Articles
Use of SNP markers for the molecular characterization of the IMIDA Germplasm Bank lemon collection
Article number
1448_27
Pages
217 – 224
Language
English
Abstract
Like other germplasm banks, the IMIDA Citrus Germplasm Bank was created in the early 1980s to counteract the erosion in genetic variability of the cultivated species of interest in our region, Murcia, in southeastern Spain.
Since lemon has a paramount economic importance for the region, the bank includes more than 30 lemon entries: mostly local and traditional cultivars, but also others cultivated nowadays to a greater or lesser extent.
They have been phenotypically characterized and were classified into seven groups, based on their origin and similarity, and in this work we decided to undertake their molecular characterization by molecular markers.
Young leaves of 27 of these entries were used for DNA extraction and each entry was genotyped by using the KASP technology with 12 SNP and 1 InDel markers; five of them were specifically designed in our laboratory for lemon screening, while the rest had been previously developed for other Citrus species.
Six markers showed polymorphism among the accessions.
In particular, 2 markers were able to detect allelic differences among cultivars of the ‘Fino I’ group, whose phenotypic features are highly similar to each other.
Four markers distinguish the clones of ‘Verna’ group from the rest of cultivars.
The cultivar ‘Interdonato’ displayed a specific genotype at 2 markers.
However, many entries had a common marker profile, despite their different origin and clearly differentiated phenotype in the field.
Interestingly, polymorphisms differentiate between two homozygous classes in a given marker, or detect peculiar homozygotes among predominant heterozygosis, while all non-polymorphic markers display a heterozygous genotype.
Moreover, only the markers specifically designed for lemon were able to draw out the existing variability in the collection.
These results constitute the first approach to the genetic characterization of the IMIDA lemon collection, whilst providing a set of useful markers for lemon breeding programs.
Since lemon has a paramount economic importance for the region, the bank includes more than 30 lemon entries: mostly local and traditional cultivars, but also others cultivated nowadays to a greater or lesser extent.
They have been phenotypically characterized and were classified into seven groups, based on their origin and similarity, and in this work we decided to undertake their molecular characterization by molecular markers.
Young leaves of 27 of these entries were used for DNA extraction and each entry was genotyped by using the KASP technology with 12 SNP and 1 InDel markers; five of them were specifically designed in our laboratory for lemon screening, while the rest had been previously developed for other Citrus species.
Six markers showed polymorphism among the accessions.
In particular, 2 markers were able to detect allelic differences among cultivars of the ‘Fino I’ group, whose phenotypic features are highly similar to each other.
Four markers distinguish the clones of ‘Verna’ group from the rest of cultivars.
The cultivar ‘Interdonato’ displayed a specific genotype at 2 markers.
However, many entries had a common marker profile, despite their different origin and clearly differentiated phenotype in the field.
Interestingly, polymorphisms differentiate between two homozygous classes in a given marker, or detect peculiar homozygotes among predominant heterozygosis, while all non-polymorphic markers display a heterozygous genotype.
Moreover, only the markers specifically designed for lemon were able to draw out the existing variability in the collection.
These results constitute the first approach to the genetic characterization of the IMIDA lemon collection, whilst providing a set of useful markers for lemon breeding programs.
Publication
Authors
N. Navarro-García, Y. Jiménez-Alfaro, P. Bretó-Monfort, O. Pérez-Tornero
Keywords
Citrus limon, molecular markers, KASP, null alleles
Groups involved
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