Redalyc.Characterization of Culturable Bacterial Flora in Yolk-Sac Larvae Of
Total Page:16
File Type:pdf, Size:1020Kb
Load more
Recommended publications
-
Urban Forestry & Urban Greening
Urban Forestry & Urban Greening 60 (2021) 127065 Contents lists available at ScienceDirect Urban Forestry & Urban Greening journal homepage: www.elsevier.com/locate/ufug Long-term storage affects resource availability and occurrence of bacterial taxa linked to pollutant degradation and human health in landscaping materials Laura Soininen a, Mira Gronroos¨ a, Marja I. Roslund a, Aki Sinkkonen b,* a Ecosystems and Environment Research Programme, Department of Biological and Environmental Sciences, University of Helsinki, Niemenkatu 73, FI-15140 Lahti, Finland b Natural Resources Institute Finland, Horticulture Technologies, Itainen¨ Pitkakatu¨ 4, Turku, Finland ARTICLE INFO ABSTRACT Handling Editor: Wendy Chen Man-made landscaping materials form uppermost soil layers in urban green parks and lawns. To optimize effects of landscaping materials on biodiversity, plant growth and human health, it is necessary to understand microbial Keywords: community dynamics and physicochemical characteristics of the landscaping materials during storage. In the Community shifts current three-year study, the consequences of long-term storage on biotic and abiotic characteristics of eight Degradation potential commercial landscaping materials were evaluated. We hypothesized that long-term storage results in changes in Diversity microbial utilization of various energy sources and the diversity and relative abundance of bacteria with path Health-associated bacteria Nutrient availability ogenic or immunomodulatory characteristics. Three-year storage led to remarkable changes in bacterial com Resource utilization munity composition. Diversity and richness of taxa associated with immune modulation, particularly phylum Proteobacteria and class Gammaproteobacteria, decreased over time. Bacteroidetes decreased while Actino bacteria increased in relative abundance. Functional orthologs associated with biosynthesis of antibiotics and degradation of complex carbon sources increased during storage. -
Microbial Communities Associated with Farmed Genypterus Chilensis: Detection in Water Prior to Bacterial Outbreaks Using Culturing and High-Throughput Sequencing
animals Article Microbial Communities Associated with Farmed Genypterus chilensis: Detection in Water Prior to Bacterial Outbreaks Using Culturing and High-Throughput Sequencing Arturo Levican 1,* , Jenny C. Fisher 2, Sandra L. McLellan 3 and Ruben Avendaño-Herrera 4,5,6,* 1 Tecnología Médica, Facultad de Ciencias, Pontificia Universidad Católica de Valparaíso, Avenida Universidad 330, Valparaíso 2373223, Chile 2 Biology Department, Indiana University Northwest, Gary, IN 46408, USA; fi[email protected] 3 School of Freshwater Sciences, University of Wisconsin-Milwaukee, Milwaukee, WI 53204, USA; [email protected] 4 Laboratorio de Patología de Organismos Acuáticos y Biotecnología Acuícola, Facultad de Ciencias de la Vida, Universidad Andrés Bello, Viña del Mar 2571015, Chile 5 Interdisciplinary Center for Aquaculture Research (INCAR), Concepción 4030000, Chile 6 Centro de Investigación Marina Quintay (CIMARQ), Universidad Andrés Bello, Casablanca 2480000, Chile * Correspondence: [email protected] or [email protected] (A.L.); [email protected] or [email protected] (R.A.-H.) Received: 5 May 2020; Accepted: 15 June 2020; Published: 18 June 2020 Simple Summary: Aquaculture can supplement traditional fisheries to meet the demands of growing populations and may help reduce the overfishing of natural resources. The Chilean Aquaculture Diversification Program has encouraged technological developments for rearing native species such as the red conger eel (Genypterus chilensis), but intensive aquaculture practices have led to bacterial outbreaks of Vibrio spp. and Tenacibaculum spp. in farmed fish. This retrospective study analyzed the natural bacterial community associated with the recirculating seawater used in an experimental G. chilensis aquaculture facility to determine if outbreak strains could be identified through regular monitoring. -
Taxonomic Hierarchy of the Phylum Proteobacteria and Korean Indigenous Novel Proteobacteria Species
Journal of Species Research 8(2):197-214, 2019 Taxonomic hierarchy of the phylum Proteobacteria and Korean indigenous novel Proteobacteria species Chi Nam Seong1,*, Mi Sun Kim1, Joo Won Kang1 and Hee-Moon Park2 1Department of Biology, College of Life Science and Natural Resources, Sunchon National University, Suncheon 57922, Republic of Korea 2Department of Microbiology & Molecular Biology, College of Bioscience and Biotechnology, Chungnam National University, Daejeon 34134, Republic of Korea *Correspondent: [email protected] The taxonomic hierarchy of the phylum Proteobacteria was assessed, after which the isolation and classification state of Proteobacteria species with valid names for Korean indigenous isolates were studied. The hierarchical taxonomic system of the phylum Proteobacteria began in 1809 when the genus Polyangium was first reported and has been generally adopted from 2001 based on the road map of Bergey’s Manual of Systematic Bacteriology. Until February 2018, the phylum Proteobacteria consisted of eight classes, 44 orders, 120 families, and more than 1,000 genera. Proteobacteria species isolated from various environments in Korea have been reported since 1999, and 644 species have been approved as of February 2018. In this study, all novel Proteobacteria species from Korean environments were affiliated with four classes, 25 orders, 65 families, and 261 genera. A total of 304 species belonged to the class Alphaproteobacteria, 257 species to the class Gammaproteobacteria, 82 species to the class Betaproteobacteria, and one species to the class Epsilonproteobacteria. The predominant orders were Rhodobacterales, Sphingomonadales, Burkholderiales, Lysobacterales and Alteromonadales. The most diverse and greatest number of novel Proteobacteria species were isolated from marine environments. Proteobacteria species were isolated from the whole territory of Korea, with especially large numbers from the regions of Chungnam/Daejeon, Gyeonggi/Seoul/Incheon, and Jeonnam/Gwangju. -
Abstract Tracing Hydrocarbon
ABSTRACT TRACING HYDROCARBON CONTAMINATION THROUGH HYPERALKALINE ENVIRONMENTS IN THE CALUMET REGION OF SOUTHEASTERN CHICAGO Kathryn Quesnell, MS Department of Geology and Environmental Geosciences Northern Illinois University, 2016 Melissa Lenczewski, Director The Calumet region of Southeastern Chicago was once known for industrialization, which left pollution as its legacy. Disposal of slag and other industrial wastes occurred in nearby wetlands in attempt to create areas suitable for future development. The waste creates an unpredictable, heterogeneous geology and a unique hyperalkaline environment. Upgradient to the field site is a former coking facility, where coke, creosote, and coal weather openly on the ground. Hydrocarbons weather into characteristic polycyclic aromatic hydrocarbons (PAHs), which can be used to create a fingerprint and correlate them to their original parent compound. This investigation identified PAHs present in the nearby surface and groundwaters through use of gas chromatography/mass spectrometry (GC/MS), as well as investigated the relationship between the alkaline environment and the organic contamination. PAH ratio analysis suggests that the organic contamination is not mobile in the groundwater, and instead originated from the air. 16S rDNA profiling suggests that some microbial communities are influenced more by pH, and some are influenced more by the hydrocarbon pollution. BIOLOG Ecoplates revealed that most communities have the ability to metabolize ring structures similar to the shape of PAHs. Analysis with bioinformatics using PICRUSt demonstrates that each community has microbes thought to be capable of hydrocarbon utilization. The field site, as well as nearby areas, are targets for habitat remediation and recreational development. In order for these remediation efforts to be successful, it is vital to understand the geochemistry, weathering, microbiology, and distribution of known contaminants. -
Characterization of Culturable Bacterial Flora in Yolk-Sac Larvae of Atlantic Halibut (Hippoglossus Hippoglossus L.) with “Gaping Jaws” Syndrome
Lat. Am. J. Aquat. Res., 42(1): 97-110, 2014 Bacterial flora and immune response in Atlantic halibut 97 DOI: 103856/vol42-issue1-fulltext-7 Research Article Characterization of culturable bacterial flora in yolk-sac larvae of Atlantic halibut (Hippoglossus hippoglossus L.) with “gaping jaws” syndrome Rocío Urtubia1, Pablo Gallardo2, Paris Lavin1, Nick Brown3 & Marcelo González1 1Laboratorio de Biorrecursos Antárticos, Departamento Científico, Instituto Antártico Chileno Plaza Muñoz Gamero 1055, Punta Arenas, Chile 2Centro de Cultivos Marinos Bahía Laredo, Facultad de Ciencias, Universidad de Magallanes Avda. Bulnes 01855, Punta Arenas, Chile 3Center for Cooperative Aquaculture Research, School of Marine Sciences, University of Maine 33 Salmon Farm Road Franklin, ME 05634-3144, USA ABSTRACT. One of the main problems facing Atlantic halibut hatcheries is the high mortality in the early stages of larval development. Several factors could be involved, for example: water quality, diseases or abnormalities, such as deformities occurring in the yolk sac larvae prior to exogenous feeding. The aim of this study was to identify differences in bacterial flora associated with yolk sac larvae with oral deformity. We also aimed to establish whether there is any relationship between bacterial strains and the “gaping jaws” syndrome. During our study, 74 bacterial isolates were obtained using three different nutrient media: Marine Agar, R2A and TCBS. Some of these bacteria were characterized using Polymerase Chain Reaction-Restriction Fragment Length Polymorphism (PCR-RFLP) and 16S rRNA sequencing. The immune response in larvae exhibiting the “gaping jaws” condition was measured by real time PCR. Our results showed significant differences in bacterial flora between normal and gaping larvae. -
UPI000BB50957 Cytochrome P450 [N993]
A0A3B7DGU2 Cytochrome P450 [N969] Aeromicrobium sp. A1-2 A0A0M4Q4Q0 Cytochrome P450 [N969] Pseudonocardia sp. AL041005-10 A0A1B9CYU5 Cytochrome [N969] Mycolicibacterium Q5K1Y4 Putative cytochrome P450 alkane hydroxylase 1 (Fragment)(*) [N969] Rhodococcus erythropolis Q3L9B0 Cytochrome P450(*) [N969] Rhodococcus erythropolis PR4 T5HZQ2 Cytochrome P450 [N969] Bacteria A0A3S0RU71 Cytochrome P450 [N969] Mycolicibacterium sp. A0A1N0PR97 Putative Linalool 8-monooxygenase [N969] Mycobacteroides abscessus subsp. abscessus UPI000769AD4C cytochrome P450 [N969] Mycolicibacterium mucogenicum L8DBR6 Putative cytochrome P450 [N969] Rhodococcus sp. AW25M09 A0A259YPM3 Cytochrome P450 [N969] Rhodococcus sp. 06-469-3-2 UPI00050C5643 cytochrome P450 [N969] Rhodococcus A0A3M0HP43 Cytochrome P450 [N969] unclassified Rhodococcus A0A260MNF5 Cytochrome P450 [N969] Rhodococcus sp. 05-2254-4 F6EL57 Cytochrome P450 [N969] Hoyosella subflava DQS3-9A1 UPI000674C20E cytochrome P450 [N969] Hoyosella subflava A0A365P441 Cytochrome P450 [N969] Dietzia maris A0A199ASP7 Cytochrome [N969] Bacteria A0A4R1E0Z8 Cytochrome P450 [N969] Dietzia A0A1E3RWE9 Cytochrome [N969] Dietzia alimentaria A0A022L8U2 Cytochrome P450 [N969] Bacteria A0A1X0C002 Cytochrome(*) [N969] Mycolicibacterium celeriflavum A0A172UJF1 Cytochrome(*) [N969] Mycobacteriaceae UPI000EB3B220 cytochrome P450 [N969] Nocardioides sp. SZ4R5S7 A0A4P7IMS7 Cytochrome P450 [N969] Nocardioides seonyuensis A0A1I0VFG7 Cytochrome P450 [N969] Nocardioides alpinus A0A1A9GMR6 Linalool 8-monooxygenase [N969] Nocardioides UPI0009FDD428 -
Contents Topic 1. Introduction to Microbiology. the Subject and Tasks
Contents Topic 1. Introduction to microbiology. The subject and tasks of microbiology. A short historical essay………………………………………………………………5 Topic 2. Systematics and nomenclature of microorganisms……………………. 10 Topic 3. General characteristics of prokaryotic cells. Gram’s method ………...45 Topic 4. Principles of health protection and safety rules in the microbiological laboratory. Design, equipment, and working regimen of a microbiological laboratory………………………………………………………………………….162 Topic 5. Physiology of bacteria, fungi, viruses, mycoplasmas, rickettsia……...185 TOPIC 1. INTRODUCTION TO MICROBIOLOGY. THE SUBJECT AND TASKS OF MICROBIOLOGY. A SHORT HISTORICAL ESSAY. Contents 1. Subject, tasks and achievements of modern microbiology. 2. The role of microorganisms in human life. 3. Differentiation of microbiology in the industry. 4. Communication of microbiology with other sciences. 5. Periods in the development of microbiology. 6. The contribution of domestic scientists in the development of microbiology. 7. The value of microbiology in the system of training veterinarians. 8. Methods of studying microorganisms. Microbiology is a science, which study most shallow living creatures - microorganisms. Before inventing of microscope humanity was in dark about their existence. But during the centuries people could make use of processes vital activity of microbes for its needs. They could prepare a koumiss, alcohol, wine, vinegar, bread, and other products. During many centuries the nature of fermentations remained incomprehensible. Microbiology learns morphology, physiology, genetics and microorganisms systematization, their ecology and the other life forms. Specific Classes of Microorganisms Algae Protozoa Fungi (yeasts and molds) Bacteria Rickettsiae Viruses Prions The Microorganisms are extraordinarily widely spread in nature. They literally ubiquitous forward us from birth to our death. Daily, hourly we eat up thousands and thousands of microbes together with air, water, food. -
Effects of Oenanthe Javanica on Nitrogen Removal in Free-Water
Article Effects of Oenanthe javanica on Nitrogen Removal in Free‐Water Surface Constructed Wetlands under Low‐Temperature Conditions Siyuan Song 1,2,†, Penghe Wang 1,3,†, Yongxia Liu 1, Dehua Zhao 1,2,*,∙Xin Leng 1,2 and Shuqing An 1,2 1 Institute of Wetland Ecology, School of Life Science, Nanjing University, Nanjing 210046, China; [email protected] (S.S.); [email protected] (P.W.); [email protected] (Y.L.); [email protected] (X.L.); [email protected] (S.A.) 2 Nanjing University Ecology Research Institute of Changshu (NJUecoRICH), Changshu 215500, China 3 Shanghai Investigation, Design & Research Institute Co., Ltd. (SIDRI), Shanghai 200434, China * Correspondence: [email protected] (D.Z.); [email protected] (X.L.); Tel.: +86‐25‐89681309 † Siyuan Song and Penghe Wang are co‐first authors. Received: 5 March 2019; Accepted: 8 April 2019; Published: 19 April 2019 Abstract: To investigate the role and microorganism‐related mechanisms of macrophytes and assess the feasibility of Oenanthe javanica (Blume) DC. in promoting nitrogen removal in free‐water surface constructed wetlands (FWS‐CWS) under low temperatures (<10 °C), pilot‐scale FWS‐CWS, planted with O. javanica, were set up and run for batch wastewater treatment in eastern China during winter. The presence of macrophytes observably improved the removal rates of ammonia nitrogen (65%– 71%) and total nitrogen (41%–48%) (p < 0.05), with a sharp increase in chemical oxygen demand concentrations (about 3–4 times). Compared to the unplanted systems, the planted systems not only exhibited higher richness and diversity of microorganisms, but also significantly higher abundances of bacteria, ammonia monooxygenase gene (amoA), nitrous oxide reductase gene (nosZ), dissimilatory cd1‐containing nitrite reductase gene (nirS), and dissimilatory copper‐containing nitrite reductase gene (nirK) in the substrate. -
Biodiversidad Bacteriana Marina: Nuevos Taxones Cultivables
Departamento de Microbiología y Ecología Colección Española de Cultivos Tipo Doctorado en Biotecnología Biodiversidad bacteriana marina: nuevos taxones cultivables Directores de Tesis David Ruiz Arahal Mª Jesús Pujalte Domarco Mª Carmen Macián Rovira Teresa Lucena Reyes Tesis Doctoral Valencia, 2012 Dr. David Ruiz Arahal , Profesor Titular del Departamento de Microbiología y Ecología de la Universidad de Valencia, Dra. María Jesús Pujalte Domarco , Catedrática del Departamento de Microbiología y Ecología de la Universidad de Valencia, y Dra. Mª Carmen Macián Rovira , Técnico Superior de Investigación de la Colección Española de Cultivos Tipo de la Universidad de Valencia, CERTIFICAN: Que Teresa Lucena Reyes, Licenciada en Ciencias Biológicas por la Universidad de Valencia, ha realizado bajo su dirección el trabajo titulado “Biodiversidad bacteriana marina: nuevos taxones cultivables”, que presenta para optar al grado de Doctor en Ciencias Biológicas por la Universidad de Valencia. Y para que conste, en el cumplimiento de la legislación vigente, firman el presente certificado en Valencia, a. David Ruiz Arahal Mª Jesús Pujalte Domarco Mª Carmen Macián Rovira Relación de publicaciones derivadas de la presente Tesis Doctoral Lucena T , Pascual J, Garay E, Arahal DR, Macián MC, Pujalte MJ (2010) . Haliea mediterranea sp. nov., a marine gammaproteobacterium. Int J Syst Evol Microbiol 60 , 1844-8. Lucena T, Pascual J, Giordano A, Gambacorta A, Garay E, Arahal DR, Macián MC, Pujalte MJ (2010) . Euzebyella saccharophila gen. nov., sp. nov., a marine bacterium of the family Flavobacteriaceae . Int J Syst Evol Microbiol 60 , 2871-6. Lucena T, Ruvira MA, Pascual J, Garay E, Macián MC, Arahal DR, Pujalte MJ (2011) . Photobacterium aphoticum sp. -
A Pilot Study of Lumpfish (Cyclopterus Lumpus )
A pilot study of lumpfish (Cyclopterus lumpus) skin health, reared with three different treatments in land-based facilities and commercial net-pens by Frida Sol Meland Svendsen Supervisor: prof. Karin Anna Pittman Thesis for the degree Master of Science in Aquaculture Biology Department of Biological Sciences UNIVERSITY OF BERGEN © Frida Sol Meland Svendsen University of Bergen, 2021 Acknowledgements This thesis was supported by different research projects whom I give my sincere thanks. The first project “Kan tare gi bedre fiskehelse for rognkjeks i oppdrett?” was funded by regional research funds (RFF) Agder county municipality through “Blått kompetansesenter sør” and was owned by Landbasert Akvakultur Norge AS. The seconds research project “Seaweed Symbiosis - bedret velferd og overlevelse for rognkjeks ved bruk av naturlige tareskjul” (project number 317935) was funded by RFF Vestland, and the project owner was Engesund oppdrett AS. First of all, I would like to express my deepest gratitude to my supervisor Karin Pittman. Without her guidance, encouragement and overall enthusiastic being, the process of working with this thesis would not be the same. Her constant positivity and curiosity have lifted my spirit more times than I can count, and I am ever so grateful for the wave of wisdom sha has shared with me. Secondly, I would like to thank Mearge Okubamichael and Grigory Merkin at the Quantidoc lab, for the hospitality and help they have shown me with the mucosal analysis and statistics. I would also like to thank Bettina Wickman Kvamme for the engaging conversations and nice company during our sampling trips to Austevoll. Further I would like to give a huge thanks to the “masters in mucous” group, for the interesting discussions we have had and the small sense of sanity our weekly meetings through a year much stripped off human interactions and routine, have given me (#Covid19). -
WO 2015/100432 A2 2 July 2015 (02.07.2015) P O P CT
(12) INTERNATIONAL APPLICATION PUBLISHED UNDER THE PATENT COOPERATION TREATY (PCT) (19) World Intellectual Property Organization International Bureau (10) International Publication Number (43) International Publication Date WO 2015/100432 A2 2 July 2015 (02.07.2015) P O P CT (51) International Patent Classification: Gerardo, V.; C/o Symbiota, Inc., 1 Memorial Drive, 7th A 63/02 (2006.01) Floor, Cambridge, MA 0242 1 (US). DJONOVIC, Slavica; C/o Symbiota, Inc., 1 Memorial Drive, 7th Floor, Cam (21) International Application Number: bridge, MA 02421 (US). MARQUEZ, Luis, Miguel; C/o PCT/US20 14/072400 Symbiota, Inc., 1 Memorial Drive, 7th Floor, Cambridge, (22) International Filing Date: MA 02421 (US). JOHNSTON, David, Morris; C/o Sym 24 December 2014 (24. 12.2014) biota, Inc., 1 Memorial Drive, 7th Floor, Cambridge, MA 02421 (US). MILLET, Yves, Alain; C/o Symbiota, Inc., 1 (25) Filing Language: English Memorial Drive, 7th Floor, Cambridge, MA 02421 (US). (26) Publication Language: English LYFORD, Jeffrey; C/o Symbiota, Inc., 1 Memorial Drive, 7th Floor, Cambridge, MA 02421 (US). LEFF, Jonathan, (30) Priority Data: W.; C/o Symbiota, Inc., 1 Memorial Drive, 7th Floor, 61/920,560 24 December 201 3 (24. 12.2013) US Cambrdige, MA 02421 (US). SAMAYOA, Philip; C/o 62/017,816 26 June 2014 (26.06.2014) US Symbiota, Inc., 1 Memorial Drive, 7th Floor, Cambridge, 62/017,809 26 June 2014 (26.06.2014) us MA 02421 (US). SADOWSKI, Craig; C/o Symbiota, Inc., PCT/US20 14/044427 26 June 2014 (26.06.2014) us 1 Memorial Drive, 7th Floor, Cambridge, MA 02421 (US). -
Atık Su Arıtma Sistemlerinde Mikrobiyal Kommunite
ATIK SU ARITMA SİSTEMLERİNDE MİKROBİYAL KOMMUNİTE ANALİZİ VE BİYODEGRADASYON POTANSİYELLERİNİN TESPİTİ Doktora Tezi Nilgün POYRAZ Eskişehir, 2018 ATIK SU ARITMA SİSTEMLERİNDE MİKROBİYAL KOMMUNİTE ANALİZİ VE BİYODEGRADASYON POTANSİYELLERİNİN TESPİTİ Nilgün POYRAZ DOKTORA TEZİ Biyoloji Anabilim Dalı Danışman: Doç. Dr. Mehmet Burçin MUTLU Eskişehir Anadolu Üniversitesi Fen Bilimleri Enstitüsü Nisan, 2018 Bu tez çalışması BAP Komisyonunca kabul edilen 1504F169 no.lu proje kapsamında desteklenmiştir JÜRİ VE ENSTİTÜ ONAYI Nilgün POYRAZ’ın “Atık Su Arıtma Sistemlerinde Mikrobiyal Kommunite Analizi ve Biyodegradasyon Potansiyellerinin Tespiti” başlıklı tezi .../.../2018 tarihinde aşağıdaki jüri tarafından değerlendirilerek “Anadolu Üniversitesi Lisansüstü Eğitim- Öğretim ve Sınav Yönetmeliği”nin ilgili maddeleri uyarınca, Biyoloji Anabilim dalında Doktora tezi olarak kabul edilmiştir. Unvanı Adı Soyadı İmza Üye (Tez Danışmanı) : ......................................................... ....................... Üye : ......................................................... ....................... Üye : ......................................................... ....................... Üye : ......................................................... ....................... Üye : ......................................................... ....................... ..................................... Enstitü Müdürü ÖZET ATIK SU ARITMA SİSTEMLERİNDE MİKROBİYAL KOMMUNİTE ANALİZİ VE BİYODEGRADASYON POTANSİYELLERİNİN TESPİTİ Nilgün POYRAZ Biyoloji Anabilim