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Alignments of full and nearly full polyprotein-length nucleotide sequences from GenBank for the two ipomoviruses that cause cassava brown streak disease, in fasta format. Separate alignments for 67 cassava brown streak virus sequences and 81 Ugandan cassava brown streak virus sequences are provided, as well as a combined alignment of 148 sequences. Alignments were created with MUSCLE and then modified by eye in AliView. Also, two tree files (in nexus) format are supplied, resulting from a maximum likelihood analysis with IQTree on each of the two single-species datasets. Support for nodes with aLRT and 100 actual bootstrap replicates are provided (aLRT/bootstrap).
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Multiple sequence alignment for ACMV, EACMV and EACMV-Ug DNA-A sequences
Complete DNA-A sequences corresponding to East Aafrican cassava mosaic virus (EACMV), African cassava mosaic virus (ACMV) and East African cassava mosaic virus-Uganda (EACMV-Ug) were downloaded via the NCBI Taxonomy Browser interface. Sequence names were normalized/simplified and orientations of these circular sequences were standardized to begin at the replication origin nick site. Sequences were aligned with MUSCLE and alignments were manually adjusted with AliView (A. Larsson). Files
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- Award ID(s):
- 1545553
- PAR ID:
- 10556999
- Editor(s):
- Duffy, Siobain
- Publisher / Repository:
- Zenodo
- Date Published:
- Format(s):
- Medium: X
- Right(s):
- Creative Commons Attribution 4.0 International
- Sponsoring Org:
- National Science Foundation
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