Rapid in situ imaging and whole genome sequencing of biofilm in neonatal feeding tubes: a clinical proof of concept

Ogrodzki, P., Cheung, C.S., Saad, M., Dahmani, K., Coxill, R., Liang, H. ORCID: 0000-0001-9496-406X and Forsythe, S.J. ORCID: 0000-0002-6709-0712, 2017. Rapid in situ imaging and whole genome sequencing of biofilm in neonatal feeding tubes: a clinical proof of concept. Scientific Reports, 7, p. 15948. ISSN 2045-2322

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Abstract

The bacterial flora of nasogastric feeding tubes and faecal samples were analysed for a low-birth weight (725g) neonate EGA 25 weeks in intensive care. Samples were collected at age 6 and 8 weeks of life. Optical coherence tomography (OCT) was used to visualise bacterial biofilms inside the nasogastric feeding tubes. The biofilm was heterogeneously distributed along the tube lumen wall, and had a depth of up to 500µm. The bacterial biofilm and faecal samples included Enterococcus faecalis and Enterobacter hormaechei. Representative strains, recovered from both feeding tubes and faecal samples, were whole genome sequenced using Illumina, Mi-Seq, which revealed indistinguishable strains, each with less than 28 SNP differences, of E. faecalis and E. hormaechei. The E. faecalis strains were from two sequence types (ST191 and ST211) and encoded for a number of traits related to biofilm formation (BopD), adherence (Epb pili), virulence (cps loci, gelatinase, SprE) and antibiotic resistances (IsaA, tetM). The E. hormaechei were all ST106, and encoded for blaACT-15 β–lactamase and fosfomycin resistance (fosA). This proof of concept study demonstrates that bacterial flora within the neonatal feeding tubes may influence the bacterial colonisation of the intestinal tract and can be visualised nondestructively using OCT.

Item Type: Journal article
Publication Title: Scientific Reports
Creators: Ogrodzki, P., Cheung, C.S., Saad, M., Dahmani, K., Coxill, R., Liang, H. and Forsythe, S.J.
Publisher: Springer Nature
Date: 21 November 2017
Volume: 7
ISSN: 2045-2322
Identifiers:
NumberType
10.1038/s41598-017-15769-9DOI
Rights: 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 license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license 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 license, visit http://creativecommons.org/licenses/by/4.0/. © The Author(s) 2017
Divisions: Schools > School of Science and Technology
Depositing User: Jill Tomkinson
Date Added: 22 Nov 2017 15:07
Last Modified: 22 Nov 2017 15:07
URI: http://irep.ntu.ac.uk/id/eprint/32076

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