Volume 26, Number 2—February 2020
Dispatch
Rapid Nanopore Whole-Genome Sequencing for Anthrax Emergency Preparedness
Table
De novo whole-genome assembly metrics for sequencing of Bacillus anthracis strain Ba0914*
Aligned to | Mismatches | Indels | Contigs | Nucleotide identity, %; average-fold coverage |
||
---|---|---|---|---|---|---|
Chromosome | pXO1 | pXO2 | ||||
Ames reference strain | ||||||
Nanopore | 677 | 6,411 | 3 | 99.83; 54 | 99.78; 192 | 99.80; 91 |
SRS | 526 | 180 | 35 | 99.96; 115 | 99.94; 467 | 99.94; 220 |
SRS assembly | ||||||
Nanopore | 166 | 6,305 | NA | 99.86 | 99.88 | 99.85 |
*Mismatches, indels, nucleotide identity, and average fold coverage for chromosomal and plasmid sequences of B. anthracis strain Ba0914 were determined on the basis of alignment with the Ames Ancestor reference strain assembly (top) or to the SRS-based Ba0914 strain assembly (bottom). The nanopore assembly was generated by using the first 120,000 live basecalled reads. Contigs, contiguous overlapping DNA segments; Indels, insertions and deletions; NA, not applicable; SRS, short-read sequencing.