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1.
J Virol ; 98(9): e0074524, 2024 Sep 17.
Artículo en Inglés | MEDLINE | ID: mdl-39177355

RESUMEN

In tailed phages, the baseplate is the macromolecular structure located at the tail distal part, which is directly implicated in host recognition and cell wall penetration. In myophages (i.e., with contractile tails), the baseplate is complex and comprises a central puncturing device and baseplate wedges connecting the hub to the receptor-binding proteins (RBPs). In this work, we investigated the structures and functions of adsorption-associated tail proteins of Deep-Blue and Vp4, two Herelleviridae phages infecting members of the Bacillus cereus group. Their interest resides in their different host spectrum despite a high degree of similarity. Analysis of their tail module revealed that the gene order is similar to that of the Listeria phage A511. Among their tail proteins, Gp185 (Deep-Blue) and Gp112 (Vp4) had no structural homolog, but the C-terminal variable parts of these proteins were able to bind B. cereus strains, confirming their implication in the phage adsorption. Interestingly, Vp4 and Deep-Blue adsorption to their hosts was also shown to require polysaccharides, which are likely to be bound by the arsenal of carbohydrate-binding modules (CBMs) of these phages' baseplates, suggesting that the adsorption does not rely solely on the RBPs. In particular, the BW Gp119 (Vp4), harboring a CBM fold, was shown to effectively bind to bacterial cells. Finally, we also showed that the putative baseplate hub proteins (i.e., Deep-Blue Gp189 and Vp4 Gp110) have a bacteriolytic activity against B. cereus strains, which supports their role as ectolysins locally degrading the peptidoglycan to facilitate genome injection. IMPORTANCE: The Bacillus cereus group comprises closely related species, including some with pathogenic potential (e.g., Bacillus anthracis and Bacillus cytotoxicus). Their toxins represent the most frequently reported cause of food poisoning outbreaks at the European level. Bacteriophage research is undergoing a remarkable renaissance for its potential in the biocontrol and detection of such pathogens. As the primary site of phage-bacteria interactions and a prerequisite for successful phage infection, adsorption is a crucial process that needs further investigation. The current knowledge about B. cereus phage adsorption is currently limited to siphoviruses and tectiviruses. Here, we present the first insights into the adsorption process of Herelleviridae Vp4 and Deep-Blue myophages preying on B. cereus hosts, highlighting the importance of polysaccharide moieties in this process and confirming the binding to the host surface of Deep-Blue Gp185 and Vp4 Gp112 receptor-binding proteins and Gp119 baseplate wedge.


Asunto(s)
Fagos de Bacillus , Bacillus cereus , Bacillus cereus/virología , Bacillus cereus/metabolismo , Fagos de Bacillus/metabolismo , Fagos de Bacillus/genética , Myoviridae/genética , Myoviridae/metabolismo , Proteínas de la Cola de los Virus/metabolismo , Proteínas de la Cola de los Virus/química , Proteínas de la Cola de los Virus/genética , Acoplamiento Viral , Especificidad del Huésped , Polisacáridos/metabolismo
2.
Appl Environ Microbiol ; 90(9): e0069424, 2024 Sep 18.
Artículo en Inglés | MEDLINE | ID: mdl-39132999

RESUMEN

Temperate P335 phage TP901-1 represents one of the best-characterized Gram-positive phages regarding its structure and host interactions. Following its reversible adsorption to the polysaccharidic side-chain of the cell wall polysaccharide of its host Lactococcus cremoris 3107, TP901-1 requires a glucosylated cell envelope moiety to trigger its genome delivery into the host cytoplasm. Here, we demonstrate that three distinct single amino acid substitutions in the Tal protein of TP901-1 baseplate are sufficient to overcome the TP901-1 resistance of three L. cremoris 3107 derivatives, whose resistance is due to impaired DNA release of the phage. All of these Tal alterations are located in the N-terminally located gp27-like domain of the protein, conserved in many tailed phages. AlphaFold2 predictions of the Tal mutant proteins suggest that these mutations favor conformational changes necessary to reposition the Tal fiber and thus facilitate release of the tape measure protein from the tail tube and subsequent DNA ejection in the absence of the trigger otherwise required for phage genome release. IMPORTANCE: Understanding the molecular mechanisms involved in phage-host interactions is essential to develop phage-based applications in the food and probiotic industries, yet also to reduce the risk of phage infections in fermentations. Lactococcus, extensively used in dairy fermentations, has been widely employed to unravel such interactions. Phage infection commences with the recognition of a suitable host followed by the release of its DNA into the bacterial cytoplasm. Details on this latter, irreversible step are still very scarce in lactococci and other Gram-positive bacteria. We demonstrate that a component of the baseplate of the lactococcal phage TP901-1, the tail-associated lysin (Tal), is involved in the DNA delivery into its host, L. cremoris 3107. Specifically, we have found that three amino acid changes in Tal appear to facilitate structural rearrangements in the baseplate necessary for the DNA release process, even in the absence of an otherwise required host trigger.


Asunto(s)
Bacteriófagos , ADN Viral , Lactococcus , Bacteriófagos/genética , Bacteriófagos/fisiología , Lactococcus/virología , Lactococcus/genética , ADN Viral/genética , Proteínas Virales/genética , Proteínas Virales/metabolismo , Proteínas de la Cola de los Virus/genética , Proteínas de la Cola de los Virus/metabolismo
3.
Nat Commun ; 15(1): 6185, 2024 Jul 23.
Artículo en Inglés | MEDLINE | ID: mdl-39039073

RESUMEN

DSR2, a Sir2 domain-containing protein, protects bacteria from phage infection by hydrolyzing NAD+. The enzymatic activity of DSR2 is triggered by the SPR phage tail tube protein (TTP), while suppressed by the SPbeta phage-encoded DSAD1 protein, enabling phages to evade the host defense. However, the molecular mechanisms of activation and inhibition of DSR2 remain elusive. Here, we report the cryo-EM structures of apo DSR2, DSR2-TTP-NAD+ and DSR2-DSAD1 complexes. DSR2 assembles into a head-to-head tetramer mediated by its Sir2 domain. The C-terminal helical regions of DSR2 constitute four partner-binding cavities with opened and closed conformation. Two TTP molecules bind to two of the four C-terminal cavities, inducing conformational change of Sir2 domain to activate DSR2. Furthermore, DSAD1 competes with the activator for binding to the C-terminal cavity of DSR2, effectively suppressing its enzymatic activity. Our results provide the mechanistic insights into the DSR2-mediated anti-phage defense system and DSAD1-dependent phage immune evasion.


Asunto(s)
Microscopía por Crioelectrón , NAD , NAD/metabolismo , Unión Proteica , NAD+ Nucleosidasa/metabolismo , NAD+ Nucleosidasa/química , Proteínas de la Cola de los Virus/metabolismo , Proteínas de la Cola de los Virus/química , Proteínas de la Cola de los Virus/genética , Modelos Moleculares , Bacteriófagos/metabolismo , Dominios Proteicos , Proteínas Bacterianas/metabolismo , Proteínas Bacterianas/química , Proteínas Bacterianas/genética , Proteínas Virales/metabolismo , Proteínas Virales/química
4.
Science ; 384(6701): eado0713, 2024 Jun 14.
Artículo en Inglés | MEDLINE | ID: mdl-38870284

RESUMEN

Bacteria can repurpose their own bacteriophage viruses (phage) to kill competing bacteria. Phage-derived elements are frequently strain specific in their killing activity, although there is limited evidence that this specificity drives bacterial population dynamics. Here, we identified intact phage and their derived elements in a metapopulation of wild plant-associated Pseudomonas genomes. We discovered that the most abundant viral cluster encodes a phage remnant resembling a phage tail called a tailocin, which bacteria have co-opted to kill bacterial competitors. Each pathogenic Pseudomonas strain carries one of a few distinct tailocin variants that target the variable polysaccharides in the outer membrane of co-occurring pathogenic Pseudomonas strains. Analysis of herbarium samples from the past 170 years revealed that the same tailocin and bacterial receptor variants have persisted in Pseudomonas populations. These results suggest that tailocin genetic diversity can be mined to develop targeted "tailocin cocktails" for microbial control.


Asunto(s)
Bacteriocinas , Fagos Pseudomonas , Pseudomonas , Proteínas de la Cola de los Virus , Antibiosis , Membrana Externa Bacteriana/metabolismo , Bacteriocinas/genética , Bacteriocinas/metabolismo , Variación Genética , Genoma Bacteriano , Polisacáridos Bacterianos/metabolismo , Pseudomonas/metabolismo , Pseudomonas/virología , Fagos Pseudomonas/genética , Fagos Pseudomonas/metabolismo , Proteínas de la Cola de los Virus/metabolismo , Proteínas de la Cola de los Virus/genética , Terapia de Fagos/métodos
5.
Cell Host Microbe ; 32(7): 1059-1073.e8, 2024 Jul 10.
Artículo en Inglés | MEDLINE | ID: mdl-38821063

RESUMEN

Toxin-antitoxins (TAs) are prokaryotic two-gene systems composed of a toxin neutralized by an antitoxin. Toxin-antitoxin-chaperone (TAC) systems additionally include a SecB-like chaperone that stabilizes the antitoxin by recognizing its chaperone addiction (ChAD) element. TACs mediate antiphage defense, but the mechanisms of viral sensing and restriction are unexplored. We identify two Escherichia coli antiphage TAC systems containing host inhibition of growth (HigBA) and CmdTA TA modules, HigBAC and CmdTAC. HigBAC is triggered through recognition of the gpV major tail protein of phage λ. Chaperone HigC recognizes gpV and ChAD via analogous aromatic molecular patterns, with gpV outcompeting ChAD to trigger toxicity. For CmdTAC, the CmdT ADP-ribosyltransferase toxin modifies mRNA to halt protein synthesis and limit phage propagation. Finally, we establish the modularity of TACs by creating a hybrid broad-spectrum antiphage system combining the CmdTA TA warhead with a HigC chaperone phage sensor. Collectively, these findings reveal the potential of TAC systems in broad-spectrum antiphage defense.


Asunto(s)
Proteínas de Escherichia coli , Escherichia coli , Chaperonas Moleculares , Sistemas Toxina-Antitoxina , Sistemas Toxina-Antitoxina/genética , Chaperonas Moleculares/metabolismo , Chaperonas Moleculares/genética , Escherichia coli/virología , Escherichia coli/genética , Escherichia coli/metabolismo , Proteínas de Escherichia coli/metabolismo , Proteínas de Escherichia coli/genética , Bacteriófago lambda/genética , Bacteriófago lambda/fisiología , Bacteriófago lambda/metabolismo , Toxinas Bacterianas/metabolismo , Toxinas Bacterianas/genética , Bacteriófagos/genética , Bacteriófagos/metabolismo , Bacteriófagos/fisiología , Antitoxinas/metabolismo , Antitoxinas/genética , Proteínas de la Cola de los Virus/metabolismo , Proteínas de la Cola de los Virus/genética
6.
Viruses ; 16(5)2024 05 13.
Artículo en Inglés | MEDLINE | ID: mdl-38793652

RESUMEN

The genus Acinetobacter comprises both environmental and clinically relevant species associated with hospital-acquired infections. Among them, Acinetobacter baumannii is a critical priority bacterial pathogen, for which the research and development of new strategies for antimicrobial treatment are urgently needed. Acinetobacter spp. produce a variety of structurally diverse capsular polysaccharides (CPSs), which surround the bacterial cells with a thick protective layer. These surface structures are primary receptors for capsule-specific bacteriophages, that is, phages carrying tailspikes with CPS-depolymerizing/modifying activities. Phage tailspike proteins (TSPs) exhibit hydrolase, lyase, or esterase activities toward the corresponding CPSs of a certain structure. In this study, the data on all lytic capsule-specific phages infecting Acinetobacter spp. with genomes deposited in the NCBI GenBank database by January 2024 were summarized. Among the 149 identified TSPs encoded in the genomes of 143 phages, the capsular specificity (K specificity) of 46 proteins has been experimentally determined or predicted previously. The specificity of 63 TSPs toward CPSs, produced by various Acinetobacter K types, was predicted in this study using a bioinformatic analysis. A comprehensive phylogenetic analysis confirmed the prediction and revealed the possibility of the genetic exchange of gene regions corresponding to the CPS-recognizing/degrading parts of different TSPs between morphologically and taxonomically distant groups of capsule-specific Acinetobacter phages.


Asunto(s)
Acinetobacter , Cápsulas Bacterianas , Bacteriófagos , Genoma Viral , Filogenia , Bacteriófagos/genética , Bacteriófagos/enzimología , Bacteriófagos/clasificación , Acinetobacter/virología , Acinetobacter/genética , Acinetobacter/enzimología , Cápsulas Bacterianas/metabolismo , Cápsulas Bacterianas/genética , Proteínas de la Cola de los Virus/genética , Proteínas de la Cola de los Virus/metabolismo , Polisacáridos/metabolismo , Polisacáridos Bacterianos/metabolismo , Polisacáridos Bacterianos/genética , Acinetobacter baumannii/virología , Acinetobacter baumannii/genética , Acinetobacter baumannii/enzimología , Glicósido Hidrolasas
7.
Nat Commun ; 15(1): 4185, 2024 May 17.
Artículo en Inglés | MEDLINE | ID: mdl-38760367

RESUMEN

Bacteriophage infection, a pivotal process in microbiology, initiates with the phage's tail recognizing and binding to the bacterial cell surface, which then mediates the injection of viral DNA. Although comprehensive studies on the interaction between bacteriophage lambda and its outer membrane receptor, LamB, have provided rich information about the system's biochemical properties, the precise molecular mechanism remains undetermined. This study revealed the high-resolution cryo-electron microscopy (cryo-EM) structures of the bacteriophage lambda tail complexed with its irreversible Shigella sonnei 3070 LamB receptor and the closed central tail fiber. These structures reveal the complex processes that trigger infection and demonstrate a substantial conformational change in the phage lambda tail tip upon LamB binding. Providing detailed structures of bacteriophage lambda infection initiation, this study contributes to the expanding knowledge of lambda-bacterial interaction, which holds significance in the fields of microbiology and therapeutic development.


Asunto(s)
Bacteriófago lambda , Microscopía por Crioelectrón , Shigella sonnei , Bacteriófago lambda/genética , Bacteriófago lambda/metabolismo , Bacteriófago lambda/fisiología , Shigella sonnei/virología , Shigella sonnei/metabolismo , Proteínas de la Cola de los Virus/metabolismo , Proteínas de la Cola de los Virus/química , Proteínas de la Cola de los Virus/genética , Porinas/metabolismo , Porinas/química , Proteínas de la Membrana Bacteriana Externa/metabolismo , Proteínas de la Membrana Bacteriana Externa/química , Proteínas de la Membrana Bacteriana Externa/ultraestructura , Unión Proteica , Modelos Moleculares , Conformación Proteica , Receptores Virales
8.
Commun Biol ; 7(1): 590, 2024 May 16.
Artículo en Inglés | MEDLINE | ID: mdl-38755280

RESUMEN

Infection of bacteria by phages is a complex multi-step process that includes specific recognition of the host cell, creation of a temporary breach in the host envelope, and ejection of viral DNA into the bacterial cytoplasm. These steps must be perfectly regulated to ensure efficient infection. Here we report the dual function of the tail completion protein gp16.1 of bacteriophage SPP1. First, gp16.1 has an auxiliary role in assembly of the tail interface that binds to the capsid connector. Second, gp16.1 is necessary to ensure correct routing of phage DNA to the bacterial cytoplasm. Viral particles assembled without gp16.1 are indistinguishable from wild-type virions and eject DNA normally in vitro. However, they release their DNA to the extracellular space upon interaction with the host bacterium. The study shows that a highly conserved tail completion protein has distinct functions at two essential steps of the virus life cycle in long-tailed phages.


Asunto(s)
Proteínas de la Cola de los Virus , Proteínas de la Cola de los Virus/metabolismo , Proteínas de la Cola de los Virus/genética , Bacteriófagos/genética , Bacteriófagos/fisiología , Bacteriófagos/metabolismo , ADN Viral/metabolismo , ADN Viral/genética , Virión/metabolismo
9.
Nat Commun ; 15(1): 4442, 2024 May 24.
Artículo en Inglés | MEDLINE | ID: mdl-38789435

RESUMEN

Contractile injection systems (CISs) are prokaryotic phage tail-like nanostructures loading effector proteins that mediate various biological processes. Although CIS functions have been diversified through evolution and hold the great potential as protein delivery systems, the functional characterisation of CISs and their effectors is currently limited to a few CIS lineages. Here, we show that the CISs of Streptomyces davawensis belong to a unique group of bacterial CISs distributed across distant phyla and facilitate sporogenic differentiation of this bacterium. CIS loss results in decreases in extracellular DNA release, biomass accumulation, and spore formation in S. davawensis. CISs load an effector, which is a remote homolog of phage tapemeasure proteins, and its C-terminal domain has endonuclease activity responsible for the CIS-associated phenotypes. Our findings illustrate that CISs can contribute to the reproduction of bacteria through the action of the effector and suggest an evolutionary link between CIS effectors and viral cargos.


Asunto(s)
Proteínas Bacterianas , Bacteriófagos , Esporas Bacterianas , Streptomyces , Streptomyces/virología , Bacteriófagos/genética , Bacteriófagos/fisiología , Esporas Bacterianas/metabolismo , Proteínas Bacterianas/metabolismo , Proteínas Bacterianas/genética , Filogenia , Proteínas Virales/metabolismo , Proteínas Virales/genética , Proteínas de la Cola de los Virus/metabolismo , Proteínas de la Cola de los Virus/genética
10.
Virus Res ; 345: 199370, 2024 Jul.
Artículo en Inglés | MEDLINE | ID: mdl-38614253

RESUMEN

Non-infectious virus-like nanoparticles mimic native virus structures and can be modified by inserting foreign protein fragments, making them immunogenic tools for antigen presentation. This study investigated, for the first time, the immunogenicity of long and flexible polytubes formed by yeast-expressed tail tube protein gp39 of bacteriophage vB_EcoS_NBD2 and evaluated their ability to elicit an immune response against the inserted protein fragments. Protein gp39-based polytubes induced humoral immune response in mice, even without the use of adjuvant. Bioinformatics analysis guided the selection of protein fragments from Acinetobacter baumannii for insertion into the C-terminus of gp39. Chimeric polytubes, displaying 28-amino acid long OmpA protein fragment, induced IgG response against OmpA protein fragment in immunized mice. These polytubes demonstrated their effectiveness both as antigen carrier and an adjuvant, when the OmpA fragments were either displayed on chimeric polytubes or used alongside with the unmodified polytubes. Our findings expand the potential applications of long and flexible polytubes, contributing to the development of novel antigen carriers with improved immunogenicity and antigen presentation capabilities.


Asunto(s)
Proteínas de la Membrana Bacteriana Externa , Bacteriófagos , Vacunas de Subunidad , Animales , Ratones , Proteínas de la Membrana Bacteriana Externa/inmunología , Bacteriófagos/genética , Bacteriófagos/inmunología , Vacunas de Subunidad/inmunología , Femenino , Acinetobacter baumannii/inmunología , Ratones Endogámicos BALB C , Adyuvantes Inmunológicos/administración & dosificación , Inmunoglobulina G/sangre , Inmunoglobulina G/inmunología , Proteínas de la Cola de los Virus/inmunología , Proteínas de la Cola de los Virus/genética , Proteínas de la Cola de los Virus/química , Inmunidad Humoral , Inmunización , Anticuerpos Antibacterianos/inmunología
11.
Gigascience ; 132024 01 02.
Artículo en Inglés | MEDLINE | ID: mdl-38649301

RESUMEN

BACKGROUND: Phage therapy, reemerging as a promising approach to counter antimicrobial-resistant infections, relies on a comprehensive understanding of the specificity of individual phages. Yet the significant diversity within phage populations presents a considerable challenge. Currently, there is a notable lack of tools designed for large-scale characterization of phage receptor-binding proteins, which are crucial in determining the phage host range. RESULTS: In this study, we present SpikeHunter, a deep learning method based on the ESM-2 protein language model. With SpikeHunter, we identified 231,965 diverse phage-encoded tailspike proteins, a crucial determinant of phage specificity that targets bacterial polysaccharide receptors, across 787,566 bacterial genomes from 5 virulent, antibiotic-resistant pathogens. Notably, 86.60% (143,200) of these proteins exhibited strong associations with specific bacterial polysaccharides. We discovered that phages with identical tailspike proteins can infect different bacterial species with similar polysaccharide receptors, underscoring the pivotal role of tailspike proteins in determining host range. The specificity is mainly attributed to the protein's C-terminal domain, which strictly correlates with host specificity during domain swapping in tailspike proteins. Importantly, our dataset-driven predictions of phage-host specificity closely match the phage-host pairs observed in real-world phage therapy cases we studied. CONCLUSIONS: Our research provides a rich resource, including both the method and a database derived from a large-scale genomics survey. This substantially enhances understanding of phage specificity determinants at the strain level and offers a valuable framework for guiding phage selection in therapeutic applications.


Asunto(s)
Bacteriófagos , Aprendizaje Profundo , Especificidad del Huésped , Bacteriófagos/genética , Especificidad del Huésped/genética , Genómica/métodos , Genoma Bacteriano , Proteínas de la Cola de los Virus/genética , Genoma Viral , Bacterias/virología , Bacterias/genética , Glicósido Hidrolasas/genética
12.
Nat Microbiol ; 9(5): 1312-1324, 2024 May.
Artículo en Inglés | MEDLINE | ID: mdl-38565896

RESUMEN

Dormant prophages protect lysogenic cells by expressing diverse immune systems, which must avoid targeting their cognate prophages upon activation. Here we report that multiple Staphylococcus aureus prophages encode Tha (tail-activated, HEPN (higher eukaryotes and prokaryotes nucleotide-binding) domain-containing anti-phage system), a defence system activated by structural tail proteins of incoming phages. We demonstrate the function of two Tha systems, Tha-1 and Tha-2, activated by distinct tail proteins. Interestingly, Tha systems can also block reproduction of the induced tha-positive prophages. To prevent autoimmunity after prophage induction, these systems are inhibited by the product of a small overlapping antisense gene previously believed to encode an excisionase. This genetic organization, conserved in S. aureus prophages, allows Tha systems to protect prophages and their bacterial hosts against phage predation and to be turned off during prophage induction, balancing immunity and autoimmunity. Our results show that the fine regulation of these processes is essential for the correct development of prophages' life cycle.


Asunto(s)
Profagos , Staphylococcus aureus , Profagos/genética , Staphylococcus aureus/virología , Staphylococcus aureus/inmunología , Autoinmunidad , Lisogenia , Fagos de Staphylococcus/genética , Fagos de Staphylococcus/inmunología , Fagos de Staphylococcus/fisiología , Proteínas de la Cola de los Virus/genética , Proteínas de la Cola de los Virus/metabolismo , Bacteriófagos/genética , Bacteriófagos/inmunología , Bacteriófagos/fisiología
13.
Virology ; 593: 110017, 2024 05.
Artículo en Inglés | MEDLINE | ID: mdl-38382161

RESUMEN

Bacteriophage Mu is a temperate phage known to infect various species of Enterobacteria, playing a role in bacterial mutation induction and horizontal gene transfer. The phage possesses two types of tail fibers important for host recognition, which enable it to expand its range of hosts. The alternate tail fibers are formed through the action of genes 49-50 or 52-51, allowing the Mu phage to recognize different surfaces of host cells. In a previous study, we presented the X-ray crystal structure of the C-terminal lipopolysaccharide (LPS)-binding domain of gene product (gp) 49, one of the subunits comprising the Mu tail fiber. In this study, we have determined the structure of the alternative tail fiber subunit, gp52, and compared it with other tail fibers. The results revealed that Mu phage employs different structural motifs for two individual tail fibers for recognizing different hosts.


Asunto(s)
Bacteriófago mu , Bacteriófagos , Bacteriófago mu/química , Bacteriófago mu/genética , Bacteriófagos/genética , Proteínas de la Cola de los Virus/genética
14.
PLoS Biol ; 21(12): e3002441, 2023 Dec.
Artículo en Inglés | MEDLINE | ID: mdl-38096144

RESUMEN

Siphophages have a long, flexible, and noncontractile tail that connects to the capsid through a neck. The phage tail is essential for host cell recognition and virus-host cell interactions; moreover, it serves as a channel for genome delivery during infection. However, the in situ high-resolution structure of the neck-tail complex of siphophages remains unknown. Here, we present the structure of the siphophage lambda "wild type," the most widely used, laboratory-adapted fiberless mutant. The neck-tail complex comprises a channel formed by stacked 12-fold and hexameric rings and a 3-fold symmetrical tip. The interactions among DNA and a total of 246 tail protein molecules forming the tail and neck have been characterized. Structural comparisons of the tail tips, the most diversified region across the lambda and other long-tailed phages or tail-like machines, suggest that their tail tip contains conserved domains, which facilitate tail assembly, receptor binding, cell adsorption, and DNA retaining/releasing. These domains are distributed in different tail tip proteins in different phages or tail-like machines. The side tail fibers are not required for the phage particle to orient itself vertically to the surface of the host cell during attachment.


Asunto(s)
Bacteriófagos , Bacteriófagos/genética , Unión Proteica , Proteínas de la Cápside/metabolismo , ADN/metabolismo , Proteínas de la Cola de los Virus/genética , Proteínas de la Cola de los Virus/química , Proteínas de la Cola de los Virus/metabolismo
15.
J Mol Biol ; 435(24): 168365, 2023 12 15.
Artículo en Inglés | MEDLINE | ID: mdl-37952769

RESUMEN

Bacteriophage P22 is a prototypical member of the Podoviridae superfamily. Since its discovery in 1952, P22 has become a paradigm for phage transduction and a model for icosahedral viral capsid assembly. Here, we describe the complete architecture of the P22 tail apparatus (gp1, gp4, gp10, gp9, and gp26) and the potential location and organization of P22 ejection proteins (gp7, gp20, and gp16), determined using cryo-EM localized reconstruction, genetic knockouts, and biochemical analysis. We found that the tail apparatus exists in two equivalent conformations, rotated by ∼6° relative to the capsid. Portal protomers make unique contacts with coat subunits in both conformations, explaining the 12:5 symmetry mismatch. The tail assembles around the hexameric tail hub (gp10), which folds into an interrupted ß-propeller characterized by an apical insertion domain. The tail hub connects proximally to the dodecameric portal protein and head-to-tail adapter (gp4), distally to the trimeric tail needle (gp26), and laterally to six trimeric tailspikes (gp9) that attach asymmetrically to gp10 insertion domain. Cryo-EM analysis of P22 mutants lacking the ejection proteins gp7 or gp20 and biochemical analysis of purified recombinant proteins suggest that gp7 and gp20 form a molecular complex associated with the tail apparatus via the portal protein barrel. We identified a putative signal transduction pathway from the tailspike to the tail needle, mediated by three flexible loops in the tail hub, that explains how lipopolysaccharide (LPS) is sufficient to trigger the ejection of the P22 DNA in vitro.


Asunto(s)
Bacteriófago P22 , Salmonella typhimurium , Bacteriófago P22/genética , Bacteriófago P22/química , Bacteriófago P22/metabolismo , Proteínas de la Cápside/química , Salmonella typhimurium/virología , Proteínas de la Cola de los Virus/genética
16.
J Mol Biol ; 434(21): 167829, 2022 11 15.
Artículo en Inglés | MEDLINE | ID: mdl-36116540

RESUMEN

Enterobacteria phage P1 expresses two types of tail fibre, S and S'. Despite the wide usage of phage P1 for transduction, the host range and the receptor for its alternative S' tail fibre was never determined. Here, a ΔS-cin Δpac E. coli P1 lysogenic strain was generated to allow packaging of phagemid DNA into P1 phage having either S or S' tail fibre. P1(S') could transduce phagemid DNA into Shigella flexneri 2a 2457O, Shigella flexneri 5a M90T and Escherichia coli O3 efficiently. Mutational analysis of the O-antigen assembly genes and LPS inhibition assays indicated that P1(S') transduction requires at least one O-antigen unit. E. coli O111:B4 LPS produced a high neutralising effect against P1(S') transduction, indicating that this E. coli strain could be susceptible to P1(S')-mediated transduction. Mutations in the O-antigen modification genes of S. flexneri 2a 2457O and S. flexneri 5a M90T did not cause significant changes to P1(S') transduction efficiency. A higher transduction efficiency of P1(S') improved the delivery of a cas9 antimicrobial phagemid into both S. flexneri 2457O and M90T. These findings provide novel insights into P1 tropism-switching, by identifying the bacterial strains which are susceptible to P1(S')-mediated transduction, as well as demonstrating its potential for delivering a DNA sequence-specific Cas9 antimicrobial into clinically relevant S. flexneri.


Asunto(s)
Bacteriófago P1 , Escherichia coli , Antígenos O , Shigella flexneri , Transducción Genética , Proteínas de la Cola de los Virus , Escherichia coli/genética , Escherichia coli/virología , Antígenos O/genética , Antígenos O/fisiología , Shigella flexneri/genética , Shigella flexneri/virología , Bacteriófago P1/genética , Bacteriófago P1/fisiología , Proteínas de la Cola de los Virus/genética
17.
J Virol ; 96(16): e0092922, 2022 08 24.
Artículo en Inglés | MEDLINE | ID: mdl-35894604

RESUMEN

The first critical step in a virus's infection cycle is attachment to its host. This interaction is precise enough to ensure the virus will be able to productively infect the cell, but some flexibility can be beneficial to enable coevolution and host range switching or expansion. Bacteriophage Sf6 utilizes a two-step process to recognize and attach to its host Shigella flexneri. Sf6 first recognizes the lipopolysaccharide (LPS) of S. flexneri and then binds outer membrane protein (Omp) A or OmpC. This phage infects serotype Y strains but can also form small, turbid plaques on serotype 2a2; turbid plaques appear translucent rather than transparent, indicating greater survival of bacteria. Reduced plating efficiency further suggested inefficient infection. To examine the interactions between Sf6 and this alternate host, phages were experimentally evolved using mixed populations of S. flexneri serotypes Y and 2a2. The recovered mutants could infect serotype 2a2 with greater efficiency than the ancestral Sf6, forming clear plaques on both serotypes. All mutations mapped to two distinct regions of the receptor-binding tailspike protein: (i) adjacent to the LPS binding site near the N terminus; and (ii) at the distal, C-terminal tip of the protein. Although we anticipated interactions between the Sf6 tailspike and 2a2 O-antigen to be weak, LPS of this serotype appears to inhibit infection through strong binding of particles, effectively removing them from the environment. The mutations of the evolved strains reduce the inhibitory effect by either reducing electrostatic interactions with the O-antigen or increasing reliance on the Omp secondary receptors. IMPORTANCE Viruses depend on host cells to propagate themselves. In mixed populations and communities of host cells, finding these susceptible host cells may have to be balanced with avoiding nonhost cells. Alternatively, being able to infect new cell types can increase the fitness of the virus. Many bacterial viruses use a two-step process to identify their hosts, binding first to an LPS receptor and then to a host protein. For Shigella virus Sf6, the tailspike protein was previously known to bind the LPS receptor. Genetic data from this work imply the tailspike also binds to the protein receptor. By experimentally evolving Sf6, we also show that point mutations in this protein can dramatically affect the binding of one or both receptors. This may provide Sf6 flexibility in identifying host cells and the ability to rapidly alter its host range under selective pressure.


Asunto(s)
Bacteriófagos/genética , Glicósido Hidrolasas/genética , Mutación Puntual , Shigella flexneri/virología , Proteínas de la Cola de los Virus/genética , Especificidad del Huésped , Receptores de Lipopolisacáridos/metabolismo , Lipopolisacáridos/metabolismo , Antígenos O/química , Antígenos O/genética , Antígenos O/metabolismo
18.
Virology ; 566: 9-15, 2022 01.
Artículo en Inglés | MEDLINE | ID: mdl-34826709

RESUMEN

Tape measure (TM) proteins are essential for the formation of long-tailed phages. TM protein assembly into tails requires the action of tail assembly chaperones (TACs). TACs (e.g. gpG and gpT of E. coli phage lambda) are usually produced in a short (TAC-N) and long form (TAC-NC) with the latter comprised of TAC-N with an additional C-terminal domain (TAC-C). TAC-NC is generally synthesized through a ribosomal frameshifting mechanism. TAC encoding genes have never been identified in the intensively studied Escherichia coli phage T4, or any related phages. Here, we have bioinformatically identified putative TAC encoding genes in diverse T4-like phage genomes. The frameshifting mechanism for producing TAC-NC appears to be conserved in several T4-like phage groups. However, the group including phage T4 itself likely employs a different strategy whereby TAC-N and TAC-NC are encoded by separate genes (26 and 51 in phage T4).


Asunto(s)
Bacteriófago T4/genética , Escherichia coli/virología , Genoma Viral , Chaperonas Moleculares/genética , Proteínas de la Cola de los Virus/química , Virión/genética , Secuencia de Aminoácidos , Bacterias/virología , Bacteriófago T4/metabolismo , Bacteriófago T4/ultraestructura , Biología Computacional/métodos , Secuencia Conservada , Sistema de Lectura Ribosómico , Chaperonas Moleculares/clasificación , Chaperonas Moleculares/metabolismo , Alineación de Secuencia , Homología de Secuencia de Aminoácido , Proteínas de la Cola de los Virus/clasificación , Proteínas de la Cola de los Virus/genética , Proteínas de la Cola de los Virus/metabolismo , Virión/metabolismo , Virión/ultraestructura , Ensamble de Virus/genética
19.
Viruses ; 13(10)2021 10 18.
Artículo en Inglés | MEDLINE | ID: mdl-34696524

RESUMEN

Phage G is recognized as having a remarkably large genome and capsid size among isolated, propagated phages. Negative stain electron microscopy of the host-phage G interaction reveals tail sheaths that are contracted towards the distal tip and decoupled from the head-neck region. This is different from the typical myophage tail contraction, where the sheath contracts upward, while being linked to the head-neck region. Our cryo-EM structures of the non-contracted and contracted tail sheath show that: (1) The protein fold of the sheath protein is very similar to its counterpart in smaller, contractile phages such as T4 and phi812; (2) Phage G's sheath structure in the non-contracted and contracted states are similar to phage T4's sheath structure. Similarity to other myophages is confirmed by a comparison-based study of the tail sheath's helical symmetry, the sheath protein's evolutionary timetree, and the organization of genes involved in tail morphogenesis. Atypical phase G tail contraction could be due to a missing anchor point at the upper end of the tail sheath that allows the decoupling of the sheath from the head-neck region. Explaining the atypical tail contraction requires further investigation of the phage G sheath anchor points.


Asunto(s)
Myoviridae/ultraestructura , Proteínas de la Cola de los Virus/ultraestructura , Bacteriófagos/metabolismo , Bacteriófagos/ultraestructura , Cápside/metabolismo , Proteínas de la Cápside/metabolismo , Microscopía por Crioelectrón/métodos , Myoviridae/genética , Proteínas de la Cola de los Virus/genética , Proteínas de la Cola de los Virus/metabolismo , Virión/metabolismo , Virión/ultraestructura
20.
J Mol Biol ; 433(18): 167112, 2021 09 03.
Artículo en Inglés | MEDLINE | ID: mdl-34153288

RESUMEN

Siphoviruses are main killers of bacteria. They use a long non-contractile tail to recognize the host cell and to deliver the genome from the viral capsid to the bacterial cytoplasm. Here, we define the molecular organization of the Bacillus subtilis bacteriophage SPP1 ~ 6.8 MDa tail and uncover its biogenesis mechanisms. A complex between gp21 and the tail distal protein (Dit) gp19.1 is assembled first to build the tail cap (gp19.1-gp21Nter) connected by a flexible hinge to the tail fiber (gp21Cter). The tip of the gp21Cter fiber is loosely associated to gp22. The cap provides a platform where tail tube proteins (TTPs) initiate polymerization around the tape measure protein gp18 (TMP), a reaction dependent on the non-structural tail assembly chaperones gp17.5 and gp17.5* (TACs). Gp17.5 is essential for stability of gp18 in the cell. Helical polymerization stops at a precise tube length followed by binding of proteins gp16.1 (TCP) and gp17 (THJP) to build the tail interface for attachment to the capsid portal system. This finding uncovers the function of the extensively conserved gp16.1-homologs in assembly of long tails. All SPP1 tail components, apart from gp22, share homology to conserved proteins whose coding genes' synteny is broadly maintained in siphoviruses. They conceivably represent the minimal essential protein set necessary to build functional long tails. Proteins homologous to SPP1 tail building blocks feature a variety of add-on modules that diversify extensively the tail core structure, expanding its capability to bind host cells and to deliver the viral genome to the bacterial cytoplasm.


Asunto(s)
Bacillus subtilis/virología , Cápside/metabolismo , Genoma Viral , Siphoviridae/fisiología , Proteínas de la Cola de los Virus/metabolismo , Virión/fisiología , Ensamble de Virus , Chaperonas Moleculares , Siphoviridae/química , Siphoviridae/genética , Proteínas de la Cola de los Virus/genética
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