Assessment of genetic diversity and relationships among wild and cultivated Tunisian plums (Prunus spp) using random amplified microsatellite polymorphism markers

Abstract

ABSTRACT. The usefulness of random amplified microsatellite polymorphism markers to study the genetic diversity and relationships among cultivars belonging to Prunus salicina and P. domestica and their wild relatives (P. insititia and P. spinosa) was investigated. A total of 226 of 234 bands were polymorphic (96.58%). The 226 random amplified microsatellite polymorphism markers were screened using 15 random amplified polymorphic DNA and inter-simple sequence repeat primers combinations for 54 Tunisian plum accessions. The percentage of polymorphic bands (96.58%), the resolving power of primers values (135.70), and the polymorphic information content demonstrated the efficiency of the primers used in this study. The genetic distances between accessions ranged from 0.18 to 0.79 with a mean of 0.24, suggesting a high level of genetic diversity at the intra-and interspecific levels. The unweighted pair group with arithmetic mean dendrogram 1942-1956 (2015) Genetic diversity of Tunisian plums using RAMPO markers and principal component analysis discriminated cultivars efficiently and illustrated relationships and divergence between spontaneous, locally cultivated, and introduced plum types. These procedures showed continuous variation that occurs independently of the status of the species and geographical origin of the plums. In this study, random amplified microsatellite polymorphism was found to be as a reliable molecular marker for fingerprinting and for examining the diversity study of the plum and its relatives.

Genetic diversity and structure of walnut (Juglans regia L.) genotypes from Middle and High Atlas mountains of Morocco as investigated by Inter-Simple Sequence Repeat (ISSR) markers

“…In this work, ISSR markers have been used to provide useful information to establish efficient strategies for conservation of genetic resources and improvement programs of juglans regia. These markers have been utilized for tree improvement programs and conservation of crop genetic resources (Martins et al, 2003;Kaumar et al, 2009;Ajal et al, 2014, Ben Tamarzizt et al, 2015. To our best knowledge, this is the first report on the use of ISSR markers to examine genetic diversity and structure in Moroccan walnut germplasm, although this technique has previously been applied to the species juglans regia L. in other countries (Malvolti et al, 2010, Ebrahimi et al, 201;Aiqing et al, 2014).…”

Genetic diversity analysis of Chinese plum (Prunus salicina L.) based on whole-genome resequencing

“…The isozymes had a low degree of polymorphism and hence were not efficient enough for the characterization of germplasm genetic diversity (Khush 2002). Current research applies DNA-based markers in plum genetic diversity analysis: markers include random amplified polymorphic DNA (RAPD) (Liu et al 2006;Ben Tamarzizt et al 2015); simple sequence repeats (SSRs) (Pop et al 2018;Zhang et al 2018;Acuña et al 2019); and intersimple sequence repeats (ISSRs) (Liu et al 2007;Wu et al 2019). DNA-based marker assessments showed that Chinese plums can generally be classified into two major groups: the southern cultivar group (SCG) and the northern cultivar group (NCG) (Liu 2005;Wei et al 2019).…”

Genetic diversity analysis of Chinese plum (Prunus salicinaL.) based on whole-genome resequencing

“…Zhang and Zhang [8] took the lead in collecting plum germplasm resources and evaluating their genetic diversity on the basis of morphological traits and isozyme polymorphisms, whereas, morphological traits were highly susceptible to environmental factors, so the estimates of genetic diversity were not precise; while isozymes had a low degree of polymorphism and hence were not efficient enough for the characterization of germplasm genetic diversity [9]. Overcoming the above-mentioned problems, DNA-based markers became widely applied in plum genetic diversity analysis, including random amplified polymorphic DNAs (RAPDs) [5,10], simple sequence repeats (SSRs) [11][12][13], inter-simple sequence repeats (ISSRs) [2,14]. In addition, benefiting from the advances in next-generation sequencing (NGS) technologies, genotyping by sequencing (GBS), provides a great wealth of information that makes it possible to identify thousands of single nucleotide polymorphisms (SNPs), which, after adequate filtering, allow us to carry out detailed genetic diversity studies [7,[15][16][17].…”