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Showing 27 results for Genetic Diversity
Fatemeh Sahranavard Azartamar, Mortaza Ghadimzadeh, Reza Darvishzadeh,
Volume 2, Issue 2 (3-2016)
Abstract
Knowledge about the amount of genetic diversity and understanding relationship between genotypes are important steps in plant germplasm conservation and breeding activities. In this study, the genetic diversity among 106 sunflower lines was assessed by 30 microsatellite primers. A total of 71 alleles were detected. Number of alleles in microssatellite loci ranged from 2 to 4 with the average number of 2.207 alleles per locus. The effective number of alleles ranged from 1.058 in locus ORS718 to 3.147 in locus HA3040. The average number of effective alleles was 1.641. The mean of PIC value was 0.344. Based on allele number and PIC value, SSR loci such as HA3040 and ORS733 are considered appropriate markers for studying genetic diversity in oily sunflower. Based on the results of cluster analysis using Jaccard's similarity coefficient and complete algorithm, the lines were grouped into four groups. Nineteen six out of 106 genotypes were grouped according to their origins (research centers). The highest and lowest Nei genetic distances were 0.21 and 0.004 between “NOVARTIS and HUNGARY” and “SPII with ENSAT and INRA-MONTPOL” groups, respectively. Analysis of the population structure revealed 5 subpopulations in the studied panel. The results show that the assignment of lines to subpopulations is not concordance with their geographical distribution pattern. The genetic diversity and distance revealed by SSR markers can be used in oily sunflower crossing and breeding programs
Marziyeh Shazdehahmadi, Mahin Kharrazi,
Volume 2, Issue 2 (3-2016)
Abstract
Determination of genetic diversity of breeding material is the first step in breeding programs. Evaluation of tobacco genetic diversity is essential for breeding programs and preservation of genetic resources. Genetic diversity level in tobacco genotypes, is very important for selection of parents in breeding programs. In this study, genetic diversity of 100 tobacco genotypes was evaluated using 25 ISSR markers. Banding pattern based on the presence or absence of the bands showed with 0 and 1, respectively. Out of 237 fragments produced in total cultivars, 195 bands were polymorphic and average of polymorphism ranged from 4 to 12 per primer. Average of polymorphism percentage was 94.10. To determine the efficiency of ISSR markers, PIC and their polymorphic percentage was calculated. UBC 818, UBC 812 and UBC 815 had the best marker parameters and were introduced as the best primers for assessment of genetic diversity. In order to evaluate the genetic similarity between cultivars, different similarity coefficient (SM, Dice and Jaccard) was calculated and Mantel corresponding test was performed. Finally, dendrogram was drawn based on SM similarity coefficient and UPGMA algorithm and the Cofenetic coefficient was calculated. All genotypes formed two distinct clusters indicating the high efficiency of used primers in amplification the approximate parts of the genome. The principle coordinate analysis showed that the first three components could explain 79.65 % of total variance. Totally, evaluation the tobacco genetic diversity using ISSR markers is suitable and ISSR marker can be used as appropriate marker system to identify the diversity and genetic relationship for breeding programs of this plant.
Ali Darvishian, Ahmad Ismaili, Farhad Nazarian-Firouzabadi, Reza Mirdrikvand, Tahmasb Hosseinpour,
Volume 2, Issue 2 (3-2016)
Abstract
Plant breeding is selection of advanced genotypes and its progress depends on correct evaluation of genetic variation. Among different selection procedure, molecular markers have a good potential for evaluation of variation. In this research, RAPD molecular markers were used to evaluation of genetic diversity among 25 wheat cultivars and advanced breeding lines. Genomic DNA was extracted from leaves by Dellaporta method and 30 primers were used for PCR amplification. Results of Primers led to 200 storable electrophoretic bands which 130 of them (65%) were polymorphic. F4 and A18 primers produced the greatest and lowest band, respectively. Cluster analysis was performed based on band presence (1) and absence (0) using Jaccard coefficient similarity and UPGMA method. Similarity coefficient ranged from 0.22 to 0.87 with an average of 0.64. The highest similarity (0.87) was observed between Azar2 and Sardari and lowest similarity (0.22) was observed between Seimareh and BAVICORA. With cut of line on 0.72 in dendrogram, 6 main groups were clustered and other genotypes were clustered in different group. Regarding to the high similarity among these genotypes, it is necessary to develop the wheat germplasm in related research centers.
Reza Darvishzadeh, Mir Javad Mousavi Andazghi, Amir Fayyaz Moghaddam, Hossein Abbassi Holasou, Seyyed Reza Alavi,
Volume 3, Issue 2 (3-2017)
Abstract
In order to evaluate heritability and gene action for some of the important quantitative traits in oriental tobacco, two genotypes, Basma 16-10 and SPT406 were crossed with Basma S. 31 cultivar, separately in 2009-2010. Parents with F1, F2, BC1 and BC2 generations were planted in a randomized complete block design with three replications. Traits such as plant height, leaf length, leaf width, leaf number, internnode number, stem diameter and yield per plant were recorded. The results obtained from analysis of variance indicated that generations mean squares were statistically significant for all traits expect for stem diameter. Therefore, generation mean analysis was performed for significant triats to estimate gene actions using Chi-square and scaling tests. The Chi-square of simple three-parametric model (additive-dominance model) was significant for studied crosses, indicating the presence of non allelic-interactions in the inheritance of these traits in oriental tobacco. Both additive and dominance genetic effects were significant for plant height, leaf length, leaf width, leaf number and internnode number. In addition, presence of high amount of dominance effect and dominance × dominance interactions suggests the importance of non-additive genetic effects for these traits in oriental tobacco. Therefore, selection for these traits in early generations can not be successful. However, additive genetic effects play an important role in the inheritance of yield, and then selection for this trait is hopeful in early generations during tobacco breeding process.
Reza Mir Drikvand,
Volume 3, Issue 2 (3-2017)
Abstract
Identification and application of genetic diversity are essential to breeding programs success. In this study, genetic diversity of 20 rainfed barley genotypes were assessed using morphological traits as well RAPD and intron-exon splice junction (ISJ), semi-random markers. Results of this study showed that there were significant differences among genotypes for all traits, indicating high genetic variation among them. The highest and lowest broad sense heritability was related to spike length and grain yield, respectively The estimates of genotypic coefficient of variation (GCV) and phenotypic coefficient of variation (PCV) were high for number of grain per spike, and low for 1000-kernel weight, respectively. Mean of polymorphic percentage in ISJ marker was higher than RAPD marker. Cluster analysis showed that the distinctions based on morphological traits did not correspond with the distinction based on molecular data.The results showed that RAPD and ISJ markers were able to distinct two and six-rowed and also hulless and hulled barley genotypes. Distinction of three clusters did not follow the same pattern.There was significant and negative correlation between similarity matrices of molecular data and morphological traits, but similarity matrices of two molecular markers was significantly and positively correlated.
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Volume 4, Issue 1 (9-2017)
Abstract
Chrysanthemum is one of the world's most important cut flower crops. The genetic diversity assessment among present Iranian Chrysanthemum cultivars are needed for future Chrysanthemum breeding programs. In an attempt to reveal the genetic variation and relationship among 30 Chrysanthemum cultivars, some morphological and a chloroplastic gene (rpoC) DNA molecular markers were employed. Chrysanthemum cultivars were cultivated in a Randomized Complete Block design (RCBD) with 3 replications in the field. Meanwhile, a phylogenetic tree was constructed based on chloroplast rpoC gene sequence. Analysis of variance (ANOVA) indicated that a significant variation exists among the Chrysanthemum cultivars for almost all the traits under study. In general, phenotypic coefficient of variation was higher than the genotypic coefficient of variation indicating the predominant role of environment effects. Ward Cluster analysis divided cultivars in two main clusters with highest number of cultivars falling under cluster I. Phylogenetic relationships among Chrysanthemum cultivars based on Maximum likelihood method showed that Iranian cultivars belong to Chrysanthemum morifolium, suggesting that these cultivars have presumably been bred from the same set of parents. Furthermore, genetic distance between cultivars ranged from 0.4 to 2.9, indicating sufficient genetic diversity among cultivars for crossing and selecting the most appropriate parents for Chrysanthemum morifolium breeding programs.
Mitra Shahbazi, Farhad Nazarian-Firouzabadi, Omid Ali Akbarpour,
Volume 5, Issue 1 (9-2018)
Abstract
Chrysanthemum (Chrysanthemum morifolium) is one of the most important ornamental plants which plays a significant role in the development of gardening industry in the world. The knowledge of genetic diversity is one of the prerequisite criteria for Chrysanthemum breeding with important economic goals. Molecular markers have a significant share in elucidation of inter and intra species genetic diversity. To this end, genetic diversity of a number of Iranian cultivars was molecularly investigated by sequencing a part of rDNA, using ITS4 and ITS5 primers. Genetic distance between Chrysanthemum cultivars ranged from 0.05 to 10.15, demonstrating the power of ITS region in revealing the genetic diversity among cultivars of morifolium, suggesting Iranian cultivars have been genetically improved from morifolium species. Genetic diversity assessment of Iranian Chrysanthemum cultivars demonstrated that presumably inter, intra species or even inter population hybridization may have been involved in creating enormous genetic diversity among Chrysanthemum cultivars.
Arash Salami, Mohammadhadi Pahlevani, Khalil Zenalinezhad, Mohsen Esmaeilzadeh Moghaddam,
Volume 5, Issue 1 (9-2018)
Abstract
Collection and conservation of germplasm, particularly for landraces of important agronomically species and organizing their information, cause to continuity of their usefulness and reduce the risk of their genetic erosion. In this experiment, 10 Iranian wheat landraces along with the Chinese Spring cultivar, as control, were used to assess inter and intra populations variation by using ISSR molecular markers and morphological traits. Evaluation of populations in terms of height, spike length, awn length, number of spike nodes, number of grains per spike, flag leaf length and grain weight showed that there were considerable variation among landraces. Also, in some landraces like KhorramAbad and Ardabil, intra population diversity for some of these traits, such as plant height and length of awn, was obvious. Evaluation of the landraces for ISSR markers showed that among 99 scored bands, 78 bands were polymorphic. Percent of polymorphism with mean of 81.88 % was varied from 53.33 for primer of ISSR-4 to 100% for primers of ISSR-9, ISSR-14, ISSR-5 and ISSR-7. Average PIC of the landraces was estimated 3.0. Results of this study showed that there was considerable intra population diversity for the ISSR markers in landraces of KhorramAbad, Maragheh and Torbat-e-Heydarieh however, a little diversity for Khoy, Ahwaz, Isfahan, Mashad, Urmia, Shiraz and Ardabil was observed. Results of this study showed that there is inter and intra genetic diversity within Iranian landraces of wheat with different levels and these landraces can be used as basic population for extraction of pure lines.
Faranak Khanmakoo, Seyed Abolghasem Mohammadi, Robab Salami, Saeed Aharizad,
Volume 5, Issue 2 (3-2019)
Abstract
Fungal diseases, especially leaf and stripe rusts are wheat yield reducing factors in Iran and the world. In this study, genetic diversity of 20 wheat varieties with different response to leaf and stripe rusts were studied using primers designed based on the conserved regions of plant disease resistance genes. The banding patterns of polymorphic markers were scored as dominant and number of amplified bands and percentage of polymorphism were determined. In addition, for each primer combination, polymorphic information content (PIC) and marker index (MI) were calculated. Out of the 11 used single primers and primer combinations, five primer combinations and a single primer produced scorable amplification. The maximum and minimum of PIC were observed for LLOOP-1 and H2016-H2020 primer combination with mean value of 0.50 and 0.28, respectively. The primer combinations of H2016-H1146 and H2016-H2020 with mean values of 4.80 and of 2.84, had minimum and maximum of MI, respectively. Cluster analysis based on Neighbor-Joining algorithm and evolutionary P-distance coefficient assigned the varieties into four groups which were in agreement with their response to yellow rust. In principal coordinate analysis, the scatter plot of varieties based on two first coordinates confirmed the groups obtained from cluster analysis.
Roya Zirak, Ali Soleimani, Mehrshad Zeinolabedini, Hamid Hatami Maleki, Azizolah Kheiri,
Volume 5, Issue 2 (3-2019)
Abstract
Genetic diversity among Russian olive genotypes in three different regions of East-Azerbaijan province (includes Tabriz, Maragheh and Malekan) were assessed using morphological and molecular (AFLP) markers. Results of the quantitative and qualitative traits statistics showed a significant genetic variation among studied germplasm and categorized them in five distinguished groups. The most number of genotypes from Maragheh region were in group 1, while, the group 3 consisted of the majority of genotypes from Tabriz region. All genotypes were analyzed with 14 EcoRI-MseI primer combinations. A total of 439 informative and polymorph AFLP markers was generated and analyzed. Based on Jaccard Similarity Index, the minimum genetic similarity was observed between genotype 19 (from Malekan region) and 27 (from Maragheh). The principal coordinate analysis (PCoA) showed the suitable genomic distribution of AFLP markers among individuals. The highest (0.83 %) and lowest (0.33 %) polymorphic information content achieved by primers combination MTTT-EGA and MGT-ETA, respectively. Cluster analysis using molecular data and UPGMA algorithm, classified the studied genotypes in three distinguished groups. The genotypes at the same geographical region did not classify in the same group based on clustering by molecular data. However, this achieved to a large extent when they were classified groups using morphological traits. This result might be explained in terms of convergent evolution and some in part due to asexual propagation of Russian olive from the limited maternal genotypes and distribution across the different geographical regions.
Mahtab Samadi Gorji, Ali Zaman Mirabadi, Kambiz Forozzan, Mostafa Haghpanah,
Volume 5, Issue 2 (3-2019)
Abstract
This experiment was conducted to evaluate genetic diversity in 72 peanut accessions (Arachis hypogaea L.), which introduced from seed bank of Australia in training and seed production research center of oilseeds company, Iran. Twelve major morphological traits recorded during 2013 growing season using a randomized complete block design with three replications. The results showed that the difference between genotypes for all traits was significant. In addition, coefficient of phenotypic variation was greater than coefficient of genotypic variation for all traits, indicating the effect of environment on recorded traits. The broad-sense heritability ranged from 80.25% (for seed width) to 99.54% (for 100 seed weight) and was 96.85% for grain yield. The highest phenotypic and genotypic coefficients of variation obtained for the pod weight, thus, it is possible to improve this trait by selection method and this trait could use as a selection index to improve grain yield. Genetic correlation indicated a high significant correlation between grain yield with grain weight and pod yield. The studied genotypes divided to four groups by cluster analysis based on Ward method.
Reza Mir Drikvand, Kamran Samiei,
Volume 7, Issue 1 (9-2020)
Abstract
Estimation of genetic diversity and evaluation of plant germplasm is the most important step in collection and management of plant genetic resources. Also, comparison of different DNA-based genetic markers in diversity evaluation and then advising the most efficient markers is very important. In order to investigate genetic variation among Persian oak (Quercus brantii Lindi.) populations of Lorestan province (Iran), 20 genotypes were collected from different geographical and climatic regions. After DNA extraction, polymerase chain reactions (PCR) were used for study of polymorphism using three markers including ISJ, ISSR and SCoT. Genotyping was performed using the polymorphic bands obtained from all three markers separately, and also by combining the data of three markers. PCR results of the primers showed 91 polymorphic bands with an average of 71% per locus. The ISSR marker with 44 bands had the most polymorphic bands. Genotypes were discriminated by ISJ, ISSR and SCoT markers in 5, 6 and 5 groups, respectively, and using the combined data of three markers, genotypes were classified in 5 groups (each group included more than one genotype) and 3 group (each group included one genotype). The results showed that the obtained clustering by different markers were nearly consistent with clustering of genotypes based on the climatic origin of genotypes. The most similarity between the groupings was between ISJ and ISSR markers with 89%. Overall, the results indicated the usefulness of markers used to estimate genetic distances between different oak communities.
Abbas Gholipour, Seyed Kamal Kazemitabar, Sara Sharifi Soltani,
Volume 7, Issue 2 (3-2021)
Abstract
Sweet flag (Acorus calamus) is a perennial, semi-aquatic and aromatic plant of the family Acoraceae that, in addition to its multiple medicinal properties, is used in health, food and agricultural industries (as pest control). This research was conducted to comparasion study of genetic diversity of natural and regenerated plants from tissue culture of Arzefon, Pelesk and Alandan populations of Sweet flag by using ISSR molecular markers. Out of 15 screened primers, 9 primers produced the most polymorphic bands. Totally, these primers generated 83 bands, of which 52 bands (62.65%) were polymorphic. The percentage of polymorphic locus for natural and regenerated plants was 43.37% and 55.42%, respectively, and Nei’s genetic diversity (H) was calculated to be 0.239 for the two studied groups. The Shannon’s index (I) for natural and regenerated plants was estimated to be 0.251 ± 0.033 and 0.299 ± 0.031, respectively. Among the natural and regenerated groups, the highest genetic similarity was observed between the samples of Alandan population (0.63), and the lowest value was observed between the samples of Pelesk population (0.44). Analysis of molecular variance (AMOVA) showed that 94 % of genetic variation attributed to whithin groups and 6 % to between groups. Based on the results, the genetic diversity of the regenerated plants was higher than the natural plants. According to the results of the present research, the lowest rate of genetic divergence was observed between natural and regenerated plants of Alandan populatiuon, so the plants of this population could be suitable for domestication and cultivation in Iran.
Ghasem Eghlima, Azizollah Kheiry, Mohsen Sanikhani, Javad Hadian, Mitra Aelaie,
Volume 8, Issue 1 (8-2021)
Abstract
Twenty-two G. glabra populations were used to study the genetic diversity of ISSR molecular markers. 12 primers were used to amplification of genomic DNA fragments of G. glabra populations. High genetic diversity based on ISSR markers was observed among individuals. A total of 130 bands were formed and 105 bands were polymorphic. The mean polymorphism percentage among studied populations was 80.47. The highest polymorphic percentages were assigned to IS23, IS21, IS9, IS13 and IS15 primers. The mean of PIC and MI were 0.347 and 2.47, respectively. The Shannon index (I) varied between 0.207-0.393 and the Nei genetic variation index (h) from 0.140 to 0.026. Darab and Solataniyeh populations showed the lowest and highest genetic diversity, respectively. The percentage of polymorphic loci was varied between 35.224 to 65.71%. The observe allele number and effective alleles number was 1.46 and 1.34, respectively. Based on the genetic distance Nei, populations Bardsir and Baft had the highest genetic similarity (0.888) and populations Bardsir and Solataniyeh had the least genetic similarity (0.132). The studied populations were grouped into three main groups by cluster analysis using UPGAM and Jaccard's similarity coefficient. The results showed that the ISSR marker is a reliable marker system for revealing a high level of polymorphism and can be used to study genetic diversity and further examinations as a subset of breeding programs in G. glabra.
Fatemeh Raeisi, Leila Fahmideh, Barat Ali Fakheri, Mojtaba Kikhasaber,
Volume 8, Issue 1 (8-2021)
Abstract
Due to the importance of date palm production in Iran, introduction of new cultivars, improvement of current cultivars and studying the genetic diversity among available cultivars is essential for improvement the quantity and quality of date palm production. In this research, 15 different local genotypes of date palm collected from Saravan, Jalgh, Nahook and Sinokan regions of Sistan and Baluchistan province were used for diversity analysis. To this end, DNA was extracted from leaves using Delaporta method and DNA quality and quantity were determined using spectrophotometer and 1% gel electrophoresis. PCR was performed using specific rbcL primers under determined conditions and the amplicons were sequenced. To study the relationships and genetic distances between genotypes, the results of sequencing were analyzed and dendrogram of phylogenetic relationships as well as sequence similarity matrix were generated using Bioedit, and MEGA7 software. The results of the present study showed that there were a total of 553 different residues for this marker of which 505 residues contained deletion and addition, and 48 residues were without deletion and addition. The genetic distance ranged from 0.0 to 0.037 and the highest intra-regional diversity was related to cultivar Jm13_sabzoo. Based on the dendrogram obtained from cluster analysis, the studied cultivars were divided into two branches, in which the first branch contained cultivar Sabzoo from Jalgh region and the other cultivars were grouped in different sub-branches of second branch. Although the rbcL marker is useful for studying and recognizing diversity of intraspecific relationships, a low genetic distance was estimated for the studied date palm genotypes. However, it is suggested that the other DNA barcodes as well the other appropriate molecular markers could be used for future studies of date palm genetic diversity.
Shahla Hosseini, Mohammad Reza Rahgozar, Hedieh Badakhshan,
Volume 8, Issue 2 (3-2022)
Abstract
Genus Allium L. contains very taxonomically complex sections, especially the subgenus Melanocrommyum. The systematic position of the species in each section has been revised many times over time. In the present study, the relationship between 32 ecotypes belonging to 10 different species of Allium was investigated using ISSR markers. The nine primers used produced 166 polymorphic bands (average 18 bands per primer). Among the primers used, ISSR873 primer with 27 bands made the most, and ISSR4 primer with two bands had the lowest polymorphic bands. The PIC of the markers ranged from 0.04 to 0.43. Cluster analysis by UPGMA method based on molecular markers divided the studied ecotypes into four groups. The clustering and principal coordinate analysis results showed that most morphologically similar species were grouped in closed clusters. According to Dice similarity coefficient, the highest percentage of similarity was shown between Allium stipitatum and Allium saralicum ecotypes (72 percent) from the Melanocrommyum subgenus, and the lowest similarity was obtained between Allium tripedale and Allium iranicum ecotypes (12 percent). The ecotypes with the lowest similarity percentage belong to the subgenus Allium and Nectaroscordum, which are placed in separate clusters. Based on the results, the ecotypes of Pseudoprason, Melanocrommyum, and Procerallium sections showed the highest affinity. In general, it can be concluded that ISSR markers are useful for classifying Allium species and have sufficient potential for phylogenetic studies of species. In addition, due to significant genetic diversity among the studied ecotypes of wild Allium species, this diversity can be used in future breeding programs of crop.
Ahmad Kaab Omeyr, Payam Pourmohammadi, Abdolali Gilani, Khalil Alami-Saeid, Mohammad Fakhari,
Volume 8, Issue 2 (3-2022)
Abstract
Various strategies have been developed to reduce water consumption in rice cultivation, including rice cultivation in water-saturated soil, drying and wetting of the soil (periodic irrigation), and aerobic rice cultivation. In this study, in order to identify and grouping rice cultivars suitable for aerobic cultivation, 34 cultivars of native and improved rice cultivars were selected and evaluated. Factor analysis based on principal components analysis based on all traits showed that 6 factors were extracted with special values of more than one. These 6 factors, after the Varimax rotation, justify the 6 main and independent factors, justifying 78.08% of the total variation. In the first harvest, cluster analysis using WARD method, cultivars were grouped into 4 groups, which cluster 3 being the largest cluster. Discriminant analysis of first harvest, showed that all cultivars were grouped correctly. In canonical discriminant the first two canonical functions with eigenvalues greater than one explained a total of 88.9% of the variance. In cluster analysis based on the average of the data obtained from Raton product, genotypes were divided into two different groups. The genotypes of the first group were higher than the genotypes of the second group in terms of yield and yield components and were introduced as superior genotypes. Heritability with genetic improvement for leaf area duration, number of seedling (grown plants), number of spikes per unit area, number of full seeds and degree of maturity showed that these traits can be transferred to hybrid offspring and selections based on these traits are effective.
Alireza Asghari Mirak, Seyed Siamak Alaviakia, Seyed Abolghasem Mohammadi,
Volume 9, Issue 1 (9-2022)
Abstract
Henbane has a high medicinal value due to the presence of hyoscyamine and scopolamine alkaloids. Improving the quality and quantity of henbane alkaloids using modern breeding methods requires evaluating the genetic diversity. The genetic diversity of henbane has been investigated using morphological, biochemical and molecular markers in several studies and the superiority of molecular markers over other markers has been proven. To this end, in 2018, the genetic diversity of 96 henbane genotypes collected from the habitats of northwest Iran was investigated using IRAP and REMAP molecular markers. For IRAP markers, out of 36 possible combinations obtained from eight LTR primers, seven combinations had a fine and scalable amplification. In the REMAP technique, the combination of 11 ISSR primers with eight LTR primers was used, and 12 combinations could be scored out of 88 possible combinations. The average amount of polymorphic information for IRAP and REMAP markers was 0.30 and 0.32, respectively, and the average marker index for these two markers was estimated as 2.59 and 2.47. Based on these criteria, REMAP marker was more efficient than IRAP in estimating the genetic diversity of henbane. In the analysis of molecular variance using IRAP and REMAP markers, intra-population variability was estimated to be higher than inter-population, which indicates the high diversity of these populations in northwestern Iran. Cluster analysis based on IRAP marker failed to separate species and populations, but REMAP marker was able to separate H. pusillus and H. reticulatus species to a high degree. A high shannon index in this research suggests that IRAP and REMAP retrotransposon markers resulted in a high genetic diversity within henbane populations with a high insertion in the genome of henbane populations.
Halime Arbabi, Mojtaba Keykhasaber, Leila Fahmideh, Valiollah Ghasemi Omran,
Volume 9, Issue 2 (3-2023)
Abstract
Luffa (Luffa cylindrica) is a plant from the Cucurbitaceae family that grows mostly in tropical and subtropical regions, as well as in most regions of Iran. In this research, the genetic diversity of nine native and non-native genotypes of L. cylindrica was investigated through the evaluation of the chloroplast trnH-psbA intergenic region (IGS). After sampling the young leaves, DNA extraction was performed by using the Dellaporta method, and PCR was conducted by using IGS intergenic region primers. After sequencing of the amplified products, their quality was determined using Chromas software and then aligned using ClustalW method by BioEdit and MEGA7 softwares. Next, the dendrogram of phylogenic relationships was drawn and the matrix of the difference and similarity of the sequences were determined. In the present research, by analyzing the relationships between studied samples, based on the trnH-psbA (IGS) marker, a strong intraspecies variation was observed in native and non-native L. cylindrical genotypes. The genetic distance matrix between the samples examined in this research ranged from 0 to 6.865 with an overall average distance of 2.53. The average value of synonymous and non-synonymous substitutions (dN/dS) for the IGS sequence was ds/dn = 0.68, which indicates positive and pure line selections in the process of natural selection of studied genotypes. The results of this research showed that trnH-psbA is a suitable marker for evaluation of the intraspecific diversity of luffa species.
Ms Sahar Amiri, Hooman Salari, Alireza Etminan,
Volume 11, Issue 1 (9-2024)
Abstract
Tomato is the second important vegetable in the world. Therefore, disclosure the germplasm variation as a precursor for its breeding is highly valuable. The study was conducted to assess the genetic diversity in a collection of tomato germplasm including previously cultivated cultivars, currently being cultivated and promising tomato lines in Iran. Polymorphism analysis between cultivars was performed via 20 CBDP primers. The primers amplified 406 genomic fragments, of which 215 bands showed polymorphism and the average percentage of polymorphism was 51%. The average index of polymorphic information content (PIC) and resolving power (Rp) were estimated as 0.30 and 4.49, respectively, which indicated the relatively appropriate efficiency of the primers' used. The genetic distance between the pairs of studied cultivars according to the Jaccard Coefficient ranged from 0.16 to 0.54 and its average was estimated as 0.38. The lowest and highest genetic distance were observed in Matin and Sana with a value of 0.16 and Hypeel 303 and 693 with a value of 0.54, respectively. Cluster analysis based on the Jaccard distance coefficient and the Neighbor Joining algorithm divided the cultivars into five groups. It is relatively consistence with the results of the analysis to the principal coordinates which showed that the first two components explained 15.04% of the total changes. In conclusion, this research showed that there is to some extent low genetic diversity among the Tomato's cultivars in Iran, while the primers which used revealed the polymorphism between them competently and separated them thoroughly. Based on the indices calculated to evaluate the efficiency of primers, CBDP18 and CBDP12 primers showed better efficiency in differentiating the studied genotypes. Based on these results, the use of diverse genetic resources and development of new varieties is necessary to mitigate vulnerability and the risk of epidemic disease such as fungal pathogens in tomato cultivation.
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