First Full Length Genome Sequence of Bean Common Mosaic Necrosis Virus (BCMNV) Isolated from Common Bean in Western Kenya

Mangeni Bonphace Collins,Mukoye Benard,Were Hassan Karakacha,Ndong’A Milicent

doi:10.11648/j.ijgg.20190704.18

Abstract

Bean common mosaic necrosis virus (BCMNV) is one of the most common and most destructive viruses of common bean and can cause a yield loss as high as 100%. The common bean (Phaseolus vulgaris L) is an important legume crop for food and cash in Kenya. In Kenya, there is inadequate documentation on the strains of the virus infecting common bean. This information is crucial in devising control measures. This study therefore, sought to characterize BCMNV isolates from western Kenya. Leafy samples showing virus-like symptoms were collected and analysed by Enzyme linked immunosorbent Assay (ELISA) and or next generation sequencing (NGS). Extraction of total RNA from ELISA positive samples was done using RNeasy Plant Mini Kit and NGS carried out following Illumina protocol to determine diversity of the virus. NGS data was trimmed and the sequence reads assembled into contigs, which were analyzed against virus sequence database. Phylogenetic analyses and comparisons were performed using MEGA7 program. The first complete genome sequence of Bean common mosaic virus (BCMNV) is reported from a Kenyan isolate. NGS technology revealed full-length sequence of BCMNV from an isolate BG 12 from Bungoma County with a genome of 9584 nt in length. Phylogenetic analysis of full-length sequences available through the Genbank clustered the isolate with the Tanzanian isolate strain TN-1 and two USA isolates, TN1a and NL-3K.

Highlights

Bean common mosaic necrosis virus (BCMNV) belongs to the Family Potyviridae, genus Potyvirus, which is the largest of the eight genera currently assigned to the family by the International Committee on Taxonomy of Viruses [1]
The sequence has been deposited in DNA Data Bank of Japan (DDBJ) database with accession number (LC493096.1) The Kenyan isolate of BCMNV is similar to that of other potyviruses [25]
During BLASTn search, The BCMNV KG12 isolate sequence was 94 - 99% identical to 11 BCMNV complete genomes obtained from the Genbank and show a close evolutionary relationship

Summary

Introduction

Bean common mosaic necrosis virus (BCMNV) belongs to the Family Potyviridae, genus Potyvirus, which is the largest of the eight genera currently assigned to the family by the International Committee on Taxonomy of Viruses [1]. BCMNV is monopartite, single stranded positive-sense RNA virus with flexuous rod-shaped virions that are 750 nm in length with a diameter of 11–13 nm [3]. 133 Mangeni Bonphace Collins et al.: First Full Length Genome Sequence of Bean Common Mosaic Necrosis Virus (BCMNV) Isolated from Common Bean in Western Kenya originally identified BCMV isolate was lost [8]. Seed transmission occurs irregularly and may majorly depend on age of the plant at the time of infection, virus strain and bean variety.

Results

Conclusion