The Oral Microbiome: Critical for Understanding Oral Health and Disease an Introduction to the Issue

Total Page:16

File Type:pdf, Size:1020Kb

The Oral Microbiome: Critical for Understanding Oral Health and Disease an Introduction to the Issue July 2016 Ancient Dental Calculus Subgingival Microbiome Shifts Caries Pathology Uncultivated Oral Bacteria JournaCALIFORNIA DENTAL ASSOCIATION THE ORAL MMICROBIOME:ICROBIOME: Critical for Understanding Oral Health and Disease Floyd E. Dewhirst, DDS, PhD You are not a statistic. You are also not a sales goal or a market segment. You are a dentist. And we are The Dentists Insurance Company, TDIC. It’s been 35 years since a small group of dentists founded our company. And, while times may have changed, our promises remain the same: to only protect dentists, to protect them better than any other insurance company and to be there when they need us. At TDIC, we look forward to delivering on these promises as we innovate and grow. ® Protecting dentists. It’s all we do. 800.733.0633 | tdicinsurance.com | CA Insurance Lic. #0652783 July 2016 CDA JOURNAL, VOL 44, Nº7 DEPARTMENTS 397 The Editor/Dentistry as an Endurance Sport 399 Letters 401 Impressions 459 RM Matters/Preservation of Property: A Critical Obligation 463 Regulatory Compliance/A Patient’s Right to Access Records Q-and-A 401401 467 Ethics/Undertreatment, an Ethical Issue 469 Tech Trends 472 Dr. Bob/A Dentist’s Guide to Fitness FEATURES 409 The Oral Microbiome: Critical for Understanding Oral Health and Disease An introduction to the issue. Floyd E. Dewhirst, DDS, PhD 411 Dental Calculus and the Evolution of the Human Oral Microbiome This article reviews recent advancements in ancient dental calculus research and emerging insights into the evolution and ecology of the human oral microbiome. Christina Warinner, PhD 421 Subgingival Microbiome Shifts and Community Dynamics in Periodontal Diseases This article describes shifts in the subgingival microbiome in periodontal diseases. Patricia I. Diaz, DDS, PhD; Anilei Hoare, PhD; and Bo-Young Hong, PhD 437 Understanding Caries From the Oral Microbiome Perspective This article discusses how microbiological cultivation, molecular identification, gene expression and metabolomic analyses show the importance of the entire microbial community in understanding the role of the microbiome in the pathology of caries. Anne C.R. Tanner, BDS, PhD; Christine A. Kressirer, PhD; and Lina L. Faller, PhD 447 Uncultured Members of the Oral Microbiome The aim of this review is to list the uncultivated members of the oral microbiome, discuss the reasons why some bacteria are difficult to culture in vitro and describe recent advances in culturing previously uncultivated oral bacteria. William Wade, BSc, PhD; Hayley Thompson, BSc, PhD; Alexandra Rybalka, BSc, PhD; and Sonia Vartoukian, BDS, FDS, PhD JULY 2016 395 CDA JOURNAL, VOL 44, Nº7 Volume 44, Number 7 JournaCALIFORNIA DENTAL ASSOCIATION July 2016 CDA Classifieds. Free postings. published by the Editorial Upcoming Topics Letters to the Editor California Kerry K. Carney, DDS, CDE August/Student Research www.editorialmanager. EDITOR-IN-CHIEF Priceless results. Dental Association September/Pathology com/jcaldentassoc 1201 K St., 14th Floor [email protected] October/Sugar Sacramento, CA 95814 Ruchi K. Sahota, DDS, CDE Subscriptions 800.232.7645 ASSOCIATE EDITOR Subscriptions are available cda.org Advertising only to active members of Brian K. Shue, DDS, CDE Doug Brown the Association. The ADVERTISING SALES CDA Offi cers ASSOCIATE EDITOR subscription rate is $18 and [email protected] is included in membership Kenneth G. Wallis, DDS 916.554.7312 PRESIDENT Floyd E. Dewhirst, DDS, PhD dues. Nonmembers can GUEST EDITOR [email protected] view the publication online Permission and at cda.org/journal. Clelan G. Ehrler, DDS Andrea LaMattina Reprints PRESIDENT-ELECT SENIOR PUBLICATIONS Manage your subscription SPECIALIST Andrea LaMattina online: go to cda.org, log in [email protected] SENIOR PUBLICATIONS and update any changes to SPECIALIST Blake Ellington your mailing information. Natasha A. Lee, DDS [email protected] VICE PRESIDENT TECH TRENDS EDITOR Email questions or other 916.554.5950 [email protected] changes to membership@ Courtney Grant cda.org. COMMUNICATIONS R. Del Brunner, DDS Manuscript SPECIALIST SECRETARY Submissions [email protected] Jack F. Conley, DDS www.editorialmanager. EDITOR EMERITUS com/jcaldentassoc Kevin M. Keating, DDS, MS TREASURER [email protected] Robert E. Horseman, DDS CDA classifiedsclassifieds workwork harder to HUMORIST EMERITUS Stay Connected cda.org/journal bbringring you resuresults.lts. SeSellinglling a practice Craig S. Yarborough, DDS, MBA Production or a piece ooff equipment? Now you SPEAKER OF THE HOUSE [email protected] Val B. Mina can include photos to help buyers SENIOR GRAPHIC DESIGNER Walter G. Weber, DDS Go Digital cda.org/apps see the potential. IMMEDIATE PAST PRESIDENT Randi Taylor SENIOR GRAPHIC DESIGNER Look for this symbol, noting additional video [email protected] content in the ePub version of the Journal. And if you’re hiring, candidates anywhere can apply right from Management Peter A. DuBois the site. Looking for a job? You can EXECUTIVE DIRECTOR Journal of the California Dental Association (ISSN 1043–2256) is published monthly by the post that, too. And the best part— Jennifer George California Dental Association, 1201 K St., 14th Floor, Sacramento, CA 95814, 916.554.5950. it’s free to all CDA members. CHIEF MARKETING OFFICER Periodicals postage paid at Sacramento, Calif. Postmaster: Send address changes to Journal of the California Dental Association, P.O. Box 13749, Sacramento, CA 95853. Cathy Mudge The California Dental Association holds the copyright for all articles and artwork published All of these features are designed to VICE PRESIDENT herein. The Journal of the California Dental Association is published under the supervision of PUBLIC AFFAIRS help you get the results you need, CDA’s editorial staff . Neither the editorial staff , the editor, nor the association are responsible for any expression of opinion or statement of fact, all of which are published solely on the authority faster than ever. Check it out for Alicia Malaby of the author whose name is indicated. The association reserves the right to illustrate, reduce, COMMUNICATIONS revise or reject any manuscript submitted. Articles are considered for publication on condition yourself at cda.org/classifieds. DIRECTOR that they are contributed solely to the Journal. Copyright 2016 by the California Dental Association. All rights reserved. 396 JULY 2016 Editor CDA JOURNAL, VOL 44, Nº7 Dentistry as an Endurance Sport Kerry K. Carney, DDS, CDE hat if we thought of our professional lives as an endurance sport When I was in dental school, one of our instead of a business clinical instructors advised us to never run our career? What if the Wgoal was to stay mentally and physically practices continuously at 80 miles an hour. strong and healthy? What if our primary driver was to remain happy and to continue to enjoy helping our patients achieve and maintain oral health over the decades that veins, now it is hemorrhoids. We all have nutritional guidelines for dentist athletes? span the course of a career in dentistry? taken ergonomic classes that reinforce Maybe we should have spent some time Many practice management courses the need for good posture and healthy studying what we should be eating. What spend a lot of time trying various strategies body mechanics. However, it only takes individualized diet would provide us the to maximize production: the shortest the restoration of the distal aspect of appropriate quantity and quality of calories possible time to return on investment, an upper third molar in a patient with for our level of activity? When should we the most effi cient scheduling to meet restricted opening to know that the dentist be eating and what should we be eating production goals, the minimizing of will assume whatever contorted position to stay alert and relaxed? Caffeinated nonproductive downtime. If the offi ce is necessary to complete the procedure. afternoon pick-me-ups are probably not be open, it should be producing at maximal We buy the aids: head-mounted the best answer for endurance training. potential. Time is money and overhead is lights, stools with armrests and loupes Every sport has a psychological high, so increasing speed and profi ciency for improved vision, but if dentistry aspect. Psychology for the dentist athlete is an obvious goal in order to achieve is an endurance sport, we need to be is complicated. The dentist needs the success. If monetary success is the measure thinking about how to help the body ability to focus on the fi ne motor skills then we run, run, run (or, as my husband strengthen the muscles that are not for performing surgical and therapeutic likes to say, “Work, work only!”). engaged in that habitual position. We interventions but everyday dentistry When I was in dental school, one of need to learn how to stretch and lengthen requires a lot more than that. The dentist our clinical instructors advised us to never those muscles that are always fl exed in needs the kind of team training to be run our practices continuously at 80 miles the dentist’s habitual work position. able to work smoothly and effi ciently an hour. He said we would need to be able In dental school, we spend a lot of with offi ce staff and colleagues. to accelerate our speed when necessary time on head and neck anatomy, but As dentist athletes, we have the added but we needed to maintain a sustainable recently I have had to spend a lot of complication of patient interaction to pace, one that would not wear us out. I time understanding the workings of the consider in our mental training. In order to was reminded of that advice when I was muscles of the back, legs and body core. be able to endure and be happy, we have doing some physical therapy recently. I have learned that the health of the to learn how to compartmentalize some For a career in dentistry to be psoas muscle is critical in those who, like aspects of our interactions with patients experienced as an endurance sport, we dentists, sit for a living.
Recommended publications
  • Assessment of Efficacy of Chlorhexidine Chip As an Adjunct to Scaling and Root Planning Using N-Benzoyl- DL-Arginine-2-Naphthylamide Test Kit
    View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by Asian Pacific Journal of Health Sciences e-ISSN: 2349-0659 p-ISSN: 2350-0964 ORGINAL ARTICLE doi: 10.21276/apjhs.2018.5.2.21 Assessment of efficacy of chlorhexidine chip as an adjunct to scaling and root planning using N-benzoyl- DL-arginine-2-naphthylamide test kit Malvika Singh*, Rajan Gupta, Parveen Dahiya, Mukesh Kumar, Rohit Bhardwaj Department of Periodontics, Himachal Institute of Dental Sciences, Paonta Sahib, Sirmaur, Himachal Pradesh, India ABSTRACT Background: With increasing advances in the field of medicine, diagnosing a disease has been an easy task and periodontitis is no exception to this. N-benzoyl-DL-arginine-2-naphthylamide (BANA) test is a modern chair-side paraclinical method designed to detect the presence of one or more anaerobic bacteria commonly associated with periodontal disease, namely Treponema denticola, Porphyromonas gingivalis, and Tannerella forsythia in subgingival plaque samples taken from periodontally diseased teeth. Aim: The aim of the study was to assess the efficacy of chlorhexidine chip as an adjunct to scaling and root planning (SRP), using BANA Test Kit. Materials and Methods: A total of 20 chronic periodontitis patients (aged 35–55 years) having pocket depth of ≥5 mm in molar teeth were selected and randomly divided into following treatment groups: Group I: SRP and Group II: SRP along with chlorhexidine chip. The clinical and microbial parameters were recorded at baseline and 1 and 3 months post-treatment. BANA chairside test was used for estimation of specific microbiota. Statistical analysis used: Mann–Whitney test, Wilcoxon signed test, t-test, Pearson’s Chi-square test, and variability test were used.
    [Show full text]
  • Microbial Biogeography and Ecology of the Mouth and Implications for Periodontal
    bioRxiv preprint doi: https://doi.org/10.1101/541052; this version posted February 8, 2019. The copyright holder for this preprint (which was not certified by peer review) is the author/funder. This article is a US Government work. It is not subject to copyright under 17 USC 105 and is also made available for use under a CC0 license. Microbial biogeography and ecology of the mouth and implications for periodontal diseases Authors: Diana M. Proctor1,2,10, Katie M. Shelef3,10, Antonio Gonzalez4, Clara L. Davis Long5, Les Dethlefsen1, Adam Burns1, Peter M. Loomer6, Gary C. Armitage7, Mark I. Ryder7, Meredith E. Millman7, Rob Knight4, Susan P. Holmes8, David A. Relman1,5,9 Affiliations 1Division of Infectious Disease & Geographic Medicine, Department of Medicine, Stanford University School of Medicine, Stanford, CA 94305 USA 2National Human Genome Research Institute, National Institutes of Health, Bethesda, MD 20892 USA 3Department of Biology, Stanford University School of Medicine, Stanford, CA 94305 USA 4Departments of Pediatrics and Computer Science and Engineering, University of California at San Diego, La Jolla, CA 92093 USA 5Department of Microbiology & Immunology, Stanford University School of Medicine, Stanford, CA 94305 USA 6Ashman Department of Periodontology & Implant Dentistry, New York University College of Dentistry, New York, NY 10010 USA 7Division of Periodontology, University of California, San Francisco School of Dentistry, San Francisco, CA 94143 USA 8Department of Statistics, Stanford University, Stanford, CA 94305 USA 9Veterans Affairs Palo Alto Health Care System, Palo Alto, CA 94304 USA 10These authors contributed equally Corresponding author: David A. Relman: [email protected]; Address: Encina E209, 616 Serra Street, Stanford, California 94305-6165; Phone: 650-736-6822; Fax: 650-852-3291 1 bioRxiv preprint doi: https://doi.org/10.1101/541052; this version posted February 8, 2019.
    [Show full text]
  • Probiotic Alternative to Chlorhexidine in Periodontal Therapy: Evaluation of Clinical and Microbiological Parameters
    microorganisms Article Probiotic Alternative to Chlorhexidine in Periodontal Therapy: Evaluation of Clinical and Microbiological Parameters Andrea Butera , Simone Gallo * , Carolina Maiorani, Domenico Molino, Alessandro Chiesa, Camilla Preda, Francesca Esposito and Andrea Scribante * Section of Dentistry–Department of Clinical, Surgical, Diagnostic and Paediatric Sciences, University of Pavia, 27100 Pavia, Italy; [email protected] (A.B.); [email protected] (C.M.); [email protected] (D.M.); [email protected] (A.C.); [email protected] (C.P.); [email protected] (F.E.) * Correspondence: [email protected] (S.G.); [email protected] (A.S.) Abstract: Periodontitis consists of a progressive destruction of tooth-supporting tissues. Considering that probiotics are being proposed as a support to the gold standard treatment Scaling-and-Root- Planing (SRP), this study aims to assess two new formulations (toothpaste and chewing-gum). 60 patients were randomly assigned to three domiciliary hygiene treatments: Group 1 (SRP + chlorhexidine-based toothpaste) (control), Group 2 (SRP + probiotics-based toothpaste) and Group 3 (SRP + probiotics-based toothpaste + probiotics-based chewing-gum). At baseline (T0) and after 3 and 6 months (T1–T2), periodontal clinical parameters were recorded, along with microbiological ones by means of a commercial kit. As to the former, no significant differences were shown at T1 or T2, neither in controls for any index, nor in the experimental
    [Show full text]
  • Isolation and Identification of Oral Bacteria and Characterization for Bacteriocin Production and Antimicrobial Sensitivity
    Isolation and Identification of Oral Bacteria and Characterization for Bacteriocin Production and Antimicrobial Sensitivity Monzilur Rahman1, Md. Nahidul Islam1, Muhammad Nurul Islam2 and Mohammad Shahnoor Hossain1 1Department of Genetic Engineering & Biotechnology, University of Dhaka, Dhaka-1000, Bangladesh 2Department of Botany, University of Dhaka, Dhaka-1000, Bangladesh Received: May 10, 2015; Accepted: June 03, 2015; Published (web): June 15, 2015 ABSTRACT: Oral bacteria play an important role in body homeostasis and the bacterial genus Streptococcus is the dominant microflora commonly found in oral bacterial community. Their ability to establish biofilm lifestyle in the oral cavity by outcompeting other bacteria has been attributed to the production of bacteriocin along with other strategies. The goal of the present study was to isolate and identify oral bacteria and characterize their ability to produce bacteriocin against other oral bacteria as well as their sensitivity to common antibiotics. We have employed deferred antagonism bacteriocin assay for bacteriocin production and disk diffusion assay for antibiotic susceptibility testing. We identified eight bacterial strains belonging to the genera Streptococcus and Enterococcus based on colony morphology, biochemical assays, 16S rDNA sequence analysis, and species-specific PCR. Antibiotic susceptibility assay indicated that some of the strains are resistant to one or more antibiotics. Our study also revealed that the isolated strains are capable of producing one or more bacteriocins
    [Show full text]
  • James A. Mccloskey, Jr
    CHEMICAL HERITAGE FOUNDATION JAMES A. MCCLOSKEY, JR. Transcript of Interviews Conducted by Michael A. Grayson at the McCloskeys’ Home Helotes, Texas on 19 and 20 March 2012 (With Subsequent Corrections and Additions) James A. McCloskey, Jr. ACKNOWLEDGMENT This oral history is one in a series initiated by the Chemical Heritage Foundation on behalf of the American Society for Mass Spectrometry. The series documents the personal perspectives of individuals related to the advancement of mass spectrometric instrumentation, and records the human dimensions of the growth of mass spectrometry in academic, industrial, and governmental laboratories during the twentieth century. This project is made possible through the generous support of the American Society for Mass Spectrometry. This oral history is designated Free Access. Please note: Users citing this interview for purposes of publication are obliged under the terms of the Chemical Heritage Foundation (CHF) Center for Oral History to credit CHF using the format below: James A. McCloskey, Jr., interview by Michael A. Grayson at the McCloskeys’ home, Helotes, Texas, 19-20 March 2012 (Philadelphia: Chemical Heritage Foundation, Oral History Transcript # 0702). Chemical Heritage Foundation Center for Oral History 315 Chestnut Street Philadelphia, Pennsylvania 19106 The Chemical Heritage Foundation (CHF) serves the community of the chemical and molecular sciences, and the wider public, by treasuring the past, educating the present, and inspiring the future. CHF maintains a world-class collection of materials that document the history and heritage of the chemical and molecular sciences, technologies, and industries; encourages research in CHF collections; and carries out a program of outreach and interpretation in order to advance an understanding of the role of the chemical and molecular sciences, technologies, and industries in shaping society.
    [Show full text]
  • [Japan] SALA GIOCHI ARCADE 1000 Miglia
    SCHEDA NEW PLATINUM PI4 EDITION La seguente lista elenca la maggior parte dei titoli emulati dalla scheda NEW PLATINUM Pi4 (20.000). - I giochi per computer (Amiga, Commodore, Pc, etc) richiedono una tastiera per computer e talvolta un mouse USB da collegare alla console (in quanto tali sistemi funzionavano con mouse e tastiera). - I giochi che richiedono spinner (es. Arkanoid), volanti (giochi di corse), pistole (es. Duck Hunt) potrebbero non essere controllabili con joystick, ma richiedono periferiche ad hoc, al momento non configurabili. - I giochi che richiedono controller analogici (Playstation, Nintendo 64, etc etc) potrebbero non essere controllabili con plance a levetta singola, ma richiedono, appunto, un joypad con analogici (venduto separatamente). - Questo elenco è relativo alla scheda NEW PLATINUM EDITION basata su Raspberry Pi4. - Gli emulatori di sistemi 3D (Playstation, Nintendo64, Dreamcast) e PC (Amiga, Commodore) sono presenti SOLO nella NEW PLATINUM Pi4 e non sulle versioni Pi3 Plus e Gold. - Gli emulatori Atomiswave, Sega Naomi (Virtua Tennis, Virtua Striker, etc.) sono presenti SOLO nelle schede Pi4. - La versione PLUS Pi3B+ emula solo 550 titoli ARCADE, generati casualmente al momento dell'acquisto e non modificabile. Ultimo aggiornamento 2 Settembre 2020 NOME GIOCO EMULATORE 005 SALA GIOCHI ARCADE 1 On 1 Government [Japan] SALA GIOCHI ARCADE 1000 Miglia: Great 1000 Miles Rally SALA GIOCHI ARCADE 10-Yard Fight SALA GIOCHI ARCADE 18 Holes Pro Golf SALA GIOCHI ARCADE 1941: Counter Attack SALA GIOCHI ARCADE 1942 SALA GIOCHI ARCADE 1943 Kai: Midway Kaisen SALA GIOCHI ARCADE 1943: The Battle of Midway [Europe] SALA GIOCHI ARCADE 1944 : The Loop Master [USA] SALA GIOCHI ARCADE 1945k III SALA GIOCHI ARCADE 19XX : The War Against Destiny [USA] SALA GIOCHI ARCADE 2 On 2 Open Ice Challenge SALA GIOCHI ARCADE 4-D Warriors SALA GIOCHI ARCADE 64th.
    [Show full text]
  • The Great-Grandmother of LUCA (Last Universal Common Ancestor)
    Preprints (www.preprints.org) | NOT PEER-REVIEWED | Posted: 4 June 2018 doi:10.20944/preprints201806.0035.v1 Be introduced to the First Universal Common Ancestor (FUCA): the great-grandmother of LUCA (Last Universal Common Ancestor) Francisco Prosdocimi1*, Marco V José2 and Sávio Torres de Farias3* 1 Laboratório de Biologia Teórica e de Sistemas, Instituto de Bioquímica Médica Leopoldo de Meis, Universidade Federal do Rio de Janeiro, Rio de Janeiro, Brasil. 2 Theoretical Biology Group, Instituto de Investigaciones Biomédicas, Universidad Nacional Autónoma de México, Ciudad Universitaria, 04510 CDMX, Mexico. 3 Laboratório de Genética Evolutiva Paulo Leminsk, Departamento de Biologia Molecular, Universidade Federal da Paraíba, João Pessoa, Paraíba, Brasil. * Correspondence: [email protected]; [email protected] Abstract The existence of a common ancestor to all living organisms in Earth is a necessary corollary of Darwin idea of common ancestry. The Last Universal Common Ancestor (LUCA) has been normally considered as the ancestor of cellular organisms that originated the three domains of life: Bacteria, Archaea and Eukarya. Recent studies about the nature of LUCA indicate that this first organism should present hundreds of genes and a complex metabolism. Trying to bring another of Darwin ideas into the origins of life discussion, we went back into the prebiotic chemistry trying to understand how LUCA could be originated 1 © 2018 by the author(s). Distributed under a Creative Commons CC BY license. Preprints (www.preprints.org) | NOT PEER-REVIEWED | Posted: 4 June 2018 doi:10.20944/preprints201806.0035.v1 under gradualist assumptions. Along this line of reasoning, it became clear to us that the definition of another ancestral should be of particular relevance to the understanding about the emergence of biological systems.
    [Show full text]
  • Beyond the Big Bang • the Amazon's Lost Civilizations • the Truth
    SFI Bulletin winter 2006, vol. 21 #1 Beyond the Big Bang • The Amazon’s Lost Civilizations • The Truth Behind Lying The Bulletin of the Santa Fe Institute is published by SFI to keep its friends and supporters informed about its work. The Santa Fe Institute is a private, independent, multidiscipli- nary research and education center founded in 1984. Since its founding, SFI has devoted itself to creating a new kind of sci- entific research community, pursuing emerging synthesis in science. Operating as a visiting institution, SFI seeks to cat- alyze new collaborative, multidisciplinary research; to break down the barriers between the traditional disciplines; to spread its ideas and methodologies to other institutions; and to encourage the practical application of its results. Published by the Santa Fe Institute 1399 Hyde Park Road Santa Fe, New Mexico 87501, USA phone (505) 984-8800 fax (505) 982-0565 home page: http://www.santafe.edu Note: The SFI Bulletin may be read at the website: www.santafe.edu/sfi/publications/Bulletin/. If you would prefer to read the Bulletin on your computer rather than receive a printed version, contact Patrisia Brunello at 505/984-8800, Ext. 2700 or [email protected]. EDITORIAL STAFF: Ginger Richardson Lesley S. King Andi Sutherland CONTRIBUTORS: Brooke Harrington Janet Yagoda Shagam Julian Smith Janet Stites James Trefil DESIGN & PRODUCTION: Paula Eastwood PHOTO: ROBERT BUELTEMAN ©2004 BUELTEMAN PHOTO: ROBERT SFI Bulletin Winter 2006 TOCtable of contents 3 A Deceptively Simple Formula 2 How Life Began 3 From
    [Show full text]
  • The Phylogenetic Composition and Structure of Soil Microbial Communities Shifts in Response to Elevated Carbon Dioxide
    View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by University of Minnesota Digital Conservancy The ISME Journal (2012) 6, 259–272 & 2012 International Society for Microbial Ecology All rights reserved 1751-7362/12 www.nature.com/ismej ORIGINAL ARTICLE The phylogenetic composition and structure of soil microbial communities shifts in response to elevated carbon dioxide Zhili He1, Yvette Piceno2, Ye Deng1, Meiying Xu1,3, Zhenmei Lu1,4, Todd DeSantis2, Gary Andersen2, Sarah E Hobbie5, Peter B Reich6 and Jizhong Zhou1,2 1Institute for Environmental Genomics, Department of Botany and Microbiology, University of Oklahoma, Norman, OK, USA; 2Ecology Department, Earth Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA; 3Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Guangdong Institute of Microbiology, Guangzhou, China; 4College of Life Sciences, Zhejiang University, Hangzhou, China; 5Department of Ecology, Evolution, and Behavior, St Paul, MN, USA and 6Department of Forest Resources, University of Minnesota, St Paul, MN, USA One of the major factors associated with global change is the ever-increasing concentration of atmospheric CO2. Although the stimulating effects of elevated CO2 (eCO2) on plant growth and primary productivity have been established, its impacts on the diversity and function of soil microbial communities are poorly understood. In this study, phylogenetic microarrays (PhyloChip) were used to comprehensively survey the richness, composition and structure of soil microbial communities in a grassland experiment subjected to two CO2 conditions (ambient, 368 p.p.m., versus elevated, 560 p.p.m.) for 10 years. The richness based on the detected number of operational taxonomic units (OTUs) significantly decreased under eCO2.
    [Show full text]
  • Clio 2019 Was Funded in Part by the College of Arts & Letters’ Student- Faculty Collaboration Grant
    Clio California State University, Sacramento Student History Journal Clio | Vol. 29, 2019 Phi Alpha Theta California State University, Sacramento Clio Volume 29, Spring 2019 The Annual Publication of Phi Alpha Theta, Rho Xi Chapter Department of History, College of Arts & Letters California State University, Sacramento Clio Editor-in-Chief Janis Pope Editorial Staff Sarah Dutcher Taylor Adam Bardaro Laurie Frazier Timothy Anderson Samuel Bein Brett Coker Emma Sullivan Jacob Jennerjohn Mathew Jones Brittany Nath Joshua Lourence Billy Febuary Shea Cooley Cuauhtemoc Morales Clio 2019 was funded in part by the College of Arts & Letters’ Student- Faculty Collaboration Grant. It was also made possible through generous support from: California State University, Sacramento Peer & Academic Resource Center College of Arts & Letters President Robert Nelson History Department Faculty Dr. Aaron J. Cohen Dr. Nikolaos Lazaridis Dr. Brendan Lindsay Dr. Mona Siegel Dr. Sherry Fields Dr. Jim Rose Dr. Jeffrey Wilson Students, Alumni, Friends, and Family Adam Bardaro Brett Coker James Wheeler Gena Rhoades Jackie Pope R. Moses Perez Cover Photo: Courtesy of Janis Pope © Clio 2019 – All rights reserved. No part of this journal may be reproduced, stored in a retrieval system, or transmitted in any form, except for the inclusion of brief quotations in a review of study, without prior permission in writing from the publishers and the student author. Copyright reverts to each author upon further publication of his or her article. Department of History, Tahoe Hall 3080 California State University, Sacramento 6000 J Street Sacramento, CA 95819-6059 Letter from the Editor It is with great pleasure that I present the twenty-ninth volume of Clio, the award-winning, student-run history journal of California State University, Sacramento (CSUS).
    [Show full text]
  • Novel Molecular, Structural and Evolutionary Characteristics of the Phosphoketolases from Bifidobacteria and Coriobacteriales
    RESEARCH ARTICLE Novel molecular, structural and evolutionary characteristics of the phosphoketolases from bifidobacteria and Coriobacteriales Radhey S. Gupta*, Anish Nanda, Bijendra Khadka Department of Biochemistry and Biomedical Sciences, McMaster University, Hamilton, Ontario, Canada * [email protected] a1111111111 a1111111111 a1111111111 Abstract a1111111111 Members from the order Bifidobacteriales, which include many species exhibiting health a1111111111 promoting effects, differ from all other organisms in using a unique pathway for carbohydrate metabolism, known as the ªbifid shuntº, which utilizes the enzyme phosphoketolase (PK) to carry out the phosphorolysis of both fructose-6-phosphate (F6P) and xylulose-5-phosphate (X5P). In contrast to bifidobacteria, the PKs found in other organisms (referred to XPK) are OPEN ACCESS able to metabolize primarily X5P and show very little activity towards F6P. Presently, very lit- Citation: Gupta RS, Nanda A, Khadka B (2017) tle is known about the molecular or biochemical basis of the differences in the two forms of Novel molecular, structural and evolutionary PKs. Comparative analyses of PK sequences from different organisms reported here have characteristics of the phosphoketolases from bifidobacteria and Coriobacteriales. PLoS ONE 12 identified multiple high-specific sequence features in the forms of conserved signature (2): e0172176. doi:10.1371/journal.pone.0172176 inserts and deletions (CSIs) in the PK sequences that clearly distinguish the X5P/F6P phos- Editor: Eugene A. Permyakov, Russian Academy of phoketolases (XFPK) of bifidobacteria from the XPK homologs found in most other organ- Medical Sciences, RUSSIAN FEDERATION isms. Interestingly, most of the molecular signatures that are specific for the XFPK from Received: December 12, 2016 bifidobacteria are also shared by the PK homologs from the Coriobacteriales order of Acti- nobacteria.
    [Show full text]
  • Bacterial Diversity and Functional Analysis of Severe Early Childhood
    www.nature.com/scientificreports OPEN Bacterial diversity and functional analysis of severe early childhood caries and recurrence in India Balakrishnan Kalpana1,3, Puniethaa Prabhu3, Ashaq Hussain Bhat3, Arunsaikiran Senthilkumar3, Raj Pranap Arun1, Sharath Asokan4, Sachin S. Gunthe2 & Rama S. Verma1,5* Dental caries is the most prevalent oral disease afecting nearly 70% of children in India and elsewhere. Micro-ecological niche based acidifcation due to dysbiosis in oral microbiome are crucial for caries onset and progression. Here we report the tooth bacteriome diversity compared in Indian children with caries free (CF), severe early childhood caries (SC) and recurrent caries (RC). High quality V3–V4 amplicon sequencing revealed that SC exhibited high bacterial diversity with unique combination and interrelationship. Gracillibacteria_GN02 and TM7 were unique in CF and SC respectively, while Bacteroidetes, Fusobacteria were signifcantly high in RC. Interestingly, we found Streptococcus oralis subsp. tigurinus clade 071 in all groups with signifcant abundance in SC and RC. Positive correlation between low and high abundant bacteria as well as with TCS, PTS and ABC transporters were seen from co-occurrence network analysis. This could lead to persistence of SC niche resulting in RC. Comparative in vitro assessment of bioflm formation showed that the standard culture of S. oralis and its phylogenetically similar clinical isolates showed profound bioflm formation and augmented the growth and enhanced bioflm formation in S. mutans in both dual and multispecies cultures. Interaction among more than 700 species of microbiota under diferent micro-ecological niches of the human oral cavity1,2 acts as a primary defense against various pathogens. Tis has been observed to play a signifcant role in child’s oral and general health.
    [Show full text]