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Gut bacteria are rarely shared by co-hospitalized premature infants, regardless of necrotizing enterocolitis development.

Raveh-Sadka T, Thomas BC, Singh A, Firek B, Brooks B, Castelle CJ, Sharon I, Baker R, Good M, Morowitz MJ, Banfield JF - Elife (2015)

Bottom Line: Thus, spread of potential pathogens among hospitalized infants is of great concern.We compared microbial communities in infants who did and did not develop necrotizing enterocolitis.Importantly, we demonstrate that strain-resolved comprehensive community analysis can be accomplished on potentially medically relevant time scales.

View Article: PubMed Central - PubMed

Affiliation: Department of Earth and Planetary Science, University of California, Berkeley, Berkeley, United States.

ABSTRACT
Premature infants are highly vulnerable to aberrant gastrointestinal tract colonization, a process that may lead to diseases like necrotizing enterocolitis. Thus, spread of potential pathogens among hospitalized infants is of great concern. Here, we reconstructed hundreds of high-quality genomes of microorganisms that colonized co-hospitalized premature infants, assessed their metabolic potential, and tracked them over time to evaluate bacterial strain dispersal among infants. We compared microbial communities in infants who did and did not develop necrotizing enterocolitis. Surprisingly, while potentially pathogenic bacteria of the same species colonized many infants, our genome-resolved analysis revealed that strains colonizing each baby were typically distinct. In particular, no strain was common to all infants who developed necrotizing enterocolitis. The paucity of shared gut colonizers suggests the existence of significant barriers to the spread of bacteria among infants. Importantly, we demonstrate that strain-resolved comprehensive community analysis can be accomplished on potentially medically relevant time scales.

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Stacked bar plot of community composition across samples and infantsafter organism identifications were collapsed to the phylum level to allowcomparison to prior studies.Red lines indicate necrotizing enterocolitis diagnoses.DOI:http://dx.doi.org/10.7554/eLife.05477.012
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fig7: Stacked bar plot of community composition across samples and infantsafter organism identifications were collapsed to the phylum level to allowcomparison to prior studies.Red lines indicate necrotizing enterocolitis diagnoses.DOI:http://dx.doi.org/10.7554/eLife.05477.012

Mentions: Previous studies that were done at lower resolution than achieved in the currentstudy have pointed to a high abundance of Proteobacteria as a factor in NECdevelopment (Wang et al., 2009; Mai et al., 2011; Torrazza et al., 2013). To see if that pattern applied in thecurrent study, we collapsed our organism identifications to the phylum level (Figure 7). Proteobacteria are abundant in mostinfants, but Proteobacteria representation in the communities did not distinguishthose infants who developed NEC from those that did not. In fact, the relativeabundance of Proteobacteria declines in infant #2 prior to both NEC diagnoses.Abundances are generally low in infant #3, and consistently high in infant#8.10.7554/eLife.05477.012Figure 7.Stacked bar plot of community composition across samples and infantsafter organism identifications were collapsed to the phylum level to allowcomparison to prior studies.


Gut bacteria are rarely shared by co-hospitalized premature infants, regardless of necrotizing enterocolitis development.

Raveh-Sadka T, Thomas BC, Singh A, Firek B, Brooks B, Castelle CJ, Sharon I, Baker R, Good M, Morowitz MJ, Banfield JF - Elife (2015)

Stacked bar plot of community composition across samples and infantsafter organism identifications were collapsed to the phylum level to allowcomparison to prior studies.Red lines indicate necrotizing enterocolitis diagnoses.DOI:http://dx.doi.org/10.7554/eLife.05477.012
© Copyright Policy
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4384745&req=5

fig7: Stacked bar plot of community composition across samples and infantsafter organism identifications were collapsed to the phylum level to allowcomparison to prior studies.Red lines indicate necrotizing enterocolitis diagnoses.DOI:http://dx.doi.org/10.7554/eLife.05477.012
Mentions: Previous studies that were done at lower resolution than achieved in the currentstudy have pointed to a high abundance of Proteobacteria as a factor in NECdevelopment (Wang et al., 2009; Mai et al., 2011; Torrazza et al., 2013). To see if that pattern applied in thecurrent study, we collapsed our organism identifications to the phylum level (Figure 7). Proteobacteria are abundant in mostinfants, but Proteobacteria representation in the communities did not distinguishthose infants who developed NEC from those that did not. In fact, the relativeabundance of Proteobacteria declines in infant #2 prior to both NEC diagnoses.Abundances are generally low in infant #3, and consistently high in infant#8.10.7554/eLife.05477.012Figure 7.Stacked bar plot of community composition across samples and infantsafter organism identifications were collapsed to the phylum level to allowcomparison to prior studies.

Bottom Line: Thus, spread of potential pathogens among hospitalized infants is of great concern.We compared microbial communities in infants who did and did not develop necrotizing enterocolitis.Importantly, we demonstrate that strain-resolved comprehensive community analysis can be accomplished on potentially medically relevant time scales.

View Article: PubMed Central - PubMed

Affiliation: Department of Earth and Planetary Science, University of California, Berkeley, Berkeley, United States.

ABSTRACT
Premature infants are highly vulnerable to aberrant gastrointestinal tract colonization, a process that may lead to diseases like necrotizing enterocolitis. Thus, spread of potential pathogens among hospitalized infants is of great concern. Here, we reconstructed hundreds of high-quality genomes of microorganisms that colonized co-hospitalized premature infants, assessed their metabolic potential, and tracked them over time to evaluate bacterial strain dispersal among infants. We compared microbial communities in infants who did and did not develop necrotizing enterocolitis. Surprisingly, while potentially pathogenic bacteria of the same species colonized many infants, our genome-resolved analysis revealed that strains colonizing each baby were typically distinct. In particular, no strain was common to all infants who developed necrotizing enterocolitis. The paucity of shared gut colonizers suggests the existence of significant barriers to the spread of bacteria among infants. Importantly, we demonstrate that strain-resolved comprehensive community analysis can be accomplished on potentially medically relevant time scales.

Show MeSH
Related in: MedlinePlus