polymorphic bands
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Author(s):  
Ha Buer ◽  
Sa Rula ◽  
Zi Yuan Wang ◽  
Shu Fang ◽  
Yu´e Bai

AbstractPopulation genetic diversity contributes to the protection and utilization of germplasm resources, especially via genetic breeding. In the present study, start codon targeted polymorphism (SCoT) molecular markers were used to study the genetic diversity of 278 individuals from 10 Prunus sibirica L. populations in Inner Mongolia. A total of 289 polymorphic bands were amplified with 23 SCoT primers, showing a polymorphism percentage of 98.87% and an average of 12.6 polymorphic bands per primer. The SCoT21, SCoT32, and SCoT53 primers amplified up to 17 bands, and the polymorphism percentage was 100%. The minimum number of bands amplified by SCoT25 was 9, and the polymorphism percentage was 90%. Therefore, SCoT molecular markers were shown to be highly polymorphic and suitable for genetic diversity studies of P. sibirica in Inner Mongolia. The analysis of molecular variance showed that 39% of the observed genetic differentiation occurred among populations and 61% occurred within populations, indicating that the genetic differentiation within populations was greater than that among populations. The results of the unweighted pair-group method with an arithmetic cluster analysis, principal coordinate analysis and STRUCTURE analysis were basically the same and divided the 278 individuals from the 10 populations into 2 groups. The results indicated that the efficient SCoT molecular marker-based genetic diversity analysis of P. sibirica in Inner Mongolia can provide a reference for P. sibirica variety breeding and resource development.


2021 ◽  
Vol 886 (1) ◽  
pp. 012017
Author(s):  
M Tuwo ◽  
T Kuswinanti ◽  
A Nasruddin ◽  
E Tambaru

Abstract The typical citrus germplasm collection in South Sulawesi has not been thoroughly characterized, especially in several citrus development centers, which have begun to be promoted again after the decline in productivity due to CVPD infection. The study of citrus diversity is very important to support future citrus breeding programs. Random amplified polymorphic DNA (RAPD) has been widely used for the analysis of genetic diversity among species in populations. In this study, 23 RAPD primers were used on Citrus cultivated in Selayar and Pangkep Regencies, which are citrus development areas in South Sulawesi. A total of 19 primers (OPA-05, OPA-09, OPA-17, OPC-09, OPC-17, OPE-04, OPH-04, OPH-15, OPN-14, 0PN-16, OPR-08, OPR-20, OPW-06, OPW-09, OPX-07, OPX-11, OPX-17, UBC-18, and UBC-51) can form polymorphic bands in randomly selected DNA samples. Monomorphic bands were formed by OPA-12 and OPD-07 primer in 12 samples. The primers OPX-13 and OPX-16 produced unclear bands. These 19 primers can be used to amplify DNA and determine the genetic diversity of Citrus in further analysis.


Author(s):  
Mina Beigmohamadi ◽  
Fatemeh Rahmani ◽  
Leila Mirzaei

Background: Crataegus spp. (Hawthorn) are used for horticultural and medicinal purposes. Objectives: In the present study, the genetic relationships among the five Iranian Crataegus species were evaluated by Inter Simple Sequence Repeats (ISSR) molecular marker Methods: PCR reactions were performed using six primers (811, 827, 834, 845, 856, and 868) and genetic similarity was calculated based on Jacquard’s similarity coefficient. Results: Six primers generated 79 products in total, of which 71 were polymorphic (89.9%), with an average of 13.1 bands per primer. The percentage of polymorphic bands ranged from 77 to 100. Primer 856 produced the highest number of bands, while the lowest was generated by primer 845. The Jacquard’s similarity coefficient, derived from ISSR marker analysis, ranged from 0.164 to 0.337, indicating high genetic variation among Crataegus species in Iran. Conclusion: This study provides important data for identifying species relationships and helps develop plant breeding strategies to improve the medicinal properties of this genus in the future.  


2021 ◽  
Author(s):  
Djshwar Dhahir Lateef ◽  
Kamil Mahmud Mustafa ◽  
Nawroz Abdul-razzak Tahir

Abstract Few attempts have been made in Iraq to investigate the genetic variation in barley accessions using molecular markers. In this context, the objective of this study was to investigate the diversity of 59 accessions of barley using inter simple sequence repeat (ISSR), conserved DNA-derived polymorphism (CDDP), and start codon targeted (SCoT) markers. A total of 391 amplified polymorphic bands were generated using 45 ISSR, 9 CDDP, and 12 SCoT primers that produced 255, 35, and 101 polymorphic bands, respectively. The average values of gene diversity were 0.77, 0.67, and 0.81 for ISSR, CDDP, and SCoT markers, respectively. The mean values of polymorphism information content for ISSR, CDDP, and SCoT markers were 0.74, 0.63, and 0.80 respectively. The discrimination power of the three approaches for assessing allelic diversity in barley accessions was as follows: SCoT > ISSR > CDDP. The barley accessions were classified and clustered into two main groups. Molecular variance analysis revealed 15, 9, and 14% variability among populations with ISSR, CDDP, and SCoT markers, respectively. The mantel test results revealed that the three molecular marker matrices had significant positive relationships. The SCoT markers have the potential to be useful tools for selecting appropriate parents for breeding program.


2021 ◽  
Vol 19 (1) ◽  
pp. 165-173
Author(s):  
Le Van Thuc ◽  
Le Duc Hung ◽  
Le Thi Thuy Linh ◽  
Han Huynh Dien ◽  
Le Thi Bich Thy ◽  
...  

In this study, 12 varieties of statice (Limonium sinuatum L.) were collected from famous flower growing areas (Van Thanh, Thai Phien, Da Thien, Ha Dong and Trai Mat) in Lam Dong. Young foliage of flowering cultivars after 45 days of planting at the experimental site was collected for DNA extraction and genetic correlation analysis using RAPD with 13 random primers. Results showed that out of 145 RAPD bands, there were 133 polymorphic bands (91.72%) and 12 monomorphic bands (8.28%). Of which, the OPB-03 primer has the highest number of amplifiers, which is 17 bands (with 16 polymorphic bands); the genetic difference coefficients ranged from 0.30 to 0.90, mean 0.55. The results of the genetic sequence analysis using NTSYSpc 2.1 showed that 12 varieties of statice were divided into 4 groups: group I consisting of 3 varieties (rose pink, dark pink and pure magenta); Group II including 2 varieties (blue violet and new violet); Group III including 6 varieties (light pink, old violet, new white, old white, light yellow and light violet); Group IV consisting only 1 variety (cadimi yellow). This result is an important database in the conservation of statice genetic resources, as well as provides the necessary information to select mutant breeding of this species in the coming time.


2021 ◽  
Author(s):  
Habuer ◽  
Sarula ◽  
Wang Zi Yuan ◽  
ShuFang ◽  
Bai Yu'e

Abstract Population genetic diversity contributes to the protection and utilization of germplasm resources, especially via genetic breeding. In the present study, start codon targeted polymorphism (SCoT) molecular markers were used to study the genetic diversity of 278 individuals from 10 Prunus sibirica populations in Inner Mongolia. A total of 289 polymorphic bands were amplified with 23 SCoT primers, showing a polymorphism percentage of 97.94% and an average of 12.6 polymorphic bands per primer. The SCoT21, SCoT32, and SCoT53 primers amplified up to 17 bands, and the polymorphism percentage was 100%. The minimum number of bands amplified by SCoT3 was 9, and the polymorphism percentage was 90%. Therefore, SCoT molecular markers were shown to be highly polymorphic and suitable for genetic diversity studies of Prunus sibirica in Inner Mongolia. The analysis of molecular variance (AMOVA) showed that 39% of the observed genetic differentiation occurred among populations and 61% occurred within populations, indicating that the genetic differentiation within populations was greater than that among populations. The results of the unweighted pair-group method with an arithmetic (UPGMA) cluster analysis, principal coordinate analysis (PCoA) and STRUCTURE analysis were basically the same and divided the 278 individuals from the 10 populations into 2 groups. The results indicated that the efficient SCoT molecular marker-based genetic diversity analysis of Prunus sibirica in Inner Mongolia can provide a reference for Prunus sibirica variety breeding and resource development.


2021 ◽  
Vol 16 (7) ◽  
pp. 141-149
Author(s):  
T.G. Ajithkumar ◽  
Mathew Lizzy ◽  
K.N. Sunil Kumar

RAPD analysis was carried out to determine genetic diversity that occurred among the selected accessions of H.elasticus obtained from six different hosts. All together 10 random primers were used for the RAPD assay, of which primer S11 produced 12 amplified bands in which 10 are polymorphic. Primer S9 produced the least number of amplified fragments. 10 primers together resulted in 88 amplified fragments, of which 26 are found to be polymorphic. Considerable polymorphism was shown by 3 primers that can be represented in a descending order S11>S79>S10. Accessions of H.elasticus obtained from Anacardium occidentale and Citrus maxima produced more polymorphic bands with S11. The overall polymorphism obtained in the selected samples of this hemiparasite was 29.54 indicating that genetic similarity was more among these samples rather than genetic diversity.


2021 ◽  
Author(s):  
Mehmet Sütyemez ◽  
selma BOYACI ◽  
Nur Kuscuoglu ◽  
Akide Ozcan ◽  
Sakir Burak Bukucu ◽  
...  

Abstract This research was carried out to reveal the phenological and genetic differences between the S-1/1 walnut genotype and 94 F1 genotypes obtained from this genotype with each other and with the maternal parent. In the phenological observations made, it was observed that bud burst in genotypes took 52 days, leafing 50 days, leaf yellowing 31 days, and defoliation date 27 days. When the maternal parent (S-1/1) and the genotypes were compared, it was found that there was a phenological variation of 75.54 % in budburst, 73.41 % in the leafing, 34.05 % in leaf yellowing, and 93.62 % in defoliation date, while the average variation was 69.15 %. In molecular genetic analyzes, 7 ISSR primers were used to determine genetic variations, as a result, 7 monomorphic and 45 polymorphic bands were obtained, and the rate of polymorphism was found to be 86.53 %. The average number of alleles was calculated to be 7.42. In genotypes, the polymorphism information content (PIC) value varied between 0.48 and 0.95, while the average PIC value was calculated to be 0.73. As a result of cluster analysis, it was seen that genotypes were divided into 2 main clusters and 2 subsets. At the end of the study, it was determined that the S-1/1 walnut genotype and F1 genotypes obtained from this genotype have a significant variation both phenologically and genetically.


Author(s):  
Ine Triana Nuradha ◽  
Ayi Yustiati ◽  
Asep Agus Handaka ◽  
Ibnu Bangkit

This study aims to determine the genetic relationship between four strains of guppy, albino full platinum (AFP), albino german yellow (AGY), top sword (TS) and guppy yellow cobra (GYC) using the RAPD-PCR method. This study used explorative method without experimental design and analyzed by descriptive qualitative and quantitative. The obtained genetic relationship data could be used as data reference for hybridization between strains of guppy fish that have been researched. The research was conducted in October 2020-April 2021. The three fish samples (AFP, TS and GYC) obtained from fish breeder in Cilengkrang-Bandung and AGY sample obtained from fish breeder in Tanggerang-Banten. Based on the results of amplification using OPA-03 primer (AGTCAGCCAC), four strains of guppy fish showed 30 DNA bands that included polymorphic and monomorphic bands. The AFP strains had 19 monomorphic bands, AGY had 21 DNA bands (20 monomorphic bands and one polymorphic bands), TS had 19 DNA bands (17 monomorphic bands and two polymorphic bands) and GYC had 15 DNA bands (14 monomorphic bands and one polymorphic band). Phylogenetic tree analyzed by NTSys program. It is shown between AFP and AGY strains had 95% relationship index, then between TS and GYC strains had 82% relationship index and between AFP-AGY and TS-GYC had 50% relationship index.


2021 ◽  
Vol 117 (1) ◽  
pp. 1
Author(s):  
Eleni SHIFERAW

<p>Gliadins from 25 accessions represented by 350 individual seed samples were analysed by acid-polyacrylamide gel electrophoresis (A-PAGE) with the objective of identifying gliadin band patterns and examine the extent of diversity in <em>Triticum polonicum </em>L. collections from Ethiopia. Seventy polymorphic bands and 68 different patterns were identified. Eighteen different mobility bands and 16 patterns were identified in <em>ω</em>-gliadin region, 22 bands and 20 patterns in <em>γ-</em>gliadin region, 12 bands and 22 patterns in <em>β-</em>gliadin region and 18 bands and 10 patterns in <em>α</em>-gliadin region. The average genetic diversity calculated from the data of the four gliadin zones of the analysed samples was 0.15. The γ region have the highest diversity (H = 0.193), followed by ω regions (H = 0.177) and β region (H = 0.168) and the lowest diversity was observed in α region (H = 0.127). Cluster analysis based on genetic distances resulted in grouping of the analysed accessions in to seven main groups. Though the level of diversity was relatively lower than other tetraploid wheat species from Ethiopia, the findings are indicative of the existence of variation in the collections which can be exploited for wheat improvement.</p>


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