scholarly journals Classification of Genetic Variation in Garlic (Allium sativum L.) Revealed by RAPD

HortScience ◽  
1997 ◽  
Vol 32 (6) ◽  
pp. 1102-1104 ◽  
Author(s):  
M. Al-Zahim ◽  
H.J. Newbury ◽  
B.V. Ford-Lloyd
Keyword(s):  
Cluster Analysis ◽  
Genetic Variation ◽  
Morphological Variation ◽  
Allium Sativum ◽  
Rapd Analysis ◽  
Wild Progenitor ◽  
Taxonomic Affinity ◽  
Oligonucleotide Primers ◽  
Allium Longicuspis

RAPD analysis was employed to assess genetic variation in named cultivars of garlic (Allium sativum L.), and to examine the relationships between cultivated garlic varieties and the wild progenitor Allium longicuspis. Twenty-seven accessions were subjected to RAPD analysis using 26 oligonucleotide primers. Of a total of 292 bands, 63 (21%) were polymorphic. Cluster analysis revealed groupings that in part reflected patterns of morphological variation. All bolting forms (including wild and cultivated) grouped separately from the nonbolting cultivars. A. longicuspis and var. ophioscorodon grouped together, indicating close taxonomic affinity. Based upon relative levels of variation within different groups, we suggest potential relationships within the A. sativum/A. longicuspis complex.

scholarly journals Assessing Genetic Variability of Pelargonium Species Using PCR-based TRAP Markers

HortScience ◽  
2004 ◽  
Vol 39 (4) ◽  
pp. 812D-812
Author(s):  
Wai-Foong Hong ◽  
Chang-Qing Bai ◽  
Michael Broe ◽  
Jinguo Hu ◽  
Charles Krause ◽  
...  
Keyword(s):  
Cluster Analysis ◽  
Genetic Variation ◽  
Genetic Variability ◽  
Morphological Traits ◽  
Molecular Data ◽  
Ornamental Plant ◽  
Target Region ◽  
Marker System ◽  
Highly Correlated

Pelargonium is one of the important flower crops in USA. It is a priority genus for conservation at the USDA Ornamental Plant Germplasm Center (OPGC). It belongs to Geraniaceae family and comprises of about 280 species. To understand the genetic variation of the Pelargonium collection at OPGC, the PCR-based TRAP (target region amplified polymorphism) marker system which was newly developed in sunflower was used in this study. Twelve sets of primers were used to fingerprint 46 accessions representing 21 commercial P. hortorum, 17 scented geraniums and 8 other unidentified Pelargonium taxa. About 150 DNA bands could be detected in each primer and accession combination. Cluster analysis showed that molecular data was highly correlated with the phenotypes. Cultivars with similar morphological traits were clustered together. These results demonstrated that the TRAP system is a useful technique for the characterization and classification of Pelargonium collections.

Genetic diversity of Kensington mango in Australia

1996 ◽  
Vol 36 (2) ◽  
pp. 243 ◽  
Author(s):  
ISE Bally ◽  
GC Graham ◽  
RJ Henry
Keyword(s):  
Genetic Diversity ◽  
Genetic Variation ◽  
Environmental Factors ◽  
Genetic Improvement ◽  
Rapd Analysis ◽  
Random Amplified Polymorphic Dna ◽  
Mangifera Indica ◽  
Genetic Variations ◽  
Oligonucleotide Primers

The genetic diversity of Kensington mangoes (Mangifera indica L.) was investigated using random amplified polymorphic DNA (RAPD) analysis. DNA was extracted from leaves of 27 'Kensington Pride', 2 'R2E2' and 1 seedling. RAPD analysis with 10 oligonucleotide primers allowed the scoring of 107 markers. The R2E2 trees (20% dissimilarity) and the seedling (10% dissimilarity) were distinct from the Kensington Pride. However, there was very little evidence of significant genetic variation within Kensington Pride selections. Fifteen of the selections were identical in all 107 markers. Only 2 selections, WEAN2 and ML2N1, differed by more than 5%. These plants provide the best options for use in genetic improvement of the Kensington Pride mango. Many of the differences found in Kensington mango orchards may be due to environmental factors not genetic variations.

scholarly journals 011 RAPD ANALYSIS IDENTIFIES GENETIC VARIATION AND RELATEDNESS WITHIN THE CRANBERRY VARIETY MCFARLIN

HortScience ◽  
1994 ◽  
Vol 29 (5) ◽  
pp. 429b-429
Author(s):  
Richard Novy ◽  
Nicholi Vorsa ◽  
Kim Patten
Keyword(s):  
Cluster Analysis ◽  
Genetic Variation ◽  
Genetic Basis ◽  
Rapd Analysis ◽  
Random Amplified Polymorphic Dna ◽  
Washington State ◽  
Genetic Component ◽  
Morphological Descriptors ◽  
Related Individuals

The cranberry cultivar `HcFarlin', selected from a natural bog in Massachusetts in 1874, has become the most widely grown cultivar in the Northwestern U.S.A. Washington state growers have noted variable productivity among `McFarlin' bogs. The determination of whether there is a genetic basis for the variability has been made difficult by a paucity of reliable morphological descriptors in cranberry. A random amplified polymorphic DNA (RAPD) analysis of 45 clones sampled from 12 WA `McFarlin' bogs identified 17 unique RAPD profiles. Cluster analysis identified 7 groups having various numbers of distinct, but related individuals. Eight clones were found to have RAPD profiles identical to the cultivar `Howes' indicating varietal misclassification had occurred in some bogs. One group of clones that originated from bogs classified as “Good” or “True” Mcfarlin' by growers had RAPD profiles similar to those of representatives from WI and MA `Mcfarlin' bogs. RAPD analysis has shown that `McFarlin' is represented by several genotypes, suggesting that the observed variability in production may have a genetic component.

scholarly journals Genetic diversity and relatedness within and between species of the genus Oligoryzomys (Rodentia; Sigmodontinae)

2007 ◽  
Vol 67 (1) ◽  
pp. 153-160 ◽  
Author(s):  
A. Trott ◽  
SM. Callegari-Jacques ◽  
LFB. Oliveira ◽  
A. Langguth ◽  
MS. Mattevi
Keyword(s):  
Genetic Diversity ◽  
Cluster Analysis ◽  
Genetic Variation ◽  
Genetic Variability ◽  
Genetic Heterogeneity ◽  
Rain Forest ◽  
Rapd Analysis ◽  
Genetic Distances ◽  
Wide Area ◽  
Atlantic Rain Forest

A RAPD analysis on six species of the rodent genus Oligoryzomys trapped in a wide area (ranging from 01° N to 32° S) of Brazilian territory was performed in order to determine the levels of genetic variability within and between its populations and species. One-hundred and ninety-three animals were collected in 13 different sites (corresponding to 17 samples) located at Pampas, Atlantic Rain Forest, Cerrado, and Amazon domains. Oligoryzomys sp., O. nigripes (8 populations), O. flavescens (4 populations), O. moojeni, O. stramineus, and O. fornesi were the taxa analyzed. Of the 20 primers tested, 4 generated a total of 75 polymorphic products simultaneously amplified in 151 specimens. Various diversity estimators analyzed showed considerable differences between species and populations, indicating a great genetic variation occurring in the Oligoryzomys taxa investigated. A cluster analysis was made using Nei's standard genetic distances, however, it did not correlate the genetic heterogeneity of the species and populations with the geographical areas.

scholarly journals 090 Identification and Genetic Relatedness among Pecan Cultivars Detected by Randomly Amplified Polymorphic DNA (RAPD) Analysis

HortScience ◽  
2000 ◽  
Vol 35 (3) ◽  
pp. 404B-404
Author(s):  
Patrick J. Conner ◽  
Bruce W. Wood
Keyword(s):  
Cluster Analysis ◽  
Genetic Variation ◽  
Genetic Similarity ◽  
Rapd Markers ◽  
Genetic Relatedness ◽  
Rapd Analysis ◽  
Genetic Relationships ◽  
Genetic Distances ◽  
Carya Illinoinensis ◽  
Randomly Amplified Polymorphic Dna

Genetic variation among pecan [Carya illinoinensis (Wangenh.) K. Koch] cultivars was studied using randomly amplified polymorphic DNA (RAPD) markers. Using a combination of primers, a unique fingerprint was produced for each of the pecan genotypes studied. The genetic relatedness between 44 cultivars was estimated using more than 100 RAPD markers. Genetic distances based on the simple matching coefficient varied from 0.91 to 0.59. The phenetic dendogram developed from cluster analysis showed relatively weak grouping association. However, cultivars with known pedigrees usually grouped with at least one of the parents and genetic similarity estimates appear to agree with known genetic relationships. Using RAPD information in determining genetic relationships among pecan cultivars with unknown or questionable pedigrees and the integration of that knowledge into the breeding program is discussed.

Neurophysiologic classification of Wilson's disease by using cluster analysis

2006 ◽  
Vol 37 (01) ◽  
Author(s):  
W Hermann ◽  
T Villmann ◽  
HJ Kühn ◽  
P Baum ◽  
G Reichel ◽  
...  
Keyword(s):  
Cluster Analysis ◽  
Wilson’S Disease ◽  
Wilson's Disease

Classification of Observations through Combination of the Dimension Reduction and the Cluster Analysis

2017 ◽  
Vol 7 (8) ◽  
pp. 30
Author(s):  
Hyeuk Kim
Keyword(s):  
Machine Learning ◽  
Principal Component Analysis ◽  
Cluster Analysis ◽  
Unsupervised Learning ◽  
Principal Component ◽  
Component Analysis ◽  
Baseball Players ◽  
Partitioning Around Medoids ◽  
Different Characteristics

Unsupervised learning in machine learning divides data into several groups. The observations in the same group have similar characteristics and the observations in the different groups have the different characteristics. In the paper, we classify data by partitioning around medoids which have some advantages over the k-means clustering. We apply it to baseball players in Korea Baseball League. We also apply the principal component analysis to data and draw the graph using two components for axis. We interpret the meaning of the clustering graphically through the procedure. The combination of the partitioning around medoids and the principal component analysis can be used to any other data and the approach makes us to figure out the characteristics easily.

A Classification of 148 U.S. Maize Inbreds: II. Validation of Cluster Analysis Based on RFLPs

Crop Science ◽  
1994 ◽  
Vol 34 (4) ◽  
pp. 852-865 ◽  
Author(s):  
Rita Hogan Mumm ◽  
Lawrence J. Hubert ◽  
J. W. Dudley
Keyword(s):  
Cluster Analysis ◽  
Maize Inbreds

Using clusterization principles for the selection of repair sections of main oil pipelines based on diagnostic data

2011 ◽  
Vol 8 (1) ◽  
pp. 201-210
Author(s):  
R.M. Bogdanov
Keyword(s):  
Cluster Analysis ◽  
Defect Density ◽  
Density Variation ◽  
Distance Functions ◽  
Oil Pipeline ◽  
Oil Pipelines ◽  
Classification Of Images ◽  
Main Oil Pipeline ◽  
Selection Of

The problem of determining the repair sections of the main oil pipeline is solved, basing on the classification of images using distance functions and the clustering principle, The criteria characterizing the cluster are determined by certain given values, based on a comparison with which the defect is assigned to a given cluster, procedures for the redistribution of defects in cluster zones are provided, and the cluster zones parameters are being changed. Calculations are demonstrating the range of defect density variation depending on pipeline sections and the universal capabilities of linear objects configuration with arbitrary density, provided by cluster analysis.

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