Master Mikrobiologi
Master studieretning mikrobiologi Bakterie r Virus Evolusjon Forskningsgrupper: 1. Marin Mikrobiologi 2. Generell Mikrobiologi 3. Senter for Geobiologi Mikrobiologi Alger Økologi Ekstremofile Modellerin g . 1. Marin Mikrobiologi Forstå hvordan den mikrobielle sløyfen i det marine næringsnettet fungerer -Hvem er de (Virus, Prokaryote, encellede alger (protister)) ? -Hva gjør de? -Hvordan er sammspillet mellom dem? -Hvordan responderer de mht miljøforandringer? MICROPOLAR THE ARCTIC FOOD CHAIN ..and the central role of the microbes Primary production to harvestable resources Export to the ocean’s interior Nutrient (DIN, DIP), carbon (CO2, DOC) chemistry Activities • Field campaigns – “Annual cycle” (pelagic) NW Svalbard, different water masses (2015) – SIMCO north of Spitzbergen (2016) (+ samples from N-ICE 2015, NPI) – Young Sound, Greenland (2015) • Field experiments – Mesocosms – June 2015 – Grazing exps (during field campaigns and YS) • Workshops and data analyses Structure, function and diversity protist-, prokaryotic-, viral communities (molecular) • Protists: – – – • Prokaryotes: – – • Filter various size classes - for diversity & taxonomic info - pyrosequencing rRNA gene tags (SSU & LSU rDNA) Metagenomic data from fcm-sorted populations mRNA to compare gene expression of enzymes involved in the production and consumption of DOC and CO2 Filter and extract DNA (history) and RNA (snapshop active community) simultaneously from same sample Sequencing DNA of a 287 bp-long region within 16S rDNA (V4-5; 519F- 806R) (Illumina MiSeq) Virus: – – – Concentrate viral fraction - Illumina MiSeq sequencing Tag sequencing: ssRNA virus (dino- and diatom-virus?), MCP (phytovirus), PhoH (phages) Metagenomic sequencing (some samples only) Mesokosmeforsøk • Stimulerer virkelige miljøer, men hvor miljøfaktorer kan manipuleres Eksempler på nylig gjenomførte masteroppgaver Diversity of Artic marine viruses in a depth profile (Emily Olesin, pågående) Metagenomics Phylogeny and functional studies of Thalassiosira sp. isolated from Kongsfjorden, Svalbard (Trine Strand Jensen, 2012) Coccolithophorides around Svalbard identified from Scanning Electron Microscope (SEM)(Sesilie Færøvik Tverberg, pågående) Marine microbial community in arctic summer north of Svalbard By RNA and DNA community analyses Enrichment of Bacteria from Lake Sælenvannet Eva Lena Nordmann, Erasmus student (2014) Characterization of microbial communities in moderate to severe acid mine drainage sites associated to arctic coal mining in Svalbard (Andreas Austnes, 2012) Theme - - - Supervisor Email Temperature effects on viruses and bacterial production (Arctic relevance). Biological calcite production in the ocean (Climate relevance). Prof. Gunnar Bratbak Gunnar.bratbak@bio.uib.no Phytoplankton Prof. Jorun Egge Jorun.egge@bio.uib.no 1.aman Svein Rune Erga - Light and vertical migration of microalgae Svein.erga@bio.uib.no Ruth.sandaa@bio.uib.no - Viruses and interaction with their hosts (Prokaryotes and Eukaryotes) Prof. Ruth-Anne Sandaa Prof. Frede Thingstad - Ecological theory, nutrient cycles Frede.thingstad@bio.uib.no - Microbial life in meromictic lake Sælenvannet Characterisation of Permafrost in arctic soils Prokaryotic diversity in Polar water and sea Ice Climate change and the effect of melting sea ice and thawing permafrost on its indigenous microorganisms. Prof. Lise Øvreås Lise.ovreas@bio.uib.no Researcher Aud Larse (UniEnvironment/BIO) - Protist interactions (Arctic relevance) Aud.Larsen@bio.uib.no Nye masteroppgaver i Marin Mikrobiologi: http://www.uib.no/en/rg/mm/55646/masterprojects 2. Generell mikobiologi (http://www.uib.no/en/rg/gm) Arbeidsområder • • • • • • • • Mikrobiell diversitet i ekstreme miljø Molekylær mikrobiologi Termofile Archaea og anaerobe bakterier Metanoksyderende bakterier Varmeadapterte enzymer og bioteknologi Geomikrobiologi og oljerelaterte bakterier Syntetisk biologi Enteropatogene bakterier Group leader: Nils-Kåre Birkeland Avdelingsingeniør Birte Töpper Treponema thermophilum - en nyisolert termofil spirochaet Eksempler på nylig gjennomførte masteroppgaver: Analyses of Thermotogales secretomes (Trude With, høst 2014) The Hfq RNA chaperone in the deep-branching Thermotogales lineage: Attempts to reveal its biological role (Oda Barth Vedøy, høst 2014) Phylogeny and diversity of new isolates of aerobic thermoacidophilic methane oxidizing Verrucomicrobia (Natalie Bennett Smestad, høst 2014) Cultivation and genomics of extremophiles from a deep and hot North Sea oil reservoir (Anne Marie Lerang, høst 2014) Prokaryotic diversity in an Armenian geothermal spring using metagenomics, anaerobic cultivation and genome sequencing (Lianna Poghosyan, vår 2015) Acidobacteria Bacteroidetes Chloroflexi Elusimicrobia Firmicutes Fusobacteria Ignavibacteriae Planctomycetes Proteobacteria Spirochaetes Synergistetes Verrucomicrobia Uncultured Candidate division WS6 Actinobacteria Her kan dere finne forslag til Masteroppgaver i generell mikrobiologi: http://www.uib.no/en/rg/gm/56030/msc-thesis-projects 3. Senter for Geobiologi Senter for geobiologi er (CGB) samarbeid mellom Institutt for geovitenskap og Institutt for biologi. • ny kunnskap omkring vulkanske og hydrotermale prosesser i dyphavet, • liv i ekstreme miljøer, • jordens tidlige utvikling og livets opprinnelse. Emner –Studieretning Mikrobiologi Obligatoriske kurs Høst • BIO300: Biological Data Analysis and Research Design (Master course) • BIO217: Microbial ecology (Focus on Marine microbial ecology, lab experiment with mesocosm) • BIO 215: Microbiology: General Microbiology Spring • BIO 218: Experimental Microbiology (genetics and physiology) Valgfrie kurs: Avhengig av valg av oppgave og kan diskuteres med potensielle veiledere Eks: • BIO315: Selected Topics within Microbiology (5 st - irregular) Content may change depending on students and teachers: Discussion of important papers in microbial ecology. Exam : presenting the papers with discussion • • • • • • • • Molecular biology Bioinformatics Marine diversity (algal diversity) Virology Geobiology Geophysics Mathematics Marin økologi
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