Identification of a sweet potato feathery mottle virus isolate from China (SPFMV-CH) by the polymerase chain reaction with degenerate primers

Colinet, Dominique; Kummert, J.

doi:10.1016/0166-0934(93)90099-d

Cited by 50 publications

(33 citation statements)

References 20 publications

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“…The PCR procedure utilizing degenerate primers designed to amplify the region coding for the C-terminal half of the Nib polymerase and the N-terminal half of the CP is a rapid and sensitive technique for detecting and characterizing members of the Potyvirus genus [3]. The cloning and sequencing of the six YMV amplified fragments obtained with the degenerate primers POT1 and POT2 revealed potyvirus specific consensus motifs, thus confirming the classification of YMV as a potyvirus member on the base of its biological, serological and microscopical properties [20].…”

Section: Discussionmentioning

confidence: 99%

“…Two degenerate primers (POT1 and POT2) were used for the amplification of cDNA corresponding to the 3'-terminal part of the NIb cistron and to the Y-terminal part of the CP cistron [3]. The sequence of the two degenerate primers and their location in the potyvirus genome are presented in Fig.…”

Section: Pcr Experimentsmentioning

confidence: 99%

“…RT-PCR were carried out using the two degenerate primers, POT1 and POT2, designed to amplify cDNA fi'agments spanning the Y-terminal part of the NIb cistron and the Y-terminal part of the potyvirus CP cistron [3]. RT-PCR assays were carried out on RNA extracted from plants infected with the YMV-TOG, YMV-COT, YMV-CAR, YMV-BU 1, YMV-BU2 isolates and on a purified virus preparation of YMV-12.…”

Section: R T-pcr Amplificationsmentioning

confidence: 99%

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Determination of the taxonomic position and characterization of yam mosaic virus isolates based on sequence data of the 5′-terminal part of the coat protein cistron

Duterme

Colinet

Kummert

et al. 1996

Archives of Virology

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Summary. The sequences of the N-terminal part of the coat protein cistron from six isolates of yam mosaic virus (YMV-TOG, YMV-COT, YMV-12, YMV-CAR, YMV-BU1 and YMV-BU2) were determined. The analysis of the deduced amino acid sequences revealed the presence of consensus motifs characteristic of the potyvirus genus supporting the classification of YMV as a potyvirus member. The alignment of the N-terminal part of the coat protein of YMV-TOG, YMV-COT, YMV-12 and YMV-CAR showed that they were identical in size (152 aa) while YMV-BU1 and YMV-BU2 were shorter (140 aa) due to a deletion of 12 aa. These amino acid sequences exhibit an overall sequence identity ranging from 70.4% to 97.4% while the identity level with the other potyviruses sequenced in the considered region is below 50%, confirming that YMV is a distinct member of the potyvirus genus. The detailed analysis of the amino acid sequence alignment and of the identity levels observed between the N-terminal part of the coat protein of the six YMV isolates lead us to suggest that they have to be considered as distantly related strains of YMV rather than closely related but distinct viruses.

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Section: Discussionmentioning

confidence: 99%

Section: Pcr Experimentsmentioning

confidence: 99%

Section: R T-pcr Amplificationsmentioning

confidence: 99%

See 1 more Smart Citation

Determination of the taxonomic position and characterization of yam mosaic virus isolates based on sequence data of the 5′-terminal part of the coat protein cistron

Duterme

Colinet

Kummert

et al. 1996

Archives of Virology

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show abstract

“…Degenerate primers Pot1 (GACTGGATCCAT-TBTCDATRCACCA) and Pot2 (GACGAAT-TCTGYGAYGCBGATGGYTC) were previously designed to amplify the variable 5% terminal part of the coat protein gene, together with the 3% terminal part of the nuclear inclusion b (NIb) gene of potyviruses (Colinet and Kummert, 1993). Oligo(dT) primed single stranded cDNA was synthesized from 5 vg of total RNA using the Amersham cDNA synthesis kit.…”

Section: Pcr Amplification With Poty6irus-specific Primersmentioning

confidence: 99%

“…These nucleotide sequences as well as the deduced amino acid sequences of the coat proteins have been compared to each other and to those of two potyviruses infecting sweetpotato, sweetpotato feathery mottle virus (SPFMV; Abad et al, 1992;Colinet and Kummert, 1993) and sweetpotato virus G (SPVG; Colinet et al, 1994b), and other potyviruses.…”

Section: Introductionmentioning

confidence: 99%

Evidence for the assignment of two strains of SPLV to the genus Potyvirus based on coat protein and 3′ non-coding region sequence data

1997

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The use of potyvirus-specific primers and subsequent application of the RACE procedure allowed the cloning of the 3% terminal 1088 nucleotides of the genomic RNA of the Taiwan isolate of sweetpotato latent virus (SPLV-T) and the 3% genomic 1085 nucleotides of a SPLV-like virus from China (SPLV-CH). The sequence of an internal part of the presumptive nuclear inclusion b gene was also determined for both isolates. Detailed sequence analyses revealed the presence of consensus motifs which indicated that SPLV-CH and SPLV-T should be regarded as members of the genus Poty6irus. Multiple sequence alignments and phylogenetic analyses were also performed and unambiguously assessed these isolates as strains of a distinct Poty6irus. SPLV was not related to other potyviruses infecting sweetpotato nor to any other sequenced virus. From the presence of the DAG box, SPLV-CH is expected to be a typical aphid transmitted Poty6irus whereas a conceivable explanation is proposed for the non-aphid transmission of SPLV-T. © 1997 Elsevier Science B.V.

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Sweetpotato in China

2009

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Identification of a sweet potato feathery mottle virus isolate from China (SPFMV-CH) by the polymerase chain reaction with degenerate primers

Cited by 50 publications

References 20 publications

Determination of the taxonomic position and characterization of yam mosaic virus isolates based on sequence data of the 5′-terminal part of the coat protein cistron

Determination of the taxonomic position and characterization of yam mosaic virus isolates based on sequence data of the 5′-terminal part of the coat protein cistron

Evidence for the assignment of two strains of SPLV to the genus Potyvirus based on coat protein and 3′ non-coding region sequence data

Sweetpotato in China

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