Genetic relationships and diversity of common apricot (Prunus armeniaca L.) based on simple sequence repeat (SSR) markers

To determine genetic relationships among strains of silkworm, Bombyx mori L., 31 strains with different origins, number of generations per year, number of molts per generation, and morphological characters were studied using simple sequence repeat (SSR) markers. Twenty-six primer pairs flanking microsatellite sequences in the silkworm genome were assayed. All were polymorphic and unambiguously separated silkworm strains from each other. A total of 188 alleles were detected with a mean value of 7.2 alleles/locus (range 2–17). The average heterozygosity value for each SSR locus ranged from 0 to 0.60, and the highest one was 0.96 (Fl0516 in 4013). The mean polymorphism index content (PIC) was 0.66 (range 0.12–0.89). Unweighted pair group method with arithmetic means (UPGMA) cluster analysis of Nei's genetic distance grouped silkworm strains based on their origin. Seven major ecotypic silkworm groups were analyzed. Principal components analysis (PCA) for SSR data support their UPGMA clustering. The results indicated that SSR markers are an efficient tool for fingerprinting cultivars and conducting genetic-diversity studies in the silkworm.Key words: silkworm, Bombyx mori L., microsatellites, simple sequence repeat (SSR), genetic diversity.

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Genetic diversity analysis of yam cultivars (Dioscorea rotundata Poir.) in Benin using simple sequence repeat (SSR) markers

Plant Genetic Resources ◽

10.1017/s1479262107672323 ◽

2007 ◽

Vol 5 (02) ◽

pp. 71-81 ◽

Cited By ~ 23

Author(s):

Serge Tostain ◽

Clément Agbangla ◽

Nora Scarcelli ◽

Cédric Mariac ◽

Ogoubi Daïnou ◽

...

Keyword(s):

Genetic Diversity ◽

Ssr Markers ◽

Simple Sequence Repeat ◽

Management Practices ◽

Genetic Relationships ◽

Sequence Repeat ◽

Dioscorea Rotundata ◽

Tuber Crop ◽

The Mean ◽

Simple Sequence

Guinea yam (Dioscorea rotundataPoir.) is a dioecious vegetatively propagated tuber crop. It is widely cultivated by traditional techniques in West Africa, its area of origin. The genetic diversity of 146 accessions from Benin was analysed using 10 polymorphic simple sequence repeat (SSR) nuclear markers and agromorphological traits. An average of 8.4 alleles per locus was detected. The mean heterozygosity was 0.57 and the mean polymorphism information content (PIC) for polymorphic markers was 0.51. Some cultivars (23%) were found to have an identical genotype for the 10 markers. The structure of the genetic diversity observed in Benin is the result of farmers' crop management practices and their know-how. The cultivar diversity had a geographical component. We also noted major differentiation between early and late cultivars, with higher diversity in the early ones. Cultivars from northern Benin and early cultivars had the greatest allelic richness. SSR markers proved to be powerful tools for fingerprinting each cultivar and analysing their genetic relationships. The results of this study could be useful for defining a strategy for the conservation of genetic diversity in yams.

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Application of simple sequence repeat (SSR) markers in apricot breeding: molecular characterization, protection, and genetic relationships

Scientia Horticulturae ◽

10.1016/j.scienta.2004.06.009 ◽

2005 ◽

Vol 103 (3) ◽

pp. 305-315 ◽

Cited By ~ 44

Author(s):

R. Sánchez-Pérez ◽

D. Ruiz ◽

F. Dicenta ◽

J. Egea ◽

P. Martínez-Gómez

Keyword(s):

Molecular Characterization ◽

Ssr Markers ◽

Simple Sequence Repeat ◽

Genetic Relationships ◽

Sequence Repeat ◽

Simple Sequence

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Simple Sequence Repeat Markers Reveal Hungarian Plum (Prunus domestica L.) Germplasm as a Valuable Gene Resource

HortScience ◽

10.21273/hortsci12406-17 ◽

2017 ◽

Vol 52 (12) ◽

pp. 1655-1660 ◽

Cited By ~ 4

Author(s):

Noémi Makovics-Zsohár ◽

Magdolna Tóth ◽

Dezső Surányi ◽

Szilvia Kovács ◽

Attila Hegedűs ◽

...

Keyword(s):

Ssr Markers ◽

Simple Sequence Repeat ◽

Allelic Variation ◽

Genetic Relationships ◽

Principal Component ◽

Bootstrap Support ◽

Limited Information ◽

Sequence Repeat ◽

Prunus Domestica ◽

Simple Sequence

The hexaploid European plum (Prunus domestica L.) is an economically important fruit species with limited information on its genetic structure. Our objective was to fingerprint 55 cultivars using seven simple sequence repeat (SSR) markers to estimate the polymorphism level and determine allelic variation and genetic relationships among local and international cultivars. The primer pairs amplified a total of 135 alleles ranging from six to 27 alleles per locus, displaying high polymorphism. All genotypes were clearly distinguished with the seven SSRs used in this study. In a neighbor-joining cluster analysis, cultivars belonging to the same species did not group together. Foreign modern cultivars clustered together, and Hungarian landraces positioned distantly from those. STRUCTURE analysis indicated three genetically distinct groups of the studied genotypes. Each cluster of Hungarian landrace cultivars received strong bootstrap support (89% to 100%). Most genotypes kept under identical name showed different DNA fingerprints. A principal component analysis (PCA) confirmed the information provided by the dendrogram and clarified the origin of ʻFehérszilva’. Our results confirmed the potential of the application of SSR markers in plum breeding.

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Characterization of Ugandan Sweetpotato Germplasm Using Fluorescent Labeled Simple Sequence Repeat Markers

HortScience ◽

10.21273/hortsci.45.2.225 ◽

2010 ◽

Vol 45 (2) ◽

pp. 225-230 ◽

Cited By ~ 16

Author(s):

Benard Yada ◽

Phinehas Tukamuhabwa ◽

Bramwell Wanjala ◽

Dong-Jin Kim ◽

Robert A. Skilton ◽

...

Keyword(s):

Cluster Analysis ◽

Genetic Distance ◽

Ssr Markers ◽

Simple Sequence Repeat ◽

Ipomoea Batatas ◽

Polymorphic Information Content ◽

Genetic Relationships ◽

Germplasm Collection ◽

Sequence Repeat ◽

Simple Sequence

The genetic relationships among 192 superior, high–yielding, and disease-resistant sweetpotato [Ipomoea batatas (L.) Lam] accessions from the Ugandan germplasm collection were analyzed using 10 fluorescent labeled simple sequence repeat (SSR) markers. Relatedness among the genotypes was estimated using the Nei and Li genetic distance coefficient, cluster analysis and principle component analysis methods of NTSYS-pc software. The polymorphic information content of the SSR markers used in this study ranged from 0.23 to 0.76 for loci IB-S07 and IB-R12, respectively, with a mean value of 0.62. The number of polymorphic alleles detected per locus ranged from two to six with a mean of four, a confirmation of the effectiveness of microsatellite detection on an automated ABI 3730 sequencer. The mean pairwise genetic distance among the 192 genotypes was 0.57, an indication of moderately high genetic diversity. Cluster analysis divided the accessions into four major groups with no relationship to the district of origin. Two sets of duplicates were identified through SSR genotyping in this study. Up to 190 distinct accessions for use as potential parental genotypes in hybridization schemes for cultivar development in the region were identified.

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