DOCSLIB.ORG

Doctor of Philosophy

Total Page：16

File Type：pdf, Size：1020Kb

Download full-text PDF Read full-text
Doctor of Philosophy BIOPROSPECTS OF RHIZOSPHERE BACTERIA ASSOCIATED WITH COASTAL SAND DUNE VEGETATION, IPOMOEA PES-CAPRAE AND SPINIFEX LITTOREUS Thesis submitted to the GOA UNIVERSITY for the award of the degree of DOCTOR OF PHILOSOPHY In MICROBIOLOGY by Aureen Remedios Lemos Godinho, M. Sc., M. Phil. '.,---* V ,...-' '—"•-..,„, So 1\ .14 G.* 7 •.. , , `1, A. , , . r ......----- ..... Under the guidance of Li t. ri Dr.(Mrs.) Saroj Bhosle I *7sil Reader & Head - ------" ,4 Department of Microbiology ( CZ P‘,/;:41. Goa University, Goa AUGUST 2007 Certificate This is to certify that Ms. Aureen Remedios Lemos Godinho has worked on the thesis entitled "Bioprospects of rhizosphere bacteria associated with coastal sand dune vegetation, Ipomoea pes-caprae and Spinifex littoreus" under my supervision and guidance. This thesis, being submitted to the Goa University, Taleigao Plateau, Goa, for the award of the degree of Doctor of Philosophy in Microbiology, is an original record of the work carried out by the candidate herself and has not been submitted for the award of any other degree or diploma of this or any other University in India or abroad. Dr. (Mrs.) Saroj Bhosle RESEARCH GUIDE, Reader & Head, Department of Microbiology, \/ ,■ 1 Uct fre Goa University, Goa-403206 9 K Texaftc( e. eS Declaration I hereby state that this thesis for the PhD degree in Microbiology on "Bioprospects of rhizosphere bacteria associated with coastal sand dune vegetation, Ipomoea pes-caprae and Spinifex littoreus" is my original contribution and that the thesis and any part of it have not been previously submitted for the award of any degree/diploma of any University or Institute. To the best of my knowledge, the present study is the first comprehensive work of its kind from this area. Lk_ o „koi° Aureen Reme los Lemos Godinho Department of Microbiology Goa University Goa-403206 Acknowledgement This thesis was an experience that was challenging, illuminating and enjoyable. I would like to address my warmest acknowledgments to all the people who helped and supported me during the realization of this thesis work. I express my deep sense of gratitude and sincere thanks to my research guide and Head of the Department of Microbiology, Dr Saroj Bhosle, for her guidance, support, motivation, valuable discussions, patience and advice throughout the study. You are truly a mentor and a friend. Thanks for being such an enthusiastic and inspiring guide! I have learned a lot from you. I am also thankful to her for providing the necessary facilities as head of department and Research coordinator of Ocean and Atmospheric Science and Technology Cell (OAST). I also extend my sincere appreciation to Dr. B. Ingole, Scientist, NIO for suggestions and critical comments as member of my Faculty Research Committee and to Prof. G. N. Nayak, Dean, Faculty of Life Sciences, Goa University (GU) for the valuable comments and suggestions and for providing laboratory facilities for my work. My heartfelt gratitude to Prof U M X Sangodkar, Prof S Mavinkurve and Prof D J Bhat who have been instrumental in broadening my icnowledge of the subject and who have been sources of inspiration to carry out my research work. I am also grateful to the faculty of the Department of Microbiology, Goa University, Dr J D'souza, Dr S Nazareth, Dr I Furtado, Dr S K Dubey and Dr S Garg, for their advice and support throughout my work period. I am grateful to Dr. V. S. Korikanthimath , Director, Indian Council of Agricultural Research (ICAR), Goa for granting me permission to carry out part of my thesis work at ICAR and providing me with necessary facilities. I would like to express my deepest gratitude to Dr R Ramesh, Scientist, ICAR for guidance, constructive advice and providing me with the facilities to carry out my research work on plant growth promotion by sand dune bacteria at the Plant Pathology Laboratory at ICAR. I would like to acknowledge, Dr N B Bhosle, Scientist, National Institute of Oceanography (NIO) for his generous help and guidance in the isolation and characterization studies of the exopolymers and the Gas chromatographic analysis of the exopolymers. Special thanks to all my friends at the Marine Corrosion and Material Research Division(MCMRD), NIO, Dr. Rakhee Kakode, Anand Jain, Loreta Fernandes, Vishwas Khodse, Ranjita Harji, Mondher Noman and Sangeetha Jadhav for their help during the analysis. I am grateful to Dr Y Souche (NCCS, Pune) and Dr Upal Roy for the 16s rRNA sequencing of the sand dune bacterial cultures. I would also like to thank Dr P K Sharma, Department of Botany,G U for his help with the HPLC analysis of the pigment extracts and chlorophyll fluorimetry, Dr D J Bhat, Department of Botany, G U for granting permission to use the Lyophilizer, Dr P Sarode and Dr K R Priolkar, Department of Physics, G U for X-ray diffraction studies of the exopolymers. Thanks to Mr Aareef Sardar and Mr Khedekar, NIO for capturing the images of my culture slides on the Scanning Electron microscope. I would also like to thank Leena Verenkar, SESA Goa Mines, for providing me with mine reject soil samples to carry out my experiments. A heartfelt thanks to the non teaching staff members of the Department of Microbiology, Mr Shashikant Parab in particular who helped me find chemicals and other materials that I needed for my research from time to time. I would also like to thank Sir Anant, Ladoo, Budhaji, Dominic and Sumati for their kind help in my laboratory work. I would like to thank Anna Fernandes, Saraswati Naik and Deepa Chari for their friendship and for the fond memories of the good times we have had together. I would like to thank Rajeshwari and Kumud Phadte, who helped me with my experimental work at ICAR. Special thanks to Gauri Phatke, who helped me whenever I needed her assistance in nursery studies. A heartfelt thank you to the staff at ICAR who helped me a lot with my field work, especially Prafula and Ankush, from assisting me to filling the pots with soil to watering the pots daily. I am thankful to the Department of Ocean Development (DOD),Govt. of India for providing financial support for this investigation. I am also thankful to the Librarian of the Indian Institute of Science(IISc), Bangalore and the Librarian of University of Agricultural Sciences, Gandhi Krishi Vignyan Kendra(GKVK), Bangalore for helping me in procuring required reference papers which have helped me in the compilation of my thesis. In a special way, I would like to thank my fellow PhD colleagues and good friends, Rasika Gaokar and Naveen Krishnamurthy, for all their help and support throughout these years. Your friendship is truly priceless. I would like to thank my fellow research colleagues, Tabitha Marbaniang, Christina De Souza, Lakshangy Chari, Nimali Prabhu, Celisa Santimano, Lorna Silveira, Vidya Ramachandran, Anju Pandey, Neelam Singh, R Krishnamurthy and Prakash Munnoli for their practical support, friendship and all the fun times we have had. I would also like to acknowledge the suggestions and advice given to me by my senior colleagues and friends, Dr Chanda Parulekar, Dr Trupti Rawte, Dr Judith Braganca, Dr Upal Roy, Dr Madhan Raghavan, Dr Yogita Sardessai, Dr Sunita Borkar and Dr V Bramhachari which at some point or the other have helped me and led me to the successful completion of my thesis. I would also like to thank my friends at the Department of Botany, Janet Vaz, Dr Rupali, Dr Pratibha and Pooja for their help whenever I needed Thank you to my dear friend, Girija Parvatkar, for efficient organisation of numerous field trips and for always being there for me anytime. My wonderful and dear friends Deepa Nair, Bina Bhobe, Rohan Fernandes, Sheetal Naik and Ambuja Bhingi, I will always have a special place for you, filled with great memories and laughter. My sincere thanks to all my past and present MSc friends whom I have not included here for want of space. A special note of thanks to Mr. Sachin Patil for designing the cover page of my thesis. I want to thank my parents, Mama and Papa, I want you to know how grateful I am for all the love, patience and support you have given me over the years. Thanks for standing by me and supporting me in all the major decisions in my life. A special note of appreciation to my dearest husband, Lawrence, I want to thank you for being a friend and a loving companion. Thank you for your understanding, encouragement, patience and consistent support which has led me to the successful completion of my thesis. Your motivation and unwavering support towards the completion of my work has made this endeavor possible. I would also like to thank my brothers and my in-laws for their constant encouragement and support without whom this would not have been possible. Most importantly, Almighty God who brought me to this path and led me through it, nurturing me and pruning me to grow into what pleases Him. This work is to His honour. Aureen Godinho August 2007 D•eolizateoi To vu. pa newts with Love PIAA erPtItt/Ote CONTENTS Chapter No. Chapter Page No. List of abbreviations List of figures and tables Introduction 1 - 12 Chapter 1 Literature survey 13 - 62 Chapter 2 Biodiversity of bacteria associated with sand dune 63 - 134 vegetation, Ipomoea pes-caprae and Spinifex littoreus Chapter 3 Isolation, extraction and characterization of 135 - 180 exopolysaccharide production by Microbacterium arborescens Chapter 4 Plant growth promoting characteristics of four 181 - 238 potential sand dune rhizobacterial isolates Chapter 5 Growth promoting ability of sand dune bacteria in 239 - 266 eggplant
Load more

Recommended publications
  • Statement on the Update of the List of QPS-Recommended
    Downloaded from orbit.dtu.dk on: Sep 27, 2021 EFSA BIOHAZ Panel (EFSA Panel on Biological Hazards), 2014. Statement on the update of the list of QPS-recommended biological agents intentionally added to food or feed as notified to EFSA 1: Suitability of taxonomic units notified to EFSA until October 2014 EFSA Publication Link to article, DOI: 10.2903/j.efsa.2014.3938 Publication date: 2014 Document Version Publisher's PDF, also known as Version of record Link back to DTU Orbit Citation (APA): EFSA Publication (2014). EFSA BIOHAZ Panel (EFSA Panel on Biological Hazards), 2014. Statement on the update of the list of QPS-recommended biological agents intentionally added to food or feed as notified to EFSA 1: Suitability of taxonomic units notified to EFSA until October 2014. Europen Food Safety Authority. the EFSA Journal Vol. 12(12) No. 3938 https://doi.org/10.2903/j.efsa.2014.3938 General rights Copyright and moral rights for the publications made accessible in the public portal are retained by the authors and/or other copyright owners and it is a condition of accessing publications that users recognise and abide by the legal requirements associated with these rights. Users may download and print one copy of any publication from the public portal for the purpose of private study or research. You may not further distribute the material or use it for any profit-making activity or commercial gain You may freely distribute the URL identifying the publication in the public portal If you believe that this document breaches copyright please contact us providing details, and we will remove access to the work immediately and investigate your claim.
    [Show full text]
  • Appendix 1. Validly Published Names, Conserved and Rejected Names, And
    Appendix 1. Validly published names, conserved and rejected names, and taxonomic opinions cited in the International Journal of Systematic and Evolutionary Microbiology since publication of Volume 2 of the Second Edition of the Systematics* JEAN P. EUZÉBY New phyla Alteromonadales Bowman and McMeekin 2005, 2235VP – Valid publication: Validation List no. 106 – Effective publication: Names above the rank of class are not covered by the Rules of Bowman and McMeekin (2005) the Bacteriological Code (1990 Revision), and the names of phyla are not to be regarded as having been validly published. These Anaerolineales Yamada et al. 2006, 1338VP names are listed for completeness. Bdellovibrionales Garrity et al. 2006, 1VP – Valid publication: Lentisphaerae Cho et al. 2004 – Valid publication: Validation List Validation List no. 107 – Effective publication: Garrity et al. no. 98 – Effective publication: J.C. Cho et al. (2004) (2005xxxvi) Proteobacteria Garrity et al. 2005 – Valid publication: Validation Burkholderiales Garrity et al. 2006, 1VP – Valid publication: Vali- List no. 106 – Effective publication: Garrity et al. (2005i) dation List no. 107 – Effective publication: Garrity et al. (2005xxiii) New classes Caldilineales Yamada et al. 2006, 1339VP VP Alphaproteobacteria Garrity et al. 2006, 1 – Valid publication: Campylobacterales Garrity et al. 2006, 1VP – Valid publication: Validation List no. 107 – Effective publication: Garrity et al. Validation List no. 107 – Effective publication: Garrity et al. (2005xv) (2005xxxixi) VP Anaerolineae Yamada et al. 2006, 1336 Cardiobacteriales Garrity et al. 2005, 2235VP – Valid publica- Betaproteobacteria Garrity et al. 2006, 1VP – Valid publication: tion: Validation List no. 106 – Effective publication: Garrity Validation List no. 107 – Effective publication: Garrity et al.
    [Show full text]
  • Scientific Opinion
    SCIENTIFIC OPINION ADOPTED: 30 November 2016 doi: 10.2903/j.efsa.2017.4664 Scientific Opinion on the update of the list of QPS-recommended biological agents intentionally added to food or feed as notified to EFSA* EFSA Panel on Biological Hazards (BIOHAZ), Antonia Ricci, Ana Allende, Declan Bolton, Marianne Chemaly, Robert Davies, Rosina Girones, Lieve Herman, Konstantinos Koutsoumanis, Roland Lindqvist, Birgit Nørrung, Lucy Robertson, Giuseppe Ru, Moez Sanaa, Marion Simmons, Panagiotis Skandamis, Emma Snary, Niko Speybroeck, Benno Ter Kuile, John Threlfall, Helene Wahlstrom,€ Pier Sandro Cocconcelli, Gunter€ Klein (deceased), Miguel Prieto Maradona, Amparo Querol, Luisa Peixe, Juan Evaristo Suarez, Ingvar Sundh, Just M. Vlak, Margarita Aguilera-Gomez, Fulvio Barizzone, Rosella Brozzi, Sandra Correia, Leng Heng, Fred erique Istace, Christopher Lythgo and Pablo Salvador Fernandez Escamez Abstract EFSA is requested to assess the safety of a broad range of biological agents in the context of notification for market authorisation as sources of food and feed additives, food enzymes and plant protection products. The qualified presumption of safety (QPS) assessment was developed to provide a harmonised generic pre- assessment to support safety risk assessments performed by EFSA’sscientific Panels. The safety of unambiguously defined biological agents (at the highest taxonomic unit appropriate for the purpose for which an application is intended), and the completeness of the body of knowledge are assessed. Identified safety concerns for a taxonomic unit are, where possible and reasonable in number, reflected as ‘qualifications’ in connection with a recommendation for a QPS status. The list of QPS recommended biological agents was reviewed and updated in the current opinion and therefore becomes the valid list.
    [Show full text]
  • Currículum Vitae Impreso Normalizado
    Currículum vitae Impreso normalizado Número de hojas que contiene: ______56____________ Nombre: Raúl Rivas González Fecha: 03/04/2010 Apellidos: Rivas González Nombre: Raúl Fecha de nacimiento: 12/08/1974 Sexo: V Situación profesional actual Organismo: Universidad de Salamanca Facultad, Escuela o Instituto: Facultad de Ciencias Agrarias y Ambientales Depto./Secc./Unidad estr.: Departamento de Microbiología y Genética Dirección postal: Edificio Departamental de Biología. Lab. 209. Campus M. Unamuno. 37007 Salamanca. Teléfono (indicar prefijo, número y extensión): 923 294532 Fax: 923 224876 Correo electrónico: [email protected] Especialización (Códigos UNESCO): 2414 Categoria profesional: Profesor Titular de Universidad Fecha de inicio: 18/12/2009 Situación administrativa: Plantilla Dedicación: A tiempo completo Líneas de investigación Interacción Rhizobium(rhizobia)-leguminosa; taxonomía bacteriana; métodos moleculares de identificación; ecología y biodiversidad microbiana; interacciones beneficiosas microorganismo-planta. Formación Académica Titulación Centro Fecha Licenciado en Ciencias Facultad de Biología 24/07/1999 Biologicas (Universidad de Salamanca) Certificado de Aptitud Instituto Universitario de 1999-2000 Pedagógica (CAP) Ciencias de la Educación. (Universidad de Salamanca) Tesis de Grado en Ciencias Facultad de Biología 14/12/2001 Biológicas (Universidad de Salamanca) (Sobresaliente Cum Laude por unanimidad) Diploma de Estudios Dpto. Microbiología y 07/2002 Avanzados Genética (Universidad de Salamanca) (Sobresaliente) Doctorado
    [Show full text]
  • Microbial Environment Affects Innate Immunity in Two Closely Related Earthworm Species Eisenia Andrei and Eisenia Fetida
    Microbial Environment Affects Innate Immunity in Two Closely Related Earthworm Species Eisenia andrei and Eisenia fetida Jiří Dvořák1, Veronika Mančíková1, Václav Pižl2, Dana Elhottová2, Marcela Šilerová1, Radka Roubalová1, František Škanta1, Petra Procházková1, Martin Bilej1* 1 Laboratory of Cellular and Molecular Immunology, Institute of Microbiology of the Academy of Sciences of the Czech Republic, v. v. i., Prague, Czech Republic, 2 Department of Soil Zoology and Soil Microstructure, Institute of Soil Biology, Biology Center of the Academy of Sciences of the Czech Republic, v. v. i., České Budějovice, Czech Republic Abstract Survival of earthworms in the environment depends on their ability to recognize and eliminate potential pathogens. This work is aimed to compare the innate defense mechanisms of two closely related earthworm species, Eisenia andrei and Eisenia fetida, that inhabit substantially different ecological niches. While E. andrei lives in a compost and manure, E. fetida can be found in the litter layer in forests. Therefore, the influence of environment-specific microbiota on the immune response of both species was followed. Firstly, a reliable method to discern between E. andrei and E. fetida based on species-specific primers for cytochrome c oxidase I (COI) and stringent PCR conditions was developed. Secondly, to analyze the immunological profile in both earthworm species, the activity and expression of lysozyme, pattern recognition protein CCF, and antimicrobial proteins with hemolytic function, fetidin and lysenins, have been assessed. Whereas, CCF and lysozyme showed only slight differences in the expression and activity, fetidin/lysenins expression as well as the hemolytic activity was considerably higher in E. andrei as compared to E.
    [Show full text]
  • Isolation and Characterization of Bacteria Resistant to Metallic Copper Surfaces
    University of Nebraska - Lincoln DigitalCommons@University of Nebraska - Lincoln Faculty Publications in the Biological Sciences Papers in the Biological Sciences 2010 Isolation and Characterization of Bacteria Resistant to Metallic Copper Surfaces Christophe Espírito Santo Instituto do Mar (IMAR-CMA) Paula Vasconcelos Morais University of Coimbra Gregor Grass University of Nebraska-Lincoln, [email protected] Follow this and additional works at: https://digitalcommons.unl.edu/bioscifacpub Part of the Life Sciences Commons Santo, Christophe Espírito; Morais, Paula Vasconcelos; and Grass, Gregor, "Isolation and Characterization of Bacteria Resistant to Metallic Copper Surfaces" (2010). Faculty Publications in the Biological Sciences. 163. https://digitalcommons.unl.edu/bioscifacpub/163 This Article is brought to you for free and open access by the Papers in the Biological Sciences at DigitalCommons@University of Nebraska - Lincoln. It has been accepted for inclusion in Faculty Publications in the Biological Sciences by an authorized administrator of DigitalCommons@University of Nebraska - Lincoln. APPLIED AND ENVIRONMENTAL MICROBIOLOGY, Mar. 2010, p. 1341–1348 Vol. 76, No. 5 0099-2240/10/$12.00 doi:10.1128/AEM.01952-09 Copyright © 2010, American Society for Microbiology. All Rights Reserved. Isolation and Characterization of Bacteria Resistant to Metallic Copper Surfacesᰔ† Christophe Espírito Santo,1,3 Paula Vasconcelos Morais,1,2 and Gregor Grass3* Instituto do Mar (IMAR-CMA), 3004-517 Coimbra, Portugal1; Department of Biochemistry, FCTUC, University of Coimbra, 3001-401 Coimbra, Portugal2; and School of Biological Sciences, University of Nebraska, Lincoln, Nebraska3 Received 13 August 2009/Accepted 23 December 2009 Metallic copper alloys have recently attracted attention as a new antimicrobial weapon for areas where surface hygiene is paramount.
    [Show full text]