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Volume 30, Number 1—January 2024
CME ACTIVITY - Research

Early-Onset Infection Caused by Escherichia coli Sequence Type 1193 in Late Preterm and Full-Term Neonates

Célie Malaure1, Guillaume Geslain1, André Birgy, Philippe Bidet, Isabelle Poilane, Margaux Allain, Mathilde Liberge, Nizar Khattat, Paola Sikias, and Stéphane BonacorsiComments to Author 
Author affiliations: Escherichia coli National Reference Center, Robert-Debré University Hospital, Assistance Publique–Hôpitaux de Paris, Paris, France (C. Malaure, A. Birgy, P. Bidet, S. Bonacorsi); Paediatric Intensive Care Unit, Robert-Debré University Hospital, Assistance Publique–Hôpitaux de Paris, Paris (G. Geslain); Paris Cité University, Paris (G. Geslain, A. Birgy, P. Bidet, S. Bonacorsi); Avicenne University Hospital, Assistance Publique–Hôpitaux de Paris, Bobigny, France (I. Poilane); Louis Mourier University Hospital, Assistance Publique–Hôpitaux de Paris, Colombes, France (M. Allain); Saint Louis University Hospital, Assistance Publique–Hôpitaux de Paris, Paris (M. Liberge); Neonatal Care Unit, Robert-Debré University Hospital, Assistance Publique–Hôpitaux de Paris, Paris (N. Khattat); Hôpital Privé d'Antony, Ramsay Santé, Antony, France (P. Sikias)

Main Article

Table 2

Characteristics of newborns with early-onset sepsis caused by ST1193 Escherichia coli and genetic and phenotypic features of the isolates*

APIMF case ID EOS clinical features
Genetic and phenotypic characteristic of E. coli strains ST1193
Term, wk† Antimicrobial prepartum‡ Virulence genes§ Antimicrobial resistance genes§ Phenotypic AMR HC10¶ HC20¶ rMLST#
60**
 37
 Amoxicillin
aslA, chuA, csgA, fdeC, fimH, fyuA, gad, iha, irp2, iucC, iutA, kpsE, kpsMII_K1, neuC, nlpI, ompT, papA_F43, sat, senB, shiA, sitA, terC, tia, usp, vat, yehA, yehB, yehC, yehD, yfcV
 dfrA17, aph(6)-Id, aac(6')-Ib-cr, aac(3)-IIa, aph(3”)-Ib, sul2, catB3,mph(A), sitABCD, tet(B), blaCTX-M-15, blaTEM-1B, blaOXA-1
 AMX, CTX, CIP, SXT, GTM, AZI, TET, CMP, ESBL
 132,558
 571
 33,503
73
 34
 Amoxicillin
aslA, chuA, csgA, fdeC, fimH, fyuA, gad, iha, irp2, iucC, iutA, kpsE, kpsMII_K1, neuC, nlpI, ompT, papA_F43, sat, senB, sitA, terC, usp, vat, yehA, yehB, yehC, yehD, yfcV
 catB3, tet(B), 
blaCTX-M-15, blaOXA-1, aph(6)-Id, aac(3)-IIa, aph(3”)-Ib, aac(6')-Ib-cr, sul2, aac(6')-Ib-cr, qnrB19, dfrA17
 AMX, CTX, CIP, SXT, GTM, TET, ESBL
 148,092
 571
 33,503
76
 41
 None
aslA, ccl, chuA, clbB, csgA, fdeC, fimH, fyuA, gad, iha, irp2, iucC, iutA, kpsE, kpsMII_K1, neuC, nlpI, ompT, papA_F43, sat, senB, sitA, terC, usp, vat, yehA, yehB, yehC, yehD, yfcV
 None
 CIP
 227,323
 571
 1,674
78**
 41
 None
AslA, chuA, csgA, fdeC, fimH, fyuA, gad, iha, irp2, iucC, iutA, kpsE, kpsMII_K1, neuC, nlpI, ompT, papA_F43, sat, senB, sitA, terC, usp, vat, yehA, yehB, yehC, yehD, yfcV
 aadA5, dfrA17, mph(A)
 CIP, AZI, SXT
 11,740
 571
 1,674
89**
 36
 Amoxicillin/ gentamicin
AslA, astA, chuA, colE7, csgA, fdeC, fimH, fyuA, gad, iha, irp2, iucC, iutA, kpsE, kpsMII_K1, neuC, nlpI, ompT, papA_F43, sat, senB, shiA, sitA, terC, tia, usp, vat, yehA, yehB, yehC, yehD, yfcV
 aac(3)-IIa, aac(6')Ib-cr, blaCTX-M-15, 
blaOXA-1, catB3
 AMX, CTX, CIP, GTM, CMP, ESBL
 4,073
 571
 33,503
90 36 Amoxicillin AslA, chuA, csgA, fdeC, fimH, fyuA, gad, iha, irp2, iucC, iutA, kpsE, kpsMII_K1, neuC, nlpI, ompT, papA_F43, sat, senB, sitA, terC, usp, vat, yehA, yehB, yehC, yehD, yfcV blaTEM-1B, dfrA17, mph(A), aph(6)-Id, aph(3”)-Ib, sul2, tet(B) AMX, CIP, SXT, AZI, TET 227,336 571 New

*AMR, antimicrobial resistance; AMX, amoxicillin; AZI, azithromycin; cgMLST, core genome multilocus sequence typing; CIP, ciprofloxacin; CMP, chloramphenicol; CTX, cefotaxime; EOS, early-onset neonatal sepsis; ESBL, extended spectrum β-lactamase; GTM, gentamicin; HC, human chromosome; ID, identification; rMLST, ribosomal multilocus sequence typing; ST, sequence type; SXT, trimethoprim/sulfamethoxazole; TET, tetracycline. †Term of pregnancy at birth in weeks. ‡Antimicrobial treatment within 3 days before labor began. §Search for antimicrobial resistance genes and replicon/plasmid sequence types run using Center for Genomic Epidemiology website (https://genomicepidemiology.org) and local BLAST. ¶Hierarchical clustering of distances between genomes calculated using 10 (HC10) or 20 (HC20) shared core genome MLST alleles and genomes linked on a single-linkage clustering criteria. #Approach that indexes variation of the 53 genes encoding the bacterial ribosome protein subunits. **Early-onset neonatal sepsis with meningitis.

Main Article

1These authors contributed equally to this manuscript.

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