Successful application of FTA® Classic Card technology and use of bacteriophage ϕ29 DNA polymerase for large-scale field sampling and cloning of complete maize streak virus genomes

Owor, Betty E.; Shepherd, Dionne N.; Taylor, Nigel J.; Edema, Richard; Monjane, Adérito Luis; Thomson, Jennifer A.; Martin, Darren P.; Varsani, Arvind

doi:10.1016/j.jviromet.2006.11.004

Cited by 61 publications

(43 citation statements)

References 17 publications

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“…Circular viral DNA molecules were amplified from a crude total DNA extract from the two maize samples using Phi29 DNA polymerase (TempliPhi TM , GE Healthcare, USA) as described previously [15,16,18] and cut with KpnI (PR50) and BamHI (PR52) to yield *2.7-kb DNA fragments, which were subsequently ligated to the KpnI and BamHI sites of pGEMZf? (Promega Biotech, USA).…”

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A novel maize-infecting mastrevirus from La Réunion Island

et al. 2012

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Despite extensive sampling, only one virus belonging to the genus Mastrevirus of the family Geminiviridae, maize streak virus (MSV), has until now been detected in maize with maize streak disease (MSD) symptoms. Here, we report for the first time a second, highly divergent, mastrevirus isolated from two maize plants displaying characteristic MSD-like symptoms, sampled on the South-west Indian Ocean Island, La Réunion. The two isolates shared \57 % genome-wide identity with all other known mastreviruses. We propose calling the new species Maize streak Réunion virus.

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A novel maize-infecting mastrevirus from La Réunion Island

et al. 2012

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“…Due primarily to the development of new molecular tools and the proliferation of industrial-scale low-cost commercial sequencing services (applying both Sanger and a variety of ''next-generation'' sequencing techniques), there has been a tremendous increase over the last five years in the rate at which new geminivirus genomes have been characterised. Of the new molecular tools, sequence-independent methodologies based on rolling-circle amplification that employ /29 DNA polymerase have played a disproportionately important role in the discovery of new highly divergent geminiviruses [17,20,27,31].…”

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Establishment of three new genera in the family Geminiviridae: Becurtovirus, Eragrovirus and Turncurtovirus

et al. 2014

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The family Geminiviridae includes plantinfecting circular single-stranded DNA viruses that have geminate particle morphology. Members of this family infect both monocotyledonous and dicotyledonous plants and have a nearly global distribution. With the advent of new molecular tools and low-cost sequencing, there has been a significant increase in the discovery of new geminiviruses in various cultivated and non-cultivated plants.In this communication, we highlight the establishment of three new genera (Becurtovirus, Eragrovirus and Turncurtovirus) to accommodate various recently discovered geminiviruses that are highly divergent and, in some cases, have unique genome architectures. The genus Becurtovirus has two viral species, Beet curly top Iran virus (28 isolates; leafhopper vector Circulifer haematoceps) and Spinach curly top Arizona virus (1 isolate; unknown vector), whereas the genera Eragrovirus and Turncurtovirus each have a single assigned species: Eragrostis curvula streak virus (6 isolates; unknown vector) and Turnip curly top virus (20 isolates; leafhopper vector Circulifer haematoceps), respectively. Based on analysis of all of the genome sequences available in public databases for each of the three new genera, we provide guidelines and protocols for species and strain classification within these three new genera.Electronic supplementary material The online version of this article

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“…Full-length viral genomes were amplified from total plant DNA using phi29 DNA polymerase (TempliPhi; GE Healthcare) as described by Owor et al (48) and Shepherd et al (60). Amplified genome concatemers were digested with either KpnI or BamHI (see Table S1 in the supplemental material for details) to yield linearized viral genomes (ϳ2.7 kb), which were ligated into analogously linearized pGEMZfϩ (Promega Biotech).…”

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“…Amplified genome concatemers were digested with either KpnI or BamHI (see Table S1 in the supplemental material for details) to yield linearized viral genomes (ϳ2.7 kb), which were ligated into analogously linearized pGEMZfϩ (Promega Biotech). Using primers described previously (48), both strands of each full-length genome were subjected to DNA sequencing (Macrogen Inc., South Korea). The sequences were edited and assembled using DNAman (version 5.2.9; Lynnon Biosoft, Canada) and Mega 4 (67).…”

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Reconstructing the History of Maize Streak Virus Strain A Dispersal To Reveal Diversification Hot Spots and Its Origin in Southern Africa

Monjane

Harkins

Martin

et al. 2011

J Virol

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Maize streak virus strain A (MSV-A), the causal agent of maize streak disease, is today one of the most serious biotic threats to African food security. Determining where MSV-A originated and how it spread transcontinentally could yield valuable insights into its historical emergence as a crop pathogen. Similarly, determining where the major extant MSV-A lineages arose could identify geographical hot spots of MSV evolution. Here, we use model-based phylogeographic analyses of 353 fully sequenced MSV-A isolates to reconstruct a plausible history of MSV-A movements over the past 150 years. We show that since the probable emergence of MSV-A in southern Africa around 1863, the virus spread transcontinentally at an average rate of 32.5 km/year (95% highest probability density interval, 15.6 to 51.6 km/year). Using distinctive patterns of nucleotide variation caused by 20 unique intra-MSV-A recombination events, we tentatively classified the MSV-A isolates into 24 easily discernible lineages. Despite many of these lineages displaying distinct geographical distributions, it is apparent that almost all have emerged within the past 4 decades from either southern or east-central Africa. Collectively, our results suggest that regular analysis of MSV-A genomes within these diversification hot spots could be used to monitor the emergence of future MSV-A lineages that could affect maize cultivation in Africa.

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Successful application of FTA® Classic Card technology and use of bacteriophage ϕ29 DNA polymerase for large-scale field sampling and cloning of complete maize streak virus genomes

Cited by 61 publications

References 17 publications

A novel maize-infecting mastrevirus from La Réunion Island

A novel maize-infecting mastrevirus from La Réunion Island

Establishment of three new genera in the family Geminiviridae: Becurtovirus, Eragrovirus and Turncurtovirus

Reconstructing the History of Maize Streak Virus Strain A Dispersal To Reveal Diversification Hot Spots and Its Origin in Southern Africa

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