Whole-genome synthesis and characterization of viable S13-like bacteriophages.
<h4>Background</h4>Unprecedented progresses in high-throughput DNA sequencing and de novo gene synthesis technologies have allowed us to create living organisms in the absence of natural template.<h4>Methodology/principal findings</h4>The sequence of wild-type S13 phage genom...
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2012
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oai:doaj.org-article:f1319c57c4cb4bb5b5894d57bc86f5022021-11-18T07:11:59ZWhole-genome synthesis and characterization of viable S13-like bacteriophages.1932-620310.1371/journal.pone.0041124https://doaj.org/article/f1319c57c4cb4bb5b5894d57bc86f5022012-01-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/22815936/?tool=EBIhttps://doaj.org/toc/1932-6203<h4>Background</h4>Unprecedented progresses in high-throughput DNA sequencing and de novo gene synthesis technologies have allowed us to create living organisms in the absence of natural template.<h4>Methodology/principal findings</h4>The sequence of wild-type S13 phage genome was downloaded from GenBank. Two synonymous mutations were introduced into wt-S13 genome to generate m1-S13 genome. Another mutant, m2-S13 genome, was obtained by engineering two nonsynonymous mutations in the capsid protein coding region of wt-S13 genome. A chimeric phage genome was designed by replacing the F capsid protein open reading frame (ORF) from phage S13 with the F capsid protein ORF from phage G4. The whole genomes of all four phages were assembled from a series of chemically synthesized short overlapping oligonucleotides. The linear synthesized genomes were circularized and electroporated into E.coli C, the standard laboratory host of S13 phage. All four phages were recovered and plaques were visualized. The results of sequencing showed the accuracy of these synthetic genomes. The synthetic phages were capable of lysing their bacterial host and tolerating general environmental conditions. While no phenotypic differences among the variant strains were observed when grown in LB medium with CaCl(2), the S13/G4 chimera was found to be much more sensitive to the absence of calcium and to have a lower adsorption rate under calcium free condition.<h4>Conclusions/significance</h4>The bacteriophage S13 and its variants can be chemically synthesized. The major capsid gene of phage G4 is functional in the phage S13 life cycle. These results support an evolutional hypothesis which has been proposed that a homologous recombination event involving gene F of quite divergent ancestral lineages should be included in the history of the microvirid family.Yuchen LiuYonghua HanWeiren HuangYonggang DuanLisha MouZhimao JiangPingping FaJun XieRuiying DiaoYuanbin ChenYiwang YeRuilin YangJing ChenXiaojuan SunZesong LiAifa TangYaoting GuiZhiming CaiPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 7, Iss 7, p e41124 (2012) |
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Medicine R Science Q |
| spellingShingle |
Medicine R Science Q Yuchen Liu Yonghua Han Weiren Huang Yonggang Duan Lisha Mou Zhimao Jiang Pingping Fa Jun Xie Ruiying Diao Yuanbin Chen Yiwang Ye Ruilin Yang Jing Chen Xiaojuan Sun Zesong Li Aifa Tang Yaoting Gui Zhiming Cai Whole-genome synthesis and characterization of viable S13-like bacteriophages. |
| description |
<h4>Background</h4>Unprecedented progresses in high-throughput DNA sequencing and de novo gene synthesis technologies have allowed us to create living organisms in the absence of natural template.<h4>Methodology/principal findings</h4>The sequence of wild-type S13 phage genome was downloaded from GenBank. Two synonymous mutations were introduced into wt-S13 genome to generate m1-S13 genome. Another mutant, m2-S13 genome, was obtained by engineering two nonsynonymous mutations in the capsid protein coding region of wt-S13 genome. A chimeric phage genome was designed by replacing the F capsid protein open reading frame (ORF) from phage S13 with the F capsid protein ORF from phage G4. The whole genomes of all four phages were assembled from a series of chemically synthesized short overlapping oligonucleotides. The linear synthesized genomes were circularized and electroporated into E.coli C, the standard laboratory host of S13 phage. All four phages were recovered and plaques were visualized. The results of sequencing showed the accuracy of these synthetic genomes. The synthetic phages were capable of lysing their bacterial host and tolerating general environmental conditions. While no phenotypic differences among the variant strains were observed when grown in LB medium with CaCl(2), the S13/G4 chimera was found to be much more sensitive to the absence of calcium and to have a lower adsorption rate under calcium free condition.<h4>Conclusions/significance</h4>The bacteriophage S13 and its variants can be chemically synthesized. The major capsid gene of phage G4 is functional in the phage S13 life cycle. These results support an evolutional hypothesis which has been proposed that a homologous recombination event involving gene F of quite divergent ancestral lineages should be included in the history of the microvirid family. |
| format |
article |
| author |
Yuchen Liu Yonghua Han Weiren Huang Yonggang Duan Lisha Mou Zhimao Jiang Pingping Fa Jun Xie Ruiying Diao Yuanbin Chen Yiwang Ye Ruilin Yang Jing Chen Xiaojuan Sun Zesong Li Aifa Tang Yaoting Gui Zhiming Cai |
| author_facet |
Yuchen Liu Yonghua Han Weiren Huang Yonggang Duan Lisha Mou Zhimao Jiang Pingping Fa Jun Xie Ruiying Diao Yuanbin Chen Yiwang Ye Ruilin Yang Jing Chen Xiaojuan Sun Zesong Li Aifa Tang Yaoting Gui Zhiming Cai |
| author_sort |
Yuchen Liu |
| title |
Whole-genome synthesis and characterization of viable S13-like bacteriophages. |
| title_short |
Whole-genome synthesis and characterization of viable S13-like bacteriophages. |
| title_full |
Whole-genome synthesis and characterization of viable S13-like bacteriophages. |
| title_fullStr |
Whole-genome synthesis and characterization of viable S13-like bacteriophages. |
| title_full_unstemmed |
Whole-genome synthesis and characterization of viable S13-like bacteriophages. |
| title_sort |
whole-genome synthesis and characterization of viable s13-like bacteriophages. |
| publisher |
Public Library of Science (PLoS) |
| publishDate |
2012 |
| url |
https://doaj.org/article/f1319c57c4cb4bb5b5894d57bc86f502 |
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