Analysis of Bacteria Associated with Honeys of Different Geographical
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KUALITAS SILASE JERAMI PADI UNTUK PAKAN TERNAK RUMINANSIA DENGAN PENAMBAHAN Bacillus Circulans
KUALITAS SILASE JERAMI PADI UNTUK PAKAN TERNAK RUMINANSIA DENGAN PENAMBAHAN Bacillus circulans SANTIKA INDRIYANI PROGRAM STUDI BIOLOGI FAKULTAS SAINS DAN TEKNOLOGI UNIVERSITAS ISLAM NEGERI SYARIF HIDAYATULLAH JAKARTA 2019 M/1441 H KUALITAS SILASE JERAMI PADI UNTUK PAKAN TERNAK RUMINANSIA DENGAN PENAMBAHAN Bacillus circulans SKRIPSI Sebagai Salah Satu Syarat untuk Memperoleh Gelar Sarjana Sains Pada Program Studi Biologi Fakultas Sains dan Teknologi Universitas Islam Negeri Syarif Hidayatullah Jakarta SANTIKA INDRIYANI 11150950000046 PROGRAM STUDI BIOLOGI FAKULTAS SAINS DAN TEKNOLOGI UNIVERSITAS ISLAM NEGERI SYARIF HIDAYATULLAH JAKARTA 2019 M / 1441 H ii ABSTRAK Santika Indriyani. Kualitas Silase Jerami Padi untuk Pakan Ternak Ruminansia dengan Penambahan Bacillus circulans. SKRIPSI. Program Studi Biologi. Fakultas Sains dan Teknologi. Universitas Islam Negeri Syarif Hidayatullah Jakarta. 2019. Dibimbing Oleh Wahidin Teguh Sasongko, M.Sc dan Etyn Yunita M.Si Ketersediaan pakan hijauan terbatas tergantung dengan musim. Jerami padi belum dimanfaatkan secara maksimal untuk pakan ternak ruminansia karena kandungan nutrisinya rendah. Teknologi pakan ternak dengan pembuatan silase dapat mengawetkan sekaligus mempertahankan bahkan dapat meningkatkan kualitas nutrisi bahan pakan. Bacillus circulans berpotensi untuk ditambahkan pada pembuatan silase. Penelitian ini bertujuan untuk mengetahui apakah penambahan B.circulans pada pembuatan silase mampu meningkatkan kualitas fermentatif dan kualitas nutrisi silase jerami padi dan untuk mengetahui pada konsentrasi berapa B.circulans mampu meningkatkan kualitas fermentatif dan kualitas nutrisi silase jerami padi. Penelitian ini menggunakan Rancangan Acak Lengkap (RAL) dengan empat perlakuan penambahan B.circulans (0%, 0,075%, 0,1%, dan 0,125%) dan empat pengulangan. Analisis kualitas fermentatif dan nutrisi dilakukan pada hari ke 21. Hasil silase jerami padi dengan penambahan B.circulans 0,125% memiliki pH lebih rendah dari 0%, namun masih pada kisaran pH basa. -
Molecular Characterization of Local Strains of Bacillus Thuringiensis in the North of Algeria
Vol. 10(45), pp. 1880-1887, 7 December, 2016 DOI: 10.5897/AJMR2016.7946 Article Number: AEEEB8A61917 ISSN 1996-0808 African Journal of Microbiology Research Copyright © 2016 Author(s) retain the copyright of this article http://www.academicjournals.org/AJMR Full Length Research Paper Molecular characterization of local strains of Bacillus thuringiensis in the North of Algeria Kebdani M.1*, Mahdjoubi M.2, Cherif A.2, Gaouar B. N.1 and Rebiahi S. A.3 1Laboratory of Ecology and Management of Naturals Ecosystems, Ecology and Environment Department, Abu Bakr Belkaid University, Imama, Tlemcen, Algeria. 2Laboratory of Biotechnology and Bio-Geo Resources Valorization, Higher Institute for Biotechnology, University of Manouba Biotechpole of Sidi Thabet Sidi Thabet, Ariana, Tunisia. 3Laboratory of Applied Microbiology and Environment, Biology Department, Abu Bakr Belkaid University, Imama, Tlemcen, Algeria. Received 1 February, 2016, Accepted 19 September, 2016. The analysis of soil samples taken from orange groves located in four cities of Northern Algeria allowed the isolation and identification of 24 strains belonging to the group Bacillus cereus, based on their physiological, biochemical and molecular characters investigated. They were divided as follow: 12 strains of Bacillus thuringiensis, 1 strain of Bacillus pumilis, 4 strains of Bacillus cereus, 5 strains of Bacillus subtilis and 2 Bacillus mycoides strains. After the molecular characterization performed with the aid of polymerase chain reaction (PCR) analysis, it was confirmed from the parasporal bodies using a scanning electron microscope that the strains of the identified collection belong to the species, B. thuringiensis. Key words: Bacillus cereus, Bacillus thuringiensis, Bacillus pumilis, Bacillus subtilis, Bacillus mycoides, polymerase chain reaction, scanning EM. -
Identification and Sequence Analyses of Novel Lipase Encoding Novel
Shahinyan et al. BMC Microbiology (2017) 17:103 DOI 10.1186/s12866-017-1016-4 RESEARCH ARTICLE Open Access Identification and sequence analyses of novel lipase encoding novel thermophillic bacilli isolated from Armenian geothermal springs Grigor Shahinyan1, Armine Margaryan1,2, Hovik Panosyan2 and Armen Trchounian1,2* Abstract Background: Among the huge diversity of thermophilic bacteria mainly bacilli have been reported as active thermostable lipase producers. Geothermal springs serve as the main source for isolation of thermostable lipase producing bacilli. Thermostable lipolytic enzymes, functioning in the harsh conditions, have promising applications in processing of organic chemicals, detergent formulation, synthesis of biosurfactants, pharmaceutical processing etc. Results: In order to study the distribution of lipase-producing thermophilic bacilli and their specific lipase protein primary structures, three lipase producers from different genera were isolated from mesothermal (27.5–70 °C) springs distributed on the territory of Armenia and Nagorno Karabakh. Based on phenotypic characteristics and 16S rRNA gene sequencing the isolates were identified as Geobacillus sp., Bacillus licheniformis and Anoxibacillus flavithermus strains. The lipase genes of isolates were sequenced by using initially designed primer sets. Multiple alignments generated from primary structures of the lipase proteins and annotated lipase protein sequences, conserved regions analysis and amino acid composition have illustrated the similarity (98–99%) of the lipases with true lipases (family I) and GDSL esterase family (family II). A conserved sequence block that determines the thermostability has been identified in the multiple alignments of the lipase proteins. Conclusions: The results are spreading light on the lipase producing bacilli distribution in geothermal springs in Armenia and Nagorno Karabakh. -
Suppression of Macrophomina Phaseolina and Rhizoctonia Solani and Yield Enhancement in Peanut
International Journal of ChemTech Research CODEN (USA): IJCRGG, ISSN: 0974-4290, ISSN(Online):2455-9555 Vol.9, No.06 pp 142-152, 2016 Soil application of Bacillus pumilus and Bacillus subtilis for suppression of Macrophomina phaseolina and Rhizoctonia solani and yield enhancement in peanut 1 2 1 Hassan Abd-El-Khair *, Karima H. E. Haggag and Ibrahim E. Elshahawy 1Plant Pathology Department, Agricultural and Biological Research Division, National Research Centre, Giza, Egypt . 2Pest Rearing Department , Central Agricultural Pesticides Laboratory, Agricultural Research Centre, Dokki, Giza, Egypt . Abstract : Macrophomina phaseolina and Rhizoctonia solani were isolated from the root of peanut plants collected from field with typical symptoms of root rot in Beheira governorate, Egypt. The two isolated fungi were able to attack peanut plants (cv. Giza 4) causing damping- off and root rot diseases in the pathogenicity test. Thirty rhizobacteria isolates (Rb) were isolated from the rhizosphere of healthy peanut plants. The inhibition effect of these isolates to the growth of M. phaseolina and R. solani was in the range of 11.1- 88.9%. The effective isolates of Rb 14 , Rb 18 and Rb 28 , which showed a strong antagonistic effect (reached to 88.9) in dual culture against the growth of M. phaseolina and R. solani , were selected and have been identified according the morphological, cultural and biochemical characters as Bacillus pumilus (Rb 14 ), Bacillus subtilis (Rb 18 ) and Bacillus subtilis (Rb 28 ). Control of peanut damping-off and root rot by soil application with these rhizobacteria isolates in addition to two isolates of B. pumilus (Bp) and B. subtilis (Bs) obtained from Plant Pathology Dept., National Research Centre, was attempted in pots and in field trials. -
Biochemical Characterization and 16S Rdna Sequencing of Lipolytic Thermophiles from Selayang Hot Spring, Malaysia
View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by Elsevier - Publisher Connector Available online at www.sciencedirect.com ScienceDirect IERI Procedia 5 ( 2013 ) 258 – 264 2013 International Conference on Agricultural and Natural Resources Engineering Biochemical Characterization and 16S rDNA Sequencing of Lipolytic Thermophiles from Selayang Hot Spring, Malaysia a a a a M.J., Norashirene , H., Umi Sarah , M.H, Siti Khairiyah and S., Nurdiana aFaculty of Applied Sciences, Universiti Teknologi MARA, 40450 Shah Alam, Selangor, Malaysia. Abstract Thermophiles are well known as organisms that can withstand extreme temperature. Thermoenzymes from thermophiles have numerous potential for biotechnological applications due to their integral stability to tolerate extreme pH and elevated temperature. Because of the industrial importance of lipases, there is ongoing interest in the isolation of new bacterial strain producing lipases. Six isolates of lipases producing thermophiles namely K7S1T53D5, K7S1T53D6, K7S1T53D11, K7S1T53D12, K7S2T51D14 and K7S2T51D19 were isolated from the Selayang Hot Spring, Malaysia. The sampling site is neutral in pH with a highest recorded temperature of 53°C. For the screening and isolation of lipolytic thermopiles, selective medium containing Tween 80 was used. Thermostability and the ability to degrade the substrate even at higher temperature was proved and determined by incubation of the positive isolates at temperature 53°C. Colonies with circular borders, convex in elevation with an entire margin and opaque were obtained. 16S rDNA gene amplification and sequence analysis were done for bacterial identification. The isolate of K7S1T53D6 was derived of genus Bacillus that is the spore forming type, rod shaped, aerobic, with the ability to degrade lipid. -
Production of Antimicrobial Agents by Bacillus Spp. Isolated from Al-Khor Coast Soils, Qatar
Vol. 11(41), pp. 1510-1519, 7 November, 2017 DOI: 10.5897/AJMR2017.8705 Article Number: EA9F76966550 ISSN 1996-0808 African Journal of Microbiology Research Copyright © 2017 Author(s) retain the copyright of this article http://www.academicjournals.org/AJMR Full Length Research Paper Production of antimicrobial agents by Bacillus spp. isolated from Al-Khor coast soils, Qatar Asmaa Missoum* and Roda Al-Thani Microbiology Laboratory, Department of Biological and Environmental Sciences, College of Arts and Sciences, University of Qatar, Doha, Qatar. Received 12 September, 2017; Accepted 6 October, 2017 Bacilli are Gram-positive, sporulating bacteria that can be found in diverse habitats, but mostly in soil. Many recent studies showed the importance of their antimicrobial agents that mainly target other Gram- positive bacteria. This study was conducted to assess the antibacterial activity of Al-Khor coastal soil Bacillus strains against four bacterial strains (Staphylococcus aureus, Staphylococcus epidermis, Escherichia coli, and Pseudomonas aeruginosa) by agar diffusion method as well as investigating best strain antibiotic production in liquid medium. The 25 isolated strains were identified using physical and biochemical tests. Results show that most strains possess significant antibacterial potential against S. aureus and S. epidermis, but however less toward E. coli. Strain 2B-1B optimum activity was achieved using Luria Bertani broth and at 35°C, with pH 9. Therefore, antimicrobial compounds from these strains can be good candidates for future antibiotics production. Further screening for antimicrobial agents should be carried out in search of novel therapeutic compounds. Key words: Al-Khor, zone of inhibition, Bacillus, coastal soil, antimicrobial agent. INTRODUCTION Bacillus bacteria belong to the Firmicutes phylum, the facultative aerobes, some can be anaerobic (Prieto et al., Bacillaceae family, and are Gram-positive bacteria that 2014). -
Bioprospecting of Antibacterial Metabolites in Seaweed Associated Bacterial Flora Along the Southeast Coast of India
Bioprospecting of antibacterial metabolites in seaweed associated bacterial flora along the southeast coast of India Thesis submitted to COCHIN UNIVERSITY OF SCIENCE AND TECHNOLOGY In partial fulfillment of the requirements for the degree of DOCTOR OF PHILOSOPHY in MARINE SCIENCES By BINI THILAKAN (Reg. No.3782) CENTRAL MARINE FISHERIES RESEARCH INSTITUTE (Indian council of Agricultural Research) Post Box No. 1603, Cochin-682018, INDIA October 2015 I do hereby declare that the thesis entitled “Bioprospecting of antibacterial metabolites in seaweed associated bacterial flora along the southeast coast of India” is the authentic and bonafide record of the research work carried out by me under the guidance of Dr. Kajal Chakraborty, Senior Scientist, Central Marine Fisheries Research Institute, Cochin, in partial fulfilment for the award of Ph.D. degree under the Faculty of Marine Sciences of Cochin University of Science and Technology, Cochin and no part thereof has been previously formed the basis for the award of any degree, diploma, associate ship, fellowship or other similar titles or recognition. Place: Cochin Date: 16/10/2015 BINI THILAKAN Dedicated to my family On this occasion of completing my doctoral degree dissertation, I realize that this work was not completed in a vacuum. I am thankful to many people who have helped me through the completion of this dissertation. Without thanking them my work will be incomplete. The first and foremost I wish to thank my supervisor, Dr.Kajal Chakraborty, Senior Scientist, Marine Biotechnology Division, CMFRI. who has been supportive since the days i joined CMFRI as a project assistant. He helped me come up with the thesis topic and guided me through the rough road to finish this thesis. -
Polyhydroxyalkanoate Biosynthesis by Oxalotrophic Bacteria from High Andean Soil
Univ. Sci. 23 (1): 35-59, 2018. doi: 10.11144/Javeriana.SC23-1.pbb0 Bogotá ORIGINAL ARTICLE Polyhydroxyalkanoate biosynthesis by oxalotrophic bacteria from high Andean soil Roger David Castillo Arteaga1, *, Edith Mariela Burbano Rosero2, Iván Darío Otero Ramírez3, Juan Camilo Roncallo1, Sandra Patricia Hidalgo Bonilla4 and Pablo Fernández Izquierdo2 Edited by Juan Carlos Salcedo-Reyes Abstract ([email protected]) 1. Universidade de São Paulo, Oxalate is a highly oxidized organic acid anion used as a carbon and energy Instituto de Ciências Biomédicas, Laboratório de Bioprodutos, source by oxalotrophic bacteria. Oxalogenic plants convert atmospheric CO2 Av. Prof. Lineu Prestes, 1374, São Paulo, into oxalic acid and oxalic salts. Oxalate-salt formation acts as a carbon sink in SP, Brasil, CEP 05508-900. terrestrial ecosystems via the oxalate-carbonate pathway (OCP). Oxalotrophic 2. Universidad de Nariño, bacteria might be implicated in other carbon-storage processes, including Departamento de Biología. the synthesis of polyhydroxyalkanoates (PHAs). More recently, a variety Grupo de Investigación de Biotecnología of bacteria from the Andean region of Colombia in Nariño have been Microbiana. Torobajo, Cl 18 - Cra 50. reported for their PHA-producing abilities. These species can degrade oxalate San Juan de Pasto, Colombia. and participate in the oxalate-carbonate pathway. The aim of this study 3. Universidad del Cauca, was to isolate and characterize oxalotrophic bacteria with the capacity to Facultad de Ciencias Agrarias, Grupo de Investigación en accumulate PHA biopolymers. Plants of the genus Oxalis were collected Aprovechamiento de Subproductos and bacteria were isolated from the soil adhering to the roots. The isolated Agroindustriales, Cl 5 No. -
Antimicrobial Activities of Bacteria Associated with the Brown Alga Padina Pavonica
View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by Frontiers - Publisher Connector ORIGINAL RESEARCH published: 12 July 2016 doi: 10.3389/fmicb.2016.01072 Antimicrobial Activities of Bacteria Associated with the Brown Alga Padina pavonica Amel Ismail 1, Leila Ktari 1, Mehboob Ahmed 2, 3, Henk Bolhuis 2, Abdellatif Boudabbous 4, Lucas J. Stal 2, 5, Mariana Silvia Cretoiu 2 and Monia El Bour 1* 1 National Institute of Marine Sciences and Technologies, Salammbô, Tunisia, 2 Department of Marine Microbiology and Biogeochemistry, Royal Netherlands Institute for Sea Research and Utrecht University, Yerseke, Netherlands, 3 Department of Microbiology and Molecular Genetics, University of the Punjab, Lahore, Pakistan, 4 Faculty of Mathematical, Physical and Natural Sciences of Tunis, Tunis El Manar University, Tunis, Tunisia, 5 Department of Aquatic Microbiology, Institute of Biodiversity and Ecosystem Dynamics, University of Amsterdam, Amsterdam, Netherlands Macroalgae belonging to the genus Padina are known to produce antibacterial compounds that may inhibit growth of human- and animal pathogens. Hitherto, it was unclear whether this antibacterial activity is produced by the macroalga itself or by secondary metabolite producing epiphytic bacteria. Here we report antibacterial Edited by: activities of epiphytic bacteria isolated from Padina pavonica (Peacocks tail) located on Olga Lage, northern coast of Tunisia. Eighteen isolates were obtained in pure culture and tested University of Porto, Portugal for antimicrobial activities. Based on the 16S rRNA gene sequences the isolates were Reviewed by: closely related to Proteobacteria (12 isolates; 2 Alpha- and 10 Gammaproteobacteria), Franz Goecke, Norwegian University of Life Sciences, Firmicutes (4 isolates) and Actinobacteria (2 isolates). -
Operational Group B. Amyloliquefaciens” Within the B
ORIGINAL RESEARCH published: 20 January 2017 doi: 10.3389/fmicb.2017.00022 Bacillus amyloliquefaciens, Bacillus velezensis, and Bacillus siamensis Form an “Operational Group B. amyloliquefaciens” within the B. subtilis Species Complex Ben Fan 1, Jochen Blom 2, Hans-Peter Klenk 3 and Rainer Borriss 4, 5* 1 Co-Innovation Center for Sustainable Forestry in Southern China, College of Forestry, Nanjing Forestry University, Nanjing, China, 2 Bioinformatics and Systems Biology, Justus-Liebig-Universität Giessen, Giessen, Germany, 3 School of Biology, Newcastle University, Newcastle upon Tyne, UK, 4 Fachgebiet Phytomedizin, Institut für Agrar- und Gartenbauwissenschaften, Humboldt Universität zu Berlin, Berlin, Germany, 5 Nord Reet UG, Greifswald, Germany Edited by: Rakesh Sharma, The plant growth promoting model bacterium FZB42T was proposed as the type strain Institute of Genomics and Integrative Biology (CSIR), India of Bacillus amyloliquefaciens subsp. plantarum (Borriss et al., 2011), but has been Reviewed by: recently recognized as being synonymous to Bacillus velezensis due to phylogenomic Prabhu B. Patil, analysis (Dunlap C. et al., 2016). However, until now, majority of publications consider Institute of Microbial Technology plant-associated close relatives of FZB42 still as “B. amyloliquefaciens.” Here, we (CSIR), India Bo Liu, reinvestigated the taxonomic status of FZB42 and related strains in its context to Fujian Academy of Agaricultural the free-living soil bacterium DSM7T, the type strain of B. amyloliquefaciens. We Sciences, China identified 66 bacterial genomes from the NCBI data bank with high similarity to DSM7T. *Correspondence: Rainer Borriss Dendrograms based on complete rpoB nucleotide sequences and on core genome [email protected] sequences, respectively, clustered into a clade consisting of three tightly linked branches: (1) B. -
Polycyclic Aromatic Hydrocarbon Degrading Bacteria from the Indonesian Marine Environment
BIODIVERSITAS ISSN: 1412-033X Volume 17, Number 2, October 2016 E-ISSN: 2085-4722 Pages: 857-864 DOI: 10.13057/biodiv/d170263 Polycyclic aromatic hydrocarbon degrading bacteria from the Indonesian Marine Environment ELVI YETTI♥, AHMAD THONTOWI, YOPI Laboratory of Biocatalyst and Fermentation, Research Centre for Biotechnology, Indonesian Institute of Sciences. Cibinong Science Center, Jl. Raya Bogor Km 46 Cibinong-Bogor 16911, West Java, Indonesia. Tel. +62-21-8754587, Fax. +62-21-8754588, ♥email: [email protected] Manuscript received: 20 April 2016. Revision accepted: 20 October 2016. Abstract. Yetti E, Thontowi A, Yopi. 2016. Polyaromatic hydrocarbon degrading bacteria from the Indonesian Marine Environment. Biodiversitas 17: 857-864. Oil spills are one of the main causes of pollution in marine environments. Oil degrading bacteria play an important role for bioremediation of oil spill in environment. We collected 132 isolates of marine bacteria isolated from several Indonesia marine areas, i.e. Pari Island, Jakarta, Kamal Port, East Java and Cilacap Bay, Central Java. These isolates were screened for capability to degrade polyaromatic hydrocarbons (PAHs). Selection test were carried out qualitatively using sublimation method and growth assay of the isolates on several PAHs i.e. phenanthrene, dibenzothiophene, fluorene, naphtalene, phenotiazine, and pyrene. The fifty-eight isolates indicated in having capability to degrade PAHs, consisted of 25 isolates were positive on naphthalene (nap) and 20 isolates showed ability to grow in phenanthrene (phen) containing media. Further, 38 isolates were selected for dibenzothiophene (dbt) degradation and 25 isolates were positive on fluorene (flr). On the other hand, 23 isolates presented capability to degrade in phenothiazine (ptz) and 15 isolates could grow in media with pyrene (pyr). -
Bacillus Rubiinfantis Sp. Nov. Strain Mt2t, a New Bacterial Species Isolated from Human Gut
TAXONOGENOMICS: GENOME OF A NEW ORGANISM Bacillus rubiinfantis sp. nov. strain mt2T, a new bacterial species isolated from human gut M. Tidjiani Alou1, J. Rathored1, S. Khelaifia1, C. Michelle1, S. Brah2, B. A. Diallo3, D. Raoult1,4 and J.-C. Lagier1 1) Faculté de médecine, Unité des Maladies Infectieuses et Tropicales Emergentes (URMITE), UM63, CNRS7278, IRD198, Inserm 1095, Aix-Marseille Université, Marseille, France, 2) Hopital National de Niamey, 3) Laboratoire de microbiologie, département de biologie, Université Abdou Moumouni de Niamey, Niamey, Niger and 4) Special Infectious Agents Unit, King Fahd Medical Research Center, King Abdulaziz University, Jeddah, Saudi Arabia Abstract Bacillus rubiinfantis sp. nov. strain mt2T is the type strain of B. rubiinfantis sp. nov., isolated from the fecal flora of a child with kwashiorkor in Niger. It is Gram-positive facultative anaerobic rod belonging to the Bacillaceae family. We describe the features of this organism alongside the complete genome sequence and annotation. The 4 311 083 bp long genome (one chromosome but no plasmid) contains 4028 protein-coding gene and 121 RNA genes including nine rRNA genes. New Microbes and New Infections © 2015 The Authors. Published by Elsevier Ltd on behalf of European Society of Clinical Microbiology and Infectious Diseases. Keywords: Bacillus rubiinfantis, culturomics, genome, taxonogenomics Original Submission: 7 July 2015; Revised Submission: 1 September 2015; Accepted: 7 September 2015 Article published online: 16 September 2015 The genus Bacillus was established in 1872 by Cohn and is Corresponding author: J.-C. Lagier, Faculté de Médecine, URMITE, composed of strictly aerobic and facultatively anaerobic rod- UMR CNRS 7278, IRD 198, INSERM U1095, Aix-Marseille Université, 27 Bd Jean Moulin, 13385 Marseille cedex 5, France shaped bacteria that form heat-resisting endospores [16–19].