Iranian Journal of Biotechnology最新文献

{"title":"Troponin T1 Promotes the Proliferation of Ovarian Cancer by Regulating Cell Cycle and Apoptosis.","authors":"Yuling Li,&nbsp;Jinfeng Qu,&nbsp;Yaping Sun,&nbsp;Chunxiao Chang","doi":"10.30498/ijb.2022.344921.3405","DOIUrl":"https://doi.org/10.30498/ijb.2022.344921.3405","url":null,"abstract":"<p><strong>Background: </strong>Troponin T1 (TNNT1) is implicated in human carcinogenesis. However, the role of TNNT1 in ovarian cancer (OC) remains unclear.</p><p><strong>Objectives: </strong>To investigate the effect of TNNT1 on the progression of ovarian cancer.</p><p><strong>Materials and methods: </strong>The level of TNNT1 was evaluated in OC patients based on The Cancer Genome Atlas (TCGA). Knockdown or overexpression of TNNT1 using siRNA targeting TNNT1 or plasmid carrying TNNT1 was performed in the ovarian cancer SKOV3 cell, respectively. RT-qPCR was performed to detect mRNA expression. Western blotting was used to examine protein expression. Cell Counting Kit-8, colony formation, cell cycle, and transwell assays were performed to analyze the role of TNNT1 on the proliferation and migration of ovarian cancer. Besides, xenograft model was carried out to evaluate the <i>in vivo</i> effect of TNNT1 on OC progression.</p><p><strong>Results: </strong>Based on available bioinformatics data in TCGA, we found that TNNT1 was overexpressed in ovarian cancer samples comparing to normal samples. Knocking down TNNT1 repressed the migration as well as the proliferation of SKOV3 cells, while overexpression of TNNT1 exhibited opposite effect. In addition, down-regulation of TNNT1 hampered the xenografted tumor growth of SKOV3 cells. Up-regulation of TNNT1 in SKOV3 cells induced the expression of Cyclin E1 and Cyclin D1, promoted cell cycle progression, and also suppressed the activity of Cas-3/Cas-7.</p><p><strong>Conclusions: </strong>In conclusion, TNNT1 overexpression promotes SKOV3 cell growth and tumorigenesis by inhibiting cell apoptosis and accelerating cell-cycle progression. TNNT1 might be a potent biomarker for the treatment of ovarian cancer.</p>","PeriodicalId":14492,"journal":{"name":"Iranian Journal of Biotechnology","volume":"21 1","pages":"e3405"},"PeriodicalIF":1.3,"publicationDate":"2023-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://ftp.ncbi.nlm.nih.gov/pub/pmc/oa_pdf/00/e8/IJB-21-e3405.PMC9938930.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10770101","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Molecular and Phenotypic Responses of Rhizobacteria-Treated Tomato Plants to <i>Tomato Mosaic Virus</i> Under Greenhouse Conditions.","authors":"Akram Shakeri Sharaf Abad Sofla,&nbsp;Hengameh Taheri,&nbsp;Mohamad Hamed Ghodoum Parizipour,&nbsp;Farid Soleymani","doi":"10.30498/ijb.2022.319382.3220","DOIUrl":"https://doi.org/10.30498/ijb.2022.319382.3220","url":null,"abstract":"<p><strong>Background: </strong>Tomato mosaic disease, mainly caused by <i>Tomato mosaic virus</i> (ToMV), is one of the devastating viral diseases which adversely affects tomato yield, globally. Plant growth-promoting rhizobacteria (PGPR) have been recently used as bio-elicitors to induce resistance against plant viruses.</p><p><strong>Objectives: </strong>The goal of this research was to apply PGPR in the tomato rhizosphere and to determine the response of plants challenged with ToMV infection, under greenhouse conditions.</p><p><strong>Materials and methods: </strong>Two different strains of PGPR, <i>Pseudomonas fluorescens</i> SM90 and Bacillus subtilis DR06, in single- and double-application methods applied to evaluate their effectiveness in inducing defense-related genes, viz., <i>NPR1</i>, <i>COI1</i>, and <i>PR1-a</i> before (induced systemic resistance [ISR]-prime) and after (ISR-boost) ToMV challenge. Additionally, to investigate the biocontrol potential of PGPR-treated plants against viral infection, plant growth indices, ToMV accumulation, and disease severity were compared in primed and non-primed plants.</p><p><strong>Results: </strong>Analysis of expression patterns of putative defense-related genes before and after ToMV infection indicated that studied PGPR trigger defense priming through different signaling pathways acting at the transcriptional level and in a species-dependent manner. Moreover, the biocontrol efficacy of consortium treatment did not differ significantly from the single bacteria treatments, even though their mode of action differed in transcriptional changes of ISR-induced genes. Instead, simultaneous application of <i>Pseudomonas fluorescens</i> SM90 and <i>Bacillus subtilis</i> DR06 led to more significant growth indices than the single treatments suggesting that integrated application of the PGPR could additively reduce the disease severity and virus titer and promote the growth of the tomato plant.</p><p><strong>Conclusions: </strong>These results suggested that enhanced defense priming via activation of the expression pattern of defense-related genes is responsible for biocontrol activity and growth promotion in PGPR-treated tomato plants challenged with ToMV compared to non-primed plants, under greenhouse conditions.</p>","PeriodicalId":14492,"journal":{"name":"Iranian Journal of Biotechnology","volume":"21 1","pages":"e3220"},"PeriodicalIF":1.3,"publicationDate":"2023-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://ftp.ncbi.nlm.nih.gov/pub/pmc/oa_pdf/d2/31/IJB-21-e3220.PMC9938937.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10760895","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Insights Into The Effects of Amino Acid Substitutions on The Stability of Reteplase Structure: A Molecular Dynamics Simulation Study.","authors":"Kaveh Haji-Allahverdipoor,&nbsp;Mokhtar Jalali Javaran,&nbsp;Sajad Rashidi Monfared,&nbsp;Mohamad Bagher Khadem-Erfan,&nbsp;Bahram Nikkhoo,&nbsp;Zhila Bahrami Rad,&nbsp;Habib Eslami,&nbsp;Sherko Nasseri","doi":"10.30498/ijb.2022.308798.3175","DOIUrl":"https://doi.org/10.30498/ijb.2022.308798.3175","url":null,"abstract":"<p><strong>Background: </strong>Reteplase (recombinant plasminogen activator, r-PA) is a recombinant protein designed to imitate the endogenous tissue plasminogen activator and catalyze the plasmin production. It is known that the application of reteplase is limited by the complex production processes and protein's stability challenges. Computational redesign of proteins has gained momentum in recent years, particularly as a powerful tool for improving protein stability and consequently its production efficiency. Hence, in the current study, we implemented computational approaches to improve r-PA conformational stability, which fairly correlates with protein's resistance to proteolysis.</p><p><strong>Objectives: </strong>The current study was developed in order to evaluate the effect of amino acid substitutions on the stability of reteplase structure using molecular dynamic simulations and computational predictions.</p><p><strong>Materials and methods: </strong>Several web servers designed for mutation analysis were utilized to select appropriate mutations. Additionally, the experimentally reported mutation, R103S, converting wild type r-PA into non-cleavable form, was also employed. Firstly, mutant collection, consisting of 15 structures, was constructed based on the combinations of four designated mutations. Then, 3D structures were generated using MODELLER. Finally, 17 independent 20-ns molecular dynamics (MD) simulations were conducted and different analysis were performed like root-mean-square deviation (RMSD), root-mean-square fluctuations (RMSF), secondary structure analysis, number of hydrogen bonds, principal components analysis (PCA), eigenvector projection, and density analysis.</p><p><strong>Results: </strong>Predicted mutations successfully compensated the more flexible conformation caused by R103S substitution, so, improved conformational stability was analyzed from MD simulations. In particular, R103S/A286I/G322I indicated the best results and remarkably enhanced the protein stability.</p><p><strong>Conclusion: </strong>The conformational stability conferred by these mutations will probably lead to more protection of r-PA in protease-rich environments in various recombinant systems and potentially enhance its production and expression level.</p>","PeriodicalId":14492,"journal":{"name":"Iranian Journal of Biotechnology","volume":"21 1","pages":"e3175"},"PeriodicalIF":1.3,"publicationDate":"2023-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://ftp.ncbi.nlm.nih.gov/pub/pmc/oa_pdf/a6/d5/IJB-21-e3175.PMC9938932.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10760896","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Phytate-Induced Dose-Response Auto-Activation of Enzyme in Commercial Recombinant Phytase From <i>Escherichia coli</i>.","authors":"Elmira Naghdi,&nbsp;Zahra Moosavi-Nejad,&nbsp;Bahman Gholamhossein Goudarzi,&nbsp;Mohammad Reza Soudi","doi":"10.30498/ijb.2022.334455.3315","DOIUrl":"https://doi.org/10.30498/ijb.2022.334455.3315","url":null,"abstract":"<p><strong>Background: </strong>Microbial phytase is one of the most widely used enzymes in food industries like cattle, poultry, and aquaculture food. Therefore, understanding the kinetic properties of the enzyme is very important to evaluate and predict its behavior in the digestive system of livestock. Working on phytase is one of the most challenging experiments because of some problems, including free inorganic phosphate (FIP) impurity in phytate (substrate) and interference reaction of the reagent with both phosphates (product and phytate impurity).</p><p><strong>Objective: </strong>In the present study, FIP impurity of phytate was removed, and then it was shown that the substrate (phytate) has a dual role in enzyme kinetics: substrate and activator.</p><p><strong>Material and methods: </strong>phytate impurity was decreased by two-step recrystallization prior to the enzyme assay. The impurity removal was estimated by the ISO30024:2009 method and confirmed by Fourier-transform infrared (FTIR) spectroscopy. The kinetic behavior of phytase activity was evaluated using the purified phytate as substrate by non-Michaelis-Menten analysis, including Eadie-Hofstee, Clearance, and Hill plots. The possibility of an allosteric site on phytase was assessed by molecular docking.</p><p><strong>Results: </strong>The results showed a 97.2% decrease in FIP due to recrystallization. The phytase saturation curve had a sigmoidal appearance, and Lineweaver-Burk plot with a negative y-intercept indicated the positive homotropic effect of the substrate on the enzyme activity. A right-side concavity of Eadie-Hofstee plot confirmed it. Hill coefficient was calculated to be 2.26. Molecular docking also showed that <i>Escherichia coli</i> phytase molecule has another binding site for phytate very close to the active site, called \"allosteric site\".</p><p><strong>Conclusions: </strong>The observations strongly propose the existence of an intrinsic molecular mechanism in <i>Escherichia coli</i> phytase molecules to be promoted for more activity by its substrate, phytate (positive homotropic allosteric effect). <i>In silico</i> analysis showed that phytate binding to the allosteric site caused new substrate-mediated inter-domain interactions, which seems to lead to a more active conformation of phytase. Our results provide a strong basis for animal feed development strategies, especially in the case of poultry food and supplements, regarding a short food passage time in their gastrointestinal tract and variable concentration of phytate along with it. Additionally, the results strengthen our understanding of phytase auto-activation as well as allosteric regulation of monomeric proteins in general.</p>","PeriodicalId":14492,"journal":{"name":"Iranian Journal of Biotechnology","volume":"21 1","pages":"e3315"},"PeriodicalIF":1.3,"publicationDate":"2023-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://ftp.ncbi.nlm.nih.gov/pub/pmc/oa_pdf/ce/09/IJB-21-e3315.PMC9938928.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10760898","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Changes of Dopamine and Tyrosine Hydroxylase Levels in the Brain of Germ-free Mice.","authors":"Yuezhi Wang,&nbsp;Hui Qiao,&nbsp;Yu Zhang","doi":"10.30498/ijb.2022.236732.2798","DOIUrl":"https://doi.org/10.30498/ijb.2022.236732.2798","url":null,"abstract":"<p><strong>Background: </strong>Dopamine (DA) is one of the most important catecholamine neurotransmitters in the central nervous system. The degeneration and deletion of dopaminergic neurons are closely linked to Parkinson's disease (PD) and other psychiatric or neurological diseases. Several studies have been suggesting that intestinal microorganisms are associated with the occurrence of central nervous diseases, including diseases that are closely related to dopaminergic neurons. However, the intestinal microorganism's regulation of dopaminergic neurons in the brain is largely unknown.</p><p><strong>Objectives: </strong>This study aimed to investigate the hypothetical differences of DA and its synthase tyrosine hydroxylase (TH) expression in different parts of the brain of germ free (GF) mice.</p><p><strong>Materials and methods: </strong>Several studies in recent years have shown that commensal intestinal microbiota promotes changes in DA receptor expression, DA levels, and affects this monoamine turnover. Germ free (GF) and specific pathogen free (SPF) C57b/L male mice were used to analyze TH mRNA and expression levels, and DA levels in the frontal cortex, hippocampus, striatum, and cerebellum, using real time PCR, western blotting, and ELISA tools.</p><p><strong>Results: </strong>Compared with SPF mice, the TH mRNA levels were decreased in the cerebellum of GF mice, while the TH protein expression was tended to increase in the hippocampus, and conversely showed significant decrease in the striatum. The average optical density (AOD) of TH immunoreactive nerve fibers and the number of axons in striatum of mice in GF group were significantly lower than that in SPF group. Compared with SPF mice, the DA concentration in the hippocampus, striatum and frontal cortex of GF mice was decreased in GF mice.</p><p><strong>Conclusion: </strong>The changes of DA and its synthase TH in the brain of GF mice showed that the absence of conventional intestinal microbiota had certain regulatory effects on central dopaminergic nervous system, which is considered helpful for studying the effect of commensal intestinal flora on diseases related to impaired dopaminergic nerve system.</p>","PeriodicalId":14492,"journal":{"name":"Iranian Journal of Biotechnology","volume":"21 1","pages":"e2798"},"PeriodicalIF":1.3,"publicationDate":"2023-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://ftp.ncbi.nlm.nih.gov/pub/pmc/oa_pdf/60/4c/IJB-21-e2798.PMC9938933.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10770098","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Development of <i>In Silico</i> Analysis and Molecular Dynamics Simulation on L67P and D76Y Mutants of the Human Superoxide Dismutase 1(hSOD1) Related to Amyotrophic Lateral Sclerosis.","authors":"Payam Baziyar, Bagher Seyedalipour, Saman Hosseinkhani, Ehsan Nazifi","doi":"10.30498/ijb.2022.310249.3178","DOIUrl":"https://doi.org/10.30498/ijb.2022.310249.3178","url":null,"abstract":"<p><strong>Background: </strong>One neurodegenerative disorder that is caused by a mutation in the hSOD1 gene is Amyotrophic lateral sclerosis (ALS).</p><p><strong>Objectives: </strong>The current study was developed in order to evaluate the effect exerted by two ALS-associated point mutations, L67P and D76Y are located in the metal-binding loop, on structural characterization of hSOD1 protein using molecular dynamics (MD) simulations and computational predictions.</p><p><strong>Materials and methods: </strong>In this study, GROMACS was utilized to perform molecular dynamics simulations along with 9 different algorithms such as Predict SNP, PhD-SNP, MAPP, PolyPhen-1, Polyphen-2, SNP, SIFT, SNP&GO, and PMUT for predicting and also evaluating the mutational effect on the structural and conformational characterization of hSOD1.</p><p><strong>Results: </strong>Our study was done by several programs predicting the destabilizing and harmful effect exerted by mutant hSOD1. The deleterious effect of L67P mutation was predicted by MAPP and PhD-SNP algorithms, and D76Y mutation was predicted by 9 algorithms. Comparative studies that were conducted on mutants and wild-type indicated the altar in flexibility and protein conformational stability influenced the metal-binding loop's conformation. The outcomes of the MD exhibited an increase and decrease of flexibility for D76Y and L67P mutants compared to the wild type, respectively. On the other hand, analysis of the gyration radius indicated lower and higher compactness for D76Y and L67P, respectively, suggesting that replacing amino acid at the metal-binding loop can alter the protein compactness compared with the protein the wild type.</p><p><strong>Conclusions: </strong>Overall, these findings provided insight into the effect of mutations on the hSOD1, which leads to neurodegeneration disorders in humans. The results show that the mutations of L67P and D76Y influence the stability of protein conformational and flexibility associated with ALS disease. Thus, results of such mutations are can be a prerequisite to achieve a thorough understanding of ALS pathogenicity.</p>","PeriodicalId":14492,"journal":{"name":"Iranian Journal of Biotechnology","volume":"20 4","pages":"e3178"},"PeriodicalIF":1.3,"publicationDate":"2022-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10858370/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139722607","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Impact of <i>NOX4</i> Knockout by CRISPR/Cas9 on the MCF-7, HCA-7 and UM-RC-6 Cancer Cells.","authors":"Marzieh Javadi, Hossein Sazegar, Abbas Doosti","doi":"10.30498/ijb.2022.298496.3115","DOIUrl":"https://doi.org/10.30498/ijb.2022.298496.3115","url":null,"abstract":"<p><strong>Background: </strong>The second most common cause of mortality is cancer. Increased NOX4 expression is linked to cancer development and metastasis. However, the significance of NOX4 in cell growth and assault, remains unclear.</p><p><strong>Objective: </strong>This study aimed to evaluate the effect of <i>NOX4</i> knockouts in MCF7, UM-RC-6, HCA-7 cell lines.</p><p><strong>Materials and methods: </strong>The <i>NOX4</i> gene was knocked out in MCF7, UM-RC-6, and HCA-7 cell lines through using CRISPR Cas-9 genetic engineering techniques. After transfection, the CRISPR Cas-9 cassette, the T7 endonuclease I, qPCR, and western blotting assay detected the <i>NOX4</i> knockouts. MTT and Annexin assessed the percentage of cell proliferation and apoptosis. Real-time PCR was used to measure the expression of pro- and anti-apoptotic genes.</p><p><strong>Results: </strong>Occurrence of <i>NOX4</i> gene knockout in the examined cell lines, was confirmed by q-PCR and Western blot (P<0.001). The <i>NOX4</i>-deleted cell lines with increased sub-G1 caused lowered cell proliferation and population at S / G2/ M phases. <i>In Vitro</i>, <i>NOX4</i> silencing caused lowered expressions of anti-apoptosis genes <i>BCL-2</i> and <i>SURVIVIN</i> (P<0.0001), leading to increased tendency of apoptosis in the cell lines (P<0.0001) of the apoptotic genes BAX, P53, FAS. Additionally, the MTT and Annexin results of the target gene <i>NOX4</i> knockout inhibited proliferation, increased mortality rates (P<0.01), and increased apoptosis.</p><p><strong>Conclusion: </strong>The findings of this study indicate that using <i>NOX4</i> as a target can have therapeutic value for creating potential treatments against breast, colorectal, and kidney cancers which shows a need for a deeper understanding of the biology of these cancers with direct clinical outcomes for developing novel treatment strategies.</p>","PeriodicalId":14492,"journal":{"name":"Iranian Journal of Biotechnology","volume":"20 4","pages":"e3115"},"PeriodicalIF":1.3,"publicationDate":"2022-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10858368/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139722608","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"MiR-582 Down-Regulates Lissencephaly-1 (<i>LIS1</i>) via P-Akt and MMP-2 to Inhibit Cholangiocarcinoma Cell Proliferation and Invasion.","authors":"Guochao Liu, Tao Li, Lifeng Ma, Jianlong Wang, Zhaoqiang Yin","doi":"10.30498/ijb.2022.301092.3136","DOIUrl":"https://doi.org/10.30498/ijb.2022.301092.3136","url":null,"abstract":"<p><strong>Background: </strong>Cholangiocarcinoma is a primary malignant tumor, and its progression involves oncogene activation, the absence of tumor suppressor gene, abnormal signaling pathways and miRNA expression. MiRNAs are abnormally expressed in many types of tumors.</p><p><strong>Objective: </strong>This study aims to observe the effects of miR-582 on cholangiocarcinoma cell proliferation, S-phase arrest, migration and invasion and to analyze the regulation of miR-582 on <i>LIS1</i> to clarify the real role of miR-582 in cholangiocarcinoma development.</p><p><strong>Materials and methods: </strong>TCGA database of cholangiocarcinoma samples was analyzed. Dual fluorescence reporter and TargetScan were conducted to confirm whether <i>LIS1</i> was the target gene of miR-582. Effects of miR-582 and <i>LIS1</i> on HCC-9810 cell proliferation, S-phase cell ratio, migration and invasion were determined by CCK-8, Flow cytometry and Transwell, respectively, whereas the function of miR-582 on MMP-2 and P-Akt expression was identified by Western blotting. Nude mice xenograft model of cholangiocarcinoma was established to detect what miR-582 did for tumor growth.</p><p><strong>Results: </strong>TCGA showed that miR-582 was lowly expressed and LIS1 was highly expressed in tumor tissues compared with adjacent tissues. MiR-582 targeted <i>LIS1</i> to inhibit MMP-2 and p-AKT expression. Transfection of miR-582 mimics could suppress HCC-9810 cell proliferation, S-stage arrest, migration and invasion, while <i>LIS1</i> worked oppositely. MiR-582 inhibitors promoted cell biological behavior, whereas <i>LIS1</i> siRNA was opposite. In nude mice xenograft model, miR-582 overexpression inhibited tumor growth.</p><p><strong>Conclusions: </strong>It implies that miR-582 could negatively regulate <i>LIS1</i> to inhibit MMP-2 and P-Akt expression, thus suppressing cell invasion and proliferation in cholangiocarcinoma.</p>","PeriodicalId":14492,"journal":{"name":"Iranian Journal of Biotechnology","volume":"20 4","pages":"e3136"},"PeriodicalIF":1.3,"publicationDate":"2022-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10858362/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139722609","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Synthesis of Silver Nanoparticles by <i>Raoultella Planticola</i> and Their Potential Antibacterial Activity Against Multidrug-Resistant Isolates.","authors":"Karzan Qurbani, Safin Hussein, Haider Hamzah, Saman Sulaiman, Rzgar Pirot, Elahe Motevaseli, Zahra Azizi","doi":"10.30498/ijb.2022.298773.3121","DOIUrl":"https://doi.org/10.30498/ijb.2022.298773.3121","url":null,"abstract":"<p><strong>Background: </strong>Nanoparticles can be chemically, physically, or biologically synthesized. Biosynthesis of silver nanoparticles (AgNPs) utilizing microbes is a promising process due to the low toxicity and high stability of AgNPs. Here, AgNPs were fabricated by Gram-negative <i>Raoultella planticola</i>.</p><p><strong>Objectives: </strong>This study aimed to assess the ability of <i>Raoultella planticola</i> to produce nanoparticles (NPs) and evaluate their antibacterial potential against multidrug-resistant pathogens (MDR). Additionally, the study aimed to compare the antibacterial activity of biosynthesized nanoparticles to well-known conventional antibiotics Azithromycin and Tetracycline.</p><p><strong>Materials and methods: </strong>AgNPs were characterized using visual observation, UV-visible spectroscopy (UV-vis), X-ray diffraction (XRD), transmission electron microscopy (TEM), scanning electron microscopy (SEM), and Fourier-transform infrared spectroscopy (FTIR). The TEM and SEM were used to determine the size and shape of the nanoparticles. The XRD data were recorded in the 2θ ranging from 20-80° to analyze the crystalline structure of nanoparticles. The antibacterial activity was detected using a 96-well microtiter plate.</p><p><strong>Results: </strong>The UV-vis absorption recorded from the 300 - 900 nm spectrum was well defined at 420 nm, and the XRD pattern was compatible with Braggs's reflection of the silver nanocrystals. FTIR showed absorbance bands corresponding to different functional groups. TEM and SEM images showed non-uniform spherical and AgNPs of 10-80 nm. XRD data confirmed that the resultant particles are AgNPs. The AgNPs showed effective activity against multi-drug resistant (MDR) <i>Pseudomonas aeruginosa</i>, <i>Salmonella</i> sp., <i>Shigella</i> sp., <i>E. coli</i>, <i>Enterobacter</i> sp., <i>Staphylococcus aureus</i>, and <i>Bacillus cereus</i>. The AgNPs demonstrated effectiveness in lower concentrations compared to broad-spectrum antibiotics.</p><p><strong>Conclusion: </strong>These data reveal that AgNP generated by <i>R. planticola</i> was more efficient against MDR microorganisms than commercial antibiotics. However, the cytotoxicity of these nanoparticles must be further studied.</p>","PeriodicalId":14492,"journal":{"name":"Iranian Journal of Biotechnology","volume":"20 4","pages":"e3121"},"PeriodicalIF":1.3,"publicationDate":"2022-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10858361/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139722612","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Co-Expression Network Analysis of Soybean Transcriptome Identify Hub Genes Under Saline-Alkaline and Water Deficit Stress.","authors":"Rahele Ghanbari Moheb Seraj, Mahsa Mohammadi, Mehrdad Shahbazi, Masoud Tohidfar","doi":"10.30498/ijb.2022.299306.3124","DOIUrl":"https://doi.org/10.30498/ijb.2022.299306.3124","url":null,"abstract":"<p><strong>Background: </strong>Soybean is an important oilseed crop that its development and production are affected by environmental stresses (such as saline-alkaline and water deficit).</p><p><strong>Objectives: </strong>This experiment was performed with the aim of identifying candidate genes in saline-alkaline stress and water-deficit stress conditions using transcriptome analysis and to investigate the expression of these genes under water deficit stress conditions using RTqPCR.</p><p><strong>Materials and methods: </strong>In this experiment, soybean transcriptome data under saline-alkaline and water-deficit stress were downloaded from the NCBI website, and then the co-expression modules were determined for them and the gene network was plotted for each module, and finally, the hub genes were identified. To compare the expression of genes in saline-alkaline and water deficit conditions, soybean plants were subjected to water deficit stress and their gene expression was determined using RTqPCR.</p><p><strong>Results: </strong>The filtered (Log FC above +2 and below -2) genes of soybean were grouped under saline-alkaline stress in 15 modules and under water-deficit stress in 2 different modules. Within each module, the interaction of genes was identified using the gene network, then three genes of <i>ann11</i>, <i>cyp450</i> and <i>zfp</i> selected as hub genes. These hub genes are highly co-expression with other network genes, which not only display differential expression but also differential co-expression. The results of RT-PCR indicated that <i>cyp450</i> gene expression was not significantly different from the control, while <i>ann11</i> gene expression significantly increased under water deficit stress, but <i>zfp</i> gene expression decreased significantly under water deficit stress.</p><p><strong>Conclusions: </strong>We identified three genes, <i>ann11</i>, <i>cyp450</i> and <i>zfp</i>, as hub genes. According to our results, <i>ann11</i> gene had a significant increase in expression under water deficit stress, which can indicate the importance of this gene under drought conditions. Therefore, according to the results of this experiment as well as other researchers, we introduce this gene as a key gene in water deficit tolerance and recommend its use in genetic engineering to increase the tolerance of other plants.</p>","PeriodicalId":14492,"journal":{"name":"Iranian Journal of Biotechnology","volume":"20 4","pages":"e3124"},"PeriodicalIF":1.3,"publicationDate":"2022-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10858369/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139722606","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}