Article
Biochemistry & Molecular Biology
Qiang Ge, Peipei Peng, Mingyue Cheng, Yanjun Meng, Yuan Cao, Shuya Zhang, Yu Long, Gezi Li, Guozhang Kang
Summary: FK506-binding protein (FKBP) genes play important roles in plant development and abiotic stress responses. In this study, 64 FKBP genes were identified in wheat through genome-wide analysis and phylogenetic analysis revealed their evolutionary relationship. TaFKBPs exhibited tissue-specific expression patterns and responded to drought and heat stress. These findings provide valuable information for further understanding the function of FKBPs in plant development and abiotic stress responses, particularly in drought stress.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Biochemistry & Molecular Biology
Zijie Zhang, Lei Zhang, Yang Liu, Xulan Shang, Shengzuo Fang
Summary: R2R3-MYB genes play an important role in plant growth and response to environmental stress. This study identified and analyzed the function of R2R3-MYB genes in Cyclocarya paliurus in response to salt stress. The results showed that the R2R3-MYB genes of C. paliurus have conserved functional domains, and four genes that might be involved in salt stress response were identified.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Plant Sciences
Kangtai Sun, Teame Gereziher Mehari, Hui Fang, Jinlei Han, Xuehan Huo, Jingxia Zhang, Yu Chen, Dongmei Wang, Zhimin Zhuang, Allah Ditta, Muhammad K. R. Khan, Jun Zhang, Kai Wang, Baohua Wang
Summary: In this study, transcriptome and proteome sequencing were performed on upland cotton under salt stress to identify salt-tolerance related genes. Enrichment analysis revealed that differentially expressed genes were mainly involved in cell membrane, organelle, cellular process, metabolic process, and stress response. Combined transcriptome and proteome analysis identified 24 candidate genes, and further validation experiments showed that two genes (Gh_D11G0978 and Gh_D10G0907) played a pivotal role in salt stress response.
FRONTIERS IN PLANT SCIENCE
(2023)
Editorial Material
Cell Biology
Poonam Mehra, Malcolm J. Bennett
Summary: Calcium signaling is crucial for plants to sense and alleviate salt stress. This study reveals that salt stress leads to an increased output of calcium signaling, which activates the CBL8-CIPK24-SOS1 module. This module, along with CBL4-CIPK24-SOS1, enhances salt tolerance under severe salinity stress.
DEVELOPMENTAL CELL
(2022)
Article
Biotechnology & Applied Microbiology
Thalita Massaro Malheiros Ferreira, Jaire Alves Ferreira Filho, Andre Pereira Leao, Carlos Antonio Ferreira de Sousa, Manoel Teixeira Souza
Summary: This study aimed to select, annotate, and validate stress-inducible genes differentially expressed in the leaves of oil palm plants under saline stress. Through transcriptome analysis and validation using qRT-PCR, 14 genes were selected, annotated, and their expression profiles were examined. The analysis revealed that some of these genes are orthologs of salt resistance genes in other species, coding for proteins involved in salt transport, transcriptional regulation, and stomata opening and closing. The study also identified various cis-acting elements in the promoter sequences of these genes, some of which are known to be involved in abiotic stress. The results provide valuable information for gene selection, promoter sequence analysis, and molecular-genetics-assisted breeding programs.
Article
Plant Sciences
Manu Maya Magar, Hui Liu, Guijun Yan
Summary: This study identified and analyzed the AP2/ERF superfamily genes in bread wheat and discovered candidate genes associated with heat stress response. The findings of this study provide important information and a foundation for heat tolerance breeding in wheat.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Agronomy
Talaat Ahmed, Ahmed Abou Elezz, Muhammad Fasih Khalid
Summary: Primed wheat seeds with moringa leaf extract showed enhanced germination and seedling growth under salt stress, with increased nutrient uptake and reduced accumulation of toxic ions and reactive oxygen species.
Article
Genetics & Heredity
Xuejing Cao, Weifeng Ma, Fanwei Zeng, Yongjuan Cheng, Zonghuan Ma, Juan Mao, Baihong Chen
Summary: In this study, 12 BES1 genes were identified in the grape genome and their evolutionary characteristics were analyzed. The expression levels of VvBES1 genes differed in response to various treatments, including BR, MeJA, cold, salt, and PEG. Overexpression of VvBES1-3 enhanced salt stress tolerance in transgenic Arabidopsis. These findings provide insights into the functions of BES1 transcription factors in the abiotic stress response.
Article
Plant Sciences
V Kaura, P. K. Malhotra, A. Mittal, G. S. Sanghera, N. Kaur, R. D. Bhardwaj, R. S. Cheema, G. Kaur
Summary: The understanding of the molecular basis of abiotic stresses, such as salt, cold, and drought, is crucial for developing breeding and genetic engineering strategies in sugarcane. This study investigated the plant's responses to these stresses, including chlorosis, wilting, leaf rolling, and changes in water content. The results also showed an accumulation of LPO and an increase in proline content, indicating the plant's stress responses. Additionally, differential gene expression analysis revealed the involvement of various stress-responsive genes in sugarcane seedlings, providing insights into the molecular basis of stress response in this important crop.
JOURNAL OF PLANT GROWTH REGULATION
(2022)
Article
Plant Sciences
Sina Nouraei, Md Sultan Mia, Hui Liu, Neil C. Turner, Guijun Yan
Summary: This study analyzed gene expression profiling in wheat to investigate the genetic control of drought tolerance. The researchers identified candidate genes and genetic markers associated with the qDSI.4B.1 locus, which can be used in breeding programs for drought tolerance. The study also revealed the biological processes involved in the response to drought stress.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Biochemistry & Molecular Biology
Mingyu Chu, Tiaoye Wang, Wenfang Li, Yashi Liu, Zhiyuan Bian, Juan Mao, Baihong Chen
Summary: This study conducted a genome-wide identification of Q-type C2H2 zinc finger protein (ZFP) genes in grapevine genomes and explored their characteristics and functions. The results showed that the physical and chemical properties of these ZFPs exhibited differences, but they were all hydrophobic and stable proteins. The phylogenetic analysis revealed the evolutionary relationships among these genes and their distribution on different chromosomes. The study also demonstrated the involvement of these genes in response to hormones and low-temperature stress using gene expression and localization experiments. Overall, this research provides valuable insights into the response mechanisms of grapes to exogenous hormones and low temperatures and lays a foundation for future molecular breeding.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Horticulture
Ha-Young Pyeon, Youn-Jin Park, Sang-Chul Lee, Myoung-Jun Jang
Summary: This study confirms the expression patterns of genes involved in stress resistance in Pleurotus ostreatus by comparing the expression patterns of genes after sodium chloride treatment. The results show that NaCl inhibits growth by inhibiting the formation of the mycelium's skeleton and physiological activity within the cell.
Article
Environmental Sciences
Jingchong Li, Runlian Geng, Xiangjun Kong, Lijie Li, Zhiyong Zhang, Runqiang Liu
Summary: This study investigated the uptake, accumulation, and translocation of difenoconazole (DFZ) in plants, as well as its effects on morphology, physiology, and gene expression. Results showed that DFZ predominantly accumulated in older leaves and wheat plants exhibited self-protective behaviors by enhancing lignin biosynthesis, degrading DFZ by glutathione S-transferase, and increasing the content of flavonoids and anthocyanins to alleviate oxidative damage.
ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY
(2023)
Article
Agronomy
Hager Snoussi, Hend Askri, Diana Nacouzi, Imen Ouerghui, Anthony Ananga, Asma Najar, Walid El Kayal
Summary: Salinity is a significant environmental challenge for citriculture globally, with climate change intensifying its impact on citrus orchards. Understanding the interaction between rootstocks and scions in response to salinity provides insights into salt tolerance mechanisms in citrus trees.
Article
Plant Sciences
Murat Aycan, Marouane Baslam, Toshiaki Mitsui, Mustafa Yildiz
Summary: Salinity is an abiotic stress factor that poses a threat to crop yield and food security in arid and semi-arid regions. This study focuses on the identification of sensitive and tolerant wheat genotypes by analyzing proline content and expression levels of proline-related genes under salt stress. The findings show that salt-tolerant genotypes exhibit higher proline content and gene expression levels compared to moderate and sensitive genotypes. Proline biosynthesis serves as a common mechanism in separating salt tolerance from sensitivity.
Article
Acoustics
Mojtaba Ayatinia, Mehdi Forouzanfar, Amin Ramezani
Summary: This paper investigates a new sufficient robust convergence condition of iterative learning control with initial state learning in the presence of iteration-varying uncertainty for multivariable systems in the time domain. The proposed method provides fixed learning gains over time and iteration, addressing the issue of tracking error caused by the constant initial state in the basic ILC algorithm.
JOURNAL OF VIBRATION AND CONTROL
(2023)
Article
Biotechnology & Applied Microbiology
Amir Gharghi, Arezoo Nazeri, Ali Niazi
Summary: This study developed an effective transformation method for potato by overexpressing the L-Asparaginase gene, which can reduce the level of acrylamide (a potentially carcinogenic substance). Out of all the selected plants, 127 putative transgenic lines were resistant to 0.5% glyphosate, with a mean transformation efficiency of 31.75%.
PLANT BIOTECHNOLOGY REPORTS
(2023)
Article
Automation & Control Systems
Arman Mohammadi, Amin Ramezani
Summary: In this study, a model predictive control (MPC) solution is used to control a quadrotor model, and a fault detection and diagnosis (FDD) strategy based on analytical redundancy relations (ARRs) is proposed to detect and tolerate sensor faults.
TRANSACTIONS OF THE INSTITUTE OF MEASUREMENT AND CONTROL
(2023)
Article
Biology
Sahar Akrami, Ahmad Tahmasebi, Ali Moghadam, Amin Ramezani, Ali Niazi
Summary: By analyzing mRNA and protein data, we identified several key genes, functional processes, and pathways that play critical roles in PDAC. We found an interesting module associated with clinical traits, enriched in ribosome, hematopoietic cell lineage, and cell adhesion molecules-related pathways. We also identified hub genes in important modules associated with immune system processes. Additionally, survival analysis led to the identification of five genes as potential biomarkers or therapeutic targets for PDAC. Our findings may contribute to a better understanding of the molecular mechanisms and provide potential prognostic and therapeutic targets for PDAC.
COMPUTERS IN BIOLOGY AND MEDICINE
(2023)
Article
Computer Science, Artificial Intelligence
Mohammadreza Ghorvei, Mohammadreza Kavianpour, Mohammad T. H. Beheshti, Amin Ramezani
Summary: Unsupervised domain adaptation has been successful in fault diagnosis under changing working conditions, but most methods neglect the geometric structure of the data and the relationship between subdomains. This paper proposes a novel deep subdomain adaptation graph convolution neural network that models the data structure and aligns subdomain distributions using adversarial domain adaptation and local maximum mean discrepancy methods to achieve accurate data-driven models.
Article
Horticulture
Fazilat Fakhrzad, Abolfazl Jowkar, Akhtar Shekafandeh, Maryam Jafarkhani Kermani, Ali Moghadam
Summary: This study investigated the effects of polyploidy induction on different characteristics of wallflower. The results showed that chromosome doubled plants exhibited changes in trichome number, pollen size, stomata size, and chloroplast number in stomata guard cells. The tetraploid induced wallflowers also showed improvements in growth habit, leaf size and color, flowering period, flower longevity, and anthocyanin and total soluble solids contents. UPLC-MS analysis revealed changes in phytohormone contents in the tetraploid induced plants. These findings demonstrate that polyploidization is a promising tool for breeding and introducing new genetic resources in the floriculture industry.
SCIENTIA HORTICULTURAE
(2023)
Article
Multidisciplinary Sciences
Ahmad Tahmasebi, Ali Niazi, Sahar Akrami
Summary: Using meta-analysis and machine learning methods, this study identified water stress-responsive genes in Populus and discovered important gene networks. The analysis revealed significant transcriptional variations occurring during drought stress, particularly in genes related to stress response, cellular catabolic process, metabolic pathways, and hormone-related genes. The study highlighted the importance of acetyltransferase NATA1-like and putative cytochrome P450 genes in response to drought stress, as well as the prominent roles of MYBs and MAPKs in drought stress response that could enhance drought tolerance in Populus. ARF2-like and PYL4-like genes were also suggested as potential markers for breeding programs. This study provides valuable insights into how Populus responds to drought and can be useful in improving stress tolerance in Populus.
SCIENTIFIC REPORTS
(2023)
Article
Chemistry, Medicinal
Mandana Shariatzadeh, Akbar Karami, Ali Moghadam, Mahbobeh Lotfi, Filippo Maggi, Esmaeil Ebrahimie
Summary: Oliveria decumbens Vent. is a traditional aromatic and medicinal plant used in Iran for various ailments including infections, gastrointestinal diseases, cancer, and inflammation. This study investigated the pharmacological potential of its essential oil (OEO) and its main compounds, particularly in relation to its cytotoxic effects on MCF-7 breast cancer cells. The results showed that OEO could inhibit cell growth, activate apoptosis, and enhance tumor suppression through the activation of specific genes. Molecular docking studies also revealed the potential of OEO's main compounds to target specific proteins involved in cancer growth. These findings suggest that OEO has promising potential as a cancer therapy agent in the pharmaceutical industry.
Article
Computer Science, Hardware & Architecture
Parisa Kavianpour, Mohammadreza Kavianpour, Ehsan Jahani, Amin Ramezani
Summary: Earthquakes, as natural phenomena, have consistently caused damage and loss of human life throughout history. Earthquake prediction is crucial for society's plans and can significantly reduce damage and increase preparedness. However, the nonlinear and chaotic behavior of earthquakes makes it challenging to train deep learning methods, leading to limited achievements. To address this, a novel method based on convolutional neural networks (CNN), bi-directional long short-term memory (BiLSTM), and an attention mechanism, as well as a zero-order hold (ZOH) pre-processing methodology, is proposed to improve the performance of earthquake prediction.
JOURNAL OF SUPERCOMPUTING
(2023)
Article
Multidisciplinary Sciences
Ali Moghadam, Eisa Foroozan, Ahmad Tahmasebi, Mohammad Sadegh Taghizadeh, Mohammad Bolhassani, Morteza Jafari, Farrukh Azeem, Wujun Ma
Summary: In this study, we investigated the correlation between genes involved in the biosynthesis of secondary metabolites in Rosmarinus officinalis using proteomics and metabolomics data by WGCNA, and identified three modules with the highest potential for metabolite engineering. Moreover, we identified hub genes highly connected to specific modules, transcription factors, protein kinases, and transporters. The results indicated that genes such as CDS, PAL, CIN, RAS, TAT, C4H, and MYB58 are responsible for biosynthesis of important secondary metabolites.
Article
Public, Environmental & Occupational Health
Sara Karimi, Fereshteh Mehdipour, Jamal Sarvari, Mohammad Reza Ataollahi, Amin Ramezani, Seppo Meri, Kurosh Kalantar
Summary: This study aimed to evaluate and compare the frequency of various B cell subpopulations in responders and non-responders to HBsAg vaccine. The results found that the memory B cell populations were comparable between the responder and non-responder groups. Further investigation is needed to determine if the level of class switching in B lymphocytes is correlated with anti-HBsAb production in healthy vaccinated individuals.
TRANSACTIONS OF THE ROYAL SOCIETY OF TROPICAL MEDICINE AND HYGIENE
(2023)
Article
Cell Biology
Amin Ramezani, Mohammadrasul Zareinejad, Elham Mahmoudi Maymand, Elina Kaviani, Abbas Ghaderi
Summary: This study aimed to produce a biosimilar version of aflibercept (AFL) and evaluate its effect when used in combination with other vascular endothelial growth factor (VEGF) blocker drugs. The biosimilar-AFL showed significant inhibition potential on HUVEC cells in a dose-dependent manner. Furthermore, co-treatment with Everolimus (EVR), Lenvatinib (LEN), and Sorafenib (SOR) enhanced the cytotoxicity of biosimilar-AFL on HUVEC cells, with LEN and SOR showing a 10-fold increase in cytotoxicity. The combination of biosimilar-AFL with LEN showed the most efficient result, while the combination with EVR showed the least efficient result. Overall, biosimilar-AFL may improve the efficacy of LEN, EVR, and SOR in reducing the VEGF effect on endothelial cells.
Article
Rheumatology
Nahid Alimoradi, Mohammad Tahami, Negar Firouzabadi, Elham Haem, Amin Ramezani
Summary: This study aimed to evaluate the effectiveness of metformin versus placebo in overweight patients with knee osteoarthritis (OA). In addition, the genetic polymorphisms of two genes related to inflammation and apoptosis were investigated. The results showed that metformin improved pain, activity of daily living, sport and recreation, and quality of life in OA patients. The CC genotype of Bcl-2 and GG+GA genotypes of CXCL-16 were associated with susceptibility to OA.
ARTHRITIS RESEARCH & THERAPY
(2023)
