Endospore Forming Gram Positive Rods and Cocci
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A Moderately Boron-Tolerant Candidatus Novel Soil Bacterium Lysinibacillus Pakistanensis Sp
Pak. J. Bot., 45(SI): 41-50, January 2013. A MODERATELY BORON-TOLERANT CANDIDATUS NOVEL SOIL BACTERIUM LYSINIBACILLUS PAKISTANENSIS SP. NOV. CAND., ISOLATED FROM SOYBEAN (GLYCINE MAX L.) RHIZOSPHERE RIFAT HAYAT1,2,3*, IFTIKHAR AHMED2*, JAYOUNG PAEK4, MUHAMMAD EHSAN1, 2, MUHAMMAD IQBAL2 AND YOUNG H. CHANG4* 1Department of Soil Science & SWC, PMAS Arid Agriculture University, Rawalpindi, 46300, Pakistan 2Plant Biotechnology Program, National Institute for Genomics and Advanced Biotechnology (NIGAB), National Agricultural Research Center (NARC), Park Road, Islamabad-45500, Pakistan 3Institute of Molecular and Cellular Biosciences, The University of Tokyo, Yayoi 1-1-1, Bunkyo-ku, Tokyo 113-8657, Japan 4Korean Collection of Type Cultures, Biological Resource Center, KRIBB, 52 Oeundong, Daejeon 305-806, Republic of Korea *Correspondence E-mail: [email protected]; [email protected]; [email protected] Abstract A Gram-positive, motile, rod-shaped, endospore-forming and moderately boron (B) tolerant novel candidatus strain, designated as NCCP-54T, was isolated from rhizospheric soil of soybean (Glycine max L.) sampled from the experimental area of Research Farm, PMAS Arid Agriculture University, Rawalpindi, Pakistan. To delineate its taxonomic position, the strain was subject to polyphasic characterization. Cells of the strain NCCP-54T can grow at 10-45○C (optimum at 28○C) at pH ranges of 6.5-9.0 (optimum at pH 7.0) and in 0-6% NaCl (w/v) in tryptic soya agar medium. It can also tolerate 150 mM boric acid in agar medium; however, optimum growth occurs in the absence of boric acid. Based on 16S rRNA gene sequence analysis, strain NCCP-54T showed highest similarity to Lysinibacillus xylanilyticus KCTC13423T (99.1%), Lysinibacillus fusiformis KCTC3454T (98.5%), Lysinibacillus boronitolerans KCTC13709T (98.4%), Lysinibacillus parviboronicapiens KCTC13154T (97.8%), and Lysinibacillus sphaericus KCTC3346T (97.5%) and less than 97% with other closely related taxa. -
Bacillus Safensis FO-36B and Bacillus Pumilus SAFR-032: a Whole Genome Comparison of Two Spacecraft Assembly Facility Isolates
bioRxiv preprint doi: https://doi.org/10.1101/283937; this version posted April 24, 2018. The copyright holder for this preprint (which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. 1 Bacillus safensis FO-36b and Bacillus pumilus SAFR-032: A Whole Genome 2 Comparison of Two Spacecraft Assembly Facility Isolates 3 Madhan R Tirumalai1, Victor G. Stepanov1, Andrea Wünsche1, Saied Montazari1, 4 Racquel O. Gonzalez1, Kasturi Venkateswaran2, George. E. Fox1§ 5 1Department of Biology and Biochemistry, University of Houston, Houston, TX, 77204-5001. 6 2 Biotechnology & Planetary Protection Group, NASA Jet Propulsion Laboratories, California 7 Institute of Technology, Pasadena, CA, 91109. 8 9 §Corresponding author: 10 Dr. George E. Fox 11 Dept. Biology & Biochemistry 12 University of Houston, Houston, TX 77204-5001 13 713-743-8363; 713-743-8351 (FAX); email: [email protected] 14 15 Email addresses: 16 MRT: [email protected] 17 VGS: [email protected] 18 AW: [email protected] 19 SM: [email protected] 20 ROG: [email protected] 21 KV: [email protected] 22 GEF: [email protected] 1 bioRxiv preprint doi: https://doi.org/10.1101/283937; this version posted April 24, 2018. The copyright holder for this preprint (which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. 23 Keywords: Planetary protection, Bacillus endospores, extreme radiation resistance, peroxide 24 resistance, genome comparison, phage insertions 25 26 Background 27 Microbial persistence in built environments such as spacecraft cleanroom facilities [1-3] is often 28 characterized by their unusual resistances to different physical and chemical factors [1, 4-7]. -
Int J Syst Evol Microbiol 67 1
Author version : International Journal of Systematic and Evolutionary Microbiology, vol.67(6); 2017; 1949-1956 Imhoffiella gen. nov.. a marine phototrophic member of family Chromatiaceae including the description of Imhoffiella purpurea sp. nov. and the reclassification of Thiorhodococcus bheemlicus Anil Kumar et al. 2007 as Imhoffiella bheemlica comb. nov. Nupur1, Mohit Kumar Saini1, Pradeep Kumar Singh1, Suresh Korpole1, Naga Radha Srinivas Tanuku2, Shinichi Takaichi3 and Anil Kumar Pinnaka1* 1Microbial Type Culture Collection and Gene Bank, CSIR-Institute of Microbial Technology, Sector 39A, Chandigarh – 160 036, INDIA 2CSIR-National Institute of Oceanography, Regional Centre, 176, Lawsons Bay Colony, Visakhapatnam-530017, INDIA 3Nippon Medical School, Department of Biology, Kyonan-cho, Musashino 180-0023, Japan Address for correspondence* Dr. P. Anil Kumar Microbial Type Culture Collection and Gene Bank, Institute of Microbial Technology (CSIR), Sector 39A, Chandigarh – 160 036, INDIA Email: [email protected] Telephone: 00-91-172-6665170 Running title Imhoffiella purpurea sp. nov. Subject category New taxa (Gammaproteobacteria) The GenBank/EMBL/DDBJ accession number for the 16S rRNA gene sequence of strain AK35T is HF562219. A coccoid-shaped phototrophic purple sulfur bacterium was isolated from a coastal surface water sample collected from Visakhapatnam, India. Strain AK35T was Gram-negative, motile, purple colored, containing bacteriochlorophyll a and the carotenoid rhodopinal as major photosynthetic pigments. Strain AK35T was able to grow photoheterotrophically and could utilize a number of organic substrates. It was unable to grow photoautotrophically. Strain AK35T was able to utilize sulfide and thiosulfate as electron donors. The main fatty acids present were identified as C16:0, C18:1 T 7c and C16:1 7c and/or iso-C15:0 2OH (Summed feature 3) were identified. -
Coupled Reductive and Oxidative Sulfur Cycling in the Phototrophic Plate of a Meromictic Lake T
Geobiology (2014), 12, 451–468 DOI: 10.1111/gbi.12092 Coupled reductive and oxidative sulfur cycling in the phototrophic plate of a meromictic lake T. L. HAMILTON,1 R. J. BOVEE,2 V. THIEL,3 S. R. SATTIN,2 W. MOHR,2 I. SCHAPERDOTH,1 K. VOGL,3 W. P. GILHOOLY III,4 T. W. LYONS,5 L. P. TOMSHO,3 S. C. SCHUSTER,3,6 J. OVERMANN,7 D. A. BRYANT,3,6,8 A. PEARSON2 AND J. L. MACALADY1 1Department of Geosciences, Penn State Astrobiology Research Center (PSARC), The Pennsylvania State University, University Park, PA, USA 2Department of Earth and Planetary Sciences, Harvard University, Cambridge, MA, USA 3Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, PA, USA 4Department of Earth Sciences, Indiana University-Purdue University Indianapolis, Indianapolis, IN, USA 5Department of Earth Sciences, University of California, Riverside, CA, USA 6Singapore Center for Environmental Life Sciences Engineering, Nanyang Technological University, Nanyang, Singapore 7Leibniz-Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen, Braunschweig, Germany 8Department of Chemistry and Biochemistry, Montana State University, Bozeman, MT, USA ABSTRACT Mahoney Lake represents an extreme meromictic model system and is a valuable site for examining the organisms and processes that sustain photic zone euxinia (PZE). A single population of purple sulfur bacte- ria (PSB) living in a dense phototrophic plate in the chemocline is responsible for most of the primary pro- duction in Mahoney Lake. Here, we present metagenomic data from this phototrophic plate – including the genome of the major PSB, as obtained from both a highly enriched culture and from the metagenomic data – as well as evidence for multiple other taxa that contribute to the oxidative sulfur cycle and to sulfate reduction. -
Access to Electronic Thesis
Access to Electronic Thesis Author: Khalid Salim Al-Abri Thesis title: USE OF MOLECULAR APPROACHES TO STUDY THE OCCURRENCE OF EXTREMOPHILES AND EXTREMODURES IN NON-EXTREME ENVIRONMENTS Qualification: PhD This electronic thesis is protected by the Copyright, Designs and Patents Act 1988. No reproduction is permitted without consent of the author. It is also protected by the Creative Commons Licence allowing Attributions-Non-commercial-No derivatives. If this electronic thesis has been edited by the author it will be indicated as such on the title page and in the text. USE OF MOLECULAR APPROACHES TO STUDY THE OCCURRENCE OF EXTREMOPHILES AND EXTREMODURES IN NON-EXTREME ENVIRONMENTS By Khalid Salim Al-Abri Msc., University of Sultan Qaboos, Muscat, Oman Mphil, University of Sheffield, England Thesis submitted in partial fulfillment for the requirements of the Degree of Doctor of Philosophy in the Department of Molecular Biology and Biotechnology, University of Sheffield, England 2011 Introductory Pages I DEDICATION To the memory of my father, loving mother, wife “Muneera” and son “Anas”, brothers and sisters. Introductory Pages II ACKNOWLEDGEMENTS Above all, I thank Allah for helping me in completing this project. I wish to express my thanks to my supervisor Professor Milton Wainwright, for his guidance, supervision, support, understanding and help in this project. In addition, he also stood beside me in all difficulties that faced me during study. My thanks are due to Dr. D. J. Gilmour for his co-supervision, technical assistance, his time and understanding that made some of my laboratory work easier. In the Ministry of Regional Municipalities and Water Resources, I am particularly grateful to Engineer Said Al Alawi, Director General of Health Control, for allowing me to carry out my PhD study at the University of Sheffield. -
Influence of Elevation in Structuring the Gut Bacterial Communities of Apis Cerana
Journal of Entomology and Zoology Studies 2017; 5(3): 434-440 E-ISSN: 2320-7078 P-ISSN: 2349-6800 Influence of elevation in structuring the gut JEZS 2017; 5(3): 434-440 © 2017 JEZS bacterial communities of Apis cerana Fab Received: 04-03-2017 Accepted: 04-04-2017 S Sudhagar S Sudhagar, PV Rami Reddy and G Nagalakshmi (A). Ph.D. Scholar, Department of Biotechnology, Jain Abstract University, Bengaluru, India (B). Division of Entomology and Apis cerana F., a native honey bee of India, is an important crop pollinator and also managed for honey Nematology, ICAR-Indian production and other bee products. In present study, 13 population samples were collected from different Institute of Horticultural agro climatic regions of South India, with varied elevation ranging from 1 to 2268 m Mean Sea Level Research, Bengaluru - 560089, (MSL). The research work was carried out at the Division of India Entomology and Nematology, ICAR-Indian Institute of Horticultural Research (IIHR), Bengaluru during 2014-16 to understand the influence of habitat elevation on the gut colonizing bacterial communities of PV Rami Reddy A. cerana. By culturing and 16S rDNA sequencing the major bacterial isolates of the gut were identified. Division of Entomology and Forty six isolates of culturable bacteria belonging to phyla Proteobacteria and Firmicutes were identified. Nematology, ICAR-Indian Bacillus sp. (Firmicutes) was predominant among higher elevation populations, while Proteobacteria Institute of Horticultural (Serratia sp., Klebsiella sp. and Enterobacter sp.) was dominant bacterial phylotype in plain and coastal Research, Bengaluru - 560089, populations. From the results it was evident that variability existed in gut microbial communities among India populations inhabiting different elevations. -
This Article Was Published in an Elsevier Journal. the Attached Copy
This article was published in an Elsevier journal. The attached copy is furnished to the author for non-commercial research and education use, including for instruction at the author’s institution, sharing with colleagues and providing to institution administration. Other uses, including reproduction and distribution, or selling or licensing copies, or posting to personal, institutional or third party websites are prohibited. In most cases authors are permitted to post their version of the article (e.g. in Word or Tex form) to their personal website or institutional repository. Authors requiring further information regarding Elsevier’s archiving and manuscript policies are encouraged to visit: http://www.elsevier.com/copyright Author's personal copy Available online at www.sciencedirect.com Geochimica et Cosmochimica Acta 72 (2008) 1396–1414 www.elsevier.com/locate/gca Okenane, a biomarker for purple sulfur bacteria (Chromatiaceae), and other new carotenoid derivatives from the 1640 Ma Barney Creek Formation Jochen J. Brocks a,*, Philippe Schaeffer b a Research School of Earth Sciences and Centre for Macroevolution and Macroecology, The Australian National University, Canberra, ACT 0200, Australia b Laboratoire de Ge´ochimie Bio-organique, CNRS UMR 7177, Ecole Europe´enne de Chimie, Polyme`res et Mate´riaux, 25 rue Becquerel, 67200 Strasbourg, France Received 20 June 2007; accepted in revised form 12 December 2007; available online 23 December 2007 Abstract Carbonates of the 1640 million years (Ma) old Barney Creek Formation (BCF), McArthur Basin, Australia, contain more than 22 different C40 carotenoid derivatives including lycopane, c-carotane, b-carotane, chlorobactane, isorenieratane, b-iso- renieratane, renieratane, b-renierapurpurane, renierapurpurane and the monoaromatic carotenoid okenane. -
Screening of Antagonistic Bacterial Isolates from Hives of Apis Cerana in Vietnam Against the Causal Agent of American Foulbrood
1202 Chiang Mai J. Sci. 2018; 45(3) Chiang Mai J. Sci. 2018; 45(3) : 1202-1213 http://epg.science.cmu.ac.th/ejournal/ Contributed Paper Screening of Antagonistic Bacterial Isolates from Hives of Apis cerana in Vietnam Against the Causal Agent of American Foulbrood of Honey Bees, Paenibacillus larvae Sasiprapa Krongdang [a,b], Jeffery S. Pettis [c], Geoffrey R. Williams [d] and Panuwan Chantawannakul* [a,e,f] [a] Bee Protection Laboratory, Department of Biology, Faculty of Science, Chiang Mai University, Chiang Mai 50200, Thailand. [b] Interdisciplinary Program in Biotechnology, Graduate School, Chiang Mai University, Chiang Mai 50200, Thailand. [c] USDA-ARS, Bee Research Laboratory, Beltsville, MD, 20705, USA. [d] Department of Entomology & Plant Pathology, Auburn University, Auburn, AL, 36849, USA. [e] Center of Excellence in Bioresources for Agriculture, Industry and Medicine, Chiang Mai University, Chiang Mai, 50200, Thailand. [f] International College of Digital Innovation, Chiang Mai University, 50200, Thailand. * Author for correspondence; e-mail: [email protected] Received: 15 February 2017 Accepted: 20 June 2017 ABSTRACT American foulbrood (AFB) is a virulent disease of honey bee brood caused by the Gram-positive, spore-forming bacterium; Paenibacillus larvae. In this study, we determined the potential of bacteria isolated from hives of Asian honey bees (Apis cerana) to act antagonistically against P. larvae. Isolates were sampled from different locations on the fronts of A. cerana hives in Vietnam. A total of 69 isolates were obtained through a culture-dependent method and 16S rRNA gene sequencing showed affiliation to the phyla Firmicutes and Actinobacteria. Out of 69 isolates, 15 showed strong inhibitory activity against P. -
The Genus Lysinibacillus: Versatile Phenotype and Promising Future
International Journal of Science and Research (IJSR) ISSN: 2319-7064 Impact Factor (2018): 7.426 The Genus Lysinibacillus: Versatile Phenotype and Promising Future Kayath Aimé Christian1, 2, Vouidibio Mbozo Alain Brice1, Mokémiabeka Saturnin Nicaise1, Kaya-Ongoto Moïse Doria1, Nguimbi Etienne 1Laboratoire de Biologie Cellulaire et Moléculaire (BCM), Faculté des Sciences et Techniques, Université Marien NGOUABI, BP. 69, Brazzaville, République du Congo 2Institut national de Recherche en Sciences Exactes et Naturelles (IRSEN), Brazzaville, Congo Abstract: This critical mini review aims to summarize the current status of the genus Lysinibacillus research, and discusses several challenges in order to open new vision for future development.The wonderful world of bacteria does not even more reach surprises in the scientific community.Every year several bacterial species are discovered from a lot of sources and areas for their phenotypic diversities, therapeutic aspects, industrial and biopharmaceutical interest. Since ten years twenty six Lysinibacillus species were discovered with several exciting characteristics. Keywords: Lysinibacillussp., Lysinibacilluslouembei, versatile phenotype, promising future, bacteriocins 1. The Genus Lysinibacillus L. Manganicus (Liu et al., 2013) L. Tabacifolii (Duan et al., 2013) Initially designated as Bacillus spp, the genus Lysinibacillus L. Halotolerans (Kong et al., 2014) are Gram positive, ubiquitous, motile, aerobic or facultative L. Composti (Rifat Hayat et al., 2013) anaerobicbelonging to the family Bacillaceae of the phylum L. Pakistanensis (AHMED et al., 2014) L. Varians (Zhu et al., 2014) Firmicutes. Nomenclature was proposed for the first time by L. Fluoroglycofenilyticus (Cheng et al., 2015) Ahmed et al. (2007). The genus Lysinibacillusis consistently L. Alkaliphilus (Zhao et al., 2015) characterized by rod-shaped bacillithat form endospores L.Acetophenoni (Azmatunnisa et al., 2015) (Ahmed et al., 2007)with an A4α (L-Lys–D-Asp) cell-wall L. -
(12) United States Patent (10) Patent No.: US 8,501,463 B2 Cox Et Al
USOO85O1463B2 (12) United States Patent (10) Patent No.: US 8,501,463 B2 Cox et al. (45) Date of Patent: Aug. 6, 2013 (54) ANAEROBC PRODUCTION OF HYDROGEN (56) References Cited AND OTHER CHEMICAL PRODUCTS U.S. PATENT DOCUMENTS (75) Inventors: Marion E. Cox, Morgan Hill, CA (US); 5,350,685 A 9/1994 Taguchi et al. Laura M. Nondorf, Morgan Hill, CA 5,464,539 A 11/1995 Ueno et al. 6,090,266 A 7/2000 Roychowdhury (US); Steven M. Cox, Morgan Hill, CA 6,251,643 B1 6/2001 Hansen et al. (US) 6,299,774 B1 * 10/2001 Ainsworth et al. ........... 210,603 6,342,378 B1 1/2002 Zhang et al. (73) Assignee: Anaerobe Systems, Morgan Hill, CA 6,569,332 B2 * 5/2003 Ainsworth et al. ........... 210,603 2004/0050778 A1 3/2004 Noike et al. (US) 2004/O115782 A1 6/2004 Paterek (*) Notice: Subject to any disclaimer, the term of this FOREIGN PATENT DOCUMENTS patent is extended or adjusted under 35 WO WO-2006-119052 A2 11/2006 U.S.C. 154(b) by 1347 days. OTHER PUBLICATIONS (21) Appl. No.: 11/912,881 Liu et al., 2004. Effects of Culture and Medium Conditions on Hydro gen Production from Starch Using Anaerobic Bacteria. Journal of (22) PCT Fled: Apr. 27, 2006 Bioscience and Bioengineering, vol. 98, No. 4, pp. 251-256.* Zhang et al., Distributed Computer Control of Penicillin Fermenta (86) PCT NO.: PCT/US2OO6/O16332 tion Industrial Production. Proceedings of the IEEE International Conference on Industrial Technology, 1996, pp. 52-56.* S371 (c)(1), New Brunswick, an eppenforf Company, pp. -
Bacillus Subtilis Spore Resistance Towards Low Pressure Plasma Sterilization = Bacillus Subtilis Sporenresistenz Gegenüber Plas
Bacillus subtilis Spore Resistance towards Low Pressure Plasma Sterilization Dissertation to obtain the degree Doctor Rerum Naturalium (Dr. rer. nat.) at the Faculty of Biology and Biotechnology Ruhr University Bochum International Graduate School of Biosciences Ruhr University Bochum (Chair of Microbiology) Submitted by Marina Raguse from KönigsWusterhausen, Germany Bochum, April 2016 First supervisor: Prof. Dr. Franz Narberhaus Second supervisor: Prof. Dr. Peter Awakowicz Bacillus subtilis Sporenresistenz gegenüber Plasmasterilisation im Niederdruck Dissertation zur Erlangung des Grades eines Doktors der Naturwissenschaften (Dr. rer. nat.) der Fakultät für Biologie und Biotechnologie der Ruhr-Universität Bochum Internationale Graduiertenschule für Biowissenschaften Ruhr-Universität Bochum (Lehrstuhl für Biologie der Mikroorganismen) Vorgelegt von Marina Raguse aus KönigsWusterhausen, Germany Bochum, April 2016 Erstbetreuer: Prof. Dr. Franz Narberhaus Zweitbetreuer: Prof. Dr. Peter Awakowicz This work was conducted externally at the German Aerospace Center, Institute for Aerospace Medicine, Department of Radiation Biology, Research Group Astrobiology/Space Microbiology, in 51147, Cologne, Germany, under the supervision of Dr. Ralf Möller from 01.12.2012 until 31.07.2016. Diese Arbeit wurde extern durchgeführt am Deutschen Zentrum für Luft- und Raumfahrt, Institut für Luft-und Raumfahrtmedizin, Abteilung Strahlenbiologie, Arbeitsgruppe Astrobiologie/Weltraummikrobiologie in 51147, Köln, unter der Betreuung von Dr. Ralf Möller im Zeitrahmen vom 01.12.2012 – 31.07.2016. Danksagung Zuerst möchte ich mich herzlich bei meinem Doktorvater Prof. Dr. Franz Narberhaus für die Unterstützung bedanken und für die Möglichkeit auch extern am Lehrstuhl für Biologie der Mikroorganismen der Ruhr-Universität Bochum zu promovieren. Mein großer Dank gilt ebenfalls meinem Korreferenten Prof. Dr. Peter Awakowicz, für sein allzeit großes Interesse an der Arbeit mit Sporen und die anregenden Diskussionen in den PlasmaDecon- Meetings. -
Community Structure of Soil Bacteria in a Tropical Rainforest Several Years After Fire
Microbes Environ. Vol. 23, No. 1, 49–56, 2008 http://wwwsoc.nii.ac.jp/jsme2/ doi:10.1264/jsme2.23.49 Community Structure of Soil Bacteria in a Tropical Rainforest Several Years After Fire SHIGETO OTSUKA1*, IMADE SUDIANA2, AIICHIRO KOMORI1, KAZUO ISOBE1, SHIN DEGUCHI1†, MASAYA NISHIYAMA1‡, HIDEYUKI SHIMIZU3, and KEISHI SENOO1 1Department of Applied Biological Chemistry, Graduate School of Agricultural and Life Sciences, The University of Tokyo, 1–1–1 Yayoi, Bunkyo-ku, Tokyo 113–8657, Japan; 2Research Centre for Biology, The Indonesian Institute of Sciences (LIPI), Cibinong Science Centre, Jalan Raya Jakarta-Bogor Km. 46, Cibinong 16911, Indonesia; and 3Asian Environment Research Group, National Institute for Environmental Studies, 16–2 Onogawa, Tsukuba, Ibaraki 305–8506, Japan (Received July 18, 2007—Accepted November 22, 2007) The bacterial community structure in soil of a tropical rainforest in East Kalimantan, Indonesia, where forest fires occurred in 1997–1998, was analysed by denaturing gradient gel electrophoresis (DGGE) with soil samples collected from the area in 2001 and 2002. The study sites were composed of a control forest area without fire damage, a lightly- burned forest area, and a heavily-burned forest area. DGGE band patterns showed that there were many common bac- terial taxa across the areas although the vegetation is not the same. In addition, it was indicated that a change of vegeta- tion in burned areas brought the change in bacterial community structure during 2001–2002. It was also indicated that, depending on a perspective, community structure of soil bacteria in post-fire non-climax forest several years after fire can be more heterogeneous compared with that in unburned climax forest.