Molecular marker

Open Access Article

1 - Morphometric and phylogenetic relationship of Arum L. in Iran
Leila Joudi

Objectives: In this research Arum species investigated based on molecular and morphological traits in order to new classification from Iran. Material and Methods: Plant materials were collected from nature or were prepared from herbarium. Statistical analysis was perfor More

Objectives: In this research Arum species investigated based on molecular and morphological traits in order to new classification from Iran. Material and Methods: Plant materials were collected from nature or were prepared from herbarium. Statistical analysis was performed on morphological characters of Arum L. species. 29 qualitative and quantitative morphological characters were evaluated. trnL-F as plastid marker is widely used to infer phylogenetic relationships. Phylogenetic analyses were conducted by the Bayesian inference and maximum Parsimony methods. Results: Cluster analyses by ward method were classified the studied species based on morphological traits in three clusters. ClusterI included A. giganteum. ClusterII had A. conophaloides and A. viresence. ClusterIII divided in two groups: A. maculatum, A. kotschyi and A. korolkowii. Dendrogram of relationships was constructed by UPGMA, demonstrated four main clusters. A. maculatum and A. giganteum placed in separated clades. ClusterIII include two subclades: SubcladeI: A. conophaloides and subcladeII: A. virescence, A. korolkowii and A. kotschyi. Cladistics analysis of phylogenetic relationships indicated that all species constituted monophyletic group within Arae clade. A. maculatum was separated in different place. A. kotschyi and A. korolkowii with A. rupicola from gene bank were introduced as sister groups. Arum virescens, A. conophaloides and A. giganteum were separated from A. ruoicola. In general, the morphological and molecular results are consistent.     Manuscript profile

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2 - Greenhouse and molecular evaluation of resistance of Iranian bean cultivars to Fusarium oxysporum f.sp. phaseoli, the causal agent of Fusarium wilt
Ehsan Hasanvand seddiqe mohammadi

Fusarium wilt (yellow) that caused by the fungus Fusarium oxysporum f. sp. phaseoli, is an important disease and can cause severe damage to bean products world wide and cause reduced functional. Since farming techniques to control the disease is not completely effective More

Fusarium wilt (yellow) that caused by the fungus Fusarium oxysporum f. sp. phaseoli, is an important disease and can cause severe damage to bean products world wide and cause reduced functional. Since farming techniques to control the disease is not completely effective, cultivars with genetic resistance to the disease are recommended. In order to identify resistant cultivars experiment in that randomized complete block design with three replications and 12 trkeatments, including different cultivars of beans. By method at a concentration suspension inoculation of root drench were inoculated. In root drench method suspension spores of pathogen because of healthy roots a lower percentage of spores could penetrating in roots. So it was far less severe symptoms and can say all cultivars has same statistical group and were resistant and infected cultivars tolerant. Considering the fact that the disease causes yellowing and wilting the factors concentration of chlorophyll a, chlorophyll b, and carotenoid concentrations and chlorophyll total concentrations were measured with evaluating resistant and tolerant cultivars were identified. Accordingly, cultivars Sayad and E9 respectively than other cultivars showed more resistant to the disease. Then the reaction is different bean cultivars to fungal F. oxysporum f.sp. phaseoli were evaluated using specific marker SCAR. According to cultivars Akhtar, Naz, Sadri, Sayad, E9 and WA with primer pairs SU20 have a band of 750 bp and A55 are resistant gene but cultivars Talash, Shekofa, Jegari, Aje, Khomeyn and capsules with specific primer pairs SU20 did not produce band. Manuscript profile

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3 - Identification of Fusarium root rot from Tuberose (Polianthes tuberosa L.) in Dezful region and determination of genetic diversity of dominant species based on RAPD analysis and VCG groups
Vida Mahinpoo Reza Farokhi Nejad Hamid Rajabi Memari Zaynab Bahmani

In this study, Fusarium root rot from Tubers in Dezful (Khuzestan, Iran) were identified and genetic diversity of domnnat species was determined. Root Associated fungi were isolated using common isolation technique in laboratory. Collectively 143 isolates of fungi inclu More

In this study, Fusarium root rot from Tubers in Dezful (Khuzestan, Iran) were identified and genetic diversity of domnnat species was determined. Root Associated fungi were isolated using common isolation technique in laboratory. Collectively 143 isolates of fungi including 110, 27, and 6 at 4 species of Fusarium oxysporum, F. solani, F.equiseti were recovered and identified respectively. Genetic diversity of the population of F.oxysporum was determined using VCG and RAPD techniques. For VCG method, 45 isolates of fungus were selected randomly. Then nit mutant were generated on MMC and Czapeck media each containing 3% KClO3. Phenotypic classes of nit mutants were determined according of the growth types on basal medium containing one of four nitrogen sources (Nitrate, Nitrate, Hypoxanthine, and Ammonium). From recovered nits, 301, 171, and 45 were nit 1, nit 3 and nit M respectively. Complementation test was conducted among different nit mutant of different isolates in all combinations. Results revealed that all isolates were placed into 4 VCG groups, the largest one containing 28 and the rest containing 10, 3 and 4 isolates respectively. In addition, genetic diversity of theses isolates was studied using thirteen primers. Cluster analysis of RAPD data was done using UPGMA, Single and Complete methods. The best results obtained by UPGMA and dice coefficient, which distinguished six main groups at 61% similarity level. In this grouping, group I, III and VI had 2 members each, group II had 12 members. Ten of that belonging to VCG a and groups IV and V had one member each. No close relation was observed between VCG and RAPD method results. Pathogenicity test that was conducted using selected isolates of different VCGs revealed that all were pathogenic to plant. This research is first report of genetic diversity of F. oxysporum on Tuberose in Iran. Manuscript profile

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4 - Evaluation of genetic diversity in indigenous breeds of Iranian silkworm Bombyx mori using ISSR markers
M. Zarei E. Sanatgar R. Radjabi H. Shouhani M. Ibrahim Ghaleh Seyedi

ISSR molecular marker, in order to isolate the Iranian native Bombyx mori silkworm breeds were used. Extracted DNA by using phenol-chloroform was performed. The qualitative and quantitative measurements of extracted DNA and its dilution, was obtained from the bands on 1 More

ISSR molecular marker, in order to isolate the Iranian native Bombyx mori silkworm breeds were used. Extracted DNA by using phenol-chloroform was performed. The qualitative and quantitative measurements of extracted DNA and its dilution, was obtained from the bands on 1.5% agarose gel and they marked and analyzed. The results showed that the observed bands were between 200-1000 bp and the most bands were observed corresponding to Harati-yellow with 32 bands and Khorasani-lemon had their lowest with 25 bands. Second Primers were the highest number of bands with 43 bands and the fourth primer had the lowest number of bands with 30 bands. Cluster analysis of races, placed them in three main groups. The first groups consisted of Gilani-orange, Harati-yellow and Khorasani-pink, Khorasani-lemon and Baghdadi races placed in seprate groups. In cluster analysis, Gilani-orange showed the most similar to Herati-yellow and this two races with khorasani-pink were the first group. The most genetic similarity were between Gilani-orange and Herati–yellow and the most genetic distance was obtained between Baghdadi and other four races. It is concluded that, ISSR marker can seperate different races of silkworm with different origin very well.there fore to approve the it is suitalle to use more than more than 30 primer for 14 silkworm individuals with 2n= 28 is better. Manuscript profile

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5 - Evaluation of Genetic Diversity in Some of Canola Cultivars (Brassica napus L.) Using Morphological-agronomic and RAPD Molecular Markers
Mansoor Saljooghianpour SeyyedMahdi Javadzadeh Mohsen Mohseni

10.30495/sarj.2022.1965986.1086

In order to investigate the genetic diversity of canola cultivars, an experiment was conducted in the form of randomized complete blocks with 9 rapeseed cultivars in 3 replications in Iranshahr region. After culture, DNA extraction was done using CTAB or Dellaporta meth More

In order to investigate the genetic diversity of canola cultivars, an experiment was conducted in the form of randomized complete blocks with 9 rapeseed cultivars in 3 replications in Iranshahr region. After culture, DNA extraction was done using CTAB or Dellaporta method with some modifications and 6 pairs of RAPD primers were used for amplification. Also, at the end of the growing season, traits such as plant height, plant fresh weight, plant dry weight, yield and seed oil percentage were measured.The results of the analysis of variance showed that the cultivars have a significant difference at the 1% probability level. Also, there was a positive and significant correlation between the studied traits. Cluster analysis of morphological-agronomical data of rapeseed cultivars in four main groups and cluster analysis of molecular data of rapeseed cultivars in three main groups. Cultivars placed in each group have more genomic similarity and cultivars placed in different groups have more genetic differences. In the analysis of the main coordinates of the molecular data, the first two components could not include all the information obtained, so this information indicates the wide distribution of these markers on the rapeseed genome and can cover a wide area of it. The results of this research showed that according to the diversity observed in the cultivars and based on the results of the grouping of genotypes, it is possible to select genotypes from groups that have a greater genetic distance from each other and use them for specific breeding purposes. Manuscript profile

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6 - آنالیز توالی های تکراری ساده مشتق شده از توالی های بیان شده برچسب دار در شتر تک کوهانه
ا. برازنده م. مختاری م. مقبلی دامنه ز. رودباری

هدف از تحقیق حاضر بررسی ویژگی های توالی های تکراری ساده مشتق شده از توالی های بیان شده برچسب دار (نشانگرهای EST-SSR) در شتر تک کوهانه و همچنین تجزیه و تحلیل عملکردی این نشانگرها جهت استفاده در مطالعات مولکولی و ژنومی بود. از 17155 توالی EST More

هدف از تحقیق حاضر بررسی ویژگی های توالی های تکراری ساده مشتق شده از توالی های بیان شده برچسب دار (نشانگرهای EST-SSR) در شتر تک کوهانه و همچنین تجزیه و تحلیل عملکردی این نشانگرها جهت استفاده در مطالعات مولکولی و ژنومی بود. از 17155 توالی EST با استفاده از نرم افزارSSR Locator  تعداد 862 توالی تکراری ساده (SSRs) بدست آمد. به طورکلی تعداد 827 توالی EST دارای SSR بوده که 794 (96 درصد)، 31 (8/3 درصد) و 2 (2/0 درصد) تا از آنها به ترتیب حاوی 1، 2 و 3 توالی SSR بودند. موتیفهای دایمری فراوانترین نوع SSR بودند و پس از آنها به ترتیب موتیفهای تری، هگزا، تترا و پنتامری با 27.15، 21.46، 6.96 و 5.57 درصد قرار گرفتند. فراوانترین موتیف های دایمر، تریمر، تترامر، پنتامر و هگزامر به ترتیب AC/TG  (54 درصد)، GCC/GGC (19.2 درصد)، TTTA (13.3 درصد)، AAAAG (10.4 درصد) و AACCAC (67.6 درصد) بودند. نشانگرهای EST-SSR نهایی با استفاده از BLASTX بررسی شدند. تقریباً اکثر این نشانگرها در فرایندهای کاتابولیک ماکرومولکول ها و پردازش و اسپلایسینگ RNA مشارکت داشتند. میتوان از نشانگرهای EST-SSR به عنوان نشانگرهای جدید مفید در بررسیهای بیولوژیکی استفاده نمود. همچنین این نشانگرها یک منبع ارزشمند جهت مطالعات مولکولی و ژنومی شتر و گونه های مرتبط با آن هستند. Manuscript profile

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7 - Comparative Expression Analysis of Spermatogonial Stem Cell Markers in Cattle and Sheep
F. Nasri Ahangar M. Zandi M.R. Sanjabi A. Ghaedrahmati

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8 - Genetic Diversity of Agropyron pectiniforme by Morphological Traits and RAPD Markers
Ali Ashraf Jafari Soheila Afkar Meysam Faraji

10.30495/ijpp.2021.682500

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9 - Assessment of tomato genotypes resistance to Verticillium and Fusarium wilt diseases using molecular markers
Bahareh Morid Shahab Haj Mansour

Background & Objectives: Fusarium and Verticillium wilts are two major fungal wilt diseases of tomato that have restricted its production worldwide. Culturing resistant tomato cultivars is the best way to control such diseases. Molecular markers linked to resistance More

Background & Objectives: Fusarium and Verticillium wilts are two major fungal wilt diseases of tomato that have restricted its production worldwide. Culturing resistant tomato cultivars is the best way to control such diseases. Molecular markers linked to resistance genes would be useful for improving tomato breeding programs. In this study allele, specific markers and cleaved amplified polymorphic sequences (CAPS) markers were used to identify tomato genotypes that are resistant to Verticillium wilt and Fusarium wilt, respectively. Materials & Methods: This cross-sectional study was carried out on 32 tomato hybrids and commercial varieties provided from Falat company. DNA was extracted using cetyl-trimethyl ammonium bromide (CTAB) method. Then, polymerase chain reaction (PCR) was performed using molecular markers. To detect Fusarium wilt resistant varieties, PCR-RFLP was down using RsaI and FokI restriction enzymes. The results were confirmed by pathogenicity test. Results: Out of 35 tomato genotypes, 83% were resistant to Verticillium wilt, while 17% were sensitive. Also, 46% of genotypes were resistant to Fusarium wilt, while 54% were sensitive. Genotypes that showed resistance to Verticillium and Fusarium wilts possessed Ve1 and I-2 genes, respectively. Conclusion: Planting resistant genotypes in infected areas can control fungal diseases such as Verticillium and Fusarium wilts, without using any fungicides. Manuscript profile

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10 - Identification of resistant eggplant cultivars to Fusarium oxysporum f. sp. melongenae, the causal agent of fusarium wilt using molecular markers in Iran
Negin Safikhani Bahar Morid Hamid reza Zamanizadeh Shahab Hajmansoor

Background & Objectives: Eggplant fusarium wiltis an important factor of yield reduction throughout the world. The ability of this pathogen to survive for several consecutive years within the soil, even in the absence of the host, has made it difficult to control. P More

Background & Objectives: Eggplant fusarium wiltis an important factor of yield reduction throughout the world. The ability of this pathogen to survive for several consecutive years within the soil, even in the absence of the host, has made it difficult to control. Producing and using the resistant cultivar is the most effective and suitable method to control this disease. This study was aimed to identify fusarium wilt resistant eggplant cultivars.   Materials & Methods: First, leaf samples of domestic and hybrid eggplant cultivars were gathered from 28 provinces in Iran and then DNA extraction from young leaves of the cultivars was carried out using CTAB method. Four markers including CAPS, RAPD, SRAP, and SCAR were used to determine the resistant cultivars. In order to confirm the results, resistance and sensitivity of the genotypes were assessed in greenhouse conditions, as well.   Results: Out of 20 genotypes of this study, 13  showed index resistance band using CAPS, RAPD, and SRAP of molecular markers. On the other hand, the SCAR marker could not separate the resistant cultivars from the sensitive ones. Phenotype assessment of native and hybrids resistant cultivars in greenhouse condition confirmed the results of the molecular analysis.   Conclusion: In general, the use of resistant cultivars obtained in this study using molecular markers is recommended for planting in areas with fusarium wilt disease. Manuscript profile

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11 - Genetic diversity investigation of different grape varieties (Vitis vinifera) using ISSR molecular marker
A. Khalkhali Hossein abbaspour

Grapes is one of the most important horticultural products in the world and Iran and has a wide gnetic diversity, so the purpose of this research was to investigate of the genetic diversity and to asses of introduced grapes cultivars (Vitis vinifera) at the molecular le More

Grapes is one of the most important horticultural products in the world and Iran and has a wide gnetic diversity, so the purpose of this research was to investigate of the genetic diversity and to asses of introduced grapes cultivars (Vitis vinifera) at the molecular level using ISSR marker. For DNA extraction, it was used modified method of Doyle and Doyle and at the next step, 12 genotypes were examined by 12 primers. Cluster analysis was performed by PopGen32 and SPSS9 softwares. The resulted clustering were divided cultivars into 5 groups by both softwares. In analyzing data, the percentage of polymorphism and the number of polymorphic loci were obtained 96.49 percent and 55 respectively. Cophenetic coefficient is 0.8 for Jaccard coefficient and straw, is indicating a fine fit between the dendrogram and the main similarity matrix. The bands that were Obviously visible were reviewed. Results showed that 353 bands were generated by the markers totally. The size of bands was various between 200 and 3000 bp. The highest similarity was 0.619 for number one (sabz Shah Pasand) and number 7 (currants Khalili Ghouchan) varieties and the least one was 0.205 for number10 (Pir Golli 2) and number 2 (Kashmar Mall) varieties. Because the most amount of bond were observed by primer a (56 bands), this primers was able to determine the genetic gap of Primerrelated varieties better than other primers. Manuscript profile

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