Porphyromonas Gingivalis Induces Entero-Hepatic Metabolic Derangements with Alteration of Gut Microbiota in a Type 2 Diabetes Mouse Model
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The Influence of Probiotics on the Firmicutes/Bacteroidetes Ratio In
microorganisms Review The Influence of Probiotics on the Firmicutes/Bacteroidetes Ratio in the Treatment of Obesity and Inflammatory Bowel disease Spase Stojanov 1,2, Aleš Berlec 1,2 and Borut Štrukelj 1,2,* 1 Faculty of Pharmacy, University of Ljubljana, SI-1000 Ljubljana, Slovenia; [email protected] (S.S.); [email protected] (A.B.) 2 Department of Biotechnology, Jožef Stefan Institute, SI-1000 Ljubljana, Slovenia * Correspondence: borut.strukelj@ffa.uni-lj.si Received: 16 September 2020; Accepted: 31 October 2020; Published: 1 November 2020 Abstract: The two most important bacterial phyla in the gastrointestinal tract, Firmicutes and Bacteroidetes, have gained much attention in recent years. The Firmicutes/Bacteroidetes (F/B) ratio is widely accepted to have an important influence in maintaining normal intestinal homeostasis. Increased or decreased F/B ratio is regarded as dysbiosis, whereby the former is usually observed with obesity, and the latter with inflammatory bowel disease (IBD). Probiotics as live microorganisms can confer health benefits to the host when administered in adequate amounts. There is considerable evidence of their nutritional and immunosuppressive properties including reports that elucidate the association of probiotics with the F/B ratio, obesity, and IBD. Orally administered probiotics can contribute to the restoration of dysbiotic microbiota and to the prevention of obesity or IBD. However, as the effects of different probiotics on the F/B ratio differ, selecting the appropriate species or mixture is crucial. The most commonly tested probiotics for modifying the F/B ratio and treating obesity and IBD are from the genus Lactobacillus. In this paper, we review the effects of probiotics on the F/B ratio that lead to weight loss or immunosuppression. -
Genomics 98 (2011) 370–375
Genomics 98 (2011) 370–375 Contents lists available at ScienceDirect Genomics journal homepage: www.elsevier.com/locate/ygeno Whole-genome comparison clarifies close phylogenetic relationships between the phyla Dictyoglomi and Thermotogae Hiromi Nishida a,⁎, Teruhiko Beppu b, Kenji Ueda b a Agricultural Bioinformatics Research Unit, Graduate School of Agricultural and Life Sciences, University of Tokyo, 1-1-1 Yayoi, Bunkyo-ku, Tokyo 113-8657, Japan b Life Science Research Center, College of Bioresource Sciences, Nihon University, Fujisawa, Japan article info abstract Article history: The anaerobic thermophilic bacterial genus Dictyoglomus is characterized by the ability to produce useful Received 2 June 2011 enzymes such as amylase, mannanase, and xylanase. Despite the significance, the phylogenetic position of Accepted 1 August 2011 Dictyoglomus has not yet been clarified, since it exhibits ambiguous phylogenetic positions in a single gene Available online 7 August 2011 sequence comparison-based analysis. The number of substitutions at the diverging point of Dictyoglomus is insufficient to show the relationships in a single gene comparison-based analysis. Hence, we studied its Keywords: evolutionary trait based on whole-genome comparison. Both gene content and orthologous protein sequence Whole-genome comparison Dictyoglomus comparisons indicated that Dictyoglomus is most closely related to the phylum Thermotogae and it forms a Bacterial systematics monophyletic group with Coprothermobacter proteolyticus (a constituent of the phylum Firmicutes) and Coprothermobacter proteolyticus Thermotogae. Our findings indicate that C. proteolyticus does not belong to the phylum Firmicutes and that the Thermotogae phylum Dictyoglomi is not closely related to either the phylum Firmicutes or Synergistetes but to the phylum Thermotogae. © 2011 Elsevier Inc. -
Pathological and Therapeutic Approach to Endotoxin-Secreting Bacteria Involved in Periodontal Disease
toxins Review Pathological and Therapeutic Approach to Endotoxin-Secreting Bacteria Involved in Periodontal Disease Rosalia Marcano 1, M. Ángeles Rojo 2 , Damián Cordoba-Diaz 3 and Manuel Garrosa 1,* 1 Department of Cell Biology, Histology and Pharmacology, Faculty of Medicine and INCYL, University of Valladolid, 47005 Valladolid, Spain; [email protected] 2 Area of Experimental Sciences, Miguel de Cervantes European University, 47012 Valladolid, Spain; [email protected] 3 Area of Pharmaceutics and Food Technology, Faculty of Pharmacy, and IUFI, Complutense University of Madrid, 28040 Madrid, Spain; [email protected] * Correspondence: [email protected] Abstract: It is widely recognized that periodontal disease is an inflammatory entity of infectious origin, in which the immune activation of the host leads to the destruction of the supporting tissues of the tooth. Periodontal pathogenic bacteria like Porphyromonas gingivalis, that belongs to the complex net of oral microflora, exhibits a toxicogenic potential by releasing endotoxins, which are the lipopolysaccharide component (LPS) available in the outer cell wall of Gram-negative bacteria. Endotoxins are released into the tissues causing damage after the cell is lysed. There are three well-defined regions in the LPS: one of them, the lipid A, has a lipidic nature, and the other two, the Core and the O-antigen, have a glycosidic nature, all of them with independent and synergistic functions. Lipid A is the “bioactive center” of LPS, responsible for its toxicity, and shows great variability along bacteria. In general, endotoxins have specific receptors at the cells, causing a wide immunoinflammatory response by inducing the release of pro-inflammatory cytokines and the production of matrix metalloproteinases. -
The Role of Porphyromonas Gingivalis Virulence Factors in Periodontitis Immunopathogenesis
The Role of Porphyromonas gingivalis Virulence Factors in Periodontitis Immunopathogenesis (Peran Faktor Virulensi Porphyromonas Gingivalis pada Imunopatogenesis Periodontitis) Tienneke Riana Septiwidyati, Endang Winiati Bachtiar Department of Oral Biology, Faculty of Dentistry, Universitas Indonesia, Jakarta, Indonesia, Email: [email protected] Abstract Porphyromonas gingivalis is an anaerobic Gram-negative bacteria, often associated with the pathogenesis of periodontitis. Periodontitis is a chronic inflammation characterized by damage to the supporting tissues of the tooth. Porphyromonas gingivalis locally can invade periodontal tissue and avoid host defence mechanisms. Porphyromonas gingivalis have virulence factors that can interfere with host immune response and cause inflammation at host tissue. The aim of this article is to provide an overview of the role of Porphyromonas gingivalis virulence factors such as capsules, fimbriae, lipopolysaccharides, and gingipain in the pathogenesis of periodontitis. The data sources were taken from PubMed and Google Scholar within 10 years. The role of Porphyromonas gingivalis capsule is to suppress the host's immune response to bacteria by reducing phagocytosis so the bacteria can survive. The roles of Porphyromonas gingivalis fimbriaeare to facilitate adhesion and invasion of bacteria to host cells so the damage will occur in the periodontal tissue. One of the roles of Porphyromoas gingivalis lipopolysaccharide is to disrupt the host immune system by disrupting the distribution of leukocytes around bacterial colonization so the bacteria can survive. The role of the Porphyromonas gingivalis gingipain is to suppress inflammatory cytokines thereby reducing the host's response by manipulating the complement system and disrupting the response of T cells. Porphyromonas gingivalis expresses several virulence factors involved in the colonization of subgingival plaque, modulates the immune response of host cells, and damages the host tissue directly so it can cause periodontitis. -
Yu-Chen Ling and John W. Moreau
Microbial Distribution and Activity in a Coastal Acid Sulfate Soil System Introduction: Bioremediation in Yu-Chen Ling and John W. Moreau coastal acid sulfate soil systems Method A Coastal acid sulfate soil (CASS) systems were School of Earth Sciences, University of Melbourne, Melbourne, VIC 3010, Australia formed when people drained the coastal area Microbial distribution controlled by environmental parameters Microbial activity showed two patterns exposing the soil to the air. Drainage makes iron Microbial structures can be grouped into three zones based on the highest similarity between samples (Fig. 4). Abundant populations, such as Deltaproteobacteria, kept constant activity across tidal cycling, whereas rare sulfides oxidize and release acidity to the These three zones were consistent with their geological background (Fig. 5). Zone 1: Organic horizon, had the populations changed activity response to environmental variations. Activity = cDNA/DNA environment, low pH pore water further dissolved lowest pH value. Zone 2: surface tidal zone, was influenced the most by tidal activity. Zone 3: Sulfuric zone, Abundant populations: the heavy metals. The acidity and toxic metals then Method A Deltaproteobacteria Deltaproteobacteria this area got neutralized the most. contaminate coastal and nearby ecosystems and Method B 1.5 cause environmental problems, such as fish kills, 1.5 decreased rice yields, release of greenhouse gases, Chloroflexi and construction damage. In Australia, there is Gammaproteobacteria Gammaproteobacteria about a $10 billion “legacy” from acid sulfate soils, Chloroflexi even though Australia is only occupied by around 1.0 1.0 Cyanobacteria,@ Acidobacteria Acidobacteria Alphaproteobacteria 18% of the global acid sulfate soils. Chloroplast Zetaproteobacteria Rare populations: Alphaproteobacteria Method A log(RNA(%)+1) Zetaproteobacteria log(RNA(%)+1) Method C Method B 0.5 0.5 Cyanobacteria,@ Bacteroidetes Chloroplast Firmicutes Firmicutes Bacteroidetes Planctomycetes Planctomycetes Ac8nobacteria Fig. -
Chapter 11 – PROKARYOTES: Survey of the Bacteria & Archaea
Chapter 11 – PROKARYOTES: Survey of the Bacteria & Archaea 1. The Bacteria 2. The Archaea Important Metabolic Terms Oxygen tolerance/usage: aerobic – requires or can use oxygen (O2) anaerobic – does not require or cannot tolerate O2 Energy usage: autotroph – uses CO2 as a carbon source • photoautotroph – uses light as an energy source • chemoautotroph – gets energy from inorganic mol. heterotroph – requires an organic carbon source • chemoheterotroph – gets energy & carbon from organic molecules …more Important Terms Facultative vs Obligate: facultative – “able to, but not requiring” e.g. • facultative anaerobes – can survive w/ or w/o O2 obligate – “absolutely requires” e.g. • obligate anaerobes – cannot tolerate O2 • obligate intracellular parasite – can only survive within a host cell The 2 Prokaryotic Domains Overview of the Bacterial Domain We will look at examples from several bacterial phyla grouped largely based on rRNA (ribotyping): Gram+ bacteria • Firmicutes (low G+C), Actinobacteria (high G+C) Proteobacteria (Gram- heterotrophs mainly) Gram- nonproteobacteria (photoautotrophs) Chlamydiae (no peptidoglycan in cell walls) Spirochaetes (coiled due to axial filaments) Bacteroides (mostly anaerobic) 1. The Gram+ Bacteria Gram+ Bacteria The Gram+ bacteria are found in 2 different phyla: Firmicutes • low G+C content (usually less than 50%) • many common pathogens Actinobacteria • high G+C content (greater than 50%) • characterized by branching filaments Firmicutes Characteristics associated with this phylum: • low G+C Gram+ bacteria -
Longitudinal Characterization of the Gut Bacterial and Fungal Communities in Yaks
Journal of Fungi Article Longitudinal Characterization of the Gut Bacterial and Fungal Communities in Yaks Yaping Wang 1,2,3, Yuhang Fu 3, Yuanyuan He 3, Muhammad Fakhar-e-Alam Kulyar 3 , Mudassar Iqbal 3,4, Kun Li 1,2,* and Jiaguo Liu 1,2,* 1 Institute of Traditional Chinese Veterinary Medicine, College of Veterinary Medicine, Nanjing Agricultural University, Nanjing 210095, China; [email protected] 2 MOE Joint International Research Laboratory of Animal Health and Food Safety, College of Veterinary Medicine, Nanjing Agricultural University, Nanjing 210095, China 3 College of Veterinary Medicine, Huazhong Agricultural University, Wuhan 430070, China; [email protected] (Y.F.); [email protected] (Y.H.); [email protected] (M.F.-e.-A.K.); [email protected] (M.I.) 4 Faculty of Veterinary and Animal Sciences, The Islamia University of Bahawalpur, Bahawalpur 63100, Pakistan * Correspondence: [email protected] (K.L.); [email protected] (J.L.) Abstract: Development phases are important in maturing immune systems, intestinal functions, and metabolism for the construction, structure, and diversity of microbiome in the intestine during the entire life. Characterizing the gut microbiota colonization and succession based on age-dependent effects might be crucial if a microbiota-based therapeutic or disease prevention strategy is adopted. The purpose of this study was to reveal the dynamic distribution of intestinal bacterial and fungal communities across all development stages in yaks. Dynamic changes (a substantial difference) in the structure and composition ratio of the microbial community were observed in yaks that Citation: Wang, Y.; Fu, Y.; He, Y.; matched the natural aging process from juvenile to natural aging. -
Supplementary Information For
1 2 Supplementary Information for 3 Quantifying the impact of treatment history on plasmid-mediated resistance evolution in 4 human gut microbiota 5 Burcu Tepekule, Pia Abel zur Wiesch, Roger Kouyos, Sebastian Bonhoeffer 6 Burcu Tepekule. 7 E-mail: [email protected] 8 This PDF file includes: 9 Figs. S1 to S6 10 Tables S1 to S2 11 References for SI reference citations Burcu Tepekule, Pia Abel zur Wiesch, Roger Kouyos, Sebastian Bonhoeffer 1 of 11 www.pnas.org/cgi/doi/10.1073/pnas.1912188116 12 Model parameters 13 The obtained growth rates are all positive, and consistent with the underlying biological assumptions, as well as the reported 14 growth rates in (1). Values obtained for interaction terms are all negative except one inter-phyla interaction term, which is 15 positive but small in magnitude. Hence, our numerical estimations for the interaction terms are dominated by competition, 16 which is shown to improve gut microbiome stability and permit high diversity of species to coexist (2). Statistics on the 17 parameter estimates are provided in Table S1 and Figures S1 and S2. Figure S1 shows that the phylum Firmicutes and 18 Actinobacteria do not affect the abundances of Proteobacteria and Bacteroidetes strongly due to their low inter-phyla interaction 19 rates. From the perspective of resistance evolution modeling, this indicates that the model can be reduced to two phyla 20 including Proteobacteria and Bacteroidetes, since they are the only two phyla with the resistant variants. Dynamics of this 21 reduced model are presented in Figure S3, where three random treatment courses are applied on the 4-phyla (full) and 2-phyla 22 (reduced) models, and very similar results are observed. -
Cigarette Smoke Promotes Genomic Evolution in the Periodontal Pathogen Porphyromonas Gingivalis
University of Louisville ThinkIR: The University of Louisville's Institutional Repository Electronic Theses and Dissertations 5-2013 Cigarette smoke promotes genomic evolution in the periodontal pathogen Porphyromonas gingivalis. Josh George University of Louisville Follow this and additional works at: https://ir.library.louisville.edu/etd Recommended Citation George, Josh, "Cigarette smoke promotes genomic evolution in the periodontal pathogen Porphyromonas gingivalis." (2013). Electronic Theses and Dissertations. Paper 486. https://doi.org/10.18297/etd/486 This Master's Thesis is brought to you for free and open access by ThinkIR: The University of Louisville's Institutional Repository. It has been accepted for inclusion in Electronic Theses and Dissertations by an authorized administrator of ThinkIR: The University of Louisville's Institutional Repository. This title appears here courtesy of the author, who has retained all other copyrights. For more information, please contact [email protected]. CIGARETTE SMOKE PROMOTES GENOMIC EVOLUTION IN THE PERIODONTAL PATHOGEN PORPHYROMONAS GINGIVALIS by JOSH GEORGE B.S. Biology A Thesis Submitted to the Faculty of the School of Dentistry of the University of Louisville In Partial Fulfillment of the Requirements For the Degree of Master of Science Oral Biology University of Louisville Louisville, Kentucky May 2013 CIGARETTE SMOKE PROMOTES GENOMIC EVOLUTION IN THE PERIODONTAL PATHOGEN PORPHYROMONAS GINGIVALIS by JOSH GEORGE B.S. Biology A Thesis Approved on April 26, 2013 By the following Thesis Committee: ________________________________________________________ David Scott Ph.D. – Mentor/Director _______________________________________________________ Ted Kalbfleisch Ph.D. – Committee Member _______________________________________________________ Jan Potempa Ph.D. – Committee Member _______________________________________________________ Don Demuth Ph.D. – Committee Member ii ACKNOWLEDGMENTS I would like to thank Dr. -
Levels of Firmicutes, Actinobacteria Phyla and Lactobacillaceae
agriculture Article Levels of Firmicutes, Actinobacteria Phyla and Lactobacillaceae Family on the Skin Surface of Broiler Chickens (Ross 308) Depending on the Nutritional Supplement and the Housing Conditions Paulina Cholewi ´nska 1,* , Marta Michalak 2, Konrad Wojnarowski 1 , Szymon Skowera 1, Jakub Smoli ´nski 1 and Katarzyna Czyz˙ 1 1 Institute of Animal Breeding, Wroclaw University of Environmental and Life Sciences, 51-630 Wroclaw, Poland; [email protected] (K.W.); [email protected] (S.S.); [email protected] (J.S.); [email protected] (K.C.) 2 Department of Animal Nutrition and Feed Management, Wroclaw University of Environmental and Life Sciences, 51-630 Wroclaw, Poland; [email protected] * Correspondence: [email protected] Abstract: The microbiome of animals, both in the digestive tract and in the skin, plays an important role in protecting the host. The skin is one of the largest surface organs for animals; therefore, the destabilization of the microbiota on its surface can increase the risk of diseases that may adversely af- fect animals’ health and production rates, including poultry. The aim of this study was to evaluate the Citation: Cholewi´nska,P.; Michalak, effect of nutritional supplementation in the form of fermented rapeseed meal and housing conditions M.; Wojnarowski, K.; Skowera, S.; on the level of selected bacteria phyla (Firmicutes, Actinobacteria, and family Lactobacillaceae). The Smoli´nski,J.; Czyz,˙ K. Levels of study was performed on 30 specimens of broiler chickens (Ross 308), individually kept in metabolic Firmicutes, Actinobacteria Phyla and cages for 36 days. They were divided into 5 groups depending on the feed received. -
Responses of Bacterial Community, Root-Soil Interaction and Tomato Yield to Different Practices in Subsurface Drip Irrigation
sustainability Article Responses of Bacterial Community, Root-Soil Interaction and Tomato Yield to Different Practices in Subsurface Drip Irrigation Jingwei Wang 1,2,* , Yuan Li 3 and Wenquan Niu 2,3,* 1 College of Resources and Environment, Shanxi University of Finance and Economics, Taiyuan 030006, China 2 Institute of Soil and Water Conservation, Northwest A&F University, Yangling 712100, China 3 Institute of Soil and Water Conservation, CAS & MWR, Yangling 712100, China; [email protected] * Correspondence: [email protected] (J.W.); [email protected] (W.N.) Received: 14 January 2020; Accepted: 11 March 2020; Published: 17 March 2020 Abstract: The objective of this study was to reveal the regulatory mechanisms underlying the soil bacterial community of subsurface drip irrigation (SDI). The effect of different buried depths of drip tape (0, 10, 20, 30 cm) on the soil bacterial community in a tomato root-zone was investigated using high-throughput technology. Furthermore, the mutual effects of root growth, tomato yield and soil bacterial community were also analyzed to explore the response of root-soil interaction to the buried depth of drip tape. The results indicated that SDI (i.e., 10, 20 and 30 cm buried depths of drip tape) changed the soil bacterial community structure compared to surface drip irrigation (a 0 cm buried depth of drip tape). SDI with a 10 cm buried depth of drip tape significantly reduced the relative abundances of Proteobacteria, Chloroflexi, Gemmatimonadetes, Acidobacteria, Firmicutes and Planctomycetes, but significantly increased the relative abundances of Actinobacteria, Candidate_division_TM7 and Bacteroidetes. SDI of 20 and 30 cm buried depth significantly decreased the relative abundances of Roteobacteri, Actinobacteria and Planctomycetes, however, increased the relative abundances of Chloroflexi, Gemmatimonadetes, Acidobacteria, Firmicutes, Candidate_division_TM7 and especially some trace bacteria (for example Nitrospirae). -
Prevotella Intermedia
The principles of identification of oral anaerobic pathogens Dr. Edit Urbán © by author Department of Clinical Microbiology, Faculty of Medicine ESCMID Online University of Lecture Szeged, Hungary Library Oral Microbiological Ecology Portrait of Antonie van Leeuwenhoek (1632–1723) by Jan Verkolje Leeuwenhook in 1683-realized, that the film accumulated on the surface of the teeth contained diverse structural elements: bacteria Several hundred of different© bacteria,by author fungi and protozoans can live in the oral cavity When these organisms adhere to some surface they form an organizedESCMID mass called Online dental plaque Lecture or biofilm Library © by author ESCMID Online Lecture Library Gram-negative anaerobes Non-motile rods: Motile rods: Bacteriodaceae Selenomonas Prevotella Wolinella/Campylobacter Porphyromonas Treponema Bacteroides Mitsuokella Cocci: Veillonella Fusobacterium Leptotrichia © byCapnophyles: author Haemophilus A. actinomycetemcomitans ESCMID Online C. hominis, Lecture Eikenella Library Capnocytophaga Gram-positive anaerobes Rods: Cocci: Actinomyces Stomatococcus Propionibacterium Gemella Lactobacillus Peptostreptococcus Bifidobacterium Eubacterium Clostridium © by author Facultative: Streptococcus Rothia dentocariosa Micrococcus ESCMIDCorynebacterium Online LectureStaphylococcus Library © by author ESCMID Online Lecture Library Microbiology of periodontal disease The periodontium consist of gingiva, periodontial ligament, root cementerum and alveolar bone Bacteria cause virtually all forms of inflammatory