Assessing sequence diversity of Groundnut rosette disease agents and the distribution of Groundnut rosette assistor virus in major groundnut-producing regions of Ghana

Appiah, Andrew Sarkodie; Sossah, Frederick Leo; Tegg, Robert S.; Offei, Samuel Kwame; Wilson, C. R.

doi:10.1007/s40858-017-0140-x

Cited by 4 publications

(4 citation statements)

References 35 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Kenyan GRAV CP isolates exhibited closest identities with Malawian isolates than Nigerian and Ghanaian isolates. This findings concurs with [14] and [23], who observed closer identity between sequences from the same geographical region as compared to those from separate geographical regions. In the study, [14] found that Kenyan isolates of GRAV CP gene shared 98% nucleotide identity with Malawian isolates as compared to 96-97% with those from Nigeria.…”

Section: Discussionsupporting

confidence: 91%

“…In the study, [14] found that Kenyan isolates of GRAV CP gene shared 98% nucleotide identity with Malawian isolates as compared to 96-97% with those from Nigeria. [23], observed that Ghanaian GRAV CP gene sequence isolates had 98-99% nucleotide identity as compared to 97-99% with Malawian isolates. Such differences due to geographical distances could be as a result of differences in environmental conditions that bring about variations in evolution of the viruses.…”

Section: Discussionmentioning

confidence: 96%

“…This implies that GRAV CP gene is highly conserved across the wide geographical region in Sub-Saharan Africa. It can thus be targeted as a suitable candidate for development of pathogen-derived resistance (PDR) through genetic engineering that can be used across Sub-Saharan Africa [9,23].…”

Section: Discussionmentioning

confidence: 99%

See 2 more Smart Citations

Incidence of Groundnut Rosette Disease (GRD) and Genetic Diversity of Groundnut Rosette Assistor Virus (GRAV) in Western Kenya

Mukoye¹,

Ndong’a²,

Wéré³

2019

IJGG

View full text Add to dashboard Cite

This study determined the incidence of groundnut rosette disease (GRD) and genetic diversity of groundnut rosette assistor virus (GRAV, genus Luteovirus) in western Kenya. The diseases is a major constraint of groundnuts in Sub-Saharan Africa (SSA) causing up to 100% yield losses in severe cases. Among the GRD associated viruses, GRAV plays a crucial role in vector transmission of the other viruses. Therefore understanding the genetics of GRAV across SSA could enhance development of resistance to the disease. In Kenya, groundnuts are mainly grown in western region, however, the yields are poor mainly due to GRD. Information on occurrence and distribution of GRD in western Kenya was not documented and little was known about the characteristics of associated viruses. Two diagnostic surveys were conducted in six counties; Bungoma, Busia, Homabay, Kakamega, Siaya and Vihiga. Symptomatic and asymptomatic groundnut were collected in RNAlater® solution for laboratory analysis. Total RNA was extracted from the leaf samples using RNeasy Mini Kit (Qiagen) according to the manufacturers' protocol and used for double stranded cDNA synthesis using the SuperScript II kit. The cDNA was column-purified with the DNA Clean & ConcentratorTM-5-DNA kit. The samples were then processed with the transposon-based chemistry library preparation kit (Nextera XT, Illumina) following manufacturer's instructions. The fragment sizes structure of the DNA libraries was assessed using the Agilent 2100 Bioanalyzer. The indexed denatured DNA libraries were sequenced (200-bp paired-end sequencing) on the Illumina MiSeq platform (Illumina). Reads quality check was done using FastQC. Trimmed reads were used for de novo assembly and contigs aligned to the viral genomes database using CLC Genomics Workbench 10.1.2. The assembled contigs were subjected to a BLASTn search against the GenBank database. Phylogenetic analyses and comparisons were performed using the MEGA X. Average incidence was 53% and 41% in the short and long rain seasons, respectively. Chlorotic rosette was the dominant symptom followed by Green rosette and Mosaic. The GRAV coat protein (GRAV-CP) gene sequences revealed 97-100% identity with GeneBank isolates showing very slight variations across SSA. The study concludes that GRD incidence is high in western Kenya and that GRAV is highly conserved across SSA. The study recommends an urgent need to curb GRD, possibly through the exploitation of pathogen derived resistance (PDR) with GRAV as the suitable candidate.

show abstract

Section: Discussionsupporting

confidence: 91%

Section: Discussionmentioning

confidence: 96%

See 1 more Smart Citation

Incidence of Groundnut Rosette Disease (GRD) and Genetic Diversity of Groundnut Rosette Assistor Virus (GRAV) in Western Kenya

Mukoye¹,

Ndong’a²,

Wéré³

2019

IJGG

View full text Add to dashboard Cite

show abstract

“…The lack of information on the distribution of the disease and viral isolate variation hampers the management, and development of control measures aimed at reducing losses [30]. Since GRD epidemics occur without warning, an in depth study of the variability in the three components of groundnut rosette should be thoroughly investigated.…”

Section: Biotechnological Approaches In Management Of Grdmentioning

confidence: 99%

Genetic Diversity of Groundnut Rosette Disease Causal Agents Towards Its Management: A Review

Mukoye¹

2019

IJGG

View full text Add to dashboard Cite

In this review, the genetic diversity of the three causal agents of Groundnut Rosette Disease (GRD) in Sub-Saharan Africa (SSA) are discussed. Epidemics of GRD viruses in SSA, often reduce groundnut productivity. The etiology of GRD is a complex, involving three agents; Groundnut rosette assistor luteovirus (GRAV), Groundnut rosette umbravirus (GRV) and a Satellite-RNA (Sat-RNA) of GRV. The complex etiology and lack of sensitive and specific diagnostic tools, are major limitations in understanding the epidemiology of GRD viruses, and developing appropriate management strategies for the disease. Nucleotide identity of 97 to 100% among GRAV isolates from different regions in Kenya have been reported. Sat-RNA sequences from Kenya shared nucleotide identity of 95% with Malawian isolate (M24S) and 89% with Nigerian isolate (NG3a). GRAV CP gene was highly conserved (97-99%) regardless of the geographical distance. However, for GRV and Sat-RNA diversity increased with increase in geographical distance. In addition, phylogenetic analysis showed that isolates of GRV (ORF3 and 4) and Sat-RNA clustered together depending on the country of origin. Recent study has unveiled a chlorotic variant of Sat-RNA in Kenya with 97% sequence identity to the Malawian chlorotic isolate (M24S). Pathogen derived resistance (PDR) suitable for each diverse regions where the disease occurs is a promising management strategy which mainly depends in studies to deeply understand the genetic diversity of the three GRD causal agents. Currently, GRAV-CP is the best candidate for PDR.

show abstract

Real-time automatic detection and classification of groundnut leaf disease using hybrid machine learning techniques

Suresh

Seetharaman

2022

Multimed Tools Appl

View full text Add to dashboard Cite

Assessing sequence diversity of Groundnut rosette disease agents and the distribution of Groundnut rosette assistor virus in major groundnut-producing regions of Ghana

Cited by 4 publications

References 35 publications

Incidence of Groundnut Rosette Disease (GRD) and Genetic Diversity of Groundnut Rosette Assistor Virus (GRAV) in Western Kenya

Incidence of Groundnut Rosette Disease (GRD) and Genetic Diversity of Groundnut Rosette Assistor Virus (GRAV) in Western Kenya

Genetic Diversity of Groundnut Rosette Disease Causal Agents Towards Its Management: A Review

Real-time automatic detection and classification of groundnut leaf disease using hybrid machine learning techniques

Contact Info

Product

Resources

About