Hemolymph-Associated Symbionts: Identification of Delftia Sp
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Comamonas: Relationship to Aquaspirillum Aquaticum, E
INTERNATIONALJOURNAL OF SYSTEMATICBACTERIOLOGY, July 1991, p. 427-444 Vol. 41, No. 3 0020-7713/91/030427- 18$02 .OO/O Copyright 0 1991, International Union of Microbiological Societies Polyphasic Taxonomic Study of the Emended Genus Comamonas: Relationship to Aquaspirillum aquaticum, E. Falsen Group 10, and Other Clinical Isolates A. WILLEMS,l B. POT,l E. FALSEN,2 P. VANDAMME,' M. GILLIS,l* K. KERSTERS,l AND J. DE LEY' Laboratorium voor Microbiologie en Microbiele Genetica, Rijksuniversiteit, B-9000 Ghent, Belgium, and Culture Collection, Department of Clinical Bacteriology, University of Goteborg, S-413 46 Goteborg, Sweden2 We used DNA-rRNA hybridization, DNA base composition, polyacrylamide gel electrophoresis of whole-cell proteins, DNA-DNA hybridization, numerical analysis of phenotypic features, and immunotyping to study the taxonomy of the genus Comamonas. The relationships of this genus to Aquaspirillum aquaticum and a group of clinical isolates (E. Falsen group 10 [EF lo]) were studied. Our DNA and rRNA hybridization results indicate that the genus Comamonas consists of at least the following five genotypic groups: (i) Comamonas acidovoruns, (ii) Comamonas fesfosferoni,(iii) Comamonas ferrigena, (iv) A. aquaticum and a number of EF 10 strains, and (v) other EF 10 strains, several unnamed clinical isolates, and some misnamed strains of Pseudomonas alcaligenes and Pseudomonas pseudoalcaligenes subsp. pseudoalcaligenes. The existence of these five groups was confirmed by the results of immunotyping and protein gel electrophoresis. A numerical analysis of morpho- logical, auxanographic, and biochemical data for the same organisms revealed the existence of three large phena. Two of these phena (C. acidovorans and C. tesfosferoni)correspond to two of the genotypic groups. -
Which Organisms Are Used for Anti-Biofouling Studies
Table S1. Semi-systematic review raw data answering: Which organisms are used for anti-biofouling studies? Antifoulant Method Organism(s) Model Bacteria Type of Biofilm Source (Y if mentioned) Detection Method composite membranes E. coli ATCC25922 Y LIVE/DEAD baclight [1] stain S. aureus ATCC255923 composite membranes E. coli ATCC25922 Y colony counting [2] S. aureus RSKK 1009 graphene oxide Saccharomycetes colony counting [3] methyl p-hydroxybenzoate L. monocytogenes [4] potassium sorbate P. putida Y. enterocolitica A. hydrophila composite membranes E. coli Y FESEM [5] (unspecified/unique sample type) S. aureus (unspecified/unique sample type) K. pneumonia ATCC13883 P. aeruginosa BAA-1744 composite membranes E. coli Y SEM [6] (unspecified/unique sample type) S. aureus (unspecified/unique sample type) graphene oxide E. coli ATCC25922 Y colony counting [7] S. aureus ATCC9144 P. aeruginosa ATCCPAO1 composite membranes E. coli Y measuring flux [8] (unspecified/unique sample type) graphene oxide E. coli Y colony counting [9] (unspecified/unique SEM sample type) LIVE/DEAD baclight S. aureus stain (unspecified/unique sample type) modified membrane P. aeruginosa P60 Y DAPI [10] Bacillus sp. G-84 LIVE/DEAD baclight stain bacteriophages E. coli (K12) Y measuring flux [11] ATCC11303-B4 quorum quenching P. aeruginosa KCTC LIVE/DEAD baclight [12] 2513 stain modified membrane E. coli colony counting [13] (unspecified/unique colony counting sample type) measuring flux S. aureus (unspecified/unique sample type) modified membrane E. coli BW26437 Y measuring flux [14] graphene oxide Klebsiella colony counting [15] (unspecified/unique sample type) P. aeruginosa (unspecified/unique sample type) graphene oxide P. aeruginosa measuring flux [16] (unspecified/unique sample type) composite membranes E. -
Genetic Diversity and Phylogeny of Antagonistic Bacteria Against Phytophthora Nicotianae Isolated from Tobacco Rhizosphere
Int. J. Mol. Sci. 2011, 12, 3055-3071; doi:10.3390/ijms12053055 OPEN ACCESS International Journal of Molecular Sciences ISSN 1422-0067 www.mdpi.com/journal/ijms Article Genetic Diversity and Phylogeny of Antagonistic Bacteria against Phytophthora nicotianae Isolated from Tobacco Rhizosphere Fengli Jin 1, Yanqin Ding 1, Wei Ding 2, M.S. Reddy 3, W.G. Dilantha Fernando 4 and Binghai Du 1,* 1 Shandong Key Laboratory of Agricultural Microbiology, College of Life Sciences, Shandong Agricultural University, Taian, Shandong 271018, China; E-Mails: [email protected] (F.J.); [email protected] (Y.D.) 2 Zunyi Tobacco Company, Guizhou 564700, China; E-Mail: [email protected] 3 Department of Entomology and Plant Pathology, 209 Life Sciences Bldg, Auburn University, Auburn, AL 36849, USA; E-Mail: [email protected] 4 Department of Plant Science, University of Manitoba, Winnipeg, MB R3T 2N2, Canada; E-Mail: [email protected] * Author to whom correspondence should be addressed; E-Mail: [email protected]; Tel.: +86-538-8242908. Received: 12 March 2011; in revised form: 3 April 2011 / Accepted: 20 April 2011 / Published: 12 May 2011 Abstract: The genetic diversity of antagonistic bacteria from the tobacco rhizosphere was examined by BOXAIR-PCR, 16S-RFLP, 16S rRNA sequence homology and phylogenetic analysis methods. These studies revealed that 4.01% of the 6652 tested had some inhibitory activity against Phytophthora nicotianae. BOXAIR-PCR analysis revealed 35 distinct amplimers aligning at a 91% similarity level, reflecting a high degree of genotypic diversity among the antagonistic bacteria. A total of 25 16S-RFLP patterns were identified representing over 33 species from 17 different genera. -
The Study on the Cultivable Microbiome of the Aquatic Fern Azolla Filiculoides L
applied sciences Article The Study on the Cultivable Microbiome of the Aquatic Fern Azolla Filiculoides L. as New Source of Beneficial Microorganisms Artur Banach 1,* , Agnieszka Ku´zniar 1, Radosław Mencfel 2 and Agnieszka Woli ´nska 1 1 Department of Biochemistry and Environmental Chemistry, The John Paul II Catholic University of Lublin, 20-708 Lublin, Poland; [email protected] (A.K.); [email protected] (A.W.) 2 Department of Animal Physiology and Toxicology, The John Paul II Catholic University of Lublin, 20-708 Lublin, Poland; [email protected] * Correspondence: [email protected]; Tel.: +48-81-454-5442 Received: 6 May 2019; Accepted: 24 May 2019; Published: 26 May 2019 Abstract: The aim of the study was to determine the still not completely described microbiome associated with the aquatic fern Azolla filiculoides. During the experiment, 58 microbial isolates (43 epiphytes and 15 endophytes) with different morphologies were obtained. We successfully identified 85% of microorganisms and assigned them to 9 bacterial genera: Achromobacter, Bacillus, Microbacterium, Delftia, Agrobacterium, and Alcaligenes (epiphytes) as well as Bacillus, Staphylococcus, Micrococcus, and Acinetobacter (endophytes). We also studied an A. filiculoides cyanobiont originally classified as Anabaena azollae; however, the analysis of its morphological traits suggests that this should be renamed as Trichormus azollae. Finally, the potential of the representatives of the identified microbial genera to synthesize plant growth-promoting substances such as indole-3-acetic acid (IAA), cellulase and protease enzymes, siderophores and phosphorus (P) and their potential of utilization thereof were checked. Delftia sp. AzoEpi7 was the only one from all the identified genera exhibiting the ability to synthesize all the studied growth promoters; thus, it was recommended as the most beneficial bacteria in the studied microbiome. -
Bacterial Sulfite-Oxidizing Enzymes
Biochimica et Biophysica Acta 1807 (2011) 1–10 Contents lists available at ScienceDirect Biochimica et Biophysica Acta journal homepage: www.elsevier.com/locate/bbabio Review Bacterial sulfite-oxidizing enzymes Ulrike Kappler ⁎ Centre for Metals in Biology, School of Chemistry and Molecular Biosciences, The University of Queensland, St. Lucia Qld 4072, Australia article info abstract Article history: Enzymes belonging to the Sulfite Oxidase (SO) enzyme family are found in virtually all forms of life, and are Received 12 June 2010 especially abundant in prokaryotes as shown by analysis of available genome data. Despite this fact, only a Received in revised form 5 September 2010 limited number of bacterial SO family enzymes has been characterized in detail to date, and these appear to be Accepted 14 September 2010 involved in very different metabolic processes such as energy generation from sulfur compounds, host Available online 17 September 2010 colonization, sulfite detoxification and organosulfonate degradation. The few characterized bacterial SO family enzymes also show an intriguing range of structural conformations, including monomeric, dimeric and Keywords: Sulfite oxidation heterodimeric enzymes with varying numbers and types of redox centres. Some of the bacterial enzymes even Metalloenzymes catalyze novel reactions such as dimethylsulfoxide reduction that previously had been thought not to be Sulfur oxidizing bacteria catalyzed by SO family enzymes. Classification of the SO family enzymes based on the structure of their Mo Molybdenum -
Analyzing the Del Gene Cluster for Gold Biomineralization Across Delftia Spp
Analyzing the del Gene Cluster for Gold Biomineralization across Delftia spp. Rose Krebs ([email protected]), Dr. Carlos Goller Phyla Unassigned Nitrospirae Bacteroidetes Results Introduction Viruses Chloroflexi Planctomycetes A+3 Average Nucleotide Identity Tail Ignavibacteriae A+3 80% Acidobacteria Relative Abundance Relative A+3 Query Genome Reference Genome ANI Proteobacteria Euryarchaeota Actinobacteria 60% Firmicutes Delftia acidovorans NBRC 14950 Delftia acidovorans 2167 99.998 A+3 Figure 4. Analysis of the raw reads shows Proteobacteria is +3 D. tsuruhatensis NBRC 16741 D. lacustris LMG 24775 98.3373 A 40% the primary phylum represented in three of the four samples. Delftia acidovorans was Firmicutes is the primary phylum present in the hydraulic identified as one of the Gold ions are toxic to Delftia spp. ZNC008 D. lacustris LMG 24775 98.1463 fracture fluid sample. main species of biofilms on bacteria, yet D. acidovorans 20% 1) Subsurface gold mine gold nuggets1. tolerates high concentrations D. acidovorans NBRC 14950 D. acidovorans SPH-1 97.5302 of gold ions1. 2) Rice root iron plaque 3) Subsurface gas well sediment D. acidovorans 2167 D. acidovorans SPH-1 97.5098 0% 1 2 3 4 4) Hydraulic fracture fluid D. tsuruhatensis NBRC 16741 D. acidovorans SPH-1 95.5255 Conclusions D. lacustris LMG 24775 D. acidovorans SPH-1 95.391 ● Delftia species are very closely related and could potentially be The del cluster (delA-delP) Burkholderia cenocepacia D. acidovorans SPH-1 76.81 considered the same species since they have average nucleotide Delftibactin forms solid gold produces delftibactin. identities of over 95%. nanoparticles from gold ions. Whole genome sequencing Table 1. -
Biotransformation of Pharmaceuticals by Comamonas and Aeromonas Species
Biotransformation of Pharmaceuticals by Comamonas and Aeromonas Species Atika Sajid Shaheed Zulqar Ali Bhutto Institute of Science and Technology Saira Yahya ( [email protected] ) Shaheed Zulqar Ali Bhutto Institute of Science and Technology Research Article Keywords: Antibiotic resistance, Biotransformation, Erythromycin, Sulfamethoxazole-trimethoprim, Comamonas jiangduensis, Aeromonas hydrophila, Aeromonas caviae Posted Date: January 15th, 2021 DOI: https://doi.org/10.21203/rs.3.rs-144884/v1 License: This work is licensed under a Creative Commons Attribution 4.0 International License. Read Full License Page 1/22 Abstract Background: Contamination of natural niches with pharmaceutical residues has emerged out as a serious concern. Disposal of untreated euents from the pharmaceutical, hospital, and domestic settings has been identied as a signicant source of such a massive spread of antibiotics. The unnecessary persistence of pharmaceutical residues including antibiotics has been related to the increased risk of resistance selection among pathogenic and non-pathogenic microorganisms. To date, several methods have been devised to eliminate such pollutants from wastewater, but their implication on larger scales is not feasible due to complexities and high costs of the processes, especially in developing and underdeveloped countries. This study aimed to isolate and characterize bacterial strains from domestic and pharmaceutical euents having biotransformation potential towards most persistent antibiotics. Results: Antibiotic resistance screening and MIC determination experiments indicated highest resistivity of three bacterial isolates against two antibiotics Erythromycin and Sulfamethoxazole-trimethoprim, evincing extensive usage of these antibiotics in our healthcare settings. These isolates were identied as Comamonas jiangduensis, Aeromonas caviae and Aeromonas hydrophila by 16S rDNA sequencing. Growth conditions including incubation temperature, initial pH and inoculum size were optimized for these strains. -
Delftia Sp. LCW, a Strain Isolated from a Constructed Wetland Shows Novel Properties for Dimethylphenol Isomers Degradation Mónica A
Downloaded from orbit.dtu.dk on: Mar 29, 2019 Delftia sp LCW, a strain isolated from a constructed wetland shows novel properties for dimethylphenol isomers degradation Vásquez-Piñeros, Mónica A.; Lavanchy, Paula Maria Martinez; Jehmlich, Nico; Pieper, Dietmar H.; Rincon, Carlos A.; Harms, Hauke; Junca, Howard; Heipieper, Hermann J. Published in: BMC Microbiology Link to article, DOI: 10.1186/s12866-018-1255-z Publication date: 2018 Document Version Publisher's PDF, also known as Version of record Link back to DTU Orbit Citation (APA): Vásquez-Piñeros, M. A., Martinez-Lavanchy, P. M., Jehmlich, N., Pieper, D. H., Rincon, C. A., Harms, H., ... Heipieper, H. J. (2018). Delftia sp LCW, a strain isolated from a constructed wetland shows novel properties for dimethylphenol isomers degradation. BMC Microbiology, 18, [108]. DOI: 10.1186/s12866-018-1255-z 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. Vásquez-Piñeros et al. -
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. -
Delftia Rhizosphaerae Sp. Nov. Isolated from the Rhizosphere of Cistus Ladanifer
TAXONOMIC DESCRIPTION Carro et al., Int J Syst Evol Microbiol 2017;67:1957–1960 DOI 10.1099/ijsem.0.001892 Delftia rhizosphaerae sp. nov. isolated from the rhizosphere of Cistus ladanifer Lorena Carro,1† Rebeca Mulas,2 Raquel Pastor-Bueis,2 Daniel Blanco,3 Arsenio Terrón,4 Fernando Gonzalez-Andr es, 2 Alvaro Peix5,6 and Encarna Velazquez 1,6,* Abstract A bacterial strain, designated RA6T, was isolated from the rhizosphere of Cistus ladanifer. Phylogenetic analyses based on 16S rRNA gene sequence placed the isolate into the genus Delftia within a cluster encompassing the type strains of Delftia lacustris, Delftia tsuruhatensis, Delftia acidovorans and Delftia litopenaei, which presented greater than 97 % sequence similarity with respect to strain RA6T. DNA–DNA hybridization studies showed average relatedness ranging from of 11 to 18 % between these species of the genus Delftia and strain RA6T. Catalase and oxidase were positive. Casein was hydrolysed but gelatin and starch were not. Ubiquinone 8 was the major respiratory quinone detected in strain RA6T together with low amounts of ubiquinones 7 and 9. The major fatty acids were those from summed feature 3 (C16 : 1!7c/C16 : 1 !6c) and C16 : 0. The predominant polar lipids were diphosphatidylglycerol, phosphatidylglycerol and phosphatidylethanolamine. Phylogenetic, chemotaxonomic and phenotypic analyses showed that strain RA6T should be considered as a representative of a novel species of genus Delftia, for which the name Delftia rhizosphaerae sp. nov. is proposed. The type strain is RA6T (=LMG 29737T= CECT 9171T). The genus Delftia comprises Gram-stain-negative, non- The strain was grown on nutrient agar (NA; Sigma) for 48 h sporulating, strictly aerobic rods, motile by polar or bipolar at 22 C to check for motility by phase-contrast microscopy flagella. -
Extreme Environments and High-Level Bacterial Tellurite Resistance
microorganisms Review Extreme Environments and High-Level Bacterial Tellurite Resistance Chris Maltman 1,* and Vladimir Yurkov 2 1 Department of Biology, Slippery Rock University, Slippery Rock, PA 16001, USA 2 Department of Microbiology, University of Manitoba, Winnipeg, MB R3T 2N2, Canada; [email protected] * Correspondence: [email protected]; Tel.: +724-738-4963 Received: 28 October 2019; Accepted: 20 November 2019; Published: 22 November 2019 Abstract: Bacteria have long been known to possess resistance to the highly toxic oxyanion tellurite, most commonly though reduction to elemental tellurium. However, the majority of research has focused on the impact of this compound on microbes, namely E. coli, which have a very low level of resistance. Very little has been done regarding bacteria on the other end of the spectrum, with three to four orders of magnitude greater resistance than E. coli. With more focus on ecologically-friendly methods of pollutant removal, the use of bacteria for tellurite remediation, and possibly recovery, further highlights the importance of better understanding the effect on microbes, and approaches for resistance/reduction. The goal of this review is to compile current research on bacterial tellurite resistance, with a focus on high-level resistance by bacteria inhabiting extreme environments. Keywords: tellurite; tellurite resistance; extreme environments; metalloids; bioremediation; biometallurgy 1. Introduction Microorganisms possess a wide range of extraordinary abilities, from the production of bioactive molecules [1] to resistance to and transformation of highly toxic compounds [2–5]. Of great interest are bacteria which can convert the deleterious oxyanion tellurite to elemental tellurium (Te) through reduction. Currently, research into bacterial interactions with tellurite has been lagging behind investigation of the oxyanions of other metals such as nickel (Ni), molybdenum (Mo), tungsten (W), iron (Fe), and cobalt (Co). -
Complete Genome Sequence of Lytic Bacteriophage RG-2014 That Infects
Bhattacharjee et al. Standards in Genomic Sciences (2017) 12:82 DOI 10.1186/s40793-017-0290-y SHORTGENOMEREPORT Open Access Complete genome sequence of lytic bacteriophage RG-2014 that infects the multidrug resistant bacterium Delftia tsuruhatensis ARB-1 Ananda Shankar Bhattacharjee1,4, Amir Mohaghegh Motlagh1,5, Eddie B. Gilcrease2, Md Imdadul Islam1, Sherwood R. Casjens2,3 and Ramesh Goel1* Abstract A lytic bacteriophage RG-2014 infecting a biofilm forming multidrug resistant bacterium Delftia tsuruhatensis strain ARB-1 as its host was isolated from a full-scale municipal wastewater treatment plant. Lytic phage RG-2014 was isolated for developing phage based therapeutic approaches against Delftia tsuruhatensis strain ARB-1. The strain ARB-1 belongs to the Comamonadaceae family of the Betaproteobacteria class. RG-2014 was characterized for its type, burst size, latent and eclipse time periods of 150 ± 9 PFU/cell, 10-min, <5-min, respectively. The phage was found to be a dsDNA virus belonging to the Podoviridae family. It has an isometric icosahedrally shaped capsid with a diameter of 85 nm. The complete genome of the isolated phage was sequenced and determined to be 73.8 kbp in length with a G + C content of 59.9%. Significant similarities in gene homology and order were observed between Delftia phage RG-2014 and the E. coli phage N4 indicating that it is a member of the N4-like phage group. Keywords: Bacteriophage, Delftia tsuruhatensis, Multidrug resistant, Biofouling, Biofilm, Genome, Podoviridae Introduction significant biodegradation capability [3, 4]. A recently The occurrence and spread of antibiotic resistant bac- described species, closely related to Delftia acidovorans, teria in the environment are regarded as environmental Delftia tsuruhatensis, has been reported to cause bio- challenges of highest concern in the twenty-first century.