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Volume 29, Number 9—September 2023
Dispatch

Reoccurring Escherichia coli O157:H7 Strain Linked to Leafy Greens–Associated Outbreaks, 2016–2019

Jessica C. Chen1Comments to Author , Kane Patel1, Peyton A. Smith, Eshaw Vidyaprakash, Caroline Snyder, Kaitlin A. Tagg, Hattie E. Webb, Morgan N. Schroeder, Lee S. Katz, Lori A. Rowe2, Dakota Howard, Taylor Griswold, Rebecca L. Lindsey, and Heather A. Carleton
Author affiliations: Centers for Disease Control and Prevention, Atlanta, Georgia, USA (J.C. Chen, K. Patel, P.A. Smith, E. Vidyaprakash, C. Snyder, K.A. Tagg, H.E. Webb, M.N. Schroeder, L.S. Katz, L.A. Rowe, D. Howard, T. Griswold, R.L. Lindsey, H.A. Carleton); Oak Ridge Institute for Science and Education, Oak Ridge, Tennessee, USA (K. Patel, C. Snyder)

Main Article

Figure 1

Tip-dated maximum clade credibility tree of 245 isolates of reoccurring Escherichia coli O157:H7 strain REPEXH02 linked to leafy greens–associated outbreaks, 2016–2019, generated in BEAST2 (https://www.beast2.org). Tips are aligned with the date of collection; calendar year is shown on the x-axis. Tips are colored according to the outbreak to which each isolate belonged; the shape corresponds to sample type (e.g., human, animal, environmental, or food). A horizontal black line segregates the two identified clades. Clade 1 contains outbreak B2 where some illness was traced back to Santa Maria, California, USA, as well as environmental samples collected in that region. Clade 2 contains outbreak A, which was traced back to the Salinas Valley, California. The presence/absence matrix to the right of the tree displays accessory genome content identified using Roary/scoary with 90% sensitivity and specificity to a subset of clade 1 isolates. A legend for accessory genome feature labels is included in Appendix 1 Table 5.

Figure 1. Tip-dated maximum clade credibility tree of 245 isolates of reoccurring Escherichia coli O157:H7 strain REPEXH02 linked to leafy greens–associated outbreaks, 2016–2019, generated in BEAST2 (https://www.beast2.org). Tips are aligned with the date of collection; calendar year is shown on the x-axis. Tips are colored according to the outbreak to which each isolate belonged; the shape corresponds to sample type (e.g., human, animal, environmental, or food). A horizontal black line segregates the two identified clades. Clade 1 contains outbreak B2 where some illness was traced back to Santa Maria, California, USA, as well as environmental samples collected in that region. Clade 2 contains outbreak A, which was traced back to the Salinas Valley, California. The presence/absence matrix to the right of the tree displays accessory genome content identified using Roary/scoary with 90% sensitivity and specificity to a subset of clade 1 isolates. A legend for accessory genome feature labels is included in Appendix 1 Table 5.

Main Article

1These first authors contributed equally to this article.

2Current affiliation: Tulane National Primate Research Center, Covington, Louisiana, USA.

Page created: July 11, 2023
Page updated: August 20, 2023
Page reviewed: August 20, 2023
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