Polyamine Distribution Patterns Within the Families Aeromonadaceae
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Comparative Genomics of the Aeromonadaceae Core Oligosaccharide Biosynthetic Regions
CORE Metadata, citation and similar papers at core.ac.uk Provided by Diposit Digital de la Universitat de Barcelona International Journal of Molecular Sciences Article Comparative Genomics of the Aeromonadaceae Core Oligosaccharide Biosynthetic Regions Gabriel Forn-Cuní, Susana Merino and Juan M. Tomás * Department of Genética, Microbiología y Estadística, Universidad de Barcelona, Diagonal 643, 08071 Barcelona, Spain; [email protected] (G.-F.C.); [email protected] (S.M.) * Correspondence: [email protected]; Tel.: +34-93-4021486 Academic Editor: William Chi-shing Cho Received: 7 February 2017; Accepted: 26 February 2017; Published: 28 February 2017 Abstract: Lipopolysaccharides (LPSs) are an integral part of the Gram-negative outer membrane, playing important organizational and structural roles and taking part in the bacterial infection process. In Aeromonas hydrophila, piscicola, and salmonicida, three different genomic regions taking part in the LPS core oligosaccharide (Core-OS) assembly have been identified, although the characterization of these clusters in most aeromonad species is still lacking. Here, we analyse the conservation of these LPS biosynthesis gene clusters in the all the 170 currently public Aeromonas genomes, including 30 different species, and characterise the structure of a putative common inner Core-OS in the Aeromonadaceae family. We describe three new genomic organizations for the inner Core-OS genomic regions, which were more evolutionary conserved than the outer Core-OS regions, which presented remarkable variability. We report how the degree of conservation of the genes from the inner and outer Core-OS may be indicative of the taxonomic relationship between Aeromonas species. Keywords: Aeromonas; genomics; inner core oligosaccharide; outer core oligosaccharide; lipopolysaccharide 1. -
Genomic Insight Into the Host–Endosymbiont Relationship of Endozoicomonas Montiporae CL-33T with Its Coral Host
ORIGINAL RESEARCH published: 08 March 2016 doi: 10.3389/fmicb.2016.00251 Genomic Insight into the Host–Endosymbiont Relationship of Endozoicomonas montiporae CL-33T with its Coral Host Jiun-Yan Ding 1, Jia-Ho Shiu 1, Wen-Ming Chen 2, Yin-Ru Chiang 1 and Sen-Lin Tang 1* 1 Biodiversity Research Center, Academia Sinica, Taipei, Taiwan, 2 Department of Seafood Science, Laboratory of Microbiology, National Kaohsiung Marine University, Kaohsiung, Taiwan The bacterial genus Endozoicomonas was commonly detected in healthy corals in many coral-associated bacteria studies in the past decade. Although, it is likely to be a core member of coral microbiota, little is known about its ecological roles. To decipher potential interactions between bacteria and their coral hosts, we sequenced and investigated the first culturable endozoicomonal bacterium from coral, the E. montiporae CL-33T. Its genome had potential sign of ongoing genome erosion and gene exchange with its Edited by: Rekha Seshadri, host. Testosterone degradation and type III secretion system are commonly present in Department of Energy Joint Genome Endozoicomonas and may have roles to recognize and deliver effectors to their hosts. Institute, USA Moreover, genes of eukaryotic ephrin ligand B2 are present in its genome; presumably, Reviewed by: this bacterium could move into coral cells via endocytosis after binding to coral’s Eph Kathleen M. Morrow, University of New Hampshire, USA receptors. In addition, 7,8-dihydro-8-oxoguanine triphosphatase and isocitrate lyase Jean-Baptiste Raina, are possible type III secretion effectors that might help coral to prevent mitochondrial University of Technology Sydney, Australia dysfunction and promote gluconeogenesis, especially under stress conditions. -
Identification of Functional Lsrb-Like Autoinducer-2 Receptors
Swarthmore College Works Chemistry & Biochemistry Faculty Works Chemistry & Biochemistry 11-15-2009 Identification Of unctionalF LsrB-Like Autoinducer-2 Receptors C. S. Pereira Anna Katherine De Regt , '09 P. H. Brito Stephen T. Miller Swarthmore College, [email protected] K. B. Xavier Follow this and additional works at: https://works.swarthmore.edu/fac-chemistry Part of the Biochemistry Commons Let us know how access to these works benefits ouy Recommended Citation C. S. Pereira; Anna Katherine De Regt , '09; P. H. Brito; Stephen T. Miller; and K. B. Xavier. (2009). "Identification Of unctionalF LsrB-Like Autoinducer-2 Receptors". Journal Of Bacteriology. Volume 191, Issue 22. 6975-6987. DOI: 10.1128/JB.00976-09 https://works.swarthmore.edu/fac-chemistry/52 This work is brought to you for free by Swarthmore College Libraries' Works. It has been accepted for inclusion in Chemistry & Biochemistry Faculty Works by an authorized administrator of Works. For more information, please contact [email protected]. Identification of Functional LsrB-Like Autoinducer-2 Receptors Catarina S. Pereira, Anna K. de Regt, Patrícia H. Brito, Stephen T. Miller and Karina B. Xavier J. Bacteriol. 2009, 191(22):6975. DOI: 10.1128/JB.00976-09. Published Ahead of Print 11 September 2009. Downloaded from Updated information and services can be found at: http://jb.asm.org/content/191/22/6975 http://jb.asm.org/ These include: SUPPLEMENTAL MATERIAL Supplemental material REFERENCES This article cites 65 articles, 29 of which can be accessed free on September 10, 2014 by SWARTHMORE COLLEGE at: http://jb.asm.org/content/191/22/6975#ref-list-1 CONTENT ALERTS Receive: RSS Feeds, eTOCs, free email alerts (when new articles cite this article), more» Information about commercial reprint orders: http://journals.asm.org/site/misc/reprints.xhtml To subscribe to to another ASM Journal go to: http://journals.asm.org/site/subscriptions/ JOURNAL OF BACTERIOLOGY, Nov. -
Unlocking the Genomic Taxonomy of the Prochlorococcus Collective
bioRxiv preprint doi: https://doi.org/10.1101/2020.03.09.980698; this version posted March 11, 2020. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY 4.0 International license. Unlocking the genomic taxonomy of the Prochlorococcus collective Diogo Tschoeke1#, Livia Vidal1#, Mariana Campeão1, Vinícius W. Salazar1, Jean Swings1,2, Fabiano Thompson1*, Cristiane Thompson1* 1Laboratory of Microbiology. SAGE-COPPE and Institute of Biology. Federal University of Rio de Janeiro. Rio de Janeiro. Brazil. Av. Carlos Chagas Fo 373, CEP 21941-902, RJ, Brazil. 2Laboratory of Microbiology, Ghent University, Gent, Belgium. *Corresponding authors: E-mail: [email protected] , [email protected] Phone no.: +5521981041035, +552139386567 #These authors contributed equally. ABSTRACT 1 bioRxiv preprint doi: https://doi.org/10.1101/2020.03.09.980698; this version posted March 11, 2020. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY 4.0 International license. Prochlorococcus is the most abundant photosynthetic prokaryote on our planet. The extensive ecological literature on the Prochlorococcus collective (PC) is based on the assumption that it comprises one single genus comprising the species Prochlorococcus marinus, containing itself a collective of ecotypes. Ecologists adopt the distributed genome hypothesis of an open pan-genome to explain the observed genomic diversity and evolution patterns of the ecotypes within PC. -
Metagenomic Insights Into the Uncultured Diversity and Physiology of Microbes in Four Hypersaline Soda Lake Brines
Lawrence Berkeley National Laboratory Recent Work Title Metagenomic Insights into the Uncultured Diversity and Physiology of Microbes in Four Hypersaline Soda Lake Brines. Permalink https://escholarship.org/uc/item/9xc5s0v5 Journal Frontiers in microbiology, 7(FEB) ISSN 1664-302X Authors Vavourakis, Charlotte D Ghai, Rohit Rodriguez-Valera, Francisco et al. Publication Date 2016 DOI 10.3389/fmicb.2016.00211 Peer reviewed eScholarship.org Powered by the California Digital Library University of California ORIGINAL RESEARCH published: 25 February 2016 doi: 10.3389/fmicb.2016.00211 Metagenomic Insights into the Uncultured Diversity and Physiology of Microbes in Four Hypersaline Soda Lake Brines Charlotte D. Vavourakis 1, Rohit Ghai 2, 3, Francisco Rodriguez-Valera 2, Dimitry Y. Sorokin 4, 5, Susannah G. Tringe 6, Philip Hugenholtz 7 and Gerard Muyzer 1* 1 Microbial Systems Ecology, Department of Aquatic Microbiology, Institute for Biodiversity and Ecosystem Dynamics, University of Amsterdam, Amsterdam, Netherlands, 2 Evolutionary Genomics Group, Departamento de Producción Vegetal y Microbiología, Universidad Miguel Hernández, San Juan de Alicante, Spain, 3 Department of Aquatic Microbial Ecology, Biology Centre of the Czech Academy of Sciences, Institute of Hydrobiology, Ceskéˇ Budejovice,ˇ Czech Republic, 4 Research Centre of Biotechnology, Winogradsky Institute of Microbiology, Russian Academy of Sciences, Moscow, Russia, 5 Department of Biotechnology, Delft University of Technology, Delft, Netherlands, 6 The Department of Energy Joint Genome Institute, Walnut Creek, CA, USA, 7 Australian Centre for Ecogenomics, School of Chemistry and Molecular Biosciences and Institute for Molecular Bioscience, The University of Queensland, Brisbane, QLD, Australia Soda lakes are salt lakes with a naturally alkaline pH due to evaporative concentration Edited by: of sodium carbonates in the absence of major divalent cations. -
Identification of Pasteurella Species and Morphologically Similar Organisms
UK Standards for Microbiology Investigations Identification of Pasteurella species and Morphologically Similar Organisms Issued by the Standards Unit, Microbiology Services, PHE Bacteriology – Identification | ID 13 | Issue no: 3 | Issue date: 04.02.15 | Page: 1 of 28 © Crown copyright 2015 Identification of Pasteurella species and Morphologically Similar Organisms Acknowledgments UK Standards for Microbiology Investigations (SMIs) are developed under the auspices of Public Health England (PHE) working in partnership with the National Health Service (NHS), Public Health Wales and with the professional organisations whose logos are displayed below and listed on the website https://www.gov.uk/uk- standards-for-microbiology-investigations-smi-quality-and-consistency-in-clinical- laboratories. SMIs are developed, reviewed and revised by various working groups which are overseen by a steering committee (see https://www.gov.uk/government/groups/standards-for-microbiology-investigations- steering-committee). The contributions of many individuals in clinical, specialist and reference laboratories who have provided information and comments during the development of this document are acknowledged. We are grateful to the Medical Editors for editing the medical content. For further information please contact us at: Standards Unit Microbiology Services Public Health England 61 Colindale Avenue London NW9 5EQ E-mail: [email protected] Website: https://www.gov.uk/uk-standards-for-microbiology-investigations-smi-quality- and-consistency-in-clinical-laboratories UK Standards for Microbiology Investigations are produced in association with: Logos correct at time of publishing. Bacteriology – Identification | ID 13 | Issue no: 3 | Issue date: 04.02.15 | Page: 2 of 28 UK Standards for Microbiology Investigations | Issued by the Standards Unit, Public Health England Identification of Pasteurella species and Morphologically Similar Organisms Contents ACKNOWLEDGMENTS ......................................................................................................... -
Delineation of Aeromonas Hydrophila Pathotypes by Dectection of Putative Virulence Factors Using Polymerase Chain Reaction and N
View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by DigitalCommons@Kennesaw State University Kennesaw State University DigitalCommons@Kennesaw State University Master of Science in Integrative Biology Theses Biology & Physics Summer 7-20-2015 Delineation of Aeromonas hydrophila Pathotypes by Dectection of Putative Virulence Factors using Polymerase Chain Reaction and Nematode Challenge Assay John Metz Kennesaw State University, [email protected] Follow this and additional works at: http://digitalcommons.kennesaw.edu/integrbiol_etd Part of the Integrative Biology Commons Recommended Citation Metz, John, "Delineation of Aeromonas hydrophila Pathotypes by Dectection of Putative Virulence Factors using Polymerase Chain Reaction and Nematode Challenge Assay" (2015). Master of Science in Integrative Biology Theses. Paper 7. This Thesis is brought to you for free and open access by the Biology & Physics at DigitalCommons@Kennesaw State University. It has been accepted for inclusion in Master of Science in Integrative Biology Theses by an authorized administrator of DigitalCommons@Kennesaw State University. For more information, please contact [email protected]. Delineation of Aeromonas hydrophila Pathotypes by Detection of Putative Virulence Factors using Polymerase Chain Reaction and Nematode Challenge Assay John Michael Metz Submitted in partial fulfillment of the requirements for the Master of Science Degree in Integrative Biology Thesis Advisor: Donald J. McGarey, Ph.D Department of Molecular and Cellular Biology Kennesaw State University ABSTRACT Aeromonas hydrophila is a Gram-negative, bacterial pathogen of humans and other vertebrates. Human diseases caused by A. hydrophila range from mild gastroenteritis to soft tissue infections including cellulitis and acute necrotizing fasciitis. When seen in fish it causes dermal ulcers and fatal septicemia, which are detrimental to aquaculture stocks and has major economic impact to the industry. -
Microbial Biofilms – Veronica Lazar and Eugenia Bezirtzoglou
MEDICAL SCIENCES – Microbial Biofilms – Veronica Lazar and Eugenia Bezirtzoglou MICROBIAL BIOFILMS Veronica Lazar University of Bucharest, Faculty of Biology, Dept. of Microbiology, 060101 Aleea Portocalelor No. 1-3, Sector 6, Bucharest, Romania; Eugenia Bezirtzoglou Democritus University of Thrace - Faculty of Agricultural Development, Dept. of Microbiology, Orestiada, Greece Keywords: Microbial adherence to cellular/inert substrata, Biofilms, Intercellular communication, Quorum Sensing (QS) mechanism, Dental plaque, Tolerance to antimicrobials, Anti-biofilm strategies, Ecological and biotechnological significance of biofilms Contents 1. Introduction 2. Definition 3. Microbial Adherence 4. Development, Architecture of a Mature Biofilm and Properties 5. Intercellular Communication: Intra-, Interspecific and Interkingdom Signaling, By QS Mechanism and Implications 6. Medical Significance of Microbial Biofilms Formed on Cellular Substrata and Medical Devices 6.1. Microbial Biofilms on Medical Devices 6.2. Microorganisms - Biomaterial Interactions 6.3. Phenotypical Resistance or Tolerance to Antimicrobials; Mechanisms of Tolerance 7. New Strategies for Prevention and Treatment of Biofilm Associated Infections 8. Ecological Significance 9. Biotechnological / Industrial Applications 10. Conclusion Acknowledgments Glossary Bibliography Biographical Sketches UNESCO – EOLSS Summary A biofilm is a sessileSAMPLE microbial community coCHAPTERSmposed of cells embedded in a matrix of exopolysaccharide matrix attached to a substratum or interface. Biofilms -
Supplementary Information for Microbial Electrochemical Systems Outperform Fixed-Bed Biofilters for Cleaning-Up Urban Wastewater
Electronic Supplementary Material (ESI) for Environmental Science: Water Research & Technology. This journal is © The Royal Society of Chemistry 2016 Supplementary information for Microbial Electrochemical Systems outperform fixed-bed biofilters for cleaning-up urban wastewater AUTHORS: Arantxa Aguirre-Sierraa, Tristano Bacchetti De Gregorisb, Antonio Berná, Juan José Salasc, Carlos Aragónc, Abraham Esteve-Núñezab* Fig.1S Total nitrogen (A), ammonia (B) and nitrate (C) influent and effluent average values of the coke and the gravel biofilters. Error bars represent 95% confidence interval. Fig. 2S Influent and effluent COD (A) and BOD5 (B) average values of the hybrid biofilter and the hybrid polarized biofilter. Error bars represent 95% confidence interval. Fig. 3S Redox potential measured in the coke and the gravel biofilters Fig. 4S Rarefaction curves calculated for each sample based on the OTU computations. Fig. 5S Correspondence analysis biplot of classes’ distribution from pyrosequencing analysis. Fig. 6S. Relative abundance of classes of the category ‘other’ at class level. Table 1S Influent pre-treated wastewater and effluents characteristics. Averages ± SD HRT (d) 4.0 3.4 1.7 0.8 0.5 Influent COD (mg L-1) 246 ± 114 330 ± 107 457 ± 92 318 ± 143 393 ± 101 -1 BOD5 (mg L ) 136 ± 86 235 ± 36 268 ± 81 176 ± 127 213 ± 112 TN (mg L-1) 45.0 ± 17.4 60.6 ± 7.5 57.7 ± 3.9 43.7 ± 16.5 54.8 ± 10.1 -1 NH4-N (mg L ) 32.7 ± 18.7 51.6 ± 6.5 49.0 ± 2.3 36.6 ± 15.9 47.0 ± 8.8 -1 NO3-N (mg L ) 2.3 ± 3.6 1.0 ± 1.6 0.8 ± 0.6 1.5 ± 2.0 0.9 ± 0.6 TP (mg -
Yopb and Yopd Constitute a Novel Class of Yersinia Yop Proteins
INFECTION AND IMMUNITY, Jan. 1993, p. 71-80 Vol. 61, No. 1 0019-9567/93/010071-10$02.00/0 Copyright © 1993, American Society for Microbiology YopB and YopD Constitute a Novel Class of Yersinia Yop Proteins SEBASTIAN HAKANSSON,1 THOMAS BERGMAN,1 JEAN-CLAUDE VANOOTEGHEM, 2 GUY CORNELIS,2 AND HANS WOLF-WATZ1* Department of Cell and Molecular Biology, University of Umed, S-901 87 Umed, Sweden,' and Microbial Pathogenesis Unit, Intemnational Institute of Cellular and Molecular Pathology and Faculte6 de Medecine, Universite Catholique de Louvain, B-1200 Brussels, Belgium2 Received 21 May 1992/Accepted 21 October 1992 Virulent Yersinia species harbor a common plasmid that encodes essential virulence determinants (Yersinia outer proteins [Yops]), which are regulated by the extracellular stimuli Ca2" and temperature. The V-antigen-encoding operon has been shown to be involved in the Ca2 -regulated negative pathway. The genetic organization of the V-antigen operon and the sequence of the krGVH genes were recently presented. The V-antigen operon was shown to be a polycistronic operon having the gene order kcrGVH-yopBD (T. Bergman, S. Hakansson, A. Forsberg, L. Norlander, A. Maceliaro, A. Backman, I. Bolin, and H. Wolf-Watz, J. Bacteriol. 173:1607-1616, 1991; S. B. Price, K. Y. Leung, S. S. Barve, and S. C. Straley, J. Bacteriol. 171:5646-5653, 1989). We present here the sequence of the distal part of the V-antigen operons of Yersinia pseudotuberculosis and Yersinia enterocolitica. The sequence information encompasses theyopB andyopD genes and a downstream region in both species. We conclude that the V-antigen operon ends with theyopD gene. -
A Study of Gastroenteritis Outbreak Caused by Aeromonas Verionii
Research Article Adv Biotech & Micro Volume 3 Issue 1 - April 2017 Copyright © All rights are reserved by Karan Ostwal DOI: 10.19080/AIBM.2017.03.555602 A Study of Gastroenteritis Outbreak Caused by Aeromonas Verionii Ostwal K1*, Dharne M2, Shah P3, Mehetre G2, Yashaswini D2 and Shaikh N3 1MIT Hospital, India 2National Collection of Industrial Microorganisms (NCIM), CSIR, India 3DrVM Government Medical College, India Submission: February 01, 2017; Published: April 04, 2017 *Corresponding author: Karan Ostwal, Consultant Microbiologist MIT Hospital Aurangabad Maharashtra, India, Email: Abstract Background: Aeromonas belongs to family Aeromonadaceae. Aeromonas verionii causes diarrhoea and gastroenteritis. Reports from Aeromonas Aeromonas sourceAustralia of haveinfection suggested was drinking that there water. may be a connection between cases of -associated diarrhoea and the numbers of Aeromonas in the drinking-water. As, Aeromonas species is associated with water source, we hereby report an outbreak due to veronii in which Aim: To determine the cause & identify the source of outbreak of gastroenteritis. Material and methods: A cross- sectional study was performed in which seven patients with gastroenteritis were admitted to paediatric ward at Dr. Vaishampayan memorial government medical college Solapur, Maharshtra during the month of october 2015. All theAeromonas Patients verioniigave history of fishing three days back to Sena river which lies at the border of Maharashtra & Karnataka. Patients suffered from severe acute gastroenteritis. Stool samples of all the seven patient were sent for microbiological examination. The organism was identified as was subjected to antibiotic susceptibility testing by Kirby-Bauer disc diffusion technique.(Invitrogen The). source of infection was traced water sampling was done from the Sena river and A. -
Characterization of Environmental and Cultivable Antibiotic- Resistant Microbial Communities Associated with Wastewater Treatment
antibiotics Article Characterization of Environmental and Cultivable Antibiotic- Resistant Microbial Communities Associated with Wastewater Treatment Alicia Sorgen 1, James Johnson 2, Kevin Lambirth 2, Sandra M. Clinton 3 , Molly Redmond 1 , Anthony Fodor 2 and Cynthia Gibas 2,* 1 Department of Biological Sciences, University of North Carolina at Charlotte, Charlotte, NC 28223, USA; [email protected] (A.S.); [email protected] (M.R.) 2 Department of Bioinformatics and Genomics, University of North Carolina at Charlotte, Charlotte, NC 28223, USA; [email protected] (J.J.); [email protected] (K.L.); [email protected] (A.F.) 3 Department of Geography & Earth Sciences, University of North Carolina at Charlotte, Charlotte, NC 28223, USA; [email protected] * Correspondence: [email protected]; Tel.: +1-704-687-8378 Abstract: Bacterial resistance to antibiotics is a growing global concern, threatening human and environmental health, particularly among urban populations. Wastewater treatment plants (WWTPs) are thought to be “hotspots” for antibiotic resistance dissemination. The conditions of WWTPs, in conjunction with the persistence of commonly used antibiotics, may favor the selection and transfer of resistance genes among bacterial populations. WWTPs provide an important ecological niche to examine the spread of antibiotic resistance. We used heterotrophic plate count methods to identify Citation: Sorgen, A.; Johnson, J.; phenotypically resistant cultivable portions of these bacterial communities and characterized the Lambirth, K.; Clinton,