Rethinking the Evolution of Single-Stranded RNA (ssRNA) Bacteriophages Based on Genomic Sequences and Characterizations of Two R-Plasmid-Dependent ssRNA Phages, C-1 and Hgal1

Kannoly, Sherin; Shao, Yongping; Wang, Ing-Nang

doi:10.1128/jb.00929-12

Cited by 19 publications

(15 citation statements)

References 51 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…The consignment of MS2 L to the role of phage-encoded autolysin seemed to end further interest in its function, despite the likelihood that a critical component of cell wall homeostasis was targeted. However, over the next decades, a few new Levi- JBC REVIEWS: Phage Sgl proteins target PG biosynthesis viridae were characterized, many of which shared the same genetic architecture as MS2, despite no significant nucleotide sequence similarity (60,61) (Table S1). This included not only new leviviruses specific for the F pilus but also against the conjugational pilus of several R-factor plasmids and the polar pilus of Pseudomonas (Fig.…”

Section: Back To L: Genetic and Molecular Analysismentioning

confidence: 99%

“…This included not only new leviviruses specific for the F pilus but also against the conjugational pilus of several R-factor plasmids and the polar pilus of Pseudomonas (Fig. S5) (57,58,60,61). We noticed that the L proteins, although unrelated in terms of sequence, shared an apparent domain organization with L: domain 1, N-terminal, highly charged; domain 2, very hydrophobic and lacking charged residues; domain 3, a central Leu-Ser dipeptide; and domain 4, a variable CTD (81).…”

Section: Back To L: Genetic and Molecular Analysismentioning

confidence: 99%

“…2B). The diverse location of the Sgl genes suggests that they have evolved more than once and probably as a late addition to the genome after speciation to different pili or hosts (58,61). (This includes all of the L-like genes; none of the 6 L-type Sgls has any detectable sequence identity other than the LS dipeptide sequence.)…”

Section: What's Next?mentioning

confidence: 99%

See 2 more Smart Citations

Phage single-gene lysis: Finding the weak spot in the bacterial cell wall

Chamakura

Young

2019

Journal of Biological Chemistry

View full text Add to dashboard Cite

In general, the last step in the vegetative cycle of bacterial viruses, or bacteriophages, is lysis of the host. dsDNA phages require multiple lysis proteins, including at least one enzyme that degrades the cell wall (peptidoglycan (PG)). In contrast, the lytic ssDNA and ssRNA phages have a single lysis protein that achieves cell lysis without enzymatically degrading the PG. Here, we review four "single-gene lysis" or Sgl proteins. Three of the Sgls block bacterial cell wall synthesis by binding to and inhibiting several enzymes in the PG precursor pathway. The target of the fourth Sgl, L from bacteriophage MS2, is still unknown, but we review evidence indicating that it is likely a protein involved in maintaining cell wall integrity. Although only a few phage genomes are available to date, the ssRNA Leviviridae are a rich source of novel Sgls, which may facilitate further unraveling of bacterial cell wall biosynthesis and discovery of new antibacterial agents.

show abstract

Section: Back To L: Genetic and Molecular Analysismentioning

confidence: 99%

Section: Back To L: Genetic and Molecular Analysismentioning

confidence: 99%

See 1 more Smart Citation

Phage single-gene lysis: Finding the weak spot in the bacterial cell wall

Chamakura

Young

2019

Journal of Biological Chemistry

View full text Add to dashboard Cite

show abstract

“…Phage PRR1 [16] which adsorbs specifically to IncP plasmid-encoded pili was the first such example, and later other phages specific for Inc group C [17], D [18], H [19,20], I [21], M [22] and T [23] plasmids followed. Phages PRR1, C-1 (IncC-specific) and Hgal1 (IncH-specific) have been sequenced [24,25] and phage PRR1 capsids have also been crystallized [26], but no research has been done on the other plasmid-specific phages since their isolation.…”

Section: Introductionmentioning

confidence: 99%

Diversity of pili-specific bacteriophages: genome sequence of IncM plasmid-dependent RNA phage M

Rumnieks

Tars

2012

BMC Microbiology

View full text Add to dashboard Cite

BackgroundBacteriophages of the Leviviridae family are small RNA viruses with linear, positive-sense, single-stranded RNA genomes that encode only four proteins. All phages of this family require bacterial pili to attach to and infect cells. Leviviridae phages utilizing F-pili for this purpose have been extensively studied. RNA phages specific for conjugative plasmid-encoded pili other than that of plasmid F have been isolated, but are much less understood and their relation to the F-pili-specific phages in many cases is not known.ResultsPhage M has the smallest known Leviviridae genome to date and has the typical genome organization with maturation, coat and replicase genes in the 5′ to 3′ direction. The lysis gene is located in a different position than in other known Leviviridae phages and completely overlaps with the replicase gene in a different reading frame. It encodes a 37 residue long polypeptide that contains a transmembrane helix like the other known lysis proteins of leviviruses. Sequence identities of M proteins to those of other phages do not exceed 25% for maturation protein, 51% for coat protein and 41% for replicase. Similarities in protein sequences and RNA secondary structures at the 3′ untranslated region place phage M together with phages specific for IncP, IncC and IncH, but not IncF plasmid-encoded pili. Phylogenetic analysis using the complete genome sequences and replicase proteins suggests that phage M represents a lineage that branched off early in the course of RNA phage specialization on different conjugative plasmids.ConclusionsThe genome sequence of phage M shows that it is clearly related to other conjugative pili-specific leviviruses but has an atypical location of the lysis gene. It provides a better view on the remarkable diversification of the plasmid-specific RNA phages.

show abstract

“…Out of such efforts, 19 new genomes of icosahedral RNA phages [286], genomes from the phages M [287], C-1 and HgalI [288], DL52 and DL54 [289], from a so-called JS-like group [290] and of the phages EC and MB [291], have been described.…”

Section: Future Perspectivesmentioning

confidence: 99%

The True Story and Advantages of RNA Phage Capsids as Nanotools

et al. 2016

View full text Add to dashboard Cite

RNA phages are often used as prototypes for modern recombinant virus-like particle (VLP) technologies. Icosahedral RNA phage VLPs can be formed from coat proteins (CPs) and are efficiently produced in bacteria and yeast. Both genetic fusion and chemical coupling have been successfully used for the production of numerous chimeras based on RNA phage VLPs. In this review, we describe advances in RNA phage VLP technology along with the history of the Leviviridae family, including its taxonomical organization, genomic structure, and important role in the development of molecular biology. Comparative 3D structures of different RNA phage VLPs are used to explain the level of VLP tolerance to foreign elements displayed on VLP surfaces. We also summarize data that demonstrate the ability of CPs to tolerate different organic (peptides, oligonucleotides, and carbohydrates) and inorganic (metal ions) compounds either chemically coupled or noncovalently added to the outer and/or inner surfaces of VLPs. Finally, we present lists of nanotechnological RNA phage VLP applications, such as experimental vaccines constructed by genetic fusion and chemical coupling methodologies, nanocontainers for targeted drug delivery, and bioimaging tools.

show abstract

Rethinking the Evolution of Single-Stranded RNA (ssRNA) Bacteriophages Based on Genomic Sequences and Characterizations of Two R-Plasmid-Dependent ssRNA Phages, C-1 and Hgal1

Cited by 19 publications

References 51 publications

Phage single-gene lysis: Finding the weak spot in the bacterial cell wall

Phage single-gene lysis: Finding the weak spot in the bacterial cell wall

Diversity of pili-specific bacteriophages: genome sequence of IncM plasmid-dependent RNA phage M

The True Story and Advantages of RNA Phage Capsids as Nanotools

Contact Info

Product

Resources

About