Genetic mapping and annotation of genomic microsatellites isolated from globe artichoke

Acquadro, Alberto; Lanteri, Sergio; Scaglione, Davide; Arens, Paul; Vosman, Ben; Portis, Ezio

doi:10.1007/s00122-009-1005-6

Cited by 36 publications

(23 citation statements)

References 61 publications

(58 reference statements)

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“…An initial set of 93 genomic SSR assays developed in our laboratory (Acquadro et al 2003(Acquadro et al , b, 2009) was used to establish informativeness by amplifying the DNA of the three parents and six plants of each progeny. Each 20 ll PCR contained 10 ng genomic DNA, 10 mM Tris-HCl (pH 8.3), 50 mM KCl, 2.5 mM MgCl 2 , 0.5 U Taq polymerase, 0.2 mM dNTP, 200 nM unlabelled reverse primer and 200 nM IRD700-labelled forward primer.…”

Section: Ssr Fingerprintingmentioning

confidence: 99%

“…Microsatellites (SSRs) are particularly suited to DNA fingerprinting as well as for identifying potential parental genotypes for highly segregating populations development, given their robustness and informativeness. Over the last few years, a substantial set of globe artichoke SSR assays has been developed (Acquadro et al 2003(Acquadro et al , b, 2009, and these have been used to assess genetic diversity Portis et al 2005a, b, c) and to construct genetic linkage maps (Lanteri et al 2006;Portis et al 2009). …”

Section: Introductionmentioning

confidence: 99%

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Morphology and SSR fingerprinting of newly developed Cynara cardunculus genotypes exploitable as ornamentals

et al. 2011

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The species Cynara cardunculus includes the globe artichoke (var. scolymus), the cultivated cardoon (var. altilis) and the wild cardoon (var. sylvestris). The three taxa are sexually compatible and originate fertile F 1 progenies, which, given the high heterozygosity of the species, are highly segregating. We report the characterization of two F 1 populations, one bred from a cross between globe artichoke and cultivated cardoon, and the other between globe artichoke and wild cardoon. Both populations featured a wide array of phenotypes in relation to several traits, and some of the newly developed genotypes are of interest for the ornamental market. The two populations were genotyped at 50 microsatellite (SSR) loci: in the globe artichoke 9 wild cardoon and globe artichoke 9 cultivated cardoon progenies 116 and 97 alleles were respectively detected. SSR pattern scores were used to produce an UPGMA dendrogram and a PCoA plot. A set of nine SSR loci, evenly dispersed across the genome, was shown to be sufficient to unambiguously identify each segregant. The molecular fingerprinting is useful for establishing the true to type correspondence of propagative materials in nurseries and ensures the effective correspondence between the real and the declared identity of a clone.

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Section: Ssr Fingerprintingmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Morphology and SSR fingerprinting of newly developed Cynara cardunculus genotypes exploitable as ornamentals

et al. 2011

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“…The set of SSRs comprised 247 loci and were assayed using a combination of CELMS (Cynara Enriched Library MicroSatellite; Acquadro et al 2009) and CyEM (Cynara Expressed Microsatellite; Scaglione et al 2009) markers. An initial screen was performed using as template DNA from the two parentals and six of the F 1 progeny, in order to identify those markers which were more informative.…”

Section: Genotypic Analysismentioning

confidence: 99%

New genetic maps for globe artichoke and wild cardoon and their alignment with an SSR-based consensus map

et al. 2013

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An F 1 mapping population was bred by crossing an accession of wild cardoon with a single Argentinian globe artichoke plant of the variety "Estrella del Sur FCA" with a view to generate new C. cardunculus linkage maps. Genotyping was conducting using a set of 553 SRAP, SSR, AFLP and SNP markers.The 1,465.5 cM map based on the segregation of alleles present in the wild cardoon parent comprised 214 loci distributed across 16 linkage groups (LGs), while the 910.1 cM globe artichoke based map featured 141 loci falling into 12 LGs and the total length. Three of the morphological traits (inflorescence spininess, leaf spininess and head color) for which the parents contrasted were inherited monogenically, and the genes conditioning them were mapped. A set of 48 co-dominant loci was used to align the LGs with those derived from a reference SSRbased consensus map of the species.

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“…This can be laborious, time consuming and costly, then, the use of SSR technology depends usually, on the availability of suitable primers. Several SSR markers have been developed for C. cardunculus (Acquadro et al, 2003(Acquadro et al, , 2005a(Acquadro et al, ,b, 2009), so it is not a limiting variable in this species.…”

Section: Introductionmentioning

confidence: 99%

Simple sequence repeat (SSR) vs. sequence-related amplified polymorphism (SRAP) markers for Cynara cardunculus characterization

Casadevall¹,

Martín²,

Cravero³

2011

Span. j. agric. res.

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A little is known about the genetic variability present in globe artichoke, cultivated and wild cardoons. This knowledge is very important for efficient genetic resources utilization, and to gain a better understanding of genetic structure of this botanical varieties. With the aims to determine genetic distances between Cynara cardunculus accessions and to compare two molecular markers systems for their efficiency to differ between botanical varieties, a molecular characterization of sixteen accessions from different geographical origins was performed. Seven SSR and seven SRAP markers were used for varieties characterization and to calculate genetic distances between them. Both distance matrices were subjected to cluster analysis. Exclusive SSR alleles were found for globe artichoke and for wild cardoon, but non exclusive alleles were found for cultivated cardoon. For both markers systems two major groups were identified, one of them included mostly globe artichoke accessions and the other one grouped mainly cardoons. The differences observed in the sub-cluster conformation with each marker systems may be due to intrinsic characteristics of the markers. Concluding, both kind of molecular markers are valuable tools for studying genetic distances between C. cardunculus accessions although they give different information. Nevertheless, SSR electrophoretic profiles are simpler to score than SRAP markers because they consist of just a few bands. As well, bands are highly informative because of the great number of alleles existing in population and they are codominant markers. In addition, SSR's use would reduce time and costs.Additional key words: cardoon; genetic resources; genetic variability; globe artichoke. ResumenMarcadores SSR (simple sequence repeat) vs. SRAP (sequence-related amplified polymorphism) en la caracterización de Cynara cardunculus En la actualidad existe poca información acerca de la variabilidad genética presente en alcachofa y cardos (silvestres y cultivados). Conocer esta variabilidad es importante para utilizar eficientemente los recursos genéticos disponibles y comprender la estructura genética de estas variedades botánicas. Con el objetivo de determinar las distancias genéticas entre accesiones de Cynara cardunculus y comparar dos sistemas de marcadores moleculares en cuanto a su eficiencia para establecer diferencias entre las variedades, se realizó la caracterización molecular de 16 accesiones de diferentes orígenes geográficos. Para ello se utilizaron siete primers SSR y siete SRAP. Se calcularon las distancias genéticas y ambas matrices fueron sometidas a análisis de agrupamiento. Se encontraron alelos SSR exclusivos para alcachofa y cardo silvestre, pero no para cardo cultivado. El análisis de agrupamiento con ambos marcadores permitió identificar dos grandes grupos, el primero incluyó mayoritariamente accesiones de alcachofa mientras que el segundo agrupó a la mayoría de los cardos. Las diferencias observadas en la formación de sub-grupos con ambos sistemas se deberían a carac...

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Genetic mapping and annotation of genomic microsatellites isolated from globe artichoke

Cited by 36 publications

References 61 publications

Morphology and SSR fingerprinting of newly developed Cynara cardunculus genotypes exploitable as ornamentals

Morphology and SSR fingerprinting of newly developed Cynara cardunculus genotypes exploitable as ornamentals

New genetic maps for globe artichoke and wild cardoon and their alignment with an SSR-based consensus map

Simple sequence repeat (SSR) vs. sequence-related amplified polymorphism (SRAP) markers for Cynara cardunculus characterization

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