Assessing the germplasm ofLaminaria (phaeophyceae) with random amplified polymorphic DNA (RAPD) method

Authentication of Strychnos ligustrina Bl. had been performed at molecular level (DNA) with Random Amplified Polymorphic DNA (RAPD) method, based on the amplification of random DNA fragments by Polymerase Chain Reaction (PCR) with a single arbitrary primer. The aim of this research was obtaining similar banding patterns between DNA of plant Strychnos ligustrina Bl. and DNA of its lignum on local market. Strychnos ligustrina Bl. was determined by UPT Balai Konservasi Tumbuhan Kebun Raya Purwodadi and plants sold as Strychnos ligustrina Bl. were collected as lignum from traditional market at Wonokromo, Rungkut, Genteng, Benowo dan Pabean. DNA from these plants were extracted by modified Cetyltrimethylammonium bromide (CTAB) method and amplified by RAPD method. Amplification had been performed by primer OPO-4 had shown banding patterns on the gel electrophoresis which banding patterns were shown by Strychnos ligustrina Bl. and plants sold as Strychnos ligustrina Bl. on Benowo. Based on this early result, we assume that plants sold as Strychnos ligustrina Bl. on Benowo has closely genetic relationship with Strychnos ligustrina Bl.

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Genetic Kinship of Nilem Fish Strains (Osteochillus hasselti)

Asian Journal of Biochemistry, Genetics and Molecular Biology ◽

10.9734/ajbgmb/2020/v3i130077 ◽

2020 ◽

pp. 28-37

Author(s):

Yuli Andriani ◽

Ibnu Dwi Buwono ◽

Ujang Subhan ◽

Arini Mandhasia

Keyword(s):

Random Amplified Polymorphic Dna ◽

Descriptive Analysis ◽

Kinship Analysis ◽

Fish Genome ◽

Rapd Method

The research aims to analyze the kinship of nilem fish strains using RAPD (Random Amplified Polymorphic DNA). This research used exploratory method with descriptive analysis. The primers used in the RAPD method are OPA-02 (5'-TGCCGAGCTG-3 '), OPA-03 (5'-AGTCAGCCAC-'3), OPA-05 (5'-AGGGGTCTTG-3') and OPA-11 (5) 5'- CAATCGCCGT-3 '). The primary optimization results showed that OPA-02 and OPA-11 were the primary primers for detecting polymorphic and monomorphic fragments of the nilem fish genome. Phenograms from the RAPD method that were processed through the NTSYS-pc program showed that the OPA-02 primer was the best primer for nilem kinship analysis. Relationship between red nilem with green nilem is 92%, red nilem and green nilem with mangot nilem are 72% and the three nilem with beureum panon are 12%.

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Molecular Typing of Vibrio parahaemolyticus Isolates, Obtained from Patients Involved in Food Poisoning Outbreaks in Taiwan, by Random Amplified Polymorphic DNA Analysis

Journal of Clinical Microbiology ◽

10.1128/jcm.37.6.1809-1812.1999 ◽

1999 ◽

Vol 37 (6) ◽

pp. 1809-1812 ◽

Cited By ~ 27

Author(s):

Hin-Chung Wong ◽

Chi-Chang Liu ◽

Tze-Ming Pan ◽

Tien-Kuei Wang ◽

Chih-Lung Lee ◽

...

Keyword(s):

Molecular Typing ◽

Vibrio Parahaemolyticus ◽

Dna Analysis ◽

Annealing Temperature ◽

Random Amplified Polymorphic Dna ◽

Food Poisoning ◽

Important Food ◽

Food Borne ◽

Reference Strains ◽

Rapd Method

Vibrio parahaemolyticus is one of the most important food-borne pathogens in Taiwan, Japan, and other countries with long coastlines. This paper reports on the development of a new random amplified polymorphic DNA (RAPD) method for the molecular typing of this pathogen. The 10-mer primer 284 (5′-CAG GCG CAC A-3′) was selected to generate polymorphic amplification profiles of the genomic DNA at an annealing temperature of 38°C. A total of 308 clinical isolates of V. parahaemolyticus collected during food poisoning outbreaks in Taiwan, mostly occurring between 1993 and 1995, plus 11 environmental and clinical reference strains were analyzed by this RAPD method. A total of 41 polymorphic RAPD patterns were recognized, and these patterns were arbitrarily grouped into 16 types (A to P). Types A, B, C, D, and E were the major types, and subtypes C3, C5, E1, B1, D2, and A2 were the major patterns. The major types were phylogenetically more closely related to each other than to any of the minor types.

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H. pylori DNA Fingerprinting Using the Arbitrarily Primed PCR (AP-PCR) or Random Amplified Polymorphic DNA (RAPD) Method

Helicobacter pylori Protocols ◽

10.1385/0-89603-381-3:117 ◽

2003 ◽

pp. 117-132 ◽

Cited By ~ 3

Author(s):

Douglas E. Berg ◽

Janaki Lelwala-Guruge ◽

Engin T. Incecik ◽

Kalpana Srivastava ◽

Natalia S. Akopyants

Keyword(s):

Dna Fingerprinting ◽

Random Amplified Polymorphic Dna ◽

H Pylori ◽

Arbitrarily Primed Pcr ◽

Rapd Method

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Reproducible DNA fingerprinting with the random amplified polymorphic DNA (RAPD) method

Nucleic Acids Research ◽

10.1093/nar/22.10.1921 ◽

1994 ◽

Vol 22 (10) ◽

pp. 1921-1922 ◽

Cited By ~ 90

Author(s):

Maria Rita Micheli ◽

Rodolfo Bova ◽

Esterina Pascale ◽

Ettore D'Ambrosio

Keyword(s):

Dna Fingerprinting ◽

Random Amplified Polymorphic Dna ◽

Rapd Method

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Characterization of typical and atypical enteropathogenic Escherichia coli (EPEC) strains of the classical O55 serogroup by RAPD analysis

Revista de Microbiologia ◽

10.1590/s0001-37141999000400013 ◽

1999 ◽

Vol 30 (4) ◽

pp. 365-368 ◽

Cited By ~ 5

Author(s):

Dennys M. Girão ◽

Sílvia Y. Bando ◽

Valéria Brígido de C. Girão ◽

Carlos A. Moreira-Filho ◽

Sérgio Eduardo L. Fracalanzza ◽

...

Keyword(s):

Escherichia Coli ◽

Rapd Analysis ◽

Random Amplified Polymorphic Dna ◽

Epidemiological Studies ◽

Enteropathogenic Escherichia Coli ◽

E Coli ◽

Typical Epec ◽

Rapd Method ◽

Atypical Strains

The genetic diversity of 41 typical and atypical enteropathogenic Escherichia coli (EPEC) strains of the serogroup O55 was analyzed by using the random amplified polymorphic DNA (RAPD) method. All typical EPEC O55 strains were grouped in two clusters (A and C) and belonged to the serotype O55:H6, while cluster B included all atypical strains, which were of the serotype O55:H7. The three groups also included non-motile strains. RAPD may be a useful method for epidemiological studies on E. coli O55 infection.

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Morphomolecular characterization of Pleurotus ostreatus (Jacq. Fr.) kummer strains in relation to luminosity and temperature of frutification

Scientia Agricola ◽

10.1590/s0103-90162003000300018 ◽

2003 ◽

Vol 60 (3) ◽

pp. 531-535 ◽

Cited By ~ 9

Author(s):

Regina Helena Marino ◽

Augusto Ferreira da Eira ◽

Eiko Eurya Kuramae ◽

Elvio Cardoso Queiroz

Keyword(s):

Genetic Variability ◽

Molecular Characterization ◽

Pleurotus Ostreatus ◽

Random Amplified Polymorphic Dna ◽

Factors Affecting ◽

Formation Pattern ◽

Main Factors ◽

Effects Of Temperature ◽

Rapd Method

Temperature is one of the main factors affecting mushrooms development and introduction in new areas. Effects of temperature (15ºC and 28ºC) and luminosity (120 and 900 lux) were evaluated for eight P. ostreatus strains in relation to precocity, yield, pileus area, stalk formation pattern, coloration and handling resistance. Genetic variability of strains was analysed by the Random Amplified Polymorphic DNA (RAPD) method. The Pos 98/37 strain was the only to yield white pileus at 28ºC - 900 lux, and grey ones at 15ºC and 120 lux. The Pos 96/05 strain, the latest, produced lead-coloured pileus at 15ºC, as did the remaining strains at this temperature. Strains cultivated at 15ºC did not differ in relation to handling resistance. At 28ºC mushrooms were less resistant. In relation to yield, the Pos 98/38 strain was significantly more efficient. The Pos 98/37 strain, at 28ºC, as compared to the same strain at 15ºC, was more efficient and had an asymmetric stalk formation pattern. Among strains cultivated at 15ºC, the stalk formation pattern was symmetric, except for the Pos 97/15 and Pos 97/17 strains. Molecular characterization of the Pos 98/37 strain was 30% similar to the remaining strains. The temperature of fructification and luminosity influence the induction and development of the isolates.

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Evaluation of the Utility of the Random Amplified Polymorphic DNA Method and of the Semi-Specific PCR to Assess the Genetic Diversification of theGerbera jamesoniiBolus Line

The Scientific World JOURNAL ◽

10.1100/2012/450920 ◽

2012 ◽

Vol 2012 ◽

pp. 1-5 ◽

Cited By ~ 2

Author(s):

Zbigniew Rusinowski ◽

Olga Domeradzka

Keyword(s):

Genetic Distance ◽

Random Amplified Polymorphic Dna ◽

Dna Fragments ◽

Specific Primers ◽

Coding Sequence ◽

Analysis And Evaluation ◽

Specific Pcr ◽

Pcr Method ◽

Polymorphic Bands ◽

Rapd Method

An attempt was made to evaluate the utility of a method which employs semi-specific PCR using partially specific primers for the coding sequence (ET) at the exon-intron contact and of the RAPD method to identify eight Polish cultivars of gerbera. It was demonstrated that the PCR method which employs semi-specific primers is as simple and economical as the RAPD method, simultaneously the images of the multiplied by means of the semi-specific PCR method DNA fragments are more complex and polymorphic than those obtained through the RAPD method. The studies of the genetic diversification ofGerberacultivars employing the aforementioned methods made it possible to conduct a concentration analysis and evaluation of the genetic distance between the lines, manifesting at the same time the superiority of the semi-random PCR method. Moreover, it transpired that the use of mixtures of RAPD primers not always leads to an increase of the number of generated polymorphic bands.

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