Extreme Cold Environments: a Suitable Niche for Selection of Novel Psychrotrophic Microbes for Biotechnological Applications
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Biodiversity of Psychrotrophic Microbes and Their Biotechnological Applications
Journal of Applied Biology & Biotechnology Vol. 7(04), pp. 99-108, July-August, 2019 Available online at http://www.jabonline.in DOI: 10.7324/JABB.2019.70415 Biodiversity of psychrotrophic microbes and their biotechnological applications Ajar Nath Yadav1*, Neelam Yadav2, Shashwati Ghosh Sachan3, Anil Kumar Saxena4 1Department of Biotechnology, Akal College of Agriculture, Eternal University, Baru Sahib, Himachal Pradesh, India, 2Gopi Nath P. G. College, Veer Bahadur Singh Purvanchal University, Uttar Pradesh, India, 3Department of Bio-Engineering, Birla Institute of Technology, Ranchi, Jharkhand, India, 4ICAR-National Bureau of Agriculturally Important Microorganisms, Mau, Uttar Pradesh, India ARTICLE INFO ABSTRACT Article history: The extreme cold environments harbor novel psychrotrophic microbes. The psychrotrophic microbes have been reported Received on: December 02, 2018 Accepted on: January 16, 2019 as plant growth promoters and biocontrol agents for sustainable agriculture, in industry as cold-adapted hydrolytic enzymes and in medicine as secondary metabolites and pharmaceutical important bioactive compounds. Inoculation Available online: July 04, 2019 with psychrotrophic/psychrotolerant strains significantly enhanced root/shoot biomass and nutrients uptake as compared to non-bacterized control. The psychrotrophic microbes play important role in alleviation of cold stress in plant growing Key words: at high hill and low temperature and conditions. The psychrotrophic microbes have been reported from worldwide Adaptation, Biodiversity, -
A Taxonomic Note on the Genus Lactobacillus
Taxonomic Description template 1 A taxonomic note on the genus Lactobacillus: 2 Description of 23 novel genera, emended description 3 of the genus Lactobacillus Beijerinck 1901, and union 4 of Lactobacillaceae and Leuconostocaceae 5 Jinshui Zheng1, $, Stijn Wittouck2, $, Elisa Salvetti3, $, Charles M.A.P. Franz4, Hugh M.B. Harris5, Paola 6 Mattarelli6, Paul W. O’Toole5, Bruno Pot7, Peter Vandamme8, Jens Walter9, 10, Koichi Watanabe11, 12, 7 Sander Wuyts2, Giovanna E. Felis3, #*, Michael G. Gänzle9, 13#*, Sarah Lebeer2 # 8 '© [Jinshui Zheng, Stijn Wittouck, Elisa Salvetti, Charles M.A.P. Franz, Hugh M.B. Harris, Paola 9 Mattarelli, Paul W. O’Toole, Bruno Pot, Peter Vandamme, Jens Walter, Koichi Watanabe, Sander 10 Wuyts, Giovanna E. Felis, Michael G. Gänzle, Sarah Lebeer]. 11 The definitive peer reviewed, edited version of this article is published in International Journal of 12 Systematic and Evolutionary Microbiology, https://doi.org/10.1099/ijsem.0.004107 13 1Huazhong Agricultural University, State Key Laboratory of Agricultural Microbiology, Hubei Key 14 Laboratory of Agricultural Bioinformatics, Wuhan, Hubei, P.R. China. 15 2Research Group Environmental Ecology and Applied Microbiology, Department of Bioscience 16 Engineering, University of Antwerp, Antwerp, Belgium 17 3 Dept. of Biotechnology, University of Verona, Verona, Italy 18 4 Max Rubner‐Institut, Department of Microbiology and Biotechnology, Kiel, Germany 19 5 School of Microbiology & APC Microbiome Ireland, University College Cork, Co. Cork, Ireland 20 6 University of Bologna, Dept. of Agricultural and Food Sciences, Bologna, Italy 21 7 Research Group of Industrial Microbiology and Food Biotechnology (IMDO), Vrije Universiteit 22 Brussel, Brussels, Belgium 23 8 Laboratory of Microbiology, Department of Biochemistry and Microbiology, Ghent University, Ghent, 24 Belgium 25 9 Department of Agricultural, Food & Nutritional Science, University of Alberta, Edmonton, Canada 26 10 Department of Biological Sciences, University of Alberta, Edmonton, Canada 27 11 National Taiwan University, Dept. -
Corynebacterium Sp.|NML98-0116
1 Limnochorda_pilosa~GCF_001544015.1@NZ_AP014924=Bacteria-Firmicutes-Limnochordia-Limnochordales-Limnochordaceae-Limnochorda-Limnochorda_pilosa 0,9635 Ammonifex_degensii|KC4~GCF_000024605.1@NC_013385=Bacteria-Firmicutes-Clostridia-Thermoanaerobacterales-Thermoanaerobacteraceae-Ammonifex-Ammonifex_degensii 0,985 Symbiobacterium_thermophilum|IAM14863~GCF_000009905.1@NC_006177=Bacteria-Firmicutes-Clostridia-Clostridiales-Symbiobacteriaceae-Symbiobacterium-Symbiobacterium_thermophilum Varibaculum_timonense~GCF_900169515.1@NZ_LT827020=Bacteria-Actinobacteria-Actinobacteria-Actinomycetales-Actinomycetaceae-Varibaculum-Varibaculum_timonense 1 Rubrobacter_aplysinae~GCF_001029505.1@NZ_LEKH01000003=Bacteria-Actinobacteria-Rubrobacteria-Rubrobacterales-Rubrobacteraceae-Rubrobacter-Rubrobacter_aplysinae 0,975 Rubrobacter_xylanophilus|DSM9941~GCF_000014185.1@NC_008148=Bacteria-Actinobacteria-Rubrobacteria-Rubrobacterales-Rubrobacteraceae-Rubrobacter-Rubrobacter_xylanophilus 1 Rubrobacter_radiotolerans~GCF_000661895.1@NZ_CP007514=Bacteria-Actinobacteria-Rubrobacteria-Rubrobacterales-Rubrobacteraceae-Rubrobacter-Rubrobacter_radiotolerans Actinobacteria_bacterium_rbg_16_64_13~GCA_001768675.1@MELN01000053=Bacteria-Actinobacteria-unknown_class-unknown_order-unknown_family-unknown_genus-Actinobacteria_bacterium_rbg_16_64_13 1 Actinobacteria_bacterium_13_2_20cm_68_14~GCA_001914705.1@MNDB01000040=Bacteria-Actinobacteria-unknown_class-unknown_order-unknown_family-unknown_genus-Actinobacteria_bacterium_13_2_20cm_68_14 1 0,9803 Thermoleophilum_album~GCF_900108055.1@NZ_FNWJ01000001=Bacteria-Actinobacteria-Thermoleophilia-Thermoleophilales-Thermoleophilaceae-Thermoleophilum-Thermoleophilum_album -
Comparative Analysis of the Composition Of
Comparative Analysis of the Composition of Intestinal Bacterial Communities in Dastarcus helophoroides Fed Different Diets Author(s): Wei-Wei Wang, Cai He, Jun Cui, Hai-Dong Wang, and Meng-Lou Li Source: Journal of Insect Science, 14(111):1-13. 2014. Published By: Entomological Society of America DOI: http://dx.doi.org/10.1673/031.014.111 URL: http://www.bioone.org/doi/full/10.1673/031.014.111 BioOne (www.bioone.org) is a nonprofit, online aggregation of core research in the biological, ecological, and environmental sciences. BioOne provides a sustainable online platform for over 170 journals and books published by nonprofit societies, associations, museums, institutions, and presses. Your use of this PDF, the BioOne Web site, and all posted and associated content indicates your acceptance of BioOne’s Terms of Use, available at www.bioone.org/page/terms_of_use. Usage of BioOne content is strictly limited to personal, educational, and non-commercial use. Commercial inquiries or rights and permissions requests should be directed to the individual publisher as copyright holder. BioOne sees sustainable scholarly publishing as an inherently collaborative enterprise connecting authors, nonprofit publishers, academic institutions, research libraries, and research funders in the common goal of maximizing access to critical research. Journal of Insect Science: Vol. 14 | Article 111 Wang et al. Comparative analysis of the composition of intestinal bacterial communities in Dastarcus helophoroides fed different diets Wei-Wei Wang,1a Cai He,2b Jun Cui,1c Hai-Dong Wang,1d and Meng-Lou Li1e* 1Laboratory of Forestry Pests Biological Control, College of Forestry, Northwest A&F University, Yangling, Shaanxi, 712100, P. -
1 Large-Scale Maps of Variable Infection Efficiencies in Aquatic Bacteroidetes Phage
1 Large-scale maps of variable infection efficiencies in aquatic Bacteroidetes phage- 2 host model systems 3 Karin Holmfeldt1,2, Natalie Solonenko1,a, Cristina Howard-Varona1,a, Mario Moreno1, 4 Rex R. Malmstrom3, Matthew J. Blow3, Matthew B. Sullivan1,a,b 5 1Department of Molecular and Cellular Biology, University of Arizona, Tucson, AZ, 6 USA 7 2Centre for Ecology and Evolution in Microbial Model Systems, Department of Biology 8 and Environmental Sciences, Linnaeus University, Kalmar, Sweden 9 3DOE Joint Genome Institute, Walnut Creek, CA, USA 10 Current affiliation: Departments of aMicrobiology, and bCivil, Environmental and 11 Geodetic Engineering, The Ohio State University, Columbus, OH 12 * corresponding author: Karin Holmfeldt, Center for Ecology and Evolution in Microbial 13 Model Systems, Department of Biology and Environmental Sciences, Linnaeus 14 University, SE-391 82 Kalmar, Sweden. Phone nr +46-480-447310, Fax nr +46-480- 15 447305, email [email protected]. 16 17 Running title: Variable phage-host infection interactions 1 18 Summary 19 Microbes drive ecosystem functioning, and their viruses modulate these impacts through 20 mortality, gene transfer, and metabolic reprogramming. Despite the importance of virus- 21 host interactions and likely variable infection efficiencies of individual phages across 22 hosts, such variability is seldom quantified. Here we quantify infection efficiencies of 38 23 phages against 19 host strains in aquatic Cellulophaga (Bacteroidetes) phage-host model 24 systems. Binary data revealed that some phages infected only one strain while others 25 infected 17, whereas quantitative data revealed that efficiency of infection could vary 10 26 orders of magnitude, even among phages within one population. -
Table S5. the Information of the Bacteria Annotated in the Soil Community at Species Level
Table S5. The information of the bacteria annotated in the soil community at species level No. Phylum Class Order Family Genus Species The number of contigs Abundance(%) 1 Firmicutes Bacilli Bacillales Bacillaceae Bacillus Bacillus cereus 1749 5.145782459 2 Bacteroidetes Cytophagia Cytophagales Hymenobacteraceae Hymenobacter Hymenobacter sedentarius 1538 4.52499338 3 Gemmatimonadetes Gemmatimonadetes Gemmatimonadales Gemmatimonadaceae Gemmatirosa Gemmatirosa kalamazoonesis 1020 3.000970902 4 Proteobacteria Alphaproteobacteria Sphingomonadales Sphingomonadaceae Sphingomonas Sphingomonas indica 797 2.344876284 5 Firmicutes Bacilli Lactobacillales Streptococcaceae Lactococcus Lactococcus piscium 542 1.594633558 6 Actinobacteria Thermoleophilia Solirubrobacterales Conexibacteraceae Conexibacter Conexibacter woesei 471 1.385742446 7 Proteobacteria Alphaproteobacteria Sphingomonadales Sphingomonadaceae Sphingomonas Sphingomonas taxi 430 1.265115184 8 Proteobacteria Alphaproteobacteria Sphingomonadales Sphingomonadaceae Sphingomonas Sphingomonas wittichii 388 1.141545794 9 Proteobacteria Alphaproteobacteria Sphingomonadales Sphingomonadaceae Sphingomonas Sphingomonas sp. FARSPH 298 0.876754244 10 Proteobacteria Alphaproteobacteria Sphingomonadales Sphingomonadaceae Sphingomonas Sorangium cellulosum 260 0.764953367 11 Proteobacteria Deltaproteobacteria Myxococcales Polyangiaceae Sorangium Sphingomonas sp. Cra20 260 0.764953367 12 Proteobacteria Alphaproteobacteria Sphingomonadales Sphingomonadaceae Sphingomonas Sphingomonas panacis 252 0.741416341 -
Biores 09 1 316 Zain
PEER-REVIEWED ARTICLE bioresources.com Bacterial Community Structure and Biochemical Changes Associated With Composting of Lignocellulosic Oil Palm Empty Fruit Bunch Mohd Huzairi Mohd Zainudin,a Mohd Ali Hassan,a,* Umi Kalsom Md Shah,a Norhani Abdullah,b,c Mitsunori Tokura,d Hisashi Yasueda,d Yoshihito Shirai,e Kenji Sakai,f and Azhari Samsu Baharuddin g Bacterial community structure and biochemical changes during the composting of lignocellulosic oil palm empty bunch (EFB) and palm oil mill effluent (POME) anaerobic sludge were studied by examining the succession of the bacterial community and its association with changes in lignocellulosic components by denaturing gradient gel electrophoresis (DGGE) and the 16S rRNA gene clone library. During composting, a major reduction in cellulose after 10 days from 50% to 19% and the carbon content from 44% to 27% towards the end of the 40-day composting period were observed. The C/N ratio also decreased. A drastic change in the bacterial community structure and diversity throughout the composting process was clearly observed using PCR- DGGE banding patterns. The bacterial community drastically shifted between the thermophilic and maturing stages. 16s rRNA clones belonging to the genera Bacillus, Exiguobacterium, Desemzia, and Planococcus were the dominant groups throughout composting. The species closely related to Solibacillus silvestris were found to be major contributors to changes in the lignocellulosic component. Clones identified as Thermobacillus xylanilyticus, Brachybacterium faecium, -
EGU2018-16859-1, 2018 EGU General Assembly 2018 © Author(S) 2018
Geophysical Research Abstracts Vol. 20, EGU2018-16859-1, 2018 EGU General Assembly 2018 © Author(s) 2018. CC Attribution 4.0 license. Mg-rich carbonates mediated by a bacterium isolated from an extreme alkaline lake in Central Spain M. Esther Sanz- Montero (1), Óscar Cabestrero (1), and Mónica Sánchez-Román (2) (1) Mineralogy and Petrology Department, University Complutense of Madrid, Spain, (2) Vrije University Amsterdam, Earth Sciences Department, Amsterdam, The Netherlands Microbial mats known to contain up to 45% of hydromagnesite and other Mg-rich carbonates (nesquehonite, dolomite) are present in Las Eras, a highly alkaline and brackish to saline playa-lake situated about 150 km north of Madrid, Central Spain. This water body contains a high concentration of chloride with dominant carbonate over sulphates ions, which results in pH values ranging from 9.2 to more than 11. Unlike, other soda lakes, Las Eras is characterized by significant amounts of Mg that, in addition to Na-carbonates, favor the formation of Mg-carbonates (Cabestrero and Sanz-Montero, 2016). Here we report the bacterial precipitation of Mg-rich carbonates (hydromagnesite, dypingite and dolomite, among others) mediated by an isolated bacterium from the playa lake microbial-mat. Scanning electron microscopy (SEM) images shows that the carbonate precipitates are closely associated to bacterial cells and extra-cellular polysaccharides (EPS). Analysis of the 16S rRNA sequence of this isolated bacterium revealed a 99.8% identity (i.e. same species) with Desemzia incerta (Y17300). This EPS-forming bacterium was cultivated in a saline and organic rich solid medium at 30º C, in order to simulate the extreme conditions in this playa lake system and the precipitation in its microbial mat. -
Cryobacterium Psychrophilum Gen. Nov., Sp. Nov., Nom. Rev., Comb. Nov
INTERNATIONALJOURNAL OF SYSTEMATICBACTERIOLOGY, Apr. 1997, p. 474-478 Vol. 47, No. 2 0020-7713/97/$04.00+0 Copyright 0 1997, International Union of Microbiological Societies Cryobacterium psychrophilum gen. nov., sp. nov., nom. rev., comb. nov., an Obligately Psychrophilic Actinomycete To Accommodate “Curtobacteriumpsychrophilum” Inoue and Komagata 1976 KEN-ICHIRO SUZUKI,l* JUNK0 SASAKI,’ MASAKAZU URAMOT0,2 TAKASHI NAKASE,’ AND KAZUO KOMAGATA3 Japan Collection of Microorganisms, The Institute of Physical and Chemical Research (RIKEN), Wako-shi, Saitama 351 -01, Department of Agriculture, Tamagawa University, Machida, Tokyo 192, and Tokyo University of Agn’culture, Setagaya-ku, Tokyo 156, Japan “Curtobacteriumpsychrophilum,” proposed by Inoue and Komagata in 1976, is a psychrophilic gram-positive irregular rod isolated from Antarctic soil. This organism grew optimally at 9 to 12°C and did not grow at higher than 18°C. Chemotaxonomic characteristics of this organism were the presence of 2,4-diaminobutyricacid in the cell wall and menaquinone-10as the predominant respiratory quinone. The cellular fatty acid profile, which contained a significant amount of an anteiso-branched monounsaturated acid, 12-methyl tetradecenoic acid, was a distinctive characteristic of this organism and was reasonable for adaptation to low temperature. Phylogenetic analysis based on 16s ribosomal DNA sequences revealed that this organism was positioned at a separate branch in the family Microbacteriaceae, actinomycetes with group B peptidoglycan. We propose the name Cryobacterium psychrophilum gen. nov., sp. nov. for this organism. The type strain is JCM 1463 (=IAM 12024 =ATCC 43563 =IF0 15735 =NCIMB 2068). In the course of an ecological study of microorganisms in albidurn JCM 1344T, Curtobacterium citreum JCM 134fiT, and Curtobacterium Antarctica, Inoue isolated some obligately psychrophilic bac- pusillurn JCM 1350T were cultivated at 10 and 17°C on R agar for comparison of the cellular fatty acid compositions. -
Degrading Bacteria in Deep‐
View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by Aberdeen University Research Archive Journal of Applied Microbiology ISSN 1364-5072 ORIGINAL ARTICLE Hydrocarbon-degrading bacteria in deep-water subarctic sediments (Faroe-Shetland Channel) E. Gontikaki1 , L.D. Potts1, J.A. Anderson2 and U. Witte1 1 School of Biological Sciences, University of Aberdeen, Aberdeen, UK 2 Surface Chemistry and Catalysis Group, Materials and Chemical Engineering, School of Engineering, University of Aberdeen, Aberdeen, UK Keywords Abstract clone libraries, Faroe-Shetland Channel, hydrocarbon degradation, isolates, marine Aims: The aim of this study was the baseline description of oil-degrading bacteria, oil spill, Oleispira, sediment. sediment bacteria along a depth transect in the Faroe-Shetland Channel (FSC) and the identification of biomarker taxa for the detection of oil contamination Correspondence in FSC sediments. Evangelia Gontikaki and Ursula Witte, School Methods and Results: Oil-degrading sediment bacteria from 135, 500 and of Biological Sciences, University of Aberdeen, 1000 m were enriched in cultures with crude oil as the sole carbon source (at Aberdeen, UK. ° E-mails: [email protected] and 12, 5 and 0 C respectively). The enriched communities were studied using [email protected] culture-dependent and culture-independent (clone libraries) techniques. Isolated bacterial strains were tested for hydrocarbon degradation capability. 2017/2412: received 8 December 2017, Bacterial isolates included well-known oil-degrading taxa and several that are revised 16 May 2018 and accepted 18 June reported in that capacity for the first time (Sulfitobacter, Ahrensia, Belliella, 2018 Chryseobacterium). The orders Oceanospirillales and Alteromonadales dominated clone libraries in all stations but significant differences occurred at doi:10.1111/jam.14030 genus level particularly between the shallow and the deep, cold-water stations. -
Simulation of Deepwater Horizon Oil Plume Reveals Substrate Specialization Within a Complex Community of Hydrocarbon Degraders
Simulation of Deepwater Horizon oil plume reveals substrate specialization within a complex community of hydrocarbon degraders Ping Hua, Eric A. Dubinskya,b, Alexander J. Probstc, Jian Wangd, Christian M. K. Sieberc,e, Lauren M. Toma, Piero R. Gardinalid, Jillian F. Banfieldc, Ronald M. Atlasf, and Gary L. Andersena,b,1 aEcology Department, Climate and Ecosystem Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720; bDepartment of Environmental Science, Policy and Management, University of California, Berkeley, CA 94720; cDepartment of Earth and Planetary Science, University of California, Berkeley, CA 94720; dDepartment of Chemistry and Biochemistry, Florida International University, Miami, FL 33199; eDepartment of Energy, Joint Genome Institute, Walnut Creek, CA 94598; and fDepartment of Biology, University of Louisville, Louisville, KY 40292 Edited by Rita R. Colwell, University of Maryland, College Park, MD, and approved May 30, 2017 (received for review March 1, 2017) The Deepwater Horizon (DWH) accident released an estimated Many studies of the plume samples reported that the structure 4.1 million barrels of oil and 1010 mol of natural gas into the Gulf of the microbial communities shifted as time progressed (3–6, 11– of Mexico, forming deep-sea plumes of dispersed oil droplets and 16). Member(s) of the order Oceanospirillales dominated from dissolved gases that were largely degraded by bacteria. During the May to mid-June, after which their numbers rapidly declined and course of this 3-mo disaster a series of different bacterial taxa were species of Cycloclasticus and Colwellia dominated for the next enriched in succession within deep plumes, but the metabolic capa- several weeks (4, 5, 14). -
Isobaculum Melis Gen. Nov., Sp. Nov., a Carnobacterium-Like Organism
International Journal of Systematic and Evolutionary Microbiology (2002), 52, 207–210 Printed in Great Britain Isobaculum melis gen. nov., sp. nov., a NOTE Carnobacterium-like organism isolated from the intestine of a badger 1 School of Food Biosciences, Matthew D. Collins,1 Roger A. Hutson,1 Geoffrey Foster,2 Enevold Falsen3 Whiteknights, University 4 of Reading, Reading and Norbert Weiss RG6 6AP, UK 2 SAC Veterinary Science Author for correspondence: Matthew D. Collins. Tel: j44 118 935 7000. Fax: j44 118 926 7917. Division, Drummondhill, e-mail: m.d.collins!reading.ac.uk Inverness, UK 3 Culture Collection, Department of Clinical Phenotypic and phylogenetic studies were performed on a hitherto Bacteriology, University of undescribed facultatively anaerobic, catalase-negative, Gram-positive rod- Go$ teborg, Go$ teborg T Sweden shaped organism, strain M577-94 , isolated from the small intestine of a dead badger. It resembled carnobacteria in terms of its long-chain cellular fatty acid 4 Deutsche Sammlung von Mikroorganismen und composition, but differed markedly from the latter in possessing a cell-wall Zellkulturen GmbH, murein based on L-lysine (type L-Lys–L-Thr–Gly). Comparative 16S rRNA gene Braunschweig, Germany sequencing showed that the unknown bacterium represents a new line closely related to, albeit distinct from, the genera Carnobacterium and Desemzia.On the basis of phylogenetic and phenotypic evidence, it is proposed that strain M577-94T be classified as Isobaculum melis gen. nov., sp. nov. The type strain of Isobaculum melis is CCUG 37660T (l DSM 13760T). Keywords: Isobaculum melis, 16S rRNA, taxonomy, phylogeny The genus Carnobacterium was proposed as the genus known non-spore-forming rod-shaped bacterium, accommodating the species Lactobacillus divergens isolated from a badger, which somewhat resembles and Lactobacillus piscicola and a number of atypical carnobacteria.