Molecular Phsoiology
Shima Jamalirad; Mohammad Reza Azimi; Nayer Azam KhoshKholgh Sima; Mohammad Reza Ghaffari
Abstract
Suaeda salsa is an annual halophyte with nutritional value and high salt tolerance, making it crucial as an oil, medicinal, and edible plant. Currently, there is limited research in the field investigating metabolic diversity in S. salsa. In this study, our aim was to understand the salinity tolerance ...
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Suaeda salsa is an annual halophyte with nutritional value and high salt tolerance, making it crucial as an oil, medicinal, and edible plant. Currently, there is limited research in the field investigating metabolic diversity in S. salsa. In this study, our aim was to understand the salinity tolerance mechanism by examining metabolic diversity, specifically the amino acids profile, in S. salsa exposed to 0 mM, 200 mM, and 800 mM NaCl. The results of the physiological study indicated that salinity significantly affected the sodium (Na+) content in the aerial parts of the plant, with a significant increase compared to the control. Principal component analysis (PCA) revealed that differences in metabolic diversity can explain 96% of the phenotypic variation in S. salsa under salinity stress. Comparison of amino acids profiles at different salinity levels showed the highest accumulation of proline, methionine, citrulline, and lysine under 800 mM salt stress. Given the crucial role of these amino acids in S. Salsa,further studies are necessary to uncover the mechanisms behind the adaptation response.
Biotic and Abiotic stress
Mehraneh Taslimi; Atefeh Sabouri; Amin Abedi
Abstract
Drought is one of the most important limiting factors for economic produce crops especially rice in the world. In order to identify related markers to yield and agronomic traits under drought stress condition, 40 recombinant inbred lines F9 (RILs) derived from IR28 and Shah-Pasand varieties evaluated ...
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Drought is one of the most important limiting factors for economic produce crops especially rice in the world. In order to identify related markers to yield and agronomic traits under drought stress condition, 40 recombinant inbred lines F9 (RILs) derived from IR28 and Shah-Pasand varieties evaluated at Rice Research Institute of Iran (Rasht) in the spring and summer 2018, as randomized block design with three replications. In this regard, 110 SSR and EST-SSR markers were assessed on parents of population and identified 41 markers had proper polymorphism between two parents. According to the regression analysis results, 24 and 22 significant markers identified under normal and drought stress conditions respectively. The maximum adjusted (R2) under normal and drought stress conditions were assigned to RM3496 linked to days to flowering (24.8%) and RMES6-1 linked to panicle exsertion (28.1%), respectively. Two markers RM211 and RM6697 had the most number of significant relationship with different traits including panicle length, flag leaf length, number of filled grains per panicle, the total number of grain per panicle, and weight of filled grain per panicle under non-stress and drought stress conditions respectively. According to the bioinformatics searches, the maximum gene expression pattern under drought stress condition was related to gene with accession code LOC_Os01g43370. The identified informative markers and the detected genes by bioinformatics approaches after validation can be utilized in marker assisted-selection (MAS) or gene transfer approaches for improving rice yield and tolerance to drought stress.
Bioinformatics
Parisa Ramezanpoor; Hamid Najafi Zarini; Hamidreza Hashemi; Gholamali Ranjbar
Abstract
Zincfinger CCCH (C3HZNF) genes encode proteins with three cysteines and one histidine. The proteins of this family are an important group of zinc finger transcription factors that are effective in various activities such as plant growth and response to biotic and abiotic stresses and actually They are ...
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Zincfinger CCCH (C3HZNF) genes encode proteins with three cysteines and one histidine. The proteins of this family are an important group of zinc finger transcription factors that are effective in various activities such as plant growth and response to biotic and abiotic stresses and actually They are effective in stresses tolarance. In this article, C3HZNF protein data of Arabidopsis and rice plants were used to analyze phylogenetic relationships, exon/intron structure, motifs/domains organization. These studies showed the high homology of these genes with CCCH genes in rice. Analysis of the gene structure showed that AtC3Hs have a variable number of exons, but in general, genes with 1 and 7 exons contain the largest number. study the physical and chemical properties of this family showed that AtC3H36 is the most stable protein among the members of this family, and the highest isoelectric point belongs to the AtC3H7(9.96) protein. The observations showed that the members of this gene family have 1 to 6 Znf C3H domains and a total of 17 functional domains. Phylogeny comparison between C3H proteins in rice and Arabidopsis showed that these proteins are highly conserved. In the comparative phylogenetic analysis of AtC3H and OsC3H, the orthologous genes were placed in one group. For example, OsC3H8 showed close homology to HUA1 in Arabidopsis (AtC3H37), suggesting that this gene is involved in flower development. This study provides valuable information about the important CCCH zinc finger gene family in Arabidopsis and rice. This information can be helpful in understanding how these genes work to help plant tolarance when faced with biotic and abiotic stresses.
Bioinformatics
Mozhdeh Arab; Hamid Najafi Zarrini; Ghorbanali Nematzadeh; Seyyed Hamidreza Hashemi-petroudi
Abstract
The calcineurin B-like protein (CBL) is an essential calcium sensor that plays a crucial role in plant growth, development and stress responses. The identification of a cis-acting element in the promoter region of the CBL gene family in three plants, including Oryza sativa (OsCBL), Arabidopsis thaliana ...
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The calcineurin B-like protein (CBL) is an essential calcium sensor that plays a crucial role in plant growth, development and stress responses. The identification of a cis-acting element in the promoter region of the CBL gene family in three plants, including Oryza sativa (OsCBL), Arabidopsis thaliana (AtCBL), and Arabidopsis littoralis (AtCBL), was investigated because of their importance and involvement in signal transduction under abiotic and biological stresses. Sub-cellular localization of 10 AtCBL, 10 OsCBL and six AlCBL genes showed that AtCBL4, AtCBL10, AlCBL4.2, AlCBL4.3 and AlCBL10 proteins were located in the plasma membrane. 26 CBLs were identified and grouped into two major groups based on their orthologous relatedness in the phylogenetic tree. According to a comparative analysis of the gene structure of the CBLs gene family, about 66 percent of AlCBL genes, 60 percent of AtCBL genes, and 80 percent of OsCBL genes had eight exons and seven introns. Cis-regulatory elements were identified and grouped into eight distinct classes. The ABRE, ARE, GC motif, MBS, DRE, STRE, and LTR motifs were essential stress-related elements. Different regulatory mechanisms in the promoter region of AtCBLs are responsible for their distinct expression patterns, which are regulated by numerous tissue-specific and stress-specific cis-elements. The functional analysis of AlCBL4.2 (which contains six as-1 motifs) will provide useful information about this gene's regulatory processes due to its tissue-specific and enhancer feature of as-1 motif.
Genomics
Parisa Daryani; Hadi Darzi Ramandi; Sara Dezhsetan; Zahra-Sadat Shobbar
Abstract
The root system architecture and the related traits are important factors for moisture uptake from deep soils. Information on QTLs controlling rice root system architecture was collected from the related papers and databases. A genome-wide meta-analysis was conducted on the QTLs using data from 28 independent ...
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The root system architecture and the related traits are important factors for moisture uptake from deep soils. Information on QTLs controlling rice root system architecture was collected from the related papers and databases. A genome-wide meta-analysis was conducted on the QTLs using data from 28 independent QTL mapping studies in 38 different rice populations. Among the 312 QTL regions that were mapped on the reference genetic map, 84 and 228 QTL regions were identified under normal moisture conditions and drought stress, respectively. After projection and displaying the QTLs on the reference consensus map, the meta-QTL analysis was performed using BioMercator software version 4.2. A total of 69 significant MQTLs regions were detected on the 12 rice chromosomes. The identified meta-QTL regions included 5-32 initial QTLs and reflecting multiple QTLs for 3-5 traits associated with root architecture. After evaluating the confidence intervals and the number of initial QTLs for each meta-QTL region, 23 meta-QTL regions were selected as the most important ones and the genes located in the MQTL regions were identified. WRKY, ARF, IAA, EXPA, WOX, HOX, YUCCA, RHL and NAC were among the important candidate genes involved in rice root system architecture, which were located in the MQTL regions. Interestingly, 60 MQTLs were co-located with SNP peak positions reported in rice genome-wide association studies (GWAS) for root morphological traits. The promising candidate genes and MQTLs can be used for genetic engineering and MQTL-assisted breeding of root traits to improve yield potential, stability and efficiency in water deficit environments for rice.
Medicinal plant Biotechnology
Mahdieh Shojaee; Razieh Sarabadani
Abstract
Inflammation is a natural response of the body’s immune system to disease, protecting the body in the form of a defensive mechanism. The immune system identifies the damaged body cells, stimuli, and pathogens to trigger the healing process – a mechanism that can engage the body with inflammation. ...
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Inflammation is a natural response of the body’s immune system to disease, protecting the body in the form of a defensive mechanism. The immune system identifies the damaged body cells, stimuli, and pathogens to trigger the healing process – a mechanism that can engage the body with inflammation. In some cases, too long inflammation and excessive immune responses led to side effects and damages that dominate their benefits, leading to chronic inflammation and then engagement with different diseases. In the present research, effect of the broccoli sprouts extract on the expression of the NF-κB and STAT3 genes affecting the inflammatory response pathway of immune system was investigated. Results of gas chromatography – mass spectroscopy (GC-MS) and MTT assay confirmed the presence of the sulforaphane in the extract while rejecting their toxicity to cell lines. Moreover, the GAPDH and β-actin genes were used as internal control genes in the 1321N1 neural cell line, with the HFF cell line used as normal cell. The cells were treated with 2 mg of the extract for 3 days, during which time the changes in the immune system in terms of the genes expressions were monitored. The results showed that the sulforaphane attenuate the expressions of the NF-κB and STAT3 genes as two of the most important inflammatory mediating genes. It seems that the use of sulforaphane as active ingredient can effectively attenuate the cause of the disorders faced by the patients with immune system inflammation.
Biotic and Abiotic stress
Zahra Hajibarat; Abbas Saidi; Ahmad Mosuapour Gorji; Mehrshad Zeinalabedini; Mohammad reza Ghaffari; Rahim Ahmadvand
Abstract
Potato virus Y (PVY) and Potato virus X (PVX) are the most important potato-infecting agent causing yield loss and tuber quality reduction. In this study, an experiment was conducted in Karaj, Iran, to investigate the effects of mentioned viruses on the yield and resistance level of 33 potato genotypes. ...
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Potato virus Y (PVY) and Potato virus X (PVX) are the most important potato-infecting agent causing yield loss and tuber quality reduction. In this study, an experiment was conducted in Karaj, Iran, to investigate the effects of mentioned viruses on the yield and resistance level of 33 potato genotypes. The experiment was performed based on randomized complete design in factorial format under two levels viruses with three replications. The results revealed that the viral infection had a significant impact on mean yield, seed yield (tuber size 35-55), ware yield (tuber size > 55 mm), and non-marketable yield (tuber size< 35). Based on cluster analysis for PVY, cluster VII was considered maximum resistant genotypes to PVY in terms mean absorption and yield, while cluster VI was identified susceptible genotypes in to PVY. According to cluster analysis of PVX virus, cluster I was considered highest resistant genotypes in terms mean absorption and yield and cluster III were maximum susceptible genotypes to PVX infection. Results of this study showed that genotype G23 with a mean-absorption of 0.01 and 0.032 for PVY and PVX, respectively, and mean yield of 4.1 kg/m2 was considered as a highly resistant genotype to both viruses. The concurrent selection of genotypes for high yield and resistant to both viruses (PVX and PVY) can facilitate potato breeding programs.
Medicinal plant Biotechnology
Leila Akbari; Mehdi Kakaei
Abstract
The most valuable products obtained from the (Peganum Harmala L.) are phenolic compounds and other biochemical contents, which widely is used in treating of many diseases. This study has been done with the goal of evaluating the effect of different habitats on some biochemical and physiological parameters ...
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The most valuable products obtained from the (Peganum Harmala L.) are phenolic compounds and other biochemical contents, which widely is used in treating of many diseases. This study has been done with the goal of evaluating the effect of different habitats on some biochemical and physiological parameters in pecan plant. First, the samples were identified and collected simultaneously in the four studied habitats. A factorial experiment with a completely randomized design with three replications was conducted in the central laboratory of Razi University in 2023. The results showed that, traits has been showed, that there is a significant difference between the ecotypes and also the two leaf and seed samples in the characteristics of total chlorophyll content, soluble sugar, flavonoid and anthocyanin. The results showed that, there is a significant difference between the ecotype and the sample in chlorophyll b index. The difference between the samples is due to the type of ecotype and the effect of the environment. There is a significant positive correlation between chlorophyll a, chlorophyll b and total chlorophyll. Phenol and flavonoid content showed significant negative correlation with total chlorophyll and positive and significant correlation with anthocyanin. Considering the content of biochemical compounds and the high content of phenols and flavonoids as antioxidant compounds in the studied samples, It can be said that ecotype number 2 of Musa Abad village of Hamedan province can be introduced to researchers as a suitable sample for further studies in the field of medicine.
