Bioinformatics deciphers the thebaine biosynthesis pathway in opium poppy: Hub genes, network analysis, and miRNA regulation.

Thebaine, a vital precursor in the codeine and morphine pathway, shows promise in addiction treatment. We conducted a comprehensive study on the thebaine biosynthesis pathway in opium poppy, utilizing bioinformatics tools. The dataset comprising the thirteen genes associated with the thebaine biosynthesis pathway was compiled from an extensive review of published literature and validated using the NCBI BLAST tool.

Gamma radiation-induced enhancement of biocontrol agents for plant disease management.

Gamma radiation-induced mutations in microorganisms can enhance their properties for the biological control of plant diseases. Mutant strains of were found to have improved antifungal properties against and increased production of biosurfactants and biofilms. Furthermore, combining gamma radiation with antagonists was more effective in controlling postharvest than either treatment alone.

AI-enabled pipeline for virus detection, validation, and SNP discovery from next-generation sequencing data.

Background And Aims: The rapid and accurate detection of viruses and the discovery of single nucleotide polymorphisms (SNPs) are critical for disease management and understanding viral evolution. This study presents a pipeline for virus detection, validation, and SNP discovery from next-generation sequencing (NGS) data. The pipeline processes raw sequencing data to identify viral sequences with high accuracy and sensitivity by integrating state-of-the-art bioinformatics tools with artificial intelligence.

Advancing rice breeding for drought tolerance: a comprehensive study of traditional and mutant lines through agronomic performance and drought tolerance indices.

Background: Drought stress is a critical challenge to rice production, necessitating the development of drought-tolerant genotypes. This study aimed to evaluate the drought tolerance of rice genotypes, including traditional parental lines (Hashemi, Khazar, Fajr, and Tarom Mahalli) and their corresponding mutant lines, under normal and drought stress conditions.

Methods: Agronomic traits such as plant height, spike number, spike length, seed fertility, and yield were analyzed under both conditions.

Identification of key genes and pathways involved in T-DM1-resistance in OE-19 esophageal cancer cells through bioinformatics analysis.

Introduction: Esophageal Cancer (EC) ranks among the most common malignancies worldwide. Most EC patients acquire drug resistance to chemotherapy either intrinsically or acquired after T-DM1 treatment, which shows that increasing or decreasing the expression of particular genes might influence chemotherapeutic sensitivity or resistance. Therefore, gaining a deeper understanding of the altered expression of genes involved in EC drug resistance and developing new therapeutic methods are essential targets for continued advancement in EC therapy.

Genetic analysis of tomato brown rugose fruit virus reveals evolutionary adaptation and codon usage bias patterns.

Tomato brown rugose fruit virus (ToBRFV) poses a significant threat to tomato production worldwide, prompting extensive research into its genetic diversity, evolutionary dynamics, and adaptive strategies. In this study, we conducted a comprehensive analysis of ToBRFV at the codon level, focusing on codon usage bias, selection pressures, and evolutionary patterns across multiple genes. Our analysis revealed distinct patterns of codon usage bias and selection pressures within the ToBRFV genome, with varying levels of genetic diversity and evolutionary constraints among different genes.

Anthropogenic and climatic impacts on historic sediment, carbon, and phosphorus accumulation rates using Pb and Cs in a sub-watershed linked to Zarivar Lake, Iran.

To estimate a watershed's response to climate change, it is crucial to understand how human activities and climatic extremes have interacted over time. Over the last century, the Zarivar Lake watershed, Iran, has been subjected to various anthropogenic activates, including deforestation and inappropriate land-management practices alongside the implementation of conservation measures like check dams. To understand the effects of these changes on the magnitude of sediment, organic carbon (OC), and phosphorus supplies in a small sub-watershed connected to the lake over the last century, a lake sediment core was dated using Pb and Cs as geochronometers.

Enhancing Photosynthesis and Plant Productivity through Genetic Modification.

Enhancing crop photosynthesis through genetic engineering technologies offers numerous opportunities to increase plant productivity. Key approaches include optimizing light utilization, increasing cytochrome complex levels, and improving carbon fixation. Modifications to Rubisco and the photosynthetic electron transport chain are central to these strategies.

Quantifying salinity in calcareous soils through advanced spectroscopic models: A comparative study of random forests and regression techniques across diverse land use systems.

Precise prediction of soil salinity using visible, and near-infrared (vis-NIR) spectroscopy is crucial for ensuring food security and effective environmental management. This paper focuses on the precise prediction of soil salinity utilizing visible and near-infrared (vis-NIR) spectroscopy, a critical factor for food security and effective environmental management. The objective is to utilize vis-NIR spectra alongside a multiple regression model (MLR) and a random forest (RF) modeling approach to predict soil salinity across various land use types, such as farmlands, bare lands, and rangelands accurately.

CTGF, FN1, IL-6, THBS1, and WISP1 genes and PI3K-Akt signaling pathway as prognostic and therapeutic targets in gastric cancer identified by gene network modeling.

Objective: Gastric cancer (GC) is one of the most common malignancies worldwide and it is considered the fourth most common cause of cancer death. This study aimed to find critical genes/pathways in GC pathogenesis to be used as biomarkers or therapeutic targets.

Methods: Differentially expressed genes were explored between human gastric cancerous and noncancerous tissues, and Gene Ontology and Kyoto Encyclopedia of Genes and Genomes signaling pathway enrichment analyses were done.

Optimizing sustainable control of Meloidogyne javanica in tomato plants through gamma radiation-induced mutants of Trichoderma harzianum and Bacillus velezensis.

This study investigates the efficacy of Trichoderma spp. and Bacillus spp., as well as their gamma radiation-induced mutants, as potential biological control agents against Meloidogyne javanica (Mj) in tomato plants.

Genetic variations and gene expression profiles of Rice Black-streaked dwarf virus (RBSDV) in different host plants and insect vectors: insights from RNA-Seq analysis.

Rice black-streaked dwarf virus (RBSDV) is an etiological agent of a destructive disease infecting some economically important crops from the Gramineae family in Asia. While RBSDV causes high yield losses, genetic characteristics of replicative viral populations have not been investigated within different host plants and insect vectors. Herein, eleven publicly available RNA-Seq datasets from Chinese RBSDV-infected rice, maize, and viruliferous planthopper (Laodelphax striatellus) were obtained from the NCBI database.

Scale morphology variability in cyprinid fishes and its significance in taxonomy using light and scanning electron microscopy: A case study of the genus Garra Hamilton, 1822 (Teleostei: Cyprinidae).

To evaluate scale morphological variability (shape, size, topological macro- and microstructures, ornamentation patterns) of cyprinid fishes, nine species of the genus Garra were selected and their scales from five different body regions were studied by using light and scanning electron microscopy. The scales of the examined species were thin with a central or antero-centrally positioned focus, with no cteni in the posterior part. In addition to these typical characteristics, some morphological variation was observed in the overall shape (irregular round, true oval, round-triangular, irregular pentagonal, hexagonal, irregular hexagonal, pentagonal, ovoid), and the focus shape.

Exploring low-dose gamma radiation effects on monoterpene biosynthesis in Thymus vulgaris: insights into plant defense mechanisms.

Thymus vulgaris, commonly known as thyme, is a plant renowned for producing monoterpenes. This study aimed to understand the effects of low-dose gamma radiation, specifically in the range of 1-5 Gy, on various traits of Thymus vulgaris, providing context on its importance in agricultural and medicinal applications. The research explored morpho-physiological, biochemical, and gene-expression responses in thyme plants under no gamma- and gamma-ray exposure conditions.

Enhancing nutritional status, growth, and fruit quality of dried figs using organic fertilizers in rain-fed orchards: A case study in Estahban, Iran.

The majority of Iranian fig production is exported, making it one of the world's most well-known healthy crops. Therefore, the main objective of the current experiment was to investigate the effects of various types of organic fertilizers, such as animal manure (cow and sheep), bird manure (partridge, turkey, quail, and chicken), and vermicompost, on the nutritional status of trees, vegetative and reproductive tree characteristics, fruit yield, and fruit quality traits in dried fig cultivar ("Sabz"). According to the findings, applying organic fertilizers, particularly turkey and quail, significantly improves vegetative and reproductive characteristics.

Enhanced production of withaferin A from the hairy root culture of Withania somnifera via synergistic effect of Methyl jasmonate and β-cyclodextrin.

Due to low amounts of withanolides produced in some plants and high demand for various applications, their biotechnological production is widely researched. The effects of two explant types (i.e.

Probiotic performance of B. subtilis MS. 45 improves aquaculture of rainbow trout Oncorhynchus mykiss during acute hypoxia stress.

The aim of this study was to produce mutant strains of Bacillus subtilis with high probiotic performance for use in the aquaculture of rainbow trout Oncorhynchus mykiss. The main strain of B. subtilis (MS) was irradiated with gamma rays (5.

Gene Networks Analysis of Reveals New Insights on Key Genes Involved in Response to Low Water Activity.

Background: When , a foodborne bacterium, is exposed to osmotic stress, cellular adaptations increase virulence severity and cellular survival.

Objectives: The aim of the gene network analysis of was to provide insights into the various interactions between the genes involved in cellular survival under low water activity (a).

Materials And Methods: We performed a gene network analysis to identify the gene clusters and hub genes of using Cytoscape in three food samples subjected to a stress after 72 hours.

Unleashing the power of colloidal gold immunochromatographic assays for plant virus diagnostics.

The colloidal gold immunochromatographic assay (GICA) has become a popular method for the rapid detection of plant viruses. This assay format uses antibodies labeled with colloidal gold to capture and detect specific viral antigens in plant samples. GICA offers several advantages over traditional laboratory-based methods, including speed, ease of use, cost-effectiveness, and accessibility, making it an attractive option for plant virology diagnostics.

Molecular and biological investigating of tea plant necrotic ring blotch virus as a worldwide threat.

Tea plant necrotic ring blotch virus (TPNRBV) has emerged as a significant threat to tea plantations, primarily in China. Since 2020, similar symptoms have been observed in tea plants in northern Iran, raising concerns about the spread of this viral infection. In this study, we conducted an extensive investigation involving approximately 70 samples collected from both symptomatic and asymptomatic tea plants.