Genetic Diversity and Molecular Epidemiology of Rice Yellow Mottle Virus in Central African Republic

Longué, Régis Dimitri Sokpé; Galzi-Pine, A.; Zinga, Innocent; Semballa, Silla; Fargette, Denis; Barro, Nicolas; Traoré, Oumar

doi:10.3923/ijv.2017.80.89

Cited by 8 publications

(10 citation statements)

References 17 publications

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“…Genetic diversity analysis of RYMV revealed six main strains spread throughout sub-Saharan African rice cultivation regions moving from East to West [ 11 , 12 ]. In the Central African Republic, despite the recent emergence of RYMV in the country, isolates were also found to be genetically diversified [ 13 ]. Indeed, in the most recent study, we reported that isolates from the Central African Republic belong to two sister phylogenetic groups closely related to the S1ca strain, a strain found in eastern West Africa, Cameroon and in Chad, neighboring countries of the CAR [ 13 ].…”

Section: Introductionmentioning

confidence: 99%

“…In the Central African Republic, despite the recent emergence of RYMV in the country, isolates were also found to be genetically diversified [ 13 ]. Indeed, in the most recent study, we reported that isolates from the Central African Republic belong to two sister phylogenetic groups closely related to the S1ca strain, a strain found in eastern West Africa, Cameroon and in Chad, neighboring countries of the CAR [ 13 ]. Genetic diversity occurring among RYMV populations seems to present a big challenge for breeding rice for durable resistance to plant virus.…”

Section: Introductionmentioning

confidence: 99%

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Pathogenicity of rice yellow mottle virus and screening of rice accessions from the Central African Republic

Longué

Traoré

Zinga

et al. 2018

Virol J

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BackgroundRice yellow mottle virus (RYMV) of the genus Sobemovirus is the most important viral pathogen of rice causing more damage to rice crop in Sub Saharan Africa. The aim of this study was to conduct pathogenic characterization of RYMV isolates from the Central African Republic (CAR) and to screen commonly cultivated rice accessions in the country for resistance/tolerance to the virus.MethodsThe pathogenicity of RYMV isolates was studied by mechanical inoculation with comparison to differential rice lines highly resistant to RYMV available at the Institute of Environment and Agricultural Research (INERA) in Burkina Faso.To screen commonly cultivated rice accessions in CAR, characterized RYMV isolates from the country were used as inoculum sources. Resistant breaking (RB) isolates were used to prepare RB-inoculum, whereas non-resistant breaking isolates (nRB) were used for nRB-inoculum.ResultsOverall 102 isolates used in this study, 29.4% were able to overcome the high resistance genes in the rice cultivars Gigante and Tog7291. All isolates were distributed within three distinct pathogenic profiles. The first profile constituted of 6.9% of the isolates was able to break down the resistance in rice cultivar Gigante only. The second pathogenic profile made of 19.6% of isolates was able to infect Tog7291 only. The third profile, 2.9% of isolates overcame simultaneously resistance genes in both rice cultivars Gigante and Tog7291. Out of isolates able to break down the resistance gene in cultivar Gigante, a single isolate was found to be non-infectious to the susceptible control IR64.Data from screening showed that all accessions were susceptible to RYMV, although IRAT213 was found to be partially resistant to both nRB-inoculum and RB-inoculum.ConclusionThe present study can be considered as the first in the Central African Republic, it gives a caution on the high risk of RYMV damage to rice production in the country. Beside, skills of pathogenic profiles of RYMV isolates will contribute to better disease management.Electronic supplementary materialThe online version of this article (10.1186/s12985-017-0912-4) contains supplementary material, which is available to authorized users.

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Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Pathogenicity of rice yellow mottle virus and screening of rice accessions from the Central African Republic

Longué

Traoré

Zinga

et al. 2018

Virol J

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“…For molecular characterization, RNA was extracted from collected samples leaves using Trizol reagent (Invitrogen, USA) extraction protocol as described in Longué et al (2017).…”

Section: Rna Extraction Rt-pcr and Sequencingmentioning

confidence: 99%

Molecular characterization of virus isolates from genus Potyvirus infecting Vigna subterranea in Burkina Faso

Konaté¹,

Ouédraogo²,

Néya³

et al. 2017

Afr. J. Biotechnol.

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Bambara groundnut (Vigna subterranea) is an African legume with a great nutritional, economic and social potential. However, one of the main constraints to this crop is viral diseases which reduced yields. Indeed, approximately 12 viruses have been reported to infect bambara groundnut. Among these, only four were reported from Burkina Faso, namely, cowpea aphid-borne mosaic virus (CABMV), bean common mosaic virus strain-blackeye cowpea mosaic (BCMV-BlCM), peanut mottle virus (PeMoV), and cowpea mottle virus (CPMoV). This study was carried out in order to identify and characterize the main viruses occurring in bambara groundnut from Burkina Faso using serological and molecular tests. 140 plants were sampled in the three agro-climatic zones of Burkina Faso. Both Potyvirus CABMV and BCMV-BlCM were identified in 8.57% of the samples when double antibody sandwich enzyme-linked immunosorbent assay (DAS-ELISA) test was used and 14.29% of the samples when reverse transcription-polymerase chain reaction (RT-PCR) test was used. Phylogenetic tree based on 476 nt in coat protein showed that all Burkina Faso CABMV isolates clustered together with Uganda isolate (KT726938). However, two groups were distinguished within these isolates. Burkina Faso BCMVBlCM isolates are strengthly clustered with BCMV and BlCMV group. This study reports the first molecular characterization of CABMV and BCMV-BlCM infecting Bambara groundnut in Burkina Faso.

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“…Total RNA from the 135 samples were extracted individually with Trizol (Invitrogen) according to the protocol described by [8]. Before the extraction, the mortars were first sterilized during 2 hours at 180˚C and then kept at −80˚C until use.…”

Section: Total Rna Extractionmentioning

confidence: 99%

Molecular Characterization of a Large Diversity of Bambara Groundnut Potyviruses (<i>Vigna subterranea</i> (L.) Verdc.) in Burkina Faso

Zongo¹,

Néya²,

Palanga³

et al. 2019

ABB

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Potyviruses are major constraints to grain legume production by causing significant yield losses. Potyviruses infecting Bambara groundnut (Vigna subterranea) were investigated in Burkina Faso. Leaf samples collected from three agroclimatic zones were subjected to RT-PCR and sequence analyses. Of a total of 135 samples, 36 (26.67%) were detected positive in RT-PCR tests using potyvirus universal primers. Analysis of full coat protein (cp) sequences from 24 isolates revealed the occurrence of three groups of Bambara groundnut-infecting potyviruses. Virus isolates in group 1 shared 94.5%-100% nucleotide (nt) identity with CABMV whereas those in group 2 and group 3 were distantly related Bean common necrosis virus (BCMNV) and Passiflora virus Ugandan which were their respective closest potyviruses. Group 2 shared 77.1% nt and 78.8%-79.9% aa identity with BCMNV and group 3 shared 77.3%-78.3% nt and 80.7%-81.5% aa identity with Passiflora virus Ugandan. All three groups were confirmed by phylogenetic analyses. Taking into account potyvirus demarcation criteria, group 1 isolates belonged to CABMV species. Group 2 and group 3 were assigned to a potentially new potyviruses species and designated Bambara groundnut potyvirus 1 (BGPV1) and Bambara groundnut potyvirus 2 (BGPV2).

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Genetic Diversity and Molecular Epidemiology of Rice Yellow Mottle Virus in Central African Republic

Cited by 8 publications

References 17 publications

Pathogenicity of rice yellow mottle virus and screening of rice accessions from the Central African Republic

Pathogenicity of rice yellow mottle virus and screening of rice accessions from the Central African Republic

Molecular characterization of virus isolates from genus Potyvirus infecting Vigna subterranea in Burkina Faso

Molecular Characterization of a Large Diversity of Bambara Groundnut Potyviruses (<i>Vigna subterranea</i> (L.) Verdc.) in Burkina Faso

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Genetic Diversity and Molecular Epidemiology of Rice Yellow Mottle Virus in Central African Republic

Cited by 8 publications

References 17 publications

Pathogenicity of rice yellow mottle virus and screening of rice accessions from the Central African Republic

Pathogenicity of rice yellow mottle virus and screening of rice accessions from the Central African Republic

Molecular characterization of virus isolates from genus Potyvirus infecting Vigna subterranea in Burkina Faso

Molecular Characterization of a Large Diversity of Bambara Groundnut Potyviruses (&lt;i&gt;Vigna subterranea&lt;/i&gt; (L.) Verdc.) in Burkina Faso

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Molecular Characterization of a Large Diversity of Bambara Groundnut Potyviruses (<i>Vigna subterranea</i> (L.) Verdc.) in Burkina Faso