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Panicum streak virus diversity is similar to that observed for maize streak virus

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Varsani, Arvind, Oluwafemi, Sunday, Windram, Oliver P., Shepherd, Dionne N., Monjane, Aderito L., Owor, Betty E., Rybicki, Edward P., Lefeuvre, Pierre and Martin, Darren P.. (2008) Panicum streak virus diversity is similar to that observed for maize streak virus. Archives of Virology, Volume 153 (Number 3). pp. 601-604. ISSN 0304-8608

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Official URL: http://dx.doi.org/10.1007/s00705-007-0020-7

Abstract

Panicum streak virus (PanSV; genus Mastrevirus, family Geminiviridae) is, together with maize streak virus (MSV), sugarcane streak virus (SSV), sugarcane streak Reunion virus (SSRV) and sugarcane streak Egypt virus (SSEV), one of the currently described "African streak virus" (AfSV) species [6]. As with all the other AfSV species other than MSV, very little is known about PanSV genomic sequence diversity across Africa. Only two PanSV full genome sequences have ever been reported: one from Kenya [2], and the other from South Africa [17]. Both these genomes were isolated from Panicum maximum plants, but share only approximately 90% sequence identity. The reason this is noteworthy is that throughout mainland Africa all MSV genomes ever sampled from maize have been found to share > 97% sequence identity. Although other MSV strains sharing between 78 and 90% identity with the maize-adapted strain (MSV-A) have been described, these have all been isolated from different host species, indicating that host adaptation is probably the main force driving MSV diversification. MSV and PanSV share common vector species (leafhoppers in the genus Cicadulina) and probably also share some host species. Although the host range of PanSV is currently unknown, the MSV host range is extensive and includes P. maximum [3]. One might therefore expect that similar evolutionary forces acting on both species might result in their sharing similar patterns of both geographical and host-associated diversity. Here we describe the full genome sequences of five new PanSV isolates (including two new strains) sampled from southern and western Africa, and report that PanSV and MSV do indeed have similar patterns of diversity. We find, however, that unlike with MSV, geographical separation rather than host adaptation is possibly the dominant force driving PanSV diversification.

Item Type:

Journal Article

Subjects:

Q Science > QK Botany
Q Science > QR Microbiology > QR355 Virology

Divisions:

Faculty of Science > Life Sciences (2010- ) > Warwick HRI (2004-2010)

Library of Congress Subject Headings (LCSH):

Panicum -- Diseases and pests -- South Africa, Corn -- Diseases and pests -- South Africa

Journal or Publication Title:

Archives of Virology

Publisher:

Springer Wien

ISSN:

0304-8608

Official Date:

March 2008

Dates:

Date	Event
March 2008	Published

Volume:

Volume 153

Number:

Number 3

Number of Pages:

Page Range:

pp. 601-604

Identification Number:

10.1007/s00705-007-0020-7

Status:

Peer Reviewed

Publication Status:

Published

Access rights to Published version:

Restricted or Subscription Access

Funder:

National Research Foundation (South Africa), Carnegie Corporation of New York, Pannar Seed Ltd., Harry Oppenheimer Trust, Academy of Science of South Africa. Sydney Brenner Fellowship, France. Ministère de la recherche et de l'enseignement supérieur , Rockefeller Foundation, Canon Collins Educational and Legal Assistance Trust, University of Cape Town

References:

1. Boni M, Posada D, Feldman MW (2007) An exact nonparametric
method for inferring mosaic structure in sequence triplets.
Genetics 176:1035–1047
2. Briddon RW, Lunness P, Chamberlin LC, Pinner MS, Brundish
H, Markham PG (1992) The nucleotide sequence of an infectious
insect-transmissible clone of the geminivirus Panicum streak
virus. J Gen Virol 73:1041–1047
3. Damsteegt VD (1983) Maize streak virus host range and vulnerability
of maize germ plasm. Plant Disease 67:734–737
4. Gibbs MJ, Armstrong JS, Gibbs AJ (2000) Sister-scanning: a
Monte Carlo procedure for assessing signals in recombinant
sequences. Bioinformatics 16:573–582
5. Guindon S, Gascuel O (2003) A simple, fast, and accurate
algorithm to estimate large phylogenies by maximum likelihood.
Syst Biol 52:696–704
6. Hughes FL, Rybicki EP, von Wechmar MB (1992) Genome
typing of southern African subgroup-1 geminiviruses. J Gen Virol
73:1031–1040
7. Martin D, Rybicki E (2000) RDP: detection of recombination
amongst aligned sequences. Bioinformatics 16:562–563
8. Martin DP, Posada D, Crandall KA, Williamson C (2005) A
modified bootscan algorithm for automated identification of
recombinant sequences and recombination breakpoints. AIDS
Res Hum Retroviruses 21:98–102
9. Martin DP, Williamson C, Posada D (2005) RDP2: recombination
detection and analysis from sequence alignments. Bioinformatics
21:260–262
10. Martin DP, Willment JA, Billharz R, Velders R, Odhiambo B,
Njuguna J, James D, Rybicki EP (2001) Sequence diversity and
virulence in Zea mays of maize streak virus isolates. Virology
288:247–255
11. Maynard Smith J (1992) Analyzing the mosaic structure of genes.
J Mol Evol 34:126–129
12. Owor BE, Martin DP, Shepherd DN, Edema R, Monjane AL,
Rybicki EP, Thomson JA, Varsani A (2007) Genetic analysis of
maize streak virus isolates from Uganda reveals widespread
distribution of a recombinant variant. J Gen Virol 88:3154–3165
13. Owor BE, Shepherd DN, Taylor NJ, Edema R, Monjane AL,
Thomson JA, Martin DP, Varsani A (2007) Successful application
of FTA Classic Card technology and use of bacteriophage
phi29 DNA polymerase for large-scale field sampling and cloning
of complete maize streak virus genomes. J Virol Methods 140:
100–105
14. Padidam M, Sawyer S, Fauquet CM (1999) Possible emergence
of new geminiviruses by frequent recombination. Virology 265:
218–225
15. Posada D (2006) ModelTest Server: a web-based tool for the
statistical selection of models of nucleotide substitution online.
Nucleic Acids Res 34:700–703
16. Posada D, Crandall KA (2002) The effect of recombination on
the accuracy of phylogeny estimation. J Mol Evol 54:396–402
17. Schnippenkoetter WH, Martin DP, Hughes FL, Fyvie M,
Willment JA, James D, von Wechmar MB, Rybicki EP (2001)
The relative infectivities and genomic characterisation of three
distinct mastreviruses from South Africa. Arch Virol 146:1075–
1088
18. Tamura K, Dudley J, Nei M, Kumar S (2007) MEGA4: molecular
evolutionary genetics analysis (MEGA) software version 4.0., pp
1596–1599
19. Thompson JD, Higgins DG, Gibson TJ (1994) CLUSTAL W:
improving the sensitivity of progressive multiple sequence
alignment through sequence weighting, position-specific gap
penalties and weight matrix choice. Nucleic Acids Res 22:4673–
4680