Genome analysis of a new Escherichia phage vB_EcoM_C2-3 with lytic activity against multidrug-resistant Escherichia coli

Kumlien, Ana Carolina Maganha de Almeida; Pérez-Vega, Clara; González-Villalobos, Edgar; Borrego, Carles M.; Balcázar, José Luís

doi:10.1016/j.virusres.2021.198623

Cited by 7 publications

(3 citation statements)

References 21 publications

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“…Phage genomes also harboured genes coding for tRNA (Ile)-lysidine synthase that may play a role in tRNA maturation 34 . In addition, the tRNAs may contribute to high phage infectivity and virulence 8,35,36 .…”

Section: Discussionmentioning

confidence: 99%

Comparative genomics and proteomics analysis of phages infecting multi-drug resistant Escherichia coli O177 isolated from cattle faeces

Montso,

Kropinski,

Mokoena

et al. 2023

Sci Rep

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The increasing prevalence of antimicrobial-resistant (AMR) pathogens has become a major global health concern. To address this challenge, innovative strategies such as bacteriophage therapy must be optimised. Genomic characterisation is a crucial step in identifying suitable phage candidates for combating AMR pathogens. The aim of this study was to characterise seven phages that infect the Escherichia coli O177 strain using a whole genome sequencing. The analysis of genome sequences revealed that these phages had linear dsDNA, with genome sizes spanning from 136, 483 to 166,791 bp and GC content varying from 35.39 to 43.63%. Taxonomically, the phages were classified under three different subfamilies (Stephanstirmvirinae, Tevenvirinae, and Vequintavirinae) and three genera (Phapecoctavirus, Tequatrovirus, and Vequintavirus) within the class Caudoviricetes. In silico PhageAI analysis predicted that all the phages were virulent, with confidence levels between 96.07 and 97.26%. The phage genomes contained between 66 and 82 ORFs, which encode hypothetical and putative functional proteins. In addition, the phage genomes contained core genes associated with molecular processes such as DNA replication, transcription modulation, nucleotide metabolism, phage structure (capsid and tail), and lysis. None of the genomes carried genes associated with undesirable traits such as integrase, antimicrobial resistance, virulence, and toxins. The study revealed high genome and proteome homology among E. coli O177 phages and other known Escherichia phages. The results suggest that the seven phages are new members of the genera Phapecoctavirus, Tequatrovirus, and Vequintavirus under the subfamilies Stephanstirmvirinae, Tevenvirinae, and Vequintavirinae, respectively.

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Section: Discussionmentioning

confidence: 99%

Comparative genomics and proteomics analysis of phages infecting multi-drug resistant Escherichia coli O177 isolated from cattle faeces

Montso,

Kropinski,

Mokoena

et al. 2023

Sci Rep

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“…The virus family represented by the largest number of phages in the panel (17) was Straboviridae (formerly Myoviridae ), including subfamily Tevenvirinae , genera Tequatrovirus (T4-like, 15 phages) and Mosigvirus (2 phages). T4-like phages are strictly lytic, do not show significant DNA sequence identity with bacterial genomes [ 37 , 38 ] and have broad host ranges among Shigella [ 23 , 39 ], pathogenic strains of E. coli [ 38 , 40 , 41 , 42 ], both E. coli and Salmonella [ 43 , 44 ], E. coli , Salmonella and Shigella [ 45 ], Yersinia pestis and Yersinia pseudotuberculosis [ 46 ], even Acinetobacter baumannii [ 47 ] and Stenotrophomonas maltophilia [ 48 ]. However, S. maltophilia T4-like phage DLP6 encodes a transposon that might stimulate gene transfer and thus is not a favorable candidate for phage therapy [ 48 ].…”

Section: Discussionmentioning

confidence: 99%

Design of a Bacteriophage Cocktail Active against Shigella Species and Testing of Its Therapeutic Potential in Galleria mellonella

Filippov

Sergueev

et al. 2022

Antibiotics

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Shigellosis is a leading global cause of diarrheal disease and travelers’ diarrhea now being complicated by the dissemination of antibiotic resistance, necessitating the development of alternative antibacterials such as therapeutic bacteriophages (phages). Phages with lytic activity against Shigella strains were isolated from sewage. The genomes of 32 phages were sequenced, and based on genomic comparisons belong to seven taxonomic genera: Teetrevirus, Teseptimavirus, Kayfunavirus, Tequatrovirus, Mooglevirus, Mosigvirus and Hanrivervirus. Phage host ranges were determined with a diverse panel of 95 clinical isolates of Shigella from Southeast Asia and other geographic regions, representing different species and serotypes. Three-phage mixtures were designed, with one possessing lytic activity against 89% of the strain panel. This cocktail exhibited lytic activity against 100% of S. sonnei isolates, 97.2% of S. flexneri (multiple serotypes) and 100% of S. dysenteriae serotypes 1 and 2. Another 3-phage cocktail composed of two myophages and one podophage showed both a broad host range and the ability to completely sterilize liquid culture of a model virulent strain S. flexneri 2457T. In a Galleria mellonella model of lethal infection with S. flexneri 2457T, this 3-phage cocktail provided a significant increase in survival.

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“…At the same time, no genes related to lysozyme, antibiotic resistance and virulence factors were found, and it also had strong viability under low temperature and strong alkaline conditions, which has good potential for controlling Salmonella in the food industry. The Escherichia coli phage vB_EcoM_C2-3 was isolated from sewage by Maganha et al [16]. This phage was found to be a new member of the T4-like phage, and its genomic characteristics provided valuable insights for the use of potential biocontrol agents to control multi-drug resistant E. coli.…”

Section: Introductionmentioning

confidence: 99%

Isolation and Characterization of Bacteriophage VA5 against Vibrio alginolyticus

Hao,

Bai,

Zhou

et al. 2023

Microorganisms

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Bacteriophages, or phages, can be used as natural biological control agents to eliminate pathogenic bacteria during aquatic product cultivation. Samples were collected from seafood aquaculture water and aquaculture environmental sewage, and phage VA5 was isolated using the double-layer agar plate method, with Vibrio alginolyticus as the host bacteria. The purified phage strain was subjected to genome sequencing analysis and morphological observation. The optimal multiplicity of infection (MOI), the one-step growth curve, temperature stability, and pH stability were analyzed. Phage VA5 was observed to have a long tail. Whole-genome sequencing revealed that the genome was circular dsDNA, with 35,866 bp length and 46% G+C content. The optimal MOI was 1, the incubation period was 20 min, the outbreak period was 30 min, and the cleavage amount was 92.26 PFU/cell. The phage showed good activity at −20 °C, 70 °C, and pH 2–10. Moreover, the phage VA5 exhibited significant inhibitory effects on V. alginolyticus-infected shrimp culture. The isolated phage VA5 has a wide range of host bacteria and is a good candidate for biological control of pathogenic bacteria.

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Genome analysis of a new Escherichia phage vB_EcoM_C2-3 with lytic activity against multidrug-resistant Escherichia coli

Cited by 7 publications

References 21 publications

Comparative genomics and proteomics analysis of phages infecting multi-drug resistant Escherichia coli O177 isolated from cattle faeces

Comparative genomics and proteomics analysis of phages infecting multi-drug resistant Escherichia coli O177 isolated from cattle faeces

Design of a Bacteriophage Cocktail Active against Shigella Species and Testing of Its Therapeutic Potential in Galleria mellonella

Isolation and Characterization of Bacteriophage VA5 against Vibrio alginolyticus

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