Metagenomic Sequencing with Strain-Level Resolution Implicates Uropathogenic E. coli in Necrotizing Enterocolitis and Mortality in Preterm Infants
Necrotizing enterocolitis (NEC) afflicts approximately 10% of extremely preterm infants with high fatality. Inappropriate bacterial colonization with Enterobacteriaceae is implicated, but no specific pathogen has been identified. We identify uropathogenic E. coli (UPEC) colonization as a significant...
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| Format: | Article |
| Language: | English |
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Elsevier
2016-03-01
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| Series: | Cell Reports |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S221112471630256X |
| _version_ | 1818992222025023488 |
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| author | Doyle V. Ward Matthias Scholz Moreno Zolfo Diana H. Taft Kurt R. Schibler Adrian Tett Nicola Segata Ardythe L. Morrow |
| author_facet | Doyle V. Ward Matthias Scholz Moreno Zolfo Diana H. Taft Kurt R. Schibler Adrian Tett Nicola Segata Ardythe L. Morrow |
| author_sort | Doyle V. Ward |
| collection | DOAJ |
| description | Necrotizing enterocolitis (NEC) afflicts approximately 10% of extremely preterm infants with high fatality. Inappropriate bacterial colonization with Enterobacteriaceae is implicated, but no specific pathogen has been identified. We identify uropathogenic E. coli (UPEC) colonization as a significant risk factor for the development of NEC and subsequent mortality. We describe a large-scale deep shotgun metagenomic sequence analysis of the early intestinal microbiome of 144 preterm and 22 term infants. Using a pan-genomic approach to functionally subtype the E. coli, we identify genes associated with NEC and mortality that indicate colonization by UPEC. Metagenomic multilocus sequence typing analysis further defined NEC-associated strains as sequence types often associated with urinary tract infections, including ST69, ST73, ST95, ST127, ST131, and ST144. Although other factors associated with prematurity may also contribute, this report suggests a link between UPEC and NEC and indicates that further attention to these sequence types as potential causal agents is needed. |
| first_indexed | 2024-12-20T20:22:43Z |
| format | Article |
| id | doaj.art-895c8d04160a4c5aa42ef0784fb6ab5e |
| institution | Directory Open Access Journal |
| issn | 2211-1247 |
| language | English |
| last_indexed | 2024-12-20T20:22:43Z |
| publishDate | 2016-03-01 |
| publisher | Elsevier |
| record_format | Article |
| series | Cell Reports |
| spelling | doaj.art-895c8d04160a4c5aa42ef0784fb6ab5e2022-12-21T19:27:32ZengElsevierCell Reports2211-12472016-03-0114122912292410.1016/j.celrep.2016.03.015Metagenomic Sequencing with Strain-Level Resolution Implicates Uropathogenic E. coli in Necrotizing Enterocolitis and Mortality in Preterm InfantsDoyle V. Ward0Matthias Scholz1Moreno Zolfo2Diana H. Taft3Kurt R. Schibler4Adrian Tett5Nicola Segata6Ardythe L. Morrow7Center for Microbiome Research, University of Massachusetts Medical School, Worcester, MA 01655, USACentre for Integrative Biology, University of Trento, Trento, TN 38123, ItalyCentre for Integrative Biology, University of Trento, Trento, TN 38123, ItalyDepartment of Pediatrics, Cincinnati Children’s Hospital Medical Center, Cincinnati, OH 45229, USADepartment of Pediatrics, Cincinnati Children’s Hospital Medical Center, Cincinnati, OH 45229, USACentre for Integrative Biology, University of Trento, Trento, TN 38123, ItalyCentre for Integrative Biology, University of Trento, Trento, TN 38123, ItalyDepartment of Pediatrics, Cincinnati Children’s Hospital Medical Center, Cincinnati, OH 45229, USANecrotizing enterocolitis (NEC) afflicts approximately 10% of extremely preterm infants with high fatality. Inappropriate bacterial colonization with Enterobacteriaceae is implicated, but no specific pathogen has been identified. We identify uropathogenic E. coli (UPEC) colonization as a significant risk factor for the development of NEC and subsequent mortality. We describe a large-scale deep shotgun metagenomic sequence analysis of the early intestinal microbiome of 144 preterm and 22 term infants. Using a pan-genomic approach to functionally subtype the E. coli, we identify genes associated with NEC and mortality that indicate colonization by UPEC. Metagenomic multilocus sequence typing analysis further defined NEC-associated strains as sequence types often associated with urinary tract infections, including ST69, ST73, ST95, ST127, ST131, and ST144. Although other factors associated with prematurity may also contribute, this report suggests a link between UPEC and NEC and indicates that further attention to these sequence types as potential causal agents is needed.http://www.sciencedirect.com/science/article/pii/S221112471630256X |
| spellingShingle | Doyle V. Ward Matthias Scholz Moreno Zolfo Diana H. Taft Kurt R. Schibler Adrian Tett Nicola Segata Ardythe L. Morrow Metagenomic Sequencing with Strain-Level Resolution Implicates Uropathogenic E. coli in Necrotizing Enterocolitis and Mortality in Preterm Infants Cell Reports |
| title | Metagenomic Sequencing with Strain-Level Resolution Implicates Uropathogenic E. coli in Necrotizing Enterocolitis and Mortality in Preterm Infants |
| title_full | Metagenomic Sequencing with Strain-Level Resolution Implicates Uropathogenic E. coli in Necrotizing Enterocolitis and Mortality in Preterm Infants |
| title_fullStr | Metagenomic Sequencing with Strain-Level Resolution Implicates Uropathogenic E. coli in Necrotizing Enterocolitis and Mortality in Preterm Infants |
| title_full_unstemmed | Metagenomic Sequencing with Strain-Level Resolution Implicates Uropathogenic E. coli in Necrotizing Enterocolitis and Mortality in Preterm Infants |
| title_short | Metagenomic Sequencing with Strain-Level Resolution Implicates Uropathogenic E. coli in Necrotizing Enterocolitis and Mortality in Preterm Infants |
| title_sort | metagenomic sequencing with strain level resolution implicates uropathogenic e coli in necrotizing enterocolitis and mortality in preterm infants |
| url | http://www.sciencedirect.com/science/article/pii/S221112471630256X |
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