Bacterial colonization and antimicrobial resistance genes in neonatal enteral feeding tubes

Diana H. Taft, Lauren K. Salinero, Kannikar Vongbhavit, Karen M. Kalanetra, Chad Masarweh, Alice Yu, Mark Underwood, David A. Mills

Research output: Contribution to journalArticle

Abstract

Enteral feeding is a key component of care in neonatal intensive care units (NICUs); however, feeding tubes harbor microbes. These microbes have the potential to cause disease, yet their source remains controversial and clinical recommendations to reduce feeding tube colonization are lacking. This study aims to improve our understanding of the bacteria in neonatal feeding tubes and to evaluate factors that may affect these bacteria. 16S rRNA gene sequencing was used to characterize the bacteria present in pharyngeal, esophageal, and gastric portions of feeding tubes, residual fluid of the tubes, and infant stool using samples from 47 infants. Similar distributions of taxa were observed in all samples, although beta diversity differed by sample type. Feeding tube samples had lower alpha diversity than stool samples, and alpha diversity increased with gestational age, day of life, and tube dwell time. In a subset of samples from 6 infants analyzed by whole metagenome sequencing, there was greater overlap in transferable antimicrobial resistance genes between tube and fecal samples in breast milk fed infants than in formula fed infants. These findings develop our understanding of neonatal feeding tube colonization, laying a foundation for research into methods for minimizing NICU patients' exposure to antimicrobial resistant microbes.

Original languageEnglish (US)
JournalFEMS microbiology ecology
Volume95
Issue number4
DOIs
StatePublished - Apr 1 2019

Fingerprint

Enteral Nutrition
colonization
gene
Genes
Neonatal Intensive Care Units
Bacteria
bacterium
Metagenome
Infant Formula
Human Milk
rRNA Genes
Gestational Age
harbor
infant
fluid
Research

Keywords

  • 16S rRNA gene sequencing
  • antimicrobial resistance genes
  • bacteria
  • neonatal feeding tube
  • premature infants
  • whole metagenome sequencing

ASJC Scopus subject areas

  • Microbiology
  • Ecology
  • Applied Microbiology and Biotechnology

Cite this

Taft, D. H., Salinero, L. K., Vongbhavit, K., Kalanetra, K. M., Masarweh, C., Yu, A., ... Mills, D. A. (2019). Bacterial colonization and antimicrobial resistance genes in neonatal enteral feeding tubes. FEMS microbiology ecology, 95(4). https://doi.org/10.1093/femsec/fiz039

Bacterial colonization and antimicrobial resistance genes in neonatal enteral feeding tubes. / Taft, Diana H.; Salinero, Lauren K.; Vongbhavit, Kannikar; Kalanetra, Karen M.; Masarweh, Chad; Yu, Alice; Underwood, Mark; Mills, David A.

In: FEMS microbiology ecology, Vol. 95, No. 4, 01.04.2019.

Research output: Contribution to journalArticle

Taft, DH, Salinero, LK, Vongbhavit, K, Kalanetra, KM, Masarweh, C, Yu, A, Underwood, M & Mills, DA 2019, 'Bacterial colonization and antimicrobial resistance genes in neonatal enteral feeding tubes', FEMS microbiology ecology, vol. 95, no. 4. https://doi.org/10.1093/femsec/fiz039
Taft, Diana H. ; Salinero, Lauren K. ; Vongbhavit, Kannikar ; Kalanetra, Karen M. ; Masarweh, Chad ; Yu, Alice ; Underwood, Mark ; Mills, David A. / Bacterial colonization and antimicrobial resistance genes in neonatal enteral feeding tubes. In: FEMS microbiology ecology. 2019 ; Vol. 95, No. 4.
@article{251b144eb6a544a3a18602d4c5683d68,
title = "Bacterial colonization and antimicrobial resistance genes in neonatal enteral feeding tubes",
abstract = "Enteral feeding is a key component of care in neonatal intensive care units (NICUs); however, feeding tubes harbor microbes. These microbes have the potential to cause disease, yet their source remains controversial and clinical recommendations to reduce feeding tube colonization are lacking. This study aims to improve our understanding of the bacteria in neonatal feeding tubes and to evaluate factors that may affect these bacteria. 16S rRNA gene sequencing was used to characterize the bacteria present in pharyngeal, esophageal, and gastric portions of feeding tubes, residual fluid of the tubes, and infant stool using samples from 47 infants. Similar distributions of taxa were observed in all samples, although beta diversity differed by sample type. Feeding tube samples had lower alpha diversity than stool samples, and alpha diversity increased with gestational age, day of life, and tube dwell time. In a subset of samples from 6 infants analyzed by whole metagenome sequencing, there was greater overlap in transferable antimicrobial resistance genes between tube and fecal samples in breast milk fed infants than in formula fed infants. These findings develop our understanding of neonatal feeding tube colonization, laying a foundation for research into methods for minimizing NICU patients' exposure to antimicrobial resistant microbes.",
keywords = "16S rRNA gene sequencing, antimicrobial resistance genes, bacteria, neonatal feeding tube, premature infants, whole metagenome sequencing",
author = "Taft, {Diana H.} and Salinero, {Lauren K.} and Kannikar Vongbhavit and Kalanetra, {Karen M.} and Chad Masarweh and Alice Yu and Mark Underwood and Mills, {David A.}",
year = "2019",
month = "4",
day = "1",
doi = "10.1093/femsec/fiz039",
language = "English (US)",
volume = "95",
journal = "FEMS Microbiology Ecology",
issn = "0168-6496",
publisher = "Wiley-Blackwell",
number = "4",

}

TY - JOUR

T1 - Bacterial colonization and antimicrobial resistance genes in neonatal enteral feeding tubes

AU - Taft, Diana H.

AU - Salinero, Lauren K.

AU - Vongbhavit, Kannikar

AU - Kalanetra, Karen M.

AU - Masarweh, Chad

AU - Yu, Alice

AU - Underwood, Mark

AU - Mills, David A.

PY - 2019/4/1

Y1 - 2019/4/1

N2 - Enteral feeding is a key component of care in neonatal intensive care units (NICUs); however, feeding tubes harbor microbes. These microbes have the potential to cause disease, yet their source remains controversial and clinical recommendations to reduce feeding tube colonization are lacking. This study aims to improve our understanding of the bacteria in neonatal feeding tubes and to evaluate factors that may affect these bacteria. 16S rRNA gene sequencing was used to characterize the bacteria present in pharyngeal, esophageal, and gastric portions of feeding tubes, residual fluid of the tubes, and infant stool using samples from 47 infants. Similar distributions of taxa were observed in all samples, although beta diversity differed by sample type. Feeding tube samples had lower alpha diversity than stool samples, and alpha diversity increased with gestational age, day of life, and tube dwell time. In a subset of samples from 6 infants analyzed by whole metagenome sequencing, there was greater overlap in transferable antimicrobial resistance genes between tube and fecal samples in breast milk fed infants than in formula fed infants. These findings develop our understanding of neonatal feeding tube colonization, laying a foundation for research into methods for minimizing NICU patients' exposure to antimicrobial resistant microbes.

AB - Enteral feeding is a key component of care in neonatal intensive care units (NICUs); however, feeding tubes harbor microbes. These microbes have the potential to cause disease, yet their source remains controversial and clinical recommendations to reduce feeding tube colonization are lacking. This study aims to improve our understanding of the bacteria in neonatal feeding tubes and to evaluate factors that may affect these bacteria. 16S rRNA gene sequencing was used to characterize the bacteria present in pharyngeal, esophageal, and gastric portions of feeding tubes, residual fluid of the tubes, and infant stool using samples from 47 infants. Similar distributions of taxa were observed in all samples, although beta diversity differed by sample type. Feeding tube samples had lower alpha diversity than stool samples, and alpha diversity increased with gestational age, day of life, and tube dwell time. In a subset of samples from 6 infants analyzed by whole metagenome sequencing, there was greater overlap in transferable antimicrobial resistance genes between tube and fecal samples in breast milk fed infants than in formula fed infants. These findings develop our understanding of neonatal feeding tube colonization, laying a foundation for research into methods for minimizing NICU patients' exposure to antimicrobial resistant microbes.

KW - 16S rRNA gene sequencing

KW - antimicrobial resistance genes

KW - bacteria

KW - neonatal feeding tube

KW - premature infants

KW - whole metagenome sequencing

UR - http://www.scopus.com/inward/record.url?scp=85064284508&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=85064284508&partnerID=8YFLogxK

U2 - 10.1093/femsec/fiz039

DO - 10.1093/femsec/fiz039

M3 - Article

C2 - 30915455

AN - SCOPUS:85064284508

VL - 95

JO - FEMS Microbiology Ecology

JF - FEMS Microbiology Ecology

SN - 0168-6496

IS - 4

ER -