Volume 28, Number 5—May 2022
Dispatch
Pathogens that Cause Illness Clinically Indistinguishable from Lassa Fever, Nigeria, 2018
Table 2
Array and MinION sequencing results for a subset of samples from patients who met the case definition for Lassa fever that were positive for bacteria, Nigeria, 2018*
Sample | TAC hits | Seq hit 1 (no. mapped reads) | Seq hit 2 (no. mapped reads) | Seq hit 3 (no. mapped reads) | Seq hit 4 (no. mapped reads) | Seq hit 5 (no. mapped reads) |
---|---|---|---|---|---|---|
307 | Klebsiella pneumoniae | Salmonella_hilA (108) | Salmonella_ttr (55) | Enterobacter (55) | Enterobacter cloacae (55) | Enterobacter (56) |
165 | Pan-Borrelia | Spirochetes (27) | None | None | None | None |
349 | Escherichia coli generic | E. coli (58) | None | None | None | None |
344 | Streptococcus | Mec_A (591) | Staphylococcus (657) | Pseudomonas aeruginosa (3) | Streptococcus. pyogenes (591) | Streptococcus (591) |
279 | Streptococcus | Streptococcus (8,837) | None | None | None | None |
*Only samples with hits are shown. Seq hits at the genus level (number of reads). MinION described in references 5,6. TAC, TaqMan Array Cards (Applied Biosystems, https://www.thermofisher.com). Seq hit, sequencing hit.
References
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- Nigeria Centre for Disease Control. An update of yellow fever outbreak in Nigeria [cited 2021 May 1]. https://ncdc.gov.ng/diseases/sitreps/?cat=10&name=An%20update%20of%20Yellow%20Fever%20outbreak%20in%20Nigeria
1Current affiliation: Army, Defence Science & Technology, Ministry of Defence, London, UK.
Page created: February 25, 2022
Page updated: April 19, 2022
Page reviewed: April 19, 2022
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