Grouping and identification of Tuber species using RAPD markers

1997 ◽  
Vol 75 (1) ◽  
pp. 36-45 ◽  
Author(s):  
Delphine Gandeboeuf ◽  
C. Dupré ◽  
G. Chevalier ◽  
P. Roeckel-Drevet ◽  
P. Nicolas
Keyword(s):  
Genetic Variation ◽  
Mycorrhizal Fungi ◽  
Random Amplified Polymorphic Dna ◽  
Morphological Characters ◽  
Tuber Melanosporum ◽  
Tuber Aestivum ◽  
Important Species ◽  
Tuber Brumale ◽  
Dna Profiles ◽  
Tuber Species

Mycorrhizal fungi of the genus Tuber are classified by morphological characters that allow differentiation of most species. However, some economically important species are difficult to differentiate on morphological grounds. When morphological traits are not sufficient to discriminate between taxa, other markers are needed. Genetic variation of fruit bodies of 12 Tuber taxa was studied by the random amplified polymorphic DNA (RAPD) technique. High interspecific variability was observed between most species. Moreover, important infraspecific variation occurred in all species, except Tuber brumale s.L, Tuber melanosporum, and Tuber magnatum. Southern hybridization patterns of RAPD products of the various species were used to confirm the data. Relationships among Tuber species were determined by cluster analyses. UPGMA analyses revealed several main clusters and a low genetic similarity between taxa. These results indicate that RAPD and polymerase chain reaction are useful for analysing genetic variation within Tuber species. Most species can be identified by differences in their amplified DNA profiles. However, the two pairs of closely related taxa Tuber aestivum – Tuber uncinatum and Tuber brumale var. brumale – Tuber brumale var. moschatum did not appear to differ genotypically. Key words: Tuber, RAPD, Southern, UPGMA, inter- and infra-specific variability.

Identification and Analysis of Genetic Variation among Rose Cultivars Using Random Amplified Polymorphic DNA

2005 ◽  
Vol 60 (7-8) ◽  
pp. 611-617 ◽  
Author(s):  
Anuradha Mohapatra ◽  
Gyana Ranjan Rout
Keyword(s):  
Genetic Variation ◽  
Rapd Markers ◽  
Genetic Relationships ◽  
Random Amplified Polymorphic Dna ◽  
Plant Genetic Resources ◽  
Flower Colour ◽  
Morphological Characters ◽  
Breeding Programs ◽  
Rose Breeding

Identified germplasm is an important component for efficient and effective management of plant genetic resources. Traditionally, cultivars or species identification has relied on morphological characters like growth habit or floral morphology like flower colour and other characteristics of the plant. Studies were undertaken for identification and analysis of genetic variation within 34 rose cultivars through random amplified polymorphic DNA (RAPD) markers. Analysis was made by using twenty five decamer primers. Out of twenty five, ten primers were selected and used for identification and analysis of genetic relationships among 34 rose cultivars. A total of 162 distinct DNA fragments ranging from 0.1 to 3.4 kb was amplified by using 10 selected random decamer primers. The genetic similarity was evaluated on the basis of presence or absence of bands. The cluster analysis indicated that the 34 rose cultivars form 9 clusters. The first cluster consists of eight hybrid cultivars, three clusters having five cultivars each, one cluster having four cultivars, two clusters having three cultivars each and two clusters having one cultivar each. The genetic distance was very close within the cultivars. Thus, these RAPD markers have the potential for identification of clusters and characterization of genetic variation within the cultivars. This is also helpful in rose breeding programs and provides a major input into conservation biology.

scholarly journals Tuber melanosporum spread within sub-optimal climatic zones is controlled by fruiting triggers and not mycorrhiza survival

2014 ◽  
Vol 49 (2) ◽  
pp. 255-265 ◽  
Author(s):  
Paul W. Thomas
Keyword(s):  
Calcareous Soils ◽  
Summer Rainfall ◽  
Climatic Conditions ◽  
Tuber Melanosporum ◽  
Tuber Aestivum ◽  
Climatic Zones ◽  
Sunshine Hours ◽  
Tuber Brumale ◽  
Summer Temperatures ◽  
The Uk

<p><em>Tuber melanosporum</em> is the most valuable of all cultivatable truffle species. Farming of this species spans every continent with the exception of Antarctica. <em>Tuber aestivum</em> (syn. <em>T. uncinatum</em>) and <em>Tuber brumale</em> are truffle species that have similar host plant preference and a similar affinity for calcareous soils as <em>T. melanosporum</em>, but occur over a broader geographic zone. The geographic limit of <em>T. melanosporum</em> is thought to be climatically dictated but it is not known whether this is due to an impact on mycorrhizal survival or climatically-derived fruiting triggers. Here, data is compiled from five cultivated research sites in the climatically sub-optimal conditions of the UK in order to address this question. Here we show:</p><p><em>(</em><strong><em>i</em></strong><em>)Tuber melanosporum</em> mycorrhiza can survive and grow in sub-optimal climatic conditions.</p><p>(<strong><em>ii</em></strong>)It is climatically-derived fruiting triggers and not ectomycorrhiza survival that dictate the climatic preferences and geographic spread of <em>T. melanosporum</em>.</p><p>(<strong><em>iii</em></strong>)Important climatic parameters for potential fruiting triggers are sunshine hours, summer rainfall and summer temperatures.</p><p> </p><p>The data presented here not only aid our understanding of the ecological parameters of <em>T. melanosporum</em> but also have a practical application for truffle cultivators in choosing suitable locations for a plantation.</p>

Identification of Tinospora cordifolia (Willd.) Miers ex Hook F. & Thomas Using RAPD Markers

2006 ◽  
Vol 61 (1-2) ◽  
pp. 118-122 ◽  
Author(s):  
Gyana Ranjan Rout
Keyword(s):  
Genetic Variation ◽  
Rapd Markers ◽  
Genetic Relationships ◽  
Random Amplified Polymorphic Dna ◽  
Plant Genetic Resources ◽  
Flower Colour ◽  
Morphological Characters ◽  
Tinospora Cordifolia ◽  
Identification Of Species

Abstract Identified germplasm is an important component for efficient and effective management of plant genetic resources. Traditionally, plant identification has relied on morphological characters like growth habit, floral morphology like flower colour and other characteristics of the plant. Studies were undertaken for identification and genetic variation within 15 clones of Tinospora cordifolia through random amplified polymorphic DNA (RAPD) markers. Analysis was made using forty decamer primers. Out of them, 15 primers were selected and used for identification and genetic relationships within 15 clones. A total of 138 distinct DNA fragments ranging from 0.2 to 3.2 kb were amplified using 15 selected random primers. The genetic similarity was evaluated on the basis of presence or absence of bands. The genetic distance was very close within the clones. Thus, these RAPD markers have the potential for identification of species and characterization of genetic variation within the population. This study will be helpful to know the genetic background of the medicinal plants with high commercial value, and also provides a major input into conservation biology

The use of RAPD for identifying and classifying Musa germplasm

Genome ◽  
1994 ◽  
Vol 37 (2) ◽  
pp. 328-332 ◽  
Author(s):  
Elaine C. Howell ◽  
H. John Newbury ◽  
Rony L. Swennen ◽  
Lyndsey A. Withers ◽  
Brian V. Ford-Lloyd
Keyword(s):  
Genetic Variation ◽  
Rapd Markers ◽  
Multivariate Analyses ◽  
Random Amplified Polymorphic Dna ◽  
Morphological Characters ◽  
Pattern Of Variation

Using the technique of random amplified polymorphic DNA (RAPD), we have identified 116 amplification products in Musa germplasm using nine primers. This has enabled us to identify RAPD markers that are specific to each of nine genotypes of Musa representing AA, AAA, AAB, ABB, and BB genomes. The pattern of variation observed following the application of multivariate analyses to the RAPDs banding data is very similar to the pattern of variation defined using morphological characters and used to assign Musa material into the different genome classes.Key words: RAPD, Musa, genome, banana, plantain, genetic variation.

Genetic variation in agronomically important species of Stylosanthes determined using random amplified polymorphic DNA markers

1993 ◽  
Vol 85-85 (6-7) ◽  
pp. 882-888 ◽  
Author(s):  
K. Kazan ◽  
J. M. Manners ◽  
D. F. Cameron
Keyword(s):  
Genetic Variation ◽  
Dna Markers ◽  
Random Amplified Polymorphic Dna ◽  
Important Species

scholarly journals Detection and analysis of genetic variation in Salicornieae (Chenopodiaceae) using random amplified polymorphic DNA (RAPD) markers

Taxon ◽  
1995 ◽  
Vol 44 (1) ◽  
pp. 53-63 ◽  
Author(s):  
T. Luque ◽  
C. Ruiz ◽  
J. Avalos ◽  
I. L. Calderón ◽  
M. E. Figueroa
Keyword(s):  
Genetic Variation ◽  
Rapd Markers ◽  
Random Amplified Polymorphic Dna

Random Amplified Polymorphic DNA Profiles as a Tool for the Identification of Acanthamoeba divionensis

2003 ◽  
Vol 47 (2) ◽  
pp. 84-86 ◽  
Author(s):  
Nestor J. Abreu ◽  
Pilar Foronda ◽  
Antonio del Castillo ◽  
Basilio Valladares ◽  
Antonio Ortega-Rivas ◽  
...  
Keyword(s):  
Random Amplified Polymorphic Dna ◽  
Dna Profiles

Diversity of culturable microorganisms and occurrence of Listeria monocytogenes and Salmonella spp. in Tuber aestivum and Tuber melanosporum ascocarps

2010 ◽  
Vol 27 (2) ◽  
pp. 286-293 ◽  
Author(s):  
Carmen Susana Rivera ◽  
Domingo Blanco ◽  
Rosa Oria ◽  
María Eugenia Venturini
Keyword(s):  
Listeria Monocytogenes ◽  
Tuber Melanosporum ◽  
Tuber Aestivum ◽  
Salmonella Spp

Direct comparison of levels of genetic variation in tomato detected by a GACA-containing microsatellite probe and by random amplified polymorphic DNA

Genome ◽  
1994 ◽  
Vol 37 (3) ◽  
pp. 375-381 ◽  
Author(s):  
W. Rus-Kortekaas ◽  
M. J. M. Smulders ◽  
P. Arens ◽  
B. Vosman
Keyword(s):  
Tissue Culture ◽  
Genetic Variation ◽  
Somaclonal Variation ◽  
Random Amplified Polymorphic Dna ◽  
Dna Fingerprint ◽  
Pairwise Comparisons ◽  
Lycopersicon Pennellii ◽  
Lycopersicon Species ◽  
Polymorphic Bands ◽  
Simple Sequence

In this study, a direct comparison was made of the ability of four selected random amplified polymorphic DNA (RAPD) primers and a GACA-containing microsatellite probe to detect genetic variation in Lycopersicon. Of the 89 RAPD primers initially tested, 85 showed differences between a representative of Lycopersicon pennellii and L. esculentum, but only 4 distinguished among three L. esculentum cultivars. These four primers were subsequently tested on representatives of six Lycopersicon species. In pairwise comparisons of species, all or 14 of the 15 combinations could be distinguished by single primers. When the primers were tested on 15 L. esculentum cultivars, 90 of the 105 combinations could be distinguished by the four primers together. Finally, none of 118 tested primers showed reproducible differences among calli or progeny of régénérants from tissue culture, although some of the plants had inherited morphological mutations. The probe pWVA16, which detects GACA-containing microsatellites, could distinguish in TaqI-digested DNA the representatives of Lycopersicon species as well as all the L. esculentum cultivars tested. The probe was unable to detect polymorphisms among calli and the progeny of regenerants from tissue culture. An analysis of the results showed that the four selected RAPD primers were able to detect polymorphic bands among species at a frequency of 80%, and among cultivars at a frequency of 44%. In contrast, the microsatellite probe detected polymorphic bands at a frequency of 100 and 95%, respectively. The GACA-containing probe did not detect any common bands among the representatives of the six species, while band sharing with RAPDs was 48%. These results indicate that the two methods detect two types of DNA that differ in their degree of variability.Key words: DNA fingerprint, RAPD, simple sequence, somaclonal variation, tissue culture.

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