complete genome sequence of the Tanzanian strain of Cassava brown streak virus and comparison with the Ugandan strain sequence

The complete genome sequence for an isolate of the Ugandan and Tanzanian strain types of Cassava brown streak virus have been determined using the novel approach of non-directed next generation sequencing. Comparison of the genome sequences revealed that CBSV is highly heterogeneous at the isolate l...

Full description

Saved in:
Bibliographic Details
Published in:Archives of virology 2010-03, Vol.155 (3), p.429-433
Main Authors: Monger, Wendy A, Alicai, T, Ndunguru, J, Kinyua, Z. M, Potts, M, Reeder, R. H, Miano, D. W, Adams, I. P, Boonham, N, Glover, R. H, Smith, J
Format: Article
Language:English
Subjects:
Annotated Sequence Record
Biological and medical sciences
Biomedical and Life Sciences
Biomedicine
Fundamental and applied biological sciences. Psychology
Infectious Diseases
Manihot - virology
Manihot esculenta
Medical Microbiology
Microbiology
Miscellaneous
Molecular Sequence Data
Phytopathology. Animal pests. Plant and forest protection
Plant Diseases - virology
Plant viruses and viroids
Polymorphism, Genetic
Potyviridae - genetics
Potyviridae - isolation & purification
RNA, Viral - genetics
Sequence Analysis, DNA
Sequence Homology, Amino Acid
Sequence Homology, Nucleic Acid
Synteny
Tanzania
Uganda
Virology
Citations: Items that this one cites
Items that cite this one
Online Access:Get full text
Tags: Add Tag
No Tags, Be the first to tag this record!
Description
Summary:The complete genome sequence for an isolate of the Ugandan and Tanzanian strain types of Cassava brown streak virus have been determined using the novel approach of non-directed next generation sequencing. Comparison of the genome sequences revealed that CBSV is highly heterogeneous at the isolate level as well as the strain level. The isolate of the Ugandan strain was found to have a genome 9,070 nucleotides long coding for a polypeptide with 2,902 amino acid residues. The isolate of the Tanzanian strain was 9,008 nucleotides long and coded for a polypeptide with 2,916 amino acid residues. Nucleotide identity between the isolates across the genome was 76%, with protein encoding regions 57-77% and individual proteins had 65-91% amino acid similarity. In addition between the two strains four protein products (PIPO, CI, NIa-Vpg and coat protein) varied in size and an unusual HAM1-like protein, whilst of identical nucleotide length, was found to have the lowest homology. The implication of diversity of CBSV is discussed in the context of speciation, evolution, development of diagnostics, and breeding for resistance.
ISSN:0304-8608
1432-8798
DOI:10.1007/s00705-009-0581-8