scholarly journals Intestinal dysbiosis in carbapenem-resistant Enterobacteriaceae carriers

2019 ◽  
Author(s):  
Hila Korach-Rechtman ◽  
Maysaa Hreish ◽  
Carmit Fried ◽  
Shiran Gerassy-Vainberg ◽  
Zaher S Azzam ◽  
...  
Keyword(s):  
Gut Microbiota ◽  
Systemic Infection ◽  
16S Rrna Genes ◽  
Rrna Genes ◽  
Control Groups ◽  
Fecal Transplantation ◽  
Carbapenem Resistant ◽  
Increased Risk ◽  
Study Results ◽  
Carbapenem Resistant Enterobacteriaceae

AbstractInfection with Carbapenem-Resistant Enterobacteriaceae (CRE) became an important challenge in health-care settings and a growing concern worldwide. Since infection is preceded by colonization, an understanding of the latter may reduce CRE-infections. We aimed to characterize the gut microbiota after colonization by CRE, assuming that an imbalanced gastrointestinal tract (GIT)-associated microbiota precedes CRE-colonization.We evaluated the GIT-microbiota using 16S rRNA genes sequencing extracted of fecal samples, collected from hospitalized CRE-carriers, and two control groups of hospitalized non-carriers and healthy adults. The microbiota diversity and composition in CRE-colonized patients differed from that of the control groups participants. These CRE-carriers displayed lower phylogenetic diversity and dysbiotic microbiota, enriched with members of the Enterobacteriaceae family. Concurrent with the bloom in Enterobacteriaceae, a depletion of anaerobic commensals was observed. Additionally, changes in several predicted metabolic pathways were observed for the CRE-carriers. Concomitant, we found higher prevalence of bacteremia in the CRE-carriers.Several clinical factors that might induce change in the microbiota were examined and found as insignificant between the groups.CRE-colonized patients have dysbiotic gut microbiota in terms of diversity and community membership, associated with increased risk for systemic infection. Our study results provides justification for attempts to restore the dysbiotic microbiota with probiotics or fecal transplantation.

scholarly journals Intestinal Dysbiosis in Carriers of Carbapenem-Resistant Enterobacteriaceae

mSphere ◽  
2020 ◽  
Vol 5 (2) ◽  
Author(s):  
Hila Korach-Rechtman ◽  
Maysaa Hreish ◽  
Carmit Fried ◽  
Shiran Gerassy-Vainberg ◽  
Zaher S. Azzam ◽  
...  
Keyword(s):  
Gut Microbiota ◽  
Pathogenic Bacteria ◽  
Systemic Infection ◽  
Control Group ◽  
Rrna Gene ◽  
Antibiotic Resistant ◽  
Fecal Transplantation ◽  
Carbapenem Resistant ◽  
Increased Risk ◽  
Study Results

ABSTRACT Infection with carbapenem-resistant Enterobacteriaceae (CRE) has become an important challenge in health care settings and a growing concern worldwide. Since infection is preceded by colonization, an understanding of the latter may reduce CRE infections. We aimed to characterize the gut microbiota in CRE carriers, assuming that microbiota alterations precede CRE colonization. We evaluated the gut microbiota using 16S rRNA gene sequencing extracted of fecal samples collected from hospitalized CRE carriers and two control groups, hospitalized noncarriers and healthy adults. The microbiota diversity and composition in CRE-colonized patients differed from those of the control group participants. These CRE carriers displayed lower phylogenetic diversity and dysbiotic microbiota, enriched with members of the family Enterobacteriaceae. Concurrent with the enrichment in Enterobacteriaceae, a depletion of anaerobic commensals was observed. Additionally, changes in several predicted metabolic pathways were observed for the CRE carriers. Concomitantly, we found higher prevalence of bacteremia in the CRE carriers. Several clinical factors that might induce changes in the microbiota were examined and found to be insignificant between the groups. The compositional and functional changes in the microbiota of CRE-colonized patients are associated with increased risk for systemic infection. Our study results provide justification for attempts to restore the dysbiotic microbiota with probiotics or fecal transplantation. IMPORTANCE The gut microbiota plays important roles in the host’s normal function and health, including protection against colonization by pathogenic bacteria. Alterations in the gut microbial profile can potentially serve as an early diagnostic tool, as well as a therapeutic strategy against colonization by and carriage of harmful bacteria, including antibiotic-resistant pathogens. Here, we show that the microbiota of hospitalized patients demonstrated specific taxa which differed between carriers of carbapenem-resistant Enterobacteriaceae (CRE) and noncarriers. The difference in the microbiota also dictates alterations in microbiome-specific metabolic capabilities, in association with increased prevalence of systemic infection. Reintroducing specific strains and/or correction of dysbiosis with probiotics or fecal transplantation may potentially lead to colonization by bacterial taxa responsible for protection against or depletion of antibiotic-resistant pathogens.

scholarly journals Diarrhea as a Potential Cause and Consequence of Reduced Gut Microbial Diversity Among Undernourished Children in Peru

2019 ◽  
Vol 71 (4) ◽  
pp. 989-999 ◽  
Author(s):  
Saba Rouhani ◽  
Nicholas W Griffin ◽  
Pablo Peñataro Yori ◽  
Jeanette L Gehrig ◽  
Maribel Paredes Olortegui ◽  
...  
Keyword(s):  
Gut Microbiota ◽  
Bacterial Diversity ◽  
Linear Models ◽  
Diarrheal Disease ◽  
Child Growth ◽  
16S Rrna Genes ◽  
Rrna Genes ◽  
Childhood Diseases ◽  
Growth Faltering ◽  
Increased Risk

Abstract Background Detrimental effects of diarrhea on child growth and survival are well documented, but details of the underlying mechanisms remain poorly understood. Recent evidence demonstrates that perturbations to normal development of the gut microbiota in early life may contribute to growth faltering and susceptibility to related childhood diseases. We assessed associations between diarrhea, gut microbiota configuration, and childhood growth in the Peruvian Amazon. Methods Growth, diarrhea incidence, illness, pathogen infection, and antibiotic exposure were assessed monthly in a birth cohort of 271 children aged 0–24 months. Gut bacterial diversity and abundances of specific bacterial taxa were quantified by sequencing 16S rRNA genes in fecal samples collected at 6, 12, 18, and 24 months. Linear and generalized linear models were used to determine whether diarrhea was associated with altered microbiota and, in turn, if features of the microbiota were associated with the subsequent risk of diarrhea. Results Diarrheal frequency, duration, and severity were negatively associated with bacterial diversity and richness (P < .05). Children born stunted (length-for-age z-score [LAZ] ≤ −2) who were also severely stunted (LAZ ≤ −3) at the time of sampling exhibited the greatest degree of diarrhea-associated reductions in bacterial diversity and the slowest recovery of bacterial diversity after episodes of diarrhea. Increased bacterial diversity was predictive of reduced subsequent diarrhea from age 6 to 18 months. Conclusions Persistent, severe growth faltering may reduce the gut microbiota's resistance and resilience to diarrhea, leading to greater losses of diversity and longer recovery times. This phenotype, in turn, denotes an increased risk of future diarrheal disease and growth faltering.

scholarly journals Rectal Swabs Are Suitable for Quantifying the Carriage Load of KPC-Producing Carbapenem-Resistant Enterobacteriaceae

2013 ◽  
Vol 57 (3) ◽  
pp. 1474-1479 ◽  
Author(s):  
A. Lerner ◽  
J. Romano ◽  
I. Chmelnitsky ◽  
S. Navon-Venezia ◽  
R. Edgar ◽  
...  
Keyword(s):  
16S Rrna Genes ◽  
Rrna Genes ◽  
Aerobic Bacteria ◽  
Quantitative Culture ◽  
Quantitative Real Time Pcr ◽  
Content Type ◽  
Carbapenem Resistant ◽  
Rectal Swabs ◽  
Stool Specimens ◽  
Carbapenem Resistant Enterobacteriaceae

ABSTRACTIt is more convenient and practical to collect rectal swabs than stool specimens to study carriage of colon pathogens. In this study, we examined the ability to use rectal swabs rather than stool specimens to quantifyKlebsiella pneumoniaecarbapenemase (KPC)-producing carbapenem-resistantEnterobacteriaceae(CRE). We used a quantitative real-time PCR (qPCR) assay to determine the concentration of theblaKPCgene relative to the concentration of 16S rRNA genes and a quantitative culture-based method to quantify CRE relative to total aerobic bacteria. Our results demonstrated that rectal swabs are suitable for quantifying the concentration of KPC-producing CRE and that qPCR showed higher correlation between rectal swabs and stool specimens than the culture-based method.

scholarly journals Taxonomic composition and biodiversity of the gut microbiome from patients with irritable bowel syndrome, ulcerative colitis, and asthma

2022 ◽  
Vol 25 (8) ◽  
pp. 864-873
Author(s):  
A. Y. Tikunov ◽  
A. N. Shvalov ◽  
V. V. Morozov ◽  
I. V. Babkin ◽  
G. V. Seledtsova ◽  
...  
Keyword(s):  
Ulcerative Colitis ◽  
Irritable Bowel Syndrome ◽  
Gut Microbiota ◽  
Gut Microbiome ◽  
Taxonomic Composition ◽  
16S Rrna Genes ◽  
Rrna Genes ◽  
Taxonomic Structure ◽  
Opportunistic Bacteria ◽  
Irritable Bowel

To date, the association of an imbalance of the intestinal microbiota with various human diseases, including both diseases of the gastrointestinal tract and disorders of the immune system, has been shown. However, despite the huge amount of accumulated data, many key questions still remain unanswered. Given limited data on the composition of the gut microbiota in patients with ulcerative colitis (UC) and irritable bowel syndrome (IBS) from different parts of Siberia, as well as the lack of data on the gut microbiota of patients with bronchial asthma (BA), the aim of the study was to assess the biodiversity of the gut microbiota of patients with IBS, UC and BA in comparison with those of healthy volunteers (HV). In this study, a comparative assessment of the biodiversity and taxonomic structure of gut microbiome was conducted based on the sequencing of 16S rRNA genes obtained from fecal samples of patients with IBS, UC, BA and volunteers. Sequences of the Firmicutes and Bacteroidetes types dominated in all samples studied. The third most common in all samples were sequences of the Proteobacteria type, which contains pathogenic and opportunistic bacteria. Sequences of the Actinobacteria type were, on average, the fourth most common. The results showed the presence of dysbiosis in the samples from patients compared to the sample from HVs. The ratio of Firmicutes/Bacteroidetes was lower in the IBS and UC samples than in HV and higher the BA samples. In the samples from patients with intestinal diseases (IBS and UC), an increase in the proportion of sequences of the Bacteroidetes type and a decrease in the proportion of sequences of the Clostridia class, as well as the Ruminococcaceae, but not Erysipelotrichaceae family, were found. The IBS, UC, and BA samples had signif icantly more Proteobacteria sequences, including Methylobacterium, Sphingomonas, Parasutterella, Halomonas, Vibrio, as well as Escherichia spp. and Shigella spp. In the gut microbiota of adults with BA, a decrease in the proportion of Roseburia, Lachnospira, Veillonella sequences was detected, but the share of Faecalibacterium and Lactobacillus sequences was the same as in healthy individuals. A signif icant increase in the proportion of Halomonas and Vibrio sequences in the gut microbiota in patients with BA has been described for the f irst time.

scholarly journals Increased 30-Day Mortality Associated With Carbapenem-Resistant Enterobacteriaceae in Children

2018 ◽  
Vol 5 (10) ◽  
Author(s):  
Kathleen Chiotos ◽  
Pranita D Tamma ◽  
Kelly B Flett ◽  
Manjiree V Karandikar ◽  
Koorosh Nemati ◽  
...  
Keyword(s):  
Combination Therapy ◽  
Antibiotic Treatment ◽  
Multicenter Study ◽  
Significant Variation ◽  
Hospitalized Children ◽  
Carbapenem Resistant ◽  
Increased Risk ◽  
Carbapenem Resistant Enterobacteriaceae

Abstract In this multicenter study, we identified an increased risk of 30-day mortality among hospitalized children with carbapenem-resistant Enterobacteriaceae (CRE) isolated from clinical cultures compared with those with carbapenem-susceptible Enterobacteriaceae. We additionally report significant variation in antibiotic treatment for children with CRE infections with infrequent use of combination therapy.

scholarly journals Modulation of the Gut Microbiota by Shen-Yan-Fang-Shuai Formula Improves Obesity Induced by High-Fat Diets

2020 ◽  
Vol 11 ◽  
Author(s):  
Zhen Wang ◽  
Junfeng Lu ◽  
Jingwei Zhou ◽  
Weiwei Sun ◽  
Yang Qiu ◽  
...  
Keyword(s):  
Gut Microbiota ◽  
Metabolic Disorders ◽  
Intestinal Barrier ◽  
Fecal Microbiota ◽  
16S Rrna Genes ◽  
Rrna Genes ◽  
Therapeutic Effects ◽  
Low Grade ◽  
High Fat ◽  
Gut Barrier Function

Obesity and related metabolic disorders are associated with intestinal microbiota dysbiosis, disrupted intestinal barrier and chronic inflammation. Shen-Yan-Fang-Shuai formula (SYFSF) is a traditional Chinese herbal formula composed of Astragali Radix, Radix Angelicae Sinensis, Rheum Officinale Baill, and four other herbs. In this study, we identified that SYFSF treatment prevented weight gain, low-grade inflammation and insulin resistance in high-fat diet (HFD)-fed mice. SYFSF also substantially improved gut barrier function, reduced metabolic endotoxemia, as well as systemic inflammation. Sequencing of 16S rRNA genes obtained from fecal samples demonstrated that SYFSF attenuated HFD-induced gut dysbiosis, seen an decreased Firmicutes to Bacteroidetes ratios. Microbial richness and diversity were also higher in the SYFSF-treated HFD group. Furthermore, similar therapeutic effects and changes in gut microbiota profile caused by SYFSF could be replicated by fecal microbiota transfer (FMT). Taken together, our study highlights the efficacy of SYFSF in preventing obesity and related metabolic disorders. Its therapeutic effect is associated with the modulation of gut microbiota, as a prebiotic.

scholarly journals 737. Novel Glycans Reduce Carbapenem-Resistant Enterobacteriaceae and Vancomycin-Resistant Enterococci Colonization in an Ex Vivo Assay by Supporting Growth and Diversity of Commensal Microbiota at the Expense of MultiDrug-Resistant Organisms (MDRO)

2019 ◽  
Vol 6 (Supplement_2) ◽  
pp. S330-S330
Author(s):  
Gabby LeBlanc ◽  
Brandon Brooks ◽  
Madeline Hartman ◽  
Maxwell B Hecht ◽  
Hoa Luong ◽  
...  
Keyword(s):  
Critically Ill ◽  
Ex Vivo ◽  
Metagenomic Sequencing ◽  
Clinical Infection ◽  
Commensal Microbiota ◽  
Carbapenem Resistant ◽  
Vancomycin Resistant Enterococci ◽  
Increased Risk ◽  
Vancomycin Resistant ◽  
Carbapenem Resistant Enterobacteriaceae

Abstract Background Infections with Carbapenem-resistant Enterobacteriaceae (CRE) and vancomycin-resistant Enterococci (VRE) can result in a 50% mortality rate in compromised hosts. A major risk factor for clinical infection is intestinal colonization with CRE or VRE. There are currently no FDA-approved compounds to decolonize these organisms from the gastrointestinal tract (gut). Commensal microbes offer protection from pathogen infection; however, in immunocompromised hosts or with antibiotic treatment, the protective properties of the microbial community are compromised, leaving the gut susceptible to pathogen colonization. Higher concentrations of pathogens within the gut correlate with an increased risk of infection with MDROs. Our hypothesis is that reducing colonization of the gut with MDROs would reduce the likelihood of a clinical infection. Methods Kaleido built a platform that emulates the gut environment and allows for high throughput screening of Kaleido’s Microbiome Metabolic Therapies (MMT™) in human gut microbiomes ex vivo. Over 500 compounds were screened for their ability to reduce the levels of CRE and VRE in fecal microbial communities from both healthy subjects and critically ill patients receiving broad-spectrum antibiotics. Results Kaleido’s lead MMTs selectively favor the growth of the commensal microbiota at the expense of pathogens, resulting in a decrease of CRE and VRE from 80% of the initial community to 5% in a single batch culture, as measured by 16S rRNA gene and shotgun metagenomic sequencing. Lead MMTs do not support growth of CRE and VRE strains in culture, nor of other pathogens frequently encountered in critically ill and immunocompromised patients, such as Clostridium difficile and common fungal pathogens. Conclusion These results suggest that intervention with MMTs may reduce CRE and VRE colonization and support further evaluation in patients colonized with CRE or VRE pathogens. Disclosures All authors: No reported disclosures.

scholarly journals The Timing Effects of Soy Protein Intake on Mice Gut Microbiota

Nutrients ◽  
2019 ◽  
Vol 12 (1) ◽  
pp. 87 ◽  
Author(s):  
Konomi Tamura ◽  
Hiroyuki Sasaki ◽  
Kazuto Shiga ◽  
Hiroki Miyakawa ◽  
Shigenobu Shibata
Keyword(s):  
Gut Microbiota ◽  
Soy Protein ◽  
High Fat Diet ◽  
Protein Intake ◽  
Short Chain Fatty Acids ◽  
16S Rrna Genes ◽  
Rrna Genes ◽  
Casein Protein ◽  
Timing Effects ◽  
Microbiota Diversity

Soy protein intake is known to cause microbiota changes. While there are some reports about the effect of soy protein intake on gut microbiota and lipid metabolism, effective timing of soy protein intake has not been investigated. In this study, we examined the effect of soy protein intake timing on microbiota. Mice were fed twice a day, in the morning and evening, to compare the effect of soy protein intake in the morning with that in the evening. Mice were divided into three groups: mice fed only casein protein, mice fed soy protein in the morning, and mice fed soy protein in the evening under high-fat diet conditions. They were kept under the experimental condition for two weeks and were sacrificed afterward. We measured cecal pH and collected cecal contents and feces. Short-chain fatty acids (SCFAs) from cecal contents were measured by gas chromatography. The microbiota was analyzed by sequencing 16S rRNA genes from feces. Soy protein intake whether in the morning or evening led to a greater microbiota diversity and a decrease in cecal pH resulting from SCFA production compared to casein intake. In addition, these effects were relatively stronger by morning soy protein intake. Therefore, soy protein intake in the morning may have relatively stronger effects on microbiota than that in the evening.

Effect of pharmacological intakes of zinc and copper on growth performance, circulating cytokines and gut microbiota of newly weaned piglets challenged with coliform lipopolysaccharides

2006 ◽  
Vol 86 (4) ◽  
pp. 511-522 ◽  
Author(s):  
H. Namkung ◽  
J. Gong ◽  
H. Yu ◽  
C. F. M. de Lange
Keyword(s):  
Gut Microbiota ◽  
Growth Performance ◽  
Plasma Levels ◽  
Feed Efficiency ◽  
Control Diet ◽  
Interactive Effects ◽  
16S Rrna Genes ◽  
Rrna Genes ◽  
Weaned Piglets ◽  
Circulating Cytokines

The effect of feeding pharmacological levels of zinc (Zn) and copper (Cu) to newly weaned piglets on growth performance, circulating cytokines levels and gut microbiota was investigated. One hundred eighty piglets [5.90 ± 0.18 kg body weight (BW); six pigs per pen] weaned at 16 to 19 d of age were fed diets containing 3000 ppm additional Zn, 250 ppm additional Cu or a control diet (150 ppm Zn, 15 ppm Cu) for 14 d post-weaning (weeks 1 and 2). Pigs were fed a control diet for an additional 2 wk. Pigs were injected intramuscularly on days 13 and 19 with either 75 μg kg-1 BW of coliform lipopolysaccharide (LPS) or an equivalent amount of saline. Blood samples were collected 3 h after LPS injection to measure plasma levels of cytokines and cortisol. Digesta of ileum and colon were collected from non-challenged pigs on days 14 and 28 to evaluate microbiota using conventional culturing methods and polymerase chain reaction and denaturing gradient gel electrophoresis (PCRDGGE) analysis of the 16S rRNA genes. There were no interactive effects of diet and LPS challenge on growth performance (P > 0.10). Compared with the control, high dietary Zn and Cu increased (P < 0.01) average daily gain (ADG) during weeks 1 (0.125, 0.091 vs. 0.074 kg; P < 0.05) and 2 (0.240, 0.270 vs. 0.155 kg; P < 0.01) only. LPS injection reduced ADG during weeks 2 and 4 (P < 0.01). Dietary treatment did not affect feed efficiency (P > 0.10). Challenging pigs with LPS reduced (P < 0.01) feed efficiency during week 2, but increased (P < 0.05) feed efficiency during week 3. There were no interactive effects between diet and LPS on plasma cytokines levels, except for cortisol (P < 0.05). Plasma levels of cytokines (interleukin-1β, interferon-γ, tumour necrosis factor-α) and cortisol increased (P < 0.01) in pigs challenged with LPS. The high levels of dietary Zn and Cu reduced (P < 0.05) the increases in plasma cortisol level in LPS-challenged pigs at days 9 and 19. There were no differences among the dietary treatments in counts of coliforms and lactobacillus in the digesta from ileum and colon (P > 0.10). PCR-DGGE analysis showed that high levels of dietary Zn and particularly Cu significantly reduced the diversity of ileal microbiota. The effect on microbiota diversity was reversible when dietary Zn and Cu were removed. Enhanced growth performance of the newly weaned piglets fed high dietary Zn and Cu appears mediated via changes in gut microbiota as well as a reduced cortisol response following an immune challenge. Key words: Piglets, zinc, copper, lipopolysaccharide, gut microbiota, cytokines

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