scholarly journals Prodigiosin of Serratia marcescens ZPG19 Alters the Gut Microbiota Composition of Kunming Mice

Molecules ◽  
2021 ◽  
Vol 26 (8) ◽  
pp. 2156
Author(s):  
Xue Li ◽  
Xinfeng Tan ◽  
Qingshuang Chen ◽  
Xiaoling Zhu ◽  
Jing Zhang ◽  
...  
Keyword(s):  
Serratia Marcescens ◽  
Intestinal Microbiota ◽  
High Performance ◽  
High Throughput Sequencing ◽  
Lactobacillus Reuteri ◽  
Intestinal Inflammation ◽  
Charge Ratio ◽  
Sequencing Analysis ◽  
Red Pigment ◽  
Abundance And Diversity

Prodigiosin is a red pigment produced by Serratia marcescens with anticancer, antimalarial, and antibacterial effects. In this study, we extracted and identified a red pigment from a culture of S. marcescens strain ZPG19 and investigated its effect on the growth performance and intestinal microbiota of Kunming mice. High-performance liquid chromatography/mass spectrometry revealed that the pigment had a mass-to-charge ratio (m/z) of 324.2160, and thus it was identified as prodigiosin. To investigate the effect of prodigiosin on the intestinal microbiota, mice (n = 5) were administered 150 μg/kg/d prodigiosin (crude extract, 95% purity) via the drinking water for 18 days. Administration of prodigiosin did not cause toxicity in mice. High-throughput sequencing analysis revealed that prodigiosin altered the cecum microbiota abundance and diversity; the relative abundance of Desulfovibrio significantly decreased, whereas Lactobacillus reuteri significantly increased. This finding indicates that oral administration of prodigiosin has a beneficial effect on the intestinal microbiota of mice. As prodigiosin is non-toxic to mouse internal organs and improves the mouse intestinal microbiota, we suggest that it is a promising candidate drug to treat intestinal inflammation.

scholarly journals Responses of Intestinal Microbiota and Immunity to Increasing Dietary Levels of Iron Using a Piglet Model

2020 ◽  
Vol 8 ◽  
Author(s):  
Shuai Chen ◽  
Xin Wu ◽  
Xia Wang ◽  
Yirui Shao ◽  
Qiang Tu ◽  
...  
Keyword(s):  
Growth Performance ◽  
Intestinal Microbiota ◽  
Relative Abundance ◽  
Lactobacillus Reuteri ◽  
Binding Capacity ◽  
Alpha Diversity ◽  
Sequencing Analysis ◽  
Dietary Iron ◽  
Transcript Profile ◽  
Weaning Piglets

Iron is an essential metal for both animals and microbiota. In general, neonates and infants of humans and animals are at the risk of iron insufficiency. However, excess dietary iron usually causes negative impacts on the host and microbiota. This study aimed to investigate overloaded dietary iron supplementation on growth performance, the distribution pattern of iron in the gut lumen and the host, intestinal microbiota, and intestine transcript profile of piglets. Sixty healthy weaning piglets were randomly assigned to six groups: fed on diets supplemented with ferrous sulfate monohydrate at the dose of 50 ppm (Fe50 group), 100 ppm (Fe100 group), 200 ppm (Fe200 group), 500 ppm (Fe500 group), and 800 ppm (Fe800), separately, for 3 weeks. The results indicated that increasing iron had no significant effects on growth performance, but increased diarrheal risk and iron deposition in intestinal digesta, tissues of intestine and liver, and serum. High iron also reduced serum iron-binding capacity, apolipoprotein, and immunoglobin A. The RNA-sequencing analysis revealed that iron changed colonic transcript profile, such as interferon gamma-signal transducer and activator of transcription two-based anti-infection gene network. Increasing iron also shifted colonic and cecal microbiota, such as reducing alpha diversity and the relative abundance of Clostridiales and Lactobacillus reuteri and increasing the relative abundance of Lactobacillus and Lactobacillus amylovorus. Collectively, this study demonstrated that high dietary iron increased diarrheal incidence, changed intestinal immune response-associated gene expression, and shifted gut microbiota. The results would enhance our knowledge of iron effects on the gut and microbiome in piglets and further contribute to understanding these aspects in humans.

scholarly journals Resuscitation of soil microbiota after > 70-years of desiccation

2020 ◽  
Author(s):  
Jun Zhao ◽  
Dongfeng Chen ◽  
Wei Gao ◽  
Zhiying Guo ◽  
Zhongjun Jia ◽  
...  
Keyword(s):  
High Throughput Sequencing ◽  
Bacterial Abundance ◽  
Storage Conditions ◽  
16S Rrna Genes ◽  
Rrna Genes ◽  
Sequencing Analysis ◽  
Osmotic Change ◽  
Abundance And Diversity ◽  
Strong Adaptation

AbstractThe abundance and diversity of bacteria in 24 historical soil samples under air-dried storage conditions for more than 70 years were assessed by quantification and high-throughput sequencing analysis of 16S rRNA genes. All soils contained a measurable abundance of bacteria varying from 103 to 108 per gram of soil and contrasting community compositions were observed in different background soils, suggesting that the bacteria detected were indigenous to the soil. Following a 4-week soil rewetting event, the bacterial abundance significantly increased in soils, indicating strong adaptation of soil bacteria to extreme osmotic change and high resuscitation potential of some bacteria over long periods of desiccation. Paenibacillus, Cohnella and two unclassified Bacillales genera within the phylum Firmicutes represented the most ubiquitously active taxa, which showed growth in the highest number of soils (≥12 soils), while genera Tumebacillus, Alicyclobacillus and Brevibacillus in the phylum Firmicutes displayed the highest growth rates in soils (with >1000-fold average increase) following rewetting. Additionally, some Actinobacteria and Proteobacteria genera showed relatively high activity following rewetting, suggesting that the resilience to long-term desiccation and rewetting is a common trait across phylogenetically divergent microbes. The present study thus demonstrated that diversified groups of microbes are present and potentially active in historically desiccated soils, which might be of importance in the context of microbial ecology.

scholarly journals Lactobacillus reuteri Alleviates Gastrointestinal Toxicity of Rituximab by Regulating the Proinflammatory T Cells in vivo

2021 ◽  
Vol 12 ◽  
Author(s):  
Binyan Zhao ◽  
Bailing Zhou ◽  
Chunyan Dong ◽  
Rui Zhang ◽  
Daoyuan Xie ◽  
...  
Keyword(s):  
Side Effects ◽  
Intestinal Microbiota ◽  
Adverse Reactions ◽  
Lactobacillus Reuteri ◽  
Intestinal Inflammation ◽  
Mucosal Damage ◽  
Intragastric Administration ◽  
Inflammatory Factor ◽  
Gastrointestinal Side Effects

Rituximab (RTX) is a widely used anticancer drug with gastrointestinal side effects, such as nausea, vomiting, and diarrhea. The reason for these side effects is still poorly understood. Previous studies have reported that the intestinal microbiota is associated with the occurrence of disease and the therapeutic effect of drugs. In this study, we observed mucosal damage, inflammatory cell infiltration and increased intestinal inflammatory factor expression in RTX-treated mice. RTX also changed the diversity of the intestinal microbiota in mice, and decreased abundance of Lactobacillus reuteri was observed in RTX-treated mice. Further experiments revealed that intragastric administration of L. reuteri in RTX-treated mice attenuated the intestinal inflammatory response induced by RTX and regulated the proportion of helper T (Th) cells. In conclusion, our data characterize the effect of the intestinal microbiota on RTX-induced intestinal inflammation, suggesting that modifying the gut microbiota may represent a positive strategy for managing adverse reactions.

Inflammatory Bowel Diseases: The Role of Gut Microbiota

2020 ◽  
Vol 26 (25) ◽  
pp. 2951-2961 ◽  
Author(s):  
Cristiana De Musis ◽  
Lucia Granata ◽  
Marcello Dallio ◽  
Agnese Miranda ◽  
Antonietta G. Gravina ◽  
...  
Keyword(s):  
Gut Microbiota ◽  
Intestinal Microbiota ◽  
Inflammatory Bowel Diseases ◽  
Intestinal Inflammation ◽  
Fecal Microbiota Transplantation ◽  
Fecal Microbiota ◽  
Trigger Factor ◽  
Sequencing Analysis ◽  
Bowel Diseases ◽  
Inflammatory Bowel

: Inflammatory bowel diseases (IBD) are chronic multifactorial diseases characterized by partially unclear pathogenic mechanisms including changes in intestinal microbiota. Despite the microbiota, alteration is well established in IBD patients, as reported by 16RNA sequencing analysis, an important goal is to define if it is just a consequence of the disease progression or a trigger factor of the disease itself. To date, gut microbiota composition and gut microbiota-related metabolites seem to affect the host healthy state both by modulating metabolic pathways or acting on the expression of different genes through epigenetic effects. Because of this, it has been suggested that intestinal microbiota might represent a promising therapeutic target for IBD patients. : The aim of this review is to summarize both the most recent acquisitions in the field of gut microbiota and its involvement in intestinal inflammation together with the available strategies for the modulation of microbiota, such as prebiotics and/or probiotics administration or fecal microbiota transplantation.

scholarly journals Fecal microbiota and metabolome characteristics in cirrhotic patients accompanied with hepatic encephalopathy

2019 ◽  
Author(s):  
xiao wei ◽  
Jing Yuan
Keyword(s):  
Hepatic Encephalopathy ◽  
Gut Microbiota ◽  
Intestinal Microbiota ◽  
High Performance ◽  
High Throughput Sequencing ◽  
Paired Comparison ◽  
Illumina Miseq ◽  
Metabolic Phenotype ◽  
Metabolome Analysis ◽  
Cirrhotic Patients

Abstract Background Gut microbiota is considered as an important endocrine organ and has remarkable influence on the metabolic phenotype of host, with extensive participation in the cometabolism with host. Significant changes occurred in intestinal microenvironment of cirrhotic patients under the influence of gut-liver axis. Hepatic encephalopathy is one of the common complications of cirrhosis. Methods In this study, four patients of cirrhosis accompanied with hepatic encephalopathy (CHE) were enrolled, with their healthy relatives as the controls, and paired comparison analysis was carried out. Fresh fecal samples were collected from participants, and subjected to Illumina MiSeq high throughput sequencing of 16S rRNA regions, and metabolome analysis was carried out using high-performance liquid phase chromatography and gas chromatography coupled with tandem mass spectrometry (HPLC-GC/MS-MS). Results Both the intestinal microbiota community and metabolome analysis showed distinct differences between CHE patients and the normal. CHE patients contained a remarkably decreased abundance of Bacteroidetes, whereas increased abundances of Firmicutes and Proteobacteria compared with the normal. Metabolome analysis revealed significant changes in metabolites constituents for CHE patients, showing distinct higher concentrations of amine, alanine, glutamic acid, ornithine, and tyrosine, with lower concentrations of cholesterol, myo-inositol, serine, suggesting the metabolic balance of intestinal microbiota was disrupted. The initial equilibrium state of gut microbiota community and metabolism was broken due to CHE. Conclusions Our study illustrated the intestinal microenvironment dysbiosis and dysfunction characteristics, which will be expected to provide guiding significance for intestinal microecological therapy and improvement of patients prognosis clinically.

scholarly journals Differential study of the Parabramis pekinensis intestinal microbiota according to different habitats and different parts of the intestine

2021 ◽  
Vol 71 (1) ◽  
Author(s):  
Hailong Gu ◽  
Yaming Feng ◽  
Ya Zhang ◽  
Denghua Yin ◽  
Zhijing Yang ◽  
...  
Keyword(s):  
Intestinal Microbiota ◽  
Yangtze River ◽  
High Throughput Sequencing ◽  
Growth Conditions ◽  
Bacterial Phyla ◽  
Comprehensive Survey ◽  
Abundance And Diversity ◽  
Very High ◽  
Different Parts ◽  
Microbiota Structure

Abstract Purpose To identify the differences in gut bacterial community of Parabramis pekinensis under different growth conditions, and the effect of the diet in a controlled habitat on the community structure, aiming to provide a comprehensive survey of how the gut microbiota in P. pekinensis varies depending on habitat. Methods A total of 73 P. pekinensis from Yangtze River (W), rivers in the outskirts of Jingjiang (Jiangsu province, China, R), and farms (C) were collected to analyze the intestinal microbiota using high-throughput sequencing of the V3-V4 16S ribosomal RNA gene. We also subdivided the gut into the foregut (F), midgut (M), and hindgut (B) to analyze the differences between them. Results The dominant bacterial phyla in P. pekinensis were Fusobacteria, Firmicutes, Proteobacteria, and Actinobacteria; meanwhile, Cyanobacteria, Bacteroidetes, Chloroflexi, and Verrucomicrobia were also highly abundant. It is worth noting that the abundance of Fusobacteria Cetobacterium was also very high. The abundance and diversity of the intestinal microbiota structure of fish taken from breeding farm were significantly lower than those taken from Yangtze river and Suburban river, and the abundance of Aeromonas in the gut of fish taken from Yangtze river was much higher than that of fish taken from Suburban river. Compared to midgut, foregut and hindgut have similar microbiota structures, but did not differ significantly in them. Conclusions The core intestinal microbiota of P. pekinensis is the same to other herbivorous and partially omnivorous fish. There were significant differences in the intestinal microbiota structure of P. pekinensis from different habitats, but no significant differences in the microbiota abundance and diversity between the different parts of the intestine.

A New Approach for Predicting the Value of Gene Expression: Two-way Collaborative Filtering

2019 ◽  
Vol 14 (6) ◽  
pp. 480-490 ◽  
Author(s):  
Tuncay Bayrak ◽  
Hasan Oğul
Keyword(s):  
Gene Expression ◽  
Regression Model ◽  
Collaborative Filtering ◽  
High Throughput Sequencing ◽  
Mean Squared Error ◽  
Experimental Studies ◽  
Kernel Functions ◽  
Feature Representation ◽  
Sequencing Analysis ◽  
Computational Systems Biology

Background: Predicting the value of gene expression in a given condition is a challenging topic in computational systems biology. Only a limited number of studies in this area have provided solutions to predict the expression in a particular pattern, whether or not it can be done effectively. However, the value of expression for the measurement is usually needed for further meta-data analysis. Methods: Because the problem is considered as a regression task where a feature representation of the gene under consideration is fed into a trained model to predict a continuous variable that refers to its exact expression level, we introduced a novel feature representation scheme to support work on such a task based on two-way collaborative filtering. At this point, our main argument is that the expressions of other genes in the current condition are as important as the expression of the current gene in other conditions. For regression analysis, linear regression and a recently popularized method, called Relevance Vector Machine (RVM), are used. Pearson and Spearman correlation coefficients and Root Mean Squared Error are used for evaluation. The effects of regression model type, RVM kernel functions, and parameters have been analysed in our study in a gene expression profiling data comprising a set of prostate cancer samples. Results: According to the findings of this study, in addition to promising results from the experimental studies, integrating data from another disease type, such as colon cancer in our case, can significantly improve the prediction performance of the regression model. Conclusion: The results also showed that the performed new feature representation approach and RVM regression model are promising for many machine learning problems in microarray and high throughput sequencing analysis.

Colonisation with endogenous Lactobacillus reuteri R28 and exogenous Lactobacillus plantarum AR17-1 and the effects on intestinal inflammation in mice

2021 ◽  
Vol 12 (6) ◽  
pp. 2481-2488
Author(s):  
Guangqiang Wang ◽  
Yan Chen ◽  
Su Fei ◽  
Chunliang Xie ◽  
Yongjun Xia ◽  
...  
Keyword(s):  
Lactobacillus Plantarum ◽  
Lactobacillus Reuteri ◽  
Intestinal Inflammation ◽  
Peg Treatment

Endogenous and exogenous strains exhibit no significant differences in healthy mice, whereas after PEG treatment, colonisation of endogenous strain is greatly enhanced.

scholarly journals Dynamics of Diversity and Abundance of Sulfonamide Resistant Bacteria in a Silt Loam Soil Fertilized by Compost

Antibiotics ◽  
2021 ◽  
Vol 10 (6) ◽  
pp. 699
Author(s):  
Hui Han ◽  
Mohan Bai ◽  
Yanting Chen ◽  
Yali Gong ◽  
Ming Wu ◽  
...  
Keyword(s):  
High Throughput ◽  
Relative Abundance ◽  
High Throughput Sequencing ◽  
Resistant Bacteria ◽  
Arable Soils ◽  
Soil Bacterial Communities ◽  
Sulfonamide Resistance ◽  
Loam Soil ◽  
Abundance And Diversity ◽  
Sulfonamide Resistance Genes

Although composting is effective in deactivating antibiotic substances in manure, the influence of compost fertilization on the occurrence and dissemination of antibiotic resistance in arable soils remains to be controversial. Herein, the abundance and diversity of two sulfonamide resistance genes (sul1 and sul2) in soil fertilized by compost spiked with two concentrations of sulfadiazine (1 and 10 mg kg−1) were studied intensively by qPCR and high throughput sequencing based on a two-month microcosm experiment. The concentration of sulfadiazine decreased rapidly after spiking from 25% at Day 1 to less than 2.7% at Day 60. Relative abundance of both sul1 and sul2 were significantly higher in soil amended with compost than the non-amended control at Day 1 and slightly decreased with incubation time except for sul2 in the S10 treatment. Soil bacterial communities were transiently shifted by compost fertilization regardless of the presence of sulfadiazine. Relative abundance of genera in three hubs positively interlinked with sul1 and sul2 were significantly higher in compost treated soil than the control at Day 1, 7 and 21, but not at Day 60. High throughput sequencing analyses revealed that most detected (>67% in relative abundance) sul1 and sul2 genotypes sharing >99% similarity with those found in gammaproteobacterial pathogens frequently were commonly present in compost and soil. These results indicated that compost fertilization might increase the abundance rather than diversity of sulfadiazine-resistant populations in soil, which may be facilitated by the presence of sulfadiazine.

Sign in / Sign up

Export Citation Format

Share Document