Pathogenomic analysis and characterization of Pasteurella multocida strains recovered from human infections DOI Creative Commons
Thomas R. Smallman, Laura Perlaza-Jiménez,

Xiaochu Wang

и другие.

Microbiology Spectrum, Год журнала: 2024, Номер 12(4)

Опубликована: Март 1, 2024

ABSTRACT Pasteurella multocida is an upper respiratory tract commensal in several mammal and bird species but can also cause severe disease humans production animals such as poultry, cattle, pigs. In this study, we performed whole-genome sequencing of P. isolates recovered from a range human infections, the mouths cats, wounds on dogs. Together with publicly available genome sequences, phylogenetic comparative genomic analyses. While cats dogs were spread across tree, infections caused almost exclusively by subsp. septica strains. Most capsule type A LPS L1 L3; however, some strains lacked biosynthesis locus, contained novel outer-core distinct eight loci that currently be identified using multiplex PCR. addition, isolated mobile genetic elements. We compiled curated database known virulence factor antibiotic resistance genes (PastyVRDB) allowing for detailed characterization isolates. The majority encoded reduced iron receptors only one filamentous hemagglutinin gene. Finally, gene-trait analysis putative L-fucose uptake utilization pathway was over-represented may represent host predilection mechanism subspecies. Together, these analyses have pathogenic mechanisms likely important zoonotic infections. IMPORTANCE serious humans, including skin wound pneumonia, peritonitis, meningitis, bacteraemia. Cats are vectors pasteurellosis, transmitting via bite or contact animal saliva. underpin pathogenesis poorly understood. With increasing identification antibiotic-resistant strains, understanding vital developing treatments control strategies to combat infection. Here, show narrow while dogs, common harbor wide present -specific database, quick newly sequenced

Язык: Английский

Combinatorial phenotypic landscape enables bacterial resistance to phage infection DOI Creative Commons
Anika Gupta, Norma M. Morella, Dmitry Sutormin

и другие.

bioRxiv (Cold Spring Harbor Laboratory), Год журнала: 2025, Номер unknown

Опубликована: Янв. 15, 2025

Success of phage therapies is limited by bacterial defenses against phages. While a large variety anti- defense mechanisms has been characterized, how expression these systems distributed across individual cells and their combined activities translate into protection from phages not studied. Using single-cell RNA sequencing, we profiled the transcriptomes ∼50,000 cultures human pathobiont, Bacteroides fragilis, infected with lytic bacteriophage. We quantified asynchronous progression infection in single reconstructed timeline, characterizing both host transcriptomic changes as unfolded. discovered subpopulation bacteria that remained uninfected determined heterogeneously expressed factors associated protection. Each cell's vulnerability to was defined combinatorial phase-variable multiple genetic loci, including capsular polysaccharide (CPS) biosynthesis pathways, restriction-modification (RM), previously uncharacterized operon likely encoding fimbrial genes. By acting together, anti-phage create phenotypic landscape where distinct protective combinations enable survival re-growth expressing phenotypes without acquiring additional mutations. The emerging model complementary action an isogenic population showcases potent role phase variation stochasticity defenses. Combinatorial states differential fragilis small number super-resistant evade need for

Язык: Английский

Процитировано

1
Isolation of an E. coli flagellotrophic Jumbophage SHEFM2K that replicates in cytoplasmic putative assembly areas DOI
Ghadah Alsharif, Trong Khoa Pham,

AM Connolly

и другие.

Microbiological Research, Год журнала: 2025, Номер 293, С. 128082 - 128082

Опубликована: Янв. 29, 2025

Язык: Английский

Процитировано

1
Phage cocktail against Vibrio parahaemolyticus causing acute hepatopancreatic necrosis disease (AHPND) in Penaeus vannamei: genomic, biological, and pathological characterization. DOI
Sonia A. Soto-Rodríguez, Eduardo Quiróz-Guzmán, Bruno Gómez‐Gil

и другие.

Microbial Pathogenesis, Год журнала: 2025, Номер 200, С. 107354 - 107354

Опубликована: Фев. 1, 2025

Язык: Английский

Процитировано

1
Characterising phages for the control of pathogenic bacteria associated with bivalve consumption DOI Creative Commons
Pedro Costa, Carla Pereira, Vanessa Oliveira

и другие.

International Journal of Food Microbiology, Год журнала: 2025, Номер 432, С. 111096 - 111096

Опубликована: Фев. 8, 2025

In the present study, five new bacteriophages (or phages) were characterized, and their efficacy in controlling pathogenic bacteria-Escherichia coli, Salmonella enterica serovar Typhimurium, Enteritidis, Aeromonas hydrophila, Vibrio parahaemolyticus-associated with bivalve consumption was evaluated. The isolated phages include both siphovirus [vB_EcoS_UALMA_PCEc3 (PCEc3), vB_SeTS_UALMA_PCST1 (PCST1), vB_VpaS_UALMA_PCVp3 (PCVp3)] myovirus [vB_SeEM_UALMA_PCSE1 (PCSE1) vB_AhyM_UALMA_PCAh2 (PCAh2)] morphotypes. Four are safe for bacterial control, only one (PCAh2) showing potential lysogenic characteristics. All exhibited a narrow host range, capable of infecting up to six additional strains besides original host, four could infect bacteria other phages. Adsorption rates ranged from 24% 98% within 1 h. One-step growth assays revealed different latent periods, ranging 10 120 min, low average burst sizes, 7.60 83.97 PFU/mL. Generally, increasing multiplicity infection (MOI) enhanced phage efficiency significantly. effectively reduced load respective hosts, achieving maximum reductions between 3.73 5.57 log CFU/mL h treatment. These results suggest that biocontrol can be an effective alternative combat associated consumption.

Язык: Английский

Процитировано

1
Discovery, structural characteristics and evolutionary analyses of functional domains in Acinetobacter baumannii phage tail fiber/spike proteins DOI Creative Commons

Shenshen Liu,

Tao Lei, Yujing Tan

и другие.

BMC Microbiology, Год журнала: 2025, Номер 25(1)

Опубликована: Фев. 12, 2025

Abstract Background The global rise in multidrug-resistant Acinetobacter baumannii infections poses a significant healthcare challenge. Bacteriophage offer promising alternative to antibiotics for treating A. infections. Phage tail fiber and spike proteins are essential host recognition, with some exhibiting depolymerase activity that aids degrading the bacterial cell wall, facilitating infection. Detailed studies of functional domains responsible receptor-binding phage fiber/spike crucial step toward developing effective treatments. Results A total 32 were identified across 313 from 204 publicly available phages using InterPro AlphaFold3. Domains associated function Pectin lyase-like domain (PLD), phage_tailspike_middle (PTMD), Transglycosidases (TGD), SGNH hydrolase (SHD). These primarily found Autographiviridae family, specifically within Friunavirus genus. predominant PLD displayed high variability, its sequence conserved only 25-amino-acid region among two closely related protein lineages. All enzymatic exhibit diversity yet retain structural stability, which is function. As domains, four types pyocin_knob (PKD) initially identified, characterized by unique β-sheet α-helix configurations. Each type PKD exhibited distinct potential sites, located region, was Obolenskvirus genus, as well Straboviridae families. G3DSA:2.60.40.3940 domain, minor variations, predominantly Additionally, novel Obo-β-sandwich structure, discovered genus cluster. these accounts their interactions various receptors. Conclusions This research deepens understanding relationship between genera proteins, emphasizing compatibility characteristics roles. data obtained could serve reference targeted modification or enhancing therapeutic applications.

Язык: Английский

Процитировано

1
High-Performance Genome Annotation for a Safer and Faster-Developing Phage Therapy DOI Creative Commons
Antoine Culot, Guillaume Abriat,

Kieran P. Furlong

и другие.

Viruses, Год журнала: 2025, Номер 17(3), С. 314 - 314

Опубликована: Фев. 25, 2025

Phage therapy, which uses phages to decrease bacterial load in an ecosystem, introduces a multitude of gene copies (bacterial and phage) into said ecosystem. While it is widely accepted that have significant impact on ecology, the mechanisms underlying their are not well understood. It therefore paramount understand what released avoid alterations with difficult-to-predict—but potentially huge—consequences. An in-depth annotation therapeutic phage genomes essential. Currently, average published genome has only 20–30% functionally annotated genes, represents hurdle overcome deliver safe for both patients environment. This study aims compare effectiveness manual versus automated methods. Twenty-seven were using SEA-PHAGE Rime Bioinformatics protocols. The structural (gene calling) functional results compared. suggest during step, method was able identify 1.5 more genes per (typically frameshift gene) 5.3 start sites phage. Despite this difference, appeared be limited: average, 1.2 had erroneous functions, caused by annotation. Bioinformatics’ tool (rTOOLS, v2) performed better at assigning especially where methods assigned hypothetical proteins: 7.0 compared SEA PHAGE’s 1.7. comparison detailed article indicate (1) marginally superior rTOOLS annotation; (2) Previously, way obtain high-quality protocols, such as SEA-PHAGES. In relatively new field requires support advance, work can problematic due its high cost. software allows time money saved providing annotations comparable results, enabling safer faster-developing therapy.

Язык: Английский

Процитировано

1
Isolation and Optimization of Phages Infecting Members of the Streptococcus bovis/Streptococcus equinus Complex DOI Creative Commons

Jenny Laverde Gomez,

Cory Schwarz,

Marina Tikhonova

и другие.

Applied Microbiology, Год журнала: 2025, Номер 5(1), С. 28 - 28

Опубликована: Март 4, 2025

Background: Cattle production is a cornerstone of U.S. agriculture but faces increasing pressure to balance profitability with environmental sustainability. Optimizing the ruminal microbiome enhance feed efficiency could help address both challenges. Members Streptococcus bovis/Streptococcus equinus complex (SBSEC) are key contributors acidosis and related digestive disorders due their role in carbohydrate fermentation lactic acid production. Bacteriophages targeting this bacterial group present promising approach mitigate problem high precision without promoting spread antibiotic resistance. Methods: A collection SBSEC-targeting bacteriophages were isolated from cattle rumen fluid feces further characterized. Characterization included host-range evaluation, whole genome sequencing, growth inhibition assessment via optical density measurements. Selected underwent training infectivity. Results: Eleven lytic one lysogenic phage isolated. Several phages demonstrated sustained suppression, showing efficacy against SBSEC bacteria diverse sources despite narrow host ranges. Co-evolutionary was done subset improve bacteriolytic activity had an inconsistent effect on ability inhibit naïve host. Genomic sequencing phylogenetic analysis revealed uniqueness clustering into three distinct groups that matched phenotypic characteristics. Conclusions: This study demonstrates potential as precise biological control agents, successful isolation enhancement bacteria. genome-sequenced show promise for development additives, though research needed optimize application agricultural settings.

Язык: Английский

Процитировано

1
Beneath the surface: Unsolved questions in soil virus ecology DOI Creative Commons
Christina Hazard, Karthik Anantharaman, Luke S. Hillary

и другие.

Soil Biology and Biochemistry, Год журнала: 2025, Номер unknown, С. 109780 - 109780

Опубликована: Март 1, 2025

Язык: Английский

Процитировано

1
Genome sequence of the broad-host-range phage phi1_092033 against Acinetobacter baumannii DOI Open Access
Jiayuan Qin, Wei Li, Yu Feng

и другие.

Microbiology Resource Announcements, Год журнала: 2025, Номер unknown

Опубликована: Март 25, 2025

ABSTRACT We report the genome of a phage phi1_092033, isolated from sewage, which effectively lyses carbapenem-resistant Acinetobacter baumannii strains various capsule types. phi1_092033 represents species genus Saclayvirus . Its consists 104,070 bp, with GC content 38%, containing 188 protein-coding sequences and 13 tRNAs.

Язык: Английский

Процитировано

1
Incomplete lytic cycle of a widespread Bacteroides bacteriophage leads to the formation of defective viral particles DOI Creative Commons
Sol Vendrell-Fernández, Beatriz Beamud,

Yasmina Abou Haydar

и другие.

PLoS Biology, Год журнала: 2025, Номер 23(3), С. e3002787 - e3002787

Опубликована: Март 31, 2025

Advances in metagenomics have led to the identification of new intestinal temperate bacteriophages. However, their experimental characterization remains challenging due a limited understanding lysogenic-lytic cycle and common lack plaque formation vitro. In this study, we investigated hankyphage, widespread transposable phage prominent Bacteroides symbionts. Hankyphages spontaneously produced virions laboratory conditions even absence inducer, but did not show any evidence infectivity. To increase virion production raise chances observing infection events, identified master repressor hankyphage lytic cycle, RepC HP , whose silencing amplified gene expression, enhanced replicative transposition production. attempts infect or lysogenize host cells with different capsular types remained unsuccessful. Transmission electron microscopy capsid DNA sequencing revealed an abnormal morphology incomplete packaging suggesting that it cannot complete its assembly for reasons are yet be identified. Still, metavirome phylogenetic analyses were suggestive horizontal transmission. We could also detect activity diversity-generating retroelements (DGRs) mutagenize tail fiber, likely contribute broad range. This study sheds light on life abundant bacteriophage highlights important gaps our factors required completion cycle. Elucidating puzzle will critical gain better biology ecological role.

Язык: Английский

Процитировано

1