Comparative Genomic Analysis of Carbapenem-Resistant Enterobacteriaceae and Enterobacteriaceae Resistant to Third-Generation Cephalosporin Isolates of the Same Clonal Background
| Species and MLST . | Reference . | Accession . | No. of Study Patient Isolates . | No. of Nonstudy Isolates . | Median Within-Patient Pairwise SNP Distance (Range) . | Median Between-Patient Pairwise SNP Distance (Range) . | Susceptibility Phenotype . |
|---|---|---|---|---|---|---|---|
| Klebsiella pneumoniae ST258 | NJST258_1 | CP006923.1 | 22 | 88 | 1 (0–7) | 381 (0–2066) | CRE only |
| K. pneumoniae ST17 | MGH_60 | NZ_JMYY00000000.1 | 8 | 5 | 44 (10–92) | 2078.5 (90–2244) | CRE and Ceph-RE |
| K. pneumoniae ST307 | KPN11 | NZ_CTN01000001.1 | 5 | 0 | 4–35 | 64–201 | CRE only |
| Escherichia coli ST117 | MDR_56 | CP019903.1 | 4 | 2 | 3–17 | 14 (7–24) | Ceph-RE only |
| E. coli ST131 | JJ1886 | CP006784.1 | 9 | 0 | 49 (2–96) | 80 (21–234) | CRE and Ceph-RE |
| E. coli ST405 | BIDMC106 | GCA_001030595.1 | 7 | 0 | 2 (2–4) | 117.5 (5–972) | CRE and Ceph-RE |
| Species and MLST . | Reference . | Accession . | No. of Study Patient Isolates . | No. of Nonstudy Isolates . | Median Within-Patient Pairwise SNP Distance (Range) . | Median Between-Patient Pairwise SNP Distance (Range) . | Susceptibility Phenotype . |
|---|---|---|---|---|---|---|---|
| Klebsiella pneumoniae ST258 | NJST258_1 | CP006923.1 | 22 | 88 | 1 (0–7) | 381 (0–2066) | CRE only |
| K. pneumoniae ST17 | MGH_60 | NZ_JMYY00000000.1 | 8 | 5 | 44 (10–92) | 2078.5 (90–2244) | CRE and Ceph-RE |
| K. pneumoniae ST307 | KPN11 | NZ_CTN01000001.1 | 5 | 0 | 4–35 | 64–201 | CRE only |
| Escherichia coli ST117 | MDR_56 | CP019903.1 | 4 | 2 | 3–17 | 14 (7–24) | Ceph-RE only |
| E. coli ST131 | JJ1886 | CP006784.1 | 9 | 0 | 49 (2–96) | 80 (21–234) | CRE and Ceph-RE |
| E. coli ST405 | BIDMC106 | GCA_001030595.1 | 7 | 0 | 2 (2–4) | 117.5 (5–972) | CRE and Ceph-RE |
Abbreviations: Ceph-RE, Enterobacteriaceae resistant to third-generation cephalosporins; CRE, carbapenem-resistant Enterobacteriaceae; MLST, multilocus sequence type; SNP, single-nucleotide polymorphism; ST, sequence type.
Comparative Genomic Analysis of Carbapenem-Resistant Enterobacteriaceae and Enterobacteriaceae Resistant to Third-Generation Cephalosporin Isolates of the Same Clonal Background
| Species and MLST . | Reference . | Accession . | No. of Study Patient Isolates . | No. of Nonstudy Isolates . | Median Within-Patient Pairwise SNP Distance (Range) . | Median Between-Patient Pairwise SNP Distance (Range) . | Susceptibility Phenotype . |
|---|---|---|---|---|---|---|---|
| Klebsiella pneumoniae ST258 | NJST258_1 | CP006923.1 | 22 | 88 | 1 (0–7) | 381 (0–2066) | CRE only |
| K. pneumoniae ST17 | MGH_60 | NZ_JMYY00000000.1 | 8 | 5 | 44 (10–92) | 2078.5 (90–2244) | CRE and Ceph-RE |
| K. pneumoniae ST307 | KPN11 | NZ_CTN01000001.1 | 5 | 0 | 4–35 | 64–201 | CRE only |
| Escherichia coli ST117 | MDR_56 | CP019903.1 | 4 | 2 | 3–17 | 14 (7–24) | Ceph-RE only |
| E. coli ST131 | JJ1886 | CP006784.1 | 9 | 0 | 49 (2–96) | 80 (21–234) | CRE and Ceph-RE |
| E. coli ST405 | BIDMC106 | GCA_001030595.1 | 7 | 0 | 2 (2–4) | 117.5 (5–972) | CRE and Ceph-RE |
| Species and MLST . | Reference . | Accession . | No. of Study Patient Isolates . | No. of Nonstudy Isolates . | Median Within-Patient Pairwise SNP Distance (Range) . | Median Between-Patient Pairwise SNP Distance (Range) . | Susceptibility Phenotype . |
|---|---|---|---|---|---|---|---|
| Klebsiella pneumoniae ST258 | NJST258_1 | CP006923.1 | 22 | 88 | 1 (0–7) | 381 (0–2066) | CRE only |
| K. pneumoniae ST17 | MGH_60 | NZ_JMYY00000000.1 | 8 | 5 | 44 (10–92) | 2078.5 (90–2244) | CRE and Ceph-RE |
| K. pneumoniae ST307 | KPN11 | NZ_CTN01000001.1 | 5 | 0 | 4–35 | 64–201 | CRE only |
| Escherichia coli ST117 | MDR_56 | CP019903.1 | 4 | 2 | 3–17 | 14 (7–24) | Ceph-RE only |
| E. coli ST131 | JJ1886 | CP006784.1 | 9 | 0 | 49 (2–96) | 80 (21–234) | CRE and Ceph-RE |
| E. coli ST405 | BIDMC106 | GCA_001030595.1 | 7 | 0 | 2 (2–4) | 117.5 (5–972) | CRE and Ceph-RE |
Abbreviations: Ceph-RE, Enterobacteriaceae resistant to third-generation cephalosporins; CRE, carbapenem-resistant Enterobacteriaceae; MLST, multilocus sequence type; SNP, single-nucleotide polymorphism; ST, sequence type.
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