Differentiation of Poaceae Potyviruses by Reverse Transcription‐Polymerase Chain Reaction and Restriction Analysis

Marie-Jeanne, Véronique; Ioos, Renaud; Peyre, Jérôme F. La; Alliot, B.; Signoret, P. A.

doi:10.1046/j.1439-0434.2000.00473.x

Cited by 78 publications

(33 citation statements)

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“…However, the cutting pattern by other enzymes are similar with a sequence similarities of 98.4-99.5% (nt) and 97.0-99.0% (aa) in the core region, thereby possibly representing the variant, SCMV-IND-CS. Since, single base mutation is sufficient for an isolate to lose a restriction site and to hamper typing by restriction[42].Although the isolates CB44-101, CBC92061-1, CBC92061-2, CB1148, and CB617, have deletions of 18 aa, the latter isolate varied from other isolates by showing 94.2-94.6% (nt) and 90.8-91.3% (aa) sequence similarities at core region and 66.9-92.1% (nt) and 87.9-89.6% (aa) sequence similarities at hyper variable region, hence CB617 represent the variant SCMV-IND-CO2. Moreover, it was not separated under any groups in both the phylograms and the cutting sites for all the enzymes are unique.…”

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confidence: 99%

Identification of new variants of SCMV causing sugarcane mosaic in India and assessing their genetic diversity in relation to SCMV type strains

2009

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Sugarcane mosaic virus (SCMV) is one of the two causative viruses of mosaic in sugarcane, a sugar crop widely grown under tropical and subtropical conditions worldwide. Although molecular characterization of SCMV strains was reported from many countries, strains occurring in India, a major sugarcane producer have not been reported so far. Twenty-six sugarcane samples represented by seven major sugarcane growing states in India and USA were subjected to reverse-transcription polymerase chain reaction (RT-PCR) using a pair of newly designed coat protein specific primers. Among them 17 were found positive to the SCMV infection. The lengths of the sequences derived in this study using the new set of primers varied between 812 and 866 nt. The amino acid sequence comparison of 30 Indian SCMV isolates showed wide range of sequence similarities in core region (88.80-100%) and hyper variable region (51.3-100%). In the N-terminal region of the five Indian isolates, a deletion of 12 aa residues between aa 11 and 30 was observed, whereas the deletion was between aa 45 and 50 in SCMV-B and -D and between aa 61 and 70 in SCMV-A. The phylogenetic analyses performed with 46 SCMV CP sequences for both hyper variable region and core region separated the isolates mostly according to their geographical origin. The 30 Indian SCMV isolates were included exclusively in four groups besides SCMV-IND, which was grouped with SCMV-SC, a type of strain from Australia. Nearly 97.0% of the Indian isolates have no signs for close relationships with previously characterized SCMV type strains (SCMV-A, -B, -D, -E, and -SC) reported from other countries. Our studies revealed that the sugarcane mosaic in India are caused by at least nine new SCMV variants (IND-CC1, -CC2, -CC3, -CC4, -CO1, -CO2, -CP, -CS, and -J) and a type strain SCMV-SC represented by SCMV-IND. This is the first report on the variability and occurrence of new SCMV population in India.

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confidence: 99%

Identification of new variants of SCMV causing sugarcane mosaic in India and assessing their genetic diversity in relation to SCMV type strains

2009

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“…Being a distinct potyvirus as reclassified by Shukla et al (1992) and differentiated by Marie-Jeanne et al (2000) from other Poaceae viruses with a PCR test, JGMV was identified on maize samples in Turkey. This is the first report of the presence of JGMV in the Trakya region of Turkey.…”

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confidence: 99%

Incidence of virus diseases in maize fields in the Trakya region of Turkey

İlbağı

Rabenstein

Habekuß

et al. 2007

phyto

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A survey on maize virus diseases was conducted in the Trakya region of Turkey by examining 32 496 and 46 871 plants in 2004 and 2005, respectively. Rates of symptomatic plants were estimated at 3.7 to 63.6%, depending on locations. Biological and serological test results revealed the presence of barley yellow dwarf virus-PAV (BYDV-PAV), maize dwarf mosaic virus (MDMV), sugarcane mosaic virus (SCMV), and Johnson grass mosaic virus (JGMV). One hundred forty-two samples were collected randomly from 6492 symptomatic plants in 2004. Seventy-two out of the 142 samples were infected with MDMV, two were infected with BYDV-PAV, 19 with MDMV and BYDV-PAV, two with MDMV, BYDV-PAV and SCMV, and only one sample contained the four viruses. In 2005, 100 other leaf samples were collected randomly from 11 739 symptomatic maize plants. Serological tests revealed that 50% of the samples were infected with MDMV and SCMV; however, five showed mixed infections of two or three combinations of tested viruses. Individual MDMV, SCMV, BYDV-PAV and JGMV infections were detected in five, three, two and four samples, respectively. Presence of MDMV was confirmed by Western blot analysis and IC-RT-PCR. SCMV was also detected by IC-RT-PCR. This is the first study reporting the detection of SCMV and JGMV on maize plants in Turkey.Une enquête sur les maladies virales du maïs a été menée dans la région de Trakya en Turquie avec l’examen, en 2004 et 2005, de respectivement 32 496 et 46 871 plantes. Selon l’endroit, le taux de plantes symptomatiques a varié entre 3,7 et 63,6 %. Les résultats de tests biologiques et sérologiques ont révélé la présence de la souche PAV du virus de la jaunisse nanisante de l’orge (BYDV-PAV), du virus de la mosaïque nanisante du maïs (MDMV), du virus de la mosaïque de la canne à sucre (SCMV) et du virus de la mosaïque du sorgho d’Alep (JGMV). En 2004, 142 échantillons foliaires ont été recueillis aléatoirement sur 6492 plantes présentant des symptômes. Soixante-douze des 142 échantillons étaient infectés par le MDMV, deux étaient infectés par le BYDV-PAV, 19 par le MDMV et le BYDV-PAV, deux par le MDMV, le BYDV-PAV et le SCMV, alors qu'un seul contenait les quatre virus. En 2005, 100 nouveaux échantillons foliaires ont été recueillis aléatoirement de 11 739 plants de maïs présentant des symptômes. Des tests sérologiques ont montré que 50 % des échantillons étaient infectés par le MDMV et le SCMV; cependant, cinq échantillons étaient infectés par des combinaisons de deux ou trois des virus testés. Des infections par un seul virus parmi le MDMV, le SCMV, le BYDV-PAV et le JGMV ont été respectivement détectées dans cinq, trois, deux et quatre échantillons. La présence du MDMV a été confirmée par buvardage Western et par immunocapture suivie de transcription inverse et réaction en chaîne de la polymérase (IC-RT-PCR). Le SCMV a aussi été détecté par IC-RT-PCR. La présente étude est la première à signaler, en Turquie, la présence du SCMV et du JGMV dans le maïs

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“…Reaction mixtures were incubated at 42 °C for 50 min to synthesize the first strand cDNA, and then the reaction was inactivated by heating at 70 °C for 15 min. RT products were heated at 94 °C for 2 min and amplification was performed with 35 cycles of 30 sec for strand separation at 94 °C, 1 min for primer annealing at 50°C and 1 min for synthesis at 72 °C, and 10 min at 72 °C for final extension using pair of potyvirus specific degenerate primers (MJ1 and MJ2) (Marie-Jeanne et al, 2000).…”

Section: Methodsmentioning

confidence: 99%

Mixed-Infection of Papaya Ring Spot Virus and Tomato Leaf Curl New Delhi Virus in Coccinia grandis in India

Sultana¹,

Roy²,

Sherpa³

2017

Int.J.Curr.Microbiol.App.Sci

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Differentiation of Poaceae Potyviruses by Reverse Transcription‐Polymerase Chain Reaction and Restriction Analysis

Cited by 78 publications

References 0 publications

Identification of new variants of SCMV causing sugarcane mosaic in India and assessing their genetic diversity in relation to SCMV type strains

Identification of new variants of SCMV causing sugarcane mosaic in India and assessing their genetic diversity in relation to SCMV type strains

Incidence of virus diseases in maize fields in the Trakya region of Turkey

Mixed-Infection of Papaya Ring Spot Virus and Tomato Leaf Curl New Delhi Virus in Coccinia grandis in India

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