A set of EST-SNPs for map saturation and cultivar identification in melon
Visualitza/Obre
Autor/a
Deleu, Wim
Esteras, Cristina
Roig, Cristina
González-To, Mireia
Fernández-Silva, Iria
Gonzalez-Ibeas, Daniel
Blanca, José
Aranda, Miguel A
Nuez, Fernando
Picó, Maria Belén
Data de publicació
2009-07-15ISSN
1471-2229
Resum
Background: There are few genomic tools available in melon (Cucumis melo L.), a member of the Cucurbitaceae, despite
its importance as a crop. Among these tools, genetic maps have been constructed mainly using marker types such as
simple sequence repeats (SSR), restriction fragment length polymorphisms (RFLP) and amplified fragment length
polymorphisms (AFLP) in different mapping populations. There is a growing need for saturating the genetic map with
single nucleotide polymorphisms (SNP), more amenable for high throughput analysis, especially if these markers are
located in gene coding regions, to provide functional markers. Expressed sequence tags (ESTs) from melon are available
in public databases, and resequencing ESTs or validating SNPs detected in silico are excellent ways to discover SNPs.
Results: EST-based SNPs were discovered after resequencing ESTs between the parental lines of the PI 161375 (SC) ×
'Piel de sapo' (PS) genetic map or using in silico SNP information from EST databases. In total 200 EST-based SNPs were
mapped in the melon genetic map using a bin-mapping strategy, increasing the map density to 2.35 cM/marker. A subset
of 45 SNPs was used to study variation in a panel of 48 melon accessions covering a wide range of the genetic diversity
of the species. SNP analysis correctly reflected the genetic relationships compared with other marker systems, being able
to distinguish all the accessions and cultivars.
Conclusion: This is the first example of a genetic map in a cucurbit species that includes a major set of SNP markers
discovered using ESTs. The PI 161375 × 'Piel de sapo' melon genetic map has around 700 markers, of which more than
500 are gene-based markers (SNP, RFLP and SSR). This genetic map will be a central tool for the construction of the
melon physical map, the step prior to sequencing the complete genome. Using the set of SNP markers, it was possible
to define the genetic relationships within a collection of forty-eight melon accessions as efficiently as with SSR markers,
and these markers may also be useful for cultivar identification in Occidental melon varieties.
Tipus de document
Article
Versió del document
Versió publicada
Llengua
English
Matèries (CDU)
575 - Genètica general. Citogenètica general. Immunogenètica. Evolució. Filogènia
633 - Cultius i produccions
Pàgines
9
Publicat per
BMC
Publicat a
BMC Plant Biology
Citació
Deleu, Wim, Cristina Esteras, Cristina Roig, Mireia González-To, Iria Fernández-Silva, Daniel Gonzalez-Ibeas, José Blanca, et al. 2009. “A Set of EST-SNPs for Map Saturation and Cultivar Identification in Melon.” BMC Plant Biology 9 (1): 90. doi: 10.1186/1471-2229-9-90
Número de l'acord de la subvenció
MEC/ /GEN2003-20237-C06/ES/ /
Programa
Genòmica i Biotecnologia
Aquest element apareix en la col·lecció o col·leccions següent(s)
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