Identification of Chinese white pear cultivars using SSR markers

Tian, Lili; Gao, Yuan; Cao, Yufen; Liu, Fengzhi; Yang, Jun‐Bo

doi:10.1007/s10722-011-9785-3

Cited by 17 publications

(8 citation statements)

References 29 publications

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“…The apple locus CH02B12 revealed the highest allele numbers (27), while the pear locus KA14 yielded the lowest numbers (9). In agreement with this study, KA14 was also reported previously to generate low allele numbers (three alleles) (Katayama et al , ; Tian et al , ).…”

Section: Discussionsupporting

confidence: 93%

“…DNA marker technologies such as random amplified polymorphic DNA (RAPD) and amplified fragment length polymorphisms (AFLP) have been employed for genetic characterisation of pears (Iketani et al , ; Monte‐Corvo et al , ; Teng et al , ; Manganaris & Tsipouridis, ; Monte‐Corvo et al , ; Kim et al , ; Bao et al , ). More recently, simple sequence repeats (SSRs or microsatellites) have emerged as a powerful tool for DNA fingerprinting of pear germplasm due to their hyper‐variability, co‐dominance, high reproducibility and relative abundance (Powell et al , ; Yamamoto et al , 2001, 2002 a ; Brini et al , ; Erfani et al , ; Tian et al , ).…”

Section: Introductionmentioning

confidence: 99%

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Genetic analysis of Anatolian pear germplasm by simple sequence repeats

Akçay

Burak

Kazan

et al. 2014

Annals of Applied Biology

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The pear (Pyrus communis L.) is a fruit species grown in many temperate regions of the world. Turkey harbours a rich and ancient pear germplasm adapted to diverse ecological regions of the country. The aim of this study was to genetically characterise locally grown Anatolian pear germplasm. We have analysed large numbers (228) of pear accessions originated from six eco-geographically diverse regions using 18 simple sequence repeat (SSR) markers and identified 308 SSR alleles. Genetic similarities among the accessions examined were generally below 80%. The highest heterozygosity rate was obtained for the SSR locus 'CH02D11' derived from apples and 'KA16' and 'NH0021a' derived from pears. No identical or synonymous genotypes were found, while five homonymous genotypes were identified. Factorial correspondence analysis could not clearly separate different pear accession groups studied, suggesting that Anatolian pear accessions were intermixed possibly due to gene flow and/or germplasm movements between different eco-geographical regions. However, most pear accessions were grouped according to their collection sites in structure analyses. The SSR data reported here for Anatolian pear accessions will be valuable for future germplasm management efforts as well as for comparative studies that investigate genetic relationships of pears from Anatolia and the surrounding regions.

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Section: Discussionsupporting

confidence: 93%

Section: Introductionmentioning

confidence: 99%

Genetic analysis of Anatolian pear germplasm by simple sequence repeats

Akçay

Burak

Kazan

et al. 2014

Annals of Applied Biology

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“…Phylogenetic analysis SSR markers were used for identification of Chinese white pear cultivars and they were found ideal marker systems for phylogenetic reconstruction in pear species (Tian et al 2012). On the basis of allele sharing and Jaccard's similarity matrix, UPGMA dendrogram inferred two major groups of all pear accessions.…”

Section: Ssr Diversity and Structurementioning

confidence: 99%

Genetic diversity and structure of Pyrus accessions of Indian Himalayan region based on morphological and SSR markers

Rana

Chahota

Sharma

et al. 2014

Tree Genetics & Genomes

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Genetic diversity and phylogenetic relationships among 48 pear accessions belonging to six species were determined using 23 morphological traits and 20 simple sequence repeat (SSR) primers. To assess the genetic diversity, data on morphological (both quantitative and qualitative) traits were recorded during 2010-2012 using standard pear descriptors. It was observed that the traits ratio of fruit length to diameter, persistency of calyx on mature fruits and fruit surface and pulp texture were important in detecting variation across pear species. At molecular level, 20 SSR primers amplified 190 polymorphic alleles with an average of 9.5 alleles per primer. Size of amplified alleles ranged from 85 to 450 bp. Mean polymorphic information content (PIC) was 0.80 showing high level of SSR polymorphism. Bayesian model-based STRUCTURE analysis assigned genotypes into five clusters and also showed the extent of admixture within individuals. Genotypes belonging to Pyrus pyrifolia were clustered into two different clusters indicating broad genetic base for this species while Pyrus communis genotypes appeared to have conserved genetic makeup. Dendrogram-based on Jaccard's similarity coefficient and neighbor-joining tree showed two major groups of Asiatic (P. pyrifolia, Pyrus pashia, Pyrus serotina and Pyrus jacquemontiana) and European (P. communis) pears. However, accessions belonging to P. pyrifolia were further divided into subgroups. Cluster analysis based on morphological traits was in agreement with the dendrogram and structure clusters obtained with SSR data. The Mantel matrix correspondence test was used to further compare the molecular and morphological similarity matrices and positive correlation coefficient (r=0.164; P=0.001) was observed. Results of this study present important information about genetic structure of Indian pear accessions which can contribute significantly to future breeding and improvement programmes in this species.

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“…However, the authors converted the specific RAPD molecular markers into SCAR, which indicated its practical application and utility as a good reference for further research. Different identification methods have been report by Tian et al (2012), who used 9 SSR markers to identify 109 pear accessions, including 92 local Chinese accessions of Pyrus bretschneideri based on clusters directly obtained from the UPGMA dendrogram. Similar results were obtained by Madhou et al (2013), who used 11 SSR loci to fingerprint and identify cultivars of 88 litchi accessions, based on the UPGMA dendrogram, contributing to the rapid identification of cultivars based on a high distances of the GS coefficient between cultivars.…”

Section: Samplesizeselectionandfingerprintingconstructionmentioning

confidence: 99%

Identification of orchardgrass (Dactylis glomerata L.) cultivars by using simple sequence repeat markers

Jiang¹,

Zhang²,

Ma³

et al. 2013

Genet. Mol. Res.

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ABSTRACT. The accurate identification of orchardgrass (Dactylis glomerata L.) cultivars is necessary to ensure purity for consumers, the effective utilization of cultivars, and to protect the intellectual property for breeders. Therefore, this study aimed to use SSR to construct DNA fingerprinting of orchardgrass cultivars. The genetic diversity of 32 orchardgrass cultivars originated from 21 countries, but grown in China, was assessed using a set of 29 SSR markers distributed across 9 linkage groups of the orchardgrass genome. A total of 229 bands were detected, with an average of 7.9 bands per marker. The average polymorphic rate for the species was 92.1%. The polymorphism information content ranged from 0.771 to 0.893. The genetic similarity ranged from 0.55 to 0.84, which confirmed a high level of genetic diversity among orchardgrass cultivars. The unweighted pair-group method, in combination with the arithmetic mean algorithm (UPGMA) dendrogram and principal coordinate analysis, showed a separation of 6 major clusters among 32 cultivars. The number of distinguishable cultivars ranged from 3 to 23, with an average of 12.1 per primer. Moreover, 11 bands that showed stable and repeatable SSR patterns were amplified by A01E14, A01K14, and D02K13. These bands were used to develop the DNA fingerprints for 32 orchardgrass cultivars. In the DNA fingerprints constructed, each cultivar had a unique fingerprinting pattern that was easily distinguished from the others. These results indicate that the SSR marker was polymorphic, and reliable for use in potential large-scale DNA fingerprinting of orchardgrass cultivars.

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Identification of Chinese white pear cultivars using SSR markers

Cited by 17 publications

References 29 publications

Genetic analysis of Anatolian pear germplasm by simple sequence repeats

Genetic analysis of Anatolian pear germplasm by simple sequence repeats

Genetic diversity and structure of Pyrus accessions of Indian Himalayan region based on morphological and SSR markers

Identification of orchardgrass (Dactylis glomerata L.) cultivars by using simple sequence repeat markers

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