Microbiome signatures in neonatal central line associated bloodstream infections

Pammi, Mohan; Thapa, Santosh; Balderas, Miriam; Runge, Jessica K.; Venkatachalam, Alamelu; Luna, Ruth Ann

doi:10.1371/journal.pone.0227967

Cited by 15 publications

(14 citation statements)

References 44 publications

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“…The raw reads were processed as described in Thapa et al [ 31 ]. Next, the sequences were quality filtered using the LotuS pipeline (v1.462) [ 32 ] and processed as previously described [ 31 , 33 ]. Chloroplast-derived and mitochondrial sequences were removed from the biom file before proceeding with analysis, along with the OTUs that fail to classify as bacteria at the kingdom level and unclassified OTUs at the phylum level.…”

Section: Methodsmentioning

confidence: 99%

Assessment of the gut bacterial microbiome and metabolome of girls and women with Rett Syndrome

et al. 2021

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Background Gastrointestinal problems affect the health and quality of life of individuals with Rett syndrome (RTT) and pose a medical hardship for their caregivers. We hypothesized that the variability in the RTT phenotype contributes to the dysbiosis of the gut microbiome and metabolome in RTT, predisposing these individuals to gastrointestinal dysfunction. Objectives We characterized the gut bacterial microbiome and metabolome in girls and young women with RTT (n = 44) and unaffected controls (n = 21), and examined the relation between the composition of the microbiome and variations in the RTT phenotype. Methods Demographics and clinical information, including growth and anthropometric measurements, pubertal status, symptoms, clinical severity score, bowel movement, medication use, and dietary intakes were collected from the participants. Fecal samples were collected for analysis of the gut microbiome using Illumina MiSeq-based next-generation sequencing of the 16S rRNA gene followed by bioinformatics analysis of microbial composition, diversity, and community structure. Selected end-products of microbial protein metabolism were characterized by liquid chromatography-mass spectrometry. Results The gut bacterial microbiome differed within the RTT cohort based on pubertal status (p<0.02) and clinical severity scores (p<0.02) of the individuals and the type of diet (p<0.01) consumed. Although the composition of the gut microbiome did not differ between RTT and unaffected individuals, concentrations of protein end-products of the gut bacterial metabolome, including γ-aminobutyric acid (GABA) (p<0.001), tyrosine (p<0.02), and glutamate (p<0.06), were lower in the RTT cohort. Differences in the microbiome within RTT groups, based on symptomatic anxiety, hyperventilation, abdominal distention, or changes in stool frequency and consistency, were not detected. Conclusions Although variability in the RTT phenotype contributes to the dysbiosis of the gut microbiome, we presently cannot infer causality between gut bacterial dysbiosis and gastrointestinal dysfunction. Nevertheless, alterations in the gut metabolome may provide clues to the pathophysiology of gastrointestinal problems in RTT.

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Section: Methodsmentioning

confidence: 99%

Assessment of the gut bacterial microbiome and metabolome of girls and women with Rett Syndrome

et al. 2021

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“…Data regarding changes in the microbiome and metabolome of humans receiving PICC insertion have been limited, but longitudinal alterations in the gut microbial colonisation patterns of infants who received TPN has been reported 60 . Nonetheless, blood microbiome signatures in neonatal PICCs associated with bloodstream infections were detected 61 . Although the aetiology for these observations on the neonatal microbiome is not clearly understood, we ascertain that PICC line insertion may exert a prolonged effect on the neonatal gut metabolism.…”

Section: Discussionmentioning

confidence: 99%

Neonatal intensive care unit (NICU) exposures exert a sustained influence on the progression of gut microbiota and metabolome in the first year of life

Yap

Chong

Kamar

et al. 2021

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Emerging evidence has shown a link between the perturbations and development of the gut microbiota in infants with their immediate and long-term health. To better understand the assembly of the gut microbiota in preterm infants, faecal samples were longitudinally collected from the preterm (n = 19) and term (n = 20) infants from birth until month 12. 16S rRNA gene sequencing (n = 141) and metabolomics profiling (n = 141) using nuclear magnetic resonance spectroscopy identified significant differences between groups in various time points. A panel of amino acid metabolites and central metabolism intermediates significantly correlated with the relative abundances of 8 species of bacteria were identified in the preterm group. In contrast, faecal metabolites of term infants had significantly higher levels of metabolites which are commonly found in milk such as fucose and β-hydroxybutyrate. We demonstrated that the early-life factors such as gestational age, birth weight and NICU exposures, exerted a sustained effect to the dynamics of gut microbial composition and metabolism of the neonates up to one year of age. Thus, our findings suggest that intervention at this early time could provide ‘metabolic rescue’ to preterm infants from aberrant initial gut microbial colonisation and succession.

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“…In microbial communities, many microorganisms exhibit a synergistic relationship and depend on each other to survive [13]. The diversity and composition of the microbial communities within bio lms may contribute to the bio lm's dispersal and BSI [14]. In this study, there were signi cant differences in the bio lm's microbiota depending on the presence of bacteremia.…”

Section: Discussionmentioning

confidence: 63%

Biofilm Microbiome in Extracorporeal Membrane Oxygenator Catheters

Kim

Cho

et al. 2020

Preprint

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Background : To assess the relationship between bacteremia and biofilms in extracorporeal membrane oxygenation (ECMO) catheters.Methods: We evaluated the biofilm microbiome of ECMO catheters from adults with (n = 6) and without bacteremia (n = 15). Microbiomes of the catheter biofilms were evaluated by profiling the V3 and V4 regions of bacterial 16s rRNA genes using the Illumina Miseq sequencing platform.Results: In total, 2,548,172 reads, with an average of 121,341 reads per sample, were generated. Although alpha diversity was slightly higher in the non-bacteremic group, it was not statistically significant. Also, there was no difference in beta diversity between the two groups. At the genus level, Delftia was more abundant in the non-bacteremic group, but Bacillus, Flavobacterium, CL0-1, Candidatus, and Xiphinematobacter were more abundant in the bacteremic group. In particular, Arthrobacter, SMB53, Neisseria, Candidatus, Ortrobactrum, Candidatus, Rhabdochlamydia, Deefgae, Dyella, Paracoccus, and Pedobacter were more abundant in the bacteremic group. In a network analysis, compared to the non-bacteremic group, the microbiome of the bacteremic group was very complex. Notably, there was a significant elevation in the secretion system of the non-bacteremic group.Conclusions: Biofilm characteristics in ECMO catheters varied according to the presence or absence of bacteremia.

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Microbiome signatures in neonatal central line associated bloodstream infections

Cited by 15 publications

References 44 publications

Assessment of the gut bacterial microbiome and metabolome of girls and women with Rett Syndrome

Assessment of the gut bacterial microbiome and metabolome of girls and women with Rett Syndrome

Neonatal intensive care unit (NICU) exposures exert a sustained influence on the progression of gut microbiota and metabolome in the first year of life

Biofilm Microbiome in Extracorporeal Membrane Oxygenator Catheters

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