Amplified fragment length polymorphism as a tool for molecular characterization of almond germplasm: genetic diversity among cultivated genotypes and related wild species of almond, and its relationships with agronomic traits

Sorkheh, Karim; Shiran, Behrouz; Gradziel, Thomas M.; Epperson, Bryan K.; Martínez‐Gómez, Pedro; Asadi, Ebrahim

doi:10.1007/s10681-007-9382-x

Cited by 99 publications

(73 citation statements)

References 41 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Our results showed that the PCoA data approximately corresponded to those obtained through cluster analysis. This is in agreement with other findings (DARVISHZADEH et al, 2010;KUMAR et al, 2009;SORKHE et al, 2007). Table 1 Conclusions 1.…”

Section: Resultssupporting

confidence: 93%

Molecular characterisation and similarity relationships among iranian basil (Ocimum basilicum L.) accessions using inter simple sequence repeat markers

2012

View full text Add to dashboard Cite

-The study of genetic relationships is a prerequisite for plant breeding activities as well as for conservation of genetic resources. In the present study, genetic diversity among 50 Iranian basil (Ocimum basilicum L.) accessions was determined using inter simple sequence repeat (ISSR) markers. Thirty-eight alleles were generated at 12 ISSR loci. The number of alleles per locus ranged from 1 to 5 with an average of 3.17. The maximum number of alleles was observed at the A7, 818, 825 and 849 loci, and their size ranged from 300 to 2500 bp. A similarity matrix based on Jaccard's coefficient for all 50 basil accessions gave values from 1.00-0.60. The maximum similarity (1.00) was observed between the "Urmia" and "Shahr-e-Rey II" accessions as well as between the "Urmia" and "Qazvin II" accessions. The lowest similarity (0.60) was observed between the "Tuyserkan I" and "Gom II" accessions. The unweighted pair-group method using arithmetique average UPGMA clustering algorithm classified the studied accessions into three distinct groups. All of the basil accessions, with the exception of "Babol III", "Ahvaz II", "Yazd II" and "Ardebil I", were placed in groups I and II. Leaf colour was a specific characteristic that influenced the clustering of Iranian basil accessions. Because of this relationship, the results of the principal coordinate analysis (PCoA) approximately corresponded to those obtained through cluster analysis. Our results revealed that the geographical distribution of genotypes could not be used as a basis for crossing parents to obtain high heterosis, and therefore, it must be carried out by genetic studies.Key words -Basil. Cluster analysis. Molecular markers. Plant genetic diversity.Resumo -O estudo das relações genéticas é um pré-requisito para atividades em reprodução de plantas assim como para conservação de recursos genéticos. Neste trabalho a diversidade genética entre 50 acessos de Manejericão Iraniano (Ocimum basilicum L.) foram determinadas usando marcadores de Seqüência Simples Repetida Interna (ISSR). Trinta e oito alelos foram identificados utilizando-se 12 locos ISSR. O número de alelos por lócus variou de 1 a 5 com uma média de 3,17. O máximo número de alelos foi observado em A7; 818; 825 e 849 locos, e seus tamanhos variaram de 300 a 2500 bp. Uma matriz de similaridade baseada no coeficiente de Jaccard para todas as 50 acessos obteve valores de 1,00-0,60. A máxima similaridade (1.00) foi observada nos acessos "Urmia" e "Shahr-e-Rey II" assim como entre os acessos "Urmia" e "Qazvin II". A menor similaridade (0,60) foi observada entre os acessos "Tuyserkan I" e "Gom II". O algoritmo de análise de agrupamentos foi o método da distância média usando a média aritmética (UPGMA) que classificou os acessos estudadas em três distintos grupos. Todos os acessos do manjericão com exceção de "Babol III", "Ahvaz II", "Yazd II" e "Ardebil I", foram localizadas nos grupos I e II. A cor da folha foi uma característica específica que influenciou o agrupamento dos acessos do Manjericão Iraniano. D...

show abstract

Section: Resultssupporting

confidence: 93%

Molecular characterisation and similarity relationships among iranian basil (Ocimum basilicum L.) accessions using inter simple sequence repeat markers

2012

View full text Add to dashboard Cite

show abstract

“…The PIC parameter is used in genetics as a measure of polymorphism for a marker locus (Roldán-Luiz et al 2000), the MI parameter is used to estimate the overall utility of each marker system (Sorkheh et al 2007) and EMR is used to evaluate whether a primer is effective (Powell et al 1996). The most appropriate primers to differentiate species/cultivars were the OPE01 in RAPDs and UBC844 in ISSRs since both presented the highest value of PIC, MI and EMR in both tissues (fruits and leaves).…”

Section: Resultsmentioning

confidence: 99%

“…and Ib is band informativeness and p i is the proportion of the accessions containing band; the polymorphism information content (PIC) according to Roldán-Ruiz et al (2000) where PIC i = 2f i (1 -f i ) (f i is the frequency of amplified allele and 1 -f i is the frequency of null allele of marker i); the effective multiplex ratio (EMR) following Powell et al (1996) where EMR is number of polymorphic products from a single amplification reaction; and the marker index (MI) following Sorkheh et al (2007) defined as the product of polymorphism percentage and PIC. Cluster analysis was done, applying an unweighted pairgroup method with arithmetic averages (UPGMA) based on a simple matching similarity matrix and SAHN subroutine to compute a principal coordinate (PCO) analysis through the NTSYS-pc Ver.…”

Section: Methodsmentioning

confidence: 99%

Fingerprinting of Vaccinium corymbosum cultivars using DNA of fruits

Carvalho

Matos

Carnide

2014

Hort. Sci. (Prague)

View full text Add to dashboard Cite

Carvalho M., Matos M., Carnide V., 2014. Fingerprinting of Vaccinium corymbosum cultivars using DNA of fruits. Hort. Sci. (Prague), 41: 175-184.In recent years the production and consumption Vaccinium corymbosum has increased. Highbush blueberry cultivars are divided into three types, northern, intermediate and southern. The traditional methods for classification of highbush blueberry cultivars using morphological and flavour traits are largely unsuccessful, due to environmental influences. The genetic similarity of ten highbush blueberry cultivars was evaluated using random amplified polymorphic DNA (RAPD) and inter simple sequence repeat (ISSR) markers from fruits and leaves. The DNA concentrations obtained in fruits and leaves were very similar and the band profiles observed in the two tissues were analogous with both molecular markers. RAPD analysis generated 144 bands, of which 112 were polymorphic (77.8%) in fruits and 141 bands of which 118 were polymorphic (83.7%) in leaves. In fruits, ISSR analysis produced 151 bands of which 127 were polymorphic (84.1%) and in leaves it produced 148 bands with 127 being polymorphic (85.8%). Dendrogram and principal coordinates analysis (PCO) analysis using the both markers results were concordant and a clear division of the types of highbush blueberry cultivars (northern and southern) into two distinct groups was verified.

show abstract

“…Recently, various molecular markers such as sequence related amplified polymorphism (SRAP), amplified fragment length polymorphism (AFLP) and single nucleotide polymorphisms (SNP) have been used for almond genetic diversity assessment (Jing et al, 2013;Sorkheh et al, 2007;Wu et al, 2008). Microsatellites or simple sequence repeat markers (SSRs) are the preferred marker for a wide range of applications in genetics and plant breeding.…”

Section: Introductionmentioning

confidence: 99%

Molecular variance of the Tunisian almond germplasm assessed by simple sequence repeat (SSR) markers

Gouta¹,

Ksia²,

Ahmed³

et al. 2013

Afr. J. Biotechnol.

View full text Add to dashboard Cite

The genetic variance analysis of 82 almond (Prunus dulcis Mill.) genotypes was performed using ten genomic simple sequence repeats (SSRs). A total of 50 genotypes from Tunisia including local landraces identified while prospecting the different sites of Bizerte and Sidi Bouzid (Northern and central parts) which are the most important locations of almond diversity in Tunisia were included. Analysis of molecular variance (AMOVA) was performed for 11 populations from these different regions and foreign countries to examine the distribution of genetic variation of the accessions studied. Results show that the major variation occurred within populations in each geographic site. Additionally, this analysis demonstrates that the genetic diversity within local almond cultivars was important, with a clear geographic distinction between the Northern and the Southern Tunisian cultivars. The value of prospecting new sites, preserving genetic diversity and encouraging on farmers almond collections is also discussed.

show abstract

Amplified fragment length polymorphism as a tool for molecular characterization of almond germplasm: genetic diversity among cultivated genotypes and related wild species of almond, and its relationships with agronomic traits

Cited by 99 publications

References 41 publications

Molecular characterisation and similarity relationships among iranian basil (Ocimum basilicum L.) accessions using inter simple sequence repeat markers

Molecular characterisation and similarity relationships among iranian basil (Ocimum basilicum L.) accessions using inter simple sequence repeat markers

Fingerprinting of Vaccinium corymbosum cultivars using DNA of fruits

Molecular variance of the Tunisian almond germplasm assessed by simple sequence repeat (SSR) markers

Contact Info

Product

Resources

About