Unlocking hidden phage diversity to complete the BASEL collection for systematic exploration of phage-host interactions DOI Creative Commons
Dorentina Humolli,

Damien Piel,

Enea Maffei

и другие.

bioRxiv (Cold Spring Harbor Laboratory), Год журнала: 2024, Номер unknown

Опубликована: Сен. 12, 2024

Abstract Research on bacteriophages, the viruses infecting bacteria, has fueled development of modern molecular biology and inspired their therapeutic application to combat bacterial multidrug resistance. However, most work so far focused a few model phages which impedes direct applications these findings in clinics suggests that vast potential powerful remained untapped. We have therefore recently composed BASEL collection Escherichia coli (BActeriophage SElection for your Laboratory) made relevant diversity E. K-12 laboratory strain accessible community. These are widely used, but assorted had limited by host. now genetically overcome two major limitations K-12, its lack O-antigen glycans presence resident immunity. Restoring expression resulted isolation diverse additional viral groups like Kagunavirus, Nonanavirus, Gordonclarkvirinae, Gamaleyavirus, while eliminating all known antiviral defenses additionally enabled us isolate Wifcevirus genus. Even though some appear be common nature, no from any them previously been isolated using strains they thus largely understudied. Overall, 37 new phage isolates added complete collection. were deeply characterized genomically phenotypically with regard host receptors, sensitivity defense systems, range. results highlighted dominant roles barrier recognition restriction-modification systems anticipate completed will propel research phage-host interactions mechanisms, deepening our understanding ecology fostering innovations biotechnology antimicrobial therapy.

Язык: Английский

Evolution and ecology of anti-defence systems in phages and plasmids DOI Creative Commons
Théophile Niault, Stineke van Houte, Edze R. Westra

и другие.

Current Biology, Год журнала: 2025, Номер 35(1), С. R32 - R44

Опубликована: Янв. 1, 2025

Язык: Английский

Процитировано

1
Completing the BASEL phage collection to unlock hidden diversity for systematic exploration of phage–host interactions DOI Creative Commons
Dorentina Humolli,

Damien Piel,

Enea Maffei

и другие.

PLoS Biology, Год журнала: 2025, Номер 23(4), С. e3003063 - e3003063

Опубликована: Апрель 7, 2025

Research on bacteriophages, the viruses infecting bacteria, has fueled development of modern molecular biology and inspired their therapeutic application to combat bacterial multidrug resistance. However, most work so far focused a few model phages which impedes direct applications these findings in clinics suggests that vast potential powerful remained untapped. We have therefore recently composed BASEL collection Escherichia coli (BActeriophage SElection for your Laboratory), made relevant diversity E. K-12 laboratory strain accessible community. These are widely used, but assorted limited by host. now genetically overcome two major limitations K-12, its lack O-antigen glycans presence resident immunity. Restoring expression resulted isolation diverse additional viral groups like Kagunavirus , Nonanavirus Gordonclarkvirinae Gamaleyavirus while eliminating all known antiviral defenses additionally enabled us isolate Wifcevirus genus. Even though some appear be common nature, no from any them had previously been isolated using strains, they thus largely understudied. Overall, 37 new phage isolates added complete collection. were deeply characterized genomically phenotypically with regard host receptors, sensitivity defense systems, range. results highlighted dominant roles barrier recognition restriction-modification systems anticipate completed will propel research phage–host interactions mechanisms, deepening our understanding ecology fostering innovations biotechnology antimicrobial therapy.

Язык: Английский

Процитировано

0
Advancing RNA phage biology through meta-omics DOI Creative Commons
Jens Hör

Nucleic Acids Research, Год журнала: 2025, Номер 53(8)

Опубликована: Апрель 22, 2025

Abstract Bacteriophages with RNA genomes are among the simplest biological entities on Earth. Since their discovery in 1960s, they have been used as important models to understand principal processes of life, including translation and genetic code. While phages were generally thought rare oddities nature, meta-omics methods rapidly changing this simplistic view by studying diverse biomes unprecedented resolution. Metatranscriptomics dramatically expanded number known from tens thousands, revealed widespread abundance, discovered several new families potential largely unknown hosts, biology, environmental impact. At same time, (meta)genomic analyses bacterial hosts discovering an arsenal defense systems bacteria employ protect themselves predation, whose functions immunity against we only beginning understand. Here, I review how approaches advancing field phage biology a focus might fight them.

Язык: Английский

Процитировано

0
Systematic functional assessment of antiphage systems in their native host DOI Creative Commons
Emmanuelle David,

Clarisse Plantady,

Sophiane Poissonnier

и другие.

bioRxiv (Cold Spring Harbor Laboratory), Год журнала: 2024, Номер unknown

Опубликована: Дек. 21, 2024

Summary Bacterial resistance to bacteriophages (phages) relies on two primary strategies: preventing phage attachment and blocking post-attachment steps. These latter mechanisms are mediated by defence systems, including DNA-degrading systems such as Restriction- Modification (RM) CRISPR-Cas, well abortive infection that induce cell death or dormancy. Computational studies suggest bacterial genomes encode several which may act synergistically enhance resistance. However, the regulation, interactions, ecological roles of these in native hosts remain poorly understood. This study explored role eight predicted clinical isolate NILS69 E. coli testing its susceptibility 93 phages. Infectivity adsorption assays using mutants defective revealed only PD-T4-3 RM restricted phages able adsorb. The system acted via a Type IV endonuclease was also limit plasmid conjugation if transferred from donor strain lacking methylase, is hallmark I, II III systems. Other showed no detectable activity, likely due specificity, environmental cofactor requirements. findings underscore need for further investigate regulation their host contexts.

Язык: Английский

Процитировано

2
Unlocking hidden phage diversity to complete the BASEL collection for systematic exploration of phage-host interactions DOI Creative Commons
Dorentina Humolli,

Damien Piel,

Enea Maffei

и другие.

bioRxiv (Cold Spring Harbor Laboratory), Год журнала: 2024, Номер unknown

Опубликована: Сен. 12, 2024

Abstract Research on bacteriophages, the viruses infecting bacteria, has fueled development of modern molecular biology and inspired their therapeutic application to combat bacterial multidrug resistance. However, most work so far focused a few model phages which impedes direct applications these findings in clinics suggests that vast potential powerful remained untapped. We have therefore recently composed BASEL collection Escherichia coli (BActeriophage SElection for your Laboratory) made relevant diversity E. K-12 laboratory strain accessible community. These are widely used, but assorted had limited by host. now genetically overcome two major limitations K-12, its lack O-antigen glycans presence resident immunity. Restoring expression resulted isolation diverse additional viral groups like Kagunavirus, Nonanavirus, Gordonclarkvirinae, Gamaleyavirus, while eliminating all known antiviral defenses additionally enabled us isolate Wifcevirus genus. Even though some appear be common nature, no from any them previously been isolated using strains they thus largely understudied. Overall, 37 new phage isolates added complete collection. were deeply characterized genomically phenotypically with regard host receptors, sensitivity defense systems, range. results highlighted dominant roles barrier recognition restriction-modification systems anticipate completed will propel research phage-host interactions mechanisms, deepening our understanding ecology fostering innovations biotechnology antimicrobial therapy.

Язык: Английский

Процитировано

1