Onalokyay-Dissertation-2015
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Black Soldier Fly Larvae As Value-Added Feed for Aquaculture in Maine Joshua Villazana University of Maine, [email protected]
The University of Maine DigitalCommons@UMaine Electronic Theses and Dissertations Fogler Library Winter 12-14-2018 Black Soldier Fly Larvae as Value-Added Feed for Aquaculture in Maine Joshua Villazana University of Maine, [email protected] Follow this and additional works at: https://digitalcommons.library.umaine.edu/etd Part of the Aquaculture and Fisheries Commons, and the Entomology Commons Recommended Citation Villazana, Joshua, "Black Soldier Fly Larvae as Value-Added Feed for Aquaculture in Maine" (2018). Electronic Theses and Dissertations. 2932. https://digitalcommons.library.umaine.edu/etd/2932 This Open-Access Thesis is brought to you for free and open access by DigitalCommons@UMaine. It has been accepted for inclusion in Electronic Theses and Dissertations by an authorized administrator of DigitalCommons@UMaine. For more information, please contact [email protected]. BLACK SOLDIER FLY LARVAE AS VALUE-ADDED FEED FOR AQUACULTURE IN MAINE By Joshua Villazana B.A. University of Texas at Brownsville, 2013 A THESIS Submitted in Partial Fulfillment of the Requirements for the Degree of Master of Science (in Entomology) The Graduate School The University of Maine December 2018 Advisory Committee: Andrei Alyokhin, Professor of Applied Entomology, Advisor Allison Gardner, Assistant Professor of Arthropod Vector Biology Edward Bernard, Lecturer of Microbiology © 2018 Joshua Villazana All Rights Reserved ii BLACK SOLDIER FLY LARVAE AS VALUE-ADDED FEED FOR AQUACULTURE IN MAINE By Joshua Villazana Thesis Advisor: Dr. Andrei Alyokhin An Abstract of the Thesis Presented in Partial Fulfillment of the Requirements for the Degree of Master of Science (in Entomology) December 2018 Black soldier flies (BSF), Hermetia illucens (Linnaeus) (Diptera: Stratiomyidae) consume decaying organic waste as larvae (BSFL) and can be used for recycling a variety of biogenic wastes. -
A Time Travel Story: Metagenomic Analyses Decipher the Unknown Geographical Shift and the Storage History of Possibly Smuggled Antique Marble Statues
Annals of Microbiology (2019) 69:1001–1021 https://doi.org/10.1007/s13213-019-1446-3 ORIGINAL ARTICLE A time travel story: metagenomic analyses decipher the unknown geographical shift and the storage history of possibly smuggled antique marble statues Guadalupe Piñar1 & Caroline Poyntner1 & Hakim Tafer 1 & Katja Sterflinger1 Received: 3 December 2018 /Accepted: 30 January 2019 /Published online: 23 February 2019 # The Author(s) 2019 Abstract In this study, three possibly smuggled marble statues of an unknown origin, two human torsi (a female and a male) and a small head, were subjected to molecular analyses. The aim was to reconstruct the history of the storage of each single statue, to infer the possible relationship among them, and to elucidate their geographical shift. A genetic strategy, comprising metagenomic analyses of the 16S ribosomal DNA (rDNA) of prokaryotes, 18S rDNA of eukaryotes, as well as internal transcribed spacer regions of fungi, was performed by using the Ion Torrent sequencing platform. Results suggest a possible common history of storage of the two human torsi; their eukaryotic microbiomes showed similarities comprising many soil-inhabiting organisms, which may indicate storage or burial in land of agricultural soil. For the male torso, it was possible to infer the geographical origin, due to the presence of DNA traces of Taiwania, a tree found only in Asia. The small head displayed differences concerning the eukaryotic community, compared with the other two samples, but showed intriguing similarities with the female torso concerning the bacterial community. Both displayed many halotolerant and halophilic bacteria, which may indicate a longer stay in arid and semi-arid surroundings as well as marine environments. -
Identi Cation and Con Rmation of Slit Defect- Causing Bacteria in Cheddar
Identication and conrmation of slit defect- causing bacteria in Cheddar cheese Maria Marco ( [email protected] ) University of California Davis https://orcid.org/0000-0002-3643-9766 Zhengyao Xue University of California Davis Jason Brooks University of California Davis Zachary Quart University of California Davis Eric Stevens University of California Davis Mary Kable "USDA-ARS Pacic West Area" Jessie Heidenreich Hilmar Cheese Jeremy Mcleod Hilmar Cheese Research Keywords: milk, cheese, microbiota, pasteurization, spoilage, thermoduric bacteria, lactic acid bacteria, Lactobacillus fermentum Posted Date: March 17th, 2020 DOI: https://doi.org/10.21203/rs.3.rs-17517/v1 License: This work is licensed under a Creative Commons Attribution 4.0 International License. Read Full License Page 1/27 Abstract Background: Spoilage microbes remain a signicant economic burden for the dairy industry. Validated approaches are needed to identify microbes present in low numbers in those foods and starting ingredients prior to spoilage. Therefore, we applied a combination of propidium monoazide treatment combined with 16S rRNA gene amplicon DNA sequencing for viable cell detection, qPCR for bacterial enumeration, and laboratory culture, isolate identication, and pilot-scale cheese production to identify the causative bacterial agents of slit defects in industrially-produced Cheddar cheese. Because spoilage cannot be predicted in advance, the bacterial composition in milk was measured immediately before and after High Temperature Short Time (HTST) pasteurization over time and on multiple days and in resulting cheese blocks. Results: Milk was sampled over 10 h periods on ten days immediately before and after the nal HTST pasteurization step prior to the initiation of cheese fermentations. -
Metagenomics and Metatranscriptomics of Lake Erie Ice
METAGENOMICS AND METATRANSCRIPTOMICS OF LAKE ERIE ICE Opeoluwa F. Iwaloye A Thesis Submitted to the Graduate College of Bowling Green State University in partial fulfillment of the requirements for the degree of MASTER OF SCIENCE August 2021 Committee: Scott Rogers, Advisor Paul Morris Vipaporn Phuntumart © 2021 Opeoluwa Iwaloye All Rights Reserved iii ABSTRACT Scott Rogers, Lake Erie is one of the five Laurentian Great Lakes, that includes three basins. The central basin is the largest, with a mean volume of 305 km2, covering an area of 16,138 km2. The ice used for this research was collected from the central basin in the winter of 2010. DNA and RNA were extracted from this ice. cDNA was synthesized from the extracted RNA, followed by the ligation of EcoRI (NotI) adapters onto the ends of the nucleic acids. These were subjected to fractionation, and the resulting nucleic acids were amplified by PCR with EcoRI (NotI) primers. The resulting amplified nucleic acids were subject to PCR amplification using 454 primers, and then were sequenced. The sequences were analyzed using BLAST, and taxonomic affiliations were determined. Information about the taxonomic affiliations, important metabolic capabilities, habitat, and special functions were compiled. With a watershed of 78,000 km2, Lake Erie is used for agricultural, forest, recreational, transportation, and industrial purposes. Among the five great lakes, it has the largest input from human activities, has a long history of eutrophication, and serves as a water source for millions of people. These anthropogenic activities have significant influences on the biological community. Multiple studies have found diverse microbial communities in Lake Erie water and sediments, including large numbers of species from the Verrucomicrobia, Proteobacteria, Bacteroidetes, and Cyanobacteria, as well as a diverse set of eukaryotic taxa. -
Multimetal Tolerance Mechanisms in Bacteria the Resistance Strategies
Aquatic Toxicology 212 (2019) 1–10 Contents lists available at ScienceDirect Aquatic Toxicology journal homepage: www.elsevier.com/locate/aqtox Multimetal tolerance mechanisms in bacteria: The resistance strategies acquired by bacteria that can be exploited to ‘clean-up’ heavy metal T contaminants from water ⁎ ⁎ Manisha Nandaa, , Vinod Kumarb, , D.K. Sharmac a Department of Biotechnology, Dolphin (PG) Institute of Biomedical and Natural Sciences, Dehradun, 248007, India b Department of Chemistry, Uttaranchal University, Dehradun, 248007, India c Department of Zoology and Biotechnology, H.N.B. Garhwal Central University, SRT Campus, Badshahi Thaul, Tehri, Uttarakhand, India ARTICLE INFO ABSTRACT Keywords: Heavy metal pollution is one of the major environmental concerns worldwide. Toxic heavy metals when un- Effluent treated get accumulated in environment and can pose severe threats to living organisms. It is well known that Heavy metal metals play a major role either directly or indirectly in different metabolic processes of bacteria. This allows Pollution bacterial cells to grow even in the presence of some toxic heavy metals. Microbial biotechnology has thus Bacteria emerged as an effective and eco friendly solution in recent years for bioremediation of heavy metals. Therefore, Mechanism this review is focused on summarising bacterial adaptation mechanisms for various heavy metals. It also shares some applications of have metal tolerant bacteria in bioremediation. Bacteria have evolved a number of pro- cesses for heavy metal tolerance viz., transportation across cell membrane, accumulation on cell wall, intra as well as extracellular entrapment, formation of complexes and redox reactions which form the basis of different bioremediation strategies. The genetic determinants for most of these resistances are located on plasmids however some may be chromosomal as well. -
Influence of Bacteria on the Permeation Characteristics of Concrete Made with Supplementary Cementing Materials
A-PDF Merger DEMO : Purchase from www.A-PDF.com to remove the watermark Influence of Bacteria on the Permeation Characteristics of Concrete made with Supplementary Cementing Materials A Thesis Submitted in fulfillment of the requirement for the award of the degree of DOCTOR OF PHILOSOPHY IN BIOTECHNOLOGY By Navneet Chahal (Roll No. 900800008) Department of Biotechnology and Environmental Sciences Thapar University, Patiala-147004 Punjab (India) 2012 Dedication This thesis is dedicated to my lovable son (Naaz), my husband Jastej Singh Sra and My parents whose endless efforts helped me to attain the Doctor of Philosophy. ii iii ACKNOWLEDGEMENT I sincerely thank my supervisor Dr. Rafat Siddique, for his encouragement, continuous and unconditional support in pursuance of this research work. In true words he guided me as a Guru and provided a limelight whenever I needed. His association helped me gain my lost confidence whenever I felt low. His words added a sparkle and enthusiasm which ended up in a positive spirit full of energy in conquering every hurdle may be professional or personal. I am also thankful to my second supervisor Dr. Anita Rajor who is very soft spoken and had guided me throughout the journey with her vast experience and understanding. The understanding not only included the one regarding the subject but also different problem a lady could face. She showed me the path to follow and also guided me for the paths which could be avoided in this journey. My special appreciation goes to my husband Mr. Jastej Singh Sra, whose love and care have brought me to this level. -
Understanding the Cross-Talk Between Microbiota, Host Fitness, and the Environment Using Egyptian Mongoose (Herpestes Ichneumon) As a Model
UNIVERSIDADE DE LISBOA FACULDADE DE CIÊNCIAS DEPARTAMENTO DE BIOLOGIA VEGETAL Understanding the cross-talk between microbiota, host fitness, and the environment using Egyptian mongoose (Herpestes ichneumon) as a model André da Conceição Pereira Mestrado em Microbiologia Aplicada Dissertação orientada por: Doutora Mónica Vieira Cunha 2017 ACKNOWLEDGEMENTS Este é, até hoje, um dos momentos mais importantes da minha vida. Esta dissertação simboliza a longa caminhada feita durante dois longos anos. Quero agradecer em primeiro lugar, e antes de mais nada, à minha orientadora Doutora Mónica Vieira Cunha pela grande oportunidade que me deu de integrar o grupo de investigação que lidera no cE3c-FCUL. Durante este longo ano, deu-me um voto de confiança e proporcionou-me todo o apoio material, financeiro e humano para conseguir realizar com sucesso a minha dissertação. Quero agradecer também o apoio financeiro do cE3c (Ref. UID/BIA/00329/2013; 2015-2017). Agradeço também ao Doutor Rogério Tenreiro, líder do laboratório de Microbiologia e Biotecnologia, por me ter acolhido no seu laboratório e disponibilizado o suporte necessário para a realização do meu trabalho. Ao Doutor Carlos Fonseca e Doutor Victor Bandeira, da Universidade de Aveiro, agradeço o material biológico fornecido e os respetivos dados bio-ecológicos. Agradeço, de igual forma, à Cláudia Ramalho, à Filipa Antunes Silva, à Doutora Lisete Fernandes e à Doutora Ana Tenreiro, por todos os conselhos profissionais dados durante este ano. Agradeço também todo o apoio pessoal e profissional a todos os colegas de laboratório, nomeadamente, Beatriz Ramos, Tiago Baeta, Ana Reis, Ana Soares, Marta Lourenço, Inês Santos, Ana Catarina Rocha, João Melo, Pedro Teixeira, Alexandra Lança e Mariana Nascimento. -
Chungangia Koreensis Gen. Nov., Sp. Nov., Isolated from Marine Sediment
International Journal of Systematic and Evolutionary Microbiology (2012), 62, 1914–1920 DOI 10.1099/ijs.0.028837-0 Chungangia koreensis gen. nov., sp. nov., isolated from marine sediment Wonyong Kim,1 Jitsopin Traiwan,1 Mi-Hak Park,1 Min Young Jung,1 Su-Jin Oh,1 Jung-Hoon Yoon2 and Ampaitip Sukhoom3 Correspondence 1Department of Microbiology, Chung-Ang University College of Medicine, 221 Heukseok-dong, Wonyong Kim Dongjak-ku, Seoul 156-756, Republic of Korea [email protected] 2School of Life Science and Biotechnology, Sungkyunkwan University, 300 Cheoncheon-dong, Jangan-gu, Suwon, Gyeonggi-do 440-746, Republic of Korea 3Department of Microbiology, Faculty of Science, Prince of Songkla University, Songkhla 90112, Thailand A Gram-staining-positive, strictly aerobic, non-spore-forming, rod-shaped bacterial strain, CAU 9163T, was isolated from marine sediment collected in the Republic of Korea and its taxonomic position was investigated using a polyphasic approach. The novel strain grew optimally at 30 6C and pH 8.0. In phylogenetic analysis based on 16S rRNA gene sequences, strain CAU 9163T formed a hitherto unknown lineage within the order Bacillales, which contains the genera Planomicrobium, Planococcus, Sporosarcina, Rummeliibacillus, Viridibacillus, Lysinibacillus and Bacillus. The levels of 16S rRNA gene sequence similarity between the novel strain and any established bacterial species were all ,95.7 %. The major isoprenoid quinines of strain CAU 9163T were MK-8 (65.2 %) and MK-7 (22.8 %) and the predominant fatty acid was anteiso- C15 : 0. The peptidoglycan was of the A4a type and based on L-Lys-D-Asp. The major whole-cell sugars were ribose and glucose. -
Diversity and Distribution of Prokaryotes Within a Shallow-Water Pockmark Field
ORIGINAL RESEARCH published: 17 June 2016 doi: 10.3389/fmicb.2016.00941 Diversity and Distribution of Prokaryotes within a Shallow-Water Pockmark Field Donato Giovannelli 1, 2, 3, 4*, Giuseppe d’Errico 1, 5, Federica Fiorentino 1, Daniele Fattorini 5, Francesco Regoli 5, Lorenzo Angeletti 6, Tatjana Bakran-Petricioli 7, Costantino Vetriani 2, 8, Mustafa Yücel 9, Marco Taviani 6, 10 and Elena Manini 1* 1 Institute of Marine Sciences, National Research Council, Ancona, Italy, 2 Institute of Earth, Ocean and Atmospheric Science, Rutgers, The State University of New Jersey, New Brunswick, NJ, USA, 3 Program in Interdisciplinary Studies, Institute of Advanced Studies, Princeton, NJ, USA, 4 Earth-Life Science Institute, Tokyo Institute of Technology, Tokyo, Japan, 5 Department for Life and Environmental Science, Polytechnic University of Marche, Ancona, Italy, 6 Institute of Marine Sciences, National Research Council, Bologna, Italy, 7 Department of Biology, Faculty of Science, University of Zagreb, Zagreb, Croatia, 8 Department of Biochemistry and Microbiology, Rutgers, The State University of New Jersey, New Brunswick, NJ, USA, 9 Institute of Marine Sciences, Middle East Technical University, Mersin, Turkey, 10 Department of Biology, Woods Hole Oceanographic Institution, Woods Hole, MA, USA Pockmarks are crater-like depression on the seafloor associated with hydrocarbon Edited by: ascent through muddy sediments in continental shelves around the world. In this Mark Alexander Lever, ETH Zürich, Switzerland study, we examine the diversity and distribution of benthic microbial communities at Reviewed by: shallow-water pockmarks adjacent to the Middle Adriatic Ridge. We integrate microbial Jens Kallmeyer, diversity data with characterization of local hydrocarbons concentrations and sediment Helmholtz Zentrum Potsdam-GFZ, Germany geochemistry. -
Chryseomicrobium Excrementi Sp. Nov., a Gram-Stain-Positive Rod-Shaped Bacterium Isolated from an Earthworm (Eisenia Fetida) Cast
TAXONOMIC DESCRIPTION Saha et al., Int J Syst Evol Microbiol 2018;68:2165–2171 DOI 10.1099/ijsem.0.002791 Chryseomicrobium excrementi sp. nov., a Gram-stain-positive rod-shaped bacterium isolated from an earthworm (Eisenia fetida) cast Tilak Saha,1,2 Biswanath Chakraborty,3 Sayak Das,4 Nagendra Thakur4 and Ranadhir Chakraborty1,* Abstract A Gram-stain-positive, rod-shaped, slightly halotolerant, nitrate-reducing bacterial strain, designated ET03T, was isolated from the cast of an earthworm (Eisenia fetida) reared at the Centre of Floriculture and Agribusiness Management, University of North Bengal at Siliguri, West Bengal, India. On the basis of 16S rRNA gene sequence phylogeny, the closest relative of strain ET03T was Chryseomicrobium palamuruense PU1T (99.1 % similarity). The DNA G+C content of strain ET03T was 42.9 mol%. Strain ET03T contained menaquinone-8 as the most predominant menaquinone and phosphatidylethanolamine, phosphatidylinositol, phosphatidylinositol mannoside and phosphatidylglycerol as the main polar lipids. The diagnostic diamino acid was meso-diaminopimelic acid. Major cellular fatty acids were iso-C15 : 0,C16 : 1!7c alcohol and iso-C16 : 0. Other biochemical and physiological analyses supported genotypic and phenotypic differentiation of the strain ET03T from its nearest taxonomic neighbours: Chryseomicrobium palamuruense, Chryseomicrobium amylolyticum, Chryseomicrobium imtechense, Chryseomicrobium aureum and Chryseomicrobium deserti. The draft genome of strain ET03T consisted of 2.64 Mb distributed in 14 scaffolds (N50 894072). A total of 2728 genes were predicted and, of those, 2664 were protein-coding genes including genes involved in the degradation of polychlorinated biphenyl and several aromatic compounds. The isolate, therefore, represents a novel species, for which the name Chryseomicrobium excrementi sp. -
Diversity and Activity of Bacteria in Basal Ice Environments Shawn Doyle Louisiana State University and Agricultural and Mechanical College, [email protected]
Louisiana State University LSU Digital Commons LSU Doctoral Dissertations Graduate School 2014 Diversity and Activity of Bacteria in Basal Ice Environments Shawn Doyle Louisiana State University and Agricultural and Mechanical College, [email protected] Follow this and additional works at: https://digitalcommons.lsu.edu/gradschool_dissertations Recommended Citation Doyle, Shawn, "Diversity and Activity of Bacteria in Basal Ice Environments" (2014). LSU Doctoral Dissertations. 713. https://digitalcommons.lsu.edu/gradschool_dissertations/713 This Dissertation is brought to you for free and open access by the Graduate School at LSU Digital Commons. It has been accepted for inclusion in LSU Doctoral Dissertations by an authorized graduate school editor of LSU Digital Commons. For more information, please [email protected]. DIVERSITY AND ACTIVITY OF BACTERIA IN BASAL ICE ENVIRONMENTS A Dissertation Submitted to the Graduate Faculty of the Louisiana State University and Agricultural and Mechanical College in partial fulfillment of the requirements for the degree of Doctor of Philosophy in The Department of Biological Sciences by Shawn Doyle B.S., Louisiana State University, 2008 May 2015 ACKNOWLEDGEMENTS I wish to thank first and foremost my advisor, Dr. Brent Christner, for his guidance, mentorship, and financial support over the last 7 years. I was fortunate to accompany Dr. Christner on two unforgettable field expeditions to Antarctica as both an undergraduate and graduate student. Dr. Christner also kindly went out of his way to collect additional basal ice samples from the Matanuska Glacier while in Alaska on another project. I will forever appreciate his sagely advice and patience during my graduate career wherein he emphasized the importance of critical thinking and skillful writing in science. -
The Prevalence and Control of Bacillus and Related Spore-Forming Bacteria in the Dairy Industry
REVIEW published: 21 December 2015 doi: 10.3389/fmicb.2015.01418 The Prevalence and Control of Bacillus and Related Spore-Forming Bacteria in the Dairy Industry Nidhi Gopal1,2 , Colin Hill2,3 ,PaulR.Ross4, Tom P. Beresford1, Mark A. Fenelon1 and Paul D. Cotter1,3* 1 Teagasc Food Research Centre, Cork, Ireland, 2 School of Microbiology, University College Cork, Cork, Ireland, 3 APC Microbiome Institute, Cork, Ireland, 4 College of Science, Engineering and Food Science, University College Cork, Cork, Ireland Milk produced in udder cells is sterile but due to its high nutrient content, it can be a good growth substrate for contaminating bacteria. The quality of milk is monitored via somatic cell counts and total bacterial counts, with prescribed regulatory limits to ensure quality and safety. Bacterial contaminants can cause disease, or spoilage of milk and its secondary products. Aerobic spore-forming bacteria, such as those from the genera Sporosarcina, Paenisporosarcina, Brevibacillus, Paenibacillus, Geobacillus and Bacillus, are a particular concern in this regard as they are able to survive industrial pasteurization and form biofilms within pipes and stainless steel equipment. These single or multiple-species biofilms become a reservoir of spoilage microorganisms and a cycle Edited by: Javier Carballo, of contamination can be initiated. Indeed, previous studies have highlighted that these University of Vigo, Spain microorganisms are highly prevalent in dead ends, corners, cracks, crevices, gaskets, Reviewed by: valves and the joints of stainless steel equipment used in the dairy manufacturing plants. George-John Nychas, Hence, adequate monitoring and control measures are essential to prevent spoilage and Agricultural University of Athens, Greece ensure consumer safety.