Analysis of genetic relationships among Rosa damascena plants grown in Turkey by using AFLP and microsatellite markers

2004 ◽  
Vol 111 (3) ◽  
pp. 263-267 ◽  
Author(s):  
Nilgün Göktürk Baydar ◽  
Hasan Baydar ◽  
Thomas Debener
Keyword(s):  
Microsatellite Markers ◽  
Genetic Relationships ◽  
Rosa Damascena

scholarly journals Genetic diversity in table grapes based on RAPD and microsatellite markers

2011 ◽  
Vol 46 (9) ◽  
pp. 1035-1044 ◽  
Author(s):  
Patrícia Coelho de Souza Leão ◽  
Sérgio Yoshimitsu Motoike
Keyword(s):  
Genetic Diversity ◽  
Microsatellite Markers ◽  
Genetic Relationships ◽  
Similarity Index ◽  
Genetic Distances ◽  
Table Grape ◽  
Group Method ◽  
Molecular Characteristics ◽  
Table Grapes ◽  
Pair Group

The objective of this work was to analyze the genetic diversity of 47 table grape accessions, from the grapevine germplasm bank of Embrapa Semiárido, using 20 RAPD and seven microsatellite markers. Genetic distances between pairs of accessions were obtained based on Jaccard's similarity index for RAPD data and on the arithmetic complement of the weighted index for microsatellite data. The groups were formed according to the Tocher's cluster analysis and to the unweighted pair‑group method with arithmetic mean (UPGMA). The microsatellite markers were more efficient than the RAPD ones in the identification of genetic relationships. Information on the genetic distance, based on molecular characteristics and coupled with the cultivar agronomic performance, allowed for the recommendation of parents for crossings, in order to obtain superior hybrids in segregating populations for the table grape breeding program of Embrapa Semiárido.

scholarly journals  Genetic diversity of Czech apple cultivars inferred from microsatellite markers analysis

2012 ◽  
Vol 39 (No. 4) ◽  
pp. 149-157 ◽  
Author(s):  
J. Patzak ◽  
F. Paprštein ◽  
A. Henychová ◽  
J. Sedlák
Keyword(s):  
Genetic Diversity ◽  
Microsatellite Markers ◽  
Simple Sequence Repeat ◽  
Cultivar Identification ◽  
Genetic Relationships ◽  
Similarity Coefficient ◽  
Collection Management ◽  
Apple Cultivars ◽  
Repeat Primer ◽  
Simple Sequence

Genetic diversity and genetic relationships of Czech apple cultivars were evaluated. Trees of 33 Czech apple cultivars and 97 reference foreign cultivars were analysed using the set of 10 SSR (simple sequence repeat) primer pairs. The total of 89 polymorphic alleles were amplified, while the number of alleles per locus ranged from 4 to 14. The SSR dendrogram, based on the Jaccard’s similarity coefficient, divided apple cultivars into three major groups: Cox’s Orange Pippin, McIntosh and Golden Delicious ancestries. The clustering highly depended on pedigree and origin of apple cultivars. Spontaneous mutated cultivars were identical with their progenitors. We proved that microsatellite markers were useful for evaluation of genetic resources, collection management and cultivar identification.  

scholarly journals Study of genetic differences among Slovak Tsigai populations using microsatellite markers

2009 ◽  
Vol 54 (No. 10) ◽  
pp. 468-474 ◽  
Author(s):  
S. Kusza ◽  
E. Gyarmathy ◽  
J. Dubravska ◽  
I. Nagy ◽  
A. Jávor ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Genetic Distance ◽  
Microsatellite Markers ◽  
Mating System ◽  
Population Differentiation ◽  
Genetic Relationships ◽  
The Other ◽  
Potential Risks ◽  
Substantial Degree

In this study genetic diversity, population structure and genetic relationships of Tsigai populations in Slovakia were investigated using microsatellite markers. Altogether 195 animals from 12 populations were genotyped for 16 microsatellites. 212 alleles were detected on the loci. The number of identified alleles per locus ranged from 11 to 35. In the majority of the populations heterozygosity deficiency and potential risks of inbreeding could be determined. High values of <I>F</I><sub>ST</sub> (0.133) across all the loci revealed a substantial degree of population differentiation. The estimation of genetic distance value showed that the Slovak Vojin population was the most different from the other populations. The 12 examined populations were able to group into 4 clusters. With this result our aim is to help the Slovak sheep breeders to establish their own mating system, to avoid genetic loss and to prevent diversity of Tsigai breed in Slovakia.

QUINCE (CYDONIA OBLONGA) GENETIC RELATIONSHIPS DETERMINED USING MICROSATELLITE MARKERS

2011 ◽  
pp. 75-83 ◽  
Author(s):  
N.V. Bassil ◽  
J.D. Postman ◽  
K.E. Hummer ◽  
J. Mota ◽  
D. Sugar ◽  
...  
Keyword(s):  
Microsatellite Markers ◽  
Genetic Relationships ◽  
Cydonia Oblonga

scholarly journals STUDY OF GENETIC DIVERSITY USING MICROSATELLITE MARKERS IN IRAQI SHEEP BREEDS

2020 ◽  
Vol 51 (5) ◽  
pp. 1367-1374
Author(s):  
Hadi & et al.
Keyword(s):  
Genetic Diversity ◽  
Microsatellite Markers ◽  
Allele Frequency ◽  
Genetic Relationships ◽  
Allelic Frequency ◽  
Dominant Allele ◽  
Sheep Breeds ◽  
Biotechnology Research ◽  
Pcr Technology ◽  
Awassi Breed

Genotypes and allele frequency values ​​were studied to determine the genetic diversity of three microsatellite markers (BM1329, BM134 and CSSM66) in two local Iraqi sheep breeds (50 Awasi ewes (AW) and 50 Naimi ewes (NA)) and breed in one Agricultural Stations in middle of Al-Furut Iraq (Karbala Governorate). The Genetic analyses for the study were carried out at the Biotechnology Research Center /  Al-Nahrain University using PCR technology to obtain alleles for the studied microsatellites. The results of this study indicate that there is a multiplicity of genotypes and alleles resulting from these markers among the members of the single breed and between the studied breeds. It was revealed that the allele frequency values showed the presence of alleles dominant on the rest of alleles produce in this sample studied, the BM1329 microsatellite of the Awassi breed produced the dominant allele frequency in 195(0.25) and 320 (0.25), While in the Naimi breed were the values ​​of the dominant allele frequency of the195(0.22), 220(0.21) and 230(0.24), and the dominant allelic frequency of (BM134) marker in the Awassi breed was 118 and 135 and repeated (0.21 and 0.26, respectively). For CSSM66 microsatellite, the dominant allelic results and their allelic frequency values ​​were (195 (0.20), 205 (0.23) and 220 (0.25)) for Awasi breed, whereas it was 180 (0.24), 195 (0.28) and 220 (0.22) for Nuaimi breed. These results enable us to use these markers as a means of determining the diversity and genetic relationships between individuals of a single breed as well as between breeds.

scholarly journals SSR analysis of modern Russian potato varieties using DNA samples of nomenclatural standards

2021 ◽  
Vol 3 (4) ◽  
pp. 77-96
Author(s):  
O. Yu. Antonova ◽  
N. S. Klimenko ◽  
D. A. Rybakov ◽  
N. A. Fomina ◽  
V. V. Zheltova ◽  
...  
Keyword(s):  
Microsatellite Markers ◽  
Genetic Relationships ◽  
Plant Genetic Resources ◽  
Potato Cultivars ◽  
Cultivated Plants ◽  
Pcr Analysis ◽  
Ssr Analysis ◽  
Ssr Loci ◽  
High Level ◽  
Modern Russian

The N.I. Vavilov All-Russian Institute of Plant Genetic Resources (VIR) is developing new approaches to documentation of national cultivars, taking into account recommendations of the International Code of Nomenclature for Cultivated Plants in parallel with methods of genetic certification. The nomenclatural standard of a particular cultivar represented by a herbarium specimen can be used as a reference for verifying authenticity and uniformity of cultivar specimens obtained from various sources. The verification requires fast and reliable methods for cultivar genotyping. This paper presents protocols for modified methods of DNA extraction, PCR-analysis and SSR-genotyping, which allow potato cultivars identification without the use of expensive reagent kits. A set of ten chromosome-specific microsatellite markers was used to study polymorphisms in 66 modern Russian potato cultivars, as well as in 11 pre-cultivars and breeding clones, represented by nomenclatural standards and voucher specimens, respectively. This subset of 77 specimens has demonstrated a high level of polymorphism in ten studied microsatellite loci. The SSR analysis identified 73 alleles; 7.3 alleles per locus were observed on average, the number of which varied from 3 (STG0025 locus) to 11 (locus StI046). The PIC values varied from 0.544 (STG0025 locus) to 0.836 (StI046 locus). The alleles, unique for this subset, were found at six studied loci. The high level of polymorphism at the SSR loci made it possible to unambiguously identify almost every cultivar, with the exception of the expected coincidence of microsatellite profiles of two cultivars, which are somaclonal variants. Using an optimized set of eight microsatellite markers, the genetic relationships of modern Russian potato cultivars were studied.

scholarly journals Double-digest RAD sequencing outperforms microsatellite loci at assigning paternity and estimating relatedness: a proof of concept in a highly promiscuous bird

2017 ◽  
Author(s):  
Derrick J. Thrasher ◽  
Bronwyn G. Butcher ◽  
Leonardo Campagna ◽  
Michael S. Webster ◽  
Irby J. Lovette
Keyword(s):  
Microsatellite Markers ◽  
Restriction Site ◽  
Genetic Relationships ◽  
Bird Species ◽  
Snp Markers ◽  
Rad Sequencing ◽  
Proof Of Concept ◽  
Analysis Pipeline ◽  
Large Numbers ◽  
Field Samples

AbstractInformation on genetic relationships among individuals is essential to many studies of the behavior and ecology of wild organisms. Parentage and relatedness assays based on large numbers of SNP loci hold substantial advantages over the microsatellite markers traditionally used for these purposes. We present a double-digest restriction site-associated DNA sequencing (ddRAD-seq) analysis pipeline that, as such, simultaneously achieves the SNP discovery and genotyping steps and which is optimized to return a statistically powerful set of SNP markers (typically 150-600 after stringent filtering) from large numbers of individuals (up to 240 per run). We explore the tradeoffs inherent in this approach through a set of experiments in a species with a complex social system, the variegated fairy-wren (Malurus lamberti), and further validate it in a phylogenetically broad set of other bird species. Through direct comparisons with a parallel dataset from a robust panel of highly variable microsatellite markers, we show that this ddRAD-seq approach results in substantially improved power to discriminate among potential relatives and considerably more precise estimates of relatedness coefficients. The pipeline is designed to be universally applicable to all bird species (and with minor modifications to many other taxa), to be cost- and time-efficient, and to be replicable across independent runs such that genotype data from different study periods can be combined and analyzed as field samples are accumulated.

scholarly journals DNA Sequence Analysis of Microsatellite Markers Enhances Their Efficiency for Germplasm Management in an Italian Olive Collection

2006 ◽  
Vol 131 (3) ◽  
pp. 352-359 ◽  
Author(s):  
Innocenzo Muzzalupo ◽  
Nicola Lombardo ◽  
Aldo Musacchio ◽  
Maria Elena Noce ◽  
Giuseppe Pellegrino ◽  
...  
Keyword(s):  
Sequence Analysis ◽  
Microsatellite Markers ◽  
Dna Sequence ◽  
Genetic Relationships ◽  
Germplasm Collection ◽  
Electrophoretic Analysis ◽  
Dna Sequence Analysis ◽  
Germplasm Management ◽  
Olive Cultivars ◽  
High Level

Genetic diversity studies using microsatelite analysis were carried out in a set of 39 accessions of Olea europaea L., corresponding to the majority of the regional autochthon germplasm in Apulia. Samples of olive leaves were harvested from plants growing in the olive germplasm collection of the Consiglio per la Ricerca e Sperimentazione in Agricoltura (C.R.A.) - Istituto Sperimentale per l'Olivicoltura at Rende in Cosenza Italy. Herein, we evaluated the extent to which microsatellite analysis using electrophoresis was capable of identifying traditional olive cultivars. In addition, the DNA sequence of all amplicons was determined and the number of repeat units was established for each sample. Using five loci, electrophoretic analysis identified 24 genotype profiles, while DNA sequence analysis detected 28 different genotype profiles, identifying 54% of cultivars. The remaining 46% were composed of seven different accession groups containing genetically indistinguishable cultivars, which are presumably synonyms. This study demonstrates the utility of microsatellite markers for management of olive germplasm and points out the high level of polymorphisms in microsatellite repeats when coupled with DNA sequence analysis. The establishment of genetic relationships among cultivars in the Apulian germplasm collection allows for the construction of a molecular database that can be used to establish the genetic relationships between known and unknown cultivars.

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