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Showing 7 results for Sohrabi
Seyedeh Zahra Hosseini, Ahmad Ismaili, Seyed Sajad Sohrabi,
Volume 5, Issue 2 (3-2019)
Abstract
Drought is a threaded factor in the world production and application of breeding methods could improve the tolerant and adapted cultivators under drought stress condition. In order to evaluate and determine the stress tolerance indices and identifion of tolerant genotypes to drought stress, 15 safflower genotypes were evaluated in a randomized complete block design with three replications in two conditions (stress and non-stress). Analysis of variance showed significant differences among genotypes for all traits, stress tolerance indices and yield in both conditions. Significant positive correlation was found between grain yield in the stress condition with indicators stress tolerance index, harmonic mean and geometric mean productivity indicating that these indices are suitable criteria for screening drought tolerant genotypes. No significant correlation was observed between Ys with tolerance index and mean productivity, hence they can be discarded as the desirable markers for identifying drought tolerant genotypes. In conclusion, using a graphical approach of three dimensional scatter plots, Principal component analysis and biplot analysis, two tolerant genotype (Syrian and Kino-76) were selected for future programs in stress and non-stress condition.
Seyed Sajad Sohrabi, Seyyed Mohsen Sohrabi, Seyed Karim Mousavi, Mohsen Mohammadi,
Volume 7, Issue 1 (9-2020)
Abstract
Saffron (Crocus sativus L.) is the most valuable and expensive spice in the world. The stigmas of saffron are the source of valuable apocarotenoids such as crocin, picrocrocin and safranal. transcriptomic and expression studies of genes are important steps in investigating of secondary metabolites in plants. One of the important prerequisites for such studies is the existence of reliable and stable reference genes to normalize the expression of other genes. In the present study, eight reference genes were identified and isolated using transcriptome of saffron and their expression stability was evaluated by nonparametric statistics and methods. The results of amplification and sequencing showed accurate identification of eight reference genes Actin, EF1, GAPDH, H3, MDH, TBP, UBC and UBQ. The expression stability evaluation revealed that MDH and UBQ genes had the highest stability among different saffron tissues and TBP had the lowest stability among them. In this study, for first time, eight reference genes were isolated from saffron and their expression stability was evaluated. The reference genes identified in the present study can be used as stable genes to normalize gene expression in transcriptomic and expression studies of saffron plant.
Reza Mir Derikvand, Seyede Sajad Sohrabi, Seyyed Mohsen Sohrabi, Kamran Samiei,
Volume 8, Issue 2 (3-2022)
Abstract
Seyyed Mohsen Sohrabi, Seyed Karim Mousavi,
Volume 9, Issue 2 (3-2023)
Abstract
Chickpea (Cicer arietinum L.) is one of the most important crops in the world. After bean and pea, chickpea is the most important cold season legume. Weeds are one of the most important threats to chickpea production worldwide. Due to the sensitivity of chickpea to herbicides, the majority of herbicides are used pre-emergence and the use of post-emergence herbicides is limited, and therefore weeds cause a significant decrease in chickpea yield. Therefore, herbicide-tolerant chickpea cultivars that have a higher flexibility for post-emergence herbicide application are needed to improve the chickpea yield. In this study, using seed bioassay and PCR method, resistance mechanism of Iranian chickpea cultivars to Pursuit herbicide was investigated. The results showed a significant genotypic and phenotypic variation among Iranian chickpea cultivars for tolerance to the Pursuit herbicide. The results did not show a difference between the target genes of Pursuit herbicide, ALS1 and ALS2, in all investigated cultivars with that of the reference sequences in the GenBank. This proves that the resistance observed in different chickpea cultivars to the herbicide Pursuit is not associated with the target site resistance mechanism and probably follows a non-target resistance mechanism. The superior genotypes of this study (Bivanij, Aksou, Mansour, TDS-Maragheh90-400 and TDS-Maragheh90-358) can be recommended to farmers and also suggested as parents to produce natural herbicide resistant chickpea plants in breeding programs.
Razieh Khadivar, Ahmad Ismaili, Seyed Sajad Sohrabi, Hasan Torabi Podeh,
Volume 9, Issue 2 (3-2023)
Abstract
Drought stress is one of the main environmental factors that affects growth and productivity of crop plants, including lentil. In the course of evolution evolution, crucial genetic regulations mediated by non-coding RNAs (ncRNAs) have emerged in plant in response to drought and other abiotic stresses. In the present study, after identifying lncRNAs within the expression profile of lentil, RNA-seq data and real-time PCR analyses were employed to examine the expression pattern of some of the identified lncRNAs under drought stress. Additionally, psych R package was used to generate the lncRNAs-DEGs co-expression network. A total of 3590 lncRNA sequences were identified in lentils transcriptome. Numerous lncRNAs were co-expressed with genes involved in circadian rhythm regulation, zinc ion response, photosynthetic photoreaction, and ion homeostasis. The LCUL_evgLocus_104392, LCUL_evgLocus_99066 and LCUL_evgLocus_61876 sequences were differentially expressed in response to drought stress. Examining the co-expression of these sequences with differentially expressed genes in response to drought stress, led to the identification of metabolic pathways associated with these sequences. In this study, lncRNA sequences were identified for the first time in lentil, and provided useful insights into the function of lncRNA in plant resistance to drought stress. The lncRNAs-DEGs co-expression network can lead to a better understanding of drought response mechanisms in lentil.
Forough Joudaki, Ahmad Ismaili, Seyed Sajad Sohrabi, Seyedeh Zahra Hosseini, Hadi Ahmadi,
Volume 10, Issue 2 (2-2024)
Abstract
Gall oak (Quercus infectoria) is one of the extraordinary tree species with functional medicinal properties within the oak family. Various studies have confirmed the presence of numerous secondary metabolites with therapeutic properties in this plant. Despite the significance of gall oak, its genetic structure remains elusive. Therefore, unraveling the genetic structure of gall ok may provide valuable insights into its potential applications across diverse industries. MicroRNAs emerge as pivotal genetic elements implicated in the biosynthesis of crucial metabolites across a wide range of different plant species. Despite the significant role of miRNAs in plants, as of yet, no miRNAs have been reported in Q. infectoria.. Therefore, in the present study, after assembling the transcriptome of Q. infectoria, the conserved microRNAs were identified. Leaf and root samples of Q. infectoria were collected from trees in the Shineh region, and 2-year-old seedlings were grown from mature oaks in Khorramabad (Lorestan Province, Iran). Total RNA was extracted from roots and leaves using the Djami-Tchatchou method. After sequencing by the Illumina HiSeq 2500 platform and checking the quality of all the generated reads, the adapter sequences were removed, and the high-quality reads were assembled using Trinity package. To identify miRNAs and their target genes, all plant miRNAs sequences were downloaded from the miRbase database. The BLASTn algorithm was employed to identify the highest similarity between unigenes and mature plant miRNAs. Furthermore, BLASTx was used to search against the non-redundant proteins (NR) database to remove protein-coding unigenes. The investigation of miRNA second-structure prediction involved assessing the similarity between potential unigenes and mature miRNA sequences using the mfold web tool. Identification of miRNA target genes and gene ontology (GO) was performed using the psRNAtarget web-tool and OmicsBox software, respectively. Following a range of strict filtering criteria, four miRNAs belonging to conserved miRNAs families were identified, including qin-miR156, qin-miR399, qin-miR160, and qin-miR172. KEGG pathway analysis showed the target genes were involved in the citrate cycle pathway. Examining miRNA target genes in Q. infectoria and analyzing their interaction network, finally led to the identification of three hub genes. Identified miRNA target genes were associated with the biosynthesis of various enzyme groups, suggesting that most of miRNAs regulating hydrolases, transferases, and oxidoreductases. Given the role of microRNAs in regulating transcription factors and their impact on genes involved in secondary metabolite biosynthesis, future breeding programs in Q. infectoria may benefit from the potential of such regulatory elements as a guide and key.
Fatemeh Hatami, Farhad Nazarian-Firouzabadi, Seyed Sajad Sohrabi, Mitra Khademi,
Volume 11, Issue 1 (9-2024)
Abstract
Saffron (Crocus sativus L.) is not only one of the most expensive food products in Iran and the world but also holds a special place among Iran's export and industrial products. Since saffron is propagated only through corms, preventing the contamination of corms as “seed” with devastating pathogens is crucial to maintaining the quality and yield of the saffron. Hence, investigating the genetic mechanisms associated with the response of the saffron plant to fungal pathogens such as fusarium wilt rot (Fusarium oxysporum) is of great importance. Given that plants express a wide range of resistance genes to defend themselves, the role of genes related to the PTI (Pattern-Triggered Immunity) pathway, such as those in the LysM-RLK family, is crucial in pathogen resistance. Therefore, studying the transcriptome of saffron corms infected with the pathogen Fusarium oxysporum is important for identifying and investigating the genes belonging to the RLP and RLK gene families. Plants express a wide range of resistance genes to respond to pathogens attacks. Among different gene families associated with PTI pathway, the LysM-RLK family plays an important role in resistance to pathogens. Therefore, in this study, the transcriptome of saffron corms infected with the Fusarium oxysporum was studied to identify and investigate the genes belonging to the RLP and RLK gene families. According to the results of this study, a total of 45 genes encoding PTI pathway receptors were identified in the saffron transcriptome, with 40 sequences belonging to the RLP (Receptor-like proteins) family and 5 sequences to the RLK (Receptor-like kinases) family. The expression analysis of some main RLP and RLK family members showed that the highest expression was related to the sequences of Contig 41583 (RLP) and Contig 61879 (RLK) in the saffron stigma and corms, respectively. Furthermore, the expression of the selected genes in the infected corms significantly increased compared to the control healthy corm. Additionally, the expression levels of the target genes (Contig 41583 and Contig 61879) assessed using qRT-PCR indicated higher expression in corms 72 hours post-infection compared to 48 hours post-inoculation. These results suggest that RLK proteins play a crucial role in the interaction between saffron and the pathogen, particularly due to the presence of the LysM motif. Since LysM motif binds to chitin oligomers of fungal cell walls of certain fungi and oomycetes, it triggers plant immune responses. Overall, the findings of this study are significant for understanding the specific nature of the plant-pathogen relationship and can contribute to insights into the PTI immune pathway.
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