469 PB 336 INTER- AND INTRA-LINE GENOTYPIC VARIATION OF U. S. COLLARD CULTIVARS AND LANDRACES DETERMINED BY RAPD ANALYSIS

Collard (Brassica oleracea L. var. acephala) is an important vegetable the southeastern U. S. There are few (about 10) commercial cultivars, half being open-pollinating (OP) lines, the remainder more recent F1 hybrids. There is a potential untapped B. oleracea germplasm pool in the form of collard landraces perpetuated by southeastern gardeners and farmers. To determine the amount of genetic variation among cultivars and also whether landraces represent unique genotypes, ten cultivars and eight lines or landraces were evaluated using RAPD analysis. Decamer primers were used to amplify total genomic DNA and to differentiate collard lines and other B. oleracea crop cultivars. Additionally, individuals of an OP collard cultivar and a land-race were analyzed to evaluate intra-line variation. Virtually all primers detected polymorphic bands among lines although some identified considerably more variants. Intra-line analysis indicated that OP lines are genetically broad-based populations. Many unique RAPD markers were identified in landraces indicating that the lines represent unique genotypes and that further line collection is warranted.

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Evaluation of Genetic Diversity in Castor (Ricinus communis L.) using RAPD Markes

Advanced Materials Research ◽

10.4028/www.scientific.net/amr.343-344.981 ◽

2011 ◽

Vol 343-344 ◽

pp. 981-987

Author(s):

Feng Juan Li ◽

Chang Lu Wang ◽

Dong He ◽

Ya Qiong Liu ◽

Mian Hua Chen ◽

...

Keyword(s):

Genetic Diversity ◽

Phylogenetic Tree ◽

Genetic Distance ◽

Oil Content ◽

Rapd Markers ◽

Rapd Analysis ◽

Ricinus Communis ◽

Major Group ◽

Ricinus Communis L ◽

Polymorphic Bands

RAPD markers are used to study the genetic diversity of the main planting on 37 castor varieties widely cultivated in china according to the oil content and other characteristic of different castor varieties. Genetic distance of 37 Chinese castor varieties is studied by RAPD markers analysis. RAPD analysis shows that a total of 122 bands are amplified from random primers of 20 S series, including 71 polymorphic bands with polymorphic rate of 58.20%. 37 castor beans are divided into four major groups in the phylogenetic tree. One castor germplasm is included in1, 2, 3 groups respectively, and two sub-groups are included in the 4 major group.

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Molecular Fingerprinting of Indian Medicinal Tree Sara Asoca using RAPD Markers

Biosciences Biotechnology Research Asia ◽

10.13005/bbra/2874 ◽

2021 ◽

Vol 17 (4) ◽

pp. 701-705

Author(s):

Shailendra Singh Yadav ◽

Ashwini A. Waoo

Keyword(s):

Cluster Analysis ◽

Genomic Dna ◽

Rapd Markers ◽

Conservation Strategies ◽

Molecular Fingerprinting ◽

Initial Experiment ◽

Medicinal Tree ◽

Average Percentage ◽

Saraca Asoca ◽

Polymorphic Bands

Saraca asoca is an important medicinal tree facing a serious problem of reduction from its instinctivetenancy in India.Before formulation of conservation strategies for geographical protection of S. asoca genotypes available in India, it is necessary to characterize them. In the current study, the RAPD markers have been utilized effectively for categorization of S. asoca collected from 15 diverse sites of India. An initial experiment on the amplification suitability of genomic DNA samples of four S. asoca was done with 35RAPD primers. Among them only twenty sixproved their efficiency in two times repeat amplification.Total 146 bands were amplified and out of these 97 bands were found to be polymorphic. The average numbers of total band was 5.61 while average numbers of polymorphic bands was 3.73. The numbers of bands produced per primer ranged from 3 (OPE-15) to 8 (RUF205). Among all studied markers the highest percentage (100%) of polymorphism was demonstrated by only one marker (OPE-06). The lowest percent of polymorphicm (20%) was demonstrated by marker RUF211. The average percentage of polymorphism was 66.44%. Cluster analysis grouped all the S. asoca genotypes under study into two groups. Grouping of genotypes according to their sites of collection demonstrates higher similarity among or between them. The results obtained in the current study may help to formulate conservation strategies for the conservation of S. asoca genotypes.

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RAPD ANALYSIS OF GENETIC VARIATION IN NATURAL POPULATIONS OF AEGILOPS SP. FROM SOUTH ADRIATIC

AGROFOR ◽

10.7251/agreng1801035d ◽

2018 ◽

Vol 3 (1) ◽

Author(s):

Miodrag DIMITRIJEVIĆ ◽

Sofija PETROVIĆ ◽

Borislav BANJAC ◽

Goran BARAĆ

Keyword(s):

Genetic Variation ◽

Food Production ◽

Rapd Markers ◽

Rapd Analysis ◽

Gene Diversity ◽

Rapd Marker ◽

Natural Populations ◽

Genetic Structuring ◽

Potential Source ◽

Novel Approach

New challenges that food production is facing, requires novel approach inagricultural strategy. The scissors of growing demand for food and the limits of theEarth's resources are forcing plant breeders to run for the new borders, utilizing allthe available genetic variation in order to create fruitful and economically soundcultivars. Aegilops sp. (Poaceae) is a potential source of genetic variation for wheatimprovement. RAPD marker analysis was used in order to distinguish and evaluatedifferent genotypes of Aegilops sp. population samples from the collectiongathered during few years’ expeditions in South Adriatic, along the coastal, littoraland the inland parts of Montenegro. Ten randomly amplified polymorphic DNAmarkers (RAPDs) were tested: OPA-05, OPA-08, OPB-06, OPA-02, OPA-07,OPA-25, OPB-07, OPB-18, OPC-06, OPC-10 to examine genetic structuring on 18samples of 6 populations of different Aegilops sp. According to global AMOVA,75% of total gene diversity was attributable mostly to diversity within population(ΦPT =0.205 p=0.001), indicating that the groups of studied goat grass populationswere seemingly to differing genetically. In contrast, 25% of the variation camefrom variation among populations. According to PCoA, the distribution of 18 goatgrass accessions by Principal Coordinate Analysis shows 3 distinct groups. PCoaxis 1, PCo axis 2, and PCo axis 3 account for 20.8%, 18.2% and 14.1% of thevariation, respectively. The results showed that RAPD markers could be aconvenient tool for investigating genetic variation and for detecting geneticstructuring of populations. Genetic variability formed under natural selection wasentrenched.

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Rapd variation of late-maturing sorghum [ Sorghum bicolor (L.) Moench] landraces from Ethiopia

Acta Agronomica Hungarica ◽

10.1556/aagr.55.2007.3.14 ◽

2007 ◽

Vol 55 (3) ◽

pp. 375-382 ◽

Cited By ~ 3

Author(s):

S. Mamo ◽

A. Ayana ◽

T. Tesso

Keyword(s):

Genetic Variation ◽

Genetic Distance ◽

Sorghum Bicolor ◽

Rapd Markers ◽

Diversity Index ◽

Random Amplified Polymorphic Dna ◽

The Mean ◽

Polymorphic Bands ◽

High Degree ◽

Sorghum Bicolor L

A study on the extent and pattern of genetic variability in late-maturing sorghum [ Sorghum bicolor (L.) Moench] landraces collected from the Wello and Hararge areas of Ethiopia was conducted using random amplified polymorphic DNA (RAPD) markers for 70 individuals representing 14 populations. Four oligonucleotide primers generated a total of 55 polymorphic bands with 13–19 bands per primer and a mean of 16 bands across the 70 individuals. The value of the Shannon diversity index among the populations (0.26) and between the two regions (0.24) was low to moderate, despite the high degree of polymorphic bands per primer. The mean genetic distance (0.25) between the populations was found to be low. The low genetic variation may be due to the reduced population size of late-maturing sorghum landraces in the two regions of Ethiopia because of farmers’ decisions in the process of planting, managing, harvesting and processing their crops. Partitioning of the genetic variation into variation between and within the population revealed that 92.9% and 7.10% of the variation was found to be between and within the populations, respectively. Cluster analysis of genetic distance estimates further confirmed a low level of differentiation in late-maturing sorghum populations both between and within the regions. The implications of the results for genetic conservation purposes are discussed.

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Short Communication: Genetic variation of Coelogyne pandurate, C. rumphii and their hybrids based on RAPD markers

Biodiversitas Journal of Biological Diversity ◽

10.13057/biodiv/d211033 ◽

2020 ◽

Vol 21 (10) ◽

Author(s):

Sri Hartati ◽

ENDANG S. MULIAWATI

Keyword(s):

Genetic Diversity ◽

Genetic Variation ◽

Rapd Markers ◽

Short Communication ◽

F1 Hybrids ◽

Polymorphic Bands ◽

Large Clusters

Abstract. Hartati S, Muliawati ES. 2020. Short Communication: Genetic variation of Coelogyne pandurata, C. rumphii and their hybrids based on RAPD markers. Biodiversitas 21: 4709-4713. One effort to increase the genetic diversity of orchids is by crossing. This research aims to assess the genetic variation of a hybrid orchid obtained by crossing Coelogyne pandurata and C. rumphii and their hybrids based on RAPD markers. In this research, both parents were analyzed in three replications, while the hybrid was done in 10 replications. The study was conducted by analyzing DNA bands using RAPD markers with six primers, i.e. OPA 02, OPA 07, OPA 13, OPB 12, OPB 17, and OPD 08. Identification of the parents and their F1 hybrids showed 95.83% polymorphic bands with 43 bands measuring 200-2100 bp. The parents of C. rumphii, C. pandurata, and their hybrids showed similarity range of 0.16-1.00. The crossing of C. rumphii and C. pandurata resulted in a similarity of 0.5, shown in two large clusters. The first cluster consisted only of C. pandurata males and the second cluster consisted of C. rumphii females, together with all hybrid individuals. This study succeeded in creating new hybrids of orchids that have different characters from their parents, having a genetic variation of 23%.

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

Bulletin of University of Agricultural Sciences and Veterinary Medicine Cluj-Napoca Agriculture ◽

10.15835/buasvmcn-agr:5078 ◽

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.

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PCR-Based Genotyping of Epidemic and PreepidemicTrichoderma Isolates Associated with Green Mold ofAgaricus bisporus

Applied and Environmental Microbiology ◽

10.1128/aem.65.6.2674-2678.1999 ◽

1999 ◽

Vol 65 (6) ◽

pp. 2674-2678 ◽

Cited By ~ 21

Author(s):

X. Chen ◽

C. P. Romaine ◽

Q. Tan ◽

B. Schlagnhaufer ◽

M. D. Ospina-Giraldo ◽

...

Keyword(s):

Genetic Variation ◽

North America ◽

Agaricus Bisporus ◽

Rapd Markers ◽

Rapd Analysis ◽

Pcr Amplification ◽

Green Mold ◽

Rapd Pcr ◽

Cultivated Mushroom ◽

Highly Virulent

ABSTRACT We used randomly amplified polymorphic DNA (RAPD)-PCR to estimate genetic variation among isolates of Trichoderma associated with green mold on the cultivated mushroom Agaricus bisporus. Of 83 isolates examined, 66 were sampled during the recent green mold epidemic, while the remaining 17 isolates were collected just prior to the epidemic and date back to the 1950s.Trichoderma harzianum biotype 4 was identified by RAPD analysis as the cause of almost 90% of the epidemic-related episodes of green mold occurring in the major commercial mushroom-growing region in North America. Biotype 4 was more closely allied to T. harzianum biotype 2, the predominant pathogenic genotype in Europe, than to the less pathogenic biotype 1 and Trichoderma atroviride (formerly T. harzianum biotype 3). No variation in the RAPD patterns was observed among the isolates within biotype 2 or 4, suggesting that the two pathogenic biotypes were populations containing single clones. Considerable genetic variation, however, was noted among isolates of biotype 1 and T. atroviride from Europe. Biotype 4 was not represented by the preepidemic isolates of Trichoderma as determined by RAPD markers and PCR amplification of an arbitrary DNA sequence unique to the genomes of biotypes 2 and 4. Our findings suggest that the onset of the green mold epidemic in North America resulted from the recent introduction of a highly virulent genotype of the pathogen into cultivated mushrooms.

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Genetic diversity among forty coffee varieties assessed by RAPD markers associated with restriction digestion

Brazilian Archives of Biology and Technology ◽

10.1590/s1516-89132005000500002 ◽

2005 ◽

Vol 48 (4) ◽

pp. 511-521 ◽

Cited By ~ 10

Author(s):

Leandro Eugênio Cardamoni Diniz ◽

Claudete de Fátima Ruas ◽

Valdemar de Paula Carvalho ◽

Fabrício Medeiros Torres ◽

Eduardo Augusto Ruas ◽

...

Keyword(s):

Genetic Diversity ◽

Genetic Variation ◽

Genetic Variability ◽

Clustering Analysis ◽

Genomic Dna ◽

Rapd Markers ◽

Random Amplified Polymorphic Dna ◽

Pcr Amplification ◽

Restriction Digestion ◽

Agronomic Features

The genetic variability of 40 accessions of_C. arabica was evaluated using a combination of the random amplified polymorphic DNA (RAPD) technique and restriction digestion of genomic DNA. The genetic variability and the relatedness among all accessions were initially evaluated using 195 RAPD primers which revealed a very low level of genetic variation. To improve the efficiency in the detection of polymorphism, the genomic DNA of all accessions were submitted to digestion with restriction endonucleases prior to PCR amplification. A total of 24 primers combined with restriction digestion of DNA rendered 318 bands, of which 266 (83.65%) were polymorphic. The associations among genotypes were estimated using UPGMA-clustering analysis. The accessions were properly clustered according to pedigree and agronomic features. The ability to distinguish among coffee accessions was greater for RAPD plus restriction digestion than for RAPD alone, providing evidences that the combination of the techniques was very efficient for the estimation of genetic relationship among_C. arabica genotypes.

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Genetic diversity in Cinnamomum tamala Nees. accessions through DNA fingerprinting using molecular markers

Indian Journal of Agricultural Research ◽

10.18805/ijare.v0i.11287 ◽

2016 ◽

Author(s):

S Zafar Haider ◽

Ujjwal . Bhandari ◽

Gaurav . Naik ◽

Nirpendra . Chauhan

Keyword(s):

Genetic Diversity ◽

Genetic Variation ◽

Rapd Markers ◽

Issr Markers ◽

Initial Screening ◽

Cinnamomum Tamala ◽

Upgma Cluster Analysis ◽

Polymorphic Bands ◽

Rapd And Issr ◽

Uttarakhand Himalaya

The present study aims to investigate the genetic variation in Cinnamomum tamala Nees. (Lauraceae) accessions collected from different locations of Uttarakhand Himalaya. The leaves samples were analyzed by using RAPD and ISSR markers. A total 22 primers were used for initial screening in order to select the ones giving good amplification. Seven primers (OPA-12, OPA-18, OPB-10, OPB-17, ISSR-21, ISSR-24 and ISSR-30) were found to be polymorphic in eight accessions. Based on combined profile of ISSR and RAPD markers the dendrogram was constructed by using UPGMA cluster analysis and all the accessions showed discrimination from one another. All the accessions were clustered into two major groups, one containing T1-T4 and second T5-T8. The percentage of polymorphic bands was 86.3 % for three ISSR markers and 70.5 % for four RAPD markers. This emphasize that ISSR markers were found to be the best for genetic variation in the species.

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