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. 2023 Jul 15;22:60. doi: 10.1186/s12941-023-00610-1

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© The Author(s) 2023

Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated in a credit line to the data.

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Fig. 5 — Phylogenetic tree based on core genome SNPs of ECC. Core genome SNP-based phylogenetic analysis was performed with WGS data of 95 ECC clinical isolates. CST-susceptible strains, CST-heteroresistant strains, strains harboring mcr-9, strains harboring mcr-10, and strains lacking the arn operon are indicated by black, red, blue, green, and yellow circles to the right of their names. ^aE. hormaechei (subsp. hoffmannii, subsp. xiangfangensis, subsp. steigerwaltii, and subsp. oharae). ^bE. cloacae (subsp. cloacae and subsp. dissolvens). The GenBank accession numbers of the reference genes are NZ_CP011863 (E. asburiae), NZ_LEDH00000000 (E. asburiae), NZ_FYBA00000000 (E. cancerogenus), NZ_CP043318 (E. chengduensis), NZ_QZCS00000000 (E. chuandaensis), NC_014121 (E. cloacae subsp. cloacae), NZ_LEDL00000000 (E. cloacae subsp. cloacae), NC_018079 (E. cloacae subsp. dissolvens), NZ_VTTY00000000 (E. dykesii), NZ_CP017186 (E. hormaechei subsp. hoffmannii), NZ_AFHR01000000 (E. hormaechei subsp. hormaechei), NZ_CP017180 (E. hormaechei subsp. oharae), NZ_CP017179 (E. hormaechei subsp. steigerwaltii), NZ_AMGJ01000000 (E. hormaechei subsp. steigerwaltii), NZ_CP017183 (E. hormaechei subsp. xiangfangensis), NZ_LABA01000000 (E. hormaechei subsp. xiangfangensis), NZ_CP043342 (E. huaxiensis), NZ_CP01718 (E. kobei), NZ_LEDC01000000 (E. kobei), NZ_JTLO00000000 (E. ludwigii), NC_016514 (E. ludwigii), NZ_GL890773 (E. mori), NZ_AP019007 (E. oligotrophicus), NZ_SJON00000000 (E. quasihormaechei), NZ_CP017184 (E. roggenkampii), NZ_LXES00000000 (E. soli), NZ_FCOP00000000 (E. timonensis), NZ_VTUC00000000 (E. vonholyi), NZ_SJOO00000000 (E. wuhouensis), NZ_JZZB01000000 (ECC), NZ_LEEP01000000 (ECC), and NZ_AXLJ01000000 (ECC)