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Nonhomologous recombination between defective poliovirus and coxsackievirus genomes suggests a new model of genetic plasticity for picornaviruses.

Holmblat B, Jégouic S, Muslin C, Blondel B, Joffret ML, Delpeyroux F - MBio (2014)

Bottom Line: We found some homologous (H) recombinants and, mostly, nonhomologous (NH) recombinants presenting duplications of parental sequences preferentially located in the regions encoding proteins 2A, 2B, and 3A.For further studies of the genetic exchanges between PV and CA17, we have developed a model of recombination, making it possible to rescue defective PV RNA genomes with a short deletion by cotransfecting cells with the defective PV genome and CA17 genomic RNA.Numerous recombinants were found, including homologous PV/CA17 recombinants, but mostly nonhomologous recombinants presenting duplications of parental sequences preferentially located in particular regions.

View Article: PubMed Central - PubMed

Affiliation: Institut Pasteur, Biologie des Virus Entériques, Paris, France INSERM U994, Institut National de La Santé et de La Recherche Médicale, Paris, France.

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Genomic analysis of recombinant viruses. (A) Distribution of the recombination sites identified in recombinant viruses S2CA17 and S2CA17Δ, isolated at passage P1, following cotransfection with deleted S2 and either CA17 (for S2CA17) or defective ΔCA17 (for S2CA17Δ) RNA. The names of the recombinants are indicated on the left, together with the type of recombination. Black vertical lines indicate recombination sites according to S2 numbering. For NH-2 recombinants, the locations of the recombination sites in the S2 5′ partner are shown. (B) Sites of recombination for NH-2 recombinants, for each RNA partner. Regions with recombination sites are enlarged. The names of the partners are indicated on the left. Vertical lines indicate the sites of recombination for each partner. The dotted lines represent the bond between each partner and a given NH-2 recombinant. Site locations (nucleotide numbering) are indicated at the bottom.
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fig3: Genomic analysis of recombinant viruses. (A) Distribution of the recombination sites identified in recombinant viruses S2CA17 and S2CA17Δ, isolated at passage P1, following cotransfection with deleted S2 and either CA17 (for S2CA17) or defective ΔCA17 (for S2CA17Δ) RNA. The names of the recombinants are indicated on the left, together with the type of recombination. Black vertical lines indicate recombination sites according to S2 numbering. For NH-2 recombinants, the locations of the recombination sites in the S2 5′ partner are shown. (B) Sites of recombination for NH-2 recombinants, for each RNA partner. Regions with recombination sites are enlarged. The names of the partners are indicated on the left. Vertical lines indicate the sites of recombination for each partner. The dotted lines represent the bond between each partner and a given NH-2 recombinant. Site locations (nucleotide numbering) are indicated at the bottom.

Mentions: Surprisingly, only 33% of S2CA17 and 30% of S2CA17Δ recombinants were the products of H recombination events, the others resulting from NH recombination events. An analysis of the recombination sites showed them to be located in the region encoding the C-terminal part of VP1 and the nonstructural protein P2 and P3 coding regions (Fig. 3A; see also Tables S1 and S2 in the supplemental material). Examples for H and NH recombination sites are shown in Fig. S1A and B, respectively. The proportions of H and NH recombinants and the locations of recombination sites were similar for S2CA17 and S2CA17Δ. We therefore present the data for S2CA17 and S2CA17Δ together.


Nonhomologous recombination between defective poliovirus and coxsackievirus genomes suggests a new model of genetic plasticity for picornaviruses.

Holmblat B, Jégouic S, Muslin C, Blondel B, Joffret ML, Delpeyroux F - MBio (2014)

Genomic analysis of recombinant viruses. (A) Distribution of the recombination sites identified in recombinant viruses S2CA17 and S2CA17Δ, isolated at passage P1, following cotransfection with deleted S2 and either CA17 (for S2CA17) or defective ΔCA17 (for S2CA17Δ) RNA. The names of the recombinants are indicated on the left, together with the type of recombination. Black vertical lines indicate recombination sites according to S2 numbering. For NH-2 recombinants, the locations of the recombination sites in the S2 5′ partner are shown. (B) Sites of recombination for NH-2 recombinants, for each RNA partner. Regions with recombination sites are enlarged. The names of the partners are indicated on the left. Vertical lines indicate the sites of recombination for each partner. The dotted lines represent the bond between each partner and a given NH-2 recombinant. Site locations (nucleotide numbering) are indicated at the bottom.
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Related In: Results  -  Collection

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fig3: Genomic analysis of recombinant viruses. (A) Distribution of the recombination sites identified in recombinant viruses S2CA17 and S2CA17Δ, isolated at passage P1, following cotransfection with deleted S2 and either CA17 (for S2CA17) or defective ΔCA17 (for S2CA17Δ) RNA. The names of the recombinants are indicated on the left, together with the type of recombination. Black vertical lines indicate recombination sites according to S2 numbering. For NH-2 recombinants, the locations of the recombination sites in the S2 5′ partner are shown. (B) Sites of recombination for NH-2 recombinants, for each RNA partner. Regions with recombination sites are enlarged. The names of the partners are indicated on the left. Vertical lines indicate the sites of recombination for each partner. The dotted lines represent the bond between each partner and a given NH-2 recombinant. Site locations (nucleotide numbering) are indicated at the bottom.
Mentions: Surprisingly, only 33% of S2CA17 and 30% of S2CA17Δ recombinants were the products of H recombination events, the others resulting from NH recombination events. An analysis of the recombination sites showed them to be located in the region encoding the C-terminal part of VP1 and the nonstructural protein P2 and P3 coding regions (Fig. 3A; see also Tables S1 and S2 in the supplemental material). Examples for H and NH recombination sites are shown in Fig. S1A and B, respectively. The proportions of H and NH recombinants and the locations of recombination sites were similar for S2CA17 and S2CA17Δ. We therefore present the data for S2CA17 and S2CA17Δ together.

Bottom Line: We found some homologous (H) recombinants and, mostly, nonhomologous (NH) recombinants presenting duplications of parental sequences preferentially located in the regions encoding proteins 2A, 2B, and 3A.For further studies of the genetic exchanges between PV and CA17, we have developed a model of recombination, making it possible to rescue defective PV RNA genomes with a short deletion by cotransfecting cells with the defective PV genome and CA17 genomic RNA.Numerous recombinants were found, including homologous PV/CA17 recombinants, but mostly nonhomologous recombinants presenting duplications of parental sequences preferentially located in particular regions.

View Article: PubMed Central - PubMed

Affiliation: Institut Pasteur, Biologie des Virus Entériques, Paris, France INSERM U994, Institut National de La Santé et de La Recherche Médicale, Paris, France.

Show MeSH
Related in: MedlinePlus