Cross-species amplification and characterization of microsatellite loci in Pinus mugo Turra

Biologia ◽  
2013 ◽  
Vol 68 (4) ◽  
Author(s):  
Konrad Celiński ◽  
Ewa Pawlaczyk ◽  
Aleksandra Wojnicka-Półtorak ◽  
Ewa Chudzińska ◽  
Wiesław Prus-Głowacki
Keyword(s):  
Microsatellite Markers ◽  
Polymorphic Information Content ◽  
Pinus Mugo ◽  
Genetic Studies ◽  
Transfer Rates ◽  
Isolation And Characterization ◽  
Nuclear Microsatellite ◽  
European Mountain ◽  
High Level

AbstractPinus mugo (dwarf mountain pine) is an important component of European mountain ecosystems. However, little is known about the present genetic structure and population differentiation of this species at the DNA level, possibly due to a lack of nuclear microsatellite markers (SSR) developed for Pinus mugo. Therefore in this study we transferred microsatellite markers originally developed for Pinus sylvestris and Pinus taeda to Pinus mugo. This cross-species amplification approach is much faster and less expensive than isolation and characterization of new microsatellite markers. The transfer rates from the source species to Pinus mugo were moderately low (26%). There were no differences in microsatellite repeat motifs between the source species and Pinus mugo. Nuclear microsatellite markers successfully transferred to Pinus mugo can be applied to various genetic studies on this species, due to the high level of their polymorphism and high value of polymorphic information content.

scholarly journals Isolation And Characterization Of 38 SNP Markers For The Black Rockfish, Sebastes Schlegelii By Next-Generation Sequencing

2021 ◽  
Author(s):  
Xianggang Gao ◽  
Xiangbo Bao ◽  
Wei Sun ◽  
Yunfeng Li ◽  
Zongying Liu ◽  
...  
Keyword(s):  
Polymorphic Information Content ◽  
Snp Markers ◽  
Habitat Destruction ◽  
Single Nucleotide ◽  
Genetic Studies ◽  
Important Species ◽  
Black Rockfish ◽  
Isolation And Characterization ◽  
Sebastes Schlegelii

Abstract The black rockfish (Sebastes schlegelii) is an economically important species. However, wild S. schlegelii resources have declined sharply in recent years as a result of human disturbance and habitat destruction. Thus, it is crucial to protect the current resources of S. schlegelii. In this study, 38 novel single nucleotide polymorphism (SNP) markers were developed based on restriction-site associated DNA sequencing. The results showed that the observed heterozygosity and expected heterozygosity ranged from 0.1400 to 0.6400 and 0.1487 to 0.4978, respectively. The minor allele frequency raged from 0.1429 to 0.4694. Polymorphic information content ranged from 0.174 to 0.365. Four SNPs were found to be deviated significantly from the HWE (P<0.05). These SNP markers will serve as a useful tool for genetic studies and population evaluation aimed at the conservation of S. schlegelii.

scholarly journals Short Note: Isolation and Characterization of 12 Polymorphic Microsatellite Markers in Engelhardia roxburghiana (Juglandaceae)

2014 ◽  
Vol 63 (1-6) ◽  
pp. 109-112 ◽  
Author(s):  
Dan-Dan Zhang ◽  
Pi Luo ◽  
Ying Chen ◽  
Zheng-Feng Wang ◽  
Wan-Hui Ye ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Microsatellite Markers ◽  
Short Note ◽  
Screening Method ◽  
Wide Distribution ◽  
Enriched Library ◽  
Isolation And Characterization ◽  
Nuclear Microsatellite ◽  
Polymorphic Microsatellite

Abstract Engelhardia roxburghiana is a common half evergreen tree with a wide distribution in southeast Asia. Despite its ecological and pharmaceutical values, its genetic diversity is poorly studied. Our objective was to develop nuclear microsatellite markers to investigate the level of genetic diversity within and among populations in the future. Using the microsatellite-enriched library and PCR-based screening method, 12 microsatellite markers were developed and showed polymorphism in a population. The number of alleles per locus for these 12 microsatellites ranged from four to 15. The observed and expected heterozygosities ranged from 0.358 to 0.897 and from 0.369 to 0.886, respectively. The developed microsatellites will be useful for studying genetic diversity and population structure in E. roxburghiana.

Isolation and characterization of novel polymorphic nuclear microsatellite markers from Ophrys fusca (Orchidaceae) and cross-species amplification

2008 ◽  
Vol 10 (3) ◽  
pp. 739-742 ◽  
Author(s):  
Helena C. Cotrim ◽  
Filipa A. Monteiro ◽  
Eva S. Sousa ◽  
Michael F. Fay ◽  
Mark W. Chase ◽  
...  
Keyword(s):  
Microsatellite Markers ◽  
Isolation And Characterization ◽  
Nuclear Microsatellite

scholarly journals Isolation and Characterization of Twenty Polymorphic Microsatellite Loci for Moringa oleifera (Moringaceae)

HortScience ◽  
2010 ◽  
Vol 45 (4) ◽  
pp. 690-692 ◽  
Author(s):  
Jiang-Chong Wu ◽  
Jing Yang ◽  
Zhi-Jian Gu ◽  
Yan-Ping Zhang
Keyword(s):  
Microsatellite Markers ◽  
Microsatellite Loci ◽  
Population Genetic ◽  
Moringa Oleifera ◽  
Microsatellite Primers ◽  
Genetic Studies ◽  
Isolation And Characterization ◽  
Hardy Weinberg Equilibrium ◽  
Polymorphic Microsatellite

By using a modified biotin-streptavidin capturing method, a total of 20 polymorphic microsatellite markers were developed from Moringa oleifera Lam. (Moringaceae), a useful multipurpose tree. Twenty-four domesticated individuals, with germplasms of India and Myanmar, were used to screen polymorphism of these 20 microsatellite markers. The number of alleles per locus ranged from two to six. The expected and observed heterozygosity varied from 0.3608 to 0.7606 and from 0.0000 to 0.8750, respectively. Seven loci were significantly deviated from Hardy-Weinberg equilibrium. The availability of these microsatellite primers would provide a powerful tool for aspects of detailed population genetic studies of M. oleifera.

Isolation and characterization of 70 novel microsatellite markers from ostrich (Struthio camelus) genome

Genome ◽  
2003 ◽  
Vol 46 (5) ◽  
pp. 833-840 ◽  
Author(s):  
Bo Tang ◽  
Yin Hua Huang ◽  
Li Lin ◽  
Xiao Xiang Hu ◽  
Ji Dong Feng ◽  
...  
Keyword(s):  
Microsatellite Markers ◽  
Genomic Library ◽  
Enriched Library ◽  
Genetic Studies ◽  
Pcr Screening ◽  
Struthio Camelus ◽  
Parentage Testing ◽  
Isolation And Characterization ◽  
Length Polymorphisms

Microsatellite markers are widely used in linkage mapping, parentage testing, population genetic studies, and molecular evolution studies in many agricultural species, while only a limited number of ostrich (Struthio camelus) microsatellites have been isolated. Thus, we constructed a random small-insert genomic library and a microsatellite-enriched library containing CA repeats. Fourteen clones containing CA repeats were isolated from 3462 clones in the non-enriched library by radioactive screening and 248 positive clones were isolated from 300 sequenced clones from the enriched library by PCR screening. After the enrichment procedures, the proportion of clones containing CA repeats was raised to 78.8%, compared with 0.4% in the non-enriched libraries, indicating that the enrichment value approaches 200 fold, which decreased the time and cost of cloning. The number of complete simple CA repeats in these positive clones ranged from 5 to 29. The primers for 94 of these microsatellites were developed and used to detect polymorphisms, of which 61 loci exhibited length polymorphisms in 17 unrelated ostrich individuals. The new polymorphic microsatellite markers we have identified and characterized will contribute to the ostrich genetic map, parentage testing, and comparative genomics between avian species.Key words: ostrich, microsatellite markers, enriched library, polymorphism.

Identification of chickpea cultivars by microsatellite markers

2010 ◽  
Vol 149 (4) ◽  
pp. 451-460 ◽  
Author(s):  
P. CASTRO ◽  
T. MILLÁN ◽  
J. GIL ◽  
J. MÉRIDA ◽  
M. L. GARCÍA ◽  
...  
Keyword(s):  
Microsatellite Markers ◽  
Cultivar Identification ◽  
Polymorphic Information Content ◽  
Morphological Characteristics ◽  
Dna Fingerprint ◽  
Linkage Groups ◽  
Chickpea Cultivar ◽  
High Level ◽  
Chickpea Cultivars

SUMMARYCharacterization of plant varieties is traditionally based on phenotypic observation. However, some varieties have very similar morphological characteristics, which make it difficult to distinguish between them. The present study employed 15 microsatellite markers distributed across all linkage groups (LG) of the chickpea genetic map to characterize 32 commercial chickpea cultivars and determine the usefulness of these markers for cultivar identification. These markers showed a high level of polymorphism; a total of 154 different alleles were detected, with a mean of 10·3 alleles per locus. The polymorphic information content (PIC) value ranged from 0·455 to 0·897. All the markers, with the exception of TA130, TA135 and TA144, were considered to be informative (PIC>0·7), indicating their potential usefulness for cultivar identification. A subset of markers (TA186, TA200, TA106, TA113, TA117 and TA30) was sufficient to identify all the cultivars studied. In order to confirm their discriminatory power, 16 unreleased chickpea cultivars (V1–V16) were screened and all of them presented different patterns. Therefore, these microsatellites can be regarded as a reference set for chickpea cultivar identification and their profiles can be used as a DNA fingerprint for each registered cultivar, avoiding redundancy of identical cultivars as well as to protect breeders' rights.

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