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Genomic characterization of Ralstonia solanacearum phage ϕRS138 of the family Siphoviridae

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Abstract

ϕRS138, a bacteriophage of the family Siphoviridae that lyses Ralstonia solanacearum, was isolated. The genomic DNA of ϕRS138 was 41,941 bp long with a GC content of 65.1 % and contained 56 putative open reading frames. The ϕRS138 genome could be divided into three regions based on similarities to other genomes: (1) a region containing genes encoding a putative transcriptional regulator and an integrase, similar to the prophage genes in Ralstonia solanacearum K60-1; (2) a region encoding proteins related to structural modules and virion morphogenesis, similar to genes in the Pseudomonas phages of the family Siphoviridae; and (3) a region highly similar to the genomes of other Ralstonia solanacearum strains.

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Acknowledgments

We thank Kyoto Prefectural Agriculture, Forestry, and Fisheries Technology Center for providing the soil from the tomato field.

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Authors and Affiliations

  1. Department of Biomolecular Engineering, Kyoto Institute of Technology, Matsugasaki, Sakyo-ku, Kyoto, 606-8585, Japan

    Bich Van Truong Thi, Nguyen Huan Pham Khanh, Ryuta Namikawa, Kaito Miki & Kaeko Kamei

  2. Hiyoshi Corporation, 908 Kitanosho, Omihachiman, Shiga, 523-8555, Japan

    Akihiro Kondo

  3. Department of Molecular and Environmental Biotechnology, University of Science, Vietnam National University, Ho Chi Minh City, Vietnam

    Phuong Thao Dang Thi

  4. Department of Molecular Biotechnology, Biotechnology Research and Development Institute, Can Tho University, Cantho City, Vietnam

    Bich Van Truong Thi

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  1. Bich Van Truong Thi
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  2. Nguyen Huan Pham Khanh
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  3. Ryuta Namikawa
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  4. Kaito Miki
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  5. Akihiro Kondo
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  6. Phuong Thao Dang Thi
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  7. Kaeko Kamei
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Correspondence to Kaeko Kamei.

Electronic supplementary material

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Supplementary material 1 (DOC 172 kb)

705_2015_2654_MOESM2_ESM.pptx

Supplementary Fig. 1 Electron micrograph showing ϕRS138 morphology. ϕRS138 was stained with 1% (w/v) sodium phosphotungstate at pH 7. Images were acquired by transmission electron microscopy (JEM-2010, JEOL) at an accelerating voltage of 200 kV. ϕRS138 is a λ-type phage (Siphoviridae) with a non-contractile tail. Bar, 50 nm. (PPTX 297 kb)

705_2015_2654_MOESM3_ESM.pptx

Supplementary Fig. 2 Similarities between the genomes of ϕRS138 (from 5’-terminal to 12 kbp), Ralstonia solanacearum K60-1 (RS K60-1), and other R. solanacearum strains. The red bar indicates the region similar to the Ralstonia solanacearum K60-1 genome. 1, R. solanacearum Po82 genome (CP002819.1); 2, R. solanacearum CFBP2957 genome (FP885897.1); 3, R. solanacearum PSI07 genome (FP885906.2); 4, R. solanacearum GMI1000 genome (AL646052.1); 5, R. syzygii R24 genome (FR854089.1); 6, R. solanacearum CMR15 genome (FP885895.1); 7, R. solanacearum FQY_4 genome (CP004012.1); 8, R. solanacearum YC45 genome (CP011997.1); 9, R. mannitolilytica SN82F48 genome (CP010799.2). (PPTX 60 kb)

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Van Truong Thi, B., Pham Khanh, N.H., Namikawa, R. et al. Genomic characterization of Ralstonia solanacearum phage ϕRS138 of the family Siphoviridae . Arch Virol 161, 483–486 (2016). https://doi.org/10.1007/s00705-015-2654-1

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  • DOI: https://doi.org/10.1007/s00705-015-2654-1

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