Engineering bacteriophages for targeted superbug eradication

Molecular Biology Reports, Journal Year: 2025, Volume and Issue: 52(1)

Published: Feb. 11, 2025

Language: Английский

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Co-opting bacterial viruses for DNA exchange: structure and regulation of gene transfer agents

Current Opinion in Microbiology, Journal Year: 2024, Volume and Issue: 78, P. 102431 - 102431

Published: Feb. 2, 2024

Horizontal gene transfer occurs via a range of mechanisms, including transformation, conjugation and bacteriophage transduction. Gene agents (GTAs) are an alternative, less-studied route for interbacterial DNA exchange. Encoded within bacterial or archaeal genomes, GTAs assemble into phage-like particles that selflessly package transmit host to recipient bacteria. Several unique features distinguish from canonical phages such as inability self-replicate, thus producing non-infectious particles. also deeply integrated the physiology cell maintained under tight host-regulatory control. Recent advances in understanding structure regulation have provided further insights mechanism is proving increasingly widespread across tree life.

Language: Английский

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Torque Teno Virus: Lights and Shades

Viruses, Journal Year: 2025, Volume and Issue: 17(3), P. 334 - 334

Published: Feb. 27, 2025

Torque Teno Virus (TTV) is a highly prevalent non-pathogenic DNA virus whose plasma levels may be related to the host’s immune status. TTV gained attention about 25 years ago, but its replication not fully understood, nor relationship with host's system. Despite this lack of knowledge, currently being investigated as functional biomarker system in patients immunological damage and inflammatory diseases. Monitoring viral load over time help clinicians making therapeutic decisions regarding immunosuppression well likelihood infectious complications. This review summarizes what we do know enigmatic virus.

Language: Английский

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A Survey on Sugarcane Mosaic Symptoms Leads to the First Report of Sugarcane Chlorotic Streak Virus in Cameroon

Sugar Tech, Journal Year: 2025, Volume and Issue: unknown

Published: Jan. 9, 2025

Language: Английский

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AutoPVPrimer: A comprehensive AI-Enhanced pipeline for efficient plant virus primer design and assessment

PLoS ONE, Journal Year: 2025, Volume and Issue: 20(1), P. e0317918 - e0317918

Published: Jan. 30, 2025

Plant viruses pose a significant threat to global agriculture and require efficient tools for their timely detection. We present AutoPVPrimer, an innovative pipeline that integrates artificial intelligence (AI) machine learning accelerate the development of plant virus primers. The uses Biopython automatically retrieve different genomic sequences from NCBI database increase robustness subsequent primer design. design_primers_with_tuning module random forest classifier optimizes parameters provides flexibility experimental conditions. Quality control measures, including evaluation poly-X content melting temperature, reliability. Unique AutoPVPrimer is visualize_primer_dimer module, which supports visual dimers—a feature missing in other tools. Primer specificity validated via BLAST, contributes overall efficiency pipeline. has been successfully applied tomato mosaic virus, proving its adaptability efficiency. modular design allows customization by user extends applicability scenarios. represents advance researchers with effective tool molecular biology experiments. Future developments aim extend compatibility incorporate feedback consolidate as contribution bioinformatics toolbox promising resource advancement virology research.

Language: Английский

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Towards a unifying phylogenomic framework for tailed phages

PLoS Genetics, Journal Year: 2025, Volume and Issue: 21(2), P. e1011595 - e1011595

Published: Feb. 5, 2025

Classifying viruses systematically has remained a key challenge of virology due to the absence universal genes and vast genetic diversity viruses. In particular, most dominant diverse group viruses, tailed double-stranded DNA prokaryotes belonging class Caudoviricetes , lack sufficient homology in machinery that unifies them reconstruct inclusive, stable phylogenies these genes. While previous approaches organize phage have managed distinguish various taxonomic levels, methods are limited scalability reproducibility, they do not include modes evolution, like gene gains losses. Here, we present novel, comprehensive, reproducible framework for examining evolutionary relationships phages. this framework, compare genomes based on presences absences fixed set families which is used as binary trait data input into maximum likelihood models heterogeneous rates losses gains. Our resulting phylogeny stably recovers known phages, with without inclusion metagenomic We also quantify mosaicism replication structural among families. results suggest exchanges likely underpin emergence new Additionally, apply large phages (>100 kilobases) map emergences traits associated genome expansion. Taken together, charting organizing improves systemization taxonomy, can unify studies advance our understanding their evolution.

Language: Английский

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Molecular characterization of a novel deltaflexivirus from the plant-pathogenic fungus Neopestalotiopsis nebuloides strain N-7

Archives of Virology, Journal Year: 2025, Volume and Issue: 170(3)

Published: Feb. 8, 2025

Language: Английский

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The pathological characteristics of enzootic nasal adenocarcinoma in goats

Journal of Veterinary Research, Journal Year: 2025, Volume and Issue: 69(1), P. 151 - 157

Published: March 1, 2025

Abstract Introduction Enzootic nasal adenocarcinoma (ENA) is a cancer that occurs in goats and sheep infected by enzootic tumour virus. Pathologic examinations are useful for distinguishing tumours from inflammatory hyperplasia. The aim of this study was to describe the pathological characteristics ENA. Material Methods Caprine samples were collected examination. tissue sections stained with haematoxylin-eosin periodic acid-Schiff (PAS) processed immunohistochemical staining. Tumour also routine transmission electron microscopy (TEM). Results histopathological structure exhibited both papillary formations superficial regions tubular or acinar deeper layers, representing distinct structural patterns within same adenocarcinoma. cells positive PAS, mitotic figures rare. Low-differentiated nests epithelial–mesenchymal transition phenomena observed. Immunohistochemical analysis showed strongly pancytokeratin cytokeratin (CK)18, moderately CK7, did not express olfactory marker protein. Kiel 67 labelling index approximately 23%. Retrovirus-like particles distributed inside outside TEM. Conclusion origin site ENA epithelium glandular tubules. This low-grade malignant potential. Cytokeratin 7 CK18 can be considered immunophenotypes identifying cells.

Language: Английский

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The Stalk and 1B Domains Are Required for Porcine Deltacoronavirus Helicase NSP13 to Separate the Double-Stranded Nucleic Acids, and the Deletion of the ZBD Impairs This Activity

Animals, Journal Year: 2025, Volume and Issue: 15(6), P. 865 - 865

Published: March 18, 2025

The nonstructural protein 13 (NSP13) of PDCoV is a highly conservative helicase and plays key roles in viral replication. NSP13 contains zinc-binding domain (ZBD), helical Stalk domain, beta-barrel 1B core domain. However, the specific functions these domains remain largely unknown. Here, we expressed purified wild-type NSP13WT various mutants with deletions, activities proteins were analyzed using multiple methods. We found that NSP13ΔZBD possessed abilities to hydrolyze ATP unwind double-stranded nucleic acids, but unwinding efficiency was lower than NSP13WT. In contrast, NSP13ΔZBD-Stalk, NSP13Δ1B, NSP13ΔZBD-Stalk-1B all lost their activity, not ATPase activity. These results revealed deletion ZBD impaired activity NSP13, critical for separate duplexes. identification each this study helpful gain an in-depth understanding overall providing theoretical basis development antiviral drugs targeting helicase.

Language: Английский

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Identification and Characterization of Three Novel Iflaviruses in the Cabbage Whitefly Aleyrodes proletella

Insects, Journal Year: 2025, Volume and Issue: 16(4), P. 335 - 335

Published: March 22, 2025

The cabbage whitefly (A. proletella) (Hemiptera: Aleyrodidae) is a major agricultural pest that primarily targets cruciferous crops, such as cabbage, broccoli, and kale, causing extensive damage through feeding honeydew. However, its associated virome has received limited research attention. In this study, we collected whiteflies in Xinjiang Agricultural University (43.80833 N, 87.56778 E, 882.3 m), systematically identified the RNA of A. proletella successfully three novel iflaviruses (Aleyrodes iflavirus 1 (APIV1), Aleyrodes 2 (APIV2) 3 (APIV3)). APIV1-3 all have 5' structural protein region 3' non-structural region. Phylogenetic sequence identity analyses suggest are members family Iflaviridae. Structural modeling using AlphaFold3 revealed conserved core variable outer loop This study provides valuable insights into diversity proletella, establishing foundation for future on virus-host interactions potential biocontrol applications sustainable agriculture.

Language: Английский

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