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Defining the Rhizobium Leguminosarum Species Complex
Preprints (www.preprints.org) | NOT PEER-REVIEWED | Posted: 12 December 2020 doi:10.20944/preprints202012.0297.v1 Article Defining the Rhizobium leguminosarum species complex J. Peter W. Young 1,*, Sara Moeskjær 2, Alexey Afonin 3, Praveen Rahi 4, Marta Maluk 5, Euan K. James 5, Maria Izabel A. Cavassim 6, M. Harun-or Rashid 7, Aregu Amsalu Aserse 8, Benjamin J. Perry 9, En Tao Wang 10, Encarna Velázquez 11, Evgeny E. Andronov 12, Anastasia Tampakaki 13, José David Flores Félix 14, Raúl Rivas González 11, Sameh H. Youseif 15, Marc Lepetit 16, Stéphane Boivin 16, Beatriz Jorrin 17, Gregory J. Kenicer 18, Álvaro Peix 19, Michael F. Hynes 20, Martha Helena Ramírez-Bahena 21, Arvind Gulati 22 and Chang-Fu Tian 23 1 Department of Biology, University of York, York YO10 5DD, UK 2 Department of Molecular Biology and Genetics, Aarhus University, Aarhus, Denmark; [email protected] 3 Laboratory for genetics of plant-microbe interactions, ARRIAM, Pushkin, 196608 Saint-Petersburg, Russia; [email protected] 4 National Centre for Microbial Resource, National Centre for Cell Science, Pune, India; [email protected] 5 Ecological Sciences, The James Hutton Institute, Invergowrie, Dundee DD2 5DA, UK; [email protected] (M.M.); [email protected] (E.K.J.) 6 Department of Ecology and Evolutionary Biology, University of California, Los Angeles, CA 90095, USA; [email protected] 7 Biotechnology Division, Bangladesh Institute of Nuclear Agriculture (BINA), Bangladesh; [email protected] 8 Ecosystems and Environment Research programme , Faculty of Biological and Environmental Sciences, University of Helsinki, FI-00014 Finland; [email protected] 9 Department of Microbiology and Immunology, University of Otago, Dunedin 9016, New Zealand; [email protected] 10 Departamento de Microbiología, Escuela Nacional de Ciencias Biológicas, Instituto Politécnico Nacional, Cd. -
Specificity in Legume-Rhizobia Symbioses
International Journal of Molecular Sciences Review Specificity in Legume-Rhizobia Symbioses Mitchell Andrews * and Morag E. Andrews Faculty of Agriculture and Life Sciences, Lincoln University, PO Box 84, Lincoln 7647, New Zealand; [email protected] * Correspondence: [email protected]; Tel.: +64-3-423-0692 Academic Editors: Peter M. Gresshoff and Brett Ferguson Received: 12 February 2017; Accepted: 21 March 2017; Published: 26 March 2017 Abstract: Most species in the Leguminosae (legume family) can fix atmospheric nitrogen (N2) via symbiotic bacteria (rhizobia) in root nodules. Here, the literature on legume-rhizobia symbioses in field soils was reviewed and genotypically characterised rhizobia related to the taxonomy of the legumes from which they were isolated. The Leguminosae was divided into three sub-families, the Caesalpinioideae, Mimosoideae and Papilionoideae. Bradyrhizobium spp. were the exclusive rhizobial symbionts of species in the Caesalpinioideae, but data are limited. Generally, a range of rhizobia genera nodulated legume species across the two Mimosoideae tribes Ingeae and Mimoseae, but Mimosa spp. show specificity towards Burkholderia in central and southern Brazil, Rhizobium/Ensifer in central Mexico and Cupriavidus in southern Uruguay. These specific symbioses are likely to be at least in part related to the relative occurrence of the potential symbionts in soils of the different regions. Generally, Papilionoideae species were promiscuous in relation to rhizobial symbionts, but specificity for rhizobial genus appears to hold at the tribe level for the Fabeae (Rhizobium), the genus level for Cytisus (Bradyrhizobium), Lupinus (Bradyrhizobium) and the New Zealand native Sophora spp. (Mesorhizobium) and species level for Cicer arietinum (Mesorhizobium), Listia bainesii (Methylobacterium) and Listia angolensis (Microvirga). -
Light Modulates Important Physiological Features of Ralstonia
www.nature.com/scientificreports OPEN Light modulates important physiological features of Ralstonia pseudosolanacearum during the colonization of tomato plants Josefna Tano1,6, María Belén Ripa1,6, María Laura Tondo2, Analía Carrau1, Silvana Petrocelli2, María Victoria Rodriguez3, Virginia Ferreira4, María Inés Siri4, Laura Piskulic5 & Elena Graciela Orellano1* Ralstonia pseudosolanacearum GMI1000 (Rpso GMI1000) is a soil-borne vascular phytopathogen that infects host plants through the root system causing wilting disease in a wide range of agro- economic interest crops, producing economical losses. Several features contribute to the full bacterial virulence. In this work we study the participation of light, an important environmental factor, in the regulation of the physiological attributes and infectivity of Rpso GMI1000. In silico analysis of the Rpso genome revealed the presence of a Rsp0254 gene, which encodes a putative blue light LOV-type photoreceptor. We constructed a mutant strain of Rpso lacking the LOV protein and found that the loss of this protein and light, infuenced characteristics involved in the pathogenicity process such as motility, adhesion and the bioflms development, which allows the successful host plant colonization, rendering bacterial wilt. This protein could be involved in the adaptive responses to environmental changes. We demonstrated that light sensing and the LOV protein, would be used as a location signal in the host plant, to regulate the expression of several virulence factors, in a time and tissue dependent way. Consequently, bacteria could use an external signal and Rpsolov gene to know their location within plant tissue during the colonization process. Light is an important environmental factor in all ecosystems because it is a source of energy and information. -
Analysis of the Interaction Between Pisum Sativum L. and Rhizobium Laguerreae Strains Nodulating This Legume in Northwest Spain
plants Article Analysis of the Interaction between Pisum sativum L. and Rhizobium laguerreae Strains Nodulating This Legume in Northwest Spain 1, 1 1, 2 José David Flores-Félix y , Lorena Carro , Eugenia Cerda-Castillo z, Andrea Squartini , Raúl Rivas 1,3,4 and Encarna Velázquez 1,3,4,* 1 Departamento de Microbiologíay Genética, Universidad de Salamanca, 37007 Salamanca, Spain; jdfl[email protected] (J.D.F.-F.); [email protected] (L.C.); [email protected] (E.C.-C.); [email protected] (R.R.) 2 Department of Agronomy, Food, Natural Resources, Animals and Environment, University of Padova, 35020 Legnaro, Italy; [email protected] 3 Instituto Hispanoluso de Investigaciones Agrarias, 37007 Salamanca, Spain 4 Unidad Asociada USAL-IRNASA, 37007 Salamanca, Spain * Correspondence: [email protected]; Tel.: +349-2329-4532 Present address: CICS-UBI–Health Sciences Research Centre, University of Beira Interior, y 6200-506 Covilhã, Portugal. Present address: Departamento de Biología, Facultad de Ciencia y Tecnología, Universidad Nacional z Autónoma de Nicaragua, León 21000, Nicaragua. Received: 3 November 2020; Accepted: 9 December 2020; Published: 11 December 2020 Abstract: Pisum sativum L. (pea) is one of the most cultivated grain legumes in European countries due to the high protein content of its seeds. Nevertheless, the rhizobial microsymbionts of this legume have been scarcely studied in these countries. In this work, we analyzed the rhizobial strains nodulating the pea in a region from Northwestern Spain, where this legume is widely cultivated. The isolated strains were genetically diverse, and the phylogenetic analysis of core and symbiotic genes showed that these strains belong to different clusters related to R. -
BEATRIZ JORRIN RUBIO.Pdf
Universidad Politécnica de Madrid Escuela Técnica Superior de Ingenieros Agrónomos Genomics of Specificity in the Symbiotic Interaction between Rhizobium leguminosarum and Legumes Ph.D Thesis Beatriz Jorrín Rubio Licenciada en Biología 2016 Universidad Politécnica de Madrid Escuela Técnica Superior de Ingenieros Agrónomos Departamento de Biotecnología Ph.D Thesis: Genomics of Specificity in the Symbiotic Interaction between Rhizobium leguminosarum and Legumes Author: Beatriz Jorrín Rubio Licenciada en Biología Director: Juan Imperial Ródenas Licenciado en Biología Doctor en Biología Madrid, 2016 A mis padres A Sofía A mis hermanos “There’s the story, then there’s the real story, then there’s the story of how the story came to be told. Then there’s what you leave out of the story. Which is part of the story too.” Maddaddam Margaret Atwood RECONOCIMIENTOS Esta Tesis se ha desarrollado en el laboratorio de Genómica y Biotecnología de Bacterias Diazotróficas Asociadas con Plantas del Centro de Biotecnología y Genómica de Plantas (UPM-INIA). Para el desarrollo de esta Tesis he contado con una beca UPM homologada financiada por el proyecto MICROGEN: Genómica Comparada Microbiana (Programa Consolider), que ha sido también el proyecto financiador del trabajo experimental. Quisiera reconocer la labor de aquellas personas que han contribuido al desarrollo y consecución de esta Tesis. Dr. Juan Imperial, por la dirección y supervisión de esta Tesis. Por ser un gran mentor y por enseñarme todo lo que sé. Dr. Manuel González Guerrero, por enseñarme los entresijos de la Ciencia y del trabajo en el laboratorio. Dra. Gisèle Laguerre, por su participación en el inicio de este proyecto y por facilitarnos el suelo P1 de Dijon. -
2010.-Hungria-MLI.Pdf
Mohammad Saghir Khan l Almas Zaidi Javed Musarrat Editors Microbes for Legume Improvement SpringerWienNewYork Editors Dr. Mohammad Saghir Khan Dr. Almas Zaidi Aligarh Muslim University Aligarh Muslim University Fac. Agricultural Sciences Fac. Agricultural Sciences Dept. Agricultural Microbiology Dept. Agricultural Microbiology 202002 Aligarh 202002 Aligarh India India [email protected] [email protected] Prof. Dr. Javed Musarrat Aligarh Muslim University Fac. Agricultural Sciences Dept. Agricultural Microbiology 202002 Aligarh India [email protected] This work is subject to copyright. All rights are reserved, whether the whole or part of the material is concerned, specifically those of translation, reprinting, re-use of illustrations, broadcasting, reproduction by photocopying machines or similar means, and storage in data banks. Product Liability: The publisher can give no guarantee for all the information contained in this book. The use of registered names, trademarks, etc. in this publication does not imply, even in the absence of a specific statement, that such names are exempt from the relevant protective laws and regulations and therefore free for general use. # 2010 Springer-Verlag/Wien Printed in Germany SpringerWienNewYork is a part of Springer Science+Business Media springer.at Typesetting: SPI, Pondicherry, India Printed on acid-free and chlorine-free bleached paper SPIN: 12711161 With 23 (partly coloured) Figures Library of Congress Control Number: 2010931546 ISBN 978-3-211-99752-9 e-ISBN 978-3-211-99753-6 DOI 10.1007/978-3-211-99753-6 SpringerWienNewYork Preface The farmer folks around the world are facing acute problems in providing plants with required nutrients due to inadequate supply of raw materials, poor storage quality, indiscriminate uses and unaffordable hike in the costs of synthetic chemical fertilizers. -
Evolution of Hiv and Its Vaccine
Journal of Current Perspectives in Applied Microbiology ISSN: 2278-1250 ©2012 Vol.1 (1) pp.1-5 JOURNAL OF CURRENT PERSPECTIVES IN APPLIED MICROBIOLOGY JULY 2012 VOLUME 1 NUMBER 1 ISSN: 2278-1250 CONTENTS S. Page Particulars No. No. 1 Viral Crusaders and Vaccine for HIV 3 P. Rajendran ………………………………………………………….. 2 Plant Growth Promoting Rhizobacteria for Biocontrol of 8 phytopathogens and Yield Enhancement of Phaseolus vulgaris L. Pankaj Kumar and R.C. Dubey…………..…………………………..... 3 Microbial Diversity in Coastal Mangrove Ecosystems 40 K. Kathiresan and R. Balagurunathan ………………………………... 4 Studies on Cadmium Biosorption by Cadmium Resistant 48 Bacterial Strains from Uppanar estuary, Cuddalore, Southeast Coast of India K. Mathivanan and R. Rajaram ……………………………………… 5 Isolation and Characterization of Plant Growth Promoting 54 Rhizobacteria (PGPR) from Vermistabilized Organic Substrates and their Effect on Plant Growth M. Prakash, V. Sathishkumar, T. Sivakami and N. Karmegam ……… 6 Isolation of Thermo Tolerant Escherichia coli from Drinking 63 Water of Namakkal District and Their Multiple Drug Resistance K. Srinivasan, C. Mohanasundari and K. Rasna .................................... 7 Isolation and Screening of Extremophilic Actinomycetes from 68 Alkaline Soil for the Biosynthesis of Silver Nanoparticles Vidhya and R. Balagurunathan ………………………………………. 8 BCL-2 Expression in Systemic Lupus Erythematosus Cases in 71 Chennai, Tamil Nadu M. Karthikeyan, P. Rajendran, S. Anandan, G. Ashok, S. Anbalagan, R. Nivedha,S. Melani Rajendran and Porkodi ………………………... 1 Journal of Current Perspectives in Applied Microbiology ISSN: 2278-1250 ©2012 Vol.1 (1) pp.1-5 July 2012, Volume 1, Number 1 ISSN: 2278-1250 Copy Right © JCPAM-2012 Vol. 1 No. 1 All rights reserved. No part of material protected by this copyright notice may be reproduced or utilized in any form or by any means, electronic or mechanical including photocopying, recording or by any information storage and retrieval system, without the prior written permission from the copyright owner. -
Transcriptomic Studies Reveal That the Rhizobium Leguminosarum Serine
International Journal of Molecular Sciences Article Transcriptomic Studies Reveal that the Rhizobium leguminosarum Serine/Threonine Protein Phosphatase PssZ has a Role in the Synthesis of Cell-Surface Components, Nutrient Utilization, and Other Cellular Processes Paulina Lipa 1 , José-María Vinardell 2 and Monika Janczarek 1,* 1 Department of Genetics and Microbiology, Institute of Microbiology and Biotechnology, Faculty of Biology and Biotechnology, Maria Curie-Skłodowska University, Akademicka 19 St., 20-033 Lublin, Poland; [email protected] 2 Department of Microbiology, Faculty of Biology, University of Sevilla, Avda. Reina Mercedes 6, 41012 Sevilla, Spain; [email protected] * Correspondence: [email protected]; Tel.: +48-81-537-5974 Received: 21 May 2019; Accepted: 11 June 2019; Published: 14 June 2019 Abstract: Rhizobium leguminosarum bv. trifolii is a soil bacterium capable of establishing symbiotic associations with clover plants (Trifolium spp.). Surface polysaccharides, transport systems, and extracellular components synthesized by this bacterium are required for both the adaptation to changing environmental conditions and successful infection of host plant roots. The pssZ gene located in the Pss-I region, which is involved in the synthesis of extracellular polysaccharide, encodes a protein belonging to the group of serine/threonine protein phosphatases. In this study, a comparative transcriptomic analysis of R. leguminosarum bv. trifolii wild-type strain Rt24.2 and its derivative Rt297 carrying a pssZ mutation was performed. RNA-Seq data identified a large number of genes differentially expressed in these two backgrounds. Transcriptome profiling of the pssZ mutant revealed a role of the PssZ protein in several cellular processes, including cell signalling, transcription regulation, synthesis of cell-surface polysaccharides and components, and bacterial metabolism. -
A Genomic Encyclopedia of the Root Nodule Bacteria
Reeve et al. Standards in Genomic Sciences 2015, 10:14 http://www.standardsingenomics.com/content/10/1/14 COMMENTARY Open Access A Genomic Encyclopedia of the Root Nodule Bacteria: assessing genetic diversity through a systematic biogeographic survey Wayne Reeve1*, Julie Ardley1, Rui Tian1, Leila Eshragi1,2, Je Won Yoon1, Pinyaruk Ngamwisetkun1, Rekha Seshadri3, Natalia N Ivanova3 and Nikos C Kyrpides3,4 Abstract Root nodule bacteria are free-living soil bacteria, belonging to diverse genera within the Alphaproteobacteria and Betaproteobacteria, that have the capacity to form nitrogen-fixing symbioses with legumes. The symbiosis is specific and is governed by signaling molecules produced from both host and bacteria. Sequencing of several model RNB genomes has provided valuable insights into the genetic basis of symbiosis. However, the small number of se- quenced RNB genomes available does not currently reflect the phylogenetic diversity of RNB, or the variety of mechanisms that lead to symbiosis in different legume hosts. This prevents a broad understanding of symbiotic interactions and the factors that govern the biogeography of host-microbe symbioses. Here, we outline a proposal to expand the number of sequenced RNB strains, which aims to capture this phylogenetic and biogeographic diversity. Through the Vavilov centers of diversity (Proposal ID: 231) and GEBA-RNB (Proposal ID: 882) projects we will sequence 107 RNB strains, isolated from diverse legume hosts in various geographic locations around the world. The nominated strains belong to nine of the 16 currently validly described RNB genera. They include 13 type strains, as well as elite inoculant strains of high commercial importance. These projects will strongly support systematic sequence-based studies of RNB and contribute to our understanding of the effects of biogeography on the evolution of different species of RNB, as well as the mechanisms that determine the specificity and effectiveness of nodulation and symbiotic nitrogen fixation by RNB with diverse legume hosts. -
Multi Locus Sequence Analysis of Root Nodule Isolates from Lotus
biblio.ugent.be The UGent Institutional Repository is the electronic archiving and dissemination platform for all UGent research publications. Ghent University has implemented a mandate stipulating that all academic publications of UGent researchers should be deposited and archived in this repository. Except for items where current copyright restrictions apply, these papers are available in Open Access. This item is the archived peer‐reviewed author‐version of: Multi Locus Sequence Analysis of root nodule isolates from Lotus arabicus (Senegal), Lotus creticus, Argyrolobium uniflorum and Medicago sativa (Tunisia) and description of Ensifer numidicus sp. nov. and Ensifer garamanticus sp. nov. C. Merabet, M. Martens, M. Mahdhi, F. Zakhia, A. Sy, C. Le Roux, O. Domergue, R. Coopman, A. Bekki, M. Mars, A.Willems and P. de Lajudie. In: International Journal of Systematic and Evolutionary Microbiology 60 (3), 664-674, 2010. http://ijs.sgmjournals.org/cgi/content/full/60/3/664 To refer to or to cite this work, please use the citation to the published version: Merabet C., M. Martens, M. Mahdhi, F. Zakhia, A. Sy, C. Le Roux, O. Domergue, R. Coopman, A. Bekki, M. Mars, A.Willems and P. de Lajudie. 2010. Int. J. Syst. Evol. Microbiol. 60:664-674. DOI 10.1099/ijs.0.012088-0 1 IJS/2009/012088 REVISED MS 2 3 Multi Locus Sequence Analysis of root nodule isolates from Lotus arabicus 4 (Senegal), Lotus creticus, Argyrolobium uniflorum and Medicago sativa 5 (Tunisia) and description of Ensifer numidicus sp. nov. and Ensifer 6 garamanticus sp. nov. 7 8 C. Merabet1,2, M. Martens3, M. Mahdhi2,4, F. -
A Revision of Rhizobium Frank 1889, with an Emended Description of The
International Journal of Systematic and Evolutionary Microbiology (2001), 51, 89–103 Printed in Great Britain A revision of Rhizobium Frank 1889, with an emended description of the genus, and the inclusion of all species of Agrobacterium Conn 1942 and Allorhizobium undicola de Lajudie et al. 1998 as new combinations: Rhizobium radiobacter, R. rhizogenes, R. rubi, R. undicola and R. vitis J. M. Young,1 L. D. Kuykendall,2 E. Martı!nez-Romero,3 A. Kerr4 and H. Sawada5 Author for correspondence: L. D. Kuykendall. Tel: j1 301 504 7072. Fax: j1 301 504 5449. e-mail: dkuykend!asrr.arsusda.gov 1 Landcare Research, Private Rhizobium, Agrobacterium and Allorhizobium are genera within the bacterial Bag 92170, Auckland, family Rhizobiaceae, together with Sinorhizobium. The species of New Zealand Agrobacterium, Agrobacterium tumefaciens (syn. Agrobacterium radiobacter), 2 Plant Sciences Institute, Agrobacterium rhizogenes, Agrobacterium rubi and Agrobacterium vitis, Beltsville Agricultural Research Center, USDA- together with Allorhizobium undicola, form a monophyletic group with all ARS, 10300 Baltimore Ave, Rhizobium species, based on comparative 16S rDNA analyses. Agrobacterium is Beltsville, MD 20705, USA an artificial genus comprising plant-pathogenic species. The monophyletic 3 Centro de Investigacio! n nature of Agrobacterium, Allorhizobium and Rhizobium and their common sobre Fijacio! nde phenotypic generic circumscription support their amalgamation into a single Nitro! geno, UNAM. AP 565-A, Cuernavaca, genus, Rhizobium. Agrobacterium tumefaciens was conserved as the type Morelos, Mexico species of Agrobacterium, but the epithet radiobacter would take precedence 4 419 Carrington Street, as Rhizobium radiobacter in the revised genus. The proposed new Adelaide, South Australia combinations are Rhizobium radiobacter, Rhizobium rhizogenes, Rhizobium 5000, Australia rubi, Rhizobium undicola and Rhizobium vitis. -
The Genome of Rhizobium Leguminosarum Has Recognizable Core and Accessory Components
This is a repository copy of The genome of Rhizobium leguminosarum has recognizable core and accessory components. White Rose Research Online URL for this paper: https://eprints.whiterose.ac.uk/1739/ Article: Young, J P W orcid.org/0000-0001-5259-4830, Crossman, L C, Johnston, A W B et al. (29 more authors) (2006) The genome of Rhizobium leguminosarum has recognizable core and accessory components. Genome biology. R34. -. ISSN 1474-760X https://doi.org/10.1186/gb-2006-7-4-r34 Reuse Items deposited in White Rose Research Online are protected by copyright, with all rights reserved unless indicated otherwise. They may be downloaded and/or printed for private study, or other acts as permitted by national copyright laws. The publisher or other rights holders may allow further reproduction and re-use of the full text version. This is indicated by the licence information on the White Rose Research Online record for the item. Takedown If you consider content in White Rose Research Online to be in breach of UK law, please notify us by emailing [email protected] including the URL of the record and the reason for the withdrawal request. [email protected] https://eprints.whiterose.ac.uk/ Research2006YoungetVolume al. 7, Issue 4, Article R34 Open Access The genome of Rhizobium leguminosarum has recognizable core and comment accessory components J Peter W Young*, Lisa C Crossman†, Andrew WB Johnston‡, Nicholas R Thomson†, Zara F Ghazoui*, Katherine H Hull*, Margaret Wexler‡, Andrew RJ Curson‡, Jonathan D Todd‡, Philip S Poole§, Tim H Mauchline§, Alison K East§, Michael A Quail†, Carol Churcher†, Claire Arrowsmith†, Inna Cherevach†, Tracey Chillingworth†, Kay Clarke†, reviews Ann Cronin†, Paul Davis†, Audrey Fraser†, Zahra Hance†, Heidi Hauser†, Kay Jagels†, Sharon Moule†, Karen Mungall†, Halina Norbertczak†, Ester Rabbinowitsch†, Mandy Sanders†, Mark Simmonds†, Sally Whitehead† and Julian Parkhill† reports Addresses: *Department of Biology, University of York, York, UK.