scholarly journals Intersimple Sequence Repeat Markers for Fingerprinting and Determining Genetic Relationships of Walnut (Juglans regia) Cultivars

2002 ◽  
Vol 127 (1) ◽  
pp. 75-81 ◽  
Author(s):  
Daniel Potter ◽  
Fangyou Gao ◽  
Giovanna Aiello ◽  
Charles Leslie ◽  
Gale McGranahan
Keyword(s):  
Genetic Relationships ◽  
Juglans Regia ◽  
Issr Markers ◽  
Genetic Distances ◽  
Sequence Repeat ◽  
Geographic Origins ◽  
Pcr Products ◽  
Extensive Exchange ◽  
The One ◽  
Issr Primers

The utility of intersimple sequence repeat (ISSR) markers for identification of English or Persian walnut (Juglans regia L.) cultivars was explored. Four cultivars were screened with 47 ISSR primers; eight of these primers, which generated reproducible and informative data, were selected for further study. Two individuals from each of 48 cultivars, including many currently important in the California walnut industry as well as accessions from Europe and Asia, were then examined with the eight ISSR primers. Polymerase chain reaction (PCR) products were separated on agarose gels and stained with ethidium bromide. Fifty-four bands were scored as present or absent in each cultivar; of these, 31 (57%) were polymorphic among the 48 cultivars. Combined data from the eight ISSR primers provided a unique fingerprint for each of the cultivars tested. Fifteen of the cultivars could be distinguished from all others with just one primer, 31 with a minimum of two primers, and two required three primers. Pairwise genetic distances between the cultivars were calculated and a dendrogram was generated using the neighbor-joining algorithm. Some of the groupings in the dendrogram corresponded to groups which, based on known pedigrees, are genealogically closely related. Others included accessions from diverse genetic and/or geographic origins. These results can be attributed to a combination of the limitations of the ISSR method for inferring genetic relationships, on the one hand, and the complex history of walnut cultivar development involving extensive exchange and breeding of germplasm from different geographic regions, on the other.

scholarly journals Genetic Diversity of Elaeagnus angustifolia L. (Elaeagnaceae) Populations in İzmir (Turkey)

2021 ◽  
Vol 78 (1) ◽  
pp. 35
Author(s):  
Erengül SOFYALIOĞLU ◽  
Emre SEVİNDİK ◽  
Hüseyin UYSAL
Keyword(s):  
Genetic Diversity ◽  
Phylogenetic Trees ◽  
Uv Light ◽  
Genetic Relationships ◽  
Issr Markers ◽  
Genetic Distances ◽  
Elaeagnus Angustifolia ◽  
A Value ◽  
Pcr Products ◽  
Issr Primers

This study was performed out genetic diversity of some Elaeagnus angustifolia L. populations growing in İzmir province by using ISSR markers. In the study, PCR was performed using 15 ISSR primers. PCR products were run in agarose gel and visualized under UV light. Amplified products were scored as follows. A total of 46 bands were produced from 15 ISSR primers, of which 27 were polymorphic. The proportion of polymorphic bands was evaluated as approximately 58.7%. Genetic distances between phylogenetic trees and genotypes were calculated using the PAUP program. The phylogenetic tree consists of two large clades. The longest distance between populations was between Gümüldür-Özdere and Çeşme-Alaçatı population with a value of 0.50, while the closest distance was between Çeşme-Ayayorgi and Konak-Hatay populations with a value of 0.06. The results show that ISSR markers are useful tools for determining genetic relationships between E. angustifolia populations

scholarly journals Identifying Lychee (Litchi chinensis Sonn.) Cultivars and their Genetic Relationships Using Intersimple Sequence Repeat (ISSR) Markers

2003 ◽  
Vol 128 (6) ◽  
pp. 838-845 ◽  
Author(s):  
Chemda Degani ◽  
Jiusheng Deng ◽  
Avigdor Beiles ◽  
Ruth El-Batsri ◽  
Moshe Goren ◽  
...  
Keyword(s):  
Simple Sequence Repeat ◽  
Genetic Relationships ◽  
Issr Markers ◽  
Genetic Distances ◽  
Neighbor Joining ◽  
Sequence Repeat ◽  
Issr Analysis ◽  
Simple Sequence ◽  
Issr Primers

There is widespread confusion and uncertainty concerning the identity of lychee cultivars: the same cultivar may be known under different names and different cultivars may appear under the same name. In the present study, the potential of intersimple sequence repeat (ISSR) for the identification of 66 lychee cultivars and accessions and a determination of their genetic relationships was evaluated, using 32 primers containing different simple sequence repeat motifs. Of the 194 bands produced, 124 (64%) were polymorphic. A set of six ISSR primers was sufficient to distinguish all cultivars and accessions. Thus, cultivars which are morphologically very similar and have identical isozyme profiles can be distinguished by ISSR analysis. However, seven pairs of accessions, each considered to be the same cultivar, were found to be identical by ISSR analysis. Nei and Li band-sharing distances and Nei genetic distances were calculated among the cultivars and two similarity dendrograms were generated using the neighbor-joining algorithm. Results showed that the ISSR technique is a valuable tool for identification of lychee cultivars and analysis of their genetic relationships.

scholarly journals Genetic Diversity Based on ISSR Markers of Apple Genotypes in Ardahan/Turkey

2018 ◽  
Vol 10 (4) ◽  
pp. 554-558
Author(s):  
Emre SEVİNDİK ◽  
Hüseyin UYSAL ◽  
Zehra Tuğba MURATHAN
Keyword(s):  
Genetic Diversity ◽  
Phylogenetic Analysis ◽  
Genetic Distance ◽  
Uv Light ◽  
Genetic Relationships ◽  
Issr Markers ◽  
Genetic Distances ◽  
The Matrix ◽  
Commercial Kits ◽  
Issr Primers

Within the present study, it was conducted a genetic diversity analysis using ISSR markers for some apple genotypes grown in Ardahan region, Turkey. Total genomic DNA (gDNA) isolation from apple leaves was performed using commercial kits. Five ISSR primers were used to determine the genetic diversity among the genotypes studied. Polymerase Chain Reaction (PCR) was performed with all gDNA samples to produce bands to score. PCR products were run in agarose gel and visualized under UV light. Bands on the gels were scored as “1”, while no bands at the corresponding positions were scored as “0”, to generate the matrix file. Five ISSR primers produced a total of 35 bands, and 20 of them were polymorphic. The polymorphic bands rated approximately 57%. Phylogenetic relationships and genetic distances between the genotypes were calculated by using the PAUP [Phylogenetic Analysis Using Parsimony (and Other Methods)] program.  According to the PAUP data, the closest genetic distance was 0.03704 between ‘Kaburga’ and ‘Japon Apple’ genotypes, while the furthest genetic distance was 0.48148 between ‘Karanfil Apple’ and ‘Sisli Uruset’. The phylogenetic analysis obtained using UPGMA algorithm produced a phylogenetic tree with two clades. The results suggest that ISSR markers are useful tools for determining genetic relationships among apple genotypes.

scholarly journals Study of genetic diversity in Tunisian local cattle populations using ISSR markers

2019 ◽  
Vol 42.3 ◽  
pp. 7296-7302
Author(s):  
Haifa EL HENTATI ◽  
Najia THAMRI ◽  
Wissal DEROUICH ◽  
Mouna HADHLI ◽  
Taoufik BOUKHORSA
Keyword(s):  
Genetic Diversity ◽  
Gene Flow ◽  
Issr Markers ◽  
Genetic Distances ◽  
Sequence Repeat ◽  
North West ◽  
Upgma Dendrogram ◽  
The North ◽  
Total Genetic Diversity ◽  
Issr Primers

The inter-simple DNA sequence repeat (ISSR) method was used to study genetic diversity in three local cattle from the north, northeast and north west of Tunisia. Twenty samples were analysed using three ISSR primers. In total, 22 bands were amplified of which 15 are polymorphic (68.18%). The total genetic diversity (Ht), genetic diversity within populations (Hs), coefficient of gene differentiation (Gst) and gene flow (Nm) were 0.2706, 0.01314, 0.8841 and 0.0656. To better visualize the structure of the population, a UPGMA dendrogram constructed from the genetic distances of NEI shows that the populations of North (Bizerte) and Northeast (Nabeul) are genetically closest while that of Northwest (Jendouba and Siliana) is the furthest from the two others.

scholarly journals Genetic Relationships Among Representatives of Dasypyrum, Secale and Triticum Species Revealed with RAPD and ISSR Markers

2014 ◽  
Vol 42 (2) ◽  
pp. 420-430
Author(s):  
Agnieszka GRADZIELEWSKA ◽  
Mirosław TYRKA ◽  
Justyna LESNIOWSKA-NOWAK ◽  
Justyna NAZARUK
Keyword(s):  
Gene Diversity ◽  
Genetic Relationships ◽  
Issr Markers ◽  
Genetic Distances ◽  
Fixation Index ◽  
Triticum Species ◽  
The Difference ◽  
Bridge Species ◽  
Differentiation Gene ◽  
Rapd And Issr

In this study the genetic similarity among Dasypyrum, Secale andTriticum species with RAPDs and ISSRs was analyzed. To show a level of similarity between the species, 12 populations of Dasypyrum (11 D. villosum and 1 D. breviaristatum), together with 12 accessions belonging to 3 Secale species and 12 accessions from 4 Triticum species were used. Genetic distances (GD) and bootstrap values were calculated and PCA analysis was conducted to present the relationships among the species. To estimate the genetic structure among and inside genera, as well as population differentiation, gene diversity (He), total genetic variation (Ht) and Wright’s fixation index (Fst) were computed. The highest values were found in Triticum, within which Ht was equal to 0.332±0.023 and Fst was 0.42. It confirmed that the material studied was highly differentiated. Both systems found Dasypyrum more related with Triticum, as compared to Secale. With RAPDs, genetic distance (GD) between Triticum and Dasypyrum was 0.435, respectively 0.460 for Secale vs Dasypyrum. In the case of ISSRs these values were 0.374 and 0.407, respectively. Despite the fact that the difference between the two GD indices was insignificant, one should not exclude the possibility of successful hybridization of Dasypyrum and Secale, especially when using bridge species.

scholarly journals Screening of homokaryotic protoclones of Agaricus bisporus (J. Lge) Imbach by colony characters and ISSR markers

2010 ◽  
Vol 39 (1) ◽  
pp. 119-122 ◽  
Author(s):  
Mahmudul Islam Nazrul ◽  
Fan Xiao Lin ◽  
Bian Yin-Bing
Keyword(s):  
Simple Sequence Repeat ◽  
Agaricus Bisporus ◽  
Morphological Characters ◽  
Inter Simple Sequence Repeat ◽  
Issr Markers ◽  
Fruiting Bodies ◽  
Sequence Repeat ◽  
Slow Growing ◽  
Simple Sequence ◽  
Issr Primers

Among ten slow-growing protoclones of Agaricus bisporus (J. Lge) Imbach, all appressed colonies showed slower growth rate and spawn run, and inability to produce fruiting bodies in substrate. Seven of 40 inter-simple sequence repeat (ISSR) primers amplified 78 reproducible fragments, 48.93% were polymorphic, each producing 7 to 16 bands ranging from 0.10 to 2.10 kbp, sufficient to differentiate the protoclones from each other. Appressed protoclones were homoallelic at a number of loci that were heteroallelic in the parent, suggesting that they represented rare homokaryons. Thus, using morphological characters along with ISSR, polymorphisms could be useful for quick, easy, and accurate in distinguishing homo- and heterokaryotic isolates. Key words: Agaricus bisporus (J. Lge) Imbach; Homokaryon; ISSR; Protoclone DOI: 10.3329/bjb.v39i1.5537Bangladesh J. Bot. 39(1): 119-122, 2010 (June)

Clonal structure and reduced diversity of the invasive alien plant Erigeron annuus in Lithuania

2013 ◽  
Vol 8 (9) ◽  
pp. 898-911 ◽  
Author(s):  
Jolanta Patamsytė ◽  
Vytautas Rančelis ◽  
Tatjana Čėsnienė ◽  
Violeta Kleizaitė ◽  
Virginija Tunaitienė ◽  
...  
Keyword(s):  
Genetic Relationships ◽  
Random Amplified Polymorphic Dna ◽  
Issr Markers ◽  
Genetic Distances ◽  
Natural Ecosystems ◽  
Alien Plant ◽  
Invasive Alien Plant ◽  
Inter Simple Sequence Repeats ◽  
Upgma Cluster Analysis ◽  
Erigeron Annuus

AbstractThe alien species Erigeron annuus (L.) Pers. is in an intensive spreading phase in Lithuania. Random amplified polymorphic DNA (RAPDs) and inter-simple sequence repeats (ISSRs) assays were used to study the genetic structure of old and new invasive populations and to determine the most spread genotypes of this species in Lithuania. Pairwise genetic distances between populations established using RAPD and ISSR markers significantly correlated (r=0.91, P<0.05). Our study indicates that there are two genetically different types of E. annuus populations. The first type is represented by a widely spread main clone and related monomorphic populations. The second type is represented by polymorphic populations, some of them present at sites where E. annuus has not been previously observed. Main clone predominates in nine populations and is from the region where this species was first described in natural ecosystems of Lithuania. UPGMA cluster analysis revealed genetic relationships between the main clone and accessions from old cemeteries where E. annuus has been grown as an ornamental plant. We found high genetic differentiation among populations (G ST=0.58 for RAPDs, G ST=0.64 for ISSRs). Taken together, our results will contribute to the monitoring of E. annuus spread in Lithuania.

scholarly journals Genetic diversity of Turkish lathyrus L. landraces using ISSR markers

Genetika ◽  
2018 ◽  
Vol 50 (2) ◽  
pp. 395-402
Author(s):  
Hüseyin Uysal ◽  
Zeki Acar ◽  
İlknur Ayan ◽  
Orhan Kurt
Keyword(s):  
Genetic Diversity ◽  
Genetic Distance ◽  
Genetic Relationships ◽  
Issr Markers ◽  
The Other ◽  
High Similarity ◽  
Pairwise Genetic Distance ◽  
Dna Fragment ◽  
Lathyrus Sativus L ◽  
Issr Primers

Fifty-one Lathyrus sativus L. landraces and one L. clymenum L. landrace collected from Turkey and one L. sativus cultivar, G?rb?z, were evaluated with ISSR markers in this study to molecular characterization. Three ISSR primers were used and 45 DNA fragment were evaluated, of which 44 bands were polymorphic. The frequencies of scored bands ranged from 0.009 to 0.888 and averaged 0.363. The genotypes MLT04 and NEV02 had high similarity with 0.825 according to pairwise grouping. The furthest pairwise group was G?rb?z and MLT02 with 0.244. The nearest genotype to G?rb?z was CNR03 with 0.577. The pairwise genetic distance between L. clymenum and L. sativus ranged from 0.353 (accession NEV01) to 0.637 (accession DEN04) and pairwise genetic distance to the cultivar G?rb?z was 0.375. Assessment of genetic relationships among Lathyrus genotypes made two main groups. One of them covered only G?rb?z variety and the other covered 52 Lathyrus landrace. L. sativus and L. clymenum separated prominently in the second group.

scholarly journals Genetic variation and molecular relationships taxa of Conringia heist. ex Fabr. (Brassicaceae) based on RAPD markers in Turkey

Genetika ◽  
2020 ◽  
Vol 52 (1) ◽  
pp. 107-114
Author(s):  
Emre Sevġndġk ◽  
Yavuz Paksoy ◽  
Melike Aydoğan ◽  
Feyzanur Topseçer
Keyword(s):  
Genetic Variation ◽  
Phylogenetic Tree ◽  
Rapd Markers ◽  
Uv Light ◽  
Genetic Relationships ◽  
Genetic Distances ◽  
Genomic Dna Isolation ◽  
Pcr Products ◽  
Polymerase Chain ◽  
Molecular Relationships

In this study, genetic variation and phylogenetic analysis of 13 populations of 6 species belonging to Conringia genus spreading in Turkey were performed using RAPD markers. Genomic DNA isolation from the leaves of the Conringia plant samples was performed via using a commercial kit. Seven RAPD primers were used to identify the genetic diversity between the populations. Polymerase Chain Reaction (PCR) was performed using DNA samples and primers. PCR products were resolved using agarose gel electrophoresis and visualized under UV light. All gel images were analyzed, and the absence and presence of polymorphic bands were scored. The total of 34 DNA bands were detected by seven RAPD primers. PAUP 4.0b10 analysis program was used to calculate phylogenetic tree and genetic distances between the species. The phylogenetic tree was obtained using the UPGMA algorithm and it was composed of two clades. According to the PAUP analysis, the species having the closest distance between each other are C. planisiliqua (Ankara-Aya?) and C. planisiliqua (Ankara-Nall?han) with the value of 0.000 and those having the longest distance are C. grandiflora (Akseki ?ukurk?y) and C. orientalis (Elaz??-Baskil) with the value of 0.6000. The results suggest that the RAPD markers are useful tools to demonstrate the genetic relationships between populations of the Conringia species.

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