scholarly journals Genetic Relationships of Pyrus Species and Cultivars Native to East Asia Revealed by Randomly Amplified Polymorphic DNA Markers

2002 ◽  
Vol 127 (2) ◽  
pp. 262-270 ◽  
Author(s):  
Yuanwen Teng ◽  
Kenji Tanabe ◽  
Fumio Tamura ◽  
Akihiro Itai
Keyword(s):  
East Asia ◽  
Clustering Analysis ◽  
Rapd Markers ◽  
Rapd Analysis ◽  
Genetic Relationships ◽  
Randomly Amplified Polymorphic Dna ◽  
Pyrus Calleryana ◽  
Chinese White ◽  
Species Specific ◽  
Kochi Prefecture

A total of 118 Pyrus sp. (pear) and cultivars native mainly to east Asia were subjected to randomly amplified polymorphic DNA (RAPD) analysis to evaluate genetic variation and relationships among the accessions. Two hundred fifty RAPD markers were scored from 20 decamer primers. RAPD markers specific to species were identified. Clustering analysis revealed two divisions: one comprising cultivars of P. communis L., and the other including all accessions of Pyrus native to east Asia. The grouping of the species and cultivars by RAPD data largely agrees with morphological pear taxonomy. However, some noted incongruence existed between two classification methods. Pyrus calleryana Dcne. clustered together with P. koehnei Schneid., P. fauriei Schneid. and P. dimorphophylla Makino. Pyrus betulaefolia Bge. clustered with P. ×hopeiensis Yu and P. ×phaeocarpa Rehd. A noncultivated clone of P. aromatica Kikuchi et Nakai grouped with P. aromatica cultivars. Pyrus hondoensis Nakai et Kikuchi and cultivars of P. ussuriensis Max. formed a single group. Some accessions from Korea (named Korean pear) had species-specific RAPD markers and comprised an independent group. Most of the Chinese white pears clustered together with most of the Chinese sand pears. Based on the present results, the new nomenclature P. pyrifolia var. sinensis (Lindley) Teng et Tanabe for Chinese white pear was suggested. Most accessions of Japanese pears fell into one main group, whereas pear cultivars from Kochi Prefecture of Japan subclustered with some Chinese sand pears and one accession from Korea. Our results infer that some local Japanese pear cultivar populations may have been derived from cultivars native to Kochi Prefecture in Shikoku region, and that the latter may have been introduced from ancient China and/or Korea.

scholarly journals Clonal Stability of RAPD Markers in Three Rhododendron Species

1995 ◽  
Vol 13 (1) ◽  
pp. 43-46 ◽  
Author(s):  
M. Javed Iqbal ◽  
D. W. Paden ◽  
A. Lane Rayburn
Keyword(s):  
Dna Sequences ◽  
Rapd Markers ◽  
Cultivar Identification ◽  
Rapd Analysis ◽  
Randomly Amplified Polymorphic Dna ◽  
Plant Identification ◽  
Specific Amplification ◽  
Polymerase Chain ◽  
The Individual ◽  
Species Specific

Abstract Amplification profiles produced by polymerase chain reaction (PCR) using randomly amplified polymorphic DNA sequences (RAPD) have the potential for species and cultivar identification. Since most rhododendron plants are vegetatively propagated, it is imperative that RAPD profiles be stable during this propagation. Three species of rhododendron, Rhododendron arborescens, R. atlanticum and R. yedoense var. poukhanense were used to produce species specific amplification profiles. Stability of amplification profiles among individually cloned plants of each species were studied. Ten plants of R. atlanticum, 9 of R. arborescens, and 10 of R. yedoense var. poukhanense were studied with 10 random primers. No polymorphism was observed among individual plants of R. atlanticum and R. arborescens with all the primers. The amplification product of one plant of R. yedoense var. poukhanense showed a difference of one band with one primer. The rest of the profiles with 9 primers were identical in all plants of this species. In order to ascertain that RAPD markers can indeed reveal real genetic differences among plants, F2 plants of two hybrids were analyzed. In contrast to the clonally propagated plants, extensive polymorphisms were observed among the individual F2 plants. Thus, RAPD analysis can be used to detect genetic variability. This stability of RAPD profiles in clonally propagated rhododendron indicates the usefulness of these markers in plant identification.

scholarly journals RAPD analysis of genetic relatedness among selected quince (Cydonia oblonga Mill.) accessions from different parts of Turkey

2011 ◽  
Vol 38 (No. 4) ◽  
pp. 134-141 ◽  
Author(s):  
S. Bayazit ◽  
B. Imrak ◽  
A. Küden ◽  
M. Kemal Güngör
Keyword(s):  
Rapd Markers ◽  
Genetic Relatedness ◽  
Geographical Origin ◽  
Rapd Analysis ◽  
Genetic Relationships ◽  
Randomly Amplified Polymorphic Dna ◽  
Cydonia Oblonga ◽  
A Minor ◽  
Almost All ◽  
Different Parts

Quince (Cydonia oblonga Mill.) is a minor fruit crop, which is primarily used for marmalade, jam, sauce and as rootstocks for pears. Different cultivated and local quince genotypes are grown in almost all parts of Turkey for fruit usage. In this study, randomly amplified polymorphic DNA (RAPD) technology was used to study the genetic relationships among 13 quince accessions selected from different parts of Turkey. Thirty decamer primers were used and 14 of them did not produce any polymorphism. The remaining 16 primers ranged in their amplification fragments between one (P-402, P-437, OPA 10, OPA 16, OPA 18 and OPA-19) and five (OPA-06 and OPA-07). The size of fragments varied from 100 to 1500 bp. Similarity values among the studied genotypes ranged between 0.483 and 0.925. The resulting dendrogram clustered into two groups (0.69 similarity value) based on evaluation of genetic similarities and differences. The results suggest that RAPD analysis could be used to distinguish and determine genetic variation among quince accessions. Also, the obtained clustering based on RAPD markers agreed to some extent with the geographical origin of the studied set of quince accessions.

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.

scholarly journals DNA Fingerprinting to Identify Nine Anthurium Pot Plant Cultivars and Examine Their Genetic Relationship

HortScience ◽  
2001 ◽  
Vol 36 (4) ◽  
pp. 758-760 ◽  
Author(s):  
D.G. Ranamukhaarachchi ◽  
R.J. Henny ◽  
C.L. Guy ◽  
Q.B. Li
Keyword(s):  
Genetic Relationship ◽  
Rapd Markers ◽  
Parental Species ◽  
Genetic Relationships ◽  
Dna Fingerprints ◽  
Randomly Amplified Polymorphic Dna ◽  
Arbitrary Primers ◽  
D Values ◽  
High Degree ◽  
Pot Plant

Randomly amplified polymorphic DNA (RAPD) markers were utilized to determine the genetic relationships of nine morphologically similar pot plant cultivars of Anthurium sp. by developing DNA fingerprints (DFP). Of 25 arbitrary primers screened, nine generated DFPs that were used in computing the genetic distance (d) and similarity coefficient (C) values. All cultivars tested exhibited a high degree of genetic similarity. `Lady Ann' and `Lady Beth' possessed the closest relationship with d and C values of 0.06 and 0.98, respectively. The next closest genetic relationship was between `Red Hot' and `Southern Blush' (d = 0.33, C = 0.89). These two cultivars exhibited a more distant relationship to the other seven cultivars as indicated by higher `d' values. However, this study showed that the nine Anthurium cultivars examined were genetically closely related. These cultivars share specific DNA bands with three possible parental species (A. andraeanum Linden ex Andre, A. antioquens L., and A. amnicola Dressler) included in this study, which may indicate similarities in their pedigree. This study shows that RAPDs can be a useful tool to distinguish Anthurium pot plant cultivars as well as identify their genetic relationships.

scholarly journals Production of Reliable Randomly Amplified Polymorphic DNA (RAPD) Markers from DNA of Woody Plants

HortScience ◽  
1993 ◽  
Vol 28 (12) ◽  
pp. 1188-1190 ◽  
Author(s):  
Amnon Levi ◽  
Lisa J. Rowland ◽  
John S. Hartung
Keyword(s):  
Woody Plants ◽  
Rapd Markers ◽  
Woody Plant ◽  
Rapd Analysis ◽  
Pcr Amplification ◽  
Intergenic Spacer ◽  
23S Rrna ◽  
Randomly Amplified Polymorphic Dna ◽  
Polymerase Chain ◽  
Triton X

A procedure for identifying reproducible RAPD markers from woody plant DNA is presented. The procedure relies on using a PCR buffer that contains 1% Triton-X-100 and 0.1 % gelatin [previously described for successful polymerase chain reaction (PCR) amplification of 16S/23S rRNA intergenic spacer regions from eubacteria], and amplification conditions of 50 cycles: 30 sec at 94C, 70 sec at 48C, and 120 sec at 72C. The combination of this buffer and these conditions amplified consistent fragments in higher amounts, as compared to other standard PCR buffers and conditions generally used for RAPD analysis. This procedure resulted in reliable RAPD patterns for all organisms tested. Chemical name used: α-[4-(1,1,3,3,-tetramethylbutyl)phenyl]-cohydroxypoly(oxy-l,2-ethanediyl) (Triton-X-l00).

scholarly journals Use RAPD Technique for Characterization of Genotypical Variability of Maize Germplasm from SCDA Turda

2010 ◽  
Vol 67 (1) ◽  
Author(s):  
Rodica POP ◽  
Doru PAMFIL ◽  
Monica HÂRŢA ◽  
Ioan HAŞ ◽  
Iulia POP
Keyword(s):  
Rapd Markers ◽  
Rapd Analysis ◽  
Genetic Relationships ◽  
Germplasm Collection ◽  
Genetic Distances ◽  
Maize Germplasm ◽  
Upgma Dendrogram ◽  
Maize Genotypes ◽  
Polymorphic Bands

Genetic analysis with RAPD markers has been extensively used to determine diversity among maize genotypes. The aim of the present study was to estimate genetic relationships among 70 genotypes, provided from SCDA Turda Cluj germplasm collection. RAPD analysis was performed with 14 decamer primers. These primers generated, among the studied genotypes, a number of polymorphic bands comprised between 13 bands (OPA 04) and 7 bands (OPAL 20). The highest numbers of polymorphic bands were obtained with primer OPA 04, respectively 13 bands, following by OPO 12 (12 polymorphic bands), OPAB 11 and OPA 17 (11 polymorphic bands). Lowest number was obtained with primer OPAL 20, respectively 7 polymorphic bands. Genetic distances were established using Nei-Li coefficient and UPGMA dendrogram was constructed with RAPDistance 1.04 software. The built dendrogram shows phylogenetic relationships between genotypes analyzed.

Genetic-Relationships as Assessed by Molecular Markers and Cross-Infection Among Strains of Colletotrichum gloeosporioides

1994 ◽  
Vol 42 (1) ◽  
pp. 9 ◽  
Author(s):  
HL Hayden ◽  
KG Pegg ◽  
EAB Aitken ◽  
JAG Irwin
Keyword(s):  
Rapd Markers ◽  
Colletotrichum Gloeosporioides ◽  
Rapd Analysis ◽  
Genetic Relationships ◽  
Random Amplified Polymorphic Dna ◽  
Colletotrichum Acutatum ◽  
Fruit Species ◽  
Pathogenicity Tests ◽  
Colletotrichum Musae ◽  
Highly Virulent

Morphological characterisation allows isolates of Colletotrichum gloeosporioides, Colletotrichum musae and Colletotrichum acutatum to be identified only to species level. Pathogenicity tests and random amplified polymorphic DNA (RAPD) markers distinguished a mango biotype of C. gloeosporioides from eight other isolates of C gloeosporioides obtained from five different fruit species. Using these procedures, it was also possible to distinguish C. acutatum and C. musae both from each other, and from the C. gloeosporioides isolates. In cross-infectivity studies, isolates of C. gloeosporioides displayed a wide host range with the exception of isolates from mango, which were highly virulent on mango only. Teleomorphic isolates of C. gloeosporioides were clustered together by RAPD analysis. This work has demonstrated the existence of a biotype of C. gloeosporioides which shows specialisation to mango.

Identification and characterization of RAPD markers inferring genetic relationships among Pine species

Genome ◽  
2002 ◽  
Vol 45 (1) ◽  
pp. 51-58 ◽  
Author(s):  
K K Nkongolo ◽  
P Michael ◽  
W S Gratton
Keyword(s):  
Pinus Banksiana ◽  
Rapd Markers ◽  
Genetic Relationships ◽  
Random Amplified Polymorphic Dna ◽  
Morphological Characteristics ◽  
Rflp Analysis ◽  
Pinus Monticola ◽  
Species Specific ◽  
Specific Sequences ◽  
Pine Species

Total genomic DNAs were extracted from several populations of pine species and amplified using oligonucleotides of random sequences. Polymorphism in random amplified polymorphic DNA (RAPD) markers was high and sufficient in distinguishing each of the species. Genetic relationships among eight pine species (Pinus sylvestris, Pinus strobus, Pinus rigida, Pinus resinosa, Pinus nigra, Pinus contorta, Pinus monticola, and Pinus banksiana) from different provenances were analyzed. The degree of band sharing was used to evaluate genetic distance between species and to construct a phylogenetic tree. In general, the dendrogram corroborated the description of relationships based on morphological characteristics and crossability, but also provided new insights into pine taxonomy. RAPD markers specific to some pine species were cloned and sequenced. PCR amplifications using pairs of designed specific primers revealed that all the cloned sequences were likely genus specific because they were not found in spruce or larch. True species-specific sequences were identified using designed primers flanking cloned RAPD fragments. The analysis of RAPD fragment sequences confirmed the genetic relationships among species. A 2281-bp RAPD band called PI-Mt-Stb-23 from P. strobus was used as a probe in restriction fragment length polymorphism (RFLP) analysis and produced distinct banding patterns for each species examined, consistent with the highly polymorphic character of DNA-fingerprinting probes.Key words: Pine, RAPD, RFLP, cloning, species-specific sequences.

scholarly journals Variation in Pathogenicity and Genotype Among Single-Zoospore Strains of Aphanomyces euteiches

1998 ◽  
Vol 88 (1) ◽  
pp. 52-57 ◽  
Author(s):  
D. K. Malvick ◽  
J. A. Percich
Keyword(s):  
Root Rot ◽  
Rapd Markers ◽  
Rapd Analysis ◽  
Genotypic Variation ◽  
Aphanomyces Euteiches ◽  
Randomly Amplified Polymorphic Dna ◽  
Snap Bean ◽  
Pathogenic Variation ◽  
Different Levels

The role of asexual reproduction in the production of pathogenic and genotypic variation in Aphanomyces euteiches was investigated. Variation was studied among three groups of 18 single-zoospore progeny of A. euteiches derived from each of three single-zoospore parental strains. Pathogenicity was assessed by evaluating disease severity (DS) on roots of five pea lines possessing different levels of resistance to Aphanomyces root rot and of a susceptible cultivar of snap bean and alfalfa. None of the single-zoospore progeny incited significantly higher DS levels than their parental strain on any of the seven hosts; however, 3 or 4 of the 18 progeny in each group incited significantly lower DS than their parental strains. The host range of the progeny either decreased or remained the same as compared with parental strains. Genotypic variation was assessed with randomly amplified polymorphic DNA (RAPD) analysis. Polymorphic RAPD markers that distinguished parental and progeny strains were detected within two of the three groups of strains with two of four RAPD primers used. Of 76 total RAPD markers that were detected among all strains in all groups, four (5%) were polymorphic. The polymorphic markers were not associated with the pathogenic variation.

scholarly journals Genetic Diversity in Muscadine and American Bunch Grapes Based on Randomly Amplified Polymorphic DNA (RAPD) Analysis

1996 ◽  
Vol 121 (6) ◽  
pp. 1020-1023 ◽  
Author(s):  
Xianping Qu ◽  
Jiang Lu ◽  
Olusola Lamikanra
Keyword(s):  
Genetic Diversity ◽  
Rapd Markers ◽  
Dna Analysis ◽  
Rapd Analysis ◽  
The United States ◽  
Average Genetic Distance ◽  
Separate Study ◽  
Randomly Amplified Polymorphic Dna ◽  
And Cluster Analysis ◽  
Grape Cultivars

Two morphologically distinct types of grapes belonging to the subgenera Euvitis and Muscadinia in the genus Vitis are cultivated in the United States. The former is commonly called bunch grapes while the latter is usually called muscadine. Genetic diversity among these grapes was investigated using RAPD markers. Sixteen grape cultivars, with parentage including V. rotundifolia Michx., V. vinifera L., and several American Vitis species, were used for the RAPD analysis. A total of 156 RAPD markers was produced from 19 random primers, over 90% of which was polymorphic among the muscadine and the bunch grapes. Polymorphisms were lower within each subgenus. Relationships between these two subgenera were estimated based on band-sharing and cluster analysis. The average genetic distance between the bunch and the muscadine grape cultivars was 0.45. The results based on DNA analysis agree with isozyme data obtained from a separate study, which demonstrated that muscadine grapes share very few common alleles with American bunch grapes and European grapes.

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