Characterization of Pathogenic Bacteria Isolated from Sudanese Banknotes and Determination of Their Resistance Profile
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Bacillus Crassostreae Sp. Nov., Isolated from an Oyster (Crassostrea Hongkongensis)
International Journal of Systematic and Evolutionary Microbiology (2015), 65, 1561–1566 DOI 10.1099/ijs.0.000139 Bacillus crassostreae sp. nov., isolated from an oyster (Crassostrea hongkongensis) Jin-Hua Chen,1,2 Xiang-Rong Tian,2 Ying Ruan,1 Ling-Ling Yang,3 Ze-Qiang He,2 Shu-Kun Tang,3 Wen-Jun Li,3 Huazhong Shi4 and Yi-Guang Chen2 Correspondence 1Pre-National Laboratory for Crop Germplasm Innovation and Resource Utilization, Yi-Guang Chen Hunan Agricultural University, 410128 Changsha, PR China [email protected] 2College of Biology and Environmental Sciences, Jishou University, 416000 Jishou, PR China 3The Key Laboratory for Microbial Resources of the Ministry of Education, Yunnan Institute of Microbiology, Yunnan University, 650091 Kunming, PR China 4Department of Chemistry and Biochemistry, Texas Tech University, Lubbock, TX 79409, USA A novel Gram-stain-positive, motile, catalase- and oxidase-positive, endospore-forming, facultatively anaerobic rod, designated strain JSM 100118T, was isolated from an oyster (Crassostrea hongkongensis) collected from the tidal flat of Naozhou Island in the South China Sea. Strain JSM 100118T was able to grow with 0–13 % (w/v) NaCl (optimum 2–5 %), at pH 5.5–10.0 (optimum pH 7.5) and at 5–50 6C (optimum 30–35 6C). The cell-wall peptidoglycan contained meso-diaminopimelic acid as the diagnostic diamino acid. The predominant respiratory quinone was menaquinone-7 and the major cellular fatty acids were anteiso-C15 : 0, iso-C15 : 0,C16 : 0 and C16 : 1v11c. The polar lipids consisted of diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, an unknown glycolipid and an unknown phospholipid. The genomic DNA G+C content was 35.9 mol%. -
Molecular Diversity and Multifarious Plant Growth
Environment Health Techniques 44 Priyanka Verma et al. Research Paper Molecular diversity and multifarious plant growth promoting attributes of Bacilli associated with wheat (Triticum aestivum L.) rhizosphere from six diverse agro-ecological zones of India Priyanka Verma1,2, Ajar Nath Yadav1, Kazy Sufia Khannam2, Sanjay Kumar3, Anil Kumar Saxena1 and Archna Suman1 1 Division of Microbiology, Indian Agricultural Research Institute, New Delhi, India 2 Department of Biotechnology, National Institute of Technology, Durgapur, India 3 Division of Genetics, Indian Agricultural Research Institute, New Delhi, India The diversity of culturable Bacilli was investigated in six wheat cultivating agro-ecological zones of India viz: northern hills, north western plains, north eastern plains, central, peninsular, and southern hills. These agro-ecological regions are based on the climatic conditions such as pH, salinity, drought, and temperature. A total of 395 Bacilli were isolated by heat enrichment and different growth media. Amplified ribosomal DNA restriction analysis using three restriction enzymes AluI, MspI, and HaeIII led to the clustering of these isolates into 19–27 clusters in the different zones at >70% similarity index, adding up to 137 groups. Phylogenetic analysis based on 16S rRNA gene sequencing led to the identification of 55 distinct Bacilli that could be grouped in five families, Bacillaceae (68%), Paenibacillaceae (15%), Planococcaceae (8%), Staphylococcaceae (7%), and Bacillales incertae sedis (2%), which included eight genera namely Bacillus, Exiguobacterium, Lysinibacillus, Paenibacillus, Planococcus, Planomicrobium, Sporosarcina, andStaphylococcus. All 395 isolated Bacilli were screened for their plant growth promoting attributes, which included direct-plant growth promoting (solubilization of phosphorus, potassium, and zinc; production of phytohormones; 1-aminocyclopropane-1-carboxylate deaminase activity and nitrogen fixation), and indirect-plant growth promotion (antagonistic, production of lytic enzymes, siderophore, hydrogen cyanide, and ammonia). -
Diversity of Cultivated Aerobic Poly-Hydrolytic Bacteria in Saline Alkaline Soils
Diversity of cultivated aerobic poly-hydrolytic bacteria in saline alkaline soils Dimitry Y. Sorokin1,2, Tatiana V. Kolganova3, Tatiana V. Khijniak1, Brian E. Jones4 and Ilya V. Kublanov1,5 1 Winogradsky Institute of Microbiology, Research Centre of Biotechnology, Russian Academy of Sciences, Moscow, Russia 2 Department of Biotechnology, Delft University of Technology, Delft, Netherlands 3 Institute of Bioengineering, Research Centre of Biotechnology, Russian Academy of Sciences, Moscow, Russia 4 DuPont Industrial Biosciences/Genencor International BV, Leiden, Netherlands 5 Immanuel Kant Baltic Federal University, Kaliningrad, Russia ABSTRACT Alkaline saline soils, known also as ``soda solonchaks'', represent a natural soda habitat which differs from soda lake sediments by higher aeration and lower humidity. The microbiology of soda soils, in contrast to the more intensively studied soda lakes, remains poorly explored. In this work we investigate the diversity of culturable aerobic haloalkalitolerant bacteria with various hydrolytic activities from soda soils at different locations in Central Asia, Africa, and North America. In total, 179 pure cultures were obtained by using media with various polymers at pH 10 and 0.6 M total Na+. According to the 16S rRNA gene sequence analysis, most of the isolates belonged to Firmicutes and Actinobacteria. Most isolates possessed multiple hydrolytic activities, including endoglucanase, xylanase, amylase and protease. The pH profiling of selected representatives of actinobacteria and endospore-forming bacteria showed, that the former were facultative alkaliphiles, while the latter were mostly obligate alkaliphiles. The hydrolases of selected representatives from both groups were active at a broad pH range from six to 11. Overall, this work demonstrates the presence of a rich hydrolytic Submitted 9 June 2017 bacterial community in soda soils which might be explored further for production of Accepted 21 August 2017 haloalkalistable hydrolases. -
Patterns of Horizontal Gene Transfer Into the Geobacillus Clade
Imperial College London London Institute of Medical Sciences Patterns of Horizontal Gene Transfer into the Geobacillus Clade Alexander Dmitriyevich Esin September 2018 Submitted in part fulfilment of the requirements for the degree of Doctor of Philosophy of Imperial College London For my grandmother, Marina. Without you I would have never been on this path. Your unwavering strength, love, and fierce intellect inspired me from childhood and your memory will always be with me. 2 Declaration I declare that the work presented in this submission has been undertaken by me, including all analyses performed. To the best of my knowledge it contains no material previously published or presented by others, nor material which has been accepted for any other degree of any university or other institute of higher learning, except where due acknowledgement is made in the text. 3 The copyright of this thesis rests with the author and is made available under a Creative Commons Attribution Non-Commercial No Derivatives licence. Researchers are free to copy, distribute or transmit the thesis on the condition that they attribute it, that they do not use it for commercial purposes and that they do not alter, transform or build upon it. For any reuse or redistribution, researchers must make clear to others the licence terms of this work. 4 Abstract Horizontal gene transfer (HGT) is the major driver behind rapid bacterial adaptation to a host of diverse environments and conditions. Successful HGT is dependent on overcoming a number of barriers on transfer to a new host, one of which is adhering to the adaptive architecture of the recipient genome. -
Manganese-II Oxidation and Copper-II Resistance in Endospore Forming Firmicutes Isolated from Uncontaminated Environmental Sites
AIMS Environmental Science, 3(2): 220-238. DOI: 10.3934/environsci.2016.2.220 Received 21 January 2016, Accepted 05 April 2016, Published 12 April 2016 http://www.aimspress.com/journal/environmental Research article Manganese-II oxidation and Copper-II resistance in endospore forming Firmicutes isolated from uncontaminated environmental sites Ganesan Sathiyanarayanan 1,†, Sevasti Filippidou 1,†, Thomas Junier 1,2, Patricio Muñoz Rufatt 1, Nicole Jeanneret 1, Tina Wunderlin 1, Nathalie Sieber 1, Cristina Dorador 3 and Pilar Junier 1,* 1 Laboratory of Microbiology, Institute of Biology, University of Neuchâtel, Emile-Argand 11, CH-2000 Neuchâtel, Switzerland 2 Vital-IT group, Swiss Institute of Bioinformatics, CH-1000 Lausanne, Switzerland 3 Laboratorio de Complejidad Microbiana y Ecología Funcional; Departamento de Biotecnología; Facultad de Ciencias del Mar y Recursos Biológicos, Universidad de Antofagasta; CL-, 1270190, Antofagasta, Chile * Correspondence: Email: [email protected]; Tel: +41-32-718-2244; Fax: +41-32-718-3001. † These authors contributed equally to this work. Abstract: The accumulation of metals in natural environments is a growing concern of modern societies since they constitute persistent, non-degradable contaminants. Microorganisms are involved in redox processes and participate to the biogeochemical cycling of metals. Some endospore-forming Firmicutes (EFF) are known to oxidize and reduce specific metals and have been isolated from metal-contaminated sites. However, whether EFF isolated from uncontaminated sites have the same capabilities has not been thoroughly studied. In this study, we measured manganese oxidation and copper resistance of aerobic EFF from uncontaminated sites. For the purposes of this study we have sampled 22 natural habitats and isolated 109 EFF strains. -
Biological Influence of Cry1ab Gene Insertion on the Endophytic Bacteria Community in Transgenic Rice
Turkish Journal of Biology Turk J Biol (2018) 42: 231-239 http://journals.tubitak.gov.tr/biology/ © TÜBİTAK Research Article doi:10.3906/biy-1708-32 Biological influence of cry1Ab gene insertion on the endophytic bacteria community in transgenic rice 1 1 1,2, Xu WANG , Mengyu CAI , Yu ZHOU * 1 State Key Laboratory of Tea Plant Biology and Utilization, School of Tea and Food Science Technology, Anhui Agricultural University, Heifei, P.R. China 2 State Key Laboratory Breeding Base for Zhejiang Sustainable Plant Pest Control, Agricultural Ministry Key Laboratory for Pesticide Residue Detection, Zhejiang Province Key Laboratory for Food Safety, Institute of Quality and Standard for Agro-products, Zhejiang Academy of Agricultural Sciences, Hangzhou, P.R. China Received: 13.08.2017 Accepted/Published Online: 19.04.2018 Final Version: 13.06.2018 Abstract: The commercial release of genetically modified (GMO) rice for insect control in China is a subject of debate. Although a series of studies have focused on the safety evaluation of the agroecosystem, the endophytes of transgenic rice are rarely considered. Here, the influence of endophyte populations and communities was investigated and compared for transgenic and nontransgenic rice. Population-level investigation suggested that cry1Ab gene insertion influenced to a varying degree the rice endophytes at the seedling stage, but a significant difference was only observed in leaves of Bt22 (Zhejiang22 transgenic rice) between the GMO and wild-type rice. Community-level analysis using the 16S rRNA gene showed that strains of the phyla Proteobacteria and Firmicutes were the predominant groups occurring in the three transgenic rice plants and their corresponding parents. -
Microbial Diversity and Cyanobacterial Production in Dziani Dzaha Crater Lake, a Unique Tropical Thalassohaline Environment
RESEARCH ARTICLE Microbial Diversity and Cyanobacterial Production in Dziani Dzaha Crater Lake, a Unique Tropical Thalassohaline Environment Christophe Leboulanger1*, HeÂlène Agogue 2☯, CeÂcile Bernard3☯, Marc Bouvy1☯, Claire Carre 1³, Maria Cellamare3¤³, Charlotte Duval3³, Eric Fouilland4☯, Patrice Got4☯, Laurent Intertaglia5³, CeÂline Lavergne2³, Emilie Le Floc'h4☯, CeÂcile Roques4³, GeÂrard Sarazin6☯ a1111111111 1 UMR MARBEC, Institut de Recherche pour le DeÂveloppement, Sète-Montpellier, France, 2 UMR LIENSs, Centre National de la Recherche Scientifique, La Rochelle, France, 3 UMR MCAM, MuseÂum National a1111111111 d'Histoire Naturelle, Paris, France, 4 UMR MARBEC, Centre National de la Recherche Scientifique, Sète- a1111111111 Montpellier, France, 5 Observatoire OceÂanologique de Banyuls-sur-Mer, Universite Pierre et Marie Curie, a1111111111 Banyuls-sur-Mer, France, 6 UMR7154 Institut de Physique du Globe de Paris, Universite Paris Diderot, a1111111111 Paris, France ☯ These authors contributed equally to this work. ¤ Current address: Phyto-Quality, 15 rue PeÂtrarque, Paris, France ³ These authors also contributed equally to this work. * [email protected] OPEN ACCESS Citation: Leboulanger C, Agogue H, Bernard C, Bouvy M, Carre C, Cellamare M, et al. (2017) Abstract Microbial Diversity and Cyanobacterial Production in Dziani Dzaha Crater Lake, a Unique Tropical This study describes, for the first time, the water chemistry and microbial diversity in Dziani Thalassohaline Environment. PLoS ONE 12(1): e0168879. doi:10.1371/journal.pone.0168879 Dzaha, a tropical crater lake located on Mayotte Island (Comoros archipelago, Western Indian Ocean). The lake water had a high level of dissolved matter and high alkalinity (10.6± Editor: Jean-FrancËois Humbert, INRA, FRANCE -1 2- 14.5 g L eq. -
Carotenoids Found in Bacillus R
Journal of Applied Microbiology ISSN 1364-5072 ORIGINAL ARTICLE Carotenoids found in Bacillus R. Khaneja1, L. Perez-Fons2, S. Fakhry3, L. Baccigalupi3, S. Steiger4,E.To1, G. Sandmann4, T.C. Dong5, E. Ricca3, P.D. Fraser2 and S.M. Cutting1 1 School of Biological Sciences, Royal Holloway, University of London, Egham, Surrey, UK 2 Centre for Systems and Synthetic Biology, Royal Holloway, University of London, Egham, Surrey, UK 3 Department of Structural and Functional Biology, Federico II University, Naples, Italy 4 J.W. Goethe Universita¨ t Frankfurt, Frankfurt, Germany 5 University of Medicine & Pharmacy, Ho Chi Minh City, Vietnam Keywords Abstract Bacillus, carotenoids, isoprenoids, spores. Aims: To identify the diversity of pigmented aerobic spore formers found in Correspondence the environment and to characterize the chemical nature of this pigmentation. Simon M. Cutting, School of Biological Materials and Results: Sampling of heat-resistant bacterial counts from soil, Sciences, Royal Holloway, University of sea water and the human gastrointestinal tract. Phylogenetic profiling using London, Egham, Surrey TW20 0EX, UK. analysis of 16S rRNA sequences to define species. Pigment profiling using E-mail: [email protected] high-performance liquid chromatography-photo diode array analysis. 2009 ⁄ 1179: received 30 June 2009, revised Conclusions: The most commonly found pigments were yellow, orange and 10 September 2009 and accepted 2 October pink. Isolates were nearly always members of the Bacillus genus and in most 2009 cases were related with known species such as Bacillus marisflavi, Bacillus indicus, Bacillus firmus, Bacillus altitudinis and Bacillus safensis. Three types of doi:10.1111/j.1365-2672.2009.04590.x carotenoids were found with absorption maxima at 455, 467 and 492 nm, cor- responding to the visible colours yellow, orange and pink, respectively. -
Variability of Rrna Operon Copy Number and Growth Rate Dynamics of Bacillus Isolated from an Extremely Oligotrophic Aquatic Ecosystem
ORIGINAL RESEARCH published: 05 January 2016 doi: 10.3389/fmicb.2015.01486 Variability of rRNA Operon Copy Number and Growth Rate Dynamics of Bacillus Isolated from an Extremely Oligotrophic Aquatic Ecosystem Jorge A. Valdivia-Anistro1, Luis E. Eguiarte-Fruns1, Gabriela Delgado-Sapién2, Pedro Márquez-Zacarías3, Jaime Gasca-Pineda1, Jennifer Learned4, James J. Elser4, Gabriela Olmedo-Alvarez5 and Valeria Souza1* 1 Laboratorio de Evolución Molecular y Experimental, Departamento de Ecología Evolutiva, Instituto de Ecología, Universidad Nacional Autónoma de México, Coyoacán, Mexico, 2 Laboratorio de Genómica Bacteriana, Departamento de Microbiología y Parasitología, Facultad de Medicina, Universidad Nacional Autónoma de México, Coyoacán, Mexico, 3 School of Biology, Georgia Institute of Technology, Atlanta, GA, USA, 4 School of Life Sciences, Arizona State University, Tempe, AZ, USA, 5 Laboratorio de Bacteriología Molecular, Departamento de Ingeniería Genética, CINVESTAV – Unidad Irapuato, Irapuato, Mexico The ribosomal RNA (rrn) operon is a key suite of genes related to the production Edited by: of protein synthesis machinery and thus to bacterial growth physiology. Experimental Roland Hatzenpichler, evidence has suggested an intrinsic relationship between the number of copies of this California Institute of Technology, USA operon and environmental resource availability, especially the availability of phosphorus Reviewed by: (P), because bacteria that live in oligotrophic ecosystems usually have few rrn operons Sebastian Kopf, Princeton University, USA and a slow growth rate. The Cuatro Ciénegas Basin (CCB) is a complex aquatic Albert Leopold Mueller, ecosystem that contains an unusually high microbial diversity that is able to persist Stanford University, USA under highly oligotrophic conditions. These environmental conditions impose a variety *Correspondence: Valeria Souza of strong selective pressures that shape the genome dynamics of their inhabitants. -
Is Intestinal Bacterial Diversity Enhanced by Trans-Species
Supplementary materials Is Intestinal Bacterial Diversity Enhanced by Trans-Species Spread in the Mixed-Species Flock of Hooded Crane (Grus monacha) and Bean Goose (Anser fabalis) Wintering in the Lower and Middle Yangtze River Floodplain? Zhuqing Yang 1,2 and Lizhi Zhou 1,2,* 1 School of Resources and Environmental Engineering, Anhui University, Hefei 230601, China; [email protected] 2 Anhui Province Key Laboratory of Wetland Ecological Protection and Restoration (Anhui University), Hefei 230601, China * Correspondence: [email protected] Supplementary Citation: Yang, Z.; Zhou, L. Is Intestinal Bacterial Diversity Enhanced by Trans-Species Spread in the Mixed-Species Flock of Hooded Crane (Grus monacha) and Bean Goose (Anser fabalis) Wintering in the Lower and Middle Yangtze River Floodplain?. Animals 2021, 11, x. https://doi.org/10.3390/xxxxx Received: 04 January 2021 Accepted: 12 January 2021 Published: 18 January 2021 Publisher’s Note: MDPI stays neu- tral with regard to jurisdictional claims in published maps and institu- tional affiliations. Copyright: © 2021 by the authors. Submitted for possible open access publication under the terms and conditions of the Creative Commons Attribution (CC BY) license (http://creativecommons.org/licenses /by/4.0/). Animals 2021, 11, 233. https://doi.org/10.3390/ani11010233 www.mdpi.com/journal/animals Animals 2021, 11, 233 2 of 11 Figure S1. Study area and sample collection sites. Figure S2. Intestinal bacterial OTUs in the hooded crane and bean goose on overall.HC: hooded crane; BG: bean goose. Animals 2021, 11, 233 3 of 11 Figure S3. Intestinal bacterial alpha diversity in the hooded crane and bean goose on overall.Bars represent mean; error bars denote standard deviation; Differences of intestinal bacterial alpha di- versity between different species were identified by one-way ANOVA (P < 0.001). -
Cjm-2017-0571.Pdf
Canadian Journal of Microbiology Salt-tolerant and plant growth-promoting bacteria isolated from high-yield paddy soil Journal: Canadian Journal of Microbiology Manuscript ID cjm-2017-0571.R4 Manuscript Type: Article Date Submitted by the 10-Apr-2018 Author: Complete List of Authors: Shi-Ying, Zhang; Yunnan Institute of Microbiology; Yunnan Agricultural University Cong, Fan; Yunnan Institute of Microbiology; Yunnan Agricultural University Yong-xia, Wang; Yunnan Institute of Microbiology Yun-sheng, Xia; Yunnan Agricultural University Wei, Xiao; Yunnan Institute of Microbiology Xiao-Long,Draft Cui; Yunnan Institute of Microbiology Rice, plant-growth promoting bacteria, diversity, salinity tolerance, 1- Keyword: aminocyclopropane-1-carboxycarboxylate deaminase Is the invited manuscript for consideration in a Special Not applicable (regular submission) Issue? : https://mc06.manuscriptcentral.com/cjm-pubs Page 1 of 33 Canadian Journal of Microbiology 1 Salt-tolerant and plant growth-promoting bacteria isolated from high-yield paddy soil 2 3 Shiying Zhang 1, 2 , Cong Fan 1, 2 , Yongxia Wang 1, Yunsheng Xia 2, 4 Wei Xiao 1, Xiaolong Cui 1 5 1 Yunnan Institute of Microbiology, Yunnan University, Kunming, China 6 2 Yunnan Engineering Laboratory of Soil Fertility and Pollution Remediation, Yunnan Agricultural 7 University, Kunming, China 8 These authors contributed equally to this work. Draft Correspondence Xiaolong Cui, Yunnan Institute of Microbiology, Yunnan University, Kunming, 650091, PR China. Tel:86-871-65033543, E-mail: [email protected]. Wei Xiao, Yunnan Institute of Microbiology, Yunnan University, Kunming, 650091, PR China. Tel:86-871-65033543, E-mail: [email protected]. 1 https://mc06.manuscriptcentral.com/cjm-pubs Canadian Journal of Microbiology Page 2 of 33 9 Abstract: Growth and productivity of rice is negatively affected by soil salinity. -
Diversity and Bioactivity of Marine Bacteria Associated with the Sponges Candidaspongia Flabellata and Rhopaloeides Odorabile from the Great Barrier Reef in Australia
diversity Article Diversity and Bioactivity of Marine Bacteria Associated with the Sponges Candidaspongia flabellata and Rhopaloeides odorabile from the Great Barrier Reef in Australia Candice M. Brinkmann 1, Philip S. Kearns 2, Elizabeth Evans-Illidge 2 and D. Ipek˙ Kurtböke 1,* ID 1 Genecology Research Centre and Faculty of Science, Health, Education and Engineering, University of the Sunshine Coast, Maroochydore DC, QLD 4558, Australia; [email protected] 2 Australian Institute of Marine Science, 1526 Cape Cleveland Road, Cape Cleveland, QLD 4810, Australia; [email protected] (P.S.K.); [email protected] (E.E.-I.) * Correspondence: [email protected] Received: 12 July 2017; Accepted: 1 September 2017; Published: 18 September 2017 Abstract: Sponges and their associated microbial communities have sparked much interest in recent decades due on the abundant production of chemically diverse metabolites that in nature serve as functional compounds required by the marine sponge host. These compounds were found to carry therapeutic importance for medicinal applications. In the presented study, 123 bacterial isolates from the culture collection of the Australian Institute of Marine Science (AIMS) previously isolated from two different sponge species, namely Candidaspongia flabellata and Rhopaloeides odorabile, originating from different locations on the Great Barrier Reef in Queensland, Australia, were thus studied for their bioactivity. The symbiotic bacterial isolates were first identified using 16S rRNA gene analysis and they were found to belong to five different dominating classes of Domain Bacteria, namely Alphaproteobacteria, Gammaproteobacteria, Flavobacteria, Bacilli and Actinobacteria. Following their taxonomical categorization, the isolates were screened for their antimicrobial activity against human pathogenic microbial reference strains: Escherichia coli (ATCC® BAA-196™), E.