologies have become affordable for most plant breeding programs. In this study we sequenced the entire genome of the Solanum lycopersicum L. cultivar Caimanta and S. pimpinellifolium L. accession LA0722 with assembly relative to the Heinz 1706 reference version SL2.50...

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Detalles Bibliográficos
Autores principales:	Cambiaso, Vladimir, Pratta, Guillermo Raúl, Pereira da Costa, Javier Hernán, Zorzoli, Roxana, Francis, David Merrel, Rodríguez, Gustavo Rubén
Formato:	article artículo acceptedVersion
Lenguaje:	Inglés
Publicado:	Elsevier 2019
Materias:	InDel markers Linkage map Next generation sequencing Solanum spp. Variant calling
Acceso en línea:	http://hdl.handle.net/2133/14269 http://hdl.handle.net/2133/14269
Aporte de:	Repositorio Hipermedial de la Universidad Nacional de Rosario (UNR) de Universidad Nacional de Rosario

id	I15-R121-2133-14269
record_format	dspace
institution	Universidad Nacional de Rosario
institution_str	I-15
repository_str	R-121
collection	Repositorio Hipermedial de la Universidad Nacional de Rosario (UNR)
language	Inglés
orig_language_str_mv	eng
topic	InDel markers Linkage map Next generation sequencing Solanum spp. Variant calling
spellingShingle	InDel markers Linkage map Next generation sequencing Solanum spp. Variant calling Cambiaso, Vladimir Pratta, Guillermo Raúl Pereira da Costa, Javier Hernán Zorzoli, Roxana Francis, David Merrel Rodríguez, Gustavo Rubén Whole genome re-sequencing analysis of two tomato genotypes for polymorphism insight in cloned genes and a genetic map construction
topic_facet	InDel markers Linkage map Next generation sequencing Solanum spp. Variant calling
description	Next generation sequencing technologies have become affordable for most plant breeding programs. In this study we sequenced the entire genome of the Solanum lycopersicum L. cultivar Caimanta and S. pimpinellifolium L. accession LA0722 with assembly relative to the Heinz 1706 reference version SL2.50. We present 1) analysis of the amount and distribution of polymorphism in “Caimanta” and “LA0722”, 2) examination of alleles in candidate genes affecting disease resistance, fruit shape, fruit weight and fruit quality and 3) development of molecular markers to construct a genetic linkage map based on a F2 population. A total of 1,397,518 polymorphisms were detected in the comparison between “Caimanta” and “LA0722”. A resistant allele for Rx4/Xv3 was detected by sequence, and confirmed through inoculation. We developed a set of insertion/deletion (InDel) DNA markers that can be multiplexed and scored using easily accessed genotyping platforms. These markers were used to construct a genetic linkage map. We demonstrate that the whole genome sequencing of parental lines can be successfully used to reveal phenotypes and characterize a reference population through easily accessed genotyping strategies.
format	article artículo acceptedVersion
author	Cambiaso, Vladimir Pratta, Guillermo Raúl Pereira da Costa, Javier Hernán Zorzoli, Roxana Francis, David Merrel Rodríguez, Gustavo Rubén
author_facet	Cambiaso, Vladimir Pratta, Guillermo Raúl Pereira da Costa, Javier Hernán Zorzoli, Roxana Francis, David Merrel Rodríguez, Gustavo Rubén
author_sort	Cambiaso, Vladimir
title	Whole genome re-sequencing analysis of two tomato genotypes for polymorphism insight in cloned genes and a genetic map construction
title_short	Whole genome re-sequencing analysis of two tomato genotypes for polymorphism insight in cloned genes and a genetic map construction
title_full	Whole genome re-sequencing analysis of two tomato genotypes for polymorphism insight in cloned genes and a genetic map construction
title_fullStr	Whole genome re-sequencing analysis of two tomato genotypes for polymorphism insight in cloned genes and a genetic map construction
title_full_unstemmed	Whole genome re-sequencing analysis of two tomato genotypes for polymorphism insight in cloned genes and a genetic map construction
title_sort	whole genome re-sequencing analysis of two tomato genotypes for polymorphism insight in cloned genes and a genetic map construction
publisher	Elsevier
publishDate	2019
url	http://hdl.handle.net/2133/14269 http://hdl.handle.net/2133/14269
work_keys_str_mv	AT cambiasovladimir wholegenomeresequencinganalysisoftwotomatogenotypesforpolymorphisminsightinclonedgenesandageneticmapconstruction AT prattaguillermoraul wholegenomeresequencinganalysisoftwotomatogenotypesforpolymorphisminsightinclonedgenesandageneticmapconstruction AT pereiradacostajavierhernan wholegenomeresequencinganalysisoftwotomatogenotypesforpolymorphisminsightinclonedgenesandageneticmapconstruction AT zorzoliroxana wholegenomeresequencinganalysisoftwotomatogenotypesforpolymorphisminsightinclonedgenesandageneticmapconstruction AT francisdavidmerrel wholegenomeresequencinganalysisoftwotomatogenotypesforpolymorphisminsightinclonedgenesandageneticmapconstruction AT rodriguezgustavoruben wholegenomeresequencinganalysisoftwotomatogenotypesforpolymorphisminsightinclonedgenesandageneticmapconstruction
bdutipo_str	Repositorios
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Whole genome re-sequencing analysis of two tomato genotypes for polymorphism insight in cloned genes and a genetic map construction

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