Skip to content

Research at St Andrews

Distinct circular single-stranded DNA viruses exist in different soil types

Research output: Contribution to journalArticlepeer-review

DOI

Author(s)

B. Reavy, M.M. Swanson, P.J.A. Cock, L. Dawson, T.E. Freitag, B.K. Singh, L. Torrance, A.R. Mushegian, M. Taliansky

School/Research organisations

Abstract

The potential dependence of virus populations on soil types was examined by electron microscopy, and the total abundance of virus particles in four soil types was similar to that previously observed in soil samples. The four soil types examined differed in the relative abundances of four morphological groups of viruses. Machair, a unique type of coastal soil in western Scotland and Ireland, differed from the others tested in having a higher proportion of tailed bacteriophages. The other soils examined contained predominantly spherical and thin filamentous virus particles, but the Machair soil had a more even distribution of the virus types. As the first step in looking at differences in populations in detail, virus sequences from Machair and brown earth (agricultural pasture) soils were examined by metagenomic sequencing after enriching for circular Rep-encoding singlestranded DNA (ssDNA) (CRESS-DNA) virus genomes. Sequences from the family Microviridae (icosahedral viruses mainly infecting bacteria) of CRESS-DNA viruses were predominant in both soils. Phylogenetic analysis of Microviridae major coat protein sequences from the Machair viruses showed that they spanned most of the diversity of the subfamily Gokushovirinae, whose members mainly infect obligate intracellular parasites. The brown earth soil had a higher proportion of sequences that matched the morphologically similar family Circoviridae in BLAST searches. However, analysis of putative replicase proteins that were similar to those of viruses in the Circoviridae showed that they are a novel clade of Circoviridae-related CRESS-DNA viruses distinct from known Circoviridae genera. Different soils have substantially different taxonomic biodiversities even within ssDNA viruses, which may be driven by physicochemical factors.
Close

Details

Original languageEnglish
Pages (from-to)3934-3945
Number of pages12
JournalApplied and Environmental Microbiology
Volume81
Issue number12
DOIs
Publication statusPublished - Jun 2015

Discover related content
Find related publications, people, projects and more using interactive charts.

View graph of relations

Related by author

  1. Foresight and trade-off analyses: tools for science strategy development in agriculture and food systems research

    Barrett, C. B., Beaudreault, A. R., Meinke, H., Ash, A., Ghezae, N., Kadiyala, S., Nigussie, M., Smith, A. G. & Torrance, L., 14 Jan 2021, In: Q Open. 1, 1, qoaa002.

    Research output: Contribution to journalArticlepeer-review

  2. Potato virus Y emergence and evolution from the Andes of South America to become a major destructive pathogen of potato and other solanaceous crops worldwide

    Torrance, L. & Talianksy, M. E., 12 Dec 2020, In: Viruses. 12, 12, 14 p., 1430.

    Research output: Contribution to journalReview articlepeer-review

  3. TERMINAL FLOWER-1/CENTRORADIALIS inhibits tuberization via protein interaction with the tuberigen activation complex

    Zhang, X., Campbell, R., Ducreux, L. J. M., Morris, J., Hedley, P. E., Mellado-Ortega, E., Roberts, A. G., Stephens, J., Bryan, G. J., Torrance, L., Chapman, S. N., Prat, S. & Taylor, M. A., 14 Jul 2020, In: The Plant Journal. Early View, 16 p.

    Research output: Contribution to journalArticlepeer-review

  4. Natural resistance to Potato virus Y in Solanum tuberosum Group Phureja

    Torrance, L., Cowan, G., McLean, K., MacFarlane, S., Al-Abedy, A., Armstrong, M., Lim, T-Y., Hein, I. & Bryan, G., Mar 2020, In: Theoretical and Applied Genetics. 133, p. 967–980 14 p.

    Research output: Contribution to journalArticlepeer-review

  5. RNA sequence analysis of diseased groundnut (Arachis hypogaea) reveals the full genome of groundnut rosette assistor virus (GRAV)

    Jones, S., Cowan, G., MacFarlane, S., Mukoye, B., Mangeni, B. C., Were, H. & Torrance, L., Feb 2020, In: Virus Research. 277, 197837.

    Research output: Contribution to journalArticlepeer-review

Related by journal

  1. Dichomitus squalens partially tailors its molecular responses to the composition of solid wood

    Daly, P., López, S. C., Peng, M., Lancefield, C. S., Purvine, S. O., Kim, Y-M., Zink, E. M., Dohnalkova, A., Singan, V. R., Lipzen, A., Dilworth, D., Wang, M., Ng, V., Robinson, E., Orr, G., Baker, S. E., Bruijnincx, P. C. A., Hildén, K. S., Grigoriev, I. V., Mäkelä, M. R. & 1 others, de Vries, R. P., Nov 2018, In: Applied and Environmental Microbiology. 20, 11, p. 4141-4156 16 p.

    Research output: Contribution to journalArticlepeer-review

  2. Bacterial catabolism of β-hydroxypropiovanillone and β-hydroxypropiosyringone produced in the reductive cleavage of arylglycerol-β-aryl ether in lignin

    Higuchi, Y., Aoki, S., Takenami, H., Kamimura, N., Takahashi, K., Hishiyama, S., Lancefield, C. S., Ojo, O. S., Katayama, Y., Westwood, N. J. & Masai, E., Apr 2018, In: Applied and Environmental Microbiology. 84, 7, e02670-17.

    Research output: Contribution to journalArticlepeer-review

  3. Optical sensing of microbial life on surfaces

    Fischer, M., Triggs, G. J. & Krauss, T. F., Mar 2016, In: Applied and Environmental Microbiology. 82, 5, p. 1362-1371 10 p.

    Research output: Contribution to journalArticlepeer-review

  4. Salmonella infection in grey seals (Halichoerus grypus), a marine mammal sentinel species: pathogenicity and molecular typing of Salmonella strains compared with human and livestock isolates

    Baily, J. L., Foster, G., Brown, D., Davison, N., Coia, J. E., Watson, E., Pizzi, R., Willoughby, K., Hall, A. J. & Dagleish, M. P., 15 Mar 2016, In: Applied and Environmental Microbiology. 18, 3, p. 1078-1087 10 p.

    Research output: Contribution to journalArticlepeer-review

ID: 223977209

Top