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Volume 27, Number 11—November 2021
Dispatch

Emergence of Vibrio cholerae O1 Sequence Type 75, South Africa, 2018–2020

Anthony M. SmithComments to Author , François-Xavier Weill, Elisabeth Njamkepo, Hlengiwe M. Ngomane, Ntsieni Ramalwa, Phuti Sekwadi, and Juno Thomas
Author affiliations: National Institute for Communicable Diseases, Johannesburg, South Africa (A.M. Smith, H.M. Ngomane, N. Ramalwa, P. Sekwadi, J. Thomas); University of Pretoria, Pretoria, South Africa (A.M. Smith, N. Ramalwa); Institut Pasteur, Paris, France (F.-X. Weill, E. Njamkepo)

Main Article

Figure

Maximum-likelihood phylogenomic tree for Vibrio cholerae O1 sequence type (ST) 75 isolates collected from South Africa, 2018–2020. The tree represents phylogeny for 7 V. cholerae O1 ST75 isolates from South Africa (red text); 144 sequences from a global collection of ST75, or closely related ST169, ST170, and ST182 isolates; and 1 7PET V. cholerae O1 sequence. The 7PET genome N16961 (ST69) was used as an outgroup. For each genome, its name; year of collection, when known; and country of isolation, plus province of isolation for isolate from South Africa, are shown at the tips of the tree. The lineages, presence of CTXɸ prophage or its variant form, and types of ctxB alleles are also shown. The 7PET outgroup genome, N16961, contains CTXɸ with a ctxB3 allele (not represented in the figure). Red dots indicate bootstrap values >95%. Scale bar indicates the number of nucleotide substitutions per variable site. 7PET, seventh pandemic V. cholerae O1 El Tor; CTXɸ, cholera toxin phi prophage; ctxB, cholera toxin B subunit gene.

Figure. Maximum-likelihood phylogenomic tree for Vibrio cholerae O1 sequence type (ST) 75 isolates collected from South Africa, 2018–2020. The tree represents phylogeny for 7 V. cholerae O1 ST75 isolates from South Africa (red text); 144 sequences from a global collection of ST75, or closely related ST169, ST170, and ST182 isolates; and 1 7PET V. cholerae O1 sequence. The 7PET genome N16961 (ST69) was used as an outgroup. For each genome, its name; year of collection, when known; and country of isolation, plus province of isolation for isolate from South Africa, are shown at the tips of the tree. The lineages, presence of CTXɸ prophage or its variant form, and types of ctxB alleles are also shown. The 7PET outgroup genome, N16961, contains CTXɸ with a ctxB3 allele (not represented in the figure). Red dots indicate bootstrap values >95%. Scale bar indicates the number of nucleotide substitutions per variable site. 7PET, seventh pandemic V. cholerae O1 El Tor; CTXɸ, cholera toxin phi prophage; ctxB, cholera toxin B subunit gene.

Main Article

Page created: September 10, 2021
Page updated: October 19, 2021
Page reviewed: October 19, 2021
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