DOCSLIB.ORG

Tese Claudia I L Bittencourt

Total Page：16

File Type：pdf, Size：1020Kb

Download full-text PDF Read full-text
Tese Claudia I L Bittencourt UNIVERSIDADE FEDERAL DE MINAS GERAIS INSTITUTO DE CIcNCIAS BIOLGICAS DEPARTAMENTO DE BIOLOGIA GERAL PROGRAMA DE PS-GRADUAÇIO EM GENTICA Biogeografia e caracteriza o molecular e fisiolgica de bact rias heterotrficas, com nfase em Chromobacterium , dos biomas Mata Atlntica e Cerrado CLÁUDIA IRACEMA LIMA BITTENCOURT ORIENTADORA: Andr a Maria Amaral Nascimento CO-ORIENTADOR: Edmar Chartone de Souza BELO HORIZONTE Maio - 2011 CLÁUDIA IRACEMA LIMA BITTENCOURT Biogeografia e caracteriza o molecular e fisiolgica de bact rias heterotrficas, com nfase em Chromobacterium , dos biomas Mata Atlntica e Cerrado Tese de Doutorado apresentado ao Programa de Ps- Gradua o em Gen tica do Departamento de Biologia Geral do Instituto de Cincias Biolgicas da Universidade Federal de Minas Gerais, como requisito parcial obten o do ttulo de Doutor em Gen tica. ORIENTADORA: Andr a Maria Amaral Nascimento CO-ORIENTADOR: Edmar Chartone de Souza BELO HORIZONTE UFMG M 2011 ii OResilience describes the speed with which a community returns to its former state after it has been perturbed and displaced from that state.P Ecology: from individuals to ecosystems / Michael Begon, Colin R. Townsend, John L. Harper.N4th Ed. iii Dedico esta Tese ao meu pai, minha m e, minha irm zinha e ao meu marido, sem vocs nada disso teria sido possvel. iv AGRADESCIMENTOS H Andr a Amaral, ao Edmar Chartone, meus orientadores. Aos colaboradores Francisco Barbosa, Cludia Teixeira Guimar es (EMBRAPA) e Ubiraci Gomes P. Lana (EMBRAPA) pela grande contribui o neste trabalho. Hs professoras Mnica e Adlane e ao departamento de biologia geral pelo constante compartilhamento do conhecimento. Aos colegas de laboratrio por tornarem as horas mais divertidas, principalmente, ao Alexandre , Patrcia , Mariana, Juliana, Isabela, Flaviane e Magna. Hs Andr a Reis, Maria Rosa e Paix o pela manuten o do laboratrio. Aos colegas, amigos e parentes, que estiveram presentes ao longo desta trajetria, principalmente Carla e Sofia. H minha famlia e ao meu marido, Sueide , por me fazerem acreditar que os obstculos devem ser sempre superados. Ao CNPq pelo apoio financeiro. Hqueles que n o atrapalharam, eu agrade o, pois muito ajudaram. LISTA DE FIGURAS ......................................................................................................... 1 LISTA DE TABELAS ........................................................................................................ 4 LISTA DE ABREVIATURAS ........................................................................................... 5 RESUMO ............................................................................................................................ 8 ABSTRACT ...................................................................................................................... 10 ESTRUTURA DA TESE .................................................................................................. 12 I) INTRODUÇIO GERAL .............................................................................................. 13 Diversidade de Procariotos ........................................................................................... 13 M todos moleculares para acessar diversidade bacteriana ........................................... 15 Conceito de esp cie ....................................................................................................... 16 Biogeografia Microbiana .............................................................................................. 17 Ecossistemas Aquticos de Água Doce ........................................................................ 23 Gnero Chromobacterium ............................................................................................. 28 II) OBJETIVOS ................................................................................................................ 33 Objetivo Geral ............................................................................................................... 33 Objetivos Especficos .................................................................................................... 33 III) CAPTULOS .............................................................................................................. 34 CAPTULO 1 M Comparative biogeography of Chromobacterium from the neotropics . 34 CAPTULO 2 M A survey on cultivable heterotrophic bacteria inhabiting a thermally unstratified water column in Atlantic Forest Lake ............................................................ 51 CAPTULO 3 M Phylogeny of cultivable heterotrophic bacteria derived from mixed colonies ............................................................................................................................. 92 CAPTULO 4 M Characterization of a Chromobacterium haemolyticum population from a natural tropical lake ......................................................................................................... 126 IV) CONCLUSIO GERAL ........................................................................................... 139 V) REFERcNCIAS ......................................................................................................... 140 1 LISTA DE FIGURAS I) INTRODUÇIO GERAL 1 Mapa do Parque Nacional da Serra do Cip...................................................... 24 2 Imagem do Parque Estadual do Rio Doce, pelo sat lite Landsat (Miranda & Coutinho, 2004).................................................................................................. 25 3 Inferncia filogen tica baseada em sequncias do gene de rRNA 16S, mostrando os principais txons bacterianos presentes em ecossistemas de gua..................................................................................................................... 28 4 Anlise filogen tica baseada em sequncias de rRNA 16S depositadas no Genbank com o m todo de minimum evolution (1000 repeti es de Bootstrap)........................................................................................................... 29 CAPTULO 1 1 Sampling site locations along the Indai Stream in the National Park of Serra do CipGGGGGGGGGGGGGGGGGGGGGGGGGGG... 36 2 Cluster analysis of Chromobacterium sp. isolates and of C. violaceum ATCC 12472 according to BIOLOG GN2 microplates profilesGGGGGGGG... 40 3 Cluster analysis of Chromobacterium sp. isolates and of C. violaceum ATCC 12472 according to antimicrobial susceptibility profilesGGGGGGGG... 42 4 Phylogenetic tree based on 16S rRNA gene sequences of all Chromobacterium sp. isolates from water and soilGGGGGGGGGGG 45 5 Principal component analysis ordination plot for the 16S rRNA geneGGG.. 46 6 Cluster analysis of Chromobacterium sp. isolates and of C. violaceum ATCC 12472 according to BOX-PCR fingerprintingGGGGGGGGGGGGG 47 CAPTULO 2 1 Rio Doce State Park and the sampling site location, Carioca LakeGGGG... 81 2 Correlation of the abiotic parameters biplot with the first two axes of principal component analysis (PCA) and distributions of communities sampled in June and AugustGGGGGGGGGGGGGGGGGGG... 82 3 UPGMA cluster analysis of microbial communities based on metabolic diversity obtained through BIOLOG EcoPlates after incubation at 28:C for 2 72 hGGGGGGGGGGGGGGGGGGGGGGGGGGGGG. 83 4 Correlation of the BIOLOG EcoPlates CLPP biplot with the first two axes of principal component analysis (PCA) and distributions of communities sampled in June and AugustGGGGGGGGGGGGGGGGGGG... 84 5 Triplot of Ecoplate CLPP, environmental variables and distributions of communities sampled in June and August along the first two axes produced by the Canonical correspondence analyses (CCA)GGGGGGGGGGG 85 6 Compressed tree of the evolutionary relationships of phylaGGGGGGG.. 86 7 Rarefaction curves for each bacterial community based on the 16S rRNA gene sequencesGGGGGGGGGGGGGGGGGGGGGGGG... 87 8 Relative abundance of phyla in Carioca Lake based on sequence analysis of the 16S rRNA geneGGGGGGGGGGGGGGGGGGGGGGG. 88 9 Relative abundance of genera in Carioca Lake based on sequence analyses of the 16S rRNA geneGGGGGGGGGGGGGGGGGGGGGGG. 89 10 dendrogram, generated by UniFrac, of isolates from 18 bacterial communities from Carioca LakeGGGGGGGGGGGGGGGGGGGGGGG.. 90 11 Principal components analysis ordination plot for the 16S rRNA geneGGG. 91 CAPTULO 3 1 UPGMA cluster environmental analysis, generated by UniFrac, of isolates from the 1%, 10% and 100% euphotic gradientsGGGGGGGGGGG... 113 2 Principal component analysis ordination plot for 16S rRNA gene sequences... 114 3 Media-joining network showing the haplotype distribution into groups according to phylaGGGGGGGGGGGGGGGGGGGGGGG.. 115 S1 Distribution of the number of associated isolates died, identified and unidentified, throughout the euphotic gradientGGGGGGGGGGGG.. 119 S2 Distribution of the number of original colonies that harbored associated isolatesGGGGGGGGGGGGGGGGGGGGGGGGGGGG 120 S3a Phylogenetic tree of isolates from the 1% euphotic gradient based on 16S rRNA gene sequencesGGGGGGGGGGGGGGGGGGGGGG. 121 S3b Phylogenetic tree of isolates from the 1% euphotic gradient based on 16S rRNA gene sequencesGGGGGGGGGGGGGGGGGGGGGG. 122 3 S4 Phylogenetic tree of isolates from the 10% euphotic gradient based on 16S rRNA gene sequencesGGGGGGGGGGGGGGGGGGGGGG. 123 S5 Phylogenetic tree of isolates from the 100% euphotic gradient based on 16S rRNA gene sequencesGGGGGGGGGGGGGGGGGGGGGG. 124 S6 Dendrogram showing the genetic relatedness among associated isolates as determined by (GTG)5-PCR fingerprint analysisGGGGGGGGGGG.. 125 CAPTULO
Load more

Recommended publications
  • Deciphering Metal-Impacts on Synthetic and Natural Microbial Communities
    Proteomics and Microbiology Faculty of Sciences University of Mons, UMONS Mons, Belgium Deciphering metal-impacts on synthetic and natural microbial communities Dissertation submitted in fulfilment of the requirements for the degree of Doctor of Philosophy in Biological Sciences by Valentine Cyriaque This work was promoted and funded by the Fond National de Recherche Scientifique (F.R.S.-FNRS) Jury: Pr. Ruddy Wattiez –UMONS Director of Thesis Pr. David C. Gillan– UMONS Co- Director of Thesis Pr. Patrick Flammang – UMONS Academic President of the Jury Pr. Søren Sørensen – University of Copenhagen External Reviewer Pr. Dirk Springael – KU Leuven External Reviewer Pr. Isabelle George – ULB External Reviewer Cover: Tyson Dudley “Don't waste your hate Rather gather and create Be of service, be a sensible person Use your words and don't be nervous You can do this, you've got purpose Find your medicine and use it” Nahko, Manisfesto “Sono pessimista con l'intelligenza, ma ottimista per la volontà.” “Pessimiste par l’intelligence mais optimiste par la volonté.” “Pessimistic by intelligence but optimistic by the will.” Antonio Gramsci, Prison letter (1929) Summary Metal contamination poses biotoxicity and bioaccumulation issues, affecting both abiotic conditions and biological activity in ecosystems. The use of metals and metalloids as raw materials, in industries and technologies drastically increased from the industrial revolution and urbanization of the XVIIIth century. For 100 years (1893-2003), the MetalEurop foundry released zinc, copper, cadmium and lead directly into the river “la Deûle”, resulting in up to 30- fold increase in metal concentrations in downstream sediments. We used an integrative approach coupling in-situ 16Sr RNA sequencing from both DNA and RNA extracts, microcosm supervision and Horizontal Gene Transfer (HGT) monitoring in order to fully understand the mechanisms driving community resilience to metal pollution.
    [Show full text]
  • Università Degli Studi Di Padova Dipartimento Di Biomedicina Comparata Ed Alimentazione
    UNIVERSITÀ DEGLI STUDI DI PADOVA DIPARTIMENTO DI BIOMEDICINA COMPARATA ED ALIMENTAZIONE SCUOLA DI DOTTORATO IN SCIENZE VETERINARIE Curriculum Unico Ciclo XXVIII PhD Thesis INTO THE BLUE: Spoilage phenotypes of Pseudomonas fluorescens in food matrices Director of the School: Illustrious Professor Gianfranco Gabai Department of Comparative Biomedicine and Food Science Supervisor: Dr Barbara Cardazzo Department of Comparative Biomedicine and Food Science PhD Student: Andreani Nadia Andrea 1061930 Academic year 2015 To my family of origin and my family that is to be To my beloved uncle Piero Science needs freedom, and freedom presupposes responsibility… (Professor Gerhard Gottschalk, Göttingen, 30th September 2015, ProkaGENOMICS Conference) Table of Contents Table of Contents Table of Contents ..................................................................................................................... VII List of Tables............................................................................................................................. XI List of Illustrations ................................................................................................................ XIII ABSTRACT .............................................................................................................................. XV ESPOSIZIONE RIASSUNTIVA ............................................................................................ XVII ACKNOWLEDGEMENTS ....................................................................................................
    [Show full text]
  • Phenotypic and Genetic Diversity of Pseudomonads
    PHENOTYPIC AND GENETIC DIVERSITY OF PSEUDOMONADS ASSOCIATED WITH THE ROOTS OF FIELD-GROWN CANOLA A Thesis Submitted to the College of Graduate Studies and Research In Partial Fulfillment of the Requirements For the Degree of Doctor of Philosophy In the Department of Applied Microbiology and Food Science University of Saskatchewan Saskatoon By Danielle Lynn Marie Hirkala © Copyright Danielle Lynn Marie Hirkala, November 2006. All rights reserved. PERMISSION TO USE In presenting this thesis in partial fulfilment of the requirements for a Postgraduate degree from the University of Saskatchewan, I agree that the Libraries of this University may make it freely available for inspection. I further agree that permission for copying of this thesis in any manner, in whole or in part, for scholarly purposes may be granted by the professor or professors who supervised my thesis work or, in their absence, by the Head of the Department or the Dean of the College in which my thesis work was done. It is understood that any copying or publication or use of this thesis or parts thereof for financial gain shall not be allowed without my written permission. It is also understood that due recognition shall be given to me and to the University of Saskatchewan in any scholarly use which may be made of any material in my thesis. Requests for permission to copy or to make other use of material in this thesis in whole or part should be addressed to: Head of the Department of Applied Microbiology and Food Science University of Saskatchewan Saskatoon, Saskatchewan, S7N 5A8 i ABSTRACT Pseudomonads, particularly the fluorescent pseudomonads, are common rhizosphere bacteria accounting for a significant portion of the culturable rhizosphere bacteria.
    [Show full text]
  • Microbial Degradation of Organic Micropollutants in Hyporheic Zone Sediments
    Microbial degradation of organic micropollutants in hyporheic zone sediments Dissertation To obtain the Academic Degree Doctor rerum naturalium (Dr. rer. nat.) Submitted to the Faculty of Biology, Chemistry, and Geosciences of the University of Bayreuth by Cyrus Rutere Bayreuth, May 2020 This doctoral thesis was prepared at the Department of Ecological Microbiology – University of Bayreuth and AG Horn – Institute of Microbiology, Leibniz University Hannover, from August 2015 until April 2020, and was supervised by Prof. Dr. Marcus. A. Horn. This is a full reprint of the dissertation submitted to obtain the academic degree of Doctor of Natural Sciences (Dr. rer. nat.) and approved by the Faculty of Biology, Chemistry, and Geosciences of the University of Bayreuth. Date of submission: 11. May 2020 Date of defense: 23. July 2020 Acting dean: Prof. Dr. Matthias Breuning Doctoral committee: Prof. Dr. Marcus. A. Horn (reviewer) Prof. Harold L. Drake, PhD (reviewer) Prof. Dr. Gerhard Rambold (chairman) Prof. Dr. Stefan Peiffer In the battle between the stream and the rock, the stream always wins, not through strength but by perseverance. Harriett Jackson Brown Jr. CONTENTS CONTENTS CONTENTS ............................................................................................................................ i FIGURES.............................................................................................................................. vi TABLES ..............................................................................................................................
    [Show full text]
  • Supplement of Hydrol
    Supplement of Hydrol. Earth Syst. Sci., 23, 139–154, 2019 https://doi.org/10.5194/hess-23-139-2019-supplement © Author(s) 2019. This work is distributed under the Creative Commons Attribution 4.0 License. Supplement of Microbial community changes induced by Managed Aquifer Recharge ac- tivities: linking hydrogeological and biological processes Carme Barba et al. Correspondence to: Carme Barba ([email protected]) The copyright of individual parts of the supplement might differ from the CC BY 4.0 License. 1 Supplementary material 2 Hydrochemical analyses of water samples - - -2 - 3 Samples for Cl , NO3 , SO4 and HCO3 analysis were filtered through 0.2-µm nylon filters, 4 stored at 4⁰C and analyzed using high performance liquid chromatography (HPLC) with a 5 WATERS 515 HPLC pump, IC-PAC anion columns, and a WATERS 432 detector. Samples for the 6 determination of cations were filtered through a 0.2-µm filter, acidified in the field with 1% 7 HNO3- and stored at 4⁰C. Cations were analyzed using inductively coupled plasma-optical 8 emission spectrometry (ICP-OES, Perkin-Elmer Optima 3200 RL). Samples for DOC analysis 9 were filtered through a 0.45-µm nylon filter and collected in muffled (450⁰C, 4.30 h) glass 10 bottles, acidified and stored at 4⁰C. In addition, water for TOC determination was sampled and 11 stored at 4⁰C. TOC and DOC were analyzed with an infrared detector using the NPOC method 12 (Shimadzu TOC-Vcsh). 13 Molecular analyses for liquid and soil samples 14 Liquid samples were filtered through 0.22-µm GV Durapore® membrane filters (Merck 15 Millipore, USA) and stored at -80ºC.
    [Show full text]
  • The Bacterial Community Associated with the Leech Myzobdella Lugubris Leidy 1851 (Hirudinea: Piscicolidae) from Lake Erie, Michigan, USA Schulz C.* & Faisal M.*
    Article available at http://www.parasite-journal.org or http://dx.doi.org/10.1051/parasite/2010172113 The bacTerial communiTy associaTed wiTh The leech Myzobdella lugubris leidy 1851 (hirudinea: Piscicolidae) from lake erie, michigan, usa Schulz c.* & FaiSal M.* Summary: Résumé : Communauté baCtérienne assoCiée à la sangsue myzobdella lugubris leidy 1851 (Hirudinea : PisCiColidae) du Leeches are widespread in the Great Lakes Basin, yet their potential laC érié, miCHigan, usa to harbor disease-causing agents has not been investigated. The purpose of this study was to identify the bacterial community of the Les sangsues sont répandues dans le bassin des Grands Lacs, commonly occurring leech, Myzobdella lugubris, within the Lake cependant, leur capacité d’héberger des agents pathogènes n’avait Erie Watershed. Leech samples were collected from the pectoral pas été investiguée. Le but de cette étude était d’identifier la fins of channel catfish, Ictalurus punctatus, and freshwater drum, communauté bactérienne de la sangsue commune, Myzobdella Aplodinotus grunniens, from Lake Erie in commercial trap nets and lugubris, du Lac Érié. Les échantillons de sangsue ont été collectés pooled into two samples based on host attachment. Bacteria from sur des poissons-chats, Ictalurus punctatus, et des poissons within the viscera of M. lugubris were identified by sequencing their perciformes, Aplodinotus grunniens. Les bactéries présentes dans les 16S rRNA (rDNA) gene of amplified community bacterial DNA viscères de M. lugubris ont été identifiées par le séquensage de leur extracted from pooled leech homogenate samples and were 16S rRNA (rDNA) et les échantillons ont été comparés à deux checked for similarity in two public databases: the Ribosomal bases de données publiques : Ribosomal Database Project et Database Project and BLAST.
    [Show full text]
  • Non -Supplemented’ Represents the Unamended Sediment
    Figure S1: Control microcosms for the ibuprofen degradation experiment (Fig. 1). ‘Non -supplemented’ represents the unamended sediment. The abiotic controls ‘Sorption’ and ‘Hydrolysis’ contained autoclaved sediment and river water, respectively, and were amended with 200 µM ibuprofen. Value s are the arithmetic means of three replicate incubations. Red and blue-headed arrows indicate sampling of the sediment for nucleic acids extraction after third and fifth re-spiking, respectively. Error bars indicating standard deviations are smaller than the size of the symbols and therefore not apparent. Transformation products Transformation Transformation products Figure S3: Copy numbers of the 16S rRNA gene and 16S rRNA detected in total bacterial community. Sample code: A, amended with 1 mM acetate and ibuprofen per feeding; 0, 5, 40, 200, and 400, indicate supplemental ibuprofen concentrations of 0 µM, 5 µM,40 µM, 200 µM and 400 µM, respectively, given per feeding; 0’, 3’, and 5’, correspond to samples obtained at the start of the incubation, and after the third and fifth refeeding, respectively. Sampling times for unamended controls were according to those of the 400 µM ibuprofen treatment. Values are the arithmetic average of three replicates. Error bars indicate standard deviation values. Figure S4: Alpha diversity and richness estimators of 16S rRNA gene and 16S rRNA obtained from Illumina amplicon sequencing. Sample code: A, amended with 1 mM acetate and ibuprofen per feeding; 0, 5, 40, 200, and 400, indicate supplemental ibuprofen concentrations of 0 µM, 5 µM, 40 µM, 200 µM and 400 µM, respectively, given per feeding; 0’, 3’, and 5’, correspond to samples obtained at the start of the incubation, and after the third and fifth refeeding, respectively.
    [Show full text]
  • Outline Release 7 7C
    Taxonomic Outline of Bacteria and Archaea, Release 7.7 Taxonomic Outline of the Bacteria and Archaea, Release 7.7 March 6, 2007. Part 4 – The Bacteria: Phylum “Proteobacteria”, Class Betaproteobacteria George M. Garrity, Timothy G. Lilburn, James R. Cole, Scott H. Harrison, Jean Euzéby, and Brian J. Tindall Class Betaproteobacteria VP Garrity et al 2006. N4Lid DOI: 10.1601/nm.16162 Order Burkholderiales VP Garrity et al 2006. N4Lid DOI: 10.1601/nm.1617 Family Burkholderiaceae VP Garrity et al 2006. N4Lid DOI: 10.1601/nm.1618 Genus Burkholderia VP Yabuuchi et al. 1993. GOLD ID: Gi01836. GCAT ID: 001596_GCAT. Sequenced strain: SRMrh-20 is from a non-type strain. Genome sequencing is incomplete. Number of genomes of this species sequenced 2 (GOLD) 1 (NCBI). N4Lid DOI: 10.1601/nm.1619 Burkholderia cepacia VP (Palleroni and Holmes 1981) Yabuuchi et al. 1993. <== Pseudomonas cepacia (basonym). Synonym links through N4Lid: 10.1601/ex.2584. Source of type material recommended for DOE sponsored genome sequencing by the JGI: ATCC 25416. High-quality 16S rRNA sequence S000438917 (RDP), U96927 (Genbank). GOLD ID: Gc00309. GCAT ID: 000301_GCAT. Entrez genome id: 10695. Sequenced strain: ATCC 17760, LMG 6991, NCIMB9086 is from a non-type strain. Genome sequencing is completed. Number of genomes of this species sequenced 1 (GOLD) 1 (NCBI). N4Lid DOI: 10.1601/nm.1620 Pseudomonas cepacia VP (ex Burkholder 1950) Palleroni and Holmes 1981. ==> Burkholderia cepacia (new combination). Synonym links through N4Lid: 10.1601/ex.2584. Source of type material recommended for DOE sponsored genome sequencing by the JGI: ATCC 25416. High- quality 16S rRNA sequence S000438917 (RDP), U96927 (Genbank).
    [Show full text]
  • Downloaded in GI List Format
    bioRxiv preprint doi: https://doi.org/10.1101/2020.04.17.046896; this version posted April 18, 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-NC 4.0 International license. 1 Expanding the diversity of bacterioplankton isolates and modeling isolation efficacy with 2 large scale dilution-to-extinction cultivation 3 4 5 6 Michael W. Henson1,#, V. Celeste Lanclos1, David M. Pitre2, Jessica Lee Weckhorst2,†, Anna M. 7 Lucchesi2, Chuankai Cheng1, Ben Temperton3*, and J. Cameron Thrash1* 8 9 1Department of Biological Sciences, University of Southern California, Los Angeles, CA 90089, 10 U.S.A. 11 2Department of Biological Sciences, Louisiana State University, Baton Rouge, LA 70803, 12 U.S.A. 13 3School of Biosciences, University of Exeter, Stocker Road, Exeter, EX4 4QD, U.K. 14 #Current affiliation: Department of Geophysical Sciences, University of Chicago, Chicago, IL 15 60637, U.S.A. 16 †Quantitative and Computational Biosciences Program, Baylor College of Medicine, Houston, 17 TX 77030, U.S.A. 18 19 *Correspondence: 20 21 J. Cameron Thrash 22 [email protected] 23 24 Ben Temperton 25 [email protected] 26 27 28 29 30 31 32 33 34 35 36 37 38 39 Running title: Evaluation of large-scale DTE cultivation 40 41 42 Keywords: dilution-to-extinction, cultivation, bacterioplankton, LSUCC, microbial ecology, 43 coastal microbiology 44 45 46 Page 1 of 43 bioRxiv preprint doi: https://doi.org/10.1101/2020.04.17.046896; this version posted April 18, 2020.
    [Show full text]
  • A New Symbiotic Lineage Related to Neisseria And
    A new symbiotic lineage related to Neisseria and Snodgrassella arises from the dynamic and diverse microbiomes in sucking lice Jana R´ıhov´aˇ 1, Giampiero Batani1, Sonia Rodr´ıguez-Ruano1, Jana Martinu2, Eva Novakova1, and V´aclav Hypˇsa1 1University of South Bohemia Faculty of Science 2Jihoceska Univerzita v Ceskych Budejovicich May 5, 2020 Abstract Phylogenetic diversity of symbiotic bacteria in sucking lice suggests that lice have experienced a complex history of symbiont acquisition, loss, and replacement during their evolution. By combining metagenomics and amplicon screening across several populations of two louse genera (Polyplax and Hoplopleura) we describe a novel louse symbiont lineage related to Neisseria and Snodgrassella, and show its independent origin within dynamic lice microbiomes. While the genomes of these symbionts are highly similar in both lice genera, their respective distributions and status within lice microbiomes indicate that they have different functions and history. In Hoplopleura acanthopus, the Neisseria-related bacterium is a dominant obligate symbiont universally present across several host’s populations, and seems to be replacing a presumably older and more degenerated obligate symbiont. In contrast, the Polyplax microbiomes are dominated by the obligate symbiont Legionella polyplacis, with the Neisseria-related bacterium co-occurring only in some samples and with much lower abundance. Introduction An increasing number of studies demonstrate ubiquity and high diversity of insect-associated microbiomes (Douglas, 2015; Engel, & Moran, 2013). These microbial communities, composed of various pathogens, commensals and random contaminants, can serve as natural sources of beneficial symbiotic bacteria. In some insects they give rise to highly specialized, maternally-transmitted mutualists called primary symbionts (P-symbionts), which contribute to the host’s metabolism (Douglas, 1989).
    [Show full text]
  • A Report on 57 Unrecorded Bacterial Species in Korea in the Classes Betaproteobacteria and Gammaproteobacteria
    Journal of Species Research 6(2):101-118, 2017 A report on 57 unrecorded bacterial species in Korea in the classes Betaproteobacteria and Gammaproteobacteria Hyun Sik Kim1, Chang-Jun Cha2, Jang-Cheon Cho3, Wan-Taek Im4, Kwang Yeop Jahng5, Che Ok Jeon6, Kiseong Joh7, Seung Bum Kim8, Chi Nam Seong9, Wonyong Kim10, Hana Yi11, Soon Dong Lee12, Jung-Hoon Yoon13 and Jin-Woo Bae1,* 1Department of Biology, Kyung Hee University, Seoul 02447, Republic of Korea 2Department of Biotechnology, Chung-Ang University, Anseong 17546, Republic of Korea 3Department of Biological Sciences, Inha University, Incheon 22212, Republic of Korea 4Department of Biotechnology, Hankyong National University, Anseong 17579, Republic of Korea 5Department of Life Sciences, Chonbuk National University, Jeonju 54896, Republic of Korea 6Department of Life Science, Chung-Ang University, Seoul 06974, Republic of Korea 7Department of Bioscience and Biotechnology, Hankuk University of Foreign Studies, Geonggi 17035, Republic of Korea 8Department of Microbiology, Chungnam National University, Daejeon 34134, Republic of Korea 9Department of Biology, Sunchon National University, Suncheon 57922, Republic of Korea 10Department of Microbiology, Chung-Ang University College of Medicine, Seoul 06974, Republic of Korea 11School of Biosystem and Biomedical Science, Department of Public Health Science, Korea University, Seoul 02841, Republic of Korea 12Department of Science Education, Jeju National University, Jeju 63243, Republic of Korea 13Department of Food Science and Biotechnology,
    [Show full text]
  • Comparative Microbial Community
    International Journal of Speleology 42 (3) 181-192 Tampa, FL (USA) September 2013 Available online at scholarcommons.usf.edu/ijs/ & www.ijs.speleo.it International Journal of Speleology Official Journal of Union Internationale de Spéléologie Comparative microbial community composition from secondary carbonate (moonmilk) deposits: implications for the Cansiliella servadeii cave hygropetric food web Annette Summers Engel1*, Maurizio G. Paoletti2*, Mattia Beggio2, Luca Dorigo3, Alberto Pamio2, Tiziano Gomiero2, Claudio Furlan2, Mauro Brilli4, Angelo Leandro Dreon2, Roberto Bertoni5, and Andrea Squartini6 1 Department of Earth and Planetary Sciences, University of Tennessee, Knoxville, TN 37996 USA 2 Dipartimento di Biologia, Università di Padova, Agroecology and Ethnobiology, Padova 35100 Italy 3 Museo di Storia Naturale di Udine, Udine 33100 Italy 4 Instituto di Geologia Ambientale e Geoingegneria, Dipartimento di Scienze della Terra, Università La Sapienza di Roma, Roma 00185 Italy 5 CNR Istituto per lo Studio degli Ecosistemi Largo Tonolli 50, Verbania Pallanza 28922 Italy 6 Dipartimento di Agronomia Animali Alimenti Risorse Naturali e Ambiente, Università di Padova - Agripolis, Viale dell’Università, 16, 10 Legnaro (Padova) 35020 Italy Abstract: The microbial diversity of moonmilk, a hydrated calcium carbonate speleothem, was evaluated from two Italian caves to provide context for the food web of highly-specialized troglobitic beetles, Cansiliella spp. (Leptodirinae), with distinctive carbon and nitrogen isotope values indicative of a novel food source. The moonmilk and associated percolating waters had low to no extractable chlorophyll, with an average organic C:N ratio of 9, indicating limited allochthonous input and a significant contribution from microbial biomass. The biomass from moonmilk was estimated to be ~104 micro- and meiofaunal individuals per m2 and ~107 microbial cells/ml.
    [Show full text]