Complete nucleotide sequence of bacteriophage MS2 RNA: primary and secondary structure of the replicase gene

Fiers, Walter; Contreras, Roland; Duerinck, F; Haegeman, Guy; Iserentant, Dirk; Merregaert, J.; Jou, Willy Min; Molemans, Francis; Raeymaekers, A.; Berghe, A Van den; Volckaert, Guido; Ysebaert, Marc

doi:10.1038/260500a0

Cited by 704 publications

(274 citation statements)

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“…Notably, the interior volume of the CP S37P VLP is much smaller than that of the wild-type particle, and the CP S37P VLP encapsulates shorter genetic material than the CP WT VLP when expressed recombinantly ( Figure S5). Since the CP S37P VLP is too small to permit encapsulation of the full viral genome, we hypothesize that this mutation was not observed previously because it cannot support infection 30 of E. coli. The T = 1 geometry is favored in the case of CP S37P despite surprisingly strong similarities between the CP WT and CP S37P dimer structures.…”

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confidence: 95%

A Selection for Assembly Reveals That a Single Amino Acid Mutant of the Bacteriophage MS2 Coat Protein Forms a Smaller Virus-like Particle

Asensio¹,

Morella²,

Jakobson³

et al. 2016

Nano Lett.

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Virus-like particles are used to encapsulate drugs, imaging agents, enzymes, and other biologically active molecules in order to enhance their function. However, the size of most virus-like particles is inflexible, precluding the design of appropriately sized containers for different applications. Here, we describe a chromatographic selection for virus-like particle assembly. Using this selection, we identified a single amino acid substitution to the coat protein of bacteriophage MS2 that mediates a uniform switch in particle geometry from T = 3 to T = 1 icosahedral symmetry. The resulting smaller particle retains the ability to be disassembled and reassembled in vitro and to be chemically modified to load cargo into its interior cavity. The pair of 27 and 17 nm MS2 particles will allow direct examination of the effect of size on function in established applications of virus-like particles, including drug delivery and imaging.

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confidence: 95%

A Selection for Assembly Reveals That a Single Amino Acid Mutant of the Bacteriophage MS2 Coat Protein Forms a Smaller Virus-like Particle

Asensio¹,

Morella²,

Jakobson³

et al. 2016

Nano Lett.

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“…Genome sequences and genome organizations have been reported for some of these phages as well: MS2 (Fiers et al 1976), T7 (Dunn and Studier 1983), T3 (Pajunen et al 2002), RB69 (http://phage.bioc.tulane.edu/ html/rb69main.html), X174 (Sanger et al 1977), and G4 (Godson et al 1978). These phages were used from the collection of IJM, except that Q␤ was obtained as an infectious clone from D. Mills (Health Science Center, State University of New York, Brooklyn, NY), RB69 as well as T6 were obtained from S. Abedon (Ohio State University, Mansfield, OH), and G4 was ultimately obtained from B. Fane (University of Arizona, Tucson, AZ).…”

Section: Strainsmentioning

confidence: 99%

Genome Properties and the Limits of Adaptation in Bacteriophages

et al. 2004

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Abstract. Eight bacteriophages were adapted for rapid growth under similar conditions to compare their evolved, endpoint fitnesses. Four pairs of related phages were used, including two RNA phages with small genomes (MS2 and Q␤), two single-stranded DNA phages with small genomes (X174 and G4), two T-odd phages with medium-sized, double-stranded DNA genomes (T7 and T3), and two T-even phages with large, double-stranded DNA genomes (T6 and RB69). Fitness was measured as absolute growth rate per hour under the same conditions used for adaptation. T7 and T3 achieved the highest fitnesses, able to increase by 13 billionfold and three-quarters billionfold per hour, respectively. In contrast, the RNA phages achieved low fitness maxima, with growth rates approximately 400-fold and 4000-fold per hour. The highest fitness limits were not attributable to high mutation rates or small genome size, even though both traits are expected to enhance adaptation for fast growth. We suggest that major differences in fitness limits stem from different ''global'' constraints, determined by the organization and composition of the phage genome affecting whether and how it overcomes potentially rate-limiting host processes, such as transcription, translation, and replication. Adsorption rates were also measured on the evolved phages. No consistent pattern of adsorption rate and fitness was observed across the four different types of phages, but within each pair of related phages, higher adsorption was associated with higher fitness. Different adsorption rate limits within pairs may stem from ''local'' constraints-sequence differences leading to different local optima in the sequence space.

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“…MS2 is a single-stranded RNA bacteriophage of the family Leviviridae (reviewed in van Duin and Tsareva 2004). Like other phage of this family, MS2 has a small genome, consisting of $3.6 kb and four genes (Fiers et al 1976). As a result, repeated whole-genome sequencing can be used to determine both the identity and the order of each adaptive substitution.…”

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confidence: 99%

Genomewide Patterns of Substitution in Adaptively Evolving Populations of the RNA Bacteriophage MS2

Betancourt

2009

Genetics

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Experimental evolution of bacteriophage provides a powerful means of studying the genetics of adaptation, as every substitution contributing to adaptation can be identified and characterized. Here, I use experimental evolution of MS2, an RNA bacteriophage, to study its adaptive response to a novel environment. To this end, three lines of MS2 were adapted to rapid growth and lysis at cold temperature for a minimum of 50 phage generations and subjected to whole-genome sequencing. Using this system, I identified adaptive substitutions, monitored changes in frequency of adaptive mutations through the course of the experiment, and measured the effect on phage growth rate of each substitution. All three lines showed a substantial increase in fitness (a two-to threefold increase in growth rate) due to a modest number of substitutions (three to four). The data show some evidence that the substitutions occurring early in the experiment have larger beneficial effects than later ones, in accordance with the expected diminishing returns relationship between the fitness effects of a mutation and its order of substitution. Patterns of molecular evolution seen here-primarily a paucity of hitchhiking mutations-suggest an abundant supply of beneficial mutations in this system. Nevertheless, some beneficial mutations appear to have been lost, possibly due to accumulation of beneficial mutations on other genetic backgrounds, clonal interference, and negatively epistatic interactions with other beneficial mutations.

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Complete nucleotide sequence of bacteriophage MS2 RNA: primary and secondary structure of the replicase gene

Cited by 704 publications

References 49 publications

A Selection for Assembly Reveals That a Single Amino Acid Mutant of the Bacteriophage MS2 Coat Protein Forms a Smaller Virus-like Particle

A Selection for Assembly Reveals That a Single Amino Acid Mutant of the Bacteriophage MS2 Coat Protein Forms a Smaller Virus-like Particle

Genome Properties and the Limits of Adaptation in Bacteriophages

Genomewide Patterns of Substitution in Adaptively Evolving Populations of the RNA Bacteriophage MS2

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