Genetic diversity and population structure of apple germplasm from Eastern Black Sea region of Turkey by SSRs

Bakır, Melike; Dumanoğlu, Hatice; Aygün, Ahmet; Erdoğan, V.; Dost, Said Efe; Gülşen, Osman; Serdar, Ümit; Kalkışım, Özgün; Baştaş, Kubilay Kurtuluş

doi:10.1016/j.scienta.2021.110793

Cited by 12 publications

(8 citation statements)

References 31 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…The successful amplification and polymorphism obtained using 23 SSR markers covering the apple genome used to screen the 186 apple accessions (Pop1) confirmed previously reported results for cultivar identification and genetic mapping in apple trees [ 1 , 10 , 11 , 27 , 67 , 68 , 69 , 70 ].…”

Section: Discussionsupporting

confidence: 83%

“…The observed heterozygosity averaged for the entire dataset (0.75) over the 23 SSR loci was exactly the same as reported by Meland et al [ 74 ], studying 171 accessions and using seven SSR markers also used in the present study (CH02c06, GD12, CH01h10, CH02c11, CH02d08, CH02c09, and CH01h01 markers). Moreover, the H 0 was higher than the 0.67 observed by Ferreira et al [ 68 ] but slightly lower than reported values of 0.78 [ 10 ], 0.83 [ 8 ], 0.76 [ 67 ], and 0.81 [ 1 ]. The differences found in these studies could be due to the different plant material, the ploidy level, or even the number of accessions assessed in each study.…”

Section: Discussioncontrasting

confidence: 66%

“…Indeed, the mean value found in this study was a 15.65 number of alleles per locus for Pop1, which is slightly lower than the 16.69 observed by Urrestarazu et al [ 1 ] studying 493 accessions and the 18.62 reported by Pereira-Lorenzo et al [ 11 ] with 1453 accessions in Spain and sharing respectively 16 SSRs (13 markers out of 16 were used in the present study) and 13 SSR markers (12 out of 13 were included in the present work). Moreover, 18 alleles on average per locus were found in a Turkish germplasm collection of 206 accessions [ 67 ] and 19.5 in a collection of 2163 accessions in France [ 8 ]. Nevertheless, Marconi et al [ 10 ], assessing 175 accessions in Italy, and Ferreira et al [ 68 ], studying 87 accessions in Portugal, observed a mean value for the number of alleles per locus of 14.6 and 11.5 respectively.…”

Section: Discussionmentioning

confidence: 99%

See 2 more Smart Citations

Population Structure and Association Mapping for Agronomical and Biochemical Traits of a Large Spanish Apple Germplasm

Mignard

Forcada

Giménez

et al. 2023

Plants

View full text Add to dashboard Cite

A basic knowledge of linkage disequilibrium and population structure is necessary in order to determine the genetic control and identify significant associations with agronomical and phytochemical compounds in apple (Malus × domestica Borkh). In this study, 186 apple accessions (Pop1), representing both Spanish native accessions (94) and non-Spanish cultivars (92) from the EEAD-CSIC apple core collection, were assessed using 23 SSRs markers. Four populations were considered: Pop1, Pop2, Pop3, and Pop4. The initial Pop1 was divided into 150 diploid (Pop2) and 36 triploid accessions (Pop3), while for the inter-chromosomal linkage disequilibrium and the association mapping analysis, 118 phenotype diploid accessions were considered Pop4. Thus, the average number of alleles per locus and observed heterozygosity for the overall sample set (Pop1) were 15.65 and 0.75, respectively. The population structure analysis identified two subpopulations in the diploid accessions (Pop2 and Pop4) and four in the triploids (Pop3). Regarding the Pop4, the population structure with K = 2 subpopulations segregation was in agreement with the UPGMA cluster analysis according to the genetic pairwise distances. Moreover, the accessions seemed to be segregated by their origin (Spanish/non-Spanish) in the clustering analysis. One of the two subpopulations encountered was quite-exclusively formed by non-Spanish accessions (30 out of 33). Furthermore, agronomical and basic fruit quality parameters, antioxidant traits, individual sugars, and organic acids were assessed for the association mapping analysis. A high level of biodiversity was exhibited in the phenotypic characterization of Pop4, and a total of 126 significant associations were found between the 23 SSR markers and the 21 phenotypic traits evaluated. This study also identified many new marker-locus trait associations for the first time, such as in the antioxidant traits or in sugars and organic acids, which may be useful for predictions and for a better understanding of the apple genome.

show abstract

Section: Discussionsupporting

confidence: 83%

Section: Discussioncontrasting

confidence: 66%

Section: Discussionmentioning

confidence: 99%

See 1 more Smart Citation

Population Structure and Association Mapping for Agronomical and Biochemical Traits of a Large Spanish Apple Germplasm

Mignard

Forcada

Giménez

et al. 2023

Plants

View full text Add to dashboard Cite

show abstract

“…A higher percentage of genotypes with three detected alleles per locus have been reported by studies conducted on Spanish [36] (24%), Bosnian [28,50] (27%), Spanish and Portuguese [7] (24%), as well as Turkish (18.9%) [8] apple germplasm. A higher frequency of triploid apple accession among germplasm from southern Europe compared to northern Europe has been noted by Kanlic et al [51], who proposed that this was due to the effect of climatic conditions on the pollination rates and differences in the traditional end-use of the fruit.…”

Section: Allele Polymorphismmentioning

confidence: 76%

“…Since that time, numerous large scale genetic studies on apple accessions have been conducted using everything from 13 [7,8], 14 [9], 15 [10,11], 16 [12], and up to 19 different SSRs [13]. Although none of the mentioned studies surpass the Lassois et al [6] study in terms of the sheer number of microsatellite markers, there is a notable increase in the lower end number of SSRs employed in genetic studies on apple accession through the years.…”

Section: Introductionmentioning

confidence: 99%

Genetic Identity and Diversity of Apple Accessions within a Candidate Collection for the Norwegian National Clonal Germplasm Repository

et al. 2022

View full text Add to dashboard Cite

In order to best conserve, as well as utilize, traditional apple germplasm in Norway, an apple heritage cultivar collection was established in Ullensvang, western Norway, which aims to become the National Clonal Germplasm Repository. The establishment of the apple heritage cultivar collection was preceded by a molecular study that aimed to genotype a large number of apple accessions maintained in various ex situ sites in western and south-eastern Norway, using a rather small set of eight SSR markers. However limited, the marker set managed to identify synonyms, homonyms, and duplicates within and among the investigated collections. In this study, 171 apple accessions from the Ullensvang apple heritage cultivar collection were genotyped using a set of 20 different SSR markers. Approximately half of the accessions have been previously genotyped using eight SSR markers, enabling an assessment of whether the use of a larger marker set would yield a more accurate characterization. Based on the obtained molecular data, the apple heritage cultivar collection was determined to hold a key part of the overall genetic diversity of the Norwegian apple germplasm. Furthermore, the twelve additional SSR markers were able to differentiate several accessions groups originally thought to be synonyms, as well as to provide a more detailed insight into the genetic structure of this germplasm.

show abstract

Malus Species: Germplasm Conservation and Utilization

Verma,

Negi,

Saini

et al. 2023

Fruit and Nut Crops

View full text Add to dashboard Cite

Genetic diversity and population structure of apple germplasm from Eastern Black Sea region of Turkey by SSRs

Cited by 12 publications

References 31 publications

Population Structure and Association Mapping for Agronomical and Biochemical Traits of a Large Spanish Apple Germplasm

Population Structure and Association Mapping for Agronomical and Biochemical Traits of a Large Spanish Apple Germplasm

Genetic Identity and Diversity of Apple Accessions within a Candidate Collection for the Norwegian National Clonal Germplasm Repository

Malus Species: Germplasm Conservation and Utilization

Contact Info

Product

Resources

About